Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 267 of 349
Found at i:89263840 original size:37 final size:39
Alignment explanation
Indices: 89263758--89264013 Score: 264
Period size: 38 Copynumber: 6.6 Consensus size: 39
89263748 GCTACTCGTT
*
89263758 CAAATGCCTTCGGGACATAGCCCGGTTATAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGTTATAGTAACTCGCA
89263797 CAAATGCCTTCGGGAC-TACCC-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTACCCGGTTATAGTAACTCGCA
89263834 CAAATGCCTTCGGGACTTACCCGGTT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTACCCGGTTATAGTAACTCGCA
89263872 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCG-A
1 CAAATGCCTTCGGGACTT-ACCCGG-TTATAGTAACTCGCA
* *
89263911 CCAATGCCTTC-GG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGTTA-TAGTAACTCGCA
* * ** * * *
89263949 CAAATGCCCTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTA-CCCGGTTATAGTAAC-TCGCA
89263990 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTA-CCCGG
89264014 ACATCATTCA
Statistics
Matches: 190, Mismatches: 13, Indels: 27
0.83 0.06 0.12
Matches are distributed among these distances:
36 9 0.05
37 44 0.23
38 51 0.27
39 36 0.19
40 38 0.20
41 12 0.06
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTACCCGGTTATAGTAACTCGCA
Found at i:89263864 original size:38 final size:38
Alignment explanation
Indices: 89263758--89263961 Score: 267
Period size: 38 Copynumber: 5.3 Consensus size: 38
89263748 GCTACTCGTT
*
89263758 CAAATGCCTTCGGGACATAGCCCGGTTATAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGTT-TAGTAACTCGCA
89263797 CAAATGCCTTCGGGAC-TACCC-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTACCCGGTT-TAGTAACTCGCA
89263834 CAAATGCCTTCGGGACTTACCCGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTACCCGGTTTAGTAACTCGCA
89263872 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCG-A
1 CAAATGCCTTCGGGACTT-ACCCGG-TTTAGTAACTCGCA
* *
89263911 CCAATGCCTTC-GG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGG-TTTAGTAACTCGCA
*
89263949 CAAATGCCCTCGG
1 CAAATGCCTTCGG
89263962 ATCTTAGTCC
Statistics
Matches: 153, Mismatches: 4, Indels: 16
0.88 0.02 0.09
Matches are distributed among these distances:
36 9 0.06
37 46 0.30
38 49 0.32
39 37 0.24
40 12 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTACCCGGTTTAGTAACTCGCA
Found at i:89263943 original size:77 final size:76
Alignment explanation
Indices: 89263758--89264013 Score: 276
Period size: 77 Copynumber: 3.3 Consensus size: 76
89263748 GCTACTCGTT
*
89263758 CAAATGCCTTCGGGACATAGCCCGGTTATAGT-ACTCGCACAAATGCCTTCGGGACTACCCGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCACAAATGCCTTCGGGACTACCCGTTA
89263822 TAGTAACTCGCA
65 TAGTAACTCGCA
89263834 CAAATGCCTTCGGGACTTA-CCCGGTTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGCCTTCGGGAC-T-ACCC-G-
89263898 TT-TAGTAACTCG-A
62 TTATAGTAACTCGCA
* * * *
89263911 CCAATGCCTTC-GG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCCTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGA-C-TA-CCCG
* * * *
89263973 AATATGGTCACTTAGCA
62 -TTATAGTAAC-TCGCA
89263990 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
89264014 ACATCATTCA
Statistics
Matches: 156, Mismatches: 10, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
74 4 0.03
75 34 0.22
76 33 0.21
77 48 0.31
78 19 0.12
79 8 0.05
80 10 0.06
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (76 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGCCTTCGGGACTACCCGTTAT
AGTAACTCGCA
Found at i:89266209 original size:18 final size:18
Alignment explanation
Indices: 89266188--89266226 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
89266178 GTATAGCATA
89266188 AGCTCTAGCAGGAGCACG
1 AGCTCTAGCAGGAGCACG
89266206 AGCTCTAGCAGGAGCACG
1 AGCTCTAGCAGGAGCACG
89266224 AGC
1 AGC
89266227 CTCAGATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.10
Consensus pattern (18 bp):
AGCTCTAGCAGGAGCACG
Found at i:89269015 original size:40 final size:40
Alignment explanation
Indices: 89268971--89269238 Score: 335
Period size: 40 Copynumber: 6.7 Consensus size: 40
89268961 GCCACTAGCT
*
89268971 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
89269011 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
89269051 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
89269090 CAAATGCTTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
89269130 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * ** * *
89269170 CGAATACCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
89269210 CAAATG-CTCTCGGGACTTAGCCCAGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
89269239 CATCCGAACA
Statistics
Matches: 204, Mismatches: 20, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
39 39 0.19
40 164 0.80
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:89269096 original size:79 final size:80
Alignment explanation
Indices: 89268971--89269195 Score: 335
Period size: 79 Copynumber: 2.8 Consensus size: 80
89268961 GCCACTAGCT
* *
89268971 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
89269036 TTATAGTAACTTGCA
66 ATATAATAACTCGCA
* *
89269051 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCACAAATGCTTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
89269115 ATATAATAGCTCGCA
66 ATATAATAACTCGCA
* * * *
89269130 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATACCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
89269195 A
66 A
89269196 ATTAGCCACT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
79 71 0.54
80 60 0.46
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:89269149 original size:119 final size:120
Alignment explanation
Indices: 89268964--89269232 Score: 360
Period size: 119 Copynumber: 2.2 Consensus size: 120
89268954 GGATATAGCC
* * * * * *
89268964 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCTTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTT
* * * * *
89269029 AGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAATA
66 AGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGAATTAACA
* *
89269083 ACTCGCACAAATGCTTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTT
1 ACTAGCACAAATGCTTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTT
* * * *
89269148 AGCCCGGATATAGTAGCTCGCACGAATACCTTCGGGACTTAGCCCGGAATTAGCC
66 AGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGAATTAACA
* *
89269203 ACTAGCTCAAATGCTCTCGGGACTTAGCCC
1 ACTAGCACAAATGCTTTCGGGACTTAGCCC
89269233 AGTTATCATC
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
119 100 0.78
120 29 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
ACTAGCACAAATGCTTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTT
AGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGAATTAACA
Found at i:89272596 original size:40 final size:39
Alignment explanation
Indices: 89272551--89272723 Score: 238
Period size: 40 Copynumber: 4.3 Consensus size: 39
89272541 ATCCAATGTT
**
89272551 CCATTTCATATATCTATTTCTATATAATCGCCTCATATAA
1 CCATTTCATATATCTATTT-TATATAATCGATTCATATAA
* *
89272591 TCATTTCATATATCTATTTCTATATAATTGATTCATATAA
1 CCATTTCATATATCTATTT-TATATAATCGATTCATATAA
*
89272631 CCATTTCATATATCTACTTTTATATAATCAATTCATATAA
1 CCATTTCATATATCTA-TTTTATATAATCGATTCATATAA
* *
89272671 CCATTTCATATATCTATTTTCGTATAATTGATTCATATAA
1 CCATTTCATATATCTATTTT-ATATAATCGATTCATATAA
*
89272711 CTATTTCATATAT
1 CCATTTCATATAT
89272724 TAAATTTTCA
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 4 0.03
40 113 0.94
41 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (39 bp):
CCATTTCATATATCTATTTTATATAATCGATTCATATAA
Found at i:89272599 original size:13 final size:13
Alignment explanation
Indices: 89272552--89272722 Score: 104
Period size: 13 Copynumber: 12.8 Consensus size: 13
89272542 TCCAATGTTC
89272552 CATTTCATAT-AT
1 CATTTCATATAAT
89272564 CTATTTCTATATAAT
1 C-ATTTC-ATATAAT
***
89272579 CGCCTCATATAAT
1 CATTTCATATAAT
89272592 CATTTCATAT-AT
1 CATTTCATATAAT
89272604 CTATTTCTATATAATT
1 C-ATTTC-ATATAA-T
* *
89272620 GA-TTCATATAAC
1 CATTTCATATAAT
89272632 CATTTCATAT-AT
1 CATTTCATATAAT
*
89272644 CTACTTTTATATAAT
1 C-A-TTTCATATAAT
* *
89272659 CAATTCATATAAC
1 CATTTCATATAAT
89272672 CATTTCATAT-AT
1 CATTTCATATAAT
*
89272684 CTATTTTCGTATAATT
1 C-A-TTTCATATAA-T
*
89272700 GA-TTCATATAA-
1 CATTTCATATAAT
89272711 CTATTTCATATA
1 C-ATTTCATATA
89272723 TTAAATTTTC
Statistics
Matches: 122, Mismatches: 20, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
12 10 0.08
13 72 0.59
14 28 0.23
15 10 0.08
16 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (13 bp):
CATTTCATATAAT
Found at i:89272615 original size:27 final size:27
Alignment explanation
Indices: 89272585--89272723 Score: 85
Period size: 27 Copynumber: 5.1 Consensus size: 27
89272575 TAATCGCCTC
89272585 ATATAATCATTTCATATATCTATTTCT
1 ATATAATCATTTCATATATCTATTTCT
* * *
89272612 ATATAATTGA-TTCATATAACCATTTC-
1 ATATAA-TCATTTCATATATCTATTTCT
* *
89272638 ATAT-ATCTACTTTTATATAATC-AATTC-
1 ATATAATC-A-TTTCATAT-ATCTATTTCT
*
89272665 ATATAACCATTTCATATATCTATTTTCGT
1 ATATAATCATTTCATATATCTA-TTTC-T
* * *
89272694 ATA-ATTGA-TTCATATAACTATTTCAT
1 ATATAATCATTTCATATATCTATTTC-T
89272720 ATAT
1 ATAT
89272724 TAAATTTTCA
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
24 1 0.01
25 5 0.06
26 20 0.23
27 49 0.57
28 8 0.09
29 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.47
Consensus pattern (27 bp):
ATATAATCATTTCATATATCTATTTCT
Found at i:89291378 original size:47 final size:47
Alignment explanation
Indices: 89291327--89291598 Score: 420
Period size: 47 Copynumber: 5.7 Consensus size: 47
89291317 TTAGGATTCT
* * *
89291327 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
89291374 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
89291423 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
89291470 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
89291517 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
89291564 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
89291599 TCCCGAAGGG
Statistics
Matches: 211, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 164 0.78
49 46 0.22
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:89291767 original size:37 final size:37
Alignment explanation
Indices: 89291717--89291905 Score: 326
Period size: 37 Copynumber: 5.1 Consensus size: 37
89291707 CCGAGCTCCA
*
89291717 AAGACCCGATGACTACGTGTGGGGATTTTGTCAGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
89291754 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
89291791 AAGACCCGATGACTACGTGT-GGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
89291827 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
89291864 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
89291901 AAGAC
1 AAGAC
89291906 TTCGTAATAA
Statistics
Matches: 146, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
36 36 0.25
37 110 0.75
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:89291837 original size:73 final size:73
Alignment explanation
Indices: 89291717--89291905 Score: 324
Period size: 73 Copynumber: 2.6 Consensus size: 73
89291707 CCGAGCTCCA
*
89291717 AAGACCCGATGACTACGTGTGGGGATTTTGTCAGGGTAAGACCCGATGACTACGTGTGGGGATTT
1 AAGACCCGATGACTACGTGT-GGGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGGGATTT
89291782 TGTCCGGGT
65 TGTCCGGGT
89291791 AAGACCCGATGACTACGTGTGGGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGGGATTTT
1 AAGACCCGATGACTACGTGTGGGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGGGATTTT
89291856 GTCCGGGT
66 GTCCGGGT
* * *
89291864 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGAC
1 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGTAAGAC
89291906 TTCGTAATAA
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
73 72 0.65
74 38 0.35
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (73 bp):
AAGACCCGATGACTACGTGTGGGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGGGGATTTT
GTCCGGGT
Found at i:89306019 original size:17 final size:17
Alignment explanation
Indices: 89305993--89306034 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
89305983 AACAACTAAC
*
89305993 TTCATAAAGCTCACAAT
1 TTCATCAAGCTCACAAT
89306010 TTCATCAAGCTCACAAT
1 TTCATCAAGCTCACAAT
89306027 TTCATCAA
1 TTCATCAA
89306035 TGGAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (17 bp):
TTCATCAAGCTCACAAT
Found at i:89310389 original size:40 final size:40
Alignment explanation
Indices: 89310337--89310550 Score: 274
Period size: 40 Copynumber: 5.4 Consensus size: 40
89310327 TGATATCCTA
* * *
89310337 GCTAAGTCCCGAAGACTTTTGTGCTAG-TGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGG
* * * *
89310377 ACTAAGAT-CCGAAGGCTTTTGTGCTAG-TGACTAAATCCGG
1 GCTAAG-TCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGG
*
89310417 GCTAAGTCCCAAAGGCATTTGTGCGAGTTGCTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
*
89310457 GCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
*
89310497 GCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATTC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
*
89310536 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
89310551 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.10
40 139 0.88
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
Found at i:89312256 original size:25 final size:25
Alignment explanation
Indices: 89312214--89312356 Score: 98
Period size: 25 Copynumber: 5.7 Consensus size: 25
89312204 ACCAAACAAA
*
89312214 GCCTTTGTGGTA-AGTTATCTGAAAG
1 GCCTTTGTGGCATA-TTATCTGAAAG
* *
89312239 GCATTTGTGGCATATTATATAGAAA-
1 GCCTTTGTGGCATATTATCT-GAAAG
* * *
89312264 GCCTTTATGGCGA-GTTATCTAAAAG
1 GCCTTTGTGGC-ATATTATCTGAAAG
* *
89312289 GCCTATATGGCATATTATCTAGAAA-
1 GCCTTTGTGGCATATTATCT-GAAAG
*
89312314 GCCTTTGTGGCA-AGTTATTTGAAAG
1 GCCTTTGTGGCATA-TTATCTGAAAG
* **
89312339 ACCAATGTGGCATATTAT
1 GCCTTTGTGGCATATTAT
89312357 TTGGGAAGCC
Statistics
Matches: 92, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
24 9 0.10
25 73 0.79
26 10 0.11
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (25 bp):
GCCTTTGTGGCATATTATCTGAAAG
Found at i:89312280 original size:50 final size:50
Alignment explanation
Indices: 89312211--89312418 Score: 195
Period size: 50 Copynumber: 4.1 Consensus size: 50
89312201 CAAACCAAAC
* *
89312211 AAAGCCTTTGTGGTAAGTTATCTGAAAGGCATTTGTGGCATATTATATAG
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCATATGTGGCATATTATATAG
* * * * * *
89312261 AAAGCCTTTATGGCGAGTTATCTAAAAGGCCTATATGGCATATTATCTAG
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCATATGTGGCATATTATATAG
* * * *
89312311 AAAGCCTTTGTGGCAAGTTATTTGAAAGACCA-ATGTGGCATATTATTTGG
1 AAAGCCTTTGTGGCAAGTTATCTGAAAG-GCATATGTGGCATATTATATAG
* * * * * * *
89312361 GAAGCCTTAGTGGTGAAGTTATCTTGAAAGCCCTA-GTGGCAAAGTTATCTAG
1 AAAGCCTTTGTGG-CAAGTTATC-TGAAAGGCATATGTGGCATA-TTATATAG
89312413 AAAGCC
1 AAAGCC
89312419 CTTGCAGGAA
Statistics
Matches: 127, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
50 92 0.72
51 17 0.13
52 18 0.14
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (50 bp):
AAAGCCTTTGTGGCAAGTTATCTGAAAGGCATATGTGGCATATTATATAG
Found at i:89312391 original size:26 final size:26
Alignment explanation
Indices: 89312362--89312420 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
89312352 ATTATTTGGG
* ** *
89312362 AAGCCTTAGTGGTGAAGTTATCTTGA
1 AAGCCCTAGTGGCAAAGTTATCTAGA
89312388 AAGCCCTAGTGGCAAAGTTATCTAGA
1 AAGCCCTAGTGGCAAAGTTATCTAGA
89312414 AAGCCCT
1 AAGCCCT
89312421 TGCAGGAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (26 bp):
AAGCCCTAGTGGCAAAGTTATCTAGA
Found at i:89315246 original size:38 final size:38
Alignment explanation
Indices: 89315198--89315397 Score: 283
Period size: 38 Copynumber: 5.3 Consensus size: 38
89315188 GGCTCAAAGG
* * *
89315198 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
89315236 CCCGGATATAATACTAGCACGAAGTCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
89315274 CCCGGATATATTACCAGCACGAAGCCTGTGGAATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
89315312 CCCAGATTTATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
89315350 CCCGGATATAATGCCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
89315388 CCTGGATATA
1 CCCGGATATA
89315398 CATCAAATAT
Statistics
Matches: 143, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 143 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:89325533 original size:27 final size:27
Alignment explanation
Indices: 89325455--89325539 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
89325445 TGGATAAGTT
* *
89325455 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTATCGAAATACCCCTGTAGG
89325482 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
* * *
89325509 GTAGAATTATTGAAATACTCTTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
89325536 GTAG
1 GTAG
89325540 GACTACCGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTGTAGG
Found at i:89333018 original size:27 final size:27
Alignment explanation
Indices: 89332918--89333011 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
89332908 TGGATAAGTT
* *
89332918 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
89332945 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89332972 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
89332999 GTAGGACTACCGA
1 GTAGAATTACCGA
89333012 TTTACCCTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:89343514 original size:40 final size:40
Alignment explanation
Indices: 89343465--89343559 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
89343455 CGGATGTAAC
*
89343465 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
89343505 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
89343545 AACCCGCACGAATGC
1 AACCCGCACGAATGC
89343560 TATGGACATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:89351986 original size:40 final size:40
Alignment explanation
Indices: 89351921--89352015 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
89351911 CGGATGTAAC
* *
89351921 AACCAGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGAGACTTAACCCAGTTATAAT
*
89351961 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGAGACTTAACCCAGTTATAAT
89352001 AACCCGCACGAATGC
1 AACCCGCACGAATGC
89352016 TATGCACATA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.20
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGAGACTTAACCCAGTTATAAT
Found at i:89354993 original size:42 final size:41
Alignment explanation
Indices: 89354876--89354993 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 41
89354866 ATACCAATGT
* * * *
89354876 CATATCCCAAATATGGTCTTACATGGGATCTCATATTGATGC
1 CATATCCCAGATATGGTCTTACA-CGAATCTCATATCGATGC
* *
89354918 CAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAA-TCTCATATCGATGC
*
89354961 CATATCCCAGATATGGTCTTATACGTAATCTCA
1 CATATCCCAGATATGGTCTTACACG-AATCTCA
89354994 ACTAACCCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACACGAATCTCATATCGATGC
Found at i:89356558 original size:29 final size:28
Alignment explanation
Indices: 89356526--89356581 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
89356516 TATGAGATAA
89356526 ACTGATTTCGCTGCAGGCCATGCATATCT
1 ACTGATTTCGCTGCAGGCCATG-ATATCT
* * *
89356555 ACTGATTTGGCTTCGGGCCATGATATC
1 ACTGATTTCGCTGCAGGCCATGATATC
89356582 AGTATTTCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (28 bp):
ACTGATTTCGCTGCAGGCCATGATATCT
Found at i:89363452 original size:25 final size:26
Alignment explanation
Indices: 89363390--89363452 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
89363380 TATTTTCTAA
* *
89363390 AAAATTTAAAAATTATTAATGATTCAAT
1 AAAA-TTAAAAATTA-TAATAATTAAAT
89363418 -AAATTGAAAAATTA-AATAATTAAAT
1 AAAATT-AAAAATTATAATAATTAAAT
89363443 AAAATTAAAA
1 AAAATTAAAA
89363453 TTTAGGAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 13 0.42
26 7 0.23
27 11 0.35
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAATTAAAAATTATAATAATTAAAT
Found at i:89364028 original size:17 final size:18
Alignment explanation
Indices: 89364001--89364034 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
89363991 AATTAAATAT
89364001 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
89364019 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
89364035 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:89364375 original size:29 final size:30
Alignment explanation
Indices: 89364318--89364375 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
89364308 CTTGTGCAAA
* * *
89364318 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
89364348 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
89364376 AAAATAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:89382303 original size:28 final size:29
Alignment explanation
Indices: 89382220--89382315 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
89382210 GAAAGCATGA
*
89382220 ATATGAATGTGATTTGGGCCTAATGGCCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89382249 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
89382278 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
89382306 ATATGCATGT
1 ATATGAATGT
89382316 ATGTAAACTC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 23 0.38
29 37 0.62
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:89384286 original size:40 final size:40
Alignment explanation
Indices: 89384186--89384357 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
89384176 GCTCCTCGTT
* * *
89384186 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
89384226 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
89384265 CGAATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
89384305 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
89384345 CAAATGCCTTCGG
1 CAAATGCCTTCGG
89384358 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:89384370 original size:80 final size:78
Alignment explanation
Indices: 89384186--89384410 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 78
89384176 GCTCCTCGTT
* * * * *
89384186 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
89384250 ATTTAATAACTCGCA
64 ATTTAATAACTCGCA
* * *
89384265 CGAATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCG-GACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
89384330 AATTT-GTATCTCGCA
63 AATTTAATAACTCGCA
* * * * *
89384345 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCGG
89384410 A
63 A
89384411 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 2 0.02
79 36 0.30
80 70 0.58
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAAT
TTAATAACTCGCA
Found at i:89384419 original size:41 final size:41
Alignment explanation
Indices: 89384342--89384419 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
89384332 TTTGTATCTC
* * *
89384342 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
89384383 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
89384420 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:89403860 original size:39 final size:40
Alignment explanation
Indices: 89403811--89403980 Score: 222
Period size: 39 Copynumber: 4.3 Consensus size: 40
89403801 GCTCCTCGTT
* * *
89403811 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
89403851 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
89403890 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
89403929 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
89403968 CAAATGCCTTCGG
1 CAAATGCCTTCGG
89403981 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
38 12 0.10
39 76 0.65
40 29 0.25
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:89403911 original size:40 final size:39
Alignment explanation
Indices: 89403813--89404033 Score: 216
Period size: 39 Copynumber: 5.6 Consensus size: 39
89403803 TCCTCGTTCA
* * * *
89403813 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
89403852 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
89403891 GAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
89403930 AAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
89403969 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
89404010 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
89404034 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 14 0.09
39 77 0.50
40 56 0.36
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:89403914 original size:79 final size:78
Alignment explanation
Indices: 89403811--89403980 Score: 218
Period size: 79 Copynumber: 2.2 Consensus size: 78
89403801 GCTCCTCGTT
* * *
89403811 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGT-ACTCACACAAAGGCCTTCGGG-CATAACCCGG
89403875 -ATTTAATAACTCGCA
64 AATTT-ATAACTCGCA
* * * *
89403890 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGGCCTTCGGGCTTAACCCGGAA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTACTCACACAAAGGCCTTCGGGCATAACCCGGAA
* *
89403955 TTTGTATCTCGCA
66 TTTATAACTCGCA
89403968 CAAATGCCTTCGG
1 CAAATGCCTTCGG
89403981 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 36 0.46
79 43 0.54
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTACTCACACAAAGGCCTTCGGGCATAACCCGGAA
TTTATAACTCGCA
Found at i:89404042 original size:41 final size:41
Alignment explanation
Indices: 89403965--89404042 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
89403955 TTTGTATCTC
* * *
89403965 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
89404006 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
89404043 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:89408006 original size:28 final size:29
Alignment explanation
Indices: 89407925--89408009 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
89407915 GCATGAATAT
*
89407925 GAATATGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
89407954 AAATGTGATTTGGGCCTGATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
**
89407983 GAATGTGA-TTGGGCCTAAAAGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
89408010 TGCATGTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 16 0.33
29 33 0.67
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:89408879 original size:18 final size:18
Alignment explanation
Indices: 89408856--89408892 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
89408846 TTGGACTTGT
89408856 TTTGGATTGTTATTATTA
1 TTTGGATTGTTATTATTA
*
89408874 TTTGGATTGTTATTTTTA
1 TTTGGATTGTTATTATTA
89408892 T
1 T
89408893 GCGTTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (18 bp):
TTTGGATTGTTATTATTA
Found at i:89413013 original size:63 final size:63
Alignment explanation
Indices: 89412933--89413111 Score: 161
Period size: 67 Copynumber: 2.8 Consensus size: 63
89412923 ATATAGTTCG
* * *
89412933 GCTCTCTTGTAC-ACATGGTGA-ACACTCAGTACCACCCATGTGACCTAGC-CAATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGACACA-TCAGTACCACCCATGCGACCTAGCGC-ATATATCCCGT
89412995 A
63 A
* * * * *
89412996 GCTCTCTTGTCTACATGGTGTC-CTTCACCTGGAACCACGCATGCGAACTAGCTGCATATATCCC
1 GCTCTCTTGTCTACATGGTGACACATCA----GTACCACCCATGCGACCTAGC-GCATATATCCC
89413060 GTA
61 GTA
*
89413063 GCTCTCTTGTCTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGC
1 GCTCTCTTGTCTACATGGTG-ACACATCAGTACCACCCATGCGACCTAGC
89413112 TACATCATAA
Statistics
Matches: 92, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
62 4 0.04
63 19 0.21
64 17 0.18
66 17 0.18
67 30 0.33
68 3 0.03
69 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGACACATCAGTACCACCCATGCGACCTAGCGCATATATCCCGTA
Found at i:89413540 original size:18 final size:19
Alignment explanation
Indices: 89413517--89413552 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89413507 TAAACTTGGC
*
89413517 AACATAA-TCATTTAATTT
1 AACATAATTCAATTAATTT
89413535 AACATAATTCAATTAATT
1 AACATAATTCAATTAATT
89413553 CACTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
AACATAATTCAATTAATTT
Found at i:89419172 original size:17 final size:17
Alignment explanation
Indices: 89419150--89419183 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
89419140 TGAGTATTGA
89419150 CGACGCCCATGCTCTCT
1 CGACGCCCATGCTCTCT
*
89419167 CGACGCCCGTGCTCTCT
1 CGACGCCCATGCTCTCT
89419184 TGTGTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.47, G:0.21, T:0.24
Consensus pattern (17 bp):
CGACGCCCATGCTCTCT
Found at i:89420525 original size:46 final size:46
Alignment explanation
Indices: 89420475--89420650 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
89420465 TGGTTGAGCA
89420475 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
89420521 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
89420566 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
89420614 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89420651 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89420631 original size:93 final size:93
Alignment explanation
Indices: 89420472--89420643 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
89420462 GGATGGTTGA
* *
89420472 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
89420537 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
89420565 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
89420630 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
89420644 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:89426530 original size:15 final size:17
Alignment explanation
Indices: 89426510--89426542 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
89426500 CAAACCCTAG
89426510 CTTTCTT-TTTAT-TTT
1 CTTTCTTGTTTATGTTT
89426525 CTTTCTTGTTTATGTTT
1 CTTTCTTGTTTATGTTT
89426542 C
1 C
89426543 CAAAATAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (17 bp):
CTTTCTTGTTTATGTTT
Found at i:89427162 original size:74 final size:74
Alignment explanation
Indices: 89427025--89427162 Score: 197
Period size: 74 Copynumber: 1.9 Consensus size: 74
89427015 TTTAATCGAT
* * *
89427025 TTAATATTAAATTAAATTTAATACTTATATTAATATTATTTTATTAATTTAATATTAAAGTGATC
1 TTAATATTAAATTAAATATAATACTTATATTAATAGTATTATATTAATTTAATATTAAAGTGATC
89427090 ATCTTAATA
66 ATCTTAATA
* * * *
89427099 TTAA-ATTAAATTTAATATAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATATAATACTTATATTAAT-AGTATTATATTAATTTAATATTAAAGTGAT
89427163 TAAGCTTAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 24 0.43
74 32 0.57
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (74 bp):
TTAATATTAAATTAAATATAATACTTATATTAATAGTATTATATTAATTTAATATTAAAGTGATC
ATCTTAATA
Found at i:89428603 original size:21 final size:21
Alignment explanation
Indices: 89428579--89428620 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
89428569 AAACAAGAAG
89428579 AGAAAACTAAGAG-AAAAACTA
1 AGAAAACTAA-AGCAAAAACTA
89428600 AGAAAACTAAAGCAAAAACTA
1 AGAAAACTAAAGCAAAAACTA
89428621 TCCTAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.67, C:0.12, G:0.12, T:0.10
Consensus pattern (21 bp):
AGAAAACTAAAGCAAAAACTA
Found at i:89431799 original size:27 final size:27
Alignment explanation
Indices: 89431757--89432008 Score: 335
Period size: 27 Copynumber: 9.3 Consensus size: 27
89431747 ATAGGGCGAA
* *
89431757 TCATCTTACCATATAAGGGCAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
* * *
89431784 TCATTTTACCACATAATGGCAAAACAA
1 TCATTTTACCACATAAGGGCAAAATAG
* *
89431811 CCATTTTACCACATAAGGGCAAAATAT
1 TCATTTTACCACATAAGGGCAAAATAG
*
89431838 TCATTTTACCGCATAAGGGCAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
*
89431865 TCATTTTACCGCATAAGGGCAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
* *
89431892 TCATGTTACCACTATAAGGGTAAAATAG
1 TCATTTTACCAC-ATAAGGGCAAAATAG
* * *
89431920 TTATTTTACCACCTAAGGGCAAAACAAG
1 TCATTTTACCACATAAGGGCAAAA-TAG
*
89431948 -CATTTTACCACATAAGGGCAAAACAG
1 TCATTTTACCACATAAGGGCAAAATAG
*
89431974 TCATTTTACCACATAAGGGTAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
89432001 TCATTTTA
1 TCATTTTA
89432009 TCAATTAGGG
Statistics
Matches: 197, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 169 0.86
28 26 0.13
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
TCATTTTACCACATAAGGGCAAAATAG
Found at i:89437789 original size:16 final size:16
Alignment explanation
Indices: 89437770--89437800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89437760 CTTCTTCACT
89437770 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
89437786 TACTTACTTACTTAA
1 TACTCACTTACTTAA
89437801 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:89437806 original size:20 final size:20
Alignment explanation
Indices: 89437767--89437806 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89437757 AAACTTCTTC
* *
89437767 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
89437787 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
89437807 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:89438121 original size:53 final size:53
Alignment explanation
Indices: 89437992--89438242 Score: 255
Period size: 55 Copynumber: 4.7 Consensus size: 53
89437982 ACACAGGTAC
* * * * *
89437992 CTTACCATTGCCAAGACTTGTCATGGTCTTACGTGGTATCCTT---TTA-AAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
89438041 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * *
89438094 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCC-T-TAGAAA
* * * *
89438149 CTTATCAATGGCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
89438202 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTAT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTAT
89438243 TCTTAAACCC
Statistics
Matches: 168, Mismatches: 20, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
49 39 0.23
52 5 0.03
53 44 0.26
54 11 0.07
55 67 0.40
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:89439713 original size:16 final size:15
Alignment explanation
Indices: 89439688--89439717 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
89439678 TGGTGCCTTG
89439688 TTGAAATGTGTTAAT
1 TTGAAATGTGTTAAT
89439703 TTGATAATGTGTTAA
1 TTGA-AATGTGTTAA
89439718 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
TTGAAATGTGTTAAT
Found at i:89441139 original size:22 final size:23
Alignment explanation
Indices: 89441113--89441183 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 23
89441103 AGCCTACCGT
89441113 TTCAGCTCGTATA-AGCTTACTG
1 TTCAGCTCGTATAGAGCTTACTG
* *
89441135 TTCAGCTTG-ATAGAGCTTACCG
1 TTCAGCTCGTATAGAGCTTACTG
* *
89441157 TTTTAGCTCAT-TAGAGCTTACTG
1 -TTCAGCTCGTATAGAGCTTACTG
89441180 TTCA
1 TTCA
89441184 TCAGCTCAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 3 0.08
22 19 0.49
23 17 0.44
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
TTCAGCTCGTATAGAGCTTACTG
Found at i:89441171 original size:23 final size:23
Alignment explanation
Indices: 89441052--89441191 Score: 79
Period size: 23 Copynumber: 5.9 Consensus size: 23
89441042 CAGCTCGCAT
* *
89441052 GAGCTTACCGATATATCAGCTCGTAA
1 GAGCTTACCG-T-T-TCAGCTCATTA
** * *
89441078 GAGCTTACTATTTTTAGCTCATTG
1 GAGCTTAC-CGTTTCAGCTCATTA
* *
89441102 GAGCCTACCGTTTCAGCTCGTATA
1 GAGCTTACCGTTTCAGCTCAT-TA
* *
89441126 -AGCTTACTG-TTCAGCTTGA-TA
1 GAGCTTACCGTTTCAGC-TCATTA
*
89441147 GAGCTTACCGTTTTAGCTCATTA
1 GAGCTTACCGTTTCAGCTCATTA
*
89441170 GAGCTTACTGTTCATCAGCTCA
1 GAGCTTACCGTT--TCAGCTCA
89441192 GGAGGAGCTT
Statistics
Matches: 85, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
21 2 0.02
22 16 0.19
23 35 0.41
24 15 0.18
25 8 0.09
26 9 0.11
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCATTA
Found at i:89445102 original size:43 final size:43
Alignment explanation
Indices: 89445055--89445157 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
89445045 TTTGCCTGCC
* * * *
89445055 AGGCTTGAAGCCCGATATCATTTCATCGGCATTATAGCCTACT
1 AGGCTCGAAGCCCGATATCATCTCACCGACATTATAGCCTACT
* * * *
89445098 AGGCTCGAAACTCGATATTATCTCACCGACATTATAGCCTGCT
1 AGGCTCGAAGCCCGATATCATCTCACCGACATTATAGCCTACT
*
89445141 AGGATCGAAGCCCGATA
1 AGGCTCGAAGCCCGATA
89445158 ATATTATTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
AGGCTCGAAGCCCGATATCATCTCACCGACATTATAGCCTACT
Found at i:89452060 original size:43 final size:43
Alignment explanation
Indices: 89451983--89452109 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 43
89451973 AAGTCTGAAC
* * ***
89451983 TCAT-TCACCGGCATT-TCGCCTGCCAGGTTTGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
* *
89452024 TCATTTCATCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
*
89452067 TTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
89452110 ATATTATTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 61 0.81
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:89453940 original size:16 final size:16
Alignment explanation
Indices: 89453921--89453951 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89453911 CTTCTTCACT
89453921 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
89453937 TACTTACTTACTTAA
1 TACTCACTTACTTAA
89453952 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:89453957 original size:20 final size:20
Alignment explanation
Indices: 89453918--89453957 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89453908 AAACTTCTTC
* *
89453918 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
89453938 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
89453958 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:89454271 original size:53 final size:54
Alignment explanation
Indices: 89454143--89454397 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 54
89454133 ATGCGGGTAC
* * ** *
89454143 CTTACCATTGCCATGACTTTTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
89454192 CTTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * *
89454245 CTCACCAATGCCATACCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
89454300 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
89454353 CCTTACGAATTGCCATGCCTTGGCATGGTCTTACACGGTGTCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
89454398 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 47 0.28
54 9 0.05
55 70 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:89454342 original size:108 final size:110
Alignment explanation
Indices: 89454190--89454387 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 110
89454180 ATCCTTTTGA
* * *
89454190 AACTTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
89454253 -TGCCATACCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATACCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
89454298 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACGAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
89454363 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATACCTTGGCATGGTCTTACA
89454388 CGGTGTCCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.61
109 6 0.08
110 24 0.30
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:89455856 original size:12 final size:12
Alignment explanation
Indices: 89455839--89455864 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
89455829 CTTTCTCTGA
89455839 GAAATCACATGT
1 GAAATCACATGT
89455851 GAAATCACATGT
1 GAAATCACATGT
89455863 GA
1 GA
89455865 CGGATCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (12 bp):
GAAATCACATGT
Found at i:89461527 original size:16 final size:16
Alignment explanation
Indices: 89461508--89461538 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89461498 CTTCTTCACT
89461508 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
89461524 TACTTACTTACTTAA
1 TACTCACTTACTTAA
89461539 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:89461544 original size:20 final size:20
Alignment explanation
Indices: 89461505--89461544 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89461495 AAACTTCTTC
* *
89461505 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
89461525 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
89461545 TTATTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:89461859 original size:53 final size:54
Alignment explanation
Indices: 89461730--89461984 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
89461720 ACGTGGGTAC
* * ** *
89461730 CTTACCATTGCCATGACTTTTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
89461779 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
89461832 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
89461887 CTTATCAATGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
89461940 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
89461985 AAACCTTAAT
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 10 0.06
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:89461921 original size:108 final size:110
Alignment explanation
Indices: 89461777--89461974 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
89461767 ATCCTTTTGA
* * *
89461777 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
89461840 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
89461885 AACTTATCAATGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
89461950 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
89461975 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 24 0.30
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:89472026 original size:27 final size:27
Alignment explanation
Indices: 89471988--89472049 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
89471978 GTGAAAAATT
89471988 AGTAGAAGTGGGCTACTTAGAAGATGC
1 AGTAGAAGTGGGCTACTTAGAAGATGC
* *
89472015 AGTAGAAGTGGGCTACTTAGATGATGT
1 AGTAGAAGTGGGCTACTTAGAAGATGC
*
89472042 AGAAGAAG
1 AGTAGAAG
89472050 GTTTTGTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.34, T:0.23
Consensus pattern (27 bp):
AGTAGAAGTGGGCTACTTAGAAGATGC
Found at i:89492409 original size:16 final size:17
Alignment explanation
Indices: 89492388--89492420 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
89492378 CACATTGAAG
89492388 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
89492404 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
89492421 CTTCTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:89506433 original size:28 final size:29
Alignment explanation
Indices: 89506350--89506468 Score: 170
Period size: 28 Copynumber: 4.2 Consensus size: 29
89506340 GAAAGCATGA
*
89506350 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
89506379 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
89506408 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
89506436 ATATGAATGAGA-TTGGGCCTAATAGACC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
89506464 ATATG
1 ATATG
89506469 TATGTATGGA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 45 0.54
29 38 0.46
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:89506444 original size:57 final size:57
Alignment explanation
Indices: 89506350--89506468 Score: 168
Period size: 57 Copynumber: 2.1 Consensus size: 57
89506340 GAAAGCATGA
* * * *
89506350 ATATGAATGTGATTTGGGCCTAATGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCCATACGAATGAGA-TTGGGCCTAATAGACC
* *
89506408 ATATGAATGAGA-TTGGGCCTAGTGGGCCATATGAATGAGATTGGGCCTAATAGACC
1 ATATGAATGAGATTTGGGCCTAATGGGCCATACGAATGAGATTGGGCCTAATAGACC
89506464 ATATG
1 ATATG
89506469 TATGTATGGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 19 0.35
57 25 0.45
58 11 0.20
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (57 bp):
ATATGAATGAGATTTGGGCCTAATGGGCCATACGAATGAGATTGGGCCTAATAGACC
Found at i:89513646 original size:40 final size:40
Alignment explanation
Indices: 89513577--89513801 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
89513567 AAACCAAGTA
* * * *
89513577 CCTTCGGGAATTAG-CCGGATATTGCAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89513616 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
89513656 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89513696 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
*
89513739 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
89513779 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89513802 CATCCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 12 0.08
40 111 0.70
42 1 0.01
43 35 0.22
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:89513757 original size:83 final size:80
Alignment explanation
Indices: 89513577--89513801 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
89513567 AAACCAAGTA
* * * * *
89513577 CCTTCGGGAATTAG-CCGGATATTGCAACTCA-CACAAATGCCTTCGGGACTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGAAATAGTAACT-AGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
89513640 GTAACTCGCACACATG
65 GAAACTCGCACAAATG
* * * *
89513656 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATACCTTCGGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
89513721 CAACTACTCGCACAAATG
66 -AA--ACTCGCACAAATG
* *
89513739 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
89513802 CATCCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 13 0.10
80 41 0.33
81 1 0.01
83 69 0.56
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
AAACTCGCACAAATG
Found at i:89513792 original size:123 final size:119
Alignment explanation
Indices: 89513575--89513798 Score: 340
Period size: 123 Copynumber: 1.8 Consensus size: 119
89513565 TCAAACCAAG
*
89513575 TACCTTCGGGAATTAGCCGGATATTGCAACTCACACAAATGCCTTCGGGACTTAACCCGGATATA
1 TACCTTCGGGAATTAGCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAACCCGGATATA
* *
89513640 GTAACTCGCACACATGCCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAA
66 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTCACTAGCACAAA
* * * *
89513694 TACCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 TACCTTCGGGAATTAG-CCGGATATAGC-A--ACTCACACAAATGCCTTCGGGACTTAACCCGGA
*
89513759 TATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGA
62 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
89513799 TATCATCCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
119 15 0.16
120 9 0.10
121 1 0.01
123 68 0.73
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (119 bp):
TACCTTCGGGAATTAGCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAACCCGGATATA
GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTCACTAGCACAAA
Found at i:89521960 original size:28 final size:27
Alignment explanation
Indices: 89521895--89521973 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
89521885 ATTATGGTAT
**
89521895 CGTGGCAAAGCCACCAGTGTCAGAATA
1 CGTGGCAAAGCCACCAGTAACAGAATA
* *
89521922 TGTGGCTAAGCCACCAG-AACAGGAAATA
1 CGTGGCAAAGCCACCAGTAACA-G-AATA
*
89521950 CGTGGCAAAGCCACTAGT-ACAGAA
1 CGTGGCAAAGCCACCAGTAACAGAA
89521974 CTTCCTCCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
26 4 0.10
27 17 0.40
28 21 0.50
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (27 bp):
CGTGGCAAAGCCACCAGTAACAGAATA
Found at i:89525768 original size:16 final size:17
Alignment explanation
Indices: 89525735--89525769 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
89525725 TAATACACAT
89525735 ATGTTTACATTAGCATC
1 ATGTTTACATTAGCATC
*
89525752 ATGTTTA-ATTTGCATC
1 ATGTTTACATTAGCATC
89525768 AT
1 AT
89525770 ATATCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (17 bp):
ATGTTTACATTAGCATC
Found at i:89525992 original size:43 final size:42
Alignment explanation
Indices: 89525926--89526094 Score: 191
Period size: 43 Copynumber: 4.0 Consensus size: 42
89525916 TTATCATACA
*
89525926 ATGCCAGC-GTCCCAGACGTGGTCTTACACGCAATCACATATCG
1 ATGCCA-CTGTCCCAGACATGGTCTTACACG-AATCACATATCG
* * * *
89525969 ATGCCACTATCCTAGACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAATCACATATCG
* * *
89526010 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATATTG
1 ATGCCACTGTCCCAGACATGGTCTTACAC-GAATCACATATCG
*
89526053 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACACATATC
1 ATGCC-ACTGTCCCAGACATGGTCTTACACG-AATCACATATC
89526095 AGAAATCCTA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 27 0.26
42 17 0.16
43 60 0.57
44 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:89532260 original size:28 final size:27
Alignment explanation
Indices: 89532229--89532303 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
89532219 TAAAATGGTT
*
89532229 AAATTCACTAAAATACCCCTAAGTATGA
1 AAATT-ACCAAAATACCCCTAAGTATGA
**
89532257 AAATTACCATCATACCCCTAAGTATGA
1 AAATTACCAAAATACCCCTAAGTATGA
**
89532284 AAATTACCATTATACCCCTA
1 AAATTACCAAAATACCCCTA
89532304 GGGTTAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 38 0.88
28 5 0.12
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAAGTATGA
Found at i:89532274 original size:27 final size:27
Alignment explanation
Indices: 89532241--89532303 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
89532231 ATTCACTAAA
89532241 ATACCCCTAAGTATGAAAATTACCATC
1 ATACCCCTAAGTATGAAAATTACCATC
*
89532268 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAGTATGAAAATTACCATC
89532295 ATACCCCTA
1 ATACCCCTA
89532304 GGGTTAATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGTATGAAAATTACCATC
Found at i:89532475 original size:27 final size:26
Alignment explanation
Indices: 89532405--89532520 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
89532395 TGAAGGAAGC
*
89532405 GTTCTGGTGGCTCTGCCTCAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
* * *
89532432 ATTTTTGGTGGCTCTGCCACAAATATTT
1 -GTTCTGGTGGCTCTGCCAC-AATATCT
* *
89532460 GTTCTGGTGGCACTGCTACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
89532486 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
89532513 GTTCTGGT
1 GTTCTGGT
89532521 AGCCATGCTG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
26 14 0.19
27 37 0.50
28 23 0.31
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:89532495 original size:54 final size:54
Alignment explanation
Indices: 89532405--89532520 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
89532395 TGAAGGAAGC
* * * * *
89532405 GTTCTGGTGGCTCTGCCTCAAATATCTATTTTTGGTGGCTCTGCCACAAATATTT
1 GTTCTGGTGGCACTGCCTCAAATATCTATATCTGGTGACTCTGCCAC-AATATCT
* *
89532460 GTTCTGGTGGCACTG-CT-ACAATATCTGTATCTGGTGACTCTGTCACAATATCT
1 GTTCTGGTGGCACTGCCTCA-AATATCTATATCTGGTGACTCTGCCACAATATCT
89532513 GTTCTGGT
1 GTTCTGGT
89532521 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 15 0.28
54 24 0.45
55 14 0.26
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (54 bp):
GTTCTGGTGGCACTGCCTCAAATATCTATATCTGGTGACTCTGCCACAATATCT
Found at i:89540098 original size:28 final size:27
Alignment explanation
Indices: 89540067--89540130 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
89540057 TGAAATGGTT
* *
89540067 AAATTCACTAAAATACCCCTAAGTATGA
1 AAATT-ACCAAAACACCCCTAAGTATGA
*
89540095 AAATTACCATAACACCCCTAAGTATGA
1 AAATTACCAAAACACCCCTAAGTATGA
*
89540122 AAGTTACCA
1 AAATTACCA
89540131 TTATACCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.23
Consensus pattern (27 bp):
AAATTACCAAAACACCCCTAAGTATGA
Found at i:89540112 original size:27 final size:27
Alignment explanation
Indices: 89540081--89540141 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
89540071 TCACTAAAAT
89540081 ACCCCTAAGTATGAAAATTACCATAAC
1 ACCCCTAAGTATGAAAATTACCATAAC
* * *
89540108 ACCCCTAAGTATGAAAGTTACCATTAT
1 ACCCCTAAGTATGAAAATTACCATAAC
89540135 ACCCCTA
1 ACCCCTA
89540142 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (27 bp):
ACCCCTAAGTATGAAAATTACCATAAC
Found at i:89540281 original size:28 final size:28
Alignment explanation
Indices: 89540244--89540338 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
89540234 GGAGGAAGTG
89540244 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
89540272 TTCTGGTGGCTCTGCCACAAATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
89540299 TTCTGGTGGCACTGCTAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
89540326 ATCTGGTGACTCT
1 TTCTGGTGGCTCT
89540339 ATCACAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
26 8 0.13
27 26 0.43
28 27 0.44
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:89540313 original size:27 final size:27
Alignment explanation
Indices: 89540242--89540357 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
89540232 ATGGAGGAAG
89540242 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGGCTCTGCCACAAATATC
89540269 TGTTTCTGGTGGCTCTGCCACAAATATC
1 TG-TTCTGGTGGCTCTGCCACAAATATC
* *
89540297 TGTTCTGGTGGCACTGCTAC-AATATC
1 TGTTCTGGTGGCTCTGCCACAAATATC
* **
89540323 TGTATCTGGTGACTCTATCAC-AATATC
1 TGT-TCTGGTGGCTCTGCCACAAATATC
*
89540350 TATTCTGG
1 TGTTCTGG
89540358 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.18
27 38 0.48
28 27 0.34
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TGTTCTGGTGGCTCTGCCACAAATATC
Found at i:89550579 original size:41 final size:42
Alignment explanation
Indices: 89550484--89550654 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
89550474 ATATTATACA
* * * * * *
89550484 ATGCCAACGTCCCAGGCGTGGTCTTTCATGCAATCACATATCA
1 ATGCCAATGTCCTAGACATGGTCTTACATG-AATCACATATCG
* * *
89550527 ATGCCACTGTCCTAGACAGGGTCTTACATGAATCAAATA-CG
1 ATGCCAATGTCCTAGACATGGTCTTACATGAATCACATATCG
89550568 ATGCCAATGTCCTAGACATGGTCTTACACAT-AATCACATATCG
1 ATGCCAATGTCCTAGACATGGTCTT--ACATGAATCACATATCG
* *
89550611 ATGCCAACGTTCC-AGACATGGTCTTACATGAAAACACATATCG
1 ATGCCAATG-TCCTAGACATGGTCTTACATG-AATCACATATCG
89550654 A
1 A
89550655 AAATCCTATG
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
41 28 0.26
42 16 0.15
43 61 0.56
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACATGAATCACATATCG
Found at i:89551830 original size:13 final size:13
Alignment explanation
Indices: 89551812--89551836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89551802 AGAAAATAAT
89551812 TTTAAAATATTTA
1 TTTAAAATATTTA
89551825 TTTAAAATATTT
1 TTTAAAATATTT
89551837 TTCTATCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAAAATATTTA
Found at i:89552386 original size:34 final size:31
Alignment explanation
Indices: 89552348--89552420 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 31
89552338 TTCCATGCTA
*
89552348 AATTCAATTCAGCAATGTAGTTATACATACATAC
1 AATTCAATTCAGCAATGTA--TATA-ATAAATAC
*
89552382 AATTCAATTCAGCTATGTATATAATAAATAC
1 AATTCAATTCAGCAATGTATATAATAAATAC
89552413 -ATTCAATT
1 AATTCAATT
89552421 TAACATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 8 0.22
31 7 0.19
32 4 0.11
34 18 0.49
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (31 bp):
AATTCAATTCAGCAATGTATATAATAAATAC
Found at i:89565569 original size:43 final size:42
Alignment explanation
Indices: 89565502--89565625 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
89565492 AAGGCTTGTA
* *
89565502 CAATGCTAAAGTCCCAGACATGGTCTTACATGTAATCAACTAT
1 CAATGC-AAAGTCCCAGACATGGTCTTACACGTAATCAACCAT
* *
89565545 CAATGCAAACGTCCCAAACGTGGTCTTACACGTAATCAACCAT
1 CAATGCAAA-GTCCCAGACATGGTCTTACACGTAATCAACCAT
* * * *
89565588 CAGTGCCAATGTCCTAGACATGGTCTTACACGAAATCA
1 CAATG-CAAAGTCCCAGACATGGTCTTACACGTAATCA
89565626 CATATCGGAG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.04
43 63 0.91
44 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
CAATGCAAAGTCCCAGACATGGTCTTACACGTAATCAACCAT
Found at i:89565739 original size:21 final size:22
Alignment explanation
Indices: 89565698--89565741 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
89565688 CTTTCGGACG
*
89565698 TCGTAATTCAATCGATTCATGC
1 TCGTAATTAAATCGATTCATGC
89565720 TCGTAA-TAAATC-ATTCCATGC
1 TCGTAATTAAATCGATT-CATGC
89565741 T
1 T
89565742 AAATTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 11 0.55
22 6 0.30
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (22 bp):
TCGTAATTAAATCGATTCATGC
Found at i:89570774 original size:46 final size:46
Alignment explanation
Indices: 89570722--89570893 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
89570712 TGGGCATCCA
* * *
89570722 AACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * * * *
89570768 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCCG
* * *
89570815 AGCTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * *
89570861 AGCTCATTGAGTTGAGTCCAAGTTCGCTTATGG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGG
89570894 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 57 0.56
47 26 0.25
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
Found at i:89573183 original size:9 final size:9
Alignment explanation
Indices: 89573121--89573196 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
89573111 ATCATTATTT
89573121 ATATAAAATA
1 ATATAAAA-A
*
89573131 ATTTAAAAA
1 ATATAAAAA
* *
89573140 ATA-AATAT
1 ATATAAAAA
89573148 ATATAATAAA
1 ATATAA-AAA
* *
89573158 AAATTAAAA
1 ATATAAAAA
* *
89573167 CTAGAAAAA
1 ATATAAAAA
89573176 ATATAAAAA
1 ATATAAAAA
*
89573185 ATTTAAAAA
1 ATATAAAAA
89573194 ATA
1 ATA
89573197 AATTTACAGA
Statistics
Matches: 48, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
8 6 0.12
9 30 0.62
10 12 0.25
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (9 bp):
ATATAAAAA
Found at i:89580006 original size:19 final size:18
Alignment explanation
Indices: 89579982--89580017 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
89579972 TCACATTTCA
89579982 TAATTTCATATTTCATTTT
1 TAATTTCATA-TTCATTTT
*
89580001 TAATTTCGTATTCATTT
1 TAATTTCATATTCATTT
89580018 CACATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATTTCATATTCATTTT
Found at i:89584869 original size:41 final size:41
Alignment explanation
Indices: 89584737--89584871 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
89584727 AGTACAACTT
* * * *
89584737 ACCTAATACAATACATTGGCACGAAGACTGCTAGGCTCAAA
1 ACCTAATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
* * * * * *
89584778 GCATGATAT-A-ACATACTGGCACAAAGCCTACTAGGCATAAA
1 ACCTAATATAATACAT-C-GGCACGAAGCCTGCTAGGCACAAA
* *
89584819 GCCTGATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
1 ACCTAATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
89584860 ACCTAATATAAT
1 ACCTAATATAAT
89584872 TGATACATGA
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 4 0.05
40 1 0.01
41 63 0.85
42 2 0.03
43 4 0.05
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ACCTAATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
Found at i:89588772 original size:12 final size:12
Alignment explanation
Indices: 89588757--89588795 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 12
89588747 TTCAAAATAT
89588757 AAATAAAGATAA
1 AAATAAAGATAA
89588769 AAATAAA-AT-A
1 AAATAAAGATAA
89588779 AAA-AAAG-TAA
1 AAATAAAGATAA
89588789 AAATAAA
1 AAATAAA
89588796 TAATAGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 4 0.17
10 8 0.33
11 5 0.21
12 7 0.29
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AAATAAAGATAA
Found at i:89596013 original size:36 final size:36
Alignment explanation
Indices: 89595964--89596034 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
89595954 GTATTGATAT
*
89595964 GGTTGCACGGGTCGCACAAGACGACTATGGACCTAA
1 GGTTGCACAGGTCGCACAAGACGACTATGGACCTAA
*
89596000 GGTTGCACAGGTCGCACAAGACGACTGTGGACCTA
1 GGTTGCACAGGTCGCACAAGACGACTATGGACCTA
89596035 CTGATGGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.17
Consensus pattern (36 bp):
GGTTGCACAGGTCGCACAAGACGACTATGGACCTAA
Found at i:89596081 original size:20 final size:20
Alignment explanation
Indices: 89596036--89596166 Score: 145
Period size: 20 Copynumber: 6.5 Consensus size: 20
89596026 GTGGACCTAC
* * *
89596036 TGATGGCTTTCTACCACTAC
1 TGATGGCTTTGTGCCACTAT
* **
89596056 TAATGGCTTTGTGCTGCTAT
1 TGATGGCTTTGTGCCACTAT
* *
89596076 TGATGGCTTTGTGCCGCTAC
1 TGATGGCTTTGTGCCACTAT
*
89596096 AGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
* * *
89596116 TGATGGCTTGGTGCTATTAT
1 TGATGGCTTTGTGCCACTAT
*
89596136 TGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCACTAT
89596156 TGATGGCTTTG
1 TGATGGCTTTG
89596167 GACCTAGGCT
Statistics
Matches: 91, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 91 1.00
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:89596130 original size:60 final size:60
Alignment explanation
Indices: 89596032--89596166 Score: 189
Period size: 60 Copynumber: 2.2 Consensus size: 60
89596022 GACTGTGGAC
* * * *
89596032 CTACTGATGGCTTTCTACCACTACTAATGGCTTTGTGCTGCTATTGATGGCTTTGTGCCG
1 CTACTGATGGCTTTGTACCACTACTAATGGCTTGGTGCTACTATTGATGGCTTTGTGCCA
* * * * *
89596092 CTACAGATGGCTTTGTGCCACTATTGATGGCTTGGTGCTATTATTGATGGCTTTGTGCCA
1 CTACTGATGGCTTTGTACCACTACTAATGGCTTGGTGCTACTATTGATGGCTTTGTGCCA
89596152 CTACTGATGGCTTTG
1 CTACTGATGGCTTTG
89596167 GACCTAGGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (60 bp):
CTACTGATGGCTTTGTACCACTACTAATGGCTTGGTGCTACTATTGATGGCTTTGTGCCA
Found at i:89600068 original size:20 final size:20
Alignment explanation
Indices: 89600039--89600209 Score: 191
Period size: 20 Copynumber: 8.6 Consensus size: 20
89600029 GTAGACGTAC
*
89600039 TGATGGCTTTGTGTCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* *
89600059 TGATGCCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
* *
89600079 TGATGGCTTTGTGTCGCTAC
1 TGATGGCTTTGTGCCGCTAT
* *
89600099 AGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
*
89600119 TGATGGCATTGTG-CGACTAT
1 TGATGGCTTTGTGCCG-CTAT
*
89600139 TGATGGTTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* **
89600159 TGATGGCTTGGTGCCATTAT
1 TGATGGCTTTGTGCCGCTAT
* *
89600179 TGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCGCTAT
*
89600199 TAATGGCTTTG
1 TGATGGCTTTG
89600210 GATCTAGGCA
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
19 1 0.01
20 122 0.98
21 2 0.02
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.40
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:89600083 original size:40 final size:40
Alignment explanation
Indices: 89600039--89600209 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
89600029 GTAGACGTAC
*
89600039 TGATGGCTTTGTGTCGCTATTGATGCCTTTGTGCCACTAT
1 TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
**
89600079 TGATGGCTTTGTGTCGCTACAGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
* * *
89600119 TGATGGCATTGTG-CGACTATTGATGGTTTTGTGCCGCTAT
1 TGATGGCTTTGTGTCG-CTATTGATGGCTTTGTGCCACTAT
* * ** *
89600159 TGATGGCTTGGTGCCATTATTGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
*
89600199 TAATGGCTTTG
1 TGATGGCTTTG
89600210 GATCTAGGCA
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.97
41 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.40
Consensus pattern (40 bp):
TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
Found at i:89600119 original size:60 final size:60
Alignment explanation
Indices: 89600040--89600209 Score: 223
Period size: 60 Copynumber: 2.8 Consensus size: 60
89600030 TAGACGTACT
* * * *
89600040 GATGGCTTTGTGTCGCTATTGATGCCTTTGTGCCACTATTGATGGCTTTGTGTCGCTACA
1 GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACA
* * * **
89600100 GATGGCTTTGTGCCACTATTGATGGCATTGTGCGACTATTGATGGTTTTGTGCCGCTATT
1 GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACA
* * * *
89600160 GATGGCTTGGTGCCATTATTGATGGCTTTGTGCCACTACTAATGGCTTTG
1 GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTG
89600210 GATCTAGGCA
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 94 1.00
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (60 bp):
GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACA
Found at i:89604183 original size:20 final size:20
Alignment explanation
Indices: 89604135--89604284 Score: 158
Period size: 20 Copynumber: 7.5 Consensus size: 20
89604125 GTGGACGTAC
* *
89604135 TGATGGCTTTGTG-CACTAC
1 TGATGGCTTTGTGCCGCTAT
89604154 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
** * *
89604174 TGATACCTTTGTGTCGCTAC
1 TGATGGCTTTGTGCCGCTAT
* *
89604194 AGATGGCTTTGTCCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
*
89604214 TGATGGTTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* * **
89604234 TAATGGCTTGGTGCCATTAT
1 TGATGGCTTTGTGCCGCTAT
* *
89604254 TGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCGCTAT
89604274 TGATGGCTTTG
1 TGATGGCTTTG
89604285 GACCTAGGGT
Statistics
Matches: 106, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
19 13 0.12
20 93 0.88
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:89608196 original size:20 final size:20
Alignment explanation
Indices: 89608171--89608324 Score: 173
Period size: 20 Copynumber: 7.7 Consensus size: 20
89608161 ACTATGGACG
*
89608171 TACTGATGGCTTTGTGCCGC
1 TACTGATGGCTTTGTGCCAC
***
89608191 TACTGATGGCTTTGTGTTGC
1 TACTGATGGCTTTGTGCCAC
*
89608211 TACAGATGGCTTTGTGCCAC
1 TACTGATGGCTTTGTGCCAC
* *
89608231 GATTGATGGCTTTGTGCCAC
1 TACTGATGGCTTTGTGCCAC
* * *
89608251 TATTGATGGTTTTGTGCCGC
1 TACTGATGGCTTTGTGCCAC
* * *
89608271 TATTGATGGCTTGGTGCCAT
1 TACTGATGGCTTTGTGCCAC
* *
89608291 TATTGATGGCTTGGTGCCAC
1 TACTGATGGCTTTGTGCCAC
89608311 TACTGATGGCTTTG
1 TACTGATGGCTTTG
89608325 GACCGAGGCT
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 115 1.00
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (20 bp):
TACTGATGGCTTTGTGCCAC
Found at i:89608247 original size:60 final size:60
Alignment explanation
Indices: 89608174--89608324 Score: 203
Period size: 60 Copynumber: 2.5 Consensus size: 60
89608164 ATGGACGTAC
* ** *
89608174 TGATGGCTTTGTGCCGCTACTGATGGCTTTGTGTTGCTACAGATGGCTTTGTGCCACGAT
1 TGATGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACAGATGGCTTGGTGCCACGAT
* * ** **
89608234 TGATGGCTTTGTGCCACTATTGATGGTTTTGTGCCGCTATTGATGGCTTGGTGCCATTAT
1 TGATGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACAGATGGCTTGGTGCCACGAT
*
89608294 TGATGGCTTGGTGCCACTACTGATGGCTTTG
1 TGATGGCTTTGTGCCACTACTGATGGCTTTG
89608325 GACCGAGGCT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 78 1.00
ACGTcount: A:0.13, C:0.19, G:0.30, T:0.38
Consensus pattern (60 bp):
TGATGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACAGATGGCTTGGTGCCACGAT
Found at i:89610789 original size:13 final size:13
Alignment explanation
Indices: 89610773--89610803 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
89610763 TCAATCGAAT
89610773 AATAACATTTCAA
1 AATAACATTTCAA
89610786 AATAACATTTCAA
1 AATAACATTTCAA
89610799 AATAA
1 AATAA
89610804 TTTCTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAACATTTCAA
Found at i:89613350 original size:37 final size:37
Alignment explanation
Indices: 89613300--89613378 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
89613290 TTATTACGAA
* *
89613300 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
89613337 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
89613374 GTCTT
1 GTCTT
89613379 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:89613575 original size:47 final size:47
Alignment explanation
Indices: 89613497--89614029 Score: 812
Period size: 47 Copynumber: 11.5 Consensus size: 47
89613487 CCCTTCGGGA
* * * * * * *
89613497 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89613544 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89613591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89613638 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89613685 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89613732 CTTATCACACATATACACTTTCACATTCATCACAT----C----GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89613771 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89613818 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89613865 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89613914 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89613961 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89614008 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
89614030 TTGGCTGAAT
Statistics
Matches: 453, Mismatches: 23, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
39 38 0.08
47 370 0.82
49 45 0.10
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89613893 original size:96 final size:94
Alignment explanation
Indices: 89613768--89614029 Score: 479
Period size: 96 Copynumber: 2.8 Consensus size: 94
89613758 TCATCACATC
* *
89613768 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
89613833 CACTTTCACATTCATCACATCGGCTATTA
66 CACTTTCACATTCATCACATCGGCTATTA
*
89613862 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
89613927 TACACTTTCACATTCATCACATCGGCTATTA
64 TACACTTTCACATTCATCACATCGGCTATTA
89613958 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
89614023 CACTTTC
66 CACTTTC
89614030 TTGGCTGAAT
Statistics
Matches: 162, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
94 71 0.44
96 91 0.56
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (94 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
CACTTTCACATTCATCACATCGGCTATTA
Found at i:89613949 original size:143 final size:141
Alignment explanation
Indices: 89613768--89614029 Score: 488
Period size: 143 Copynumber: 1.8 Consensus size: 141
89613758 TCATCACATC
89613768 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
*
89613833 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATC
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
89613898 ACATCGGCCATTA
129 ACATCGGCCATTA
*
89613911 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
89613976 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
89614030 TTGGCTGAAT
Statistics
Matches: 117, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
141 14 0.12
143 103 0.88
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (141 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTA
Found at i:89613950 original size:229 final size:227
Alignment explanation
Indices: 89613539--89614000 Score: 825
Period size: 229 Copynumber: 2.0 Consensus size: 227
89613529 CGTTGGCCAC
* * *
89613539 TCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATA
1 TCGGCCCTATCACACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATA
*
89613604 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
66 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
89613669 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
131 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
89613734 TATCACACATATACACTTTCACATTCATCACA
196 TATCACACATATACACTTTCACATTCATCACA
* * *
89613766 TCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATA
1 TCGGCCCTATCACACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATA
*
89613831 TACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCA
66 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCA
89613896 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
129 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
89613961 CTTATCACACATATACACTTTCACATTCATCACA
194 CTTATCACACATATACACTTTCACATTCATCACA
89613995 TCGGCC
1 TCGGCC
89614001 ATTAGGCCTT
Statistics
Matches: 224, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
227 99 0.44
229 125 0.56
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (227 bp):
TCGGCCCTATCACACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATA
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
TATCACACATATACACTTTCACATTCATCACA
Found at i:89613988 original size:276 final size:274
Alignment explanation
Indices: 89613497--89614029 Score: 886
Period size: 276 Copynumber: 1.9 Consensus size: 274
89613487 CCCTTCGGGA
** * * * * * *
89613497 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
89613562 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
89613627 GGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
* *
89613692 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACA
196 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACA
89613757 TTCATCACATCGGC
261 TTCATCACATCGGC
* * * *
89613771 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
* *
89613836 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCACTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
89613901 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
89613966 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
194 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
89614030 TTGGCTGAAT
Statistics
Matches: 239, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
274 88 0.37
276 151 0.63
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (274 bp):
CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACA
TTCATCACATCGGC
Found at i:89616745 original size:40 final size:40
Alignment explanation
Indices: 89616696--89616799 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 40
89616686 CACCAGCATG
* *
89616696 ATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCA
1 ATGC-CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CA
* * *
89616737 ATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACA
1 ATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACA
* *
89616777 AAGCCTTCGAGACTTAGCCCGGA
1 ATGCCTTCGGGACTTAGCCCGGA
89616800 CATCATTCGA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.06
40 39 0.75
41 10 0.19
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCACA
Found at i:89617141 original size:28 final size:29
Alignment explanation
Indices: 89617105--89617182 Score: 113
Period size: 28 Copynumber: 2.7 Consensus size: 29
89617095 CTTAATAATC
*
89617105 AACCACGCACACTTAGTGCCATGTATTT-A
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
89617134 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
89617163 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
89617183 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 22 0.50
29 22 0.50
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:89617225 original size:43 final size:43
Alignment explanation
Indices: 89617164--89617266 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
89617154 TGCATTTCAA
89617164 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
89617207 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
89617250 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
89617267 TAAAACCAAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:89619160 original size:37 final size:37
Alignment explanation
Indices: 89619110--89619188 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
89619100 TTATTACGAA
* *
89619110 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
89619147 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
89619184 GTCTT
1 GTCTT
89619189 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:89619384 original size:47 final size:47
Alignment explanation
Indices: 89619306--89619797 Score: 822
Period size: 47 Copynumber: 10.5 Consensus size: 47
89619296 CCCTTCGGGA
* * * * * * *
89619306 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89619353 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89619400 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89619447 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89619494 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89619541 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89619588 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89619635 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89619682 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89619729 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89619776 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
89619798 TTGGCTGAAT
Statistics
Matches: 424, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 424 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89623894 original size:41 final size:41
Alignment explanation
Indices: 89623828--89624001 Score: 170
Period size: 41 Copynumber: 4.2 Consensus size: 41
89623818 CAATACATTG
** * * * * *
89623828 GCACGAAAACTGCTAAGCTCAAAGCCTAATATAACACACCG
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
* * *
89623869 GCGCGAAGCCTGCTAGGCCCAAAGCCTGATATAATA-ATTCAA
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACA--CCA
** * *
89623911 AAACGAAGCCTACTAGGCACAAAGCCTGATATAATACACTA
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
* * *
89623952 GCACGAAGCCTGCTAGGCACAAAGCCTGATGTAGTACACCG
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
89623993 GCACGAAGC
1 GCACGAAGC
89624002 GGCACAAAGC
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 74 0.69
42 32 0.30
43 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.16
Consensus pattern (41 bp):
GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
Found at i:89626533 original size:12 final size:12
Alignment explanation
Indices: 89626516--89626557 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
89626506 GAATTGGAAC
*
89626516 CAAAATGAGAAT
1 CAAAATCAGAAT
89626528 CAAAATCAGAAT
1 CAAAATCAGAAT
* *
89626540 CAGAATCAAAAT
1 CAAAATCAGAAT
89626552 CAAAAT
1 CAAAAT
89626558 TACGTGACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.17
Consensus pattern (12 bp):
CAAAATCAGAAT
Found at i:89626540 original size:6 final size:6
Alignment explanation
Indices: 89626523--89626582 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
89626513 AACCAAAATG
* * * * *
89626523 AGAATC AAAATC AGAATC AGAATC AAAATC AAAATT ACGTGA-C AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
89626572 AGAATC AGAAT
1 AGAATC AGAAT
89626583 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
5 1 0.02
6 40 0.93
7 1 0.02
8 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.13, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:89626737 original size:27 final size:26
Alignment explanation
Indices: 89626700--89626765 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
89626690 AGCATGGTTG
*
89626700 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
89626726 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
89626753 CCAGAATCAGATA
1 CCAGAA-CAGATA
89626766 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:89626770 original size:27 final size:27
Alignment explanation
Indices: 89626700--89626773 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
89626690 AGCATGGTTG
* *
89626700 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
89626726 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
89626753 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
89626774 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:89626780 original size:27 final size:27
Alignment explanation
Indices: 89626724--89626781 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
89626714 GTGACAGAGT
* * *
89626724 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
89626751 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
89626778 CACC
1 CACC
89626782 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:89626986 original size:22 final size:22
Alignment explanation
Indices: 89626938--89626996 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
89626928 GTAAATACGT
*
89626938 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
89626960 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
89626982 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
89626997 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Done.