Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 269 of 328
Found at i:80517522 original size:16 final size:15
Alignment explanation
Indices: 80517503--80517543 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
80517493 AGAGAGCAGG
*
80517503 GGAAAGAAAGAAGGAA
1 GGAAA-AAAGAAAGAA
80517519 GGAAAAAGAGAAAGAA
1 GGAAAAA-AGAAAGAA
80517535 GGAAAAAAG
1 GGAAAAAAG
80517544 GAAAATTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
GGAAAAAAGAAAGAA
Found at i:80519674 original size:46 final size:46
Alignment explanation
Indices: 80519622--80519935 Score: 419
Period size: 46 Copynumber: 7.0 Consensus size: 46
80519612 AGTGTGCTCT
** *
80519622 CTGATATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
80519668 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
80519714 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
80519760 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
80519806 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
80519852 C--AT-T----T-CATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
80519890 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
80519936 ATGACAGAAA
Statistics
Matches: 242, Mismatches: 18, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
38 32 0.13
40 1 0.00
41 1 0.00
43 1 0.00
44 1 0.00
46 206 0.85
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:80519915 original size:84 final size:84
Alignment explanation
Indices: 80519774--80519935 Score: 315
Period size: 84 Copynumber: 1.9 Consensus size: 84
80519764 TATGAAATGA
*
80519774 ATAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCATGGTTGAAAG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAG
80519839 ATACCATGGCAACCATTTC
66 ATACCATGGCAACCATTTC
80519858 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAG
80519923 ATACCATGGCAAC
66 ATACCATGGCAAC
80519936 ATGACAGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (84 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAG
ATACCATGGCAACCATTTC
Found at i:80519923 original size:130 final size:134
Alignment explanation
Indices: 80519637--80519983 Score: 443
Period size: 130 Copynumber: 2.6 Consensus size: 134
80519627 ATGAAATGTG
* * * * **
80519637 TAAGGCCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
** *
80519702 TACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATAT
66 TACCATGGCAACC-AATAT---ATGCATAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
*
80519767 GAAATGAA
127 GAAAAGAA
**
80519775 TAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
80519840 TACCATGGCAACC-AT-T-T-CATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
66 TACCATGGCAACCAATATATGCATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
80519901 AGAA
131 AGAA
*
80519905 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAGTAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A-TAAGACCATGGTTG
* *
80519969 AAAGACACTATGGCA
61 AAAGATACCATGGCA
80519984 TCATGTCAAA
Statistics
Matches: 188, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
129 5 0.03
130 80 0.43
131 2 0.01
133 1 0.01
134 26 0.14
135 1 0.01
136 2 0.01
138 71 0.38
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (134 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACCAATATATGCATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
AGAA
Found at i:80519941 original size:46 final size:48
Alignment explanation
Indices: 80519858--80519988 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 48
80519848 CAACCATTTC
*
80519858 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-G-A-
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAAG
80519904 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA-G
* * * *
80519953 AGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 A-TAAGACCATGGTTGAAAGATACCATGGCAACATG
80519989 TCAAAGATAA
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
45 5 0.07
46 38 0.51
47 1 0.01
49 1 0.01
50 30 0.40
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (48 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAAG
Found at i:80522978 original size:46 final size:45
Alignment explanation
Indices: 80522925--80523100 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
80522915 TATTTGGGCA
80522925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
80522971 TCCGAACTAGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
80523018 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
80523064 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80523101 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 61 0.58
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:80523080 original size:93 final size:93
Alignment explanation
Indices: 80522921--80523092 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
80522911 AGGATATTTG
* * *
80522921 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTAGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCCAACTAGTTGAG
80522986 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
80523014 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCCAA-CTAGTTGA
80523078 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
80523093 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCCAACTAGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:80524950 original size:177 final size:177
Alignment explanation
Indices: 80524637--80525770 Score: 1391
Period size: 177 Copynumber: 6.5 Consensus size: 177
80524627 AATTCACAGG
* * * *
80524637 TCTTGTCTCCCTAAGCAATAGTGGAACAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* * * * ** * * * * * *
80524702 ATGTAGCAGATTTAAGTCACCAGCCTTATCTCCCTGAATTTGTAGTGGAA-TAGGCT--CAATAA
66 ATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCA-AGAAAGCAGGTTGGCAAT--
*** * *
80524764 ACAAGTCTTATC-TCCTTGAGGTTG-TAGTGAAGCAGACTGAAAATT-ACAGA
128 TGTAGTCTTATCTTCC-TGAGGTAGCAAG-GAAGCAGACTGAAAATTGA-AGA
* *
80524814 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* * * *
80524879 ATGGAGCAGATTTAAGCCACCAGCCTTATCTTTTTGAGGTAGCAAGAGAGCAGGTTGGCAATTGT
66 ATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGGCAATTGT
*
80524944 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTGAAGA
131 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGA
* * * *
80524991 TCTTATCTCCCTAAGAAATAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTATCGACA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* * * **
80525056 ATAGAGCAGATTTAAGCCACTAGTCTTATCTCTCTGAGGTAGCAAAAAAGCAGGTTGGTGATTGT
66 ATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGGCAATTGT
*
80525121 AGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACT-AAAGATTGAAGA
131 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAA-ATTGAAGA
* * * **
80525168 TCTTATCTCCCTAGGCAGTTGTAGAGCAGATC----ATGGTGAATCTTATCTCCATGTATCGGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* * * * *
80525229 ATGGAGCAGCTTTTAGCCACTAGCCTTATCTCTCTGAAGTAGCAAGAAAACAGGCTGGCAATTGT
66 ATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGGCAATTGT
*
80525294 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AAAGGTTGAAGA
131 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAA-ATTGAAGA
* *
80525341 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATTGGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* * * * *
80525406 ATAGAGCATATTTAAGCCACTAGTCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGGCGATTGT
66 ATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGGCAATTGT
* *
80525471 AGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGA
131 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGA
* * * *
80525518 TCTTATCTCCCTAGGCAGTTGTGGAGCAGATC----ATGGCGAATCTTATCTCCATGTATCGGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* ** * * *
80525579 ATGGAGCAGATTTTAGCCACTAGTTTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGGCGATTGT
66 ATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGGCAATTGT
* * *
80525644 AGTTTTGTCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGCAGA
131 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGA
* * ** * *
80525691 TATTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACAGTAAATCTTATCTCCATGTATCGGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
80525756 ATGGAGCAGATTTAA
66 ATGGAGCAGATTTAA
80525771 AGATGCAGTG
Statistics
Matches: 832, Mismatches: 109, Indels: 32
0.86 0.11 0.03
Matches are distributed among these distances:
173 309 0.37
176 5 0.01
177 506 0.61
178 8 0.01
179 4 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (177 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
ATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGGCAATTGT
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGA
Found at i:80525341 original size:350 final size:350
Alignment explanation
Indices: 80524637--80525770 Score: 1473
Period size: 350 Copynumber: 3.2 Consensus size: 350
80524627 AATTCACAGG
* * * *
80524637 TCTTGTCTCCCTAAGCAATAGTGGAACAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* * * * * *** * * *
80524702 AT-GTAGCAGATTTAAGTCACCAGCCTTATCTCCCTGAATTTGTAG--TGGAA-TAGGCT--CAA
66 ATAG-AGCAGATTTAAGCCACTAGTCTTATCTCTCT-AA--GGTAGCAAAAAAGCAGGTTGGCGA
*** * *
80524761 TAAACAAGTCTTATC-TCCTTGAGGTTG-TAGTGAAGCAGACTGAAA-ATT-ACAGATCTTATCT
127 T--TGTAGTCTTATCTTCC-TGAGGTAGCAAG-GAAGCAGACT-AAAGATTGA-AGATCTTATCT
* * *
80524822 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCAGCAATGGAGCA
186 CCCTAGGCAGTTGTGGAGCAGATC----ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCA
* * * * *
80524887 GATTTAAGCCACCAGCCTTATCTTTTTGAGGTAGCAAGAGAGCAGGTTGGCAATTGTAGTCTTAT
247 GATTTTAGCCACTAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGGCAATTGTAGTCTTAT
*
80524952 CTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTGAAGA
312 CTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGA
* * * *
80524991 TCTTATCTCCCTAAGAAATAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTATCGACA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* *
80525056 ATAGAGCAGATTTAAGCCACTAGTCTTATCTCTCTGAGGTAGCAAAAAAGCAGGTTGGTGATTGT
66 ATAGAGCAGATTTAAGCCACTAGTCTTATCTCTCTAAGGTAGCAAAAAAGCAGGTTGGCGATTGT
*
80525121 AGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGAAGATCTTATCTCCCTAGGCAG
131 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAGGCAG
* * *
80525186 TTGTAGAGCAGATCATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGCTTTTAGCCACTA
196 TTGTGGAGCAGATCATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTA
* * *
80525251 GCCTTATCTCTCTGAAGTAGCAAGAAAACAGGCTGGCAATTGTAGTCTTATCTTCCTGAGGTAGC
261 GCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGGCAATTGTAGTCTTATCTTCCTGAGGTAGC
*
80525316 AAGGAAGCAGACT-AAAGGTTGAAGA
326 AAGGAAGCAGACTGAAA-ATTGAAGA
* *
80525341 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATTGGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
* *
80525406 ATAGAGCATATTTAAGCCACTAGTCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGGCGATTGT
66 ATAGAGCAGATTTAAGCCACTAGTCTTATCTCTCTAAGGTAGCAAAAAAGCAGGTTGGCGATTGT
* *
80525471 AGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAGGCAG
131 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAGGCAG
*
80525536 TTGTGGAGCAGATCATGGCGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACTA
196 TTGTGGAGCAGATCATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTA
** * * *
80525601 GTTTTATCTCTCTG-AGATAGCAAGAGAGCAGGTTGGCGATTGTAGTTTTGTCTTCCTGAGGTAG
261 GCCTTATCTCTCTGAAG-TAGCAAGAGAGCAGGTTGGCAATTGTAGTCTTATCTTCCTGAGGTAG
*
80525665 CAAGGAAGCAGACTGAAAATTGCAGA
325 CAAGGAAGCAGACTGAAAATTGAAGA
* * ** * *
80525691 TATTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACAGTAAATCTTATCTCCATGTATCGGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
*
80525756 ATGGAGCAGATTTAA
66 ATAGAGCAGATTTAA
80525771 AGATGCAGTG
Statistics
Matches: 689, Mismatches: 78, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
349 5 0.01
350 510 0.74
351 7 0.01
353 6 0.01
354 152 0.22
355 7 0.01
356 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (350 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCA
ATAGAGCAGATTTAAGCCACTAGTCTTATCTCTCTAAGGTAGCAAAAAAGCAGGTTGGCGATTGT
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAGGCAG
TTGTGGAGCAGATCATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTA
GCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGGCAATTGTAGTCTTATCTTCCTGAGGTAGC
AAGGAAGCAGACTGAAAATTGAAGA
Found at i:80528910 original size:21 final size:19
Alignment explanation
Indices: 80528886--80528953 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 19
80528876 TATAAATGTA
80528886 TTAATATCTAATTATAAATAT
1 TTAATAT-TAATT-TAAATAT
80528907 TTAATAGTTATATTTAAATAT
1 TTAATA-TTA-ATTTAAATAT
* *
80528928 TTAAAATATAATTTATATAT
1 TTAATAT-TAATTTAAATAT
80528948 TCTAAT
1 T-TAAT
80528954 TAAATTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 11 0.28
21 25 0.62
22 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (19 bp):
TTAATATTAATTTAAATAT
Found at i:80530950 original size:22 final size:22
Alignment explanation
Indices: 80530920--80530966 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
80530910 TACAAATGAA
* *
80530920 AAATATAATT-TTCATTTTTTT
1 AAATATAATTATTAATTTTGTT
80530941 AAATAATAATTATTAATTTTGTT
1 AAAT-ATAATTATTAATTTTGTT
80530964 AAA
1 AAA
80530967 ATTTAACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 6 0.27
23 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATATAATTATTAATTTTGTT
Found at i:80542313 original size:48 final size:48
Alignment explanation
Indices: 80542255--80542522 Score: 272
Period size: 48 Copynumber: 5.6 Consensus size: 48
80542245 TGTGTGCTAC
* *
80542255 TGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCCAG
* * **** * * *
80542303 TGTAAAACCATGTCTGGTACATGGCATCGATGTTGATATGTGCGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCCAG
80542351 TGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATCATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCACGAT-ATGAGAGCCAG
* * * * * *
80542399 TGTAAGACTATGTCTGGGACATGGCATC-AACATTGAGAAGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCA-CGATATGAGAGCCAG
* * * * *
80542447 TGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGACATGTGAGTCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CCACGATATGAGAGCCAG
* *
80542495 TGTAAGACCATGTTTGGAACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
80542523 TACAATTAGC
Statistics
Matches: 178, Mismatches: 38, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
47 5 0.03
48 171 0.96
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCCAG
Found at i:80542412 original size:96 final size:97
Alignment explanation
Indices: 80542240--80542522 Score: 349
Period size: 96 Copynumber: 2.9 Consensus size: 97
80542230 GACATTTGGG
* * * *
80542240 TGATATGTGTGCTACTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGAT-ATGAGAGCCAGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATCATGAGAGCCAGT
* * * **
80542304 GTAAAACCATGTCTGGTACATGGCATCGATGT
66 GTAAGACCATGTCTGGAACATGGCATCAACAT
*
80542336 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATCATGAGAGCCAGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATCATGAGAGCCAGT
* *
80542400 GTAAGACTATGTCTGGGACATGGCATCAACAT
66 GTAAGACCATGTCTGGAACATGGCATCAACAT
* * * * * * *
80542432 TGAGAAGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGA-CATGTGAGTCAA
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACGATCATGAGAGCCAG
*
80542495 TGTAAGACCATGTTTGGAACATGGCATC
65 TGTAAGACCATGTCTGGAACATGGCATC
80542523 TACAATTAGC
Statistics
Matches: 163, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
95 3 0.02
96 159 0.98
97 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (97 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATCATGAGAGCCAGT
GTAAGACCATGTCTGGAACATGGCATCAACAT
Found at i:80546066 original size:101 final size:100
Alignment explanation
Indices: 80545888--80546225 Score: 352
Period size: 101 Copynumber: 3.3 Consensus size: 100
80545878 ATTGTGAGAA
* * * *** * *
80545888 CACATGTGTAGTACTACGTGTAGGCTACTATGTGTTTTAAATGGTTTTAGGTCACATGTGTGGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAT-G-CTTAGATCACATGTGTGGTA
*
80545953 CTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
64 CTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGT
** *
80545990 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTTGATCACATGTGTGGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAT-GCTTAGATCACATGTGTGGTAC
* **
80546055 TAAGTGCAGGCTAGTATGTGTAAGAGATGGTTTTAGGT
65 TAAGTGCAGGCTACTATGTGTACCAGATGG--TTAGGT
* * * * * * *
80546093 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCGCATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATGCTTAGATCACATGTGTGGTACT
* * * * * *
80546158 AAGTGCAAGCTACTATGCGTACCCGATAGCTTCGAT
66 AAGTGCAGGCTACTATGTGTACCAGAT-GGTTAGGT
* *
80546194 CACATGTGTGGTACTAAGTGCAGGCCACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
80546226 TGTAAGAGAT
Statistics
Matches: 194, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
101 76 0.39
102 74 0.38
103 44 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATGCTTAGATCACATGTGTGGTACT
AAGTGCAGGCTACTATGTGTACCAGATGGTTAGGT
Found at i:80546170 original size:153 final size:153
Alignment explanation
Indices: 80545888--80546268 Score: 586
Period size: 153 Copynumber: 2.5 Consensus size: 153
80545878 ATTGTGAGAA
* * * *** * * *
80545888 CACATGTGTAGTACTACGTGTAGGCTACTATGTGTTTTAAATGGTTTTAGGTCACATGTGTGGTA
1 CACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAGAGATGGTTTTAGGTCACGTGTGTAGTA
* *
80545953 CTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTAC
66 CTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACATGTGTAGTACTAAGTGCAAGCTAC
*
80546018 TATGCGTACCCGATAGCTTTGAT
131 TATGCGTACCCGATAGCTTCGAT
*
80546041 CACATGTGTGGTACTAAGTGCAGGCTAGTATGTGTAAGAGATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAGAGATGGTTTTAGGTCACGTGTGTAGTA
*
80546106 CTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTAC
66 CTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACATGTGTAGTACTAAGTGCAAGCTAC
80546171 TATGCGTACCCGATAGCTTCGAT
131 TATGCGTACCCGATAGCTTCGAT
* * *
80546194 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTT-GGTCACAG-ATGTCGT
1 CACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAGAGATGGTTTTAGGTCAC-GTGTGTAGT
80546257 ACTAAGTGCAGG
65 ACTAAGTGCAGG
80546269 TATATGTGTG
Statistics
Matches: 209, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
152 23 0.11
153 186 0.89
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (153 bp):
CACATGTGTGGTACTAAGTGCAGGCTACTATGTGTAAGAGATGGTTTTAGGTCACGTGTGTAGTA
CTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACATGTGTAGTACTAAGTGCAAGCTAC
TATGCGTACCCGATAGCTTCGAT
Found at i:80546248 original size:51 final size:51
Alignment explanation
Indices: 80545888--80546277 Score: 403
Period size: 51 Copynumber: 7.7 Consensus size: 51
80545878 ATTGTGAGAA
* * *** *
80545888 CACATGTGTAGTACTACGTGTAGGCTACTATGTGTTTTAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTT-GGT
* * *
80545940 CACATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGGT
* * * * *
80545990 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGGT
* * **
80546041 CACATGTGTGGTACTAAGTGCAGGCTAGTATGTGTAAGAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTT-GGT
* * * *
80546093 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGGT
* * * * * * * *
80546143 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGGT
* * **
80546194 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGGT
*
80546245 CACA-GATGTCGTACTAAGTGCAGG-TA-TATGTGT
1 CACATG-TGTAGTACTAAGTGCAGGCTACTATGTGT
80546278 GTGAAAATAT
Statistics
Matches: 277, Mismatches: 57, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
49 7 0.03
50 83 0.30
51 112 0.40
52 75 0.27
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTTTGGT
Found at i:80553030 original size:17 final size:17
Alignment explanation
Indices: 80553008--80553040 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
80552998 TGAAACTACT
80553008 ATGCTACCTAACTTATA
1 ATGCTACCTAACTTATA
80553025 ATGCTACCTAACTTAT
1 ATGCTACCTAACTTAT
80553041 CTCTTAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
ATGCTACCTAACTTATA
Found at i:80557943 original size:20 final size:20
Alignment explanation
Indices: 80557920--80557978 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
80557910 TAAACATGGT
80557920 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
80557940 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAC
*
80557960 ATGTATGATATGTACATGA
1 ATGTATGATATGCACATGA
80557979 GGTATTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:80558055 original size:24 final size:23
Alignment explanation
Indices: 80558029--80558171 Score: 189
Period size: 24 Copynumber: 6.0 Consensus size: 23
80558019 GAGGAAGTGC
80558029 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
80558052 CAAAAGGGCTTATACCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
80558076 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
80558099 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
80558123 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
80558147 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
80558171 A
1 A
80558172 CGATAAAGGA
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.39
24 56 0.51
25 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:80558084 original size:23 final size:23
Alignment explanation
Indices: 80558030--80558149 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
80558020 AGGAAGTGCA
*
80558030 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
80558054 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
80558077 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
80558100 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
80558123 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
80558147 AAA
1 AAA
80558150 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 48 0.53
24 43 0.47
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:80558128 original size:47 final size:47
Alignment explanation
Indices: 80558029--80558149 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
80558019 GAGGAAGTGC
*
80558029 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATACCCCAGTTATT
*
80558077 -AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATACCCCAGTTATT
*
80558123 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
80558150 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
46 22 0.32
47 47 0.68
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATACCCCAGTTATT
Found at i:80558395 original size:31 final size:31
Alignment explanation
Indices: 80558360--80558422 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
80558350 CGTTTACAGT
80558360 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
80558391 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
80558422 A
1 A
80558423 CTATGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:80564997 original size:42 final size:42
Alignment explanation
Indices: 80564884--80565048 Score: 120
Period size: 44 Copynumber: 3.8 Consensus size: 42
80564874 AAAGCTCGTA
* ** ***
80564884 CAATGCCAACGTCCCAGATGTGGTCTTACATGTAATCA-AATAT
1 CAATGCCAACATCCCAGACATGGTCTTACACAAAAT-ATAA-AT
* * *
80564927 CGATGCC-ACTATCCCATACAGGGTCTTACACAAAAT-TAAAT
1 CAATGCCAAC-ATCCCAGACATGGTCTTACACAAAATATAAAT
* * ** *
80564968 ACAATGTCGATGTCCCAGACATGGTCTTACACATAAATCATAAGT
1 -CAATGCCAACATCCCAGACATGGTCTTACACA-AAAT-ATAAAT
80565013 CAATGCCAACATCCCAGACATGGTCTTACACGAAAA
1 CAATGCCAACATCCCAGACATGGTCTTACAC-AAAA
80565049 CACATATATC
Statistics
Matches: 94, Mismatches: 20, Indels: 15
0.73 0.16 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 29 0.31
44 30 0.32
45 5 0.05
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (42 bp):
CAATGCCAACATCCCAGACATGGTCTTACACAAAATATAAAT
Found at i:80566994 original size:19 final size:19
Alignment explanation
Indices: 80566952--80566995 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
80566942 GTACGGGGTT
*
80566952 TATGCACTTCATGTGCCAG
1 TATGCACTTCATGAGCCAG
* * *
80566971 CATGCACTTCGTGAGCTAG
1 TATGCACTTCATGAGCCAG
80566990 TATGCA
1 TATGCA
80566996 TTGTGGTGCC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (19 bp):
TATGCACTTCATGAGCCAG
Found at i:80569960 original size:24 final size:24
Alignment explanation
Indices: 80569920--80569986 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
80569910 ATTTAATTAG
* *
80569920 ATAAATTAATTAA-ATTTATTTGAA
1 ATAAA-TAAATAATATTTATTGGAA
*
80569944 ATAAATAAATAATATTT-TGGGAA
1 ATAAATAAATAATATTTATTGGAA
*
80569967 ATAGA-AAA-AATATTTATTGG
1 ATAAATAAATAATATTTATTGG
80569987 GTTGGATGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 7 0.19
22 6 0.17
23 14 0.39
24 9 0.25
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (24 bp):
ATAAATAAATAATATTTATTGGAA
Found at i:80579551 original size:7 final size:7
Alignment explanation
Indices: 80579539--80579586 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
80579529 TTGAAGACTT
80579539 TTATTTA
1 TTATTTA
80579546 TTATTTA
1 TTATTTA
80579553 TTATTTA
1 TTATTTA
*
80579560 TTATTTT
1 TTATTTA
*
80579567 TTACTT-
1 TTATTTA
*
80579573 TTATCT-
1 TTATTTA
80579579 TTATTTA
1 TTATTTA
80579586 T
1 T
80579587 CTTTTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 9 0.26
7 26 0.74
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:80579611 original size:26 final size:26
Alignment explanation
Indices: 80579578--80579643 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
80579568 TACTTTTATC
*
80579578 TTTA-TTTATCTTTTTTAA-ATTACTT
1 TTTATTTTATCTTTTTTAATACTA-TT
*
80579603 TTTATTTTATTTCTTTTTAATACTATT
1 TTTATTTTATCT-TTTTTAATACTATT
*
80579630 TTTATTTCATCTTT
1 TTTATTTTATCTTT
80579644 AGGTTTTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.12
26 8 0.24
27 19 0.56
28 3 0.09
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTATTTTATCTTTTTTAATACTATT
Found at i:80584802 original size:23 final size:22
Alignment explanation
Indices: 80584724--80584828 Score: 106
Period size: 24 Copynumber: 4.6 Consensus size: 22
80584714 TTTGTTGATA
*
80584724 AACAGTAAGCTCTATTGAGCAG
1 AACAGTAAGCTCTATTGAGCTG
*
80584746 AAAATGGTAAGCTCTATTGAGCTG
1 AACA--GTAAGCTCTATTGAGCTG
*
80584770 AACAGTAAGCTCT-TTCGAGTTG
1 AACAGTAAGCTCTATT-GAGCTG
*
80584792 AATCAGTAAGCTCCGA-TGAGCTG
1 AA-CAGTAAGCT-CTATTGAGCTG
80584815 AAACAGTAAGCTCT
1 -AACAGTAAGCTCT
80584829 TACAAGCTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
21 2 0.03
22 20 0.29
23 23 0.33
24 24 0.35
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:80584836 original size:23 final size:23
Alignment explanation
Indices: 80584764--80584836 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
80584754 AAGCTCTATT
*
80584764 GAGCTG-AACAGTAAGCTCTTTC
1 GAGCTGAAACAGTAAGCTCTTAC
* * ** *
80584786 GAGTTGAATCAGTAAGCTCCGAT
1 GAGCTGAAACAGTAAGCTCTTAC
80584809 GAGCTGAAACAGTAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCTTAC
*
80584832 AAGCT
1 GAGCT
80584837 ATGGTGAGTC
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
22 5 0.13
23 33 0.87
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:80587033 original size:36 final size:36
Alignment explanation
Indices: 80586982--80587054 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
80586972 TGTTTCCCAT
* * *
80586982 CTTTCTTACCTTTCA-CTAGGAGCTTTCACTATTCAC
1 CTTTCTTACCATTCACCAAGGA-CTTTCACTATCCAC
80587018 CTTTCTTACCATTCACCAAGGACTTTCACTATCCAC
1 CTTTCTTACCATTCACCAAGGACTTTCACTATCCAC
80587054 C
1 C
80587055 ACTTTTCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 28 0.85
37 5 0.15
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.37
Consensus pattern (36 bp):
CTTTCTTACCATTCACCAAGGACTTTCACTATCCAC
Found at i:80593311 original size:31 final size:31
Alignment explanation
Indices: 80593276--80593337 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
80593266 AAATAAGAAA
80593276 AGTAAATTAAATAAATTTAATAAATTTTATC
1 AGTAAATTAAATAAATTTAATAAATTTTATC
80593307 AGTAAATTAAATAAATTTAATAAATTTTATC
1 AGTAAATTAAATAAATTTAATAAATTTTATC
80593338 CCTCCAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
AGTAAATTAAATAAATTTAATAAATTTTATC
Found at i:80593333 original size:9 final size:9
Alignment explanation
Indices: 80593278--80593333 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
80593268 ATAAGAAAAG
*
80593278 TAAATTAAA
1 TAAATTTAA
80593287 TAAATTTAA
1 TAAATTTAA
80593296 TAAATTTTATCA
1 TAAA-TTTA--A
*
80593308 GTAAATTAAA
1 -TAAATTTAA
80593318 TAAATTTAA
1 TAAATTTAA
80593327 TAAATTT
1 TAAATTT
80593334 TATCCCTCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 27 0.68
10 5 0.12
12 4 0.10
13 4 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (9 bp):
TAAATTTAA
Found at i:80605197 original size:29 final size:28
Alignment explanation
Indices: 80605163--80605264 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 28
80605153 ACTCGATCAC
*
80605163 GCACACTTAGTGCCATGTGATTTAAGCCT
1 GCACACTTAGTGCCATAT-ATTTAAGCCT
* * *
80605192 GCACACATAGTGCCATACAATTTGAG-CT
1 GCACACTTAGTGCCATA-TATTTAAGCCT
* * *
80605220 CGCACACTCAGTGCCATATATTTCCAGCTT
1 -GCACACTTAGTGCCATATATTT-AAGCCT
80605250 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
80605265 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
28 6 0.10
29 52 0.88
30 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCCATATATTTAAGCCT
Found at i:80613013 original size:29 final size:28
Alignment explanation
Indices: 80612947--80613029 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
80612937 GTGCTATGTG
* *
80612947 ATTTAAGCCCGCACACATAGTGCCATACA
1 ATTTCAGCTCGCACAC-TAGTGCCATACA
* *
80612976 ATTTGAGCTCGCACACTCAGTGCCATA-T
1 ATTTCAGCTCGCACACT-AGTGCCATACA
*
80613004 ATTTCCAGCTTGCACACTTAGTGCCA
1 ATTT-CAGCTCGCACAC-TAGTGCCA
80613030 ATCTCGTCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 5 0.11
29 40 0.87
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (28 bp):
ATTTCAGCTCGCACACTAGTGCCATACA
Found at i:80618707 original size:42 final size:42
Alignment explanation
Indices: 80618656--80618784 Score: 240
Period size: 42 Copynumber: 3.1 Consensus size: 42
80618646 TTTGGCTAAT
*
80618656 GTTAGCCTATGTGCTTTGATTGTGGAATTGACCATTTGGTTA
1 GTTAGCCTATGTGCTTTGGTTGTGGAATTGACCATTTGGTTA
80618698 GTTAGCCTATGTGCTTTGGTTGTGGAATTGACCATTTGGTTA
1 GTTAGCCTATGTGCTTTGGTTGTGGAATTGACCATTTGGTTA
*
80618740 GTTAACCTATGTGCTTTGGTTGTGGAATTGACCATTTGGTTA
1 GTTAGCCTATGTGCTTTGGTTGTGGAATTGACCATTTGGTTA
80618782 GTT
1 GTT
80618785 TGCATCTAGG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.43
Consensus pattern (42 bp):
GTTAGCCTATGTGCTTTGGTTGTGGAATTGACCATTTGGTTA
Found at i:80618718 original size:22 final size:22
Alignment explanation
Indices: 80618690--80618760 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
80618680 GAATTGACCA
80618690 TTTGGTTAGTTAGCCTATGTGC
1 TTTGGTTAGTTAGCCTATGTGC
* ** **
80618712 TTTGGTT-G-TGGAAT-TGACC
1 TTTGGTTAGTTAGCCTATGTGC
*
80618731 ATTTGGTTAGTTAACCTATGTGC
1 -TTTGGTTAGTTAGCCTATGTGC
80618754 TTTGGTT
1 TTTGGTT
80618761 GTGGAATTGA
Statistics
Matches: 34, Mismatches: 11, Indels: 8
0.64 0.21 0.15
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 2 0.06
22 16 0.47
23 3 0.09
ACGTcount: A:0.15, C:0.11, G:0.27, T:0.46
Consensus pattern (22 bp):
TTTGGTTAGTTAGCCTATGTGC
Found at i:80618737 original size:20 final size:20
Alignment explanation
Indices: 80618712--80618780 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
80618702 GCCTATGTGC
80618712 TTTGGTTGTGGAATTGACCA
1 TTTGGTTGTGGAATTGACCA
* **
80618732 TTTGGTTAGT-TAACCTATGTGC-
1 TTTGGTT-GTGGAA--T-TGACCA
80618754 TTTGGTTGTGGAATTGACCA
1 TTTGGTTGTGGAATTGACCA
80618774 TTTGGTT
1 TTTGGTT
80618781 AGTTTGCATC
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 3 0.08
20 17 0.46
21 4 0.11
22 10 0.27
23 3 0.08
ACGTcount: A:0.17, C:0.10, G:0.28, T:0.45
Consensus pattern (20 bp):
TTTGGTTGTGGAATTGACCA
Found at i:80619622 original size:28 final size:28
Alignment explanation
Indices: 80619585--80619642 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
80619575 ATGAGTAATC
* *
80619585 ATAAATCTTAGTTATTTGCATATAAATA
1 ATAAAGCTTAGTTAGTTGCATATAAATA
80619613 ATAAAGCTTAGTTAGTTGCATATAAATA
1 ATAAAGCTTAGTTAGTTGCATATAAATA
80619641 AT
1 AT
80619643 TATACAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (28 bp):
ATAAAGCTTAGTTAGTTGCATATAAATA
Found at i:80619986 original size:47 final size:47
Alignment explanation
Indices: 80619905--80620068 Score: 176
Period size: 47 Copynumber: 3.5 Consensus size: 47
80619895 GCCGATGCCG
* * * *
80619905 TGTCCCAGACACGGTCTTACACAGGCTTAT-ATCTCAAGTTGAAGCCA
1 TGTCCCAGACATGGTCTTACACTGAC-TATCATCTCAAGTCGAAGCCA
* *
80619952 TGTCCAAGACATGGTCTTACACTGACTATCATCTCATAGTCGACG-CA
1 TGTCCCAGACATGGTCTTACACTGACTATCATCTCA-AGTCGAAGCCA
* *
80619999 TGTCCCAGACAT-GTCTTACACT-AGC-ACTCGTCTCAATGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGA-CTA-TCATCTCAA-GTCGAAGCCA
80620046 TGTCCCAGACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
80620069 AGCTCTCACA
Statistics
Matches: 101, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
45 3 0.03
46 27 0.27
47 55 0.54
48 16 0.16
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGTCGAAGCCA
Found at i:80630281 original size:37 final size:37
Alignment explanation
Indices: 80630231--80630313 Score: 157
Period size: 37 Copynumber: 2.2 Consensus size: 37
80630221 CAGCTACAAT
80630231 AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
1 AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
80630268 AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
1 AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
*
80630305 AAATAACAT
1 AAACAACAT
80630314 CTTGGTATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (37 bp):
AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
Found at i:80631052 original size:46 final size:47
Alignment explanation
Indices: 80630912--80631127 Score: 155
Period size: 46 Copynumber: 4.7 Consensus size: 47
80630902 ATCTGTGTCA
* * *
80630912 ATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAT-GCCG
* * * * *
80630958 ATG-CATGTCCCAAACAT-GTCCTACCCTAGC-TTACATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACT-CATCTC-ATGCCG
* * *
80631004 ATG-CATGTCCTAGACAT-GTCTTACACTAGCACTCGTCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-ATGCCG
* * * * *
80631050 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATGAT-GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-CTCAT-GCCG
*
80631098 ACG-CATGTCCCAGACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
80631128 TCACACAAGT
Statistics
Matches: 133, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
44 8 0.06
45 13 0.10
46 62 0.47
47 29 0.22
48 20 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCATGCCG
Found at i:80640643 original size:72 final size:71
Alignment explanation
Indices: 80640507--80640665 Score: 180
Period size: 72 Copynumber: 2.3 Consensus size: 71
80640497 CTAGCCAATT
* * * * * *
80640507 TATCTCGTAGCTCTCTTGTCTACATGGTATCCTTCACTTGGAATCACACATGTGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGGGATACATCAC-TCGAATCACACATGCGACCTAGCTACA
80640572 TTTATCC
65 TTTATCC
*
80640579 TATCCCGTAGCTCTCTTGTCTACATGGGATACATC-C-CGTATCACACATGCGACCTAGCTAC-T
1 TATCCCGTAGCTCTCTTGTCTACATGGGATACATCACTCGAATCACACATGCGACCTAGCTACAT
** **
80640641 ACATAG
66 TTATCC
*
80640647 TATCTCGTAGCTCTCTTGT
1 TATCCCGTAGCTCTCTTGT
80640666 ACACATGATG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
68 21 0.28
69 22 0.29
71 1 0.01
72 31 0.41
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (71 bp):
TATCCCGTAGCTCTCTTGTCTACATGGGATACATCACTCGAATCACACATGCGACCTAGCTACAT
TTATCC
Found at i:80640902 original size:23 final size:19
Alignment explanation
Indices: 80640860--80640899 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
80640850 GAAGTTAATG
80640860 TATTATTTACATACAAACT
1 TATTATTTACATACAAACT
80640879 TATTATTTACATACAAACT
1 TATTATTTACATACAAACT
80640898 TA
1 TA
80640900 CTTCGGTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTATTTACATACAAACT
Found at i:80649013 original size:5 final size:5
Alignment explanation
Indices: 80649003--80649027 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
80648993 AATGCCAACC
80649003 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
80649028 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:80652576 original size:42 final size:43
Alignment explanation
Indices: 80652480--80652578 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
80652470 GCCAACTTCT
* * *
80652480 CAGACGTGGTCTTACATGTAATCAAACATCGATACCACTGTCC
1 CAGACATGGTCTTACATGAAATCAAACATCGATACCAATGTCC
* * *
80652523 CAGACAAGGTCTTACATGAAATCATATA-CGA-AGCCAATGTCC
1 CAGACATGGTCTTACATGAAATCAAACATCGATA-CCAATGTCC
80652565 CAGACATGGTCTTA
1 CAGACATGGTCTTA
80652579 TATGTAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.02
42 24 0.50
43 23 0.48
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
CAGACATGGTCTTACATGAAATCAAACATCGATACCAATGTCC
Found at i:80655171 original size:12 final size:12
Alignment explanation
Indices: 80655132--80655163 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
80655122 GTCAGGCTTT
80655132 ACACGG-CTAGC
1 ACACGGCCTAGC
80655143 ACACGGCCTAGC
1 ACACGGCCTAGC
80655155 ACACGGCCT
1 ACACGGCCT
80655164 GACACACGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:80660167 original size:29 final size:29
Alignment explanation
Indices: 80660134--80660293 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
80660124 GTGACGAGAT
80660134 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
80660163 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
80660192 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
80660221 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
80660250 TGGCACTAAGTGTGCAAGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
80660278 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
80660294 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 14 0.11
29 109 0.89
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:80667231 original size:29 final size:29
Alignment explanation
Indices: 80667199--80667273 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
80667189 TCATATTACA
80667199 TTTTAGTCACTTATGTTTGAAATGCTATG
1 TTTTAGTCACTTATGTTTGAAATGCTATG
*
80667228 TTTTAGTCACTTATGTTTGAAATGTTATG
1 TTTTAGTCACTTATGTTTGAAATGCTATG
*
80667257 ATTTAGTCACTTATGTT
1 TTTTAGTCACTTATGTT
80667274 ATCGTTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (29 bp):
TTTTAGTCACTTATGTTTGAAATGCTATG
Found at i:80680480 original size:23 final size:23
Alignment explanation
Indices: 80680454--80680498 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
80680444 TGGGTATGTG
* * *
80680454 ATGACGTTATTTTATAAATATGC
1 ATGAAGTTATCTTAAAAATATGC
*
80680477 ATGAATTTATCTTAAAAATATG
1 ATGAAGTTATCTTAAAAATATG
80680499 TTGAATTGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAAGTTATCTTAAAAATATGC
Found at i:80683507 original size:38 final size:40
Alignment explanation
Indices: 80683456--80683546 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
80683446 CCAGCTCCGA
* * * *
80683456 CCAACCCAACACACC-A-TGTGGGGATAGAATCGACTCAC
1 CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAC
* *
80683494 CCAACCCTACACACCAAGTATGGGGATATAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAC
80683534 CCAACCCTACACA
1 CCAACCCTACACA
80683547 TCAAAAGGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 14 0.31
39 1 0.02
40 30 0.67
ACGTcount: A:0.36, C:0.36, G:0.13, T:0.14
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAC
Found at i:80685364 original size:18 final size:19
Alignment explanation
Indices: 80685338--80685387 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
80685328 TCGAAAATTA
80685338 TATCGATACTTACT-CAAG
1 TATCGATACTTACTACAAG
* *
80685356 TATCAATACATTTCTAACAAG
1 TATCGATAC-TTACT-ACAAG
80685377 TATCGATACTT
1 TATCGATACTT
80685388 TTGTATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 2 0.08
21 12 0.46
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (19 bp):
TATCGATACTTACTACAAG
Found at i:80685589 original size:5 final size:5
Alignment explanation
Indices: 80685542--80685576 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
80685532 CTCTCCCTTC
80685542 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
80685577 CCATTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:80688683 original size:14 final size:15
Alignment explanation
Indices: 80688655--80688696 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
80688645 TAAAAAATAA
80688655 TAAT-ATATTTATTT
1 TAATAATATTTATTT
80688669 TAATAATATTT-TTT
1 TAATAATATTTATTT
80688683 TAAATAAT-TTTATT
1 T-AATAATATTTATT
80688697 ATATGTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATAATATTTATTT
Found at i:80690348 original size:2 final size:2
Alignment explanation
Indices: 80690341--80690375 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
80690331 TCAGTAGGCA
80690341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80690376 AGTTGGCAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80690981 original size:18 final size:19
Alignment explanation
Indices: 80690938--80690981 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
80690928 TTAGTGATTC
*
80690938 AATATAATATATAATTATT
1 AATATAATATATAATAATT
*
80690957 -ATTTAATATAT-ATAATT
1 AATATAATATATAATAATT
80690974 AATATAAT
1 AATATAAT
80690982 TAGTTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AATATAATATATAATAATT
Found at i:80692182 original size:33 final size:33
Alignment explanation
Indices: 80692136--80692201 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
80692126 TGTTTTGGTG
*
80692136 CAAGTAAACTTAAACCATTTATGCACAAAATGA
1 CAAGTAAAATTAAACCATTTATGCACAAAATGA
*
80692169 CAAGTAAAATTAAACCATTTGTGCACAAAATGA
1 CAAGTAAAATTAAACCATTTATGCACAAAATGA
80692202 AGTTTGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (33 bp):
CAAGTAAAATTAAACCATTTATGCACAAAATGA
Found at i:80693685 original size:14 final size:15
Alignment explanation
Indices: 80693666--80693695 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
80693656 TGGAAAATTT
80693666 AATAATTTTAA-AAA
1 AATAATTTTAATAAA
80693680 AATAATTTTAATAAA
1 AATAATTTTAATAAA
80693695 A
1 A
80693696 GTTCAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATTTTAATAAA
Found at i:80715778 original size:10 final size:10
Alignment explanation
Indices: 80715760--80715791 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
80715750 GAGGATATAA
*
80715760 ATTTTAATAC
1 ATTTAAATAC
80715770 ATTTAAATAC
1 ATTTAAATAC
80715780 ATTTAAATAC
1 ATTTAAATAC
80715790 AT
1 AT
80715792 ATTTTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTAAATAC
Found at i:80719903 original size:11 final size:11
Alignment explanation
Indices: 80719878--80719912 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
80719868 GGTAAAACGG
80719878 TAAATAAATAAT
1 TAAATAAA-AAT
*
80719890 TAAATATAAAT
1 TAAATAAAAAT
80719901 TAAATAAAAAT
1 TAAATAAAAAT
80719912 T
1 T
80719913 TAGTTGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAATAAAAAT
Found at i:80723546 original size:27 final size:27
Alignment explanation
Indices: 80723515--80723589 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
80723505 AAGATAAATG
80723515 TTAAATTAAATTTAATATTAAATCT-TA
1 TTAAATTAAATTTAATATTAAAT-TGTA
* ** * *
80723542 TTAAAAT-AATAGAATGTTTATATTGTA
1 TTAAATTAAATTTAAT-ATTAAATTGTA
80723569 TTAAATTAAATTTAATATTAA
1 TTAAATTAAATTTAATATTAA
80723590 GATAATCACT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
26 7 0.20
27 22 0.63
28 6 0.17
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (27 bp):
TTAAATTAAATTTAATATTAAATTGTA
Found at i:80732227 original size:40 final size:40
Alignment explanation
Indices: 80732146--80732287 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 40
80732136 AAACCAAGTA
** * **
80732146 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTTAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
80732185 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
** *
80732225 CCTTTAGGACTTAGCCCGGTTATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
80732265 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
80732288 CATCCGAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 13 0.15
40 74 0.85
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:80740197 original size:40 final size:40
Alignment explanation
Indices: 80740116--80740257 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
80740106 AAACCAAGTA
** * **
80740116 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTTAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
80740155 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
80740195 CCTTCGGGACTTAGCCCGGTTATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
80740235 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
80740258 CATCCGAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 13 0.14
40 78 0.86
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:80749598 original size:28 final size:28
Alignment explanation
Indices: 80749567--80749620 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
80749557 AAATAGATGA
80749567 AAAAAATAAAGA-GAGAAAGTTAAGATAG
1 AAAAAA-AAAGATGAGAAAGTTAAGATAG
* * *
80749595 AAAAGAAGAGATGAGAAAGTTGAGAT
1 AAAAAAAAAGATGAGAAAGTTAAGAT
80749621 GTGTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (28 bp):
AAAAAAAAAGATGAGAAAGTTAAGATAG
Found at i:80750205 original size:10 final size:10
Alignment explanation
Indices: 80750155--80750206 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
80750145 AAATCTGTCG
*
80750155 AAAA-TAATC
1 AAAATTAATT
*
80750164 AAAATTAATC
1 AAAATTAATT
80750174 AAAATTAAATAT
1 AAAATT-AAT-T
*
80750186 ATAATTAATT
1 AAAATTAATT
80750196 AAAATTAATT
1 AAAATTAATT
80750206 A
1 A
80750207 TGTTAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 22 0.59
11 6 0.16
12 5 0.14
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:80760274 original size:2 final size:2
Alignment explanation
Indices: 80760267--80760291 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
80760257 AAATTCATAA
80760267 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
80760292 GATAAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80764373 original size:53 final size:53
Alignment explanation
Indices: 80764316--80764421 Score: 117
Period size: 53 Copynumber: 2.0 Consensus size: 53
80764306 AATATGATTT
* * * *
80764316 TTTTTCAATTTAGTCCTTTTATAAAT-A-AATGAATTATAAATTAATATATAATA
1 TTTTTCAATTTAGGCCCTTTAAAAATGATAA--AATTATAAATTAATACATAATA
** *
80764369 TTTTTTTATTTTGGCCCTTTAAAAATGATAAAATTATAAATTAATACATAATA
1 TTTTTCAATTTAGGCCCTTTAAAAATGATAAAATTATAAATTAATACATAATA
80764422 AATTTATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 41 0.93
54 1 0.02
55 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (53 bp):
TTTTTCAATTTAGGCCCTTTAAAAATGATAAAATTATAAATTAATACATAATA
Found at i:80764459 original size:21 final size:20
Alignment explanation
Indices: 80764398--80764455 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
80764388 TAAAAATGAT
**
80764398 AAAATTATAAATTAATACATA
1 AAAATTAT-AATTAATTTATA
*
80764419 ATAAATTTATATTTTAATTTATA
1 A-AAA-TTATA-ATTAATTTATA
80764442 AAAATTATAATTAA
1 AAAATTATAATTAA
80764456 ATTTCTACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 7 0.23
23 13 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTATAATTAATTTATA
Found at i:80765586 original size:17 final size:19
Alignment explanation
Indices: 80765556--80765592 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
80765546 TTAACAATAA
80765556 TTTTATCTCAAAAA-TATT
1 TTTTATCTCAAAAAGTATT
*
80765574 TTTTAT-TCTAAAAGTATT
1 TTTTATCTCAAAAAGTATT
80765592 T
1 T
80765593 CTGAAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTATCTCAAAAAGTATT
Found at i:80766304 original size:16 final size:17
Alignment explanation
Indices: 80766276--80766309 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
80766266 CTATCTGCCC
80766276 TTGTATCAATTATATTA
1 TTGTATCAATTATATTA
80766293 TTGTAT-AATTATATTA
1 TTGTATCAATTATATTA
80766309 T
1 T
80766310 CTTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TTGTATCAATTATATTA
Found at i:80767453 original size:23 final size:25
Alignment explanation
Indices: 80767426--80767478 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
80767416 CTTCCCATTT
80767426 AAAAAT-TTACAAA-ACAAAAAAAA
1 AAAAATCTTACAAATACAAAAAAAA
**
80767449 AAAAATCTTACAAATGTAAAAAAAA
1 AAAAATCTTACAAATACAAAAAAAA
80767474 AAAAA
1 AAAAA
80767479 AAAAAAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 7 0.27
25 13 0.50
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (25 bp):
AAAAATCTTACAAATACAAAAAAAA
Found at i:80767950 original size:18 final size:17
Alignment explanation
Indices: 80767920--80767953 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
80767910 CTGATTATCT
80767920 AATTAAATTTTAAATAA
1 AATTAAATTTTAAATAA
*
80767937 AATTTAATTATTAAATA
1 AATTAAATT-TTAAATA
80767954 TAATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTTTAAATAA
Found at i:80769408 original size:38 final size:39
Alignment explanation
Indices: 80769365--80769444 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
80769355 TATTTAACAC
*
80769365 AATAAAATATTTATTATATTTAT-TTGTATTTTTAATAT
1 AATAAAATATTTATTATATTTATGTAGTATTTTTAATAT
*
80769403 AATAAAATATTTATTATATTTATGGTAGTGTTTTTAATAT
1 AATAAAATATTTATTATATTTAT-GTAGTATTTTTAATAT
80769443 AA
1 AA
80769445 ATACTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 23 0.61
40 15 0.39
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (39 bp):
AATAAAATATTTATTATATTTATGTAGTATTTTTAATAT
Found at i:80771100 original size:2 final size:2
Alignment explanation
Indices: 80771093--80771123 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
80771083 TGATGGCTTA
80771093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80771124 CAATTTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80776216 original size:2 final size:2
Alignment explanation
Indices: 80776209--80776233 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
80776199 CGATGTTAAT
80776209 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
80776234 TCATCCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:80777360 original size:15 final size:15
Alignment explanation
Indices: 80777337--80777372 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
80777327 AAACACACAA
*
80777337 TTTTATCTTCTTCTT
1 TTTTTTCTTCTTCTT
*
80777352 TTTTTTCTTTTTCTT
1 TTTTTTCTTCTTCTT
80777367 TTTTTT
1 TTTTTT
80777373 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTCTTCTT
Found at i:80777636 original size:28 final size:28
Alignment explanation
Indices: 80777571--80777641 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
80777561 TTCTCTTGAA
*
80777571 TAGGGTTTAAAATTTTAAGATTTAGTGT
1 TAGGGTTTACAATTTTAAGATTTAGTGT
* * *
80777599 TAAGGCTTACAATTTTATGATTTTA-TGT
1 TAGGGTTTACAATTTTAAGA-TTTAGTGT
*
80777627 TTGGGTTTACAATTT
1 TAGGGTTTACAATTT
80777642 AAACCTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.49
Consensus pattern (28 bp):
TAGGGTTTACAATTTTAAGATTTAGTGT
Found at i:80778097 original size:24 final size:24
Alignment explanation
Indices: 80778070--80778129 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
80778060 AAATAAAAAA
* *
80778070 AATTAATTTAAATAATA-TTTAAAT
1 AATTAATAT-AATAATACATTAAAT
80778094 AATTTAATATAATAATACATTAAAT
1 AA-TTAATATAATAATACATTAAAT
*
80778119 ATTTAA-ATAAT
1 AATTAATATAAT
80778130 TTAATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.16
24 13 0.42
25 13 0.42
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTAATATAATAATACATTAAAT
Found at i:80778100 original size:25 final size:24
Alignment explanation
Indices: 80778080--80778129 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
80778070 AATTAATTTA
*
80778080 AATAATA-TTTAAATAATTTAATAT
1 AATAATACATTAAAT-ATTTAATAT
80778104 AATAATACATTAAATATTTAA-AT
1 AATAATACATTAAATATTTAATAT
80778127 AAT
1 AAT
80778130 TTAATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AATAATACATTAAATATTTAATAT
Found at i:80778101 original size:16 final size:16
Alignment explanation
Indices: 80778082--80778136 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
80778072 TTAATTTAAA
80778082 TAATATTTAAATAATT
1 TAATATTTAAATAATT
*
80778098 TAATA-TAATAATACATT
1 TAATATTTA-AATA-ATT
*
80778115 AAATATTTAAATAATT
1 TAATATTTAAATAATT
80778131 TAATAT
1 TAATAT
80778137 AATGATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
17 11 0.34
18 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTTAAATAATT
Found at i:80778122 original size:33 final size:33
Alignment explanation
Indices: 80778083--80778153 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
80778073 TAATTTAAAT
*
80778083 AATATTTAAATAATTTAATATAATAATACATTA
1 AATATTTAAATAATTTAATATAATAATACATAA
* *
80778116 AATATTTAAATAATTTAATATAATGATATATAA
1 AATATTTAAATAATTTAATATAATAATACATAA
80778149 AATAT
1 AATAT
80778154 ATCAATTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (33 bp):
AATATTTAAATAATTTAATATAATAATACATAA
Found at i:80779766 original size:36 final size:36
Alignment explanation
Indices: 80779714--80779786 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
80779704 TTGTGAAAGG
*
80779714 TGTTGGCATGAAAACACCTAAAAAGATTATTTTGCA
1 TGTTAGCATGAAAACACCTAAAAAGATTATTTTGCA
*
80779750 TGTTAGCATGAAAACACCTAAAAGGATTATTTTGCA
1 TGTTAGCATGAAAACACCTAAAAAGATTATTTTGCA
80779786 T
1 T
80779787 AAATTGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (36 bp):
TGTTAGCATGAAAACACCTAAAAAGATTATTTTGCA
Found at i:80780449 original size:46 final size:46
Alignment explanation
Indices: 80780300--80780472 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
80780290 TCACATGTGT
* ** * ** *
80780300 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGACGA
* * * *
80780346 GAGCCAGTGTAAGACCATGT-TCGAGACATGGCATCAGCATTAAGACAA
1 GAGCCAGTGTAAGA-CATGTCT-GGGACAT-GCATCAGCCTCAAGACGA
* *
80780394 GAGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCTCAAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGACG-A
* *
80780441 -AGCCAGTGTAAGAAATGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
80780473 GGCTACGAGA
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
46 56 0.55
47 22 0.22
48 23 0.23
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGACGA
Found at i:80785924 original size:40 final size:40
Alignment explanation
Indices: 80785816--80786025 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
80785806 CGGGATTTAA
* * * * *
80785816 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
80785856 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80785896 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80785936 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80785976 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80786016 CCGGATATAT
1 CCGGATATAT
80786026 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:80794058 original size:40 final size:40
Alignment explanation
Indices: 80793950--80794159 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
80793940 CGGGATTTAA
* * * * *
80793950 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
80793990 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80794030 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80794070 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80794110 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
80794150 CCGGATATAT
1 CCGGATATAT
80794160 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:80813040 original size:27 final size:27
Alignment explanation
Indices: 80813002--80813056 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
80812992 GTAATAAACA
80813002 CTTAATCAAAATTATACATTTTCGATT
1 CTTAATCAAAATTATACATTTTCGATT
80813029 CTTAATCAAAATTATACATTTTCGATT
1 CTTAATCAAAATTATACATTTTCGATT
80813056 C
1 C
80813057 ATCTAGGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (27 bp):
CTTAATCAAAATTATACATTTTCGATT
Found at i:80813251 original size:25 final size:25
Alignment explanation
Indices: 80813214--80813263 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
80813204 TTGTAAATCA
80813214 GAAAAATATCTTTAGA-AATTTTCT
1 GAAAAATATCTTTAGAGAATTTTCT
*
80813238 GAAATAATCTCTTTAGAGAATTTTCT
1 GAAA-AATATCTTTAGAGAATTTTCT
80813264 CTCTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTCT
Found at i:80813377 original size:6 final size:6
Alignment explanation
Indices: 80813368--80813533 Score: 57
Period size: 6 Copynumber: 27.5 Consensus size: 6
80813358 CTTAATCCCT
* * *
80813368 TTAATA TTAA-A TTTAATA TTAATA TTATTA -AAATA ATAA-A TTAA-A
1 TTAATA TTAATA -TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
* *
80813413 TTTAATA TTAAGA -TAATAAA TTAA-A TTTAATA TTAAGA -TAATCA CTTTAATA
1 -TTAATA TTAATA TTAAT--A TTAATA -TTAATA TTAATA TTAAT-A --TTAATA
* * * *
80813465 TTAA-A TTAATAA ATACTA TTAAGA TAAATA TTAA-A TTCAAT- TTAATA
1 TTAATA TTAAT-A TTAATA TTAATA TTAATA TTAATA TT-AATA TTAATA
*
80813512 TTAAACTA TTAA-A ATAATA TTA
1 TT-AA-TA TTAATA TTAATA TTA
80813534 TTTATGGAAT
Statistics
Matches: 119, Mismatches: 19, Indels: 44
0.65 0.10 0.24
Matches are distributed among these distances:
5 31 0.26
6 64 0.54
7 12 0.10
8 8 0.07
9 4 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
TTAATA
Found at i:80813418 original size:14 final size:14
Alignment explanation
Indices: 80813401--80813444 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
80813391 ATTATTAAAA
80813401 TAATAAATTAAATT
1 TAATAAATTAAATT
80813415 TAAT--ATTAAGA--
1 TAATAAATTAA-ATT
80813426 TAATAAATTAAATT
1 TAATAAATTAAATT
80813440 TAATA
1 TAATA
80813445 TTAAGATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 4 0.16
12 6 0.24
13 6 0.24
14 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
TAATAAATTAAATT
Found at i:80813434 original size:20 final size:20
Alignment explanation
Indices: 80813409--80813491 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 20
80813399 AATAATAAAT
80813409 TAAATTTAATATTAAGATAATAAA
1 TAAATTTAATATTAAG---AT-AA
80813433 TTAAATTTAATATTAAGATAA
1 -TAAATTTAATATTAAGATAA
* *
80813454 TCACTTTAATATTAA-ATTAA
1 TAAATTTAATATTAAGA-TAA
*
80813474 TAAA--TACTATTAAGATAA
1 TAAATTTAATATTAAGATAA
80813492 ATATTAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
18 11 0.22
19 2 0.04
20 18 0.35
21 2 0.04
22 2 0.04
25 16 0.31
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
TAAATTTAATATTAAGATAA
Found at i:80813473 original size:25 final size:25
Alignment explanation
Indices: 80813393--80813454 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
80813383 ATATTAATAT
*
80813393 TATTAAAATAATAAATTAAATTTAA
1 TATTAAGATAATAAATTAAATTTAA
80813418 TATTAAGATAATAAATTAAATTTAA
1 TATTAAGATAATAAATTAAATTTAA
80813443 TATTAAGATAAT
1 TATTAAGATAAT
80813455 CACTTTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (25 bp):
TATTAAGATAATAAATTAAATTTAA
Found at i:80813521 original size:25 final size:24
Alignment explanation
Indices: 80813458--80813524 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
80813448 AGATAATCAC
* *
80813458 TTTAATATTAAATTAATAAATACTA
1 TTTAATATTAAA-TATTAAATACAA
* *
80813483 -TTAAGA-TAAATATTAAATTCAA
1 TTTAATATTAAATATTAAATACAA
80813505 TTTAATATTAAACTATTAAA
1 TTTAATATTAAA-TATTAAA
80813525 ATAATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 9 0.26
23 9 0.26
24 9 0.26
25 7 0.21
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (24 bp):
TTTAATATTAAATATTAAATACAA
Found at i:80816504 original size:40 final size:39
Alignment explanation
Indices: 80816344--80816537 Score: 235
Period size: 39 Copynumber: 4.9 Consensus size: 39
80816334 TGTGTATGAA
* * *
80816344 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
**
80816383 TGTGCGAACTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
80816422 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
80816461 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
80816501 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
80816538 GTTTGAACGA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 96 0.70
40 41 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:80824873 original size:162 final size:162
Alignment explanation
Indices: 80824600--80824909 Score: 433
Period size: 162 Copynumber: 1.9 Consensus size: 162
80824590 CATTTGTCCT
* * * *
80824600 TGTATCTTTAAACTTGTGCAAGTTAGTATGCTCAACATGGCCTAGCACACGAGCGTGTGACTTGG
1 TGTATCTTTAAAATTGTGCAAGCTAGTATGCTCAACACGGCCTAGCACACGAGCGTGTGACTTGA
* * * * * *
80824665 CCGTGTGACCCAAGTCATGGAGTTACACGGGCAAGAACATGGGCTGAGACATGGCCGTGTATCCC
66 CCGTCTAACCCAAGTCAGGGAGTTACACGGGCAAGAACACGGGCTGAGACACGACCGTGTATCCC
80824730 TATTTC-AATTGCCCACACAGCCGTATGTCTCC
131 TATTTCGAA-TGCCCACACAGCCGTATGTCTCC
* * *
80824762 TGTATCTTTAAAATTGTGCAAGCTAGTATGCTTAACACGGCCTAGCACATGGGCGTGTGACTTGA
1 TGTATCTTTAAAATTGTGCAAGCTAGTATGCTCAACACGGCCTAGCACACGAGCGTGTGACTTGA
* * * * * *
80824827 CTGTCTAACCTAAGTCAGGGGGTTATACGGGCACGAACACGGGCTGAGACACGACCGTGTGTCCC
66 CCGTCTAACCCAAGTCAGGGAGTTACACGGGCAAGAACACGGGCTGAGACACGACCGTGTATCCC
80824892 TATTTCGAATGCCCACAC
131 TATTTCGAATGCCCACAC
80824910 GACCTGAGAC
Statistics
Matches: 128, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
162 126 0.98
163 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (162 bp):
TGTATCTTTAAAATTGTGCAAGCTAGTATGCTCAACACGGCCTAGCACACGAGCGTGTGACTTGA
CCGTCTAACCCAAGTCAGGGAGTTACACGGGCAAGAACACGGGCTGAGACACGACCGTGTATCCC
TATTTCGAATGCCCACACAGCCGTATGTCTCC
Found at i:80827532 original size:13 final size:13
Alignment explanation
Indices: 80827513--80827563 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
80827503 TAAACTAAAA
80827513 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
80827526 TTCTCAAAAGTAA
1 TTTTCAAAAGCAC
* *
80827539 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
80827552 TTTTCAAAAGCA
1 TTTTCAAAAGCA
80827564 TTACCAAACT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:80827550 original size:26 final size:26
Alignment explanation
Indices: 80827511--80827561 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
80827501 TTTAAACTAA
80827511 AATTTTCAAAAGCACTTCTCAAAAGT
1 AATTTTCAAAAGCACTTCTCAAAAGT
* * *
80827537 AATTTTCCACAGCACTTTTCAAAAG
1 AATTTTCAAAAGCACTTCTCAAAAG
80827562 CATTACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTTTCAAAAGCACTTCTCAAAAGT
Found at i:80831470 original size:25 final size:25
Alignment explanation
Indices: 80831442--80831525 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
80831432 AGCTCTTATG
*
80831442 AGCTTCCCGATACTCAGCTTAGATT
1 AGCTTCCCGATACTCAGCTTAGATA
* * * * * *
80831467 AGC-TCTCTGTTATTTAGC-TCGCATG
1 AGCTTC-CCGATACTCAGCTTAG-ATA
*
80831492 AGCTTCCCGATACTCAGCTTACATA
1 AGCTTCCCGATACTCAGCTTAGATA
80831517 AGCTTCCCG
1 AGCTTCCCG
80831526 TTTATAGCTC
Statistics
Matches: 42, Mismatches: 13, Indels: 8
0.67 0.21 0.13
Matches are distributed among these distances:
24 4 0.10
25 35 0.83
26 3 0.07
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGATACTCAGCTTAGATA
Found at i:80836561 original size:20 final size:20
Alignment explanation
Indices: 80836505--80836544 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
80836495 AAGATTATGA
*
80836505 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
80836525 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
80836545 TCTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:80840684 original size:20 final size:20
Alignment explanation
Indices: 80840616--80840684 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
80840606 TTCAACTATG
80840616 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
*
80840637 ATTAAATT--T-AATTTAAT
1 ATTAAATTAATCACTTTAAT
*
80840654 ATTAAGA-TAATCACTTTAAC
1 ATTAA-ATTAATCACTTTAAT
80840674 ATTAAATTAAT
1 ATTAAATTAAT
80840685 AAAAAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
17 13 0.32
18 2 0.05
19 2 0.05
20 17 0.43
21 6 0.15
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:80844254 original size:17 final size:18
Alignment explanation
Indices: 80844234--80844273 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
80844224 AAAAAATATG
80844234 AAAAAAATT-AAAATTTT
1 AAAAAAATTCAAAATTTT
*
80844251 -AAAAAATTCAATATTTT
1 AAAAAAATTCAAAATTTT
80844268 AAAAAA
1 AAAAAA
80844274 TAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAAATTCAAAATTTT
Found at i:80844274 original size:17 final size:16
Alignment explanation
Indices: 80844235--80844280 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
80844225 AAAAATATGA
80844235 AAAAAATTAAAATTTT
1 AAAAAATTAAAATTTT
*
80844251 AAAAAATTCAATATTTT
1 AAAAAATT-AAAATTTT
*
80844268 AAAAAATAAAAAT
1 AAAAAATTAAAAT
80844281 ATATATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATTAAAATTTT
Found at i:80848205 original size:18 final size:18
Alignment explanation
Indices: 80848182--80848218 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
80848172 CATCGCAAAA
80848182 CTATAACTGGAAAACAAT
1 CTATAACTGGAAAACAAT
80848200 CTATAACTGGAAAACAAT
1 CTATAACTGGAAAACAAT
80848218 C
1 C
80848219 GAGAGCAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.22
Consensus pattern (18 bp):
CTATAACTGGAAAACAAT
Found at i:80850938 original size:17 final size:17
Alignment explanation
Indices: 80850916--80850968 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
80850906 GCCAACAAAT
80850916 AATTTTAAAATATAAAA
1 AATTTTAAAATATAAAA
80850933 AATTTTAAGAA-ATAAAA
1 AATTTTAA-AATATAAAA
*
80850950 AA-TTAAAAAT-TAAAA
1 AATTTTAAAATATAAAA
80850965 AATT
1 AATT
80850969 ATGAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.28
16 5 0.16
17 16 0.50
18 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AATTTTAAAATATAAAA
Found at i:80850955 original size:15 final size:15
Alignment explanation
Indices: 80850927--80850974 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
80850917 ATTTTAAAAT
80850927 ATAAAAAATTTTAAGAA
1 ATAAAAAA--TTAAGAA
80850944 ATAAAAAATTAA-AA
1 ATAAAAAATTAAGAA
*
80850958 ATTAAAAAATTATGAA
1 A-TAAAAAATTAAGAA
80850974 A
1 A
80850975 ATTATGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 3 0.11
15 14 0.50
16 3 0.11
17 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
ATAAAAAATTAAGAA
Found at i:80850958 original size:8 final size:8
Alignment explanation
Indices: 80850922--80851008 Score: 52
Period size: 9 Copynumber: 10.0 Consensus size: 8
80850912 AAATAATTTT
80850922 AAAATATAA
1 AAAAT-TAA
80850931 AAAATTTTAA
1 AAAA--TTAA
*
80850941 GAAA-TAA
1 AAAATTAA
80850948 AAAATT-A
1 AAAATTAA
80850955 AAAATTAA
1 AAAATTAA
*
80850963 AAAATTATG
1 AAAATTA-A
80850972 AAAATTATGA
1 AAAATTA--A
*
80850982 AAATTTCATA
1 AAAATT-A-A
80850992 AAAATTTAA
1 AAAA-TTAA
80851001 AAAATTAA
1 AAAATTAA
80851009 CATAAAATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
7 13 0.21
8 13 0.21
9 16 0.26
10 16 0.26
11 4 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (8 bp):
AAAATTAA
Found at i:80851004 original size:20 final size:18
Alignment explanation
Indices: 80850922--80851006 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 18
80850912 AAATAATTTT
80850922 AAAATATAAAAAATTT-TA
1 AAAAT-TAAAAAATTTATA
80850940 AGAAA-TAAAAAA--T-TA
1 A-AAATTAAAAAATTTATA
*
80850955 AAAATTAAAAAA-TTATG
1 AAAATTAAAAAATTTATA
*
80850972 AAAATTATGAAAATTTCATA
1 AAAATTA-AAAAATTT-ATA
80850992 AAAATTTAAAAAATT
1 AAAA-TTAAAAAATT
80851007 AACATAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
14 3 0.05
15 11 0.20
16 1 0.02
17 15 0.27
18 5 0.09
19 5 0.09
20 12 0.22
21 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (18 bp):
AAAATTAAAAAATTTATA
Found at i:80852997 original size:18 final size:18
Alignment explanation
Indices: 80852974--80853008 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80852964 CAAGGCGAGA
* *
80852974 AATTTTTTTTTGAAAATC
1 AATTTTCTTTTAAAAATC
80852992 AATTTTCTTTTAAAAAT
1 AATTTTCTTTTAAAAAT
80853009 TAAATAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTTTCTTTTAAAAATC
Found at i:80853403 original size:78 final size:78
Alignment explanation
Indices: 80853256--80853405 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 78
80853246 AATTAAAGGT
* * * * *
80853256 AAATAAAATCCGTTTCGGGATTGATTCTGTCGTTTAACGAATTTATTTCAAATTTTGTTTTATTT
1 AAATAAAATCCATTTCAGGATTGATTCTGCCGTTCAACGAATTTATTTCAAATTTTGTTTTATTG
80853321 CCAAAAACGAGTA
66 CCAAAAACGAGTA
* * *
80853334 AAATAAAATCCATTTCAGGATTGATTCTTGCCGTTCAACGGATTTA-TT-ACATTTTGATTTTGT
1 AAATAAAATCCATTTCAGGATTGATTC-TGCCGTTCAACGAATTTATTTCAAATTTTG-TTTTAT
80853397 TGCCAAAAA
64 TGCCAAAAA
80853406 TGAGAAATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 7 0.11
78 40 0.65
79 15 0.24
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (78 bp):
AAATAAAATCCATTTCAGGATTGATTCTGCCGTTCAACGAATTTATTTCAAATTTTGTTTTATTG
CCAAAAACGAGTA
Found at i:80853513 original size:84 final size:84
Alignment explanation
Indices: 80853415--80853614 Score: 332
Period size: 84 Copynumber: 2.4 Consensus size: 84
80853405 ATGAGAAATT
80853415 AAATTAAATAAAATCTGTTTCCGGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTTCCGGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATT
80853480 TTGTTTT-CAAATTAGAATA
66 TT-TTTTCCAAATTAGAATA
* *
80853499 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTTCCGGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATT
80853564 TTTTTTCCAAATTAGAATA
66 TTTTTTCCAAATTAGAATA
* *
80853583 GAATTAAATAAAATATGTTT-CGAGATTTATTC
1 AAATTAAATAAAATCTGTTTCCG-GATTTATTC
80853615 TCGTCATTTA
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
83 5 0.05
84 104 0.95
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (84 bp):
AAATTAAATAAAATCTGTTTCCGGATTTATTCCCACCGATTAACAAAATTTTATTTGATTTTATT
TTTTTTCCAAATTAGAATA
Found at i:80853634 original size:84 final size:83
Alignment explanation
Indices: 80853415--80853652 Score: 318
Period size: 84 Copynumber: 2.8 Consensus size: 83
80853405 ATGAGAAATT
80853415 AAATTAAATAAAATCTGTTTCCGGATTTATTCCCACCGA-TTAACAAAATTTTATTTGATTTTAT
1 AAATTAAATAAAATCTGTTT-CGGATTTATTCCCACC-ATTTAACAAAATTTTATTTGATTTTAT
80853479 TTTGTTTTCAAATTAGAATA
64 TTTGTTTTCAAATTAGAATA
*
80853499 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTTC-GGATTTATTCCCACCATTTAACAAAATTTTATTTGATTTTATT
80853564 TT-TTTTCCAAATTAGAATA
65 TTGTTTT-CAAATTAGAATA
* * * ** * * * * *
80853583 GAATTAAATAAAATATGTTTCGAGATTTATTCTCGTCATTTATCAAGATTTTATTCGATATTGTT
1 AAATTAAATAAAATCTGTTTCG-GATTTATTCCCACCATTTAACAAAATTTTATTTGATTTTATT
80853648 TTGTT
65 TTGTT
80853653 CCTAAACCAA
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
83 6 0.04
84 129 0.94
85 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (83 bp):
AAATTAAATAAAATCTGTTTCGGATTTATTCCCACCATTTAACAAAATTTTATTTGATTTTATTT
TGTTTTCAAATTAGAATA
Found at i:80855756 original size:13 final size:13
Alignment explanation
Indices: 80855738--80855763 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80855728 AATTCGACTA
80855738 AGCATGGGTGTCT
1 AGCATGGGTGTCT
80855751 AGCATGGGTGTCT
1 AGCATGGGTGTCT
80855764 TGAAATTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (13 bp):
AGCATGGGTGTCT
Found at i:80856529 original size:73 final size:73
Alignment explanation
Indices: 80856410--80856553 Score: 234
Period size: 73 Copynumber: 2.0 Consensus size: 73
80856400 AGACGAGAAT
* * * *
80856410 GTGTATGAGATTGGTATGAGATGGTACAGGTATGTGCATAAACCATATTAGCTCTAAATCGAAGA
1 GTGTATGAGATTGGTACGAGATGGTACAGGTATGTACAAAAACCATATGAGCTCTAAATCGAAGA
80856475 AATGGTGA
66 AATGGTGA
* *
80856483 GTGTATGATATTGGTACGAGATGGTACAGGTATGTACAAAAACCATATGAGCTCTGAATCGAAGA
1 GTGTATGAGATTGGTACGAGATGGTACAGGTATGTACAAAAACCATATGAGCTCTAAATCGAAGA
80856548 AATGGT
66 AATGGT
80856554 AAAGAAAGTA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (73 bp):
GTGTATGAGATTGGTACGAGATGGTACAGGTATGTACAAAAACCATATGAGCTCTAAATCGAAGA
AATGGTGA
Found at i:80860503 original size:26 final size:27
Alignment explanation
Indices: 80860460--80860510 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
80860450 TTATAGGTAG
*
80860460 AAAATTTACAGATTTACCCCTAGGGGC
1 AAAATTTACAGATATACCCCTAGGGGC
*
80860487 AAAA-TTACTGATATACCCCTAGGG
1 AAAATTTACAGATATACCCCTAGGG
80860511 TTAAGGTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (27 bp):
AAAATTTACAGATATACCCCTAGGGGC
Found at i:80860563 original size:30 final size:30
Alignment explanation
Indices: 80860529--80860629 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
80860519 GACCTGAATG
80860529 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
* * *
80860559 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTGTTA-CT-AT----TT-A-CTGCATGC
80860594 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
80860624 CATGTT
1 CATGTT
80860630 ATTATTATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
28 5 0.09
29 10 0.19
30 13 0.24
31 2 0.04
34 2 0.04
35 7 0.13
36 10 0.19
37 5 0.09
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.43
Consensus pattern (30 bp):
CATGTTTGACTGTTACTATTTACTGCATGC
Found at i:80860616 original size:65 final size:65
Alignment explanation
Indices: 80860512--80860642 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
80860502 CCCCTAGGGT
80860512 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
80860577 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
80860642 T
1 T
80860643 GCATGGGACT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:80875688 original size:20 final size:20
Alignment explanation
Indices: 80875663--80875700 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
80875653 TATAATAAAT
80875663 TTTAG-ATTTAGTTAGTTATA
1 TTTAGAATTTA-TTAGTTATA
80875683 TTTAGAATTTATTAGTTA
1 TTTAGAATTTATTAGTTA
80875701 GTCATAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTTAGAATTTATTAGTTATA
Found at i:80881712 original size:26 final size:23
Alignment explanation
Indices: 80881647--80881716 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 23
80881637 TTGCGAAATC
*
80881647 TCTAAAGCTAGTGTTAGCAATAT
1 TCTAAAGCTAGTGTTAGCAATAA
* *
80881670 TGTACTAAGCTAATGTTAGCAACCCTAA
1 TCTA--AAGCTAGTGTTAGCAA---TAA
80881698 TCTAAAGCTAGTGTTAGCA
1 TCTAAAGCTAGTGTTAGCA
80881717 GCCCAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 3 0.08
25 15 0.41
26 14 0.38
28 5 0.14
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (23 bp):
TCTAAAGCTAGTGTTAGCAATAA
Found at i:80885178 original size:14 final size:14
Alignment explanation
Indices: 80885161--80885187 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
80885151 CAAACAATAA
80885161 CAACATAATAGTAG
1 CAACATAATAGTAG
80885175 CAACATAATAGTA
1 CAACATAATAGTA
80885188 AAATGGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:80886933 original size:21 final size:19
Alignment explanation
Indices: 80886865--80886949 Score: 88
Period size: 19 Copynumber: 4.6 Consensus size: 19
80886855 ATATACATCT
*
80886865 TTATAAATTTTATTATATG
1 TTATATATTTTATTATATG
*
80886884 TTATAT-TTTTAATATATATA
1 TTATATATTTT-AT-TATATG
* *
80886904 TTATTTATTCTA-T-TATG
1 TTATATATTTTATTATATG
80886921 TT-TATATTTTATTATATG
1 TTATATATTTTATTATATG
80886939 TTATATATTTT
1 TTATATATTTT
80886950 TACTATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
16 7 0.13
17 6 0.11
18 11 0.21
19 15 0.28
20 11 0.21
21 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATG
Found at i:80887053 original size:24 final size:22
Alignment explanation
Indices: 80887011--80887058 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
80887001 TATATCATTT
*
80887011 TTATTATTTTATACTTTATCTA
1 TTATTATTTTATACTTTATATA
*
80887033 TTATATATTTTATATTATTATATA
1 TTAT-TATTTTATACT-TTATATA
80887057 TT
1 TT
80887059 TTGTTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TTATTATTTTATACTTTATATA
Found at i:80887073 original size:30 final size:31
Alignment explanation
Indices: 80886998--80887097 Score: 87
Period size: 32 Copynumber: 3.1 Consensus size: 31
80886988 GTAAAATATT
* *
80886998 TATTATATCATTTT-TATTATTTTATACTTTATC
1 TATTATA-AATTTTATATTATTATATA-TTT-TC
* *
80887031 TATTATATATTTTATATTATTATATATTTTG
1 TATTATAAATTTTATATTATTATATATTTTC
*
80887062 T-TTATAAATTTTATCATATGTTATATATTTTAC
1 TATTATAAATTTTAT-AT-TATTATATATTTT-C
80887095 TAT
1 TAT
80887098 ACATTATTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
30 12 0.21
31 4 0.07
32 20 0.36
33 19 0.34
34 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (31 bp):
TATTATAAATTTTATATTATTATATATTTTC
Done.