Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 51 of 438
Found at i:12966352 original size:20 final size:19
Alignment explanation
Indices: 12966312--12966365 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
12966302 ACATATAAAA
* *
12966312 ATATAATGAAATAAAT-A-
1 ATATAATAAAATATATAAC
12966329 ATATAATAAAGATATATAAC
1 ATATAATAAA-ATATATAAC
12966349 ATATAATAAAATATATA
1 ATATAATAAAATATATA
12966366 TATATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.28
18 5 0.16
19 8 0.25
20 10 0.31
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:12973137 original size:30 final size:31
Alignment explanation
Indices: 12973103--12973181 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
12973093 AAATGATAAA
*
12973103 ATAAATAAAATA-ATAAAATTTATT-AAATTT
1 ATAAA-AAAATATATAAAATTTATTAAAAATT
* *
12973133 ATAAAAATATATTTAAAATTTATTAAAAATT
1 ATAAAAAAATATATAAAATTTATTAAAAATT
*
12973164 ATAAAAATATATA-AAAAT
1 ATAAAAAAATATATAAAAT
12973182 AGTAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.12
30 21 0.49
31 17 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
ATAAAAAAATATATAAAATTTATTAAAAATT
Found at i:12973140 original size:10 final size:10
Alignment explanation
Indices: 12973117--12973181 Score: 62
Period size: 10 Copynumber: 6.5 Consensus size: 10
12973107 ATAAAATAAT
12973117 AAAATTTAT-
1 AAAATTTATA
*
12973126 TAAATTTATA
1 AAAATTTATA
* *
12973136 AAAATATATTT
1 AAAATTTA-TA
12973147 AAAATTTATTA
1 AAAATTTA-TA
12973158 AAAA-TTATA
1 AAAATTTATA
*
12973167 AAAATATATA
1 AAAATTTATA
12973177 AAAAT
1 AAAAT
12973182 AGTAAAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
9 14 0.30
10 18 0.39
11 14 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTTATA
Found at i:12973169 original size:31 final size:30
Alignment explanation
Indices: 12973116--12973175 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
12973106 AATAAAATAA
*
12973116 TAAAATTTATTAAATTTATAAAAATATATT
1 TAAAATTTATTAAAATTATAAAAATATATT
12973146 TAAAATTTATTAAAAATTATAAAAATATAT
1 TAAAATTTATT-AAAATTATAAAAATATAT
12973176 AAAAATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAAATTTATTAAAATTATAAAAATATATT
Found at i:12973170 original size:9 final size:9
Alignment explanation
Indices: 12973109--12973181 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
12973099 TAAAATAAAT
*
12973109 AAAATAATA
1 AAAATTATA
* *
12973118 AAATTTATT
1 AAAATTATA
*
12973127 AAATTTATA
1 AAAATTATA
12973136 AAAATATATTTA
1 AAAAT-TA--TA
*
12973148 AAATTTATTA
1 AAAATTA-TA
12973158 AAAATTATA
1 AAAATTATA
12973167 AAAATATATA
1 AAAAT-TATA
12973177 AAAAT
1 AAAAT
12973182 AGTAAAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
9 25 0.47
10 20 0.38
11 2 0.04
12 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATTATA
Found at i:12973192 original size:31 final size:31
Alignment explanation
Indices: 12973131--12973240 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 31
12973121 TTTATTAAAT
* * **
12973131 TTATAAAAATATATTTAAAAT-TTATTAAAAA
1 TTATAAAAATATA-TAAAAATAGTAAAAAAAA
12973162 TTATAAAAATATATAAAAATAGTAAAAAAAA
1 TTATAAAAATATATAAAAATAGTAAAAAAAA
** *
12973193 -CGT-AAAATGTATAGAAATATAG-AAAAAAAA
1 TTATAAAAATATATA-AAA-ATAGTAAAAAAAA
* *
12973223 TTATAAAATTTTATAAAA
1 TTATAAAAATATATAAAA
12973241 TTATAAGAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
29 9 0.14
30 18 0.29
31 28 0.44
32 8 0.13
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.32
Consensus pattern (31 bp):
TTATAAAAATATATAAAAATAGTAAAAAAAA
Found at i:12984772 original size:21 final size:20
Alignment explanation
Indices: 12984731--12984775 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12984721 TTAGAAATCC
*
12984731 TAAAAAATTATATTATATTA
1 TAAAAAATTATATCATATTA
* *
12984751 TAAAAAATTATGTACATTTTA
1 TAAAAAATTATAT-CATATTA
12984772 TAAA
1 TAAA
12984776 GTTATAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TAAAAAATTATATCATATTA
Found at i:12987305 original size:43 final size:43
Alignment explanation
Indices: 12987227--12987322 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
12987217 AGCCTCAAGC
* *
12987227 CTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
* * *
12987270 CTTATCTTTCTGAGGTAGCAAGAAAG-TAGACTGAAGATTAAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAG-CTGAAGATT-GAG-T
12987315 CTTATCTC
1 CTTATCTC
12987323 CCTAAGCAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 2 0.05
43 32 0.73
44 2 0.05
45 8 0.18
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
Found at i:12987503 original size:176 final size:174
Alignment explanation
Indices: 12987171--12987579 Score: 529
Period size: 176 Copynumber: 2.3 Consensus size: 174
12987161 TTGAAGATTG
* * * *
12987171 GAAGA-GGCAAATCTTATCTCTATGTATCGACAATGGAGCAGATTTAAGCCTCAAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTC
* * *
12987235 TCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGTAGA
66 TCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGA
12987300 CTGAAGATTAAAGATCTTATCTCCCTAAGCAG-TAGCGGAACAGATC
131 CTGAAGATTAAAGATCTTATCTCCCTAAGCAGTTA-CGGAAC--ATC
* * * * *
12987346 GAAGATGGCGAGTCTTATCTCCATGTATCGGTAATGGAACAGATTTTAGCCACTAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTC
* * *
12987411 TCTGAGGTAGCAAGAGAGTAGGTTGGCA-ATTGTAGTCTTATCTTCCTAAGGTAGCAAGAAAGCA
66 TCTGAGGTAGCAAGAGAGCAAGTT-GAAGATTG-AGTCTTATCTTCCTAAGGTAGCAAGAAAGCA
* * * * *
12987475 GACTGAAGATTGAAGAT-TTATTTCCCTAAGTAGTTATGGAGCATC
129 GACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTTACGGAACATC
* * *
12987520 GAGGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGTCACCAAGCCT
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA-CAAGCCT
12987580 ATTTCCCTAA
Statistics
Matches: 201, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
174 48 0.24
175 11 0.05
176 94 0.47
177 48 0.24
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (174 bp):
GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTC
TCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGA
CTGAAGATTAAAGATCTTATCTCCCTAAGCAGTTACGGAACATC
Found at i:12994945 original size:32 final size:32
Alignment explanation
Indices: 12994908--12994972 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
12994898 AATGCTTATC
12994908 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
12994940 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
12994972 A
1 A
12994973 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:12994992 original size:32 final size:31
Alignment explanation
Indices: 12994912--12994993 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 31
12994902 CTTATCATGC
* *
12994912 CCATCATCCATTAACTATTAAAATGCTAATG
1 CCATCATTCATCAACTATTAAAATGCTAATG
*
12994943 CCCATCATTCATTAACTATTAAAATGCTAAAATG
1 -CCATCATTCATCAACTATTAAAATGCT--AATG
12994977 -CATACATT-ATCAACTAT
1 CCAT-CATTCATCAACTAT
12994994 CCATCACCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 37 0.82
33 4 0.09
34 4 0.09
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (31 bp):
CCATCATTCATCAACTATTAAAATGCTAATG
Found at i:12995503 original size:31 final size:33
Alignment explanation
Indices: 12995428--12995503 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
12995418 TTATTTTATA
*
12995428 CATATATATATTTTTTATTTTTTAAATCTACTTG
1 CATATATA-ATTATTTATTTTTTAAATCTACTTG
* **
12995462 TATACGTAATTATTT-TTTTTTAAATCTA-TTG
1 CATATATAATTATTTATTTTTTAAATCTACTTG
12995493 CATATATAATT
1 CATATATAATT
12995504 TATGATAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
31 11 0.31
32 13 0.37
33 6 0.17
34 5 0.14
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (33 bp):
CATATATAATTATTTATTTTTTAAATCTACTTG
Found at i:12996265 original size:2 final size:2
Alignment explanation
Indices: 12996258--12996289 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
12996248 CGTGTCAACT
12996258 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12996290 GATCATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13001182 original size:13 final size:13
Alignment explanation
Indices: 13001164--13001189 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13001154 GAGATCGAAG
13001164 TAAAAAATAAAAA
1 TAAAAAATAAAAA
13001177 TAAAAAATAAAAA
1 TAAAAAATAAAAA
13001190 AAAGAGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:13002398 original size:64 final size:64
Alignment explanation
Indices: 13002292--13002428 Score: 211
Period size: 64 Copynumber: 2.1 Consensus size: 64
13002282 TGCATTCATT
* * * *
13002292 CATATGCATCACATCTAGTTAGGTGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGA
1 CATAAGCATCACATCTAGTTAGGAGCATTTAATTCATTTTGATCATAACATCCTAATTATTTGA
* *
13002356 CATAAGCATCACATCTAGTTAGGAGTATTTAATTCATTTTGATCATAACATCCTAATTATTTGG
1 CATAAGCATCACATCTAGTTAGGAGCATTTAATTCATTTTGATCATAACATCCTAATTATTTGA
*
13002420 CACAAGCAT
1 CATAAGCAT
13002429 GATACATGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (64 bp):
CATAAGCATCACATCTAGTTAGGAGCATTTAATTCATTTTGATCATAACATCCTAATTATTTGA
Found at i:13002688 original size:44 final size:45
Alignment explanation
Indices: 13002609--13002803 Score: 130
Period size: 45 Copynumber: 4.2 Consensus size: 45
13002599 CATAACAAAC
* * ** **
13002609 CTTATCTCCCTAAAGTTGCAGGGGAGCAGGTTGAAG-T-GACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGA-AAAT
*
13002653 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAAT
* * * *
13002698 CTTATTTCCCTGAAGTTGCAGTAGAACAGA-TGAAAGCTATAAATAAAAAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AAG------ATAGAAA-AT
* **
13002750 CTTATCTCTCC-GAAGTTGCAGTGGAGCAGA-TCGAAGATGGTGAAT
1 CTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGAAAAT
13002795 CTTATCTCC
1 CTTATCTCC
13002804 ATGTATCGGC
Statistics
Matches: 120, Mismatches: 19, Indels: 24
0.74 0.12 0.15
Matches are distributed among these distances:
44 34 0.28
45 42 0.35
46 5 0.04
51 6 0.05
52 30 0.25
53 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAAT
Found at i:13003330 original size:146 final size:145
Alignment explanation
Indices: 13003107--13003386 Score: 415
Period size: 146 Copynumber: 1.9 Consensus size: 145
13003097 GAAGATGGTG
*
13003107 AATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTATAACCAGCCTTATCTCTCTGAGGTTAC
1 AATCTTATCTCCATGTATCGACAATAGAGCAGATTTTATAACCAGCCTTATCTCTCTGAGGTTAC
* *
13003172 AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTAG-GGTAGCAAGAAAGCAGATTGAAGATTA
66 AAGAGAGCAGGTTAAAGAATGAGTCTTATCTTTCT-GTGGTAGCAAGAAAGCAGACTGAAGATTA
13003236 AAGATTGGAAGAGGCA
130 AAGATTGGAAGAGGCA
* *
13003252 AATCTTATCTCTATGTATCGACAATGGAGCAGA-TTTA-AACCTCAAGCCTTATCTCTCTGAGG-
1 AATCTTATCTCCATGTATCGACAATAGAGCAGATTTTATAA-C-C-AGCCTTATCTCTCTGAGGT
* *
13003314 TAGCAAGAGAGGAGGTTAAAGATTGAGTCTTATCTTTCTGTGGTAGCAAGAAAGCAGACTGAAGA
63 TA-CAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTTCTGTGGTAGCAAGAAAGCAGACTGAAGA
*
13003379 TTGAAGAT
127 TTAAAGAT
13003387 CTTATCTCCC
Statistics
Matches: 122, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
143 2 0.02
144 5 0.04
145 34 0.28
146 81 0.66
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (145 bp):
AATCTTATCTCCATGTATCGACAATAGAGCAGATTTTATAACCAGCCTTATCTCTCTGAGGTTAC
AAGAGAGCAGGTTAAAGAATGAGTCTTATCTTTCTGTGGTAGCAAGAAAGCAGACTGAAGATTAA
AGATTGGAAGAGGCA
Found at i:13003379 original size:43 final size:45
Alignment explanation
Indices: 13003299--13003394 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 45
13003289 AACCTCAAGC
* * **
13003299 CTTATCTCTCTGAGGTAGCAAGAGAGGAGGTTAAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
* * *
13003342 CTTATCTTTCTGTGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
13003387 CTTATCTC
1 CTTATCTC
13003395 CCTAAGCAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 33 0.77
44 2 0.05
45 8 0.19
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTAAAGATTGAAGAT
Found at i:13003575 original size:176 final size:176
Alignment explanation
Indices: 13003254--13003576 Score: 488
Period size: 176 Copynumber: 1.8 Consensus size: 176
13003244 AAGAGGCAAA
* * *
13003254 TCTTATCTCTATGTATCGACAATGGAGCAGATTTAAACCTCAAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGACAATGGAACAGATTTAAACCACAAGCCTTATCTCTCTGAGGTAGCA
* * *
13003319 AGAGAGGAGGTTAAAGATTGAGTCTTATCTTTCTGTGGTAGCAAGAAAGCAGACTGAAGATTGAA
66 AGAGAGCAGGTTAAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAA
13003384 GATCTTATCTCCCTAAGCAGTAGCAGAACAGAACGAAGATGGCGAG
131 GATCTTATCTCCCTAAGCAGTAGCAGAACAGAACGAAGATGGCGAG
** * * *
13003430 TCTTATCTCCATGTATCGGTAATGGAACAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGACAATGGAACAGATTTAAACCACAAGCCTTATCTCTCTGAGGTAGCA
**
13003495 AGAGAGCAGGTTGGCA-ATTGTAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTG
66 AGAGAGCAGGTT-AAAGATTG-AGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTG
*
13003559 AAGAT-TTATTTCCCTAAG
129 AAGATCTTATCTCCCTAAG
13003577 TAGTTGTGGA
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
176 84 0.64
177 47 0.36
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (176 bp):
TCTTATCTCCATGTATCGACAATGGAACAGATTTAAACCACAAGCCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTTAAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAA
GATCTTATCTCCCTAAGCAGTAGCAGAACAGAACGAAGATGGCGAG
Found at i:13005427 original size:31 final size:32
Alignment explanation
Indices: 13005368--13005427 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
13005358 ATTTTTTTTA
* *
13005368 TTTTTTTAAATCTACTTGTATACGTAATTATT
1 TTTTTTTAAATCTACTTGCATACATAATTATT
*
13005400 TTTTTTTAAATCTA-TTGCATATATAATT
1 TTTTTTTAAATCTACTTGCATACATAATT
13005428 TATGATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (32 bp):
TTTTTTTAAATCTACTTGCATACATAATTATT
Found at i:13006188 original size:2 final size:2
Alignment explanation
Indices: 13006181--13006218 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13006171 CGTGTCAACT
13006181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13006219 GATCATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13007203 original size:64 final size:64
Alignment explanation
Indices: 13007102--13007238 Score: 238
Period size: 64 Copynumber: 2.1 Consensus size: 64
13007092 TGCATTCATT
* * *
13007102 CATAAGCATCACATCTGGTTAGGTGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGA
1 CATAAGCATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGA
*
13007166 CATAAGCATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGG
1 CATAAGCATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGA
13007230 CATAAGCAT
1 CATAAGCAT
13007239 GATACATTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (64 bp):
CATAAGCATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGA
Found at i:13007498 original size:44 final size:42
Alignment explanation
Indices: 13007419--13007541 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 42
13007409 CATAACAAAC
* * * *
13007419 CTTATCTCCCTGAAGTTGTAGGGGAGCAGGTTGAAGTGATAG-GT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAA--GATAGAAT
*
13007463 CTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATAG--AAT
* *
13007508 CTTATTTCCCTGAAGTTGCAGTGGAACAGATGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAA
13007542 AGCTATAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 5 0.07
43 1 0.01
44 33 0.49
45 28 0.42
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (42 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGATAGAAT
Found at i:13007584 original size:52 final size:52
Alignment explanation
Indices: 13007506--13007642 Score: 238
Period size: 52 Copynumber: 2.6 Consensus size: 52
13007496 AAGATAGCAA
* *
13007506 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATGAAAGCTATAAATAAACAG
1 ATCTTATCTCCCCGAAGTTGCAGTGGAACAGATGAAAGCTATAAATAAACAG
*
13007558 ATCTTATCTCCCCGAAGTTGTAGTGGAACAGATGAAAGCTATAAATAAACAG
1 ATCTTATCTCCCCGAAGTTGCAGTGGAACAGATGAAAGCTATAAATAAACAG
*
13007610 ATCTTATCTCCCCGAAGTTGCAGTGGAGCAGAT
1 ATCTTATCTCCCCGAAGTTGCAGTGGAACAGAT
13007643 CGAAGATGGT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (52 bp):
ATCTTATCTCCCCGAAGTTGCAGTGGAACAGATGAAAGCTATAAATAAACAG
Found at i:13009613 original size:8 final size:8
Alignment explanation
Indices: 13009600--13009629 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13009590 ACAAATGCCA
13009600 GCTTTTCG
1 GCTTTTCG
13009608 GCTTTTCG
1 GCTTTTCG
13009616 GCTTTTCG
1 GCTTTTCG
13009624 GCTTTT
1 GCTTTT
13009630 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.23, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:13013749 original size:60 final size:59
Alignment explanation
Indices: 13013629--13013765 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
13013619 CAAAGTTAAC
* * *
13013629 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAATATAT
* * *
13013690 TGGGCCTAGCCCATATCAGTATCAATTTGGGCCGTAGCCCTATTACA-AGTC-GAAATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAG-AATATAT
*
13013750 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
13013766 TGACACAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 2 0.03
60 53 0.80
61 11 0.17
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAATATAT
Found at i:13014426 original size:8 final size:8
Alignment explanation
Indices: 13014413--13014442 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13014403 ACAAATGCCA
13014413 GCTTTTCG
1 GCTTTTCG
13014421 GCTTTTCG
1 GCTTTTCG
13014429 GCTTTTCG
1 GCTTTTCG
13014437 GCTTTT
1 GCTTTT
13014443 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.23, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:13016859 original size:43 final size:43
Alignment explanation
Indices: 13016781--13016876 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
13016771 AGCCTCAAGC
* *
13016781 CTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
* * *
13016824 CTTATCTTTCTGAGGTATCAAGAAAGC-AGACTGAAGATTAAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAG-CTGAAGATT-GAG-T
13016869 CTTATCTC
1 CTTATCTC
13016877 CCTAAGCAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 2 0.05
43 32 0.73
44 2 0.05
45 8 0.18
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
Found at i:13017057 original size:176 final size:174
Alignment explanation
Indices: 13016725--13017133 Score: 511
Period size: 176 Copynumber: 2.3 Consensus size: 174
13016715 TTGAAGATTG
* * *
13016725 GAAGA-GGCAAATCTTATC-TCTATGTATCGACAATGGAGCAGATTTAAGCCTCAAGCCTTATCT
1 GAAGATGGCGAATCTTATCTTC-ATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCT
* *
13016788 CTCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTTCTGAGGTATCAAGAAAGCAG
65 CTCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAG
13016853 ACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCAGAACAGATC
130 ACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCAGAAC--ATC
* * * * *
13016900 GAAGATGGCGAGTCTTATCTTCATGTATCGGTAATGGAACAGATTTTAGCCACTAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTTCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTC
* * *
13016965 TCTGAGGTAGCAAGAGAGTAGGTTGGCA-ATTGTAGTCTTATCTTCCTGAGGTAGCAAGAAAGCA
66 TCTGAGGTAGCAAGAGAGCAAGTT-GAAGATTG-AGTCTTATCTTCCTGAGGTAGCAAGAAAGCA
* * * * ** * *
13017029 GACTGAAGATTGAAGAT-TTATTTCCCTAAGTAGTTGTGGAGCCTC
129 GACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCAGAACATC
* * * *
13017074 GAGGATGGCGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGTCACCAAGCCT
1 GAAGATGGCGAATCTTATCTTCATGTATCGGCAATGGAGCAGATTTAAGCCA-CAAGCCT
13017134 ATTTCCCTAA
Statistics
Matches: 199, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
174 46 0.23
175 11 0.06
176 93 0.47
177 49 0.25
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (174 bp):
GAAGATGGCGAATCTTATCTTCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTC
TCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGA
CTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCAGAACATC
Found at i:13018898 original size:29 final size:30
Alignment explanation
Indices: 13018839--13018899 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
13018829 ATATATTTTT
* *
13018839 TTATTTTTTTAAATCTACTTGTATACGTAA
1 TTATTTTTTTAAATCTACTTGCATACATAA
*
13018869 TTATTTTTTTAAATCTA-TTGCATATATAA
1 TTATTTTTTTAAATCTACTTGCATACATAA
13018898 TT
1 TT
13018900 TATGATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (30 bp):
TTATTTTTTTAAATCTACTTGCATACATAA
Found at i:13019661 original size:2 final size:2
Alignment explanation
Indices: 13019654--13019695 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
13019644 CGTGTCAACT
13019654 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13019695 T
1 T
13019696 GATCATTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13021861 original size:21 final size:21
Alignment explanation
Indices: 13021836--13021882 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
13021826 ACAAAATGGT
*
13021836 TTTTTCATGTAAAAAT-TAAAG
1 TTTTTCATATAAAAATCT-AAG
*
13021857 TTTTTCTTATAAAAATCTAAG
1 TTTTTCATATAAAAATCTAAG
13021878 TTTTT
1 TTTTT
13021883 TTCTGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTTCATATAAAAATCTAAG
Found at i:13025344 original size:2 final size:2
Alignment explanation
Indices: 13025337--13025370 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13025327 CTCTATCAAT
13025337 TA TA 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 TA TA
13025371 AATACTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13025966 original size:125 final size:126
Alignment explanation
Indices: 13025810--13026047 Score: 372
Period size: 125 Copynumber: 1.9 Consensus size: 126
13025800 TTTATTCATT
* *
13025810 ATTTAATCTATTTTTTATTTTAATATTGTACATAT-TTAATGTGTTATTATGATTAATTAGTTTC
1 ATTTAATCTATTTTTTATTTTAATATCGTACATATATT-ATGTGTTATTATGATTAATTAATTTC
** *
13025874 AAACCATACGGTTCATTAATTATTGTATGTTATTTTTAAATAAACATCTATAATCATATATA
65 AAACCATACGGTTCATTAATTATTACATGTTATTTTTAAACAAACATCTATAATCATATATA
13025936 ATTTAATCTA-TTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCA
1 ATTTAATCTATTTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCA
* * * *
13026000 AACTATATGTTTCATTAATTATTACATGTTATTTTTAAACATACATCT
66 AACCATACGGTTCATTAATTATTACATGTTATTTTTAAACAAACATCT
13026048 GTATTTTAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
125 90 0.88
126 12 0.12
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.51
Consensus pattern (126 bp):
ATTTAATCTATTTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCA
AACCATACGGTTCATTAATTATTACATGTTATTTTTAAACAAACATCTATAATCATATATA
Found at i:13027573 original size:41 final size:41
Alignment explanation
Indices: 13027528--13027609 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
13027518 GTATTGGCAA
*
13027528 GTTAACTTCTTATCTGATTGCTCTTGTTCTTAGTTAGACAT
1 GTTAACTTCTTATCTGATTGCTCTTGTTCTTAGATAGACAT
13027569 GTTAACTTCTTATCTGATTGCTCTTGTTCTTAGATAGACAT
1 GTTAACTTCTTATCTGATTGCTCTTGTTCTTAGATAGACAT
13027610 TAGATACGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.48
Consensus pattern (41 bp):
GTTAACTTCTTATCTGATTGCTCTTGTTCTTAGATAGACAT
Found at i:13042612 original size:45 final size:45
Alignment explanation
Indices: 13042519--13042647 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 45
13042509 CGAATTCATC
* * * *
13042519 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCTG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
*
13042561 CACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
*
13042606 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
13042648 CTGTACGATA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 10 0.13
43 15 0.20
44 4 0.05
45 46 0.61
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:13052649 original size:10 final size:10
Alignment explanation
Indices: 13052634--13052727 Score: 60
Period size: 10 Copynumber: 10.0 Consensus size: 10
13052624 TATTTTACAT
13052634 ATAAAATATA
1 ATAAAATATA
13052644 ATAAAATA-A
1 ATAAAATATA
13052653 AT--AATATA
1 ATAAAATATA
13052661 A-AAAATA-A
1 ATAAAATATA
13052669 ATAAAA-ATA
1 ATAAAATATA
* * *
13052678 AAAAAACAGA
1 ATAAAATATA
*
13052688 AT-ATATAT-
1 ATAAAATATA
*
13052696 ATATATATATA
1 ATA-AAATATA
*
13052707 TATAAAATAAA
1 -ATAAAATATA
13052718 ATAAAATATA
1 ATAAAATATA
13052728 TAATAAAAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
7 4 0.06
8 7 0.11
9 20 0.31
10 26 0.40
11 5 0.08
12 3 0.05
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (10 bp):
ATAAAATATA
Found at i:13052690 original size:19 final size:20
Alignment explanation
Indices: 13052647--13052700 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
13052637 AAATATAATA
*
13052647 AAATAAATAATATAAAAAAT
1 AAATAAATAATATAAAAAAC
13052667 AAATAAA-AATA-AAAAAAC
1 AAATAAATAATATAAAAAAC
*
13052685 AGAATATATATATATA
1 A-AATAAATA-ATATA
13052701 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 7 0.25
19 9 0.32
20 8 0.29
21 3 0.11
22 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATAAATAATATAAAAAAC
Found at i:13055239 original size:10 final size:10
Alignment explanation
Indices: 13055224--13055317 Score: 60
Period size: 10 Copynumber: 10.0 Consensus size: 10
13055214 TATTTTACAT
13055224 ATAAAATATA
1 ATAAAATATA
13055234 ATAAAATA-A
1 ATAAAATATA
13055243 AT--AATATA
1 ATAAAATATA
13055251 A-AAAATA-A
1 ATAAAATATA
13055259 ATAAAA-ATA
1 ATAAAATATA
* * *
13055268 AAAAAACAGA
1 ATAAAATATA
*
13055278 AT-ATATAT-
1 ATAAAATATA
*
13055286 ATATATATATA
1 ATA-AAATATA
*
13055297 TATAAAATAAA
1 -ATAAAATATA
13055308 ATAAAATATA
1 ATAAAATATA
13055318 TAATAAAAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
7 4 0.06
8 7 0.11
9 20 0.31
10 26 0.40
11 5 0.08
12 3 0.05
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (10 bp):
ATAAAATATA
Found at i:13055280 original size:19 final size:20
Alignment explanation
Indices: 13055237--13055290 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
13055227 AAATATAATA
*
13055237 AAATAAATAATATAAAAAAT
1 AAATAAATAATATAAAAAAC
13055257 AAATAAA-AATA-AAAAAAC
1 AAATAAATAATATAAAAAAC
*
13055275 AGAATATATATATATA
1 A-AATAAATA-ATATA
13055291 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 7 0.25
19 9 0.32
20 8 0.29
21 3 0.11
22 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATAAATAATATAAAAAAC
Found at i:13070603 original size:12 final size:12
Alignment explanation
Indices: 13070586--13070610 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13070576 TTGTGTGTTC
13070586 TTTATTTTATTT
1 TTTATTTTATTT
13070598 TTTATTTTATTT
1 TTTATTTTATTT
13070610 T
1 T
13070611 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:13072370 original size:20 final size:20
Alignment explanation
Indices: 13072345--13072388 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
13072335 TTCTGAGTTT
13072345 TGTTTTATAGAATATTAACA
1 TGTTTTATAGAATATTAACA
13072365 TGTTTTATAGAATATTAACA
1 TGTTTTATAGAATATTAACA
13072385 TGTT
1 TGTT
13072389 CCCAACAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (20 bp):
TGTTTTATAGAATATTAACA
Found at i:13073100 original size:7 final size:7
Alignment explanation
Indices: 13073088--13073113 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13073078 AAGTTAAAAA
13073088 AATAATT
1 AATAATT
13073095 AATAATT
1 AATAATT
13073102 AATAATT
1 AATAATT
13073109 AATAA
1 AATAA
13073114 AGGATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:13090947 original size:3 final size:3
Alignment explanation
Indices: 13090939--13090973 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13090929 TTCATTCTCA
13090939 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
13090974 GCTAAGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:13092607 original size:5 final size:5
Alignment explanation
Indices: 13092597--13092621 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13092587 ATTTATGTAA
13092597 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
13092622 GATTCTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:13098315 original size:21 final size:22
Alignment explanation
Indices: 13098270--13098317 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
13098260 TAAACAAAAT
13098270 AAAAACCACAAAAATATAGACAA
1 AAAAACCACAAAAATATAGA-AA
* *
13098293 AAAAACCATAAAATTATAGAAA
1 AAAAACCACAAAAATATAGAAA
13098315 AAA
1 AAA
13098318 TCACGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.12
Consensus pattern (22 bp):
AAAAACCACAAAAATATAGAAA
Found at i:13098894 original size:26 final size:25
Alignment explanation
Indices: 13098867--13098916 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13098857 GATCAAATAT
*
13098867 ATATTTAATATA-TTAAAAAAATTA
1 ATATTAAATATATTTAAAAAAATTA
*
13098891 ATATTAAATATATTTTAAAAAATTA
1 ATATTAAATATATTTAAAAAAATTA
13098916 A
1 A
13098917 AGTACGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATTAAATATATTTAAAAAAATTA
Found at i:13100406 original size:2 final size:2
Alignment explanation
Indices: 13100351--13100387 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13100341 ATCCCTTATT
13100351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13100388 TTCAAAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13100438 original size:14 final size:14
Alignment explanation
Indices: 13100419--13100445 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13100409 AAAAAATCGG
13100419 TTTGAATCCTATGA
1 TTTGAATCCTATGA
13100433 TTTGAATCCTATG
1 TTTGAATCCTATG
13100446 TGATGGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (14 bp):
TTTGAATCCTATGA
Found at i:13109136 original size:36 final size:36
Alignment explanation
Indices: 13109087--13109162 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
13109077 TGACCCCTCT
* * * * *
13109087 CATCTCGCTATTCATCCTCGTTGACTCATCCGTTCC
1 CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
*
13109123 CATCTCGCCATTCAACATCGTTGACCCATCTGCTCC
1 CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
13109159 CATC
1 CATC
13109163 GTGAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.17, C:0.41, G:0.11, T:0.32
Consensus pattern (36 bp):
CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
Found at i:13111898 original size:46 final size:46
Alignment explanation
Indices: 13111810--13111899 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 46
13111800 TGTATGTAGG
* ** *
13111810 AGCTCGGAACCTAATCATGTATTCTCGAGTGCGTAACGTATGCAGC
1 AGCTCGGAACCTAATCATGTATTCTCGAGTCCACAACATATGCAGC
* * * *
13111856 AGCTTGGAACCTATTCTTGTATTCTTGAGTCCACAACATATGCA
1 AGCTCGGAACCTAATCATGTATTCTCGAGTCCACAACATATGCA
13111900 AGAGTTTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (46 bp):
AGCTCGGAACCTAATCATGTATTCTCGAGTCCACAACATATGCAGC
Found at i:13113798 original size:40 final size:40
Alignment explanation
Indices: 13113754--13113849 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
13113744 TAATTCCCAG
* * * *
13113754 AATTTCTATTGCTTTGGCAATATATTTAATGATTTACTAA
1 AATTTCTATTGCTTTAGCAAAATATTTAATGAGTTACAAA
** * * *
13113794 AATTTCTAAGGGTTTATCAAAATATTTGATGAGTTACAAA
1 AATTTCTATTGCTTTAGCAAAATATTTAATGAGTTACAAA
*
13113834 AATTTCTATTGTTTTA
1 AATTTCTATTGCTTTA
13113850 CCAATATTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.46
Consensus pattern (40 bp):
AATTTCTATTGCTTTAGCAAAATATTTAATGAGTTACAAA
Found at i:13114021 original size:20 final size:20
Alignment explanation
Indices: 13113958--13114052 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 20
13113948 ATGGGCTTAT
* *
13113958 CAAAATATCTAAGAATTTGC
1 CAAAATATCTAACAATTTAC
* * * *
13113978 CTATATATCTAACAACTGAC
1 CAAAATATCTAACAATTTAC
*
13113998 CAAAATATCTAACAATTTAT
1 CAAAATATCTAACAATTTAC
* * **
13114018 CAAAATTTCTATCGTTTTAC
1 CAAAATATCTAACAATTTAC
*
13114038 CAATATATCTAACAA
1 CAAAATATCTAACAA
13114053 ATTATTAACA
Statistics
Matches: 54, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (20 bp):
CAAAATATCTAACAATTTAC
Found at i:13114083 original size:40 final size:40
Alignment explanation
Indices: 13113996--13114075 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
13113986 CTAACAACTG
* * * *
13113996 ACCAAAATATCTAACAATTTATCAAAATTTCTATCGTTTT
1 ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
* *
13114036 ACCAATATATCTAACAAATTATTAACATTTCTATCATTAT
1 ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
13114076 GTCAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.40
Consensus pattern (40 bp):
ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
Found at i:13114201 original size:20 final size:20
Alignment explanation
Indices: 13114178--13114254 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
13114168 TTTTTTTAAA
*
13114178 GATTTACCAATATTTCTAAG
1 GATTTACCAAAATTTCTAAG
* *
13114198 GA-TTCCCAAAATATT-TAAC
1 GATTTACCAAAAT-TTCTAAG
13114217 GATTTACCAAAATTTCTAAG
1 GATTTACCAAAATTTCTAAG
13114237 GATTTACCAAAATTTCTA
1 GATTTACCAAAATTTCTA
13114255 TCATTTTACC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.31
20 34 0.69
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (20 bp):
GATTTACCAAAATTTCTAAG
Found at i:13114263 original size:40 final size:39
Alignment explanation
Indices: 13114172--13114271 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 39
13114162 TACAATTTTT
* *
13114172 TTTAAAGATTTACCAATATTTCTAAGGATTCCCAAAATA
1 TTTAACGATTTACCAATATTTCTAAGGATTACCAAAATA
*
13114211 TTTAACGATTTACCAAAATTTCTAAGGATTTACCAAAAT-
1 TTTAACGATTTACCAATATTTCTAAGGA-TTACCAAAATA
*
13114250 TTCTATC-ATTTTACCAATATTT
1 TT-TAACGA-TTTACCAATATTT
13114272 ATGAGACTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (39 bp):
TTTAACGATTTACCAATATTTCTAAGGATTACCAAAATA
Found at i:13114398 original size:20 final size:20
Alignment explanation
Indices: 13114366--13114430 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
13114356 TTTCTATAAC
*
13114366 ACCAAAATATCTAAGGATTT
1 ACCAATATATCTAAGGATTT
* *
13114386 ACCAATATTTCTAAGCATTT
1 ACCAATATATCTAAGGATTT
13114406 ACCAATATATCTAAGGATTT
1 ACCAATATATCTAAGGATTT
13114426 ACCAA
1 ACCAA
13114431 AAATTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (20 bp):
ACCAATATATCTAAGGATTT
Found at i:13114398 original size:164 final size:163
Alignment explanation
Indices: 13114203--13114599 Score: 428
Period size: 164 Copynumber: 2.4 Consensus size: 163
13114193 CTAAGGATTC
* * * *
13114203 CCAAAATATTTAACGATTTACCAAAATTTCTAAGGATTTACCAAAATTTCTATCATTTTACCAAT
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACA-TTTACCAAT
* * * * **
13114268 ATT-TATGAGACTTTACCGAA-AT-TTTAAAGATTTTATCAATATTTTTAAATTTTCTAAAC-CT
65 ATTCTAT--CACTTTACC-AATATGTAT-AAGACTTTACCAATATTTCCAAATTTTCTAAACAC-
13114329 TATACCAAGTAC-TAACAATTACCAAAATTTCTATAAC-A
125 TATACCAAGT-CTTAACAATTACCAAAATTTCTATAACTA
* * * *
13114367 CCAAAATATCTAAGGATTTACCAATATTTCTAAGCATTTACCAATATATCTAAGGATTTACCAAA
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAA-CATTTACC-AA
* ** * * *
13114432 AATTCTATCTTTTTACCAATATGTATGAGACTTTACCCATATTTCCAATTTTTCTAAACACTATA
64 TATTCTATCACTTTACCAATATGTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTATA
* *
13114497 CCAAGTCTTAACAATTACTAAAATTTCTATGACTTTA
129 CCAAGTCTTAACAATTACCAAAATTTCTATAAC--TA
**
13114534 CCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTACCAAT
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAAC-ATTTACCAAT
13114599 A
65 A
13114600 ATTTTAAGGA
Statistics
Matches: 194, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
163 3 0.02
164 119 0.61
165 9 0.05
166 6 0.03
167 57 0.29
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (163 bp):
CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACATTTACCAATA
TTCTATCACTTTACCAATATGTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTATACC
AAGTCTTAACAATTACCAAAATTTCTATAACTA
Found at i:13114438 original size:20 final size:21
Alignment explanation
Indices: 13114369--13114438 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 21
13114359 CTATAACACC
13114369 AAAATATCTAAGGATTTACC-
1 AAAATATCTAAGGATTTACCA
* * *
13114389 AATATTTCTAAGCATTTACC-
1 AAAATATCTAAGGATTTACCA
*
13114409 AATATATCTAAGGATTTACCA
1 AAAATATCTAAGGATTTACCA
13114430 AAAAT-TCTA
1 AAAATATCTA
13114439 TCTTTTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 39 0.91
21 4 0.09
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAATATCTAAGGATTTACCA
Found at i:13114560 original size:40 final size:39
Alignment explanation
Indices: 13114505--13114803 Score: 212
Period size: 40 Copynumber: 7.5 Consensus size: 39
13114495 TACCAAGTCT
* *
13114505 TAACAA-TTACTAAAATTTCTATGACTTTACCAAAATATC
1 TAACAATTTACCAAAATTTCTAGGA-TTTACCAAAATATC
* *
13114544 TAATAATTTACCAAAATTTCTAAGGATTTACCAATATATC
1 TAACAATTTACCAAAATTTCT-AGGATTTACCAAAATATC
* *
13114584 TAACAATTTACCAATAATTT-TAAGGATTTTCTAAAATATC
1 TAACAATTTACCAA-AATTTCT-AGGATTTACCAAAATATC
* * * * *
13114624 TAATAGTTTTCCAAAATTTCTAAGGATTTACCGATATATC
1 TAACAATTTACCAAAATTTCT-AGGATTTACCAAAATATC
* * * * *
13114664 TAACAAATTACTAAAAATTT-TA-AAGTGTTACCAAAACATA
1 TAACAATTTAC-CAAAATTTCTAGGA-T-TTACCAAAATATC
* * * * *
13114704 TAACGATTTACCAAAATTTTCAATGTTTTATCAAAATATC
1 TAACAATTTACCAAAA-TTTCTAGGATTTACCAAAATATC
* * * * *
13114744 TAACGATTTACCAAAATTTTTATTGATTTACCAATATTTGC
1 TAACAATTTACCAAAATTTCTA-GGATTTACCAAAATAT-C
*
13114785 TAA-AATTTTACCAATATTT
1 TAACAA-TTTACCAAAATTT
13114804 TCAAAATTTC
Statistics
Matches: 205, Mismatches: 42, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.00
39 20 0.10
40 151 0.74
41 33 0.16
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (39 bp):
TAACAATTTACCAAAATTTCTAGGATTTACCAAAATATC
Found at i:13114620 original size:80 final size:79
Alignment explanation
Indices: 13114531--13114763 Score: 263
Period size: 80 Copynumber: 2.9 Consensus size: 79
13114521 TTCTATGACT
13114531 TTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTACC
1 TTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTACC
*
13114596 AATAATTTTAAGGAT-
66 AA-AATTTTAAAG-TG
* * * * * *
13114611 TTTCTAAAATATCTAATAGTTTTCCAAAATTTCTAAGGATTTACCGATATATCTAACAAATTACT
1 TTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTAC-
*
13114676 AAAAATTTTAAAGTG
65 CAAAATTTTAAAGTG
* * ** * * * * *
13114691 TTACCAAAACATATAACGATTTACCAAAATTT-TCAATGTTTTATCAAAATATCTAACGATTTAC
1 TTACCAAAATATCTAATAATTTACCAAAATTTCT-AAGGATTTACCAATATATCTAACAATTTAC
13114755 CAAAATTTT
65 CAAAATTTT
13114764 TATTGATTTA
Statistics
Matches: 126, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
79 10 0.08
80 114 0.90
81 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (79 bp):
TTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTACC
AAAATTTTAAAGTG
Found at i:13114771 original size:20 final size:20
Alignment explanation
Indices: 13114511--13114782 Score: 102
Period size: 20 Copynumber: 13.6 Consensus size: 20
13114501 GTCTTAACAA
* *
13114511 TTACTAAAATTTCT-ATGACT
1 TTACCAAAATTTTTAATGA-T
* * *
13114531 TTACCAAAATATCTAATAAT
1 TTACCAAAATTTTTAATGAT
* *
13114551 TTACCAAAATTTCTAAGGAT
1 TTACCAAAATTTTTAATGAT
* * * **
13114571 TTACCAATATATCTAACAAT
1 TTACCAAAATTTTTAATGAT
*
13114591 TTACCAATAA-TTTTAAGGAT
1 TTACCAA-AATTTTTAATGAT
* * * *
13114611 TTTCTAAAATATCTAAT-AGT
1 TTACCAAAATTTTTAATGA-T
* * *
13114631 TTTCCAAAATTTCTAAGGAT
1 TTACCAAAATTTTTAATGAT
* * * * ** *
13114651 TTACCGATATATCTAACAAA
1 TTACCAAAATTTTTAATGAT
* * *
13114671 TTACTAAAAATTTTAAAG-T
1 TTACCAAAATTTTTAATGAT
** * *
13114690 GTTACCAAAACATATAACGAT
1 -TTACCAAAATTTTTAATGAT
* *
13114711 TTACCAAAATTTTCAATGTT
1 TTACCAAAATTTTTAATGAT
* * * *
13114731 TTATCAAAATATCTAACGAT
1 TTACCAAAATTTTTAATGAT
*
13114751 TTACCAAAATTTTTATTGAT
1 TTACCAAAATTTTTAATGAT
*
13114771 TTACCAATATTT
1 TTACCAAAATTT
13114783 GCTAAAATTT
Statistics
Matches: 183, Mismatches: 62, Indels: 14
0.71 0.24 0.05
Matches are distributed among these distances:
19 3 0.02
20 174 0.95
21 6 0.03
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (20 bp):
TTACCAAAATTTTTAATGAT
Found at i:13114796 original size:21 final size:20
Alignment explanation
Indices: 13114770--13114812 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
13114760 TTTTTATTGA
13114770 TTTACCAATATTTGCTAAAAT
1 TTTACCAATATTTGC-AAAAT
*
13114791 TTTACCAATATTTTCAAAAT
1 TTTACCAATATTTGCAAAAT
13114811 TT
1 TT
13114813 CTAAACCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (20 bp):
TTTACCAATATTTGCAAAAT
Found at i:13114961 original size:40 final size:40
Alignment explanation
Indices: 13114912--13115030 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
13114902 CCAATATTCC
* * *
13114912 TAAGAATTTACTAAAATATCTAA-TGATTTACTAAAATTTT
1 TAAGGATTTACCAAAATATCTAACAG-TTTACTAAAATTTT
* *
13114952 TAAGGATTTACCAAAATATTTAACAGTTTACTAATATTTT
1 TAAGGATTTACCAAAATATCTAACAGTTTACTAAAATTTT
* * *
13114992 TAAGGATTTACCAACATATTTAACAATTTAAC-AAAATTT
1 TAAGGATTTACCAAAATATCTAACAGTTT-ACTAAAATTT
13115031 CTATAAATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 66 0.96
41 3 0.04
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (40 bp):
TAAGGATTTACCAAAATATCTAACAGTTTACTAAAATTTT
Found at i:13115013 original size:20 final size:20
Alignment explanation
Indices: 13114912--13115014 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
13114902 CCAATATTCC
* *
13114912 TAAGAATTTACTAAAATATC
1 TAAGGATTTACTAAAATATT
* *
13114932 TAATGATTTACTAAAATTTT
1 TAAGGATTTACTAAAATATT
*
13114952 TAAGGATTTACCAAAATATT
1 TAAGGATTTACTAAAATATT
* * *
13114972 TAA-CAGTTTACTAATATTTT
1 TAAGGA-TTTACTAAAATATT
* *
13114992 TAAGGATTTACCAACATATT
1 TAAGGATTTACTAAAATATT
13115012 TAA
1 TAA
13115015 CAATTTAACA
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
19 1 0.02
20 64 0.97
21 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (20 bp):
TAAGGATTTACTAAAATATT
Found at i:13115020 original size:20 final size:20
Alignment explanation
Indices: 13114916--13115028 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 20
13114906 TATTCCTAAG
* * *
13114916 AATTTACTAAAATATCTAAT
1 AATTTACCAAAATATTTAAC
* * * *
13114936 GATTTACTAAAATTTTTAAG
1 AATTTACCAAAATATTTAAC
*
13114956 GATTTACCAAAATATTTAAC
1 AATTTACCAAAATATTTAAC
* * * * *
13114976 AGTTTACTAATATTTTTAAG
1 AATTTACCAAAATATTTAAC
* *
13114996 GATTTACCAACATATTTAAC
1 AATTTACCAAAATATTTAAC
*
13115016 AATTTAACAAAAT
1 AATTTACCAAAAT
13115029 TTCTATAAAT
Statistics
Matches: 71, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (20 bp):
AATTTACCAAAATATTTAAC
Found at i:13115051 original size:21 final size:20
Alignment explanation
Indices: 13115018--13115061 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
13115008 TATTTAACAA
*
13115018 TTTAACAAAATTTCTATAAAT
1 TTTAACAAAATTTCCA-AAAT
* *
13115039 TTTACCAATATTTCCAAAAT
1 TTTAACAAAATTTCCAAAAT
13115059 TTT
1 TTT
13115062 TAACTCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAACAAAATTTCCAAAAT
Found at i:13119855 original size:22 final size:21
Alignment explanation
Indices: 13119805--13119848 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
13119795 ACTTTAATTC
13119805 AACCAATACCATTTTCATGCAT
1 AACCAATACCATTTTCAT-CAT
*
13119827 GACCAATACCATTTTCAT-AT
1 AACCAATACCATTTTCATCAT
13119847 AA
1 AA
13119849 ACACAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
22 17 0.85
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (21 bp):
AACCAATACCATTTTCATCAT
Found at i:13120342 original size:43 final size:43
Alignment explanation
Indices: 13120201--13120434 Score: 283
Period size: 43 Copynumber: 5.5 Consensus size: 43
13120191 AAAAAATGCC
* * * * *
13120201 GCTATAGAACATGATCTTTAGCAGAGCTTTTCTCACAGACGCT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCT
* * * *
13120244 GCTAAAGAACATGACCTTTAGCGGCG-TCTTCCCAAAAATGCT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCT
* *
13120286 GCTAAAGAACATGACATTTAGCGGCGCTTTTCTCACAAACACCT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAAC-GCT
* * * *
13120330 -CTAAAGAACATGATCTTTAGCGGCGCTTTTCCCACAAATGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCT
* * *
13120372 GCTAAAGTACATGACCTTTAGCGGCACTTTTCTCACAAACGTT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCT
13120415 GCTAAAGAACATGACCTTTA
1 GCTAAAGAACATGACCTTTA
13120435 AAAAAATTAT
Statistics
Matches: 159, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
42 37 0.23
43 120 0.75
44 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCT
Found at i:13120402 original size:86 final size:85
Alignment explanation
Indices: 13120192--13120434 Score: 328
Period size: 86 Copynumber: 2.8 Consensus size: 85
13120182 CGTTTATGAA
* * * *
13120192 AAAAATGCCGCTATAGAACATGATCTTTAGCAG-AGCTTTTCTCACAGACGCTGCTAAAGAACAT
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCA-CTTTTCTCACAAACGCTGCTAAAGAACAT
13120256 GACCTTTAGCGGCGTCTTCCC
65 GACCTTTAGCGGCGTCTTCCC
* * * *
13120277 AAAAATGCTGCTAAAGAACATGACATTTAGCGGCGCTTTTCTCACAAACACCT-CTAAAGAACAT
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCTCACAAAC-GCTGCTAAAGAACAT
* *
13120341 GATCTTTAGCGGCGCTTTTCCC
65 GACCTTTAGCGGCG-TCTTCCC
* * *
13120363 ACAAATGCCGCTAAAGTACATGACCTTTAGCGGCACTTTTCTCACAAACGTTGCTAAAGAACATG
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCTCACAAACGCTGCTAAAGAACATG
13120428 ACCTTTA
66 ACCTTTA
13120435 AAAAAATTAT
Statistics
Matches: 136, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
85 66 0.49
86 70 0.51
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (85 bp):
AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCTCACAAACGCTGCTAAAGAACATG
ACCTTTAGCGGCGTCTTCCC
Found at i:13138385 original size:49 final size:48
Alignment explanation
Indices: 13138319--13138583 Score: 238
Period size: 49 Copynumber: 5.5 Consensus size: 48
13138309 AAGTTGATGC
*
13138319 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATTT
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGA-TA
* * * * * *
13138368 CATATCCCAGACGGGTCTTACACTGGCTCTCATCTATCG-GTG-TCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCT-GAT-A
* *
13138417 CATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGCTGATA
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATA
* * * * * *
13138465 CTATGTCCCAGATAGGTTTTACACTGTCTTGCATATCTCGAGGCTGATG
1 C-ATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATA
* *
13138514 CATGTCCCAGACATGTCTTACACT-AGCTCTT-ATA-AT--ATGGCTGATG
1 CATGTCCCAGACAGGTCTTACACTGA-CT-TTCATATATCGA-GGCTGATA
* *
13138560 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
13138584 AGCACACATA
Statistics
Matches: 179, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 31 0.17
47 1 0.01
48 29 0.16
49 115 0.64
50 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATA
Found at i:13138474 original size:98 final size:98
Alignment explanation
Indices: 13138313--13138537 Score: 280
Period size: 98 Copynumber: 2.3 Consensus size: 98
13138303 ACATGTAAGT
* *
13138313 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATTTCATATCCCAG
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGATCTCATATCCCAG
* *
13138378 ACGGGTCTTACACTGGCTCT-CATCTATCG-GTG-
66 ACAGGTCTTACACTGGCT-TGCATATATCGAG-GC
* *
13138410 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGCTGATACT-ATGTCCC
1 T-GATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGAT-CTCATATCCC
* * * *
13138474 AGATAGGTTTTACACTGTCTTGCATATCTCGAGGC
64 AGACAGGTCTTACACTGGCTTGCATATATCGAGGC
*
13138509 TGATG-CATGTCCCAGACATGTCTTACACT
1 TGATGCCATGTCCCAGACAGGTCTTACACT
13138538 AGCTCTTATA
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
97 25 0.22
98 84 0.75
99 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (98 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGATCTCATATCCCAG
ACAGGTCTTACACTGGCTTGCATATATCGAGGC
Found at i:13139273 original size:20 final size:18
Alignment explanation
Indices: 13139236--13139286 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
13139226 CTATAACAAC
13139236 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
13139253 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
13139273 TTACAACTTTACAA
1 TCACAA-TTTACAA
13139287 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:13148571 original size:46 final size:44
Alignment explanation
Indices: 13148467--13148574 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13148457 TGTCTTTGAC
** * * *
13148467 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13148511 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13148557 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13148575 TTTTGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13153022 original size:30 final size:30
Alignment explanation
Indices: 13152986--13153086 Score: 127
Period size: 28 Copynumber: 3.5 Consensus size: 30
13152976 GACAAGATTG
* * *
13152986 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
13153016 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
13153044 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
13153073 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13153087 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.37
29 20 0.32
30 19 0.31
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:13153080 original size:29 final size:29
Alignment explanation
Indices: 13152986--13153086 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
13152976 GACAAGATTG
* * * *
13152986 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTGAAAA-TATATA
*
13153016 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-TTGAAAATATATA
*
13153044 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
13153073 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13153087 GATTCACTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 22 0.36
30 15 0.25
31 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAATATATA
Found at i:13160951 original size:30 final size:30
Alignment explanation
Indices: 13160915--13161015 Score: 127
Period size: 28 Copynumber: 3.5 Consensus size: 30
13160905 GACAAGATTG
* * *
13160915 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
13160945 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
13160973 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
13161002 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13161016 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.37
29 20 0.32
30 19 0.31
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:13161009 original size:29 final size:29
Alignment explanation
Indices: 13160915--13161015 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
13160905 GACAAGATTG
* * * *
13160915 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTGAAAA-TATATA
*
13160945 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-TTGAAAATATATA
*
13160973 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATATATA
13161002 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13161016 GATTCACTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 22 0.36
30 15 0.25
31 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTGAAAATATATA
Found at i:13162849 original size:40 final size:40
Alignment explanation
Indices: 13162805--13162901 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
13162795 AATGTTTTTT
*
13162805 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGATCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
* * * *
13162845 GCGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
* *
13162885 GCAGTGTTTTTAAAAAA
1 GCGGCGTTTTTAAAAAA
13162902 ACTAAAAAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
Found at i:13162970 original size:40 final size:38
Alignment explanation
Indices: 13162912--13163011 Score: 137
Period size: 40 Copynumber: 2.6 Consensus size: 38
13162902 ACTAAAAAGC
*
13162912 GCCGCTAATGCTCGATCTATAGCATTGTTTTTCAACAAA
1 GCCGCTAATGCTCTATCTATAGCATTGTTTTTCAA-AAA
* *
13162951 TGCCGCTAATGCTCTATCTAGAGTATTGTTTTTCAAAAA
1 -GCCGCTAATGCTCTATCTATAGCATTGTTTTTCAAAAA
*
13162990 GCGCACTAATGCTCTATCTATA
1 GC-CGCTAATGCTCTATCTATA
13163012 ACGGCATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.04
39 20 0.37
40 32 0.59
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (38 bp):
GCCGCTAATGCTCTATCTATAGCATTGTTTTTCAAAAA
Found at i:13162981 original size:88 final size:88
Alignment explanation
Indices: 13162817--13162989 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 88
13162807 GGCGTTTTTA
* *
13162817 AAAAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCT
1 AAAAAGCGCCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGTGCCGCTAATGCTCGACCT
*
13162882 ATAGCAGTGTTTTTAAAAAAACT
66 AGAGCAGTGTTTTTAAAAAAACT
* ** * *
13162905 AAAAAGCGCCGCTAATGCTCGATCTATAGCATTGTTTTTCAACAAA-TGCCGCTAATGCTCTATC
1 AAAAAGCGCCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAA-AAAGTGCCGCTAATGCTCGACC
* * *
13162969 TAGAGTATTGTTTTTCAAAAA
65 TAGAGCAGTGTTTTTAAAAAA
13162990 GCGCACTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 70 0.96
89 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (88 bp):
AAAAAGCGCCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGTGCCGCTAATGCTCGACCT
AGAGCAGTGTTTTTAAAAAAACT
Found at i:13164529 original size:27 final size:27
Alignment explanation
Indices: 13164476--13164529 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
13164466 GCATGATCCT
* *
13164476 ATATGATTTCATTTTTCAATTTTTCCC
1 ATATGATTACATTTTTCAATTTGTCCC
*
13164503 ATATG-TTACATTTTTTAATTTAGTCCC
1 ATATGATTACATTTTTCAATTT-GTCCC
13164530 TGAACTCGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.24, C:0.17, G:0.06, T:0.54
Consensus pattern (27 bp):
ATATGATTACATTTTTCAATTTGTCCC
Found at i:13177431 original size:2 final size:2
Alignment explanation
Indices: 13177424--13177459 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13177414 AAATATTACT
13177424 TA TA TA 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 TA TA TA
13177460 ACTGTTAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13180302 original size:30 final size:30
Alignment explanation
Indices: 13180266--13180328 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
13180256 ACTTAACAAG
*
13180266 CAAATGT-TTCTAAAATAATAACAAAATTAA
1 CAAATGTCTT-TAAAATAATAAAAAAATTAA
13180296 CAAATGTCTTTAAAATAATAAAAAAATTAA
1 CAAATGTCTTTAAAATAATAAAAAAATTAA
13180326 CAA
1 CAA
13180329 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAAAAAAATTAA
Found at i:13180383 original size:22 final size:22
Alignment explanation
Indices: 13180358--13180400 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13180348 TATCCAAACA
13180358 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
13180380 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
13180401 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:13180404 original size:11 final size:11
Alignment explanation
Indices: 13180365--13180405 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
13180355 ACAATAACAA
13180365 CAAAATAGTAG
1 CAAAATAGTAG
* *
13180376 CAACATAATAG
1 CAAAATAGTAG
*
13180387 TAAAATAGTAG
1 CAAAATAGTAG
13180398 CAAAATAG
1 CAAAATAG
13180406 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:13186703 original size:2 final size:2
Alignment explanation
Indices: 13186696--13186721 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13186686 GCTAGTGTAC
13186696 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
13186722 ATGTATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13190607 original size:15 final size:15
Alignment explanation
Indices: 13190589--13190624 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
13190579 GTTTTTGCAT
13190589 CAGCAGCAACAACAG
1 CAGCAGCAACAACAG
*
13190604 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
13190619 CAGCAG
1 CAGCAG
13190625 TTGCTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.33, G:0.25, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Found at i:13190621 original size:12 final size:12
Alignment explanation
Indices: 13190589--13190623 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13190579 GTTTTTGCAT
*
13190589 CAGCAGCAACAA
1 CAGCAGCAGCAA
13190601 CAGCAGCAGCAA
1 CAGCAGCAGCAA
13190613 CAGCAGCAGCA
1 CAGCAGCAGCA
13190624 GTTGCTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.34, G:0.23, T:0.00
Consensus pattern (12 bp):
CAGCAGCAGCAA
Found at i:13197418 original size:29 final size:30
Alignment explanation
Indices: 13197365--13197437 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
13197355 TGTTTAAATT
*
13197365 TTTTTAT-TTTTTATATATTTAAAATTTAA
1 TTTTTATATTTTTATATATTCAAAATTTAA
13197394 TTTTTATATTTTTAT-T-TTCAGAAATTTAA
1 TTTTTATATTTTTATATATTCA-AAATTTAA
*
13197423 TTCTTATACTTTTTA
1 TTTTTATA-TTTTTA
13197438 ACATGGCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 23 0.59
30 13 0.33
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (30 bp):
TTTTTATATTTTTATATATTCAAAATTTAA
Found at i:13198705 original size:48 final size:48
Alignment explanation
Indices: 13198637--13198964 Score: 229
Period size: 48 Copynumber: 6.9 Consensus size: 48
13198627 GGTGAATTGT
* * * * * **
13198637 CGATGCCTTGTTCCAAACATGGTCTTACATTGGCTCACATGTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGC
** * * * * * *
13198685 CGATGCCATGTCGTAGACATGTTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGC
* * **
13198733 TGATGCCATGTCCCAGACATGGTCTTGCACTGGCTCTCACA-AT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACATATCAAGGC
* * ** * **
13198781 TGATGCCATGTCCTAGACATGGTCTTACACCAGCGCACATATCAATAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGC
* * * * ** *
13198829 CGATGCCATGTCCCAAACATGGTCTTACATTGGCTCACACAACATCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGC
* * * **
13198877 CGATGCCATGTTCCAAACATGGTCTT--AC--GCTCTCATATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGC
*
13198921 CGATGCCATGTCCCAGACATGGT-TCTACACTGGCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCT-TACACTGGCTCACATATCA
13198965 CTCAAATGTC
Statistics
Matches: 210, Mismatches: 61, Indels: 18
0.73 0.21 0.06
Matches are distributed among these distances:
43 1 0.00
44 32 0.15
46 8 0.04
47 2 0.01
48 162 0.77
49 1 0.00
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGC
Found at i:13198807 original size:96 final size:96
Alignment explanation
Indices: 13198685--13198904 Score: 255
Period size: 96 Copynumber: 2.3 Consensus size: 96
13198675 ATGTTGAGGC
* * * * * * * * * *
13198685 CGATGCCATGTCGTAGACATGTTCTTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCCCAGA
1 CGATGCCATGTCCTAGACATGGTCTTACACCAGCGCACATATCAATACCGATGCCATGTCCCAAA
* * ** *
13198750 CATGGTCTTGCACTGGCTCTCACAATGT-GG
66 CATGGTCTTACACTGGCTCACACAACATCGT
13198780 CTGATGCCATGTCCTAGACATGGTCTTACACCAGCGCACATATCAATACCGATGCCATGTCCCAA
1 C-GATGCCATGTCCTAGACATGGTCTTACACCAGCGCACATATCAATACCGATGCCATGTCCCAA
*
13198845 ACATGGTCTTACATTGGCTCACACAACATCGT
65 ACATGGTCTTACACTGGCTCACACAACATCGT
*
13198877 CGATGCCATGTTCC-AAACATGGTCTTAC
1 CGATGCCATG-TCCTAGACATGGTCTTAC
13198905 GCTCTCATAT
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
95 1 0.01
96 99 0.94
97 5 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTCCTAGACATGGTCTTACACCAGCGCACATATCAATACCGATGCCATGTCCCAAA
CATGGTCTTACACTGGCTCACACAACATCGT
Found at i:13206481 original size:48 final size:48
Alignment explanation
Indices: 13206370--13206677 Score: 230
Period size: 48 Copynumber: 6.4 Consensus size: 48
13206360 ATGTCGTGTT
* * ** * *
13206370 CCAAA-ATGGTCTTACAATGGCTCACATATTGAGGACGATGCCATGTC
1 CCAAACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTC
* * ** * * * *
13206417 CTATACACAGTTTTACACTAGCTCCCATCTCAATGCCGATGCCATATC
1 CCAAACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTC
* * * ** * *
13206465 CCATACATGGTCTTACACTGGCTCTCATAAT-GTTTCTGATGCCATGTC
1 CCAAACATGGTCTTACACTAGCTCACAT-ATCAATGCCGATGCCATGTC
* * * *
13206513 TCAAACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCTTATC
1 CCAAACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTC
* * * * *
13206561 CCAGACATGGTCTTACACTGGCTCACACGA-C-ATCACCGATGCCATGTT
1 CCAAACATGGTCTTACACTAGCTCACA-TATCAAT-GCCGATGCCATGTC
* * *
13206609 CCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCCAATGCCATGTC
1 CCAAACATGGTCTTACACTAGCTCACATATCAAT-GCCGATGCCATGTC
* *
13206657 TCAGACATGGTCTTACACTAG
1 CCAAACATGGTCTTACACTAG
13206678 TACGCATATC
Statistics
Matches: 199, Mismatches: 56, Indels: 11
0.75 0.21 0.04
Matches are distributed among these distances:
47 8 0.04
48 189 0.95
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
CCAAACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTC
Found at i:13206546 original size:96 final size:96
Alignment explanation
Indices: 13206429--13206675 Score: 300
Period size: 96 Copynumber: 2.6 Consensus size: 96
13206419 ATACACAGTT
* * * * *
13206429 TTACACTAGCTCCCATCTCAATGCCGATGCCATATCCCATACATGGTCTTACACTGGCTCTCATA
1 TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
** ** *
13206494 ATGTTTCTGATGCCATG-TCTCAAACATGGTC
66 ACATCACCGATGCCATGTTC-CAAACATGGTC
* * *
13206525 TTACACTAGCGCACATATCAATGCCGATGCCTTATCCCAGACATGGTCTTACACTGGCTCACACG
1 TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
13206590 ACATCACCGATGCCATGTTCCAAACATGGTC
66 ACATCACCGATGCCATGTTCCAAACATGGTC
* * * * *
13206621 TTACACTGGCTCTCATATC-ATGGCCAATGCCATGTCTCAGACATGGTCTTACACT
1 TTACACTAGCTCACATATCAAT-GCCGATGCCATATCCCAGACATGGTCTTACACT
13206676 AGTACGCATA
Statistics
Matches: 129, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 2 0.02
96 125 0.97
97 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (96 bp):
TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
ACATCACCGATGCCATGTTCCAAACATGGTC
Found at i:13209921 original size:48 final size:48
Alignment explanation
Indices: 13209850--13209955 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
13209840 CAAGATAAAT
* * *
13209850 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
13209898 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
13209946 ATGTGTATAT
1 ATATGTATAT
13209956 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:13210139 original size:37 final size:37
Alignment explanation
Indices: 13210089--13210160 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
13210079 GAAATATATT
*
13210089 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
13210126 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
13210161 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:13211762 original size:23 final size:24
Alignment explanation
Indices: 13211734--13211778 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13211724 AGAAATTATA
*
13211734 AAAATAAAAT-CTCAAATTTAAGC
1 AAAATAAAATGATCAAATTTAAGC
*
13211757 AAAATATAATGATCAAATTTAA
1 AAAATAAAATGATCAAATTTAA
13211779 AATTTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAATAAAATGATCAAATTTAAGC
Found at i:13216254 original size:74 final size:74
Alignment explanation
Indices: 13216112--13216255 Score: 162
Period size: 74 Copynumber: 1.9 Consensus size: 74
13216102 AAAATATTAG
* * * ** * * **
13216112 AGGGGCCTACTTATATTTTTAAGAGGACTATAATATATATGCCAAGGGGGAAATTGCAAAAATCT
1 AGGGGCCTACTTATATTTTTAAGAGGACCATAATATATATACAAAGGACGAAATAGAAAAAAAAT
13216177 TAAACCTTA
66 TAAACCTTA
* * * * *
13216186 AGGGGCCTACTTATATTTTTAGGAGGGCCATAGTATATTTACAAAGGACTAAATAGAAAAAAAAT
1 AGGGGCCTACTTATATTTTTAAGAGGACCATAATATATATACAAAGGACGAAATAGAAAAAAAAT
13216251 TAAAC
66 TAAAC
13216256 TTTGGGGGGG
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
74 56 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (74 bp):
AGGGGCCTACTTATATTTTTAAGAGGACCATAATATATATACAAAGGACGAAATAGAAAAAAAAT
TAAACCTTA
Found at i:13221555 original size:37 final size:37
Alignment explanation
Indices: 13221505--13221576 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
13221495 TGTTCATTCG
13221505 AAGATCGTCTGACAACATCTTACTTCTTATGGTCTCA
1 AAGATCGTCTGACAACATCTTACTTCTTATGGTCTCA
13221542 AAGATCGTCTGACAACATCTTACTTCTTATGGTCT
1 AAGATCGTCTGACAACATCTTACTTCTTATGGTCT
13221577 ATGTTAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (37 bp):
AAGATCGTCTGACAACATCTTACTTCTTATGGTCTCA
Found at i:13223077 original size:33 final size:33
Alignment explanation
Indices: 13223040--13223107 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
13223030 ATGTACTTGC
*
13223040 TTCATTTCAACAATGTGATGTGCTCTCGTTTGA
1 TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
13223073 TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
1 TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
13223106 TT
1 TT
13223108 TCAAAATTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (33 bp):
TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
Found at i:13238291 original size:1 final size:1
Alignment explanation
Indices: 13238285--13238313 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
13238275 GTTTATGCCG
13238285 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13238314 GTGTTTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13245006 original size:10 final size:9
Alignment explanation
Indices: 13244989--13245057 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 9
13244979 ATGTTTATAG
13244989 TTTTATAAT
1 TTTTATAAT
13244998 TTCTTATAAT
1 TT-TTATAAT
13245008 TTTATATAA-
1 TTT-TATAAT
*
13245017 TTGTATAAT
1 TTTTATAAT
13245026 TGTTTATAAAT
1 T-TTTAT-AAT
* *
13245037 TTATATATT
1 TTTTATAAT
*
13245046 TTTTAAAAT
1 TTTTATAAT
13245055 TTT
1 TTT
13245058 AAATCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 5 0.10
9 17 0.35
10 22 0.46
11 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:13245015 original size:28 final size:28
Alignment explanation
Indices: 13244984--13245048 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
13244974 CTAGAATGTT
* *
13244984 TATAGTTTTATAATT-TCTTATAATTTTA
1 TATAATTTTATAATTGT-TTATAAATTTA
*
13245012 TATAATTGTATAATTGTTTATAAATTTA
1 TATAATTTTATAATTGTTTATAAATTTA
*
13245040 TATATTTTT
1 TATAATTTT
13245049 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (28 bp):
TATAATTTTATAATTGTTTATAAATTTA
Found at i:13245050 original size:19 final size:19
Alignment explanation
Indices: 13245007--13245070 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
13244997 TTTCTTATAA
13245007 TTTTATATAATTGTATA-ATT
1 TTTTATA-AATT-TATATATT
*
13245027 GTTTATAAATTTATATATT
1 TTTTATAAATTTATATATT
* *
13245046 TTTTA-AAATTTTAAATCTT
1 TTTTATAAA-TTTATATATT
13245065 TTTTAT
1 TTTTAT
13245071 TTTCAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 7 0.19
19 24 0.65
20 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAAATTTATATATT
Found at i:13245054 original size:18 final size:17
Alignment explanation
Indices: 13245001--13245056 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
13244991 TTATAATTTC
* *
13245001 TTATAATTTTATATAAT
1 TTATAATTTTTTAAAAT
*
13245018 TGTATAATTGTTTATAAAT
1 T-TATAATTTTTTA-AAAT
13245037 TTATATATTTTTTAAAAT
1 TTATA-ATTTTTTAAAAT
13245055 TT
1 TT
13245057 TAAATCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 20 0.62
19 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TTATAATTTTTTAAAAT
Found at i:13245349 original size:2 final size:2
Alignment explanation
Indices: 13245338--13245371 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13245328 TCTCAAAAAA
*
13245338 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13245372 TCCATCTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13245988 original size:24 final size:24
Alignment explanation
Indices: 13245953--13246005 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
13245943 GGCTTTTCCT
* * *
13245953 TTTTTTTTTTCTCTTTTATATTAG
1 TTTTTTTATTCTCTTTTAAATTAC
*
13245977 TTTTTTTATTCTTTTTTAAATTAC
1 TTTTTTTATTCTCTTTTAAATTAC
13246001 TTTTT
1 TTTTT
13246006 GGACATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTTTTATTCTCTTTTAAATTAC
Found at i:13262959 original size:66 final size:66
Alignment explanation
Indices: 13262834--13262959 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
13262824 CATTCATACA
* * *
13262834 TCATAACACATCTAATTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAGTTATTTGATCCA
1 TCATAACACATCTAACTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGATCCA
13262899 T
66 T
* * * *
13262900 TCATAACACGTCTAGCTAGGAGCATTTGATTCA-TTCTGATCAT-GACATCCTAATCATTTG
1 TCATAACACATCTAACTAAGAGCATTTGATTCATTTC-AATCATAG-CATCCTAATCATTTG
13262960 GCATAAAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
65 4 0.08
66 47 0.92
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (66 bp):
TCATAACACATCTAACTAAGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGATCCA
T
Found at i:13263181 original size:42 final size:42
Alignment explanation
Indices: 13263045--13263368 Score: 219
Period size: 42 Copynumber: 7.5 Consensus size: 42
13263035 AACCTTAAAC
*
13263045 CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
* * * * * * * *
13263087 CCCTAAGCAGCAGAAGTGGAGCAGATCGAA-GACGAAGAACCTTAAAC-
1 CCCTAAGCAGTAG--G-GTAACAGGTTGAATTAC--AG-ATCTT-ATCT
13263134 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
* * * * * ** * *
13263176 CCCTAAGTAGTAGGGAAACAGATCGAA-GACGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAGGTTGAATTAC--A-GATCTTATCT
*
13263220 CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
* * * * * * *
13263262 CCCTAAGCAGAAGTGG-AGCAGATCGAA-GACGAAGAACCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGGTTGAATTAC--AG-ATCTT-ATCT
13263306 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
* *
13263348 CCCTAAGTAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAG
13263369 ATCGAAGACG
Statistics
Matches: 208, Mismatches: 53, Indels: 42
0.69 0.17 0.14
Matches are distributed among these distances:
41 7 0.03
42 88 0.42
43 12 0.06
44 64 0.31
45 17 0.08
46 2 0.01
47 16 0.08
48 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
Found at i:13263232 original size:44 final size:44
Alignment explanation
Indices: 13263019--13263499 Score: 268
Period size: 44 Copynumber: 11.1 Consensus size: 44
13263009 AATGGTGGAG
* *
13263019 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
* * ** * * * * * * *
13263063 CAGGTTGAA-TTGCA-GATCTTATCTCCCTAAGCAGCAGAAGTGGAG
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAG--G-GTAA
* *
13263108 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
* * * * * * * *
13263152 CAGGTTGAATTAC--A-GATCTTATCTCCCTAAGTAGTAGGGAAA
1 CAGATCGAA-GACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
*
13263194 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAA
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
* * ** * * * * * *
13263238 CAGGTTGAA-TTGCA-GATCTTATCTCCCTAAGCAGAAGTGG-AG
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAG-GGTAA
* *
13263280 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
* * * * * * * *
13263324 CAGGTTGAATTAC--A-GATCTTATCTCCCTAAGTAGTAGGGAAA
1 CAGATCGAA-GACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
* *
13263366 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAACAGTAGGGTAA
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
* * **** ** * *
13263410 CAG-GCTAATTTTACA-GATGTTAACCCCCTAAGTAGTAGGGAAA
1 CAGATCGAAGACGA-AGGACCTTAACCCCCTAAGCAGTAGGGTAA
* * * *
13263453 CAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAA
1 CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
13263497 CAG
1 CAG
13263500 GCTGGAAATC
Statistics
Matches: 307, Mismatches: 110, Indels: 40
0.67 0.24 0.09
Matches are distributed among these distances:
41 4 0.01
42 99 0.32
43 43 0.14
44 128 0.42
45 14 0.05
46 2 0.01
47 17 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (44 bp):
CAGATCGAAGACGAAGGACCTTAACCCCCTAAGCAGTAGGGTAA
Found at i:13263254 original size:86 final size:86
Alignment explanation
Indices: 13263019--13263500 Score: 662
Period size: 86 Copynumber: 5.6 Consensus size: 86
13263009 AATGGTGGAG
*
13263019 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTA
1 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTA
* * * *
13263084 TCTCCCTAAGCAGCAGAAGTGGAG
66 TCTCCCTAAGTAGTAG--G-GAAA
13263108 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTA
1 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTA
13263173 TCTCCCTAAGTAGTAGGGAAA
66 TCTCCCTAAGTAGTAGGGAAA
** * *
13263194 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTA
1 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTA
* * *
13263259 TCTCCCTAAGCAGAAGTGG-AG
66 TCTCCCTAAGTAGTAG-GGAAA
13263280 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTA
1 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTA
13263345 TCTCCCTAAGTAGTAGGGAAA
66 TCTCCCTAAGTAGTAGGGAAA
** * * * *
13263366 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAACAGTAGGGTAACAGGCT-AATTTTACAGATGT
1 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA--TTACAGATCT
* *
13263430 TAACCCCCTAAGTAGTAGGGAAA
64 TATCTCCCTAAGTAGTAGGGAAA
* * ** * *
13263453 CAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGG
1 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGG
13263501 CTGGAAATCA
Statistics
Matches: 358, Mismatches: 31, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
85 4 0.01
86 199 0.56
87 77 0.22
89 78 0.22
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (86 bp):
CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTA
TCTCCCTAAGTAGTAGGGAAA
Found at i:13263335 original size:172 final size:172
Alignment explanation
Indices: 13263019--13263500 Score: 734
Period size: 172 Copynumber: 2.8 Consensus size: 172
13263009 AATGGTGGAG
** *
13263019 CAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTA
1 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTA
13263084 TCTCCCTAAGCAGCAGAAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGG
66 TCTCCCT-A--AGCAGAAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGG
13263149 TAACAGGTTGAATTACAGATCTTATCTCCCTAAGTAGTAGGGAAA
128 TAACAGGTTGAATTACAGATCTTATCTCCCTAAGTAGTAGGGAAA
13263194 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTA
1 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTA
13263259 TCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAA
66 TCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAA
13263324 CAGGTTGAATTACAGATCTTATCTCCCTAAGTAGTAGGGAAA
131 CAGGTTGAATTACAGATCTTATCTCCCTAAGTAGTAGGGAAA
* * * *
13263366 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAACAGTAGGGTAACAGGCT-AATTTTACAGATGT
1 CAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA--TTGCAGATCT
* * * * * * * ** * *
13263430 TAACCCCCTAAGTAGTAG-GGAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGG
64 TATCTCCCTAAGCAGAAGTGG-AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGG
13263494 TAACAGG
128 TAACAGG
13263501 CTGGAAATCA
Statistics
Matches: 286, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
171 2 0.01
172 149 0.52
173 65 0.23
174 1 0.00
175 69 0.24
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (172 bp):
CAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTA
TCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAA
CAGGTTGAATTACAGATCTTATCTCCCTAAGTAGTAGGGAAA
Found at i:13264560 original size:35 final size:36
Alignment explanation
Indices: 13264502--13264576 Score: 107
Period size: 35 Copynumber: 2.0 Consensus size: 36
13264492 TTATTTTGAA
*
13264502 ATCTATCTCAAAAACAAAAAAAAAAAGAAAGTGAAAGAG
1 ATCTATCTCAAAAAC---AAAAAAAAGAAAGCGAAAGAG
13264541 ATCTATCTCAAAAAC-AAAAAAAGAAAGCGAAAGAG
1 ATCTATCTCAAAAACAAAAAAAAGAAAGCGAAAGAG
13264576 A
1 A
13264577 GGTTTACCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
35 20 0.57
39 15 0.43
ACGTcount: A:0.63, C:0.12, G:0.13, T:0.12
Consensus pattern (36 bp):
ATCTATCTCAAAAACAAAAAAAAGAAAGCGAAAGAG
Found at i:13269763 original size:46 final size:46
Alignment explanation
Indices: 13269711--13269892 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
13269701 AGTGTGCTCT
*
13269711 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
13269757 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
13269803 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
13269849 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
13269893 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13270781 original size:26 final size:26
Alignment explanation
Indices: 13270745--13270796 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
13270735 AAGGAAAGAA
13270745 AGAATATTAGAATTCGATGATATGAT
1 AGAATATTAGAATTCGATGATATGAT
*
13270771 AGAATATTAGAATTTGATGATATGAT
1 AGAATATTAGAATTCGATGATATGAT
13270797 TTCCAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (26 bp):
AGAATATTAGAATTCGATGATATGAT
Found at i:13272265 original size:26 final size:26
Alignment explanation
Indices: 13272235--13272293 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
13272225 AAAATTCAAA
* *
13272235 AAAAATTATAAAAACTTTTTAAAAATT
1 AAAAATCATAAAAA-TTGTTAAAAATT
*
13272262 AAAAATCATTAAAATTGTTAAAAATT
1 AAAAATCATAAAAATTGTTAAAAATT
13272288 ATAAAA
1 A-AAAA
13272294 ATACAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (26 bp):
AAAAATCATAAAAATTGTTAAAAATT
Found at i:13276556 original size:21 final size:21
Alignment explanation
Indices: 13276530--13276572 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13276520 GTGGAAAATG
13276530 GTGCTCGCACTGGCATTTGCA
1 GTGCTCGCACTGGCATTTGCA
13276551 GTGCTCGCACTGGCATTTGCA
1 GTGCTCGCACTGGCATTTGCA
13276572 G
1 G
13276573 GCTATGTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (21 bp):
GTGCTCGCACTGGCATTTGCA
Found at i:13281335 original size:30 final size:30
Alignment explanation
Indices: 13281301--13281363 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13281291 ACTTATTTTA
13281301 TTGTTAATTTTGTTATTATTTTAAAAGCAT
1 TTGTTAATTTTGTTATTATTTTAAAAGCAT
* *
13281331 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAAGCAT
13281361 TTG
1 TTG
13281364 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAGCAT
Found at i:13281500 original size:11 final size:11
Alignment explanation
Indices: 13281484--13281514 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13281474 TATATAAATT
13281484 TAAAAATTATA
1 TAAAAATTATA
*
13281495 TAAAAATAATA
1 TAAAAATTATA
13281506 TAAAAATTA
1 TAAAAATTA
13281515 ATATGGGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:13281511 original size:12 final size:11
Alignment explanation
Indices: 13281484--13281518 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
13281474 TATATAAATT
*
13281484 TAAAAATTATA
1 TAAAAATAATA
13281495 TAAAAATAATA
1 TAAAAATAATA
13281506 TAAAAATTAATA
1 TAAAAA-TAATA
13281518 T
1 T
13281519 GGGTCAGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Done.