Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 36 of 373
Found at i:10291286 original size:26 final size:26
Alignment explanation
Indices: 10291257--10291308 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10291247 ACTTTCATAT
10291257 TCCCCCATAAATCATCAAAGAACAAA
1 TCCCCCATAAATCATCAAAGAACAAA
10291283 TCCCCCATAAATCATCAAAGAACAAA
1 TCCCCCATAAATCATCAAAGAACAAA
10291309 CATGTCACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.31, G:0.04, T:0.15
Consensus pattern (26 bp):
TCCCCCATAAATCATCAAAGAACAAA
Found at i:10296652 original size:6 final size:6
Alignment explanation
Indices: 10296643--10296675 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10296633 ATGTTGGAGT
10296643 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
10296676 CGTGATTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGTGA
Found at i:10307884 original size:31 final size:31
Alignment explanation
Indices: 10307849--10307912 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
10307839 TAATCCAATG
**
10307849 TGGTAAACCATCATTGTCGGGCAACCTGGGA
1 TGGTAAACCATCATTGTCAAGCAACCTGGGA
*** *
10307880 TGGTAGGTCATCGTTGTCAAGCAACCTGGGA
1 TGGTAAACCATCATTGTCAAGCAACCTGGGA
10307911 TG
1 TG
10307913 ACGAATTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (31 bp):
TGGTAAACCATCATTGTCAAGCAACCTGGGA
Found at i:10309039 original size:21 final size:21
Alignment explanation
Indices: 10309010--10309049 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10309000 TAATAAATTT
*
10309010 TTTTTTGTTAGTATTATGTAG
1 TTTTGTGTTAGTATTATGTAG
* *
10309031 TTTTGTGTTATTTTTATGT
1 TTTTGTGTTAGTATTATGT
10309050 TTTGTTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (21 bp):
TTTTGTGTTAGTATTATGTAG
Found at i:10309170 original size:27 final size:27
Alignment explanation
Indices: 10309135--10309187 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
10309125 AAATTTTTTT
*
10309135 AATATATTTGATATTGTTAGAAATGGC
1 AATAAATTTGATATTGTTAGAAATGGC
10309162 AATAAATTTGATATTGTTAGAAATGG
1 AATAAATTTGATATTGTTAGAAATGG
10309188 ACTATTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (27 bp):
AATAAATTTGATATTGTTAGAAATGGC
Found at i:10318426 original size:42 final size:42
Alignment explanation
Indices: 10318367--10318456 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
10318357 TGCCTGAGAT
* *
10318367 ACGACCGTGTGTATTAGCTCAACGTGTTACATGGTCTAGCAC
1 ACGACCGTGTGTATTAGCTCAACATGTTACACGGTCTAGCAC
* * *
10318409 ACGACGGTGTGTATTAGCTCAATATGTTACACGGTCTAGTAC
1 ACGACCGTGTGTATTAGCTCAACATGTTACACGGTCTAGCAC
10318451 ACGACC
1 ACGACC
10318457 ATGTATCACT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (42 bp):
ACGACCGTGTGTATTAGCTCAACATGTTACACGGTCTAGCAC
Found at i:10319812 original size:13 final size:13
Alignment explanation
Indices: 10319794--10319820 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10319784 GCTCAACAGG
10319794 GACACGCCCGTGT
1 GACACGCCCGTGT
10319807 GACACGCCCGTGT
1 GACACGCCCGTGT
10319820 G
1 G
10319821 CGATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:10330143 original size:18 final size:18
Alignment explanation
Indices: 10330112--10330147 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10330102 AAAAATTACT
*
10330112 AAATAGTATGAAAATAAA
1 AAATAATATGAAAATAAA
*
10330130 AAATAATATTAAAATAAA
1 AAATAATATGAAAATAAA
10330148 TATTACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
AAATAATATGAAAATAAA
Found at i:10339189 original size:13 final size:13
Alignment explanation
Indices: 10339171--10339198 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10339161 GCTCTGCAGG
10339171 GACACGCCCGTGT
1 GACACGCCCGTGT
10339184 GACACGCCCGTGT
1 GACACGCCCGTGT
10339197 GA
1 GA
10339199 GTCGTGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:10343523 original size:75 final size:75
Alignment explanation
Indices: 10343393--10343542 Score: 212
Period size: 75 Copynumber: 2.0 Consensus size: 75
10343383 AAGGAAAACC
* * * *
10343393 AGGATTATTCCCTTATTAATAGAGAAGGCAAAAGGAAAGCTAGAAAAATGAATTATATTCTTTCT
1 AGGATTATTCCCTTATTAATAGAGAAAGCAAAAGGAAAGCTAAAAAAACGAATTATATTCTTTCC
*
10343458 AAATGAATAT
66 AAAAGAATAT
* * *
10343468 AGGATTATTCCCTTATTAATAGAGAAAGCAAATGGAAAGTTACAAAAAACG-ATTATATTTTTTC
1 AGGATTATTCCCTTATTAATAGAGAAAGCAAAAGGAAAGCTA-AAAAAACGAATTATATTCTTTC
10343532 CAAAAGAATAT
65 CAAAAGAATAT
10343543 TAATTTCCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
75 60 0.91
76 6 0.09
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.31
Consensus pattern (75 bp):
AGGATTATTCCCTTATTAATAGAGAAAGCAAAAGGAAAGCTAAAAAAACGAATTATATTCTTTCC
AAAAGAATAT
Found at i:10344115 original size:140 final size:138
Alignment explanation
Indices: 10343519--10344215 Score: 1058
Period size: 138 Copynumber: 5.0 Consensus size: 138
10343509 ACAAAAAACG
* * **
10343519 ATTATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAAT
* *
10343584 ATAA-TTTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAACCAAATTC
66 ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
*
10343648 ATATTTTA
131 ATATATTA
** * * * * *
10343656 ATTATATTCTTTTGAAAAGAATATTGATTTCCATATCTTTTATATTTTGACGGAAGTTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAAT
*
10343721 ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATAT-AAGTCAAATT
66 ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAA-TCAAATT
10343785 CATATATTA
130 CATATATTA
* *
10343794 ATTATATTATTTCCAAAAGAATATTGATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAAT
* * * *
10343859 ATAAATTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGACTCAAAATT
66 ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATC-AAATT
10343924 CATATATTA
130 CATATATTA
* *
10343933 ATTATATTCTTTCCAAAAGAATATTAATTTTCAAGTCTTTTATAGTTTGACTGAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAAT
10343998 ATAACTGTTTATATTAATAAATTCGGTAAAATATTTATACAATTAATATTTTGTATGAATCAAAT
66 ATAACTGTTTATATTAATAAATTCGGTAAAATA--TATACAATTAATATTTTGTATGAATCAAAT
*
10344063 TAATATATTA
129 TCATATATTA
*
10344073 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTAT-TTTCTGACTAAAATTAATTAA
1 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTT-TGACTGAAATTAATTAA
* * *
10344137 TATAACTGTTTATATTAATAAATTCGGTAAATTTTTTATACAATTAATATTTTGTATGAACCAAA
65 TATAACTGTTTATATTAATAAATTCGGTAAA--ATATATACAATTAATATTTTGTATGAATCAAA
10344202 TTCATATATTA
128 TTCATATATTA
10344213 ATT
1 ATT
10344216 TTATCTATAT
Statistics
Matches: 511, Mismatches: 40, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
137 63 0.12
138 171 0.33
139 108 0.21
140 143 0.28
141 25 0.05
142 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAAT
ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTA
Found at i:10344133 original size:279 final size:276
Alignment explanation
Indices: 10343519--10344215 Score: 1089
Period size: 279 Copynumber: 2.5 Consensus size: 276
10343509 ACAAAAAACG
* * *
10343519 ATTATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAAT
1 ATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAAT
10343584 AT-AATTTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAACCAAATTC
66 ATAAATTTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAACCAAATTC
* ** * * *
10343648 ATATTTTAATTATATTCTTTTGAAAAGAATATTGATTTCCATATCTTTTATATTTTGACGGAAGT
131 ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATAGTTTGACGGAAAT
10343713 TAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAG
196 TAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAG
*
10343778 TCAAATTCATATATTA
261 TCAAATTAATATATTA
* *
10343794 ATTATATTATTTCCAAAAGAATATTGATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAAT
1 ATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAAT
*
10343859 ATAAATTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATG-ACTCAAAAT
66 ATAAATTTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAC-C-AAAT
* *
10343923 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCA-AGTCTTTTATAGTTTGACTGA
129 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATA-TCTTTTATAGTTTGACGGA
*
10343987 AATTAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATTTATACAATTAATATTTTGT
193 AATTAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATA--TATACAATTAATATTTTAT
10344052 ATGAA-TCAAATTAATATATTA
256 AT-AAGTCAAATTAATATATTA
*
10344073 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTAT-TTTCTGACTAAAATTAATTAA
1 ATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTT-TGACTAAAATTAATTAA
* * * *
10344137 TATAACTGTTTATATTAATAAATTCGGTAAATTTTTTATACAATTAATATTTTGTATGAACCAAA
65 TATAAATTTTTATATTAATAAATTCGGTAAA--ATATATACAATTAATATTTTGTATGAACCAAA
10344202 TTCATATATTAATT
128 TTCATATATTAATT
10344216 TTATCTATAT
Statistics
Matches: 387, Mismatches: 24, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
275 64 0.17
276 53 0.14
277 102 0.26
278 3 0.01
279 120 0.31
280 19 0.05
281 24 0.06
282 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (276 bp):
ATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAAT
ATAAATTTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAACCAAATTC
ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATAGTTTGACGGAAAT
TAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAG
TCAAATTAATATATTA
Found at i:10351402 original size:23 final size:22
Alignment explanation
Indices: 10351360--10351413 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
10351350 TGTTAAAGTT
*
10351360 AAAAA-TTTAAATTTGCTAAATA
1 AAAAATTTTAAATTAGCTAAA-A
10351382 AAAAATTTTAAAGTTAG-TAAAA
1 AAAAATTTTAAA-TTAGCTAAAA
*
10351404 AATAATTTTA
1 AAAAATTTTA
10351414 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 15 0.54
23 10 0.36
24 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (22 bp):
AAAAATTTTAAATTAGCTAAAA
Found at i:10355865 original size:25 final size:25
Alignment explanation
Indices: 10355808--10355865 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
10355798 AACTCATATG
* * **
10355808 AGCCATATAACGAGAAGCTTATCCA
1 AGCCATATAACAAGAAGCTCATAAA
* *
10355833 GGCTATATAACAAGAAGCTCATAAA
1 AGCCATATAACAAGAAGCTCATAAA
10355858 AGCCATAT
1 AGCCATAT
10355866 TTGTGAAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.21
Consensus pattern (25 bp):
AGCCATATAACAAGAAGCTCATAAA
Found at i:10355965 original size:23 final size:23
Alignment explanation
Indices: 10355938--10355983 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10355928 GATAACCATG
* *
10355938 TATCGGGAAG-TTCAAGCGAGCCA
1 TATCGAGAAGCTTC-AGAGAGCCA
10355961 TATCGAGAAGCTTCAGAGAGCCA
1 TATCGAGAAGCTTCAGAGAGCCA
10355984 CTAACAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (23 bp):
TATCGAGAAGCTTCAGAGAGCCA
Found at i:10356135 original size:24 final size:25
Alignment explanation
Indices: 10356108--10356154 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10356098 AGATGCTCCG
*
10356108 AAGAGCAAT-TAACGGGAAGCTCGC
1 AAGAACAATATAACGGGAAGCTCGC
*
10356132 AAGAACCATATAACGGGAAGCTC
1 AAGAACAATATAACGGGAAGCTC
10356155 AAGAGGGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.13
Consensus pattern (25 bp):
AAGAACAATATAACGGGAAGCTCGC
Found at i:10367234 original size:45 final size:45
Alignment explanation
Indices: 10367181--10367269 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
10367171 TTGATGCTTT
*
10367181 GTAAGTTCGTATAACGGGAAATTACCTTACCATTTATTTACATTA
1 GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATTA
10367226 GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATT
1 GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATT
10367270 TAAAATAAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (45 bp):
GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATTA
Found at i:10367817 original size:26 final size:25
Alignment explanation
Indices: 10367733--10367818 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
10367723 GAGCCATATC
*
10367733 AGGAAGCTC-CAGAGAGCCATTAAT
1 AGGAAGCTCACAAAGAGCCATTAAT
**
10367757 AGGAAGCTCACAAAGAGCTTTTAATT
1 AGGAAGCTCACAAAGAGCCATTAA-T
* *
10367783 GGGAAGCTCACGAAGAGCCATATAAT
1 AGGAAGCTCACAAAGAGCCAT-TAAT
*
10367809 AGGACGCTCA
1 AGGAAGCTCA
10367819 TAAGAGCTGC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
24 9 0.18
25 11 0.22
26 27 0.54
27 3 0.06
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
AGGAAGCTCACAAAGAGCCATTAAT
Found at i:10370150 original size:15 final size:15
Alignment explanation
Indices: 10370126--10370161 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10370116 ATTTTAACTT
*
10370126 ATTTATTTAATTAAA
1 ATTTAATTAATTAAA
*
10370141 ATTTAATTAATTATA
1 ATTTAATTAATTAAA
10370156 ATTTAA
1 ATTTAA
10370162 AACTTATTTA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAATTAAA
Found at i:10373097 original size:16 final size:15
Alignment explanation
Indices: 10373055--10373102 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
10373045 ACTCTATCCA
*
10373055 AATCTAAGAAAATTT
1 AATCTAAAAAAATTT
* *
10373070 AACCTTAAAAAATTT
1 AATCTAAAAAAATTT
*
10373085 GAATCTAAAAAAACTT
1 -AATCTAAAAAAATTT
10373101 AA
1 AA
10373103 ACCCAAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (15 bp):
AATCTAAAAAAATTT
Found at i:10388886 original size:37 final size:36
Alignment explanation
Indices: 10388806--10388893 Score: 85
Period size: 37 Copynumber: 2.4 Consensus size: 36
10388796 CATCTAAAAT
* *
10388806 AAATAATATACAAAGAAATATAAATACTTTAGTATAA
1 AAAT-ATATACAAAAAAATATAAATACTTTAATATAA
10388843 ATAATATATACAAAAAAATATATAATA-TTTGAAT-TAA
1 A-AATATATACAAAAAAATATA-AATACTTT-AATATAA
10388880 CAAATAT-T-CAAAAA
1 -AAATATATACAAAAA
10388894 GGAAATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
35 6 0.13
36 1 0.02
37 28 0.62
38 10 0.22
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (36 bp):
AAATATATACAAAAAAATATAAATACTTTAATATAA
Found at i:10390649 original size:177 final size:177
Alignment explanation
Indices: 10390363--10390958 Score: 869
Period size: 177 Copynumber: 3.4 Consensus size: 177
10390353 CACTGCAACG
* * *
10390363 TTAGGGAGAT-A-ATGCTGCAATTTTTAGTCTACTTCCTTGCTACCTTAGGAAGATAAGGCTTGT
1 TTAGGGAGATAAGAT-CTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGT
* * * * *
10390426 AACTTCAACCTGCTCTCTTGCTACCTCGGAGAGATATGGTTGGTGGCTGAAATCTACTCAATTGC
65 ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCAATTGC
*
10390491 CGATACATGGAGATAAGATTCGCCATCTTTGATCTTCTCCACTACTGC
130 CGATACATGGAGATAAGATTCGCCGTCTTTGATCTTCTCCACTACTGC
* *
10390539 TTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
1 TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
* *
10390604 TCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCTATTGCC
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCAATTGCC
* *
10390669 GATACATGGAGATAAGATCCGCCGTCTTCGAT-TTGCTCCACTACTGC
131 GATACATGGAGATAAGATTCGCCGTCTTTGATCTT-CTCCACTACTGC
* * **
10390716 TTAGGGAGATAAGATCTACAATTTTCAGTCTGCTTCCTTGCTACCTCAAAAAGATAAGACTTGTA
1 TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
* * *
10390781 TCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCC
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCAATTGCC
* *
10390846 GATACATGGAGATAAGATTCACCGT-TTTCGATCTACTCCACTACTGC
131 GATACATGGAGATAAGATTCGCCGTCTTT-GATCTTCTCCACTACTGC
* * * *
10390893 TTAGGGAGATAACATCTGTAATTTTCAGTCTACTTCAC-TGCAACCTCAGGGAGATAAGACTTGT
1 TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTC-CTTGCTACCTCAGGAAGATAAGACTTGT
10390957 AT
65 AT
10390959 ATTGAGCCTG
Statistics
Matches: 379, Mismatches: 35, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
176 14 0.04
177 361 0.95
178 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (177 bp):
TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCAATTGCC
GATACATGGAGATAAGATTCGCCGTCTTTGATCTTCTCCACTACTGC
Found at i:10390990 original size:44 final size:44
Alignment explanation
Indices: 10390928--10391080 Score: 136
Period size: 44 Copynumber: 3.5 Consensus size: 44
10390918 CAGTCTACTT
* * *
10390928 CACTGCAACCTCAGGGAGATAAGACTTGT-A-TATTGAGCCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTTCTCACT-TT-AACCTGCTC
* *
10390972 CACTGCAACTTCAAGGAGATAAGGCTTCTCACTTTAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTTCTCACTTTAACCTGCTC
* * * * * *
10391016 TACTGCAACTTCAGGGAGATAAG--GTCT-GCTATGATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTTCTCACTTTAACCTGCTC
* *
10391057 TACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGA
10391081 TCTATTTATT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 32 0.34
42 3 0.03
44 54 0.58
45 3 0.03
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGACTTCTCACTTTAACCTGCTC
Found at i:10391036 original size:354 final size:353
Alignment explanation
Indices: 10390363--10391038 Score: 885
Period size: 354 Copynumber: 1.9 Consensus size: 353
10390353 CACTGCAACG
* * * ** *
10390363 TTAGGGAGATAATGCTGCAATTTTTAGTCTACTTCCTTGCTACCTTAGGAAGATAAGGCTTGTAA
1 TTAGGGAGATAATGCTACAATTTTCAGTCTACTTCCTTGCTACCTCAAAAAGATAAGACTTGTAA
* * * *
10390428 CTTCAACCTGCTCTCTTGCTACCTCGGAGAGATATGGTTGGTGGCTGAAATCTACTCAATTGCCG
66 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCAATTGCCG
* * *
10390493 ATACATGGAGATAAGATTCGCCATCTTTGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTGT
131 ATACATGGAGATAAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAACATCTGT
* * * ***
10390558 AATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTTTTG
196 AATTTTCAGTCTACTTCCTTGCAACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCCACTG
* * ** * * * *
10390623 CTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCTATTGCCGATACATGGAGATAAGATC
261 CAACCTCAGAGAGATAAGGCTGCTCACTAAAACCTACTCTACTGCCAATACAGGGAGATAAGATC
10390688 CGCCGTCTTCGATTTGCTCCACTACTGC
326 CGCCGTCTTCGATTTGCTCCACTACTGC
*
10390716 TTAGGGAGATAA-GATCTACAATTTTCAGTCTGCTTCCTTGCTACCTCAAAAAGATAAGACTTGT
1 TTAGGGAGATAATG--CTACAATTTTCAGTCTACTTCCTTGCTACCTCAAAAAGATAAGACTTGT
* * * *
10390780 ATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGC
64 AACTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCAATTGC
*
10390845 CGATACATGGAGATAAGATTCACCGT-TTTCGATCTACTCCACTACTGCTTAGGGAGATAACATC
129 CGATACATGGAGATAAGATTCACCATCTTT-GATCTACTCCACTACTGCTTAGGGAGATAACATC
* * *
10390909 TGTAATTTTCAGTCTACTTCAC-TGCAACCTCAGGGAGATAAGACTTGTATATTGAGCCTGCTCC
193 TGTAATTTTCAGTCTACTTC-CTTGCAACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCC
* * ** * *
10390973 ACTGCAACTTCA-AGGAGATAAGGCTTCTCACTTTAACCTGCTCTACTG-CAACTTCAGGGAGAT
257 ACTGCAACCTCAGA-GAGATAAGGCTGCTCACTAAAACCTACTCTACTGCCAA-TACAGGGAGAT
10391036 AAG
320 AAG
10391039 GTCTGCTATG
Statistics
Matches: 275, Mismatches: 42, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
352 1 0.00
353 18 0.07
354 255 0.93
355 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (353 bp):
TTAGGGAGATAATGCTACAATTTTCAGTCTACTTCCTTGCTACCTCAAAAAGATAAGACTTGTAA
CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCAATTGCCG
ATACATGGAGATAAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAACATCTGT
AATTTTCAGTCTACTTCCTTGCAACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCCACTG
CAACCTCAGAGAGATAAGGCTGCTCACTAAAACCTACTCTACTGCCAATACAGGGAGATAAGATC
CGCCGTCTTCGATTTGCTCCACTACTGC
Found at i:10391067 original size:41 final size:43
Alignment explanation
Indices: 10390965--10391079 Score: 144
Period size: 41 Copynumber: 2.7 Consensus size: 43
10390955 GTATATTGAG
* * *
10390965 CCTGCTCCACTGCAACTTCAAGGAGATAAGGCTTCTCACTTTAA
1 CCTGCTCTACTGCAACTTCAGGGAGATAAGGC-TCTCACTATAA
* *
10391009 CCTGCTCTACTGCAACTTCAGGGAGATAAGG-TCT-GCTATGA
1 CCTGCTCTACTGCAACTTCAGGGAGATAAGGCTCTCACTATAA
* *
10391050 TCTGCTCTACTGCAACTTCAGAGAGATAAG
1 CCTGCTCTACTGCAACTTCAGGGAGATAAG
10391080 ATCTATTTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 32 0.50
42 3 0.05
44 29 0.45
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (43 bp):
CCTGCTCTACTGCAACTTCAGGGAGATAAGGCTCTCACTATAA
Found at i:10391420 original size:64 final size:64
Alignment explanation
Indices: 10391313--10391440 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
10391303 TCATGTATCT
*
10391313 ATGCTTATGCCAAATAATTAGGATGATATGATCAAAATAAATCAAATGCTCCTAACTAGGTGTG
1 ATGCTTATGCCAAATAATTAGGATGATATGATCAAAATAAATCAAATGCTCCTAACTAGATGTG
* * * * *
10391377 ATGCTTATGTCAAATAATTAGGATGTTATGATCGAAATGAATCAAATGCTCTTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGATATGATCAAAATAAATCAAATGCTCCTAACTAGATGTG
10391441 TTATGAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGATATGATCAAAATAAATCAAATGCTCCTAACTAGATGTG
Found at i:10393073 original size:17 final size:16
Alignment explanation
Indices: 10393044--10393082 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
10393034 TTGTTTTTTG
10393044 TCTTTGTTTTTTCTTTC
1 TCTTT-TTTTTTCTTTC
10393061 TCTTTTTTCTTTCTTTC
1 TCTTTTTT-TTTCTTTC
10393078 T-TTTT
1 TCTTTT
10393083 GGCTGCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (16 bp):
TCTTTTTTTTTCTTTC
Found at i:10393081 original size:13 final size:13
Alignment explanation
Indices: 10393050--10393074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10393040 TTTGTCTTTG
10393050 TTTTTTCTTTCTC
1 TTTTTTCTTTCTC
10393063 TTTTTTCTTTCT
1 TTTTTTCTTTCT
10393075 TTCTTTTTGG
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTCTTTCTC
Found at i:10403856 original size:15 final size:15
Alignment explanation
Indices: 10403836--10403866 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10403826 TTGCTTGTGC
10403836 ATGAAAAAATAAAAA
1 ATGAAAAAATAAAAA
10403851 ATGAAAAAATAAAAA
1 ATGAAAAAATAAAAA
10403866 A
1 A
10403867 ATTGTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (15 bp):
ATGAAAAAATAAAAA
Found at i:10403857 original size:8 final size:8
Alignment explanation
Indices: 10403836--10403868 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
10403826 TTGCTTGTGC
10403836 ATGAAAAA
1 ATGAAAAA
10403844 AT-AAAAA
1 ATGAAAAA
10403851 ATGAAAAA
1 ATGAAAAA
*
10403859 ATAAAAAA
1 ATGAAAAA
10403867 AT
1 AT
10403869 TGTAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (8 bp):
ATGAAAAA
Found at i:10408148 original size:35 final size:38
Alignment explanation
Indices: 10408060--10408148 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
10408050 AAAAGAAAGT
* * *
10408060 TAAAGTAAATAATATACAAAGCAATATATAGATCCATC
1 TAAAATAAATAATATACAAAGCAATATATAAATACATC
*
10408098 TAAAATAAATAATATACAAAG-AA-ATATAAATAC-TT
1 TAAAATAAATAATATACAAAGCAATATATAAATACATC
**
10408133 TAGTATAAATAATATA
1 TAAAATAAATAATATA
10408149 TACAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 15 0.33
36 8 0.18
37 2 0.04
38 20 0.44
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (38 bp):
TAAAATAAATAATATACAAAGCAATATATAAATACATC
Found at i:10409747 original size:20 final size:22
Alignment explanation
Indices: 10409722--10409761 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10409712 TGAAACGTTG
10409722 TAGCAT-A-TAAATTGTATATA
1 TAGCATGAGTAAATTGTATATA
*
10409742 TAGCATGAGTAAATTTTATA
1 TAGCATGAGTAAATTGTATA
10409762 AACTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
TAGCATGAGTAAATTGTATATA
Found at i:10421633 original size:2 final size:2
Alignment explanation
Indices: 10421626--10421656 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10421616 TAAGCAAATT
10421626 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
10421657 GCACGCACAT
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10427146 original size:31 final size:32
Alignment explanation
Indices: 10427110--10427171 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
10427100 TATTTTTGAG
**
10427110 TTAAATTTGGCCTTCAACCTTTT-AAAAAGAT
1 TTAAATTTAACCTTCAACCTTTTGAAAAAGAT
*
10427141 TTAAATTTAACCTTCAATCTTTTGAAAAAGA
1 TTAAATTTAACCTTCAACCTTTTGAAAAAGA
10427172 GTTGAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.39
Consensus pattern (32 bp):
TTAAATTTAACCTTCAACCTTTTGAAAAAGAT
Found at i:10427317 original size:14 final size:15
Alignment explanation
Indices: 10427298--10427330 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10427288 TTTTATATAT
10427298 TTTTTTAATTTT-AA
1 TTTTTTAATTTTAAA
*
10427312 TTTTTTATTTTTAAA
1 TTTTTTAATTTTAAA
10427327 TTTT
1 TTTT
10427331 AGTGGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTAATTTTAAA
Found at i:10431245 original size:26 final size:26
Alignment explanation
Indices: 10431216--10431298 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
10431206 TTGAGAGCAA
10431216 AGGGCTCAAGTAAACTAGTTGAAATT
1 AGGGCTCAAGTAAACTAGTTGAAATT
** * * * *
10431242 AGGGGACAA-AAATACAAATTTGAACA-A
1 AGGGCTCAAGTAA-AC-TAGTTGAA-ATT
*
10431269 AGGGCTCGAGTAAACTAGTTGAAATT
1 AGGGCTCAAGTAAACTAGTTGAAATT
10431295 AGGG
1 AGGG
10431299 GACAAAAATA
Statistics
Matches: 39, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
25 3 0.08
26 19 0.49
27 14 0.36
28 3 0.08
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (26 bp):
AGGGCTCAAGTAAACTAGTTGAAATT
Found at i:10436902 original size:2 final size:2
Alignment explanation
Indices: 10436895--10436932 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10436885 TTTATTAGAG
10436895 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10436933 ATAAAGCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10438302 original size:6 final size:6
Alignment explanation
Indices: 10438291--10438316 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10438281 AATTAATGTT
10438291 TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TT
10438317 CCTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATA
Found at i:10441461 original size:20 final size:21
Alignment explanation
Indices: 10441429--10441482 Score: 85
Period size: 19 Copynumber: 2.7 Consensus size: 21
10441419 ACAATTATCA
10441429 AAATATTATAAAAAAAT-TAG
1 AAATATTATAAAAAAATCTAG
*
10441449 AAAT-TTATAAAAAAATCTAT
1 AAATATTATAAAAAAATCTAG
10441469 AAATATTATAAAAA
1 AAATATTATAAAAA
10441483 CAAAAAATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 12 0.39
20 10 0.32
21 9 0.29
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATATTATAAAAAAATCTAG
Found at i:10441493 original size:26 final size:26
Alignment explanation
Indices: 10441458--10441532 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
10441448 GAAATTTATA
10441458 AAAAAATCTATAAATATTATAAAAAC
1 AAAAAATCTATAAATATTATAAAAAC
10441484 AAAAAATCTATAAATATTATAAAAAC
1 AAAAAATCTATAAATATTATAAAAAC
* *
10441510 AAAAAATATATAAA-AATATAAAA
1 AAAAAATCTATAAATATTATAAAA
10441533 TTTATAAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 8 0.17
26 39 0.83
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAAATCTATAAATATTATAAAAAC
Found at i:10441523 original size:17 final size:17
Alignment explanation
Indices: 10441495--10441541 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
10441485 AAAAATCTAT
10441495 AAATATTATAAAAACAAA
1 AAATA-TATAAAAACAAA
* *
10441513 AAATATATAAAAATATA
1 AAATATATAAAAACAAA
*
10441530 AAATTTATAAAA
1 AAATATATAAAA
10441542 CAATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATATATAAAAACAAA
Found at i:10441524 original size:9 final size:9
Alignment explanation
Indices: 10441460--10441566 Score: 62
Period size: 9 Copynumber: 11.9 Consensus size: 9
10441450 AATTTATAAA
*
10441460 AAAATCTAT
1 AAAATATAT
10441469 -AAATATTAT
1 AAAATA-TAT
* *
10441478 AAAA-ACAA
1 AAAATATAT
*
10441486 AAAATCTAT
1 AAAATATAT
10441495 -AAATATTAT
1 AAAATA-TAT
* *
10441504 AAAA-ACAA
1 AAAATATAT
10441512 AAAATATAT
1 AAAATATAT
10441521 AAAA-ATAT
1 AAAATATAT
*
10441529 AAAATTTAT
1 AAAATATAT
*
10441538 AAAACAATTAT
1 AAAA-TA-TAT
10441549 AAAAATATAT
1 -AAAATATAT
10441559 AAAATATA
1 AAAATATA
10441567 GAGAAATTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 20
0.68 0.14 0.19
Matches are distributed among these distances:
8 26 0.36
9 30 0.41
10 9 0.12
11 4 0.05
12 4 0.05
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATATAT
Found at i:10441566 original size:28 final size:27
Alignment explanation
Indices: 10441440--10441566 Score: 109
Period size: 26 Copynumber: 4.6 Consensus size: 27
10441430 AATATTATAA
* *
10441440 AAAAATTAGAAATTTATAAAAAAATCTAT
1 AAAAATTATAAA-ATAT-AAAAAATCTAT
* *
10441469 AAATATTATAAAA-ACAAAAAATCTAT
1 AAAAATTATAAAATATAAAAAATCTAT
* * *
10441495 AAATATTATAAAA-ACAAAAAATATAT
1 AAAAATTATAAAATATAAAAAATCTAT
10441521 AAAAA-TATAAAATTTATAAAACAAT-TAT
1 AAAAATTATAAAA--TATAAAA-AATCTAT
10441549 AAAAATATATAAAATATA
1 AAAAAT-TATAAAATATA
10441567 GAGAAATTAA
Statistics
Matches: 85, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
25 7 0.08
26 40 0.47
27 1 0.01
28 17 0.20
29 13 0.15
30 7 0.08
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAAATTATAAAATATAAAAAATCTAT
Found at i:10441641 original size:20 final size:20
Alignment explanation
Indices: 10441606--10441678 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
10441596 AGAATAATGA
10441606 AAAATATTATAAAAATT-TT
1 AAAATATTATAAAAATTATT
10441625 AAAA-ATTATAGAGAAATTATT
1 AAAATATTATA-A-AAATTATT
** * **
10441646 AAAATGGTAAAAAAATTAAA
1 AAAATATTATAAAAATTATT
10441666 AAAATATTA-AAAA
1 AAAATATTATAAAA
10441679 CATGTATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 6 0.14
19 9 0.21
20 18 0.42
21 7 0.16
22 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAATATTATAAAAATTATT
Found at i:10449586 original size:24 final size:24
Alignment explanation
Indices: 10449559--10449606 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10449549 TAAGGGAAAA
*
10449559 TAAAAA-TAATTAGTAGATTATTAT
1 TAAAAAGTAATTA-TAAATTATTAT
*
10449583 TAAAAAGTTATTATAAATTATTAT
1 TAAAAAGTAATTATAAATTATTAT
10449607 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
TAAAAAGTAATTATAAATTATTAT
Found at i:10449605 original size:10 final size:10
Alignment explanation
Indices: 10449578--10449612 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10449568 TTAGTAGATT
*
10449578 ATTATTAAAA
1 ATTATTATAA
10449588 AGTTATTATAA
1 A-TTATTATAA
10449599 ATTATTATAA
1 ATTATTATAA
10449609 ATTA
1 ATTA
10449613 AAAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (10 bp):
ATTATTATAA
Found at i:10456635 original size:33 final size:33
Alignment explanation
Indices: 10456598--10456671 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
10456588 CTCTGTTTAG
*
10456598 TGTGTTGGTTAGATTAGCTCTTATGAACATTAA
1 TGTGTTGGTTAGATTAACTCTTATGAACATTAA
* * **
10456631 TGTGTTGGTTGGATTAACTCTTATGAGCATTGG
1 TGTGTTGGTTAGATTAACTCTTATGAACATTAA
10456664 TGTGTTGG
1 TGTGTTGG
10456672 AGGGATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.43
Consensus pattern (33 bp):
TGTGTTGGTTAGATTAACTCTTATGAACATTAA
Found at i:10459667 original size:11 final size:11
Alignment explanation
Indices: 10459651--10459677 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10459641 TTTGCACACT
10459651 TTCACTACATA
1 TTCACTACATA
10459662 TTCACTACATA
1 TTCACTACATA
10459673 TTCAC
1 TTCAC
10459678 ATTATAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (11 bp):
TTCACTACATA
Found at i:10461172 original size:32 final size:35
Alignment explanation
Indices: 10461136--10461224 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 35
10461126 ATTATTTGAA
10461136 AATTTTATATAAATATTATAATTATAA-C-TT-AT
1 AATTTTATATAAATATTATAATTATAATCATTAAT
* *
10461168 AATTTAATAT-AATATTAAAACTTATAATCATTAAT
1 AATTTTATATAAATATTATAA-TTATAATCATTAAT
*
10461203 AA-TTTATATAAATATTTTAATT
1 AATTTTATATAAATATTATAATT
10461225 TATGTTTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
31 9 0.19
32 15 0.32
33 1 0.02
34 10 0.21
35 12 0.26
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (35 bp):
AATTTTATATAAATATTATAATTATAATCATTAAT
Found at i:10461189 original size:25 final size:26
Alignment explanation
Indices: 10461147--10461195 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
10461137 ATTTTATATA
* *
10461147 AATATTATAATTATAACTTATAATTT
1 AATATAATAATTAAAACTTATAATTT
10461173 AATATAAT-ATTAAAACTTATAAT
1 AATATAATAATTAAAACTTATAAT
10461196 CATTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
AATATAATAATTAAAACTTATAATTT
Found at i:10462948 original size:21 final size:22
Alignment explanation
Indices: 10462924--10462976 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
10462914 TACCACTGTT
10462924 TCTAATCTCACT-GCTACAATA
1 TCTAATCTCACTCGCTACAATA
*
10462945 TCTAATCTCA-TCGCTACAGTA
1 TCTAATCTCACTCGCTACAATA
*
10462966 ACTAATCTCAC
1 TCTAATCTCAC
10462977 CGCCGCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (22 bp):
TCTAATCTCACTCGCTACAATA
Found at i:10476452 original size:40 final size:41
Alignment explanation
Indices: 10476366--10476462 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
10476356 CTACAATGTT
*
10476366 TGGCACTTAGTGTGCG-TTTGAAAATAGCTTTGGCTATAAA
1 TGGCACTTAGTGTGCGAATTGAAAATAGCTTTGGCTATAAA
* * **
10476406 TAGCACTTAGTGTGCGAATTG-AAATAG-TTTCGGCTTTATG
1 TGGCACTTAGTGTGCGAATTGAAAATAGCTTT-GGCTATAAA
*
10476446 TGGCACTAAGTGTGCGA
1 TGGCACTTAGTGTGCGA
10476463 TACCGAGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.06
40 42 0.88
41 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAATTGAAAATAGCTTTGGCTATAAA
Found at i:10477855 original size:21 final size:21
Alignment explanation
Indices: 10477831--10477885 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
10477821 GAACAGTGTC
10477831 ACACGCCCGTGTGCCCTTCTT
1 ACACGCCCGTGTGCCCTTCTT
* *
10477852 ACACGCCCGTGTACCCTTTTT
1 ACACGCCCGTGTGCCCTTCTT
*
10477873 ACACGTCCGTGTG
1 ACACGCCCGTGTG
10477886 GGAACACCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.13, C:0.38, G:0.20, T:0.29
Consensus pattern (21 bp):
ACACGCCCGTGTGCCCTTCTT
Found at i:10479045 original size:19 final size:19
Alignment explanation
Indices: 10479021--10479057 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10479011 CTCCGTATTG
*
10479021 GTAACAGTATCAGTAACGA
1 GTAACAGTAACAGTAACGA
10479040 GTAACAGTAACAGTAACG
1 GTAACAGTAACAGTAACG
10479058 GTACACAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (19 bp):
GTAACAGTAACAGTAACGA
Found at i:10479048 original size:6 final size:6
Alignment explanation
Indices: 10479021--10479056 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
10479011 CTCCGTATTG
*
10479021 GTAACA GTATCA GTAACGA GTAACA GTAACA GTAAC
1 GTAACA GTAACA GTAAC-A GTAACA GTAACA GTAAC
10479057 GGTACACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:10479158 original size:57 final size:59
Alignment explanation
Indices: 10479031--10479159 Score: 156
Period size: 57 Copynumber: 2.2 Consensus size: 59
10479021 GTAACAGTAT
*
10479031 CAGTAACGAGTAACAGTAACAGTAACGGTACACAAAGTACCTCATCGGAACAAATCTGAAA
1 CAGTAAC-AGTAACAGTAACAGTAACGGTA-ACAAAGTACCTCATCGAAACAAATCTGAAA
* * * *
10479092 CAGTAACAGTAACAGTAACAGTTA-GGT-ACAGAGTACCTCTTCGAAACGAATCCTG-AA
1 CAGTAACAGTAACAGTAACAGTAACGGTAACAAAGTACCTCATCGAAACAAAT-CTGAAA
*
10479149 CAGTCACAGTA
1 CAGTAACAGTA
10479160 GTTGACACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 32 0.52
58 3 0.05
59 3 0.05
60 16 0.26
61 7 0.11
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (59 bp):
CAGTAACAGTAACAGTAACAGTAACGGTAACAAAGTACCTCATCGAAACAAATCTGAAA
Found at i:10480115 original size:9 final size:9
Alignment explanation
Indices: 10480089--10480131 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
10480079 GTTTTCTTTG
10480089 TTTCTCTTT-
1 TTTCT-TTTA
10480098 TTT-TTTTA
1 TTTCTTTTA
10480106 TTTCTTTTA
1 TTTCTTTTA
*
10480115 TTTCATTTA
1 TTTCTTTTA
10480124 TTTCTTTT
1 TTTCTTTT
10480132 TTTTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 3 0.10
8 4 0.13
9 23 0.77
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:10489089 original size:12 final size:12
Alignment explanation
Indices: 10489072--10489096 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10489062 TTCATATCTT
10489072 ATTCAATCTCTA
1 ATTCAATCTCTA
10489084 ATTCAATCTCTA
1 ATTCAATCTCTA
10489096 A
1 A
10489097 AATTTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTCAATCTCTA
Found at i:10489217 original size:40 final size:40
Alignment explanation
Indices: 10489162--10489241 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
10489152 TGCAATATGA
*
10489162 TGATAACTATCATAAGTTCATTTCAACTAATCATGAACTT
1 TGATAACTATCATAAGTTCATTTCAACTAATAATGAACTT
*
10489202 TGATAATTATCATAAGTTCATTTCAACTAATAATGAACTT
1 TGATAACTATCATAAGTTCATTTCAACTAATAATGAACTT
10489242 ACCATTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (40 bp):
TGATAACTATCATAAGTTCATTTCAACTAATAATGAACTT
Found at i:10489822 original size:43 final size:43
Alignment explanation
Indices: 10489761--10489846 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
10489751 ATCACATGTA
* *
10489761 TCGCATCCATTATGAACTCAGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
* * *
10489804 TCGCATCCATAATGAACTCGGACCTCTCAACTAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
10489847 CACATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
Found at i:10507050 original size:12 final size:12
Alignment explanation
Indices: 10507033--10507057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10507023 AAGATAATAA
10507033 ATTAAATTTAAT
1 ATTAAATTTAAT
10507045 ATTAAATTTAAT
1 ATTAAATTTAAT
10507057 A
1 A
10507058 ATAAGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAAATTTAAT
Found at i:10518026 original size:203 final size:203
Alignment explanation
Indices: 10517677--10518089 Score: 630
Period size: 203 Copynumber: 2.0 Consensus size: 203
10517667 CAGAAGCACA
* *
10517677 ATCATCCCCCCTCACTCTCATCGGCCAGATATCCCCACGGGGCATCTCGAGCATGCTAAATATGA
1 ATCATCCCCCCTCACTCTCATCGGCCAGATATCCCCACAGGGCATATCGAGCATGCTAAATATGA
* * *
10517742 GAATGATCAAGAAACGATATGGCACATACCCTTCTCAATACCGCCGAGTCTAGTCAACTGAGGAG
66 GAATGATCAAGAAACGATATGGCACATACCCTTCTCAATACCACCGAGTCCAGTCAACCGAGGAG
10517807 AAGGACCCAAAGGACATTACTGATGATGTCTCC-ACACGTCATGAGGACCCACCGTCTCAGCCAC
131 AAGGACCCAAAGGACATTACTGATGATGTC-CCTACACGTCATGAGGACCCACCGTCTCAGCCAC
10517871 CACCCATCC
195 CACCCATCC
* *
10517880 ATCATCCTCCCTCACTCTCATCGGCCAGATGTCCCCACAGGGCATATCGAGCATGCTAAATATGA
1 ATCATCCCCCCTCACTCTCATCGGCCAGATATCCCCACAGGGCATATCGAGCATGCTAAATATGA
* * * * * ** *
10517945 GGATGATCAAGAAACGATGTGGCACCTACCCTTCTCAGTACTACCTCGTCCAGTCCACCGAGGAG
66 GAATGATCAAGAAACGATATGGCACATACCCTTCTCAATACCACCGAGTCCAGTCAACCGAGGAG
* * * * *
10518010 GAGGACTCAGAGGACATTATTGATGATGTCCCTCCACGTCATGAGGACCCACCGTCTCAGCCACC
131 AAGGACCCAAAGGACATTACTGATGATGTCCCTACACGTCATGAGGACCCACCGTCTCAGCCACC
10518075 ACCCATCC
196 ACCCATCC
10518083 ATCATCC
1 ATCATCC
10518090 AGTTCATGCG
Statistics
Matches: 189, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
202 2 0.01
203 187 0.99
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.20
Consensus pattern (203 bp):
ATCATCCCCCCTCACTCTCATCGGCCAGATATCCCCACAGGGCATATCGAGCATGCTAAATATGA
GAATGATCAAGAAACGATATGGCACATACCCTTCTCAATACCACCGAGTCCAGTCAACCGAGGAG
AAGGACCCAAAGGACATTACTGATGATGTCCCTACACGTCATGAGGACCCACCGTCTCAGCCACC
ACCCATCC
Found at i:10531852 original size:23 final size:22
Alignment explanation
Indices: 10531825--10531872 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
10531815 GGATTTGCAC
*
10531825 TAATAATTTC-TAACTTGATAGAT
1 TAATAATTGCTTAACTT-ATA-AT
10531848 TAATAATTGCTTAACTTATAAT
1 TAATAATTGCTTAACTTATAAT
10531870 TAA
1 TAA
10531873 CTTGATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 12 0.52
24 6 0.26
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (22 bp):
TAATAATTGCTTAACTTATAAT
Found at i:10532100 original size:17 final size:17
Alignment explanation
Indices: 10532078--10532112 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10532068 TTCTTATATG
10532078 AATTCAAGTACTAGCTT
1 AATTCAAGTACTAGCTT
*
10532095 AATTCATGTACTAGCTT
1 AATTCAAGTACTAGCTT
10532112 A
1 A
10532113 TTGAAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (17 bp):
AATTCAAGTACTAGCTT
Found at i:10534778 original size:18 final size:17
Alignment explanation
Indices: 10534755--10534807 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
10534745 GTACAATTCA
10534755 AATAATTTATTTTAATTT
1 AATAATTTA-TTTAATTT
* *
10534773 AATAATATATTTCATTT
1 AATAATTTATTTAATTT
* *
10534790 AATTATTTTACTTAATTT
1 AA-TAATTTATTTAATTT
10534808 TTTATTTCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
AATAATTTATTTAATTT
Found at i:10544171 original size:20 final size:21
Alignment explanation
Indices: 10544140--10544194 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 21
10544130 ATAAAATCAA
*
10544140 TAAAATTT-ATAAAAAATA-T
1 TAAATTTTAATAAAAAATATT
*
10544159 TAATTTTTAAT-AAAAATATT
1 TAAATTTTAATAAAAAATATT
*
10544179 TAAATTTTATTAAAAA
1 TAAATTTTAATAAAAA
10544195 TTAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.45
20 12 0.41
21 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATTTTAATAAAAAATATT
Found at i:10544195 original size:20 final size:19
Alignment explanation
Indices: 10544140--10544195 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
10544130 ATAAAATCAA
* *
10544140 TAAAATTTATAAAAAATAT
1 TAAATTTTATTAAAAATAT
* *
10544159 TAATTTTTAATAAAAATATT
1 TAAATTTTATTAAAAATA-T
10544179 TAAATTTTATTAAAAAT
1 TAAATTTTATTAAAAAT
10544196 TAGAAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATTTTATTAAAAATAT
Found at i:10544221 original size:29 final size:29
Alignment explanation
Indices: 10544189--10544261 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
10544179 TAAATTTTAT
10544189 TAAAAATTAGAAAAAAATTATAAAAATAG
1 TAAAAATTAGAAAAAAATTATAAAAATAG
* * ** * *
10544218 TAAAAATTTGTAAAATTTTATAAATATCG
1 TAAAAATTAGAAAAAAATTATAAAAATAG
*
10544247 TAAAAAATTATAAAA
1 T-AAAAATTAGAAAA
10544262 TGCATAAAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
29 24 0.71
30 10 0.29
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (29 bp):
TAAAAATTAGAAAAAAATTATAAAAATAG
Found at i:10544262 original size:29 final size:29
Alignment explanation
Indices: 10544206--10544262 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10544196 TAGAAAAAAA
* *
10544206 TTATAAAAATAGTAAAAATTTGTAAAATT
1 TTATAAAAATAGTAAAAAATTATAAAATT
* *
10544235 TTATAAATATCGTAAAAAATTATAAAAT
1 TTATAAAAATAGTAAAAAATTATAAAAT
10544263 GCATAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (29 bp):
TTATAAAAATAGTAAAAAATTATAAAATT
Found at i:10544397 original size:17 final size:17
Alignment explanation
Indices: 10544383--10544426 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10544373 GCAAAAAATG
10544383 ATAAAAAATAAAAAACA
1 ATAAAAAATAAAAAACA
* *
10544400 ATAAAAACTAAAGAAAAA
1 ATAAAAAATAAA-AAACA
*
10544418 ATATAAAAT
1 ATAAAAAAT
10544427 GCTTCTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (17 bp):
ATAAAAAATAAAAAACA
Found at i:10544565 original size:68 final size:69
Alignment explanation
Indices: 10544447--10544605 Score: 161
Period size: 68 Copynumber: 2.3 Consensus size: 69
10544437 GTACGATAAT
* * * * *
10544447 TTTTATAA-TTTTTTTATGAATTT-TATATTTCTTTAGATTTTTTATAATTTTCT-TACAACTTT
1 TTTTATAATTTTTTTTAT--ATTTCTATATATCTTTAAAATTTTTACAATTTT-TATA-AAATTT
10544509 -A-TAAAA
62 AATTAAAA
*
10544515 TTTTATAATTTTTTTCTATATTTCTATATAT-TTTAAAATTTTTACGATTTTTATAAAATTTAAT
1 TTTTATAATTTTTTT-TATATTTCTATATATCTTTAAAATTTTTACAATTTTTATAAAATTTAAT
10544579 TAAAA
65 TAAAA
*
10544584 TTTAATAATTTTTTTTAT-TTTC
1 TTTTATAATTTTTTTTATATTTC
10544606 AATTAAAATT
Statistics
Matches: 78, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
67 10 0.13
68 34 0.44
69 31 0.40
70 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (69 bp):
TTTTATAATTTTTTTTATATTTCTATATATCTTTAAAATTTTTACAATTTTTATAAAATTTAATT
AAAA
Found at i:10548517 original size:7 final size:7
Alignment explanation
Indices: 10548507--10548539 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
10548497 TTGTGTTTGT
10548507 GGTTTAG
1 GGTTTAG
10548514 GGTTTAG
1 GGTTTAG
10548521 GGTTTA-
1 GGTTTAG
*
10548527 GGTTTAA
1 GGTTTAG
10548534 GGTTTA
1 GGTTTA
10548540 TGGTCTCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:10548518 original size:14 final size:14
Alignment explanation
Indices: 10548507--10548539 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
10548497 TTGTGTTTGT
10548507 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
*
10548521 GGTTTA-GGTTTAA
1 GGTTTAGGGTTTAG
10548534 GGTTTA
1 GGTTTA
10548540 TGGTCTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAG
Found at i:10548566 original size:14 final size:14
Alignment explanation
Indices: 10548507--10548568 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
10548497 TTGTGTTTGT
10548507 GGTTTAGGGTTT-A
1 GGTTTAGGGTTTCA
*
10548520 GGGTTTA-GGTTTAA
1 -GGTTTAGGGTTTCA
* *
10548534 GGTTTATGGTCTCA
1 GGTTTAGGGTTTCA
*
10548548 AGTTTAGGGTTTCA
1 GGTTTAGGGTTTCA
10548562 GGTTTAG
1 GGTTTAG
10548569 AGTATAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.28
14 29 0.73
ACGTcount: A:0.18, C:0.05, G:0.34, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTCA
Found at i:10549569 original size:16 final size:16
Alignment explanation
Indices: 10549548--10549589 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
10549538 AAATCCCTAA
10549548 CATTTTCCCCAAATCT
1 CATTTTCCCCAAATCT
*
10549564 CATTTTTTCCCTAAATCT
1 CA--TTTTCCCCAAATCT
10549582 -ATTTTCCC
1 CATTTTCCC
10549590 ATCCCCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 7 0.30
16 2 0.09
17 1 0.04
18 13 0.57
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.45
Consensus pattern (16 bp):
CATTTTCCCCAAATCT
Found at i:10549585 original size:17 final size:18
Alignment explanation
Indices: 10549550--10549586 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10549540 ATCCCTAACA
10549550 TTTTCCCCAAATCTCATT
1 TTTTCCCCAAATCTCATT
*
10549568 TTTTCCCTAAATCT-ATT
1 TTTTCCCCAAATCTCATT
10549585 TT
1 TT
10549587 CCCATCCCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTCCCCAAATCTCATT
Found at i:10551022 original size:39 final size:40
Alignment explanation
Indices: 10550979--10551059 Score: 146
Period size: 39 Copynumber: 2.0 Consensus size: 40
10550969 AGGTAGAGAA
*
10550979 CTTAAATTTGTTATTTTGCATGATTATTTGAGATCTG-TT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
10551018 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
10551058 CT
1 CT
10551060 GTCAACGTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 36 0.90
40 4 0.10
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (40 bp):
CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGCTT
Found at i:10552305 original size:55 final size:52
Alignment explanation
Indices: 10552201--10552312 Score: 163
Period size: 55 Copynumber: 2.1 Consensus size: 52
10552191 TTTTGCTAAT
*
10552201 TTATATCATGTTTTTGTAAAATTAGTTATGAAAGTAATATTATAGATATAGC
1 TTATTTCATGTTTTTGTAAAATTAGTTATGAAAGTAATATTATAGATATAGC
*
10552253 TTATTTCATGTTCTTTGTACAAATTAGTTATGACAAGTAATATATATA-ATATAGT
1 TTATTTCATGTT-TTTGTA-AAATTAGTTATGA-AAGTAATAT-TATAGATATAGC
10552308 TTATT
1 TTATT
10552313 AATGAACAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
52 11 0.20
53 6 0.11
54 13 0.24
55 20 0.37
56 4 0.07
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (52 bp):
TTATTTCATGTTTTTGTAAAATTAGTTATGAAAGTAATATTATAGATATAGC
Found at i:10552825 original size:96 final size:94
Alignment explanation
Indices: 10552587--10553059 Score: 560
Period size: 97 Copynumber: 5.1 Consensus size: 94
10552577 TTATTTTAAA
* * * * * *
10552587 TTTTATTTA-TTTGAAATTACGAATTAAATTAAATGTATTTAAGTTTT-TTGAATATTTAGTTGA
1 TTTTATTTATTTTTAAATTACTAATTAAATTAATTGTCTTTAAGTTTTATTAAATATTTACTTGA
*
10552650 TTTAATTTATCAC-GAAATATTTGTCTAC
66 TTTAATTTATCACTAAAATATTTGTCTAC
10552678 TTTTA-TT-TTTTT-AATTACT-ATT-AATTAAATTGTCTTTAAAGTTTTATTAAATATTTACTT
1 TTTTATTTATTTTTAAATTACTAATTAAATT-AATTGTCTTT-AAGTTTTATTAAATATTTACTT
10552738 GA-TTAATTTACTCACTAAAATA-TTGTCTAC
64 GATTTAATTTA-TCACTAAAATATTTGTCTAC
*
10552768 TTTTATTTAATTTTTAAATTACCTAATTAAATTAATTGTATTTAAGTTTTACTTAAATATTTTA-
1 TTTTATTT-ATTTTTAAATTA-CTAATTAAATTAATTGTCTTTAAGTTTTA-TTAAATA-TTTAC
*
10552832 TTGGATTTTATTTATCAC-AAAATATTTTGTCTAC
62 TT-GATTTAATTTATCACTAAAATA-TTTGTCTAC
*
10552866 -TTTATTTTATTTTTAAATTACCTAA-TAAATTAAAATGTCTTTAAGTTTTATTTAAATATTTAC
1 TTTTA-TTTATTTTTAAATTA-CTAATTAAATT-AATTGTCTTTAAGTTTTA-TTAAATATTTAC
*
10552929 TTGATTTAATTAATCACTAAAATATTTGTCTAC
62 TTGATTTAATTTATCACTAAAATATTTGTCTAC
10552962 -TTTATTTATTTTTAAATTACTAATTAAATTAATT-TCTTTAAG-TTTATTAAATA-TTAC-TGA
1 TTTTATTTATTTTTAAATTACTAATTAAATTAATTGTCTTTAAGTTTTATTAAATATTTACTTGA
10553022 -TTAATTTAATCACTAAAATA-TTGTCTAC
66 TTTAATTT-ATCACTAAAATATTTGTCTAC
10553050 --TTATTTATTT
1 TTTTATTTATTT
10553060 AAATATTTAT
Statistics
Matches: 341, Mismatches: 16, Indels: 54
0.83 0.04 0.13
Matches are distributed among these distances:
87 14 0.04
88 25 0.07
89 36 0.11
90 40 0.12
91 19 0.06
92 4 0.01
93 13 0.04
94 12 0.04
95 31 0.09
96 63 0.18
97 66 0.19
98 18 0.05
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (94 bp):
TTTTATTTATTTTTAAATTACTAATTAAATTAATTGTCTTTAAGTTTTATTAAATATTTACTTGA
TTTAATTTATCACTAAAATATTTGTCTAC
Found at i:10552925 original size:193 final size:185
Alignment explanation
Indices: 10552587--10553051 Score: 591
Period size: 193 Copynumber: 2.5 Consensus size: 185
10552577 TTATTTTAAA
* * * *
10552587 TTTTATTTA-TTTGAAATTACGAATTAAATTAAATGTATTTAAGTTTT-TTGAATA-TTTAGTTG
1 TTTTATTTATTTTTAAATTACTAATTAAATTAATTGTATTTAAGTTTTATTAAATATTTTAGTTG
* * *
10552649 ATTTAATTTATCACGAAATATTTGTCTACTTTTATTTTTTTAATTACTATTAATTAAATTGTCTT
66 ATTTAATTTATCACAAAATATTTGTCTACTTTTATTTTTTTAATTACTATAAATTAAAATGTCTT
*
10552714 TAAAGTTTTATTAAATATTTACTTGA-TTAATTTACTCACTAAAATA-TTGTCTAC
131 TAAAGTTTTATTAAATATTTACTTGATTTAA-TTAATCACTAAAATATTTGTCTAC
10552768 TTTTATTTAATTTTTAAATTACCTAATTAAATTAATTGTATTTAAGTTTTACTTAAATATTTTA-
1 TTTTATTT-ATTTTTAAATTA-CTAATTAAATTAATTGTATTTAAGTTTTA-TTAAATATTTTAG
* *
10552832 TTGGATTTTATTTATCACAAAATATTTTGTCTACTTTATTTTATTTTTAAATTACCTAATAAATT
63 TT-GATTTAATTTATCACAAAATA-TTTGTCTACTTT-TATT-TTTTT-AATTA-CT-ATAAATT
10552897 AAAATGTCTTT-AAGTTTTATTTAAATATTTACTTGATTTAATTAATCACTAAAATATTTGTCTA
121 AAAATGTCTTTAAAGTTTTA-TTAAATATTTACTTGATTTAATTAATCACTAAAATATTTGTCTA
10552961 C
185 C
* *
10552962 -TTTATTTATTTTTAAATTACTAATTAAATTAATT-TCTTTAAG-TTTATTAAATA--TTA-CTG
1 TTTTATTTATTTTTAAATTACTAATTAAATTAATTGTATTTAAGTTTTATTAAATATTTTAGTTG
10553021 A-TTAATTTAATCACTAAAATA-TTGTCTACTT
66 ATTTAATTT-ATCAC-AAAATATTTGTCTACTT
10553052 ATTTATTTAA
Statistics
Matches: 253, Mismatches: 13, Indels: 33
0.85 0.04 0.11
Matches are distributed among these distances:
181 8 0.03
182 1 0.00
183 9 0.04
184 42 0.17
185 7 0.03
186 18 0.07
187 23 0.09
188 19 0.08
189 7 0.03
190 12 0.05
191 20 0.08
192 22 0.09
193 53 0.21
194 12 0.05
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (185 bp):
TTTTATTTATTTTTAAATTACTAATTAAATTAATTGTATTTAAGTTTTATTAAATATTTTAGTTG
ATTTAATTTATCACAAAATATTTGTCTACTTTTATTTTTTTAATTACTATAAATTAAAATGTCTT
TAAAGTTTTATTAAATATTTACTTGATTTAATTAATCACTAAAATATTTGTCTAC
Found at i:10553227 original size:17 final size:17
Alignment explanation
Indices: 10553207--10553374 Score: 123
Period size: 17 Copynumber: 9.6 Consensus size: 17
10553197 TAAGATAAAC
10553207 AACTTACATAATTACAT
1 AACTTACATAATTACAT
* *
10553224 AACTTACGTAA-CACAT
1 AACTTACATAATTACAT
*
10553240 AA--TATATAATTTACAT
1 AACTTACATAA-TTACAT
*
10553256 AATTTACATAATT-CGAT
1 AACTTACATAATTAC-AT
10553273 AACTTACATAATTTACAT
1 AACTTACATAA-TTACAT
*
10553291 AACTTACATATAAATACAT
1 AACTTAC--ATAATTACAT
*
10553310 AA-TATATATCATATCGTACAT
1 AACT-TACAT-A-AT--TACAT
**
10553331 AA-TTACATAATTTGAT
1 AACTTACATAATTACAT
*
10553347 AACTTACACAATTACAT
1 AACTTACATAATTACAT
10553364 AACTTACATAA
1 AACTTACATAA
10553375 ACATAAATAA
Statistics
Matches: 119, Mismatches: 17, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
14 5 0.04
16 18 0.15
17 47 0.39
18 21 0.18
19 12 0.10
20 8 0.07
21 8 0.07
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.36
Consensus pattern (17 bp):
AACTTACATAATTACAT
Found at i:10553235 original size:9 final size:9
Alignment explanation
Indices: 10553207--10553416 Score: 120
Period size: 9 Copynumber: 23.7 Consensus size: 9
10553197 TAAGATAAAC
10553207 AACTTACAT
1 AACTTACAT
10553216 AA-TTACAT
1 AACTTACAT
*
10553224 AACTTACGT
1 AACTTACAT
10553233 AAC--ACAT
1 AACTTACAT
*
10553240 AA--TATAT
1 AACTTACAT
*
10553247 AATTTACAT
1 AACTTACAT
*
10553256 AATTTACAT
1 AACTTACAT
10553265 AA-TT-CGAT
1 AACTTAC-AT
10553273 AACTTACAT
1 AACTTACAT
*
10553282 AATTTACAT
1 AACTTACAT
10553291 AACTTACAT
1 AACTTACAT
**
10553300 ATAAATACAT
1 A-ACTTACAT
*
10553310 AATATATATCAT
1 AA-CT-TA-CAT
* *
10553322 ATCGTACAT
1 AACTTACAT
10553331 AA-TTACAT
1 AACTTACAT
**
10553339 AA-TTTGAT
1 AACTTACAT
*
10553347 AACTTACAC
1 AACTTACAT
10553356 AA-TTACAT
1 AACTTACAT
10553364 AACTTACAT
1 AACTTACAT
* *
10553373 AAACATAAAT
1 -AACTTACAT
10553383 AA-TATATCAT
1 AACT-TA-CAT
10553393 AACTTACAT
1 AACTTACAT
10553402 AACTTA-AT
1 AACTTACAT
10553410 ATACTTA
1 A-ACTTA
10553417 TAATAAACAA
Statistics
Matches: 159, Mismatches: 24, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
7 11 0.07
8 37 0.23
9 80 0.50
10 24 0.15
11 3 0.02
12 4 0.03
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:10553390 original size:66 final size:68
Alignment explanation
Indices: 10553207--10553390 Score: 216
Period size: 74 Copynumber: 2.7 Consensus size: 68
10553197 TAAGATAAAC
* *
10553207 AACTTACATAATTACATAACTTACGTAACACAT-AAT-ATATAAT-TTACATAATTTACATAATT
1 AACTTACATAATTACATAACTTACATAACACATAAATAATAT-ATCGTACATAATTTACATAATT
10553269 CGAT
65 CGAT
*
10553273 AACTTACATAATTTACATAACTTACATATAAATACATAATATATATCATATCGTACATAA-TTAC
1 AACTTACATAA-TTACATAACTTAC--AT-AACACATAA-ATA-AT-ATATCGTACATAATTTAC
*
10553337 ATAATTTGAT
59 ATAATTCGAT
*
10553347 AACTTACACAATTACATAACTTACATAA-ACATAAATAATATATC
1 AACTTACATAATTACATAACTTACATAACACATAAATAATATATC
10553391 ATAACTTACA
Statistics
Matches: 103, Mismatches: 5, Indels: 20
0.80 0.04 0.16
Matches are distributed among these distances:
66 16 0.16
67 15 0.15
68 3 0.03
69 7 0.07
70 8 0.08
71 3 0.03
72 2 0.02
73 13 0.13
74 27 0.26
75 9 0.09
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.35
Consensus pattern (68 bp):
AACTTACATAATTACATAACTTACATAACACATAAATAATATATCGTACATAATTTACATAATTC
GAT
Found at i:10558913 original size:21 final size:21
Alignment explanation
Indices: 10558866--10558913 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10558856 ACTTAGAGCG
*
10558866 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGAGAGAGAGGCA
*
10558887 -ACGGCAGCAGTGAGAGAGGCA
1 GA-GGCAGCAGAGAGAGAGGCA
10558908 GAGGCA
1 GAGGCA
10558914 CGAGCAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.48, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGAGAGAGAGGCA
Found at i:10559970 original size:7 final size:7
Alignment explanation
Indices: 10559955--10560005 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
10559945 AAAATTATAC
*
10559955 ATAATTA
1 ATAAATA
10559962 ATAAATA
1 ATAAATA
10559969 ATAAATA
1 ATAAATA
10559976 ATAAAATA
1 AT-AAATA
* *
10559984 TTATATA
1 ATAAATA
10559991 ATAAAATA
1 AT-AAATA
10559999 A-AAATA
1 ATAAATA
10560005 A
1 A
10560006 CGTAAGGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
6 6 0.16
7 20 0.54
8 11 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAAATA
Found at i:10559991 original size:15 final size:15
Alignment explanation
Indices: 10559955--10560005 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
10559945 AAAATTATAC
*
10559955 ATAATTAAT-AAATA
1 ATAAATAATAAAATA
10559969 ATAAATAATAAAATA
1 ATAAATAATAAAATA
* *
10559984 TTATATAATAAAATA
1 ATAAATAATAAAATA
10559999 A-AAATAA
1 ATAAATAA
10560006 CGTAAGGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATAATAAAATA
Found at i:10560170 original size:31 final size:32
Alignment explanation
Indices: 10560115--10560184 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
10560105 TCTATAAAAA
**
10560115 TAAATAATATATAAAAAATTTTAAAAATGAA-T
1 TAAAT-ATATATAAAAAAGATTAAAAATGAATT
* *
10560147 TAAATATATATAAAAAGGATTAAAATTGAATT
1 TAAATATATATAAAAAAGATTAAAAATGAATT
10560179 TAAATA
1 TAAATA
10560185 AAAAATCTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (32 bp):
TAAATATATATAAAAAAGATTAAAAATGAATT
Found at i:10561667 original size:45 final size:45
Alignment explanation
Indices: 10561617--10562190 Score: 211
Period size: 45 Copynumber: 13.0 Consensus size: 45
10561607 TAATATCCTT
*
10561617 GATCTGCTCCCCGTCAAATACAGAGATACCAAATCTGCTATCTTC
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCTATCTTC
**** * * **
10561662 GATCTGCTTTGATGTAAACATAC-GA-ATGTCAGTTCTGCTATCTTC
1 GATCTGC-TCCCCGTCAA-ATACAGAGATGCCAAATCTGCTATCTTC
* * * *
10561707 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT-TTCATTTTC
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCT-ATCTTC
*** * * * ** * *
10561752 GATCTGCTTCGATGT-AAACACACAAATATCAGATCTACTATCTTC
1 GATCTGC-TCCCCGTCAAATACAGAGATGCCAAATCTGCTATCTTC
* * *** *
10561797 GATTTGCTCCCCGTCTAATACAGAGACATCAAATCTG-TCATTTTC
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCT-ATCTTC
*** * * * * *
10561842 GATCTGCTTCGATGT-AAACAAACGA-ATGTCAGATCTGCTATCTTT
1 GATCTGC-TCCCCGTCAAATACA-GAGATGCCAAATCTGCTATCTTC
* * *
10561887 GATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTG-TCATCTTC
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCT-ATCTTC
* *** * * * *
10561932 GATCTACTTCGATGT-AAACACACGA-ATGCCAGATCTACTATGTTC
1 GATCTGC-TCCCCGTCAAATACA-GAGATGCCAAATCTGCTATCTTC
* * * * *
10561977 GATCTACTCCTCCGTCTAATACATAGACGCCAAATCTGCCATCTTC
1 GATCTGCTCC-CCGTCAAATACAGAGATGCCAAATCTGCTATCTTC
* * * *
10562023 GATCTGCT-----TC--ACAC-GA-ATGTCAGATCTACTATCTTC
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCTATCTTC
* * * * * *
10562059 GATCTGTTCCCCATCTAATACGGAGACGCCAAATCTG-TCATTTTC
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * * *
10562104 AATCTGCTCCCCATCTAATACGGAGACGCCAAATCT-ATCATCTTC
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * *
10562149 GATTTGTTCCCTGTC-AATACAGAGATGTCAAATTTGCTATCT
1 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCTATCT
10562191 ACATTGTCCC
Statistics
Matches: 379, Mismatches: 117, Indels: 67
0.67 0.21 0.12
Matches are distributed among these distances:
36 22 0.06
37 1 0.00
38 3 0.01
40 2 0.01
41 2 0.01
43 7 0.02
44 44 0.12
45 241 0.64
46 53 0.14
47 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (45 bp):
GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCTATCTTC
Found at i:10561770 original size:90 final size:90
Alignment explanation
Indices: 10561617--10562111 Score: 632
Period size: 90 Copynumber: 5.6 Consensus size: 90
10561607 TAATATCCTT
* ** *
10561617 GATCTGCTCCCCGTCAAATACAGAGATACCAAATCTG-CTATCTTCGATCTGCTTTGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAAC
* * *
10561681 ATACGAATGTCAGTTCTGCTATCTTC
65 ACACGAATGTCAGATCTACTATCTTC
* *
10561707 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTTTCATTTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
10561772 CACAAATATCAGATCTACTATCTTC
66 CACGAATGTCAGATCTACTATCTTC
* ** *
10561797 GATTTGCTCCCCGTCTAATACAGAGACATCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* * *
10561862 AACGAATGTCAGATCTGCTATCTTT
66 CACGAATGTCAGATCTACTATCTTC
* *
10561887 GATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
10561952 CACGAATGCCAGATCTACTATGTTC
66 CACGAATGTCAGATCTACTATCTTC
* * *
10561977 GATCTACTCCTCCGTCTAATACATAGACGCCAAATCTGCCATCTTCGATCTG---C--T-T---C
1 GATCTGCTCC-CCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAAC
10562033 ACACGAATGTCAGATCTACTATCTTC
65 ACACGAATGTCAGATCTACTATCTTC
* * * * *
10562059 GATCTGTTCCCCATCTAATACGGAGACGCCAAATCTGTCATTTTCAATCTGCT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCT
10562112 CCCCATCTAA
Statistics
Matches: 355, Mismatches: 46, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
81 35 0.10
82 33 0.09
85 1 0.00
86 1 0.00
88 1 0.00
90 245 0.69
91 39 0.11
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTACTATCTTC
Found at i:10562095 original size:81 final size:82
Alignment explanation
Indices: 10561950--10562111 Score: 227
Period size: 81 Copynumber: 2.0 Consensus size: 82
10561940 TCGATGTAAA
* * *
10561950 CACACGAATGCCAGATCTACTATGTTCGATCTACTCCTCCGTCTAATACATAGACGCCAAATCTG
1 CACACGAATGCCAGATCTACTATCTTCGATCTACTCCTCCATCTAATACAGAGACGCCAAATCTG
*
10562015 CCATCTTCGATCTGCTT
66 CCATCTTCAATCTGCTT
* ** *
10562032 CACACGAATGTCAGATCTACTATCTTCGATCTGTTCC-CCATCTAATACGGAGACGCCAAATCTG
1 CACACGAATGCCAGATCTACTATCTTCGATCTACTCCTCCATCTAATACAGAGACGCCAAATCTG
* *
10562096 TCATTTTCAATCTGCT
66 CCATCTTCAATCTGCT
10562112 CCCCATCTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
81 37 0.53
82 33 0.47
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (82 bp):
CACACGAATGCCAGATCTACTATCTTCGATCTACTCCTCCATCTAATACAGAGACGCCAAATCTG
CCATCTTCAATCTGCTT
Found at i:10574187 original size:7 final size:7
Alignment explanation
Indices: 10574172--10574223 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
10574162 AAAATTATAC
*
10574172 ATAATTA
1 ATAAATA
10574179 ATAAATA
1 ATAAATA
10574186 ATAAATA
1 ATAAATA
10574193 ATAAAATA
1 AT-AAATA
* *
10574201 TTATATA
1 ATAAATA
10574208 ATAAAATA
1 AT-AAATA
10574216 A-AAATA
1 ATAAATA
10574222 AT
1 AT
10574224 GTAAGGGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
6 6 0.16
7 20 0.54
8 11 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
ATAAATA
Found at i:10574200 original size:19 final size:19
Alignment explanation
Indices: 10574178--10574329 Score: 53
Period size: 19 Copynumber: 8.4 Consensus size: 19
10574168 ATACATAATT
10574178 AATAAATAATAAATAATAA
1 AATAAATAATAAATAATAA
*
10574197 AAT--AT--TATATAATAA
1 AATAAATAATAAATAATAA
*
10574212 AATAAA-AAT-AAT-GTAA
1 AATAAATAATAAATAATAA
* *
10574228 GGGAT-AAT-ATATATAATAA
1 --AATAAATAATAAATAATAA
* *
10574247 AATATATAATATATAATAA
1 AATAAATAATAAATAATAA
** *
10574266 AATTTATAAATAAA-ATATAT
1 AATAAAT-AATAAATA-ATAA
*
10574286 AATAGAAT-ATAAATAATATG
1 AATA-AATAATAAATAATA-A
*
10574306 AA-AAATAATATAT-A-AA
1 AATAAATAATAAATAATAA
10574322 AATAAATA
1 AATAAATA
10574330 TATACTATTT
Statistics
Matches: 99, Mismatches: 16, Indels: 38
0.65 0.10 0.25
Matches are distributed among these distances:
15 12 0.12
16 5 0.05
17 17 0.17
18 11 0.11
19 38 0.38
20 14 0.14
21 2 0.02
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
AATAAATAATAAATAATAA
Found at i:10574208 original size:15 final size:15
Alignment explanation
Indices: 10574172--10574223 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
10574162 AAAATTATAC
*
10574172 ATAATTAAT-AAATA
1 ATAAATAATAAAATA
10574186 ATAAATAATAAAATA
1 ATAAATAATAAAATA
* *
10574201 TTATATAATAAAATA
1 ATAAATAATAAAATA
10574216 A-AAATAAT
1 ATAAATAAT
10574224 GTAAGGGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 14 0.44
15 18 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATAATAAAATA
Found at i:10574246 original size:12 final size:12
Alignment explanation
Indices: 10574231--10574333 Score: 78
Period size: 12 Copynumber: 9.0 Consensus size: 12
10574221 AATGTAAGGG
10574231 ATAATATATATA
1 ATAATATATATA
*
10574243 ATAAAATATATA
1 ATAATATATATA
10574255 AT-ATATA-ATA
1 ATAATATATATA
*
10574265 A-AATTTATA-A
1 ATAATATATATA
*
10574275 ATAAAATATATA
1 ATAATATATATA
10574287 ATAGA-ATATA-A
1 ATA-ATATATATA
*
10574298 ATAATATGA-AAA
1 ATAATAT-ATATA
*
10574310 ATAATATATAAAA
1 ATAATATAT-ATA
10574323 ATAA-ATATATA
1 ATAATATATATA
10574334 CTATTTTTAC
Statistics
Matches: 75, Mismatches: 6, Indels: 21
0.74 0.06 0.21
Matches are distributed among these distances:
10 11 0.15
11 21 0.28
12 35 0.47
13 8 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
ATAATATATATA
Found at i:10574252 original size:14 final size:14
Alignment explanation
Indices: 10574233--10574303 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
10574223 TGTAAGGGAT
10574233 AATATATATAATAA
1 AATATATATAATAA
10574247 AATATATAATATATAA
1 AATATAT-ATA-ATAA
* *
10574263 TAAAATTTATAA-ATA
1 -AATATATATAATA-A
*
10574278 AA-ATATATAATAG
1 AATATATATAATAA
*
10574291 AATATAAATAATA
1 AATATATATAATA
10574304 TGAAAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 9 0.20
14 20 0.43
15 5 0.11
16 7 0.15
17 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (14 bp):
AATATATATAATAA
Found at i:10574259 original size:7 final size:7
Alignment explanation
Indices: 10574236--10574289 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
10574226 AAGGGATAAT
10574236 ATATATA
1 ATATATA
10574243 ATA-A-A
1 ATATATA
10574248 ATATATA
1 ATATATA
10574255 ATATATA
1 ATATATA
10574262 ATA-A-A
1 ATATATA
*
10574267 ATTTATA
1 ATATATA
*
10574274 A-ATAAA
1 ATATATA
10574280 ATATATA
1 ATATATA
10574287 ATA
1 ATA
10574290 GAATATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
5 7 0.18
6 8 0.21
7 23 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
ATATATA
Found at i:10574288 original size:25 final size:23
Alignment explanation
Indices: 10574231--10574333 Score: 81
Period size: 23 Copynumber: 4.5 Consensus size: 23
10574221 AATGTAAGGG
*
10574231 ATAATATATATAATAAAATAT--
1 ATAAAATATATAATAAAATATAA
10574252 AT--AATATATAATAAAATTTATAA
1 ATAAAATATATAATAAAA--TATAA
*
10574275 ATAAAATATATAATAGAATATAA
1 ATAAAATATATAATAAAATATAA
* * *
10574298 ATAATATGA-AAAATAATATATAA
1 ATAAAAT-ATATAATAAAATATAA
*
10574321 AAATAAATATATA
1 ATA-AAATATATA
10574334 CTATTTTTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
19 13 0.20
21 5 0.08
23 27 0.42
24 6 0.09
25 13 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAAATATATAATAAAATATAA
Found at i:10574289 original size:44 final size:46
Alignment explanation
Indices: 10574232--10574333 Score: 54
Period size: 44 Copynumber: 2.2 Consensus size: 46
10574222 ATGTAAGGGA
*
10574232 TAATATATATAATAAAATATATAATATATAATA-AAAT-TTAT-AAATAA
1 TAATATATA-AATAAAATATATAATA-A-AATATAAATAATATGAAA-AA
* * * *
10574279 -AATATAT-AATAGAATATA-AATAATATGAAAAATAATATATAAAAA
1 TAATATATAAATAAAATATATAATAAAAT-ATAAATAATAT-GAAAAA
10574324 TAAATATATA
1 T-AATATATA
10574334 CTATTTTTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
41 2 0.05
42 2 0.05
43 8 0.18
44 13 0.30
45 2 0.05
46 10 0.23
47 7 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (46 bp):
TAATATATAAATAAAATATATAATAAAATATAAATAATATGAAAAA
Found at i:10574298 original size:32 final size:33
Alignment explanation
Indices: 10574161--10574298 Score: 113
Period size: 33 Copynumber: 4.1 Consensus size: 33
10574151 TTACAAATTT
* * *
10574161 TAAAATTATACATAAT-TAATAAATAATAAATAA
1 TAAAATT-TATATAATAAAATATATAATAAATAA
* *
10574194 TAAAATATTATATAATAAAATA-AAAATAATGTAA
1 TAAAAT-TTATATAATAAAATATATAATAA-ATAA
* * * *
10574228 GGGATAATATATATAATAAAATATATAATATATAA
1 --TAAAATTTATATAATAAAATATATAATAAATAA
10574263 TAAAATTTATA-AATAAAATATATAATAGAAT-A
1 TAAAATTTATATAATAAAATATATAATA-AATAA
10574295 TAAA
1 TAAA
10574299 TAATATGAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
32 21 0.25
33 29 0.35
34 8 0.10
35 17 0.20
36 9 0.11
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (33 bp):
TAAAATTTATATAATAAAATATATAATAAATAA
Found at i:10574318 original size:14 final size:14
Alignment explanation
Indices: 10574233--10574333 Score: 57
Period size: 16 Copynumber: 6.9 Consensus size: 14
10574223 TGTAAGGGAT
*
10574233 AATATATATAATAAA
1 AATAAATAT-ATAAA
10574248 ATATATAATATAT-AA
1 A-ATA-AATATATAAA
* *
10574263 TA-AAATTTATAAA
1 AATAAATATATAAA
10574276 TAA-AATATATAATAGAA
1 -AATAA-ATAT-ATA-AA
*
10574293 TATAAATAATATGAAA
1 AATAAAT-ATAT-AAA
10574309 AAT-AATATATAAA
1 AATAAATATATAAA
10574322 AATAAATATATA
1 AATAAATATATA
10574334 CTATTTTTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
12 6 0.09
13 9 0.13
14 16 0.24
15 9 0.13
16 17 0.25
17 11 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
AATAAATATATAAA
Found at i:10574415 original size:32 final size:32
Alignment explanation
Indices: 10574368--10574438 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
10574358 TCTATAAAAA
10574368 TAAATAATATATAAAAAAAATTTAAAAATGAA-T
1 TAAAT-ATATATAAAAAAAA-TTAAAAATGAATT
** *
10574401 TAAATATATATAAAAAGGATTAAAATTGAATT
1 TAAATATATATAAAAAAAATTAAAAATGAATT
10574433 TAAATA
1 TAAATA
10574439 AAAAAATCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 10 0.29
32 19 0.56
33 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (32 bp):
TAAATATATATAAAAAAAATTAAAAATGAATT
Found at i:10575673 original size:6 final size:6
Alignment explanation
Indices: 10575662--10575693 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10575652 CTTTTATTAT
10575662 TTTTTG TTTTTG TTTTTG TTTTT- TTTTTG TTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTT
10575694 ATTTTCTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
TTTTTG
Found at i:10575679 original size:12 final size:11
Alignment explanation
Indices: 10575661--10575698 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 11
10575651 ACTTTTATTA
10575661 TTTTTTGTTTT
1 TTTTTTGTTTT
10575672 TGTTTTTGTTTT
1 T-TTTTTGTTTT
10575684 TTTTTTGTTTAT
1 TTTTTTGTTT-T
10575696 TTT
1 TTT
10575699 CTGGGACGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.87
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:10575698 original size:11 final size:11
Alignment explanation
Indices: 10575658--10575698 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
10575648 AGGACTTTTA
10575658 TTATTTTTTGT
1 TTATTTTTTGT
*
10575669 TTTTGTTTTTGT
1 TTAT-TTTTTGT
*
10575681 TTTTTTTTTGT
1 TTATTTTTTGT
10575692 TTATTTT
1 TTATTTT
10575699 CTGGGACGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (11 bp):
TTATTTTTTGT
Found at i:10578895 original size:15 final size:15
Alignment explanation
Indices: 10578858--10578908 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
10578848 ATAGGCCATA
*
10578858 AAAATAAGAATA-G-
1 AAAATAATAATATGT
*
10578871 AAATTAATAATATGT
1 AAAATAATAATATGT
*
10578886 AAAATAATAATATAT
1 AAAATAATAATATGT
*
10578901 AAATTAAT
1 AAAATAAT
10578909 TTTATAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 10 0.32
14 1 0.03
15 20 0.65
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAATAATAATATGT
Found at i:10591142 original size:125 final size:126
Alignment explanation
Indices: 10591001--10591412 Score: 472
Period size: 128 Copynumber: 3.2 Consensus size: 126
10590991 TCCAAACGGT
* * * * * * * * * *
10591001 AAATCGAAACCCAGCACGATTAGGCATGATTTATCAAATTTCCGAATACGAGACATCGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
*
10591066 TTAATTTGAGAAAACATGGATGAAATTTC-AAAAGGATATTCTGTATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCTGTATTTTAGTCGAATGAA
* * *
10591126 AAATTGAAGCCCAGCACGATTGGGCACGACTTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
* *
10591191 TT-ATTCTAAGAAAACGTGGATGAAATTTCAAAAAAAGGATATTCTATATTTTAGTCGAATGAA
66 TTAATT-TAAGAAAACATGGATGAAATTTC--AAAAAGGATATTCTGTATTTTAGTCGAATGAA
* * **
10591254 AAAACGAAACCCAGAACGATTGGGCACGATCCCTCAAACTTCCAAACACGAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
* * * * ** * *
10591319 TAAATTTTTA-AAAGCATGGACGAAATTTCGGAAA-GATATTCCGTATTTTAGTTGAATGGAAAA
66 TTAA-TTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCTGTATTTTAGTCGAAT-G---A
10591382 A
126 A
10591383 AAATCGAAACCCAGCACGATTGGGCACGAT
1 AAATCGAAACCCAGCACGATTGGGCACGAT
10591413 CCCTCGGACC
Statistics
Matches: 242, Mismatches: 35, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
124 3 0.01
125 95 0.39
126 4 0.02
128 105 0.43
129 33 0.14
130 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (126 bp):
AAATCGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTGCCTCGTT
TTAATTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCTGTATTTTAGTCGAATGAA
Found at i:10593874 original size:178 final size:177
Alignment explanation
Indices: 10593535--10594631 Score: 1394
Period size: 178 Copynumber: 6.2 Consensus size: 177
10593525 GACTTCAATT
* * ** * * * *** *
10593535 TGCTTCACTGGAACTTTTGGGAGATAAGGTTGATGACTAAGATCTGCTCCATCTTCAATACATGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTG-TGGCTAAAATCTGCTCCATAGCCGATACATGG
* * * * * * *
10593600 AGATAAGATTTG-TAATTTTGATTTGCTCCATAGCCGATACATGGAGATAAGGTCTGTAA-TTTC
65 AGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTT
* * *
10593663 CAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATATTGAGCC
130 CAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACC
* * * * * *
10593711 TGCTCCACTGCAATTTTAAGGAGATAAGGCTGATAGCTAAAATCTGCTCCATAGCCGACACATGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTG-TGGCTAAAATCTGCTCCATAGCCGATACATGG
* ** * *
10593776 AGATAAGATTCGCCATTTTCAATCTGCTTCATAACCGATACATGGAGATAAGATCTGTAAGTTTT
65 AGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTT
* ** ***
10593841 CAGTCTGCTTTCTGCAACTTCAAAAAGATAAGACTTGTATCTTCAGTA
130 CAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACC
** *
10593889 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTAAAAATCTACTCCATAGCCGATACATG
1 TGCTCCACTGCAACTTCAGGGAGATAAG-GCTGTGGCT-AAAATCTGCTCCATAGCCGATACATG
*
10593954 GAGATAAGACTCGCCATTTTTGATCTGCTTCATAGCCGATACATGGAGATAAGATCTGTAAGTTT
64 GAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTT
* * * *
10594019 TTAGTCTGCTTCCTGCAACTTTAGGAAGATAAGACATGTATCTTTAACC
129 TCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACC
* *
10594068 TGCTCCACTGCAACTTCAGGGAGATAATGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTG-TGGCTAAAATCTGCTCCATAGCCGATACATGG
* *
10594133 AGATAAGATTCGCCATTTTTGACCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTT
65 AGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTT
* * * * *
10594198 CAGTTTGCTTCTTGCAACTTTAAGAAGATAAGACTTGTATCTTCAATC
130 CAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACC
* * *
10594246 TGCTCCACTACAACTTTAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCCGATACATG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGC-TGTGGCT-AAAATCTGCTCCATAGCCGATACATG
* * *
10594311 GAGATAAGACTCTCCATTTTTGATCTACTCCATAGCTGATACATGGAGATAAGATCTGTAAGTTT
64 GAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTT
* * * * *
10594376 TCAATCTGCTTCCTGCAACTTCAGGAAGATAAGACCTCTATCTTTAATC
129 TCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACC
* * * * *
10594425 TGCTCTC-TTGCTACCTT-AGAGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGACACAT
1 TGCTC-CACTGC-AACTTCAGGGAGATAAGGCT-GTGGCTAAAATCTGCTCCATAGCCGATACAT
* *
10594488 GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TT
63 GGAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTT
10594552 TTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAACC
128 TTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTG-TATCTTCAACC
*
10594603 CGCTCCACTGCAACTTCAGGGAGATAAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGG
10594632 TTTGTAATCT
Statistics
Matches: 798, Mismatches: 110, Indels: 24
0.86 0.12 0.03
Matches are distributed among these distances:
176 61 0.08
177 82 0.10
178 342 0.43
179 308 0.39
180 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (177 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGCTGTGGCTAAAATCTGCTCCATAGCCGATACATGGA
GATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTC
AGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAACC
Found at i:10594319 original size:357 final size:356
Alignment explanation
Indices: 10593592--10594630 Score: 1521
Period size: 357 Copynumber: 2.9 Consensus size: 356
10593582 TCCATCTTCA
* * * * * *
10593592 ATACATGGAGATAAGATTTG-TAATTTTGATTTGCTCCATAGCCGATACATGGAGATAAGGTCTG
1 ATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTG
* * * * *
10593656 TAA-TTTCCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATATTGAGCCTGCTCCACT
66 TAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTCCACT
* * * *
10593720 GCAATTTTAAGGAGATAAGGCTGATAGCTAAAATCTGCTCCATAGCCGACACATGAAGATAAGAT
131 GCAA-CTTAGGGAGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGACACATGAAGATAAGAT
* * *
10593785 TCGCCATTTTCAATCTGCTTCATAACCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTGCT
195 TCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTGCT
* * *
10593850 T-TCTGCAACTTCAAAAAGATAAGACTTGTATCTTCAGTATGCTCCACTGCAACTTCAGGGAGAT
260 TCT-TGCAACTTCAAGAAGATAAGACTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
*
10593914 AAGATTTGTGGCTAAAAATCTACTCCATAGCCG
324 AAGACTTGTGGCTAAAAATCTACTCCATAGCCG
*
10593947 ATACATGGAGATAAGACTCGCCATTTTTGATCTGCTTCATAGCCGATACATGGAGATAAGATCTG
1 ATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTG
* *
10594012 TAAGTTTTTAGTCTGCTTCCTGCAACTTTAGGAAGATAAGACATGTATCTTTAACCTGCTCCACT
66 TAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTCCACT
* *
10594077 GCAACTTCAGGGAGATAATGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGAAGATAAGAT
131 GCAACTT-AGGGAGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGACACATGAAGATAAGAT
* * *
10594142 TCGCCATTTTTGACCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTCAGTTTGCT
195 TCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTGCT
* * *
10594207 TCTTGCAACTTTAAGAAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTTAGGGAGATA
260 TCTTGCAACTTCAAGAAGATAAGACTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
*
10594272 AGACTTGTGGCTAAAAATCTGCTCCATAGCCG
325 AGACTTGTGGCTAAAAATCTACTCCATAGCCG
* * *
10594304 ATACATGGAGATAAGACTCTCCATTTTTGATCTACTCCATAGCTGATACATGGAGATAAGATCTG
1 ATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTG
* * * * *
10594369 TAAGTTTTCAATCTGCTTCCTGCAACTTCAGGAAGATAAGACCTCTATCTTTAATCTGCTCTC-T
66 TAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTC-CAC
* * * *
10594433 TGCTACCTTAGAGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGACACATGGAGATAAGA
130 TGC-AACTTAGGGAGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGACACATGAAGATAAGA
* *
10594498 CTCGCCATTTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGC
194 TTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTGC
* * * *
10594562 TTCCTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAACCCGCTCCACTGCAACTTCAGGGAGA
259 TTCTTGCAACTTCAAGAAGATAAGACTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
10594627 TAAG
323 TAAG
10594631 GTTTGTAATC
Statistics
Matches: 615, Mismatches: 62, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
355 18 0.03
356 81 0.13
357 510 0.83
358 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (356 bp):
ATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTG
TAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTCCACT
GCAACTTAGGGAGATAAAGCTGATGGCTAAAATCTGCTCCATAGCCGACACATGAAGATAAGATT
CGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTGCTT
CTTGCAACTTCAAGAAGATAAGACTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
GACTTGTGGCTAAAAATCTACTCCATAGCCG
Found at i:10594553 original size:45 final size:44
Alignment explanation
Indices: 10594466--10594562 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
10594456 GGTGGCTAAA
*
10594466 ATCTGCTCCATAGCCGACACATGGAGATAAGACTCGCCATTTTC
1 ATCTGCTCCATAGCCGACACATGGAGATAAGACTCGCAATTTTC
* * *
10594510 GATCTGCTCCATAGTCGATACATGGAGATAAGA-TCTGTAATTTTC
1 -ATCTGCTCCATAGCCGACACATGGAGATAAGACTC-GCAATTTTC
10594555 AGTCTGCT
1 A-TCTGCT
10594563 TCCTGCAACT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 3 0.07
45 43 0.93
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGACACATGGAGATAAGACTCGCAATTTTC
Found at i:10594854 original size:64 final size:64
Alignment explanation
Indices: 10594744--10594868 Score: 198
Period size: 64 Copynumber: 2.0 Consensus size: 64
10594734 TTATGTATTT
* *
10594744 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAATCCAAGTGCTCCTAGCTAGATATG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAACTAGATATG
* *
10594808 ATGCTTATGTCAAATAATTAGGATGTTATGATCAAAATGAAT-CAAGTGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAAT-AATCCAAGTGCTCCTAACTAGAT
10594869 GTATTATGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
64 53 0.95
65 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAACTAGATATG
Found at i:10601311 original size:60 final size:60
Alignment explanation
Indices: 10601233--10601369 Score: 181
Period size: 60 Copynumber: 2.3 Consensus size: 60
10601223 CAGTGTTAAC
*
10601233 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATCG-GAGTATAT
1 TGGGCC-TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
10601294 TGGGCCTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
10601354 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
10601370 TAACACAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
60 55 0.80
61 12 0.17
62 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:10601325 original size:27 final size:28
Alignment explanation
Indices: 10601221--10601333 Score: 90
Period size: 28 Copynumber: 3.9 Consensus size: 28
10601211 CTATTCAGAA
* *
10601221 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
* *
10601248 ATCAATATTAATCTGGGCCATAGCCCCT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
10601276 -TACAGTATCGGAGTATAT-TGGGCC-TAGCCCAT
1 AT-CAGTAT-----TA-ATCTGGGCCATAGCCCAT
*
10601308 ATCAGTATTAATCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
10601334 TATTACAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
26 2 0.03
27 18 0.26
28 25 0.36
32 13 0.19
33 9 0.13
34 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:10601387 original size:21 final size:21
Alignment explanation
Indices: 10601363--10601402 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10601353 TTGGGCCTTG
10601363 CCCATATT-AACACAGTTGGGC
1 CCCAT-TTCAACACAGTTGGGC
*
10601384 CCCATTTCAATACAGTTGG
1 CCCATTTCAACACAGTTGG
10601403 CCTATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (21 bp):
CCCATTTCAACACAGTTGGGC
Found at i:10609216 original size:125 final size:126
Alignment explanation
Indices: 10609071--10609460 Score: 421
Period size: 128 Copynumber: 3.1 Consensus size: 126
10609061 ATTTCTAAAT
* * * * *
10609071 ACGAAACATCGCCTCATTTTAATTTGAGAAAACATGGATGAAATTTC-AAAAGGATATTCTGTAT
1 ACGAAATATTGCCTCGTTTTAATTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCGTAT
** * * **
10609135 TTTAGTCGAATGAAAAATTGAAGCCCAACATGATTGGGCACGA-CTTTCCAAACTCCCAAAC
66 TTTAGTCGAATGAAAAAACGAAACCCAACACGATTGGGCACGATCCCT-CAAACTCCCAAAC
*
10609196 ACGAAATATTGCCTCGTTTT-ATTCTAAGAAAACATGGATGAAATTTCAAAAAAAGGATATTCCA
1 ACGAAATATTGCCTCGTTTTAATT-TAAGAAAACATGGATGAAATTTC--AAAAAGGATATTCCG
* *
10609260 TATTTTAGTCGAATGAAAAAACGAAACCCAGCACGATTGGGCACGATCCCTCAAACTTCCAAAC
63 TATTTTAGTCGAATGAAAAAACGAAACCCAACACGATTGGGCACGATCCCTCAAACTCCCAAAC
* * * ** *
10609324 ACGAAATATTGCCTCGTTTAAATTTTTA-AAAGCATGGACAAAATTTCGAAAA-GATATTCCGTA
1 ACGAAATATTGCCTCGTTTTAA-TTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCGTA
* * * * ** *
10609387 TTTTAGTTGAACGGAAAAAAAATCGAAACCCAGCACTATTGGGCACGATCCCTCGGACCCCCAAA
65 TTTTAGTCGAA-TG--AAAAAA-CGAAACCCAACACGATTGGGCACGATCCCTCAAACTCCCAAA
10609452 C
126 C
10609453 ACGAAATA
1 ACGAAATA
10609461 ATTTCTTAAG
Statistics
Matches: 226, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
124 3 0.01
125 59 0.26
126 5 0.02
128 106 0.47
129 51 0.23
130 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (126 bp):
ACGAAATATTGCCTCGTTTTAATTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCCGTAT
TTTAGTCGAATGAAAAAACGAAACCCAACACGATTGGGCACGATCCCTCAAACTCCCAAAC
Found at i:10609920 original size:17 final size:17
Alignment explanation
Indices: 10609898--10609931 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10609888 TTATGTATAT
10609898 GCATATGAAGATGAAAA
1 GCATATGAAGATGAAAA
10609915 GCATATGAAGATGAAAA
1 GCATATGAAGATGAAAA
10609932 ATTAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (17 bp):
GCATATGAAGATGAAAA
Found at i:10620826 original size:132 final size:132
Alignment explanation
Indices: 10620633--10621387 Score: 1413
Period size: 132 Copynumber: 5.7 Consensus size: 132
10620623 CAAATACAGG
* * * * *
10620633 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
10620698 TCCACTTCCTATCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
10620763 AA
131 AA
10620765 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
10620830 TCCACTTCCTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
10620895 AA
131 AA
10620897 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
10620962 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
10621027 AA
131 AA
10621029 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
10621094 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
10621159 AA
131 AA
10621161 GACAAGATCTG-TTTCCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
1 GACAAGATCTGCTTT-CTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
*
10621225 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATATACTTCACGCCAATACAT
65 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
10621290 GAA
130 GAA
*
10621293 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
10621358 TCCACTTCCTACCAATATAGGAAGATAGGA
66 TCCACTTCCTACCAATATAGGAAGATAGGA
10621388 CCTATTTACG
Statistics
Matches: 611, Mismatches: 10, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
131 3 0.00
132 605 0.99
133 3 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:10626292 original size:28 final size:28
Alignment explanation
Indices: 10626251--10626305 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
10626241 CAACCTATCT
*
10626251 AAACAAGTCTATCTATAATAAGAAAATA
1 AAACAAGTCCATCTATAATAAGAAAATA
10626279 AAACAAGTCCATCTATAATAAGAAAAT
1 AAACAAGTCCATCTATAATAAGAAAAT
10626306 GAAGGAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (28 bp):
AAACAAGTCCATCTATAATAAGAAAATA
Found at i:10628014 original size:22 final size:22
Alignment explanation
Indices: 10627966--10628015 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
10627956 CATTAAATCC
*
10627966 TAAAATTTTTAAAATTTTAATT
1 TAAAATTTTTAAAATCTTAATT
10627988 T-AAATTTTTAAAA-CTTAATGT
1 TAAAATTTTTAAAATCTTAAT-T
10628009 TAAAATT
1 TAAAATT
10628016 GATAATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TAAAATTTTTAAAATCTTAATT
Found at i:10640680 original size:49 final size:49
Alignment explanation
Indices: 10640627--10640729 Score: 197
Period size: 49 Copynumber: 2.1 Consensus size: 49
10640617 TTTCACTTAA
*
10640627 TACTTAATTCACATGTGTTACTGAAACACATATATCATTATAACACTTT
1 TACTTAATTCACATGTATTACTGAAACACATATATCATTATAACACTTT
10640676 TACTTAATTCACATGTATTACTGAAACACATATATCATTATAACACTTT
1 TACTTAATTCACATGTATTACTGAAACACATATATCATTATAACACTTT
10640725 TACTT
1 TACTT
10640730 TCACATAACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (49 bp):
TACTTAATTCACATGTATTACTGAAACACATATATCATTATAACACTTT
Found at i:10645150 original size:16 final size:16
Alignment explanation
Indices: 10645131--10645162 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10645121 AAATATTTTA
10645131 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
10645147 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
10645163 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Done.