Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 235 of 344
Found at i:77792343 original size:25 final size:25
Alignment explanation
Indices: 77792310--77792388 Score: 131
Period size: 25 Copynumber: 3.2 Consensus size: 25
77792300 AATATCCAAA
77792310 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
77792335 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
* * *
77792360 AAAATAAAATAAAAAATAATAAAAG
1 AAAATAAAGTAATAAATAATAAAAT
77792385 AAAA
1 AAAA
77792389 AGAAAAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (25 bp):
AAAATAAAGTAATAAATAATAAAAT
Found at i:77792363 original size:30 final size:33
Alignment explanation
Indices: 77792313--77792372 Score: 99
Period size: 30 Copynumber: 1.9 Consensus size: 33
77792303 ATCCAAAAAA
77792313 ATAAAGTAATAAATAATAAAATAAAATAAAGTA
1 ATAAAGTAATAAATAATAAAATAAAATAAAGTA
77792346 ATAAA-TAAT-AA-AATAAAATAAAATAAA
1 ATAAAGTAATAAATAATAAAATAAAATAAA
77792373 AAATAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 16 0.59
31 2 0.07
32 4 0.15
33 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (33 bp):
ATAAAGTAATAAATAATAAAATAAAATAAAGTA
Found at i:77792403 original size:15 final size:14
Alignment explanation
Indices: 77792307--77792403 Score: 70
Period size: 15 Copynumber: 6.3 Consensus size: 14
77792297 ATTAATATCC
*
77792307 AAAAAAATAAAGTA
1 AAAAAAATAAAATA
*
77792321 ATAAATAATAAAATAA
1 A-AAAAAATAAAAT-A
77792337 AATAAAGTAATAAATAATA
1 AA-AAA--AAT-AA-AATA
77792356 AAATAAAATAAAATA
1 AAA-AAAATAAAATA
*
77792371 AAAAATAATAAAAGA
1 AAAAA-AATAAAATA
77792386 AAAAGAAA-AAAATA
1 AAAA-AAATAAAATA
77792400 AAAA
1 AAAA
77792404 TTGGGTTGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
14 12 0.18
15 32 0.47
16 7 0.10
17 3 0.04
18 4 0.06
19 7 0.10
20 3 0.04
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:77796223 original size:28 final size:28
Alignment explanation
Indices: 77796168--77796225 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
77796158 CTGGGTTATA
* * *
77796168 TGTATTTGCAAATGGGTTATATCGCCTT
1 TGTATTTGCAAAGGGGTCATATCACCTT
*
77796196 TGTATTTGCAAAGGGGTCATATTACCTT
1 TGTATTTGCAAAGGGGTCATATCACCTT
77796224 TG
1 TG
77796226 GGGCGGTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (28 bp):
TGTATTTGCAAAGGGGTCATATCACCTT
Found at i:77796434 original size:43 final size:43
Alignment explanation
Indices: 77796386--77796472 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
77796376 TTTAGTAAGT
77796386 CTATCAACTTTATCTTCTAAGGTTGAATTACTTAGCTGGTAAA
1 CTATCAACTTTATCTTCTAAGGTTGAATTACTTAGCTGGTAAA
*
77796429 CTATCAACTTTATCTTCTAAGGTTGAATTATTTAGCTGGTAAA
1 CTATCAACTTTATCTTCTAAGGTTGAATTACTTAGCTGGTAAA
77796472 C
1 C
77796473 CCTTCTAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (43 bp):
CTATCAACTTTATCTTCTAAGGTTGAATTACTTAGCTGGTAAA
Found at i:77798332 original size:18 final size:18
Alignment explanation
Indices: 77798284--77798332 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
77798274 ATTCATTCCT
77798284 AATTAAATTCTAAAAGATA
1 AATTAAA-TCTAAAAGATA
** *
77798303 AA-TAAAGATAAAAGCTA
1 AATTAAATCTAAAAGATA
77798320 AATTAAATCTAAA
1 AATTAAATCTAAA
77798333 TAATAATCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 10 0.42
18 12 0.50
19 2 0.08
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (18 bp):
AATTAAATCTAAAAGATA
Found at i:77804344 original size:34 final size:34
Alignment explanation
Indices: 77804292--77804430 Score: 129
Period size: 34 Copynumber: 4.1 Consensus size: 34
77804282 ATATGACATA
* *
77804292 CTTATAATAGATCAATACGATAACAATTAATATG
1 CTTATAACAGATCAATACGGTAACAATTAATATG
** ** *
77804326 CTTATAACAGATTGATACGGTAGTAATTAATATA
1 CTTATAACAGATCAATACGGTAACAATTAATATG
* * *
77804360 CTTAAAATAGATCAATA--GTAACACTTAATATG
1 CTTATAACAGATCAATACGGTAACAATTAATATG
* ** * *
77804392 CTTATAGCAGATTGATACGGTAACAAATAATGTG
1 CTTATAACAGATCAATACGGTAACAATTAATATG
77804426 CTTAT
1 CTTAT
77804431 GATAAATCAA
Statistics
Matches: 80, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
32 23 0.29
34 57 0.71
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (34 bp):
CTTATAACAGATCAATACGGTAACAATTAATATG
Found at i:77804440 original size:66 final size:68
Alignment explanation
Indices: 77804289--77804441 Score: 202
Period size: 66 Copynumber: 2.3 Consensus size: 68
77804279 GCAATATGAC
** *
77804289 ATACTTATAATAGATCAATACGATAACAATTAATATGCTTATAACAGATTGATACGGTAGTAATT
1 ATACTTATAATAGATCAATACGATAACAATTAATATGCTTATAACAGATTGATACGGTAACAAAT
77804354 AAT
66 AAT
* * *
77804357 ATACTTAAAATAGATCAATA-G-TAACACTTAATATGCTTATAGCAGATTGATACGGTAACAAAT
1 ATACTTATAATAGATCAATACGATAACAATTAATATGCTTATAACAGATTGATACGGTAACAAAT
77804420 AAT
66 AAT
* * * *
77804423 GTGCTTATGATAAATCAAT
1 ATACTTATAATAGATCAAT
77804442 TTAATAGAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 54 0.73
67 1 0.01
68 19 0.26
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (68 bp):
ATACTTATAATAGATCAATACGATAACAATTAATATGCTTATAACAGATTGATACGGTAACAAAT
AAT
Found at i:77807485 original size:40 final size:40
Alignment explanation
Indices: 77807246--77807471 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
77807236 TTAAATGATG
* * * *
77807246 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
77807286 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77807326 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
77807366 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77807406 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
77807447 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77807472 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 9 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77815386 original size:40 final size:40
Alignment explanation
Indices: 77815246--77815494 Score: 223
Period size: 40 Copynumber: 6.7 Consensus size: 40
77815236 TTTAATGATG
* * * *
77815246 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
77815286 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
77815325 TCC-GACTAAGT-CCGAAGGCATTTCTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77815363 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77815403 TCCGGGTTAAGTCCCGAA-G-A-TTGTGCGAG-T--TAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77815437 T-C-GG-TTAGTCCCG-A-GCATTTGT--G-GTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
77815470 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77815495 AACGAGTAGC
Statistics
Matches: 179, Mismatches: 14, Indels: 35
0.79 0.06 0.15
Matches are distributed among these distances:
29 1 0.01
30 4 0.02
31 9 0.05
32 8 0.04
33 4 0.02
34 7 0.04
35 7 0.04
36 2 0.01
37 39 0.22
38 13 0.07
39 11 0.06
40 67 0.37
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77820120 original size:39 final size:38
Alignment explanation
Indices: 77820044--77820165 Score: 176
Period size: 38 Copynumber: 3.2 Consensus size: 38
77820034 GGACATTAGC
* * * *
77820044 CCGGACATATTTCCAGCACGTAGCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCTGCGGACCCTAAGT
77820082 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAG-CTGCGGACCCTAAGT
77820121 CCGGATAT-ATTCCAGCACATAGCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCTGCGGACCCTAAGT
*
77820158 TC-GATATA
1 CCGGATATA
77820166 CATCACTGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
36 5 0.06
37 16 0.21
38 34 0.44
39 22 0.29
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (38 bp):
CCGGATATAATTCCAGCACATAGCTGCGGACCCTAAGT
Found at i:77823954 original size:16 final size:18
Alignment explanation
Indices: 77823933--77823967 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
77823923 AAAAGAAAAT
77823933 AAAATAAAT-TGC-AATA
1 AAAATAAATATGCTAATA
77823949 AAAATAAATATGCTAATA
1 AAAATAAATATGCTAATA
77823967 A
1 A
77823968 TAAAAATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAATAAATATGCTAATA
Found at i:77830337 original size:10 final size:10
Alignment explanation
Indices: 77830322--77830346 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
77830312 ATGGCTTACT
77830322 AAGCTTTTGA
1 AAGCTTTTGA
77830332 AAGCTTTTGA
1 AAGCTTTTGA
77830342 AAGCT
1 AAGCT
77830347 ACCAGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (10 bp):
AAGCTTTTGA
Found at i:77841125 original size:23 final size:23
Alignment explanation
Indices: 77841088--77841131 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
77841078 ATATATGTGG
** *
77841088 AAAATGAAACCAAAACAGAATTT
1 AAAATGAAAAAAAAAAAGAATTT
77841111 AAAATGAAAAAAAAAAAGAAT
1 AAAATGAAAAAAAAAAAGAAT
77841132 AATCACCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (23 bp):
AAAATGAAAAAAAAAAAGAATTT
Found at i:77844532 original size:51 final size:50
Alignment explanation
Indices: 77844436--77844533 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 50
77844426 GCCTTATATC
* * * *
77844436 TCAGTTAAATTTGAGAGATAATCTCTCAGTTGAACTCTGTTTTATTTGTT
1 TCAGTTAAATTTGAGAGATAATCTCCCAGTTAAACTATGTATTATTTGTT
* *
77844486 TCAGTTGAACTTTGAGAGCTAATCTCCCAGTTAAACTATAG-ATTATTT
1 TCAGTT-AAATTTGAGAGATAATCTCCCAGTTAAACTAT-GTATTATTT
77844534 TACAACCTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 6 0.15
51 33 0.82
52 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (50 bp):
TCAGTTAAATTTGAGAGATAATCTCCCAGTTAAACTATGTATTATTTGTT
Found at i:77847449 original size:21 final size:21
Alignment explanation
Indices: 77847427--77847467 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77847417 AAAATACATA
77847427 AAAAACTTA-AAAAAATTATT
1 AAAAACTTATAAAAAATTATT
**
77847447 AAAATTTTATAAAAAATTATT
1 AAAAACTTATAAAAAATTATT
77847468 TCTCATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAACTTATAAAAAATTATT
Found at i:77847669 original size:11 final size:11
Alignment explanation
Indices: 77847655--77847697 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
77847645 TTATTTTTTA
77847655 TAATTTTTAAT
1 TAATTTTTAAT
*
77847666 TAATTTCTAAT
1 TAATTTTTAAT
*
77847677 AAATTTTATAGAT
1 TAATTTT-TA-AT
77847690 TAATTTTT
1 TAATTTTT
77847698 TCTATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 15 0.58
12 3 0.12
13 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
TAATTTTTAAT
Found at i:77847738 original size:16 final size:17
Alignment explanation
Indices: 77847713--77847745 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
77847703 TTTTTTATGA
77847713 TTTTTAATAAA-TTCAT
1 TTTTTAATAAAGTTCAT
*
77847729 TTTTTTATAAAGTTCAT
1 TTTTTAATAAAGTTCAT
77847746 AAAATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTTAATAAAGTTCAT
Found at i:77847943 original size:32 final size:32
Alignment explanation
Indices: 77847907--77847978 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
77847897 TTTGATGTTG
77847907 TGGCATTGCCACGTAAGCAATCAATGATGACA
1 TGGCATTGCCACGTAAGCAATCAATGATGACA
* * * **
77847939 TGGCATTACCATGTCAGCCTTCAATGATGACA
1 TGGCATTGCCACGTAAGCAATCAATGATGACA
*
77847971 TGGAATTG
1 TGGCATTG
77847979 TCATGTCGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (32 bp):
TGGCATTGCCACGTAAGCAATCAATGATGACA
Found at i:77849349 original size:14 final size:15
Alignment explanation
Indices: 77849330--77849359 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77849320 CTCCAACTGG
77849330 CCAAGAA-AGAAAAA
1 CCAAGAAGAGAAAAA
77849344 CCAAGAAGAGAAAAA
1 CCAAGAAGAGAAAAA
77849359 C
1 C
77849360 TTTATTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (15 bp):
CCAAGAAGAGAAAAA
Found at i:77859244 original size:28 final size:28
Alignment explanation
Indices: 77859187--77859394 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
77859177 TAAATTGTGC
*
77859187 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77859214 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77859242 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77859270 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77859298 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
77859325 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
77859353 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
77859380 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77859395 GACTTAATAT
Statistics
Matches: 175, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
27 66 0.38
28 109 0.62
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:77859251 original size:55 final size:55
Alignment explanation
Indices: 77859187--77859394 Score: 362
Period size: 55 Copynumber: 3.8 Consensus size: 55
77859177 TAAATTGTGC
*
77859187 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
77859242 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
77859298 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
77859353 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
77859395 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
55 92 0.63
56 55 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:77867463 original size:28 final size:28
Alignment explanation
Indices: 77867406--77867613 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
77867396 TAAATTGTGC
*
77867406 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77867433 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77867461 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77867489 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
77867517 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
77867544 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
77867572 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
77867599 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77867614 GACTTAATAT
Statistics
Matches: 175, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
27 66 0.38
28 109 0.62
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:77867470 original size:55 final size:55
Alignment explanation
Indices: 77867406--77867613 Score: 362
Period size: 55 Copynumber: 3.8 Consensus size: 55
77867396 TAAATTGTGC
*
77867406 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
77867461 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
77867517 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
77867572 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
77867614 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
55 92 0.63
56 55 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:77870762 original size:46 final size:46
Alignment explanation
Indices: 77870618--77870824 Score: 188
Period size: 46 Copynumber: 4.5 Consensus size: 46
77870608 CGTGCTGACA
* ** *
77870618 CATGTCCCAGACATGTCTTACACTAG--CACATCTCGTAACCGACG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCGTGGCCGATG
* * * * *
77870662 CATGTCCCAGACATGTCTGACATTGGCTAACATCTCGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCGTGGCCGATG
* * *
77870708 CATATCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACAT-CTCGTGGCCGATG
* * * * * *
77870754 CATGTCCCAGACATATCTTACACTAGCCCTCGTCTCAAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTC-GTGGCCGATG
*
77870800 CCATGTCCCATACATGTCTTACACT
1 -CATGTCCCAGACATGTCTTACACT
77870825 AGCACACAAA
Statistics
Matches: 131, Mismatches: 26, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
44 23 0.18
45 2 0.02
46 81 0.62
47 25 0.19
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTCGTGGCCGATG
Found at i:77872879 original size:46 final size:45
Alignment explanation
Indices: 77872829--77873004 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
77872819 TGTTTGGGCA
77872829 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
77872875 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
77872922 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
77872968 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77873005 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:77872984 original size:93 final size:93
Alignment explanation
Indices: 77872825--77872997 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
77872815 AGGATGTTTG
* *
77872825 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
77872890 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
77872918 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
77872983 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
77872998 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:77880122 original size:52 final size:52
Alignment explanation
Indices: 77880040--77880241 Score: 255
Period size: 52 Copynumber: 3.9 Consensus size: 52
77880030 AACACGTTAG
* *
77880040 GAAATGGAAGCCTTTATGGCGTAT-TCGAAATGGAAGCCTTTGTGGCGTATCC
1 GAAATAGAAGCCTTTATGGCATATCT-GAAATGGAAGCCTTTGTGGCGTATCC
* ** * * * * *
77880092 GAAATAGAAGCCTTTGTGGTGTATCAGAAATAGAAACTTTTGTGGCATATCC
1 GAAATAGAAGCCTTTATGGCATATCTGAAATGGAAGCCTTTGTGGCGTATCC
77880144 GAAATAGAAGCCTTTATGGCATATCTGAAATGGAAGCCTTTGTGGCGTATCC
1 GAAATAGAAGCCTTTATGGCATATCTGAAATGGAAGCCTTTGTGGCGTATCC
* * *
77880196 GAAATATAAGCCTTTGTGGTATATCTGAAATGGAAG-CTTTCGTGGC
1 GAAATAGAAGCCTTTATGGCATATCTGAAATGGAAGCCTTT-GTGGC
77880242 ATTTTCCGAA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
51 4 0.03
52 125 0.97
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (52 bp):
GAAATAGAAGCCTTTATGGCATATCTGAAATGGAAGCCTTTGTGGCGTATCC
Found at i:77880220 original size:26 final size:26
Alignment explanation
Indices: 77880040--77880252 Score: 221
Period size: 26 Copynumber: 8.2 Consensus size: 26
77880030 AACACGTTAG
* * * *
77880040 GAAATGGAAGCCTTTATGGCGTATTC
1 GAAATAGAAGCCTTTGTGGCATATCC
* *
77880066 GAAATGGAAGCCTTTGTGGCGTATCC
1 GAAATAGAAGCCTTTGTGGCATATCC
** *
77880092 GAAATAGAAGCCTTTGTGGTGTATCA
1 GAAATAGAAGCCTTTGTGGCATATCC
* *
77880118 GAAATAGAAACTTTTGTGGCATATCC
1 GAAATAGAAGCCTTTGTGGCATATCC
* *
77880144 GAAATAGAAGCCTTTATGGCATATCT
1 GAAATAGAAGCCTTTGTGGCATATCC
* *
77880170 GAAATGGAAGCCTTTGTGGCGTATCC
1 GAAATAGAAGCCTTTGTGGCATATCC
* * *
77880196 GAAATATAAGCCTTTGTGGTATATCT
1 GAAATAGAAGCCTTTGTGGCATATCC
* *
77880222 GAAATGGAAG-CTTTCGTGGCATTTTCC
1 GAAATAGAAGCCTTT-GTGGCA-TATCC
77880249 GAAA
1 GAAA
77880253 CAATGGCCCT
Statistics
Matches: 157, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
25 4 0.03
26 146 0.93
27 7 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (26 bp):
GAAATAGAAGCCTTTGTGGCATATCC
Found at i:77882886 original size:25 final size:25
Alignment explanation
Indices: 77882857--77882907 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
77882847 AAGAATAATT
**
77882857 TGAATATCTGATATTGCCTAATAAA
1 TGAATATCCAATATTGCCTAATAAA
* *
77882882 TGAATATCCAATATTGCTTAGTAAA
1 TGAATATCCAATATTGCCTAATAAA
77882907 T
1 T
77882908 ATCAAGCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (25 bp):
TGAATATCCAATATTGCCTAATAAA
Found at i:77884636 original size:23 final size:22
Alignment explanation
Indices: 77884606--77884670 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
77884596 GCTTTGCCGA
77884606 TTAGGCACTTTATGTGTCGTATT
1 TTAGGCAC-TTATGTGTCGTATT
* *
77884629 TTAGGCACCT-CGTGT-GTCATT
1 TTAGGCACTTATGTGTCGT-ATT
*
77884650 TCAGGCACTTATGTGTCGTAT
1 TTAGGCACTTATGTGTCGTAT
77884671 ACTGATCAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.06
21 15 0.44
22 7 0.21
23 10 0.29
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (22 bp):
TTAGGCACTTATGTGTCGTATT
Found at i:77885565 original size:22 final size:22
Alignment explanation
Indices: 77885539--77885606 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
77885529 TCTTTGATTA
*
77885539 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
77885561 TTAGCACATT-GTGCTATCTGT
1 TTAGCACATTAGTGCTCTCTGT
* * *
77885582 ATAACACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
77885604 TTA
1 TTA
77885607 ATAGTGCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 16 0.42
22 22 0.58
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:77890687 original size:21 final size:21
Alignment explanation
Indices: 77890650--77890689 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77890640 TTTCGAAGAA
*
77890650 ATGAATTGAGTTCAATTGAGT
1 ATGAATTGAGTTAAATTGAGT
77890671 ATGAATT-AGATTAAATTGA
1 ATGAATTGAG-TTAAATTGA
77890690 TGTTAAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.38
Consensus pattern (21 bp):
ATGAATTGAGTTAAATTGAGT
Found at i:77898930 original size:27 final size:27
Alignment explanation
Indices: 77898892--77899006 Score: 108
Period size: 27 Copynumber: 4.2 Consensus size: 27
77898882 GTGTCTCACA
77898892 ACTATCTTATGTGGAAAGTCCGTCGGG
1 ACTATCTTATGTGGAAAGTCCGTCGGG
* ** *
77898919 ACTATCTTATGTGGGAAGTCCACCGAG
1 ACTATCTTATGTGGAAAGTCCGTCGGG
* *
77898946 ACTATCTTTTGTGG-AAGTCTGT-GAGG
1 ACTATCTTATGTGGAAAGTCCGTCG-GG
* * *
77898972 ACTATCTAATATGGGGAAAGTCCTTCAGG
1 ACTATCT--TATGTGGAAAGTCCGTCGGG
77899001 ACTATC
1 ACTATC
77899007 GTTGTGAGGA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.01
26 13 0.19
27 36 0.52
28 5 0.07
29 14 0.20
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (27 bp):
ACTATCTTATGTGGAAAGTCCGTCGGG
Found at i:77901529 original size:17 final size:18
Alignment explanation
Indices: 77901507--77901545 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
77901497 TAATACATAA
*
77901507 TATTTAAAGCTAT-TTAT
1 TATTTAAAACTATATTAT
*
77901524 TATTTAAAACTTTATTAT
1 TATTTAAAACTATATTAT
77901542 TATT
1 TATT
77901546 ATTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (18 bp):
TATTTAAAACTATATTAT
Found at i:77901541 original size:3 final size:3
Alignment explanation
Indices: 77901535--77901579 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
77901525 ATTTAAAACT
77901535 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
77901580 GCATGAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:77903254 original size:15 final size:17
Alignment explanation
Indices: 77903223--77903256 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
77903213 ATGCATTATG
77903223 TTTAAAATTATTTATTA
1 TTTAAAATTATTTATTA
77903240 TTTAAAA-TA-TTATTA
1 TTTAAAATTATTTATTA
77903255 TT
1 TT
77903257 ATCAATGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAAATTATTTATTA
Found at i:77903363 original size:26 final size:26
Alignment explanation
Indices: 77903327--77903376 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
77903317 TAACTAAAAC
77903327 GGAAGTATTTTGAAAGTCAAAGAAAT
1 GGAAGTATTTTGAAAGTCAAAGAAAT
*
77903353 GGAAGTATTTTGAAAGTTAAAGAA
1 GGAAGTATTTTGAAAGTCAAAGAA
77903377 CTATCCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (26 bp):
GGAAGTATTTTGAAAGTCAAAGAAAT
Found at i:77904453 original size:30 final size:32
Alignment explanation
Indices: 77904419--77904478 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
77904409 AAAAGTTATT
*
77904419 TTTATTTAATTATAA-TA-TATATTTTTTAAA
1 TTTATTTAATTAAAACTATTATATTTTTTAAA
*
77904449 TTTATTTTATTAAAACTATTTATATTTTTT
1 TTTATTTAATTAAAACTA-TTATATTTTTT
77904479 TTACAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.52
31 2 0.08
33 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTATTTAATTAAAACTATTATATTTTTTAAA
Found at i:77904537 original size:15 final size:15
Alignment explanation
Indices: 77904506--77904555 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
77904496 TCCATATTCC
*
77904506 ATTTTTATATTATTT
1 ATTTTTATATTAATT
77904521 ATTTTTA-ATATAATT
1 ATTTTTATAT-TAATT
*
77904536 ATTATTT-TTTTAATT
1 ATT-TTTATATTAATT
77904551 ATTTT
1 ATTTT
77904556 AAAAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.13
15 22 0.73
16 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTATATTAATT
Found at i:77904742 original size:21 final size:22
Alignment explanation
Indices: 77904687--77904742 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
77904677 TCTGAAATAT
*
77904687 ATATATGAAA-AATACTTTAAA
1 ATATATAAAATAATACTTTAAA
* *
77904708 ATTTTATCAAATAATA-TTTAAA
1 A-TATATAAAATAATACTTTAAA
77904730 ATATATAAAATAA
1 ATATATAAAATAA
77904743 AGTTCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.38
22 14 0.48
23 4 0.14
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATATAAAATAATACTTTAAA
Found at i:77917965 original size:13 final size:13
Alignment explanation
Indices: 77917947--77917973 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77917937 GAAGTAATCA
77917947 CACACGGGCGTGT
1 CACACGGGCGTGT
77917960 CACACGGGCGTGT
1 CACACGGGCGTGT
77917973 C
1 C
77917974 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:77939236 original size:39 final size:40
Alignment explanation
Indices: 77939191--77939357 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
77939181 CGGGGTTTAG
* * *
77939191 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
77939230 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
77939270 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * *
77939310 CCGGATGTAGTCGCTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
77939350 CCGGATAT
1 CCGGATAT
77939358 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
39 18 0.17
40 79 0.72
41 12 0.11
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:77939261 original size:40 final size:40
Alignment explanation
Indices: 77939214--77939357 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
77939204 CTCGCACAAG
* * * * *
77939214 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
77939254 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
77939294 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
77939334 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
77939358 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 77 0.84
41 12 0.13
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:77941189 original size:39 final size:40
Alignment explanation
Indices: 77941081--77941379 Score: 360
Period size: 40 Copynumber: 7.6 Consensus size: 40
77941071 TTGAATGCTG
* * * * * *
77941081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
77941121 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
77941161 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
77941200 TCC-GGTTAAGT-CCGAAGGCATTCGTGCGAGTTATT-AA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
77941237 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
77941277 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
77941317 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
77941356 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
77941380 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
37 5 0.02
38 40 0.17
39 84 0.36
40 98 0.42
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:77941349 original size:79 final size:79
Alignment explanation
Indices: 77941081--77941379 Score: 356
Period size: 79 Copynumber: 3.8 Consensus size: 79
77941071 TTGAATGCTG
* * * * * * * *
77941081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCGAAGGCATT
* * *
77941145 TGTGCGAGATACTAAA
64 CGTGCGAGTTATTAAA
77941161 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCC-GGTTAAGTCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
77941224 TGCGAGTTATT-AA
66 TGCGAGTTATTAAA
*
77941237 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCATTC
*
77941302 GTGCGAGTTGTTAAA
65 GTGCGAGTTATTAAA
* * * * * *
77941317 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCATT
77941380 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
76 14 0.07
77 50 0.26
78 14 0.07
79 74 0.38
80 42 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
TGCGAGTTATTAAA
Found at i:77941399 original size:79 final size:79
Alignment explanation
Indices: 77941081--77941414 Score: 333
Period size: 79 Copynumber: 4.3 Consensus size: 79
77941071 TTGAATGCTG
* * * * * * * *
77941081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
77941144 TTGTGCGAGATACTAAA
64 TCGTGCGAG-TAGTTAA
77941161 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCC-GGTTAAGT-CCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
77941223 GTGCGAGTTA-TTAA
66 GTGCGAG-TAGTTAA
*
77941237 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
77941302 GTGCGAGTTGTTAAA
66 GTGCGAGTAGTT-AA
* * * * * * *
77941317 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
** * *
77941381 GAACGAGGAGCTATA
66 GTGCGAGTAGTTA-A
*
77941396 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77941415 TACGTGATTT
Statistics
Matches: 219, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
76 15 0.07
77 49 0.22
78 30 0.14
79 83 0.38
80 42 0.19
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTAGTTAA
Found at i:77949102 original size:40 final size:40
Alignment explanation
Indices: 77949019--77949360 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
77949009 TTGAATGCTG
* * * * * *
77949019 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
77949059 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
77949099 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
77949139 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
77949179 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
77949219 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
77949259 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
77949298 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
77949337 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
77949361 TGAACGAGGA
Statistics
Matches: 279, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 72 0.26
40 199 0.71
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:77950807 original size:26 final size:26
Alignment explanation
Indices: 77950761--77950910 Score: 239
Period size: 26 Copynumber: 5.8 Consensus size: 26
77950751 CCTTTTCAAT
77950761 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
77950786 AACTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
77950812 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
77950838 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
77950864 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
77950890 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
77950911 GCACTTCCTC
Statistics
Matches: 113, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 10 0.09
26 103 0.91
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:77950832 original size:52 final size:52
Alignment explanation
Indices: 77950751--77950910 Score: 288
Period size: 52 Copynumber: 3.1 Consensus size: 52
77950741 TTACACCTAG
77950751 CCTTTTCAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
*
77950801 CATTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
*
77950853 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
77950905 CCTTTT
1 CCTTTT
77950911 GCACTTCCTC
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 9 0.09
51 10 0.10
52 86 0.82
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (52 bp):
CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
Found at i:77951862 original size:27 final size:27
Alignment explanation
Indices: 77951832--77952088 Score: 151
Period size: 27 Copynumber: 9.4 Consensus size: 27
77951822 GTAAATCAAC
* *
77951832 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
77951859 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * *
77951887 AAAGTCAAGGGTATTTCTA-TAACTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* * ** *
77951915 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * *
77951942 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** * *
77951969 AAACCAAGGGTATTTTGGTAAATTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
77951996 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
77952023 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* ** *
77952050 AAATCAAGGGTAAAAT-AGTAATTTTGT
1 AAACCAAGGGT-ATTTCAGTAATTTTAT
*
77952077 AAATCAAGGGTA
1 AAACCAAGGGTA
77952089 AAATAGTAAT
Statistics
Matches: 191, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 158 0.83
28 16 0.08
29 16 0.08
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:77952061 original size:54 final size:54
Alignment explanation
Indices: 77951809--77952061 Score: 213
Period size: 54 Copynumber: 4.6 Consensus size: 54
77951799 TTTCATCCTA
* * ** * * * **
77951809 CAAGGGTGTTTTGGTAAATCAACAAACCAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
* * * ** * ** *
77951863 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTACAAAC
* **
77951919 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
* * *
77951973 CAAGGGTATTTTGGTAAATTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTCGGTAATTTTACAAAC
* **
77952027 CAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTA
77952062 AAATAGTAAT
Statistics
Matches: 157, Mismatches: 36, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
54 107 0.68
55 16 0.10
56 34 0.22
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAAC
Found at i:77952088 original size:81 final size:81
Alignment explanation
Indices: 77951910--77952088 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 81
77951900 TTTCTATAAC
*** *
77951910 TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCA
1 TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCA
*** *
77951975 AGGGTATTTTGGTAAA
66 AGGGTAAAATAGTAAA
** * ** *
77951991 TTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATC
1 TTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACC
*
77952055 AAGGGTAAAATAGTAAT
65 AAGGGTAAAATAGTAAA
*
77952072 TTTGTAAATCAAGGGTA
1 TTTGTAAATCAGGGGTA
77952089 AAATAGTAAT
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
80 1 0.01
81 76 0.97
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (81 bp):
TTTGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACCA
AGGGTAAAATAGTAAA
Found at i:77952089 original size:27 final size:27
Alignment explanation
Indices: 77952038--77952223 Score: 196
Period size: 27 Copynumber: 6.9 Consensus size: 27
77952028 AAGGGTATTT
* *
77952038 TAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
77952065 TAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
77952092 TAGTAATTCTATAAATTGAGGGGAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
77952119 -CGATAATTCTGTAAGTCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
77952146 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* *
77952173 TGGTAATTATGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
77952200 CAGTAATTCTGTAAATCGGGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
77952224 CTTTGGTAAT
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:77952223 original size:81 final size:81
Alignment explanation
Indices: 77952039--77952223 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
77952029 AGGGTATTTT
* * * * *
77952039 AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTAT
1 AGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATGTAAATCAAGGGTAAAATAGTAATTATAT
*
77952104 AAATTGAGGGGAAAAC
66 AAATCGAGGGGAAAAC
* ** *
77952120 -GATAATTCTGTAAGTCGAGGGTAAAACGA-TAATTATGTAAATCGGGGGTAAAATGGTAATTAT
1 AG-TAATTCTGTAAATCGAGGGTAAAA-GAGTAATTATGTAAATCAAGGGTAAAATAGTAATTAT
* *
77952183 GTAAATCGAGGGTAAAAC
64 ATAAATCGAGGGGAAAAC
*
77952201 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
77952224 CTTTGGTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 84 0.97
82 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATGTAAATCAAGGGTAAAATAGTAATTATAT
AAATCGAGGGGAAAAC
Found at i:77952277 original size:27 final size:27
Alignment explanation
Indices: 77952219--77952294 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
77952209 TGTAAATCGG
* * **
77952219 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTTTACAAAACGA
*
77952246 AGGTATTTTAGTAATTTTACAAAACGA
1 GGGTATTTTAGTAATTTTACAAAACGA
* *
77952273 GGGTATTTCAGTATTTTTACAA
1 GGGTATTTTAGTAATTTTACAA
77952295 CTAAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAAACGA
Found at i:77953858 original size:42 final size:42
Alignment explanation
Indices: 77953806--77953897 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
77953796 TAGTCTCCCC
* * ** *
77953806 AAATGAGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
77953848 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
77953890 AAATGGGC
1 AAATGGGC
77953898 CTAAGGCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:77953958 original size:31 final size:31
Alignment explanation
Indices: 77953920--77954025 Score: 185
Period size: 31 Copynumber: 3.4 Consensus size: 31
77953910 CGTTTACAGT
* *
77953920 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
77953951 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
77953982 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
77954013 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
77954026 TAGTAACCGT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:77955103 original size:26 final size:26
Alignment explanation
Indices: 77955070--77955120 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
77955060 AACATATTTT
77955070 ATCAAAATTTTA-TCAGGTGTAAAATC
1 ATCAAAATTTTACTCAGG-GTAAAATC
*
77955096 ATCAAAATTTTACTGAGGGTAAAAT
1 ATCAAAATTTTACTCAGGGTAAAAT
77955121 AAGGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (26 bp):
ATCAAAATTTTACTCAGGGTAAAATC
Found at i:77962130 original size:26 final size:26
Alignment explanation
Indices: 77962101--77962158 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
77962091 AAATAAGTAG
77962101 TTAATGGAACCAGTTGGTCAAATCAA
1 TTAATGGAACCAGTTGGTCAAATCAA
*
77962127 TTAATGGAACCAGTTGGTCAAATTAA
1 TTAATGGAACCAGTTGGTCAAATCAA
77962153 TTAATG
1 TTAATG
77962159 AAATCAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (26 bp):
TTAATGGAACCAGTTGGTCAAATCAA
Found at i:77974633 original size:49 final size:49
Alignment explanation
Indices: 77974566--77974759 Score: 194
Period size: 49 Copynumber: 3.9 Consensus size: 49
77974556 GTAGACAAGG
* * *
77974566 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
** *
77974615 TTATTC-GGTACATGTAGTAGCCTGCACTTAGTACTACACA-GTGACCTAA
1 TTA-TCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
** * * * * * * *
77974664 CCATCTGATACACATAGTAACCTGCATTTAGTACTACACACGTGATCGAA
1 TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
*
77974714 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 -TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA
77974760 TCTCACAATA
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
48 7 0.06
49 65 0.56
50 8 0.07
51 37 0.32
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:77977214 original size:27 final size:27
Alignment explanation
Indices: 77977179--77977276 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
77977169 GAACAGATAA
* *
77977179 TGTGACAGAGTCACCAGAATAGATTAT
1 TGTGGCAGAGCCACCAGAATAGATTAT
*
77977206 TGTGGCAGAGCCACCAGAACAGA-TAT
1 TGTGGCAGAGCCACCAGAATAGATTAT
* *
77977232 ATGTGGCAGAGCCACCAG-ATCAGATAAA
1 -TGTGGCAGAGCCACCAGAAT-AGATTAT
*
77977260 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
77977277 GAGGCTTCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
26 4 0.07
27 56 0.92
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAATAGATTAT
Found at i:77977249 original size:54 final size:53
Alignment explanation
Indices: 77977168--77977276 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 53
77977158 CACGGCTGCT
* * *
77977168 AGAACAGATAATGTGACAGAGTCACCAGAAT-AGATTATTGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAG-ATCAGATAAATGTGGCAGAGCCACC
* *
77977221 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAAATGTGGCAGAGCCACC
77977275 AG
1 AG
77977277 GAGGCTTCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGAGCCACCAGATCAGATAAATGTGGCAGAGCCACC
Found at i:77984028 original size:15 final size:16
Alignment explanation
Indices: 77984010--77984050 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
77984000 AAATCGAGTT
*
77984010 TTTTTTTAAAT-TTTG
1 TTTTTGTAAATCTTTG
*
77984025 TTTTTGAAAATCTTTG
1 TTTTTGTAAATCTTTG
77984041 TTTTTGTAAA
1 TTTTTGTAAA
77984051 CCCATTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (16 bp):
TTTTTGTAAATCTTTG
Found at i:77985049 original size:26 final size:26
Alignment explanation
Indices: 77985011--77985121 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
77985001 AGCATGGCTG
* *
77985011 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
77985037 CTAGAACAGATAATTATGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
77985064 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
77985091 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
77985118 CCAG
1 CCAG
77985122 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 12 0.17
27 58 0.81
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:77986432 original size:25 final size:23
Alignment explanation
Indices: 77986404--77986470 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 23
77986394 TTGGCTGACC
77986404 AAATCTTGCTCCTTGATCAGCTCCT
1 AAATCTT-CTCCTT-ATCAGCTCCT
77986429 AAATCTTCTCCCCTTATCAGCTCCT
1 AAATCTTCT--CCTTATCAGCTCCT
77986454 AAATCTTCTCCCTTATC
1 AAATCTTCT-CCTTATC
77986471 CCCTCCTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
24 10 0.25
25 26 0.65
26 4 0.10
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.37
Consensus pattern (23 bp):
AAATCTTCTCCTTATCAGCTCCT
Found at i:77986476 original size:24 final size:25
Alignment explanation
Indices: 77986414--77986477 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
77986404 AAATCTTGCT
*
77986414 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
77986440 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
77986464 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
77986478 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:77987975 original size:15 final size:15
Alignment explanation
Indices: 77987928--77987983 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
77987918 TAAGAAAATT
77987928 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
77987943 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
77987958 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
77987973 GAATAACGAAA
1 GAATAAAGAAA
77987984 CCCAAGATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 28 0.82
16 3 0.09
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:77991048 original size:49 final size:49
Alignment explanation
Indices: 77990981--77991177 Score: 207
Period size: 50 Copynumber: 4.0 Consensus size: 49
77990971 GTAGACAAGG
* * * *
77990981 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
77991030 TTATCCGGTACACGTAGTAGCCTGCACTTAGTCCTACACACGTGACCTAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * * *
77991080 CCA-CCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCC-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * *
77991130 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
77991178 TCACAATAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 42 0.34
50 43 0.35
51 36 0.30
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:77991178 original size:101 final size:99
Alignment explanation
Indices: 77990995--77991178 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
77990985 CTGGTACGCA
* *
77990995 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
77991060 GTCCTACACACGTGACCTAACCACCTGATACACG
66 GTACTACACACGCGACCTAACCACCTGATACACG
* * * * *
77991094 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
77991159 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
77991179 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 28 0.38
100 3 0.04
101 42 0.58
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCACCTGATACACG
Found at i:77994006 original size:27 final size:28
Alignment explanation
Indices: 77993952--77994016 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
77993942 ACACATTTAA
*
77993952 TTCACAATTTAGTCCTCAAAAACCTCATT
1 TTCACAAATTAGTCCTCAAAAACCTCA-T
* *
77993981 TTCACAAATTAG-CC-CAAATAGCTCAT
1 TTCACAAATTAGTCCTCAAAAACCTCAT
77994007 TTCATCAAAT
1 TTCA-CAAAT
77994017 ATTCAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.16
27 14 0.44
28 2 0.06
29 11 0.34
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (28 bp):
TTCACAAATTAGTCCTCAAAAACCTCAT
Found at i:77995193 original size:47 final size:47
Alignment explanation
Indices: 77995140--77995311 Score: 201
Period size: 47 Copynumber: 3.7 Consensus size: 47
77995130 AGATATTTGA
77995140 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
77995187 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
* *
77995235 G--TCTGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
77995280 GCATCTGAGCTCATTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
77995312 ACTTATGGAT
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.25
47 60 0.56
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77995263 original size:46 final size:47
Alignment explanation
Indices: 77995196--77995365 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 47
77995186 GGCATCCGAA
*
77995196 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-GTCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTCTGAG
* * *
77995242 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAC--GG--TCTGAG
*
77995289 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTC-GAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTCTGAG
77995335 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77995366 GCAGGTTACA
Statistics
Matches: 107, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 56 0.52
47 30 0.28
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGGTCTGAG
Found at i:77995308 original size:93 final size:93
Alignment explanation
Indices: 77995149--77995357 Score: 366
Period size: 93 Copynumber: 2.2 Consensus size: 93
77995139 AGCATCCGAA
*
77995149 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
*
77995214 AGTTCACTTATGGATGCGAAC-GTCTGAG
66 AGTTCACTTATGGATGCAAACGGTC-GAG
* *
77995242 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCTGAGCTCATTGAGTTGAGTCCG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
77995307 AGTTCACTTATGGATGCAAACGGTCGAG
66 AGTTCACTTATGGATGCAAACGGTCGAG
77995335 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
77995358 ACTTATGGGC
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 108 0.97
94 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
AGTTCACTTATGGATGCAAACGGTCGAG
Found at i:78000225 original size:17 final size:18
Alignment explanation
Indices: 78000192--78000226 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
78000182 TTTTAAGAAG
78000192 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
78000210 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
78000227 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:78003369 original size:29 final size:29
Alignment explanation
Indices: 78003328--78003427 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
78003318 AATGTGACTA
*
78003328 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
78003357 GGCCTAATTGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
78003386 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
78003414 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
78003428 GATACAAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 16 0.26
29 45 0.74
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:78003423 original size:28 final size:29
Alignment explanation
Indices: 78003313--78003427 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
78003303 GTGAGAATGA
* * *
78003313 ATATGAATGTGA-CTAGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
78003341 ATATAAATGTGATTTGGGCCTAATTGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
78003370 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
78003399 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
78003427 A
1 A
78003428 GATACAAGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.38
29 45 0.61
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:78012649 original size:44 final size:42
Alignment explanation
Indices: 78012586--78012740 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
78012576 ATGTGTTATT
78012586 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTAC
* *
78012630 GTGTAAGACCACGTCTGGGATGTTAGCATCGTATTTGATTT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTAC
**
78012672 GTGTAAGACCGTGTCTGGGACAG-TGGCATCGATATTTGA-TTAC
1 GTGTAAGACCACGTCTGGGAC-GTTGGCATCG--ATTTGATTTAC
* *
78012715 ATGTAAGACCACGTCTAGGACGTTGG
1 GTGTAAGACCACGTCTGGGACGTTGG
78012741 ATTGTACGAG
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 29 0.30
43 35 0.36
44 31 0.32
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTAC
Found at i:78013054 original size:13 final size:15
Alignment explanation
Indices: 78013036--78013067 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
78013026 GTTTATATGT
78013036 TTTATTTG-ATA-AG
1 TTTATTTGTATATAG
78013049 TTTATTTGTATATAG
1 TTTATTTGTATATAG
78013064 TTTA
1 TTTA
78013068 CTAAGCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTATTTGTATATAG
Found at i:78014809 original size:30 final size:30
Alignment explanation
Indices: 78014775--78014832 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
78014765 TTTTTGGACT
* *
78014775 TAGGGGTAAAATGGTTATTTTGCAAAAGAC
1 TAGGGGCAAAATGGTCATTTTGCAAAAGAC
*
78014805 TAGGGGCAAAATGGTCATTTTGCCAAAG
1 TAGGGGCAAAATGGTCATTTTGCAAAAG
78014833 TATAGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCAAAAGAC
Found at i:78015214 original size:46 final size:46
Alignment explanation
Indices: 78015157--78015330 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 46
78015147 GAACTATTGT
* *
78015157 GAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATAACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAACGA
* * *
78015203 GAGCCAGTGTAAGGCCATGTTTAGGACATGGCATC-G--ACAGTGAGACGA
1 GAGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCACA-T-A-ACGA
** * * *
78015251 GA-CCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGA-GATGTA
1 GAGCC-AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAACG-A
78015298 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
78015331 ACTACAAGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
45 3 0.03
46 48 0.47
47 33 0.32
48 17 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAACGA
Found at i:78016546 original size:21 final size:22
Alignment explanation
Indices: 78016506--78016547 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
78016496 GTCGAATTGG
78016506 TCACATGAGCGTGTTGCCCCTC
1 TCACATGAGCGTGTTGCCCCTC
78016528 TCACAT-AGGCGTG-TGCCCCT
1 TCACATGA-GCGTGTTGCCCCT
78016548 GTGTCTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.14, C:0.36, G:0.24, T:0.26
Consensus pattern (22 bp):
TCACATGAGCGTGTTGCCCCTC
Found at i:78022524 original size:47 final size:47
Alignment explanation
Indices: 78022451--78022581 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 47
78022441 GGACTATTGT
* *
78022451 GAGCTAGTGTAAGACATGTCTAGGACACGCATCAGCCA--TATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACACGCATCAGCCAGTTA-GACGA
* * *
78022497 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-GACAGTTAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACA-CGCATCAGCCAGTTAGACGA
*
78022545 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCC
1 GAGCTAGTGTAAGACATGTCTGGGACACGCATCAGCC
78022582 TCGAGATGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 19 0.26
47 28 0.39
48 23 0.32
49 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACACGCATCAGCCAGTTAGACGA
Found at i:78035183 original size:40 final size:39
Alignment explanation
Indices: 78035122--78035262 Score: 169
Period size: 40 Copynumber: 3.6 Consensus size: 39
78035112 CTCGCACAAG
* * * * *
78035122 GCCTTCGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
78035161 GCCTTCGGCACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGG-ACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
78035201 GCCTTC-GATCTTAGTCCGGATGTAGTCGCTTAGCACAAA-
1 GCCTTCGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
78035240 GCCTTCGGGACTTAGCCCGGATA
1 GCCTTC-GGACTTAGCCCGGATA
78035263 CCATTCGAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.38
40 52 0.59
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:78036466 original size:37 final size:37
Alignment explanation
Indices: 78036425--78036505 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
78036415 AACATGAAGC
* *
78036425 AAGAACTCCTTCCTCCTTCCTTAGAATTTTCGGCCAA
1 AAGAAATCATTCCTCCTTCCTTAGAATTTTCGGCCAA
*
78036462 AAGAAATGATTCCTCCTTCCTTAGAATTTTCGGCCAA
1 AAGAAATCATTCCTCCTTCCTTAGAATTTTCGGCCAA
78036499 AAGAAAT
1 AAGAAAT
78036506 GAAAAAGGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (37 bp):
AAGAAATCATTCCTCCTTCCTTAGAATTTTCGGCCAA
Found at i:78036506 original size:37 final size:37
Alignment explanation
Indices: 78036434--78036507 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
78036424 CAAGAACTCC
78036434 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
78036471 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
78036508 AAAAGGATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (37 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
Found at i:78043202 original size:40 final size:40
Alignment explanation
Indices: 78043132--78043299 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
78043122 CGGGGTTTAG
** * *
78043132 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
78043171 CCGGATATGGTCACTGGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
78043211 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
78043251 CCAGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
78043292 CCGGATAT
1 CCGGATAT
78043300 CATTCGAGTA
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 15 0.14
40 61 0.59
41 28 0.27
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:78043282 original size:41 final size:39
Alignment explanation
Indices: 78043195--78043299 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 39
78043185 TGGCATAAAT
* *
78043195 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCAGATATAGTCGCTAGCACAAAA
* *
78043235 GCCTTCGGATCTTAGTCCAGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCAGATATAGTCGC-TAGCACAAAA
*
78043276 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTC-GGACTTAGCCCAGATAT
78043300 CATTCGAGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 3 0.05
40 23 0.42
41 26 0.47
42 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCAGATATAGTCGCTAGCACAAAA
Found at i:78044528 original size:38 final size:38
Alignment explanation
Indices: 78044486--78044561 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
78044476 CAAGAACTCC
78044486 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
78044524 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
78044562 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:78056441 original size:47 final size:47
Alignment explanation
Indices: 78056363--78056579 Score: 326
Period size: 47 Copynumber: 4.6 Consensus size: 47
78056353 TATTTGAATA
78056363 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
78056412 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
78056459 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
78056506 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
78056553 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
78056580 TCCCGAAGGG
Statistics
Matches: 154, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 143 0.93
49 11 0.07
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:78056748 original size:37 final size:37
Alignment explanation
Indices: 78056698--78056803 Score: 167
Period size: 37 Copynumber: 2.9 Consensus size: 37
78056688 CCGAGCTCTA
* * *
78056698 AAGACCCAATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
78056735 AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
* *
78056772 AAGACCCGATAACTTCATGTGGAGATTTTGTC
1 AAGACCCGATGACTACATGTGGAGATTTTGTC
78056804 TGAGCTAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
Found at i:78064406 original size:47 final size:49
Alignment explanation
Indices: 78064338--78064468 Score: 135
Period size: 55 Copynumber: 2.6 Consensus size: 49
78064328 GTGATTACAT
*
78064338 GTAAGACCACATTTGGA-ACGTTGGCATTGT-A-C-GATATGTGTATGCGA
1 GTAAGACCACATTT-AATACGTTGGCATTGTGATCTG-TATGTGTATGCGA
* *
78064385 GTAAGACCACGTTTAATACGTTGGAATCAATATGTGATTCTGTATGTGTGTGCGA
1 GTAAGACCACATTTAATACGTTGG---C-AT-TGTGA-TCTGTATGTGTATGCGA
78064440 GTAAGACCACATTTAATACGTTGGCATTG
1 GTAAGACCACATTTAATACGTTGGCATTG
78064469 ATATGTGATT
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
46 1 0.01
47 20 0.29
50 3 0.04
51 4 0.06
52 4 0.06
53 1 0.01
55 36 0.51
56 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (49 bp):
GTAAGACCACATTTAATACGTTGGCATTGTGATCTGTATGTGTATGCGA
Found at i:78064439 original size:55 final size:56
Alignment explanation
Indices: 78064369--78064503 Score: 191
Period size: 55 Copynumber: 2.4 Consensus size: 56
78064359 TGGCATTGTA
*
78064369 CGATATGTGTATGCGAGTAAGACCACGTTTAATACGTTGGAATCAATATGTGATTC
1 CGATATGTGTATGCGAGTAAGACCACATTTAATACGTTGGAATCAATATGTGATTC
* * * **
78064425 TG-TATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATTGATATGTGATTC
1 CGATATGTGTATGCGAGTAAGACCACATTTAATACGTTGGAATCAATATGTGATTC
* *
78064480 CGATATGTGTTTACGAGTAAGACC
1 CGATATGTGTATGCGAGTAAGACC
78064504 CTATTTGGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 49 0.71
56 20 0.29
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
CGATATGTGTATGCGAGTAAGACCACATTTAATACGTTGGAATCAATATGTGATTC
Found at i:78064521 original size:56 final size:55
Alignment explanation
Indices: 78064372--78064530 Score: 160
Period size: 55 Copynumber: 2.9 Consensus size: 55
78064362 CATTGTACGA
* * * * * * *
78064372 TATGTGTATGCGAGTAAGACCACGTTTAATACGTTGGAATCAATATGTGATTCTG
1 TATGTGTGTACGAGTAAGACCACATTTAAGACGTTGGCATCGATATGTGATTCCG
* * *
78064427 TATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATTGATATGTGATTCCG
1 TATGTGTGTACGAGTAAGACCACATTTAAGACGTTGGCATCGATATGTGATTCCG
* **
78064482 ATATGTGTTTACGAGTAAGACC-CTATTTGGGACAG-TGGCATCGATATGT
1 -TATGTGTGTACGAGTAAGACCAC-ATTTAAGAC-GTTGGCATCGATATGT
78064531 AATTACATGT
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
55 50 0.56
56 38 0.43
57 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (55 bp):
TATGTGTGTACGAGTAAGACCACATTTAAGACGTTGGCATCGATATGTGATTCCG
Found at i:78065820 original size:13 final size:14
Alignment explanation
Indices: 78065792--78065824 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
78065782 CATTTTGACC
*
78065792 ATGTTTATATTTAT
1 ATGTTTATATTGAT
78065806 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
78065819 ATGTTT
1 ATGTTT
78065825 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:78068418 original size:27 final size:27
Alignment explanation
Indices: 78068378--78068448 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
78068368 TCTCCCTTAG
78068378 GGGAATTTCGGTAATTTTAAAAGTCAA
1 GGGAATTTCGGTAATTTTAAAAGTCAA
* * * * * *
78068405 GGGTATTTCAGTAATTATATAGGTCGA
1 GGGAATTTCGGTAATTTTAAAAGTCAA
78068432 GGGAATTTCGGTAATTT
1 GGGAATTTCGGTAATTT
78068449 CACACATTAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (27 bp):
GGGAATTTCGGTAATTTTAAAAGTCAA
Found at i:78069815 original size:4 final size:4
Alignment explanation
Indices: 78069806--78069832 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
78069796 TATTTGCAAA
78069806 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
78069833 ACAAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:78073511 original size:40 final size:40
Alignment explanation
Indices: 78073456--78073630 Score: 273
Period size: 40 Copynumber: 4.4 Consensus size: 40
78073446 GATGATAACT
78073456 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
78073496 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
* * * *
78073536 GGGCTAAGACCCGAAGGTATTTGTGAGAGTTGTTGTATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
* *
78073576 GGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
78073616 -GGCTAA-ATCCCGAAG
1 GGGCTAAGA-CCCGAAG
78073631 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 112 0.90
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
Found at i:78073899 original size:22 final size:22
Alignment explanation
Indices: 78073857--78073900 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
78073847 AAAATGTGCA
* *
78073857 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
78073879 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
78073901 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:78081662 original size:40 final size:40
Alignment explanation
Indices: 78081615--78081791 Score: 259
Period size: 40 Copynumber: 4.5 Consensus size: 40
78081605 CGGATGATAA
* *
78081615 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
78081655 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
78081695 TCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
78081735 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
78081775 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
78081792 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 110 0.89
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:78082060 original size:22 final size:22
Alignment explanation
Indices: 78082018--78082061 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
78082008 AAAATGTGCA
* *
78082018 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
78082040 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
78082062 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:78084501 original size:18 final size:18
Alignment explanation
Indices: 78084478--78084581 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
78084468 TAATTTAGTC
78084478 ATTCAGTAACTATCAAGT
1 ATTCAGTAACTATCAAGT
* **
78084496 ATTCAGTACAGTAGTTTAGTT
1 ATTCAGTA-ACTA-TCAAG-T
* *
78084517 ATTCAATAACTATCAATT
1 ATTCAGTAACTATCAAGT
* * **
78084535 ATTCAATATAGTAATTTAGTT
1 ATTCAGTA-ACT-ATCAAG-T
*
78084556 ATTCAGTAACTATCAATT
1 ATTCAGTAACTATCAAGT
78084574 ATTCAGTA
1 ATTCAGTA
78084582 CAGTAGTTTA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 26 0.41
19 10 0.16
20 11 0.17
21 16 0.25
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
ATTCAGTAACTATCAAGT
Found at i:78084514 original size:39 final size:39
Alignment explanation
Indices: 78084455--78084591 Score: 202
Period size: 39 Copynumber: 3.5 Consensus size: 39
78084445 TAACAATTAG
* *
78084455 TTATTCAGTACAATAATTTAGTCATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* * *
78084494 GTATTCAGTACAGTAGTTTAGTTATTCAATAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* *
78084533 TTATTCAATATAGTAATTTAGTTATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
*
78084572 TTATTCAGTACAGTAGTTTA
1 TTATTCAGTACAGTAATTTA
78084592 CCCCCATTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (39 bp):
TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
Found at i:78084537 original size:78 final size:78
Alignment explanation
Indices: 78084441--78084591 Score: 230
Period size: 78 Copynumber: 1.9 Consensus size: 78
78084431 TATCATACAA
* * *
78084441 TCAATAACAATTAGTTATTCAGTACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
1 TCAATAACAATCAATTATTCAATACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
78084506 GTAGTTTAGTTAT
66 GTAGTTTAGTTAT
* * * * *
78084519 TCAATAACTATCAATTATTCAATATAGTAATTTAGTTATTCAGTAACTATCAATTATTCAGTACA
1 TCAATAACAATCAATTATTCAATACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
78084584 GTAGTTTA
66 GTAGTTTA
78084592 CCCCCATTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (78 bp):
TCAATAACAATCAATTATTCAATACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
GTAGTTTAGTTAT
Found at i:78084783 original size:44 final size:44
Alignment explanation
Indices: 78084734--78084825 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
78084724 TCGAAGTGAC
*
78084734 AGTAACAGTACGACACACA-AGGTGCCTCATCGACTCAAAGTCAA
1 AGTAACAGTACGACACACATA-GTGCCTCATCAACTCAAAGTCAA
** * *
78084778 AGTAACAGTACGACACTTATAGTGCCTCATCAACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAAGTCAA
78084822 AGTA
1 AGTA
78084826 TCCCTGAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAAGTCAA
Found at i:78092792 original size:24 final size:24
Alignment explanation
Indices: 78092760--78092990 Score: 96
Period size: 24 Copynumber: 9.6 Consensus size: 24
78092750 AAGGAAATTT
* *
78092760 GCACCCATAGTGCCATGTTAACCC
1 GCACACATAGTGCCATGTAAACCC
* *
78092784 GCACACATAGTGCC-T-TAGTACTTC
1 GCACACATAGTGCCATGTA-AAC-CC
* * * * *
78092808 ACATACATATTGACAT-TCAAATCC
1 GCACACATAGTGCCATGT-AAACCC
* *
78092832 GCACACATAGTGCCATATAAATCC
1 GCACACATAGTGCCATGTAAACCC
** **
78092856 GCACACATAGTGCCATACAAATTC
1 GCACACATAGTGCCATGTAAACCC
* * **
78092880 GCACACATAGTACCTTAGT-AATTC
1 GCACACATAGTGCCAT-GTAAACCC
* * * * *
78092904 ACATACATATTGACAT-TCAAATCC
1 GCACACATAGTGCCATGT-AAACCC
* **
78092928 GCACACATAGTGCCATATAAATTC
1 GCACACATAGTGCCATGTAAACCC
***
78092952 GCACACATAGTGCCAT-TCAAATTA
1 GCACACATAGTGCCATGT-AAACCC
78092976 GCACACATAGTGCCA
1 GCACACATAGTGCCA
78092991 AATTCATTTC
Statistics
Matches: 163, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.01
23 4 0.02
24 151 0.93
25 5 0.03
26 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (24 bp):
GCACACATAGTGCCATGTAAACCC
Found at i:78092842 original size:48 final size:48
Alignment explanation
Indices: 78092782--78092990 Score: 233
Period size: 48 Copynumber: 4.4 Consensus size: 48
78092772 CCATGTTAAC
* * * *
78092782 CCGCACACATAGTGCCTTAGT-ACTTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATA-TAAATTCACACACATAGTGACATTCAAAT
* * * *
78092830 CCGCACACATAGTGCCATATAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATATAAATTCACACACATAGTGACATTCAAAT
* * * * *
78092878 TCGCACACATAGTACCTTAGT-AATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATA-TAAATTCACACACATAGTGACATTCAAAT
* *
78092926 CCGCACACATAGTGCCATATAAATTCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATATAAATTCACACACATAGTGACATTCAAAT
**
78092974 TAGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
78092991 AATTCATTTC
Statistics
Matches: 132, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
47 2 0.02
48 129 0.98
49 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (48 bp):
CCGCACACATAGTGCCATATAAATTCACACACATAGTGACATTCAAAT
Found at i:78092899 original size:96 final size:96
Alignment explanation
Indices: 78092783--78092986 Score: 363
Period size: 96 Copynumber: 2.1 Consensus size: 96
78092773 CATGTTAACC
* *
78092783 CGCACACATAGTGCCTTAGTACTTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
78092848 ATAAATCCGCACACATAGTGCCATACAAATT
66 ATAAATCCGCACACATAGTGCCATACAAATT
78092879 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
* *
78092944 ATAAATTCGCACACATAGTGCCATTCAAATT
66 ATAAATCCGCACACATAGTGCCATACAAATT
*
78092975 AGCACACATAGT
1 CGCACACATAGT
78092987 GCCAAATTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 103 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.25
Consensus pattern (96 bp):
CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
ATAAATCCGCACACATAGTGCCATACAAATT
Found at i:78092995 original size:26 final size:25
Alignment explanation
Indices: 78092822--78092996 Score: 145
Period size: 24 Copynumber: 7.2 Consensus size: 25
78092812 ACATATTGAC
*
78092822 ATTCAAATCCGCACACATAGTGCC-
1 ATTCAAATTCGCACACATAGTGCCA
*
78092846 ATAT-AAATCCGCACACATAGTGCC-
1 AT-TCAAATTCGCACACATAGTGCCA
* *
78092870 ATACAAATTCGCACACATAGTACC-
1 ATTCAAATTCGCACACATAGTGCCA
* * * *
78092894 -TT-AGTAATTCACATACATATTGAC-
1 ATTCA--AATTCGCACACATAGTGCCA
*
78092918 ATTCAAATCCGCACACATAGTGCC-
1 ATTCAAATTCGCACACATAGTGCCA
78092942 ATAT-AAATTCGCACACATAGTGCC-
1 AT-TCAAATTCGCACACATAGTGCCA
*
78092966 ATTCAAATTAGCACACATAGTGCCAA
1 ATTCAAATTCGCACACATAGTGCC-A
78092992 ATTCA
1 ATTCA
78092997 TTTCGTTTTA
Statistics
Matches: 125, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 112 0.90
25 4 0.03
26 6 0.05
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.25
Consensus pattern (25 bp):
ATTCAAATTCGCACACATAGTGCCA
Found at i:78096900 original size:14 final size:14
Alignment explanation
Indices: 78096881--78096919 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
78096871 AAAAAGAAAA
78096881 TTTGGGAAAATACT
1 TTTGGGAAAATACT
*
78096895 TTTGGGAAAATATT
1 TTTGGGAAAATACT
78096909 TTTGGGAAAAT
1 TTTGGGAAAAT
78096920 TTGATTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (14 bp):
TTTGGGAAAATACT
Found at i:78105709 original size:40 final size:40
Alignment explanation
Indices: 78105672--78105896 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
78105662 GCTACTCGTT
* *
78105672 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
78105712 CAAATGTCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
78105752 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
78105792 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
78105831 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
78105872 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
78105897 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:78105856 original size:119 final size:120
Alignment explanation
Indices: 78105674--78105896 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
78105664 TACTCGTTCA
* *
78105674 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGTCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
78105739 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
78105794 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
78105856 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
78105897 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:78107094 original size:56 final size:56
Alignment explanation
Indices: 78107027--78107146 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
78107017 TATTAGTTTA
78107027 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
78107083 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
78107139 TTGCCCAT
1 TTGCCCAT
78107147 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:78113163 original size:40 final size:40
Alignment explanation
Indices: 78112985--78113209 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
78112975 GCTACTTGTT
* *
78112985 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
78113025 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
78113065 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
* *
78113105 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
78113144 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
78113185 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78113210 CATCATTCGA
Statistics
Matches: 161, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 113 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:78113193 original size:79 final size:79
Alignment explanation
Indices: 78112985--78113209 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 79
78112975 GCTACTTGTT
* * ** * * *
78112985 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
78113050 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
78113065 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
78113129 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
78113144 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
78113208 GA
64 GA
78113210 CATCATTCGA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 58 0.47
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:78113193 original size:119 final size:120
Alignment explanation
Indices: 78112987--78113207 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 120
78112977 TACTTGTTCA
*
78112987 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
78113052 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
* * * **
78113107 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
78113169 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
78113208 GACATCATTC
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
Found at i:78114403 original size:56 final size:56
Alignment explanation
Indices: 78114336--78114455 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
78114326 TATTAGTTTA
78114336 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
78114392 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
78114448 TTGCCCAT
1 TTGCCCAT
78114456 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:78114815 original size:39 final size:39
Alignment explanation
Indices: 78114754--78114840 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
78114744 CTGTCAGAGC
78114754 AGTAGTTTAGTTATTCAATAACTATCAATTATTCAATAT
1 AGTAGTTTAGTTATTCAATAACTATCAATTATTCAATAT
* * * * *
78114793 AGTAATTTAGTTATTCAGTAACTATGAATTATTTAGTAT
1 AGTAGTTTAGTTATTCAATAACTATCAATTATTCAATAT
78114832 AGTAGTTTA
1 AGTAGTTTA
78114841 TCCCTATTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (39 bp):
AGTAGTTTAGTTATTCAATAACTATCAATTATTCAATAT
Found at i:78115439 original size:4 final size:4
Alignment explanation
Indices: 78115420--78115469 Score: 61
Period size: 4 Copynumber: 13.0 Consensus size: 4
78115410 AAATTCCCTA
*
78115420 TTTC TTTT TCTTC TTTC TTTC -TTC TTTC TTTC -TTC TTTC TTTC -TTC
1 TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
78115466 TTTC
1 TTTC
78115470 CCTACTCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 9 0.22
4 28 0.70
5 3 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:78115442 original size:11 final size:11
Alignment explanation
Indices: 78115426--78115469 Score: 88
Period size: 11 Copynumber: 4.0 Consensus size: 11
78115416 CCTATTTCTT
78115426 TTTCTTCTTTC
1 TTTCTTCTTTC
78115437 TTTCTTCTTTC
1 TTTCTTCTTTC
78115448 TTTCTTCTTTC
1 TTTCTTCTTTC
78115459 TTTCTTCTTTC
1 TTTCTTCTTTC
78115470 CCTACTCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTCTTCTTTC
Done.