Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 198 of 325
Found at i:64177041 original size:220 final size:220
Alignment explanation
Indices: 64176658--64177248 Score: 988
Period size: 220 Copynumber: 2.7 Consensus size: 220
64176648 CAGGCTAAAG
* * * * *
64176658 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTTTGTA
* *
64176723 TTGTCAGAGAATAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
64176788 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
64176853 GCGTTGAAAAGGAGCAGATTGAAGA
196 GCGTTGAAAAGGAGCAGATCGAAGA
* *
64176878 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAGTTCTAAGATGATTTAACATCTTTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTTTGTA
64176943 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
64177008 ACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
64177073 GCGTTGATAAGGAGCAGATCGAAGA
196 GCGTTGAAAAGGAGCAGATCGAAGA
* **
64177098 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGACGCAGATCTAAGATGATTTGGCATCTCTT-T
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCT-TTGT
* *
64177162 ACTT-TCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGTAGATCAA
65 A-TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGA
*
64177226 AGACATAGCAGATCTGACCTTCA
129 AGACATAGCAGATCTAACCTTCA
64177249 TTGAAGTAGA
Statistics
Matches: 349, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
220 345 0.99
221 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTTTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTGAAAAGGAGCAGATCGAAGA
Found at i:64177318 original size:78 final size:78
Alignment explanation
Indices: 64177189--64177483 Score: 457
Period size: 78 Copynumber: 3.8 Consensus size: 78
64177179 CGAAGAAACA
** * * * *
64177189 GATTTGGCATCTCCATATTCGACGGAGAGTAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
64177254 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
64177267 GATTTGGCATCACTGTATTAGATGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
64177332 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
64177345 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
64177409 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
64177423 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAGACCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
64177484 GTGTTTACAT
Statistics
Matches: 198, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 1 0.01
78 196 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:64177576 original size:45 final size:45
Alignment explanation
Indices: 64177500--64177696 Score: 270
Period size: 45 Copynumber: 4.4 Consensus size: 45
64177490 ACATCGAAGT
* *
64177500 AGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
64177545 AAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGT
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
64177590 AGATTGAAGA-AGCAGATTTGACATCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
64177634 AGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGT
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
64177679 AGATCAAAGATAGCAGAT
1 AGATCGAAGATAACAGAT
64177697 ATCGCCTTCC
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 39 0.29
45 94 0.71
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
Found at i:64177664 original size:89 final size:90
Alignment explanation
Indices: 64177497--64177696 Score: 305
Period size: 89 Copynumber: 2.2 Consensus size: 90
64177487 TTTACATCGA
* * **
64177497 AGTAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAG
1 AGTAGATCAAAGATAG-CAGATTTGACATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAG
64177561 ATTTGGCATCTCTGTATTAGACGGGG
65 ATTTGGCATCTCTGTATTAGACGGGG
** *
64177587 AGTAGATTGAAGA-AGCAGATTTGACATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGA
1 AGTAGATCAAAGATAGCAGATTTGACATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGA
*
64177651 TTTGGCGTCTCTGTATTAGACGGGG
66 TTTGGCATCTCTGTATTAGACGGGG
64177676 AGTAGATCAAAGATAGCAGAT
1 AGTAGATCAAAGATAGCAGAT
64177697 ATCGCCTTCC
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 80 0.81
90 19 0.19
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (90 bp):
AGTAGATCAAAGATAGCAGATTTGACATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGA
TTTGGCATCTCTGTATTAGACGGGG
Found at i:64178069 original size:19 final size:19
Alignment explanation
Indices: 64178045--64178116 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
64178035 ATAATCTACA
64178045 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
64178064 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
64178083 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
64178100 ATGAT-TGCAATCTTAGA
1 ATGATATGCAATCTTAGA
64178117 AGATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.31
18 10 0.20
19 25 0.49
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:64178077 original size:36 final size:34
Alignment explanation
Indices: 64178037--64178112 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 34
64178027 ATGGAAATAT
64178037 AATCTACA-ATGATATGCAATCTTAGATATGATATGC
1 AATCTACATATGATA--CAATCTTAGATATGAT-TGC
*
64178073 AATCTTAGATATGATACAATCTTAGATATGATTGC
1 AATC-TACATATGATACAATCTTAGATATGATTGC
64178108 AATCT
1 AATCT
64178113 TAGAAGATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 1 0.03
35 7 0.19
36 20 0.54
37 3 0.08
38 6 0.16
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (34 bp):
AATCTACATATGATACAATCTTAGATATGATTGC
Found at i:64178139 original size:23 final size:21
Alignment explanation
Indices: 64178045--64178126 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 21
64178035 ATAATCTACA
64178045 ATGATATGCAATCTT---AGAT
1 ATGAT-TGCAATCTTAGAAGAT
64178064 ATGATATGCAATCTT---AGAT
1 ATGAT-TGCAATCTTAGAAGAT
*
64178083 ATGA-TACAATCTTAG---AT
1 ATGATTGCAATCTTAGAAGAT
64178100 ATGATTGCAATCTTAGAAGAT
1 ATGATTGCAATCTTAGAAGAT
64178121 ATGATT
1 ATGATT
64178127 TTGTAATCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 14 0.25
18 10 0.18
19 23 0.42
21 8 0.15
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
ATGATTGCAATCTTAGAAGAT
Found at i:64178430 original size:17 final size:17
Alignment explanation
Indices: 64178406--64178440 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
64178396 TGTTTCCCTG
*
64178406 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
64178424 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
64178441 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:64184293 original size:40 final size:40
Alignment explanation
Indices: 64184248--64184399 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
64184238 ATAACCACAA
* * *
64184248 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
64184288 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
64184328 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
64184368 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
64184400 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:64192430 original size:40 final size:40
Alignment explanation
Indices: 64192385--64192536 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
64192375 ATAACCACAA
* * *
64192385 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
64192425 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
64192465 ACACAAATGCCTTTGGGTCTTAGCCCGGATAAAATC-ACTAC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACT-C
* *
64192506 -CATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
64192537 CATTCAAATG
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 93 0.94
41 5 0.05
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:64195044 original size:40 final size:40
Alignment explanation
Indices: 64194983--64195228 Score: 233
Period size: 40 Copynumber: 6.2 Consensus size: 40
64194973 GGATGATAAT
* * *
64194983 CGGGCTAAGT-CCGGAGAGCATTTGAGCTAGTGGCTAAT-TC
1 CGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATATC
* *
64195023 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATATC
* *
64195063 CGGGCTAAGTCCCAAAGGCGTTTGTGCGA--GCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATATC
*
64195103 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTATAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT-C
* * *
64195142 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATATC
* *
64195182 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATATC
64195222 C-GGCTAA
1 CGGGCTAA
64195229 ACTCCGAAGG
Statistics
Matches: 174, Mismatches: 19, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 39 0.22
40 121 0.70
41 8 0.05
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATATC
Found at i:64195185 original size:79 final size:80
Alignment explanation
Indices: 64195022--64195205 Score: 280
Period size: 79 Copynumber: 2.3 Consensus size: 80
64195012 GTGGCTAATT
* *
64195022 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
* * *
64195087 TGCGAGCTATTATAT
66 TGCAAGCTACTATAA
* * *
64195102 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
*
64195166 TGCAAGTTACTATAA
66 TGCAAGCTACTATAA
64195181 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64195206 AGCTAGTGGC
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 59 0.62
80 36 0.38
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
TGCAAGCTACTATAA
Found at i:64195238 original size:79 final size:79
Alignment explanation
Indices: 64195022--64195228 Score: 274
Period size: 79 Copynumber: 2.6 Consensus size: 79
64195012 GTGGCTAATT
* * *
64195022 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
64195087 TGCGAGCTATTATAT
65 TGCAAGCTACTATAA
*
64195102 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
64195166 TGCAAGTTACTATAA
65 TGCAAGCTACTATAA
* * *
64195181 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
64195229 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 73 0.65
80 38 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAA
Found at i:64196905 original size:29 final size:28
Alignment explanation
Indices: 64196840--64196985 Score: 154
Period size: 29 Copynumber: 5.1 Consensus size: 28
64196830 ACATACATGA
64196840 ATATGGCCCA-CTAGGCCCAATCTCA-TTT
1 ATATGGCCCATC-AGGCCCAAT-TCACTTT
* *
64196868 AAATGGCCCATCCGGCCCAATTCACGTTT
1 ATATGGCCCATCAGGCCCAATTCAC-TTT
* *
64196897 ATATGGCCCATCAGGCCCAATTTACATTC
1 ATATGGCCCATCAGGCCCAATTCAC-TTT
*
64196926 ATATGGCCCATTAGGCCCAATCTCA-TTT
1 ATATGGCCCATCAGGCCCAAT-TCACTTT
* * *
64196954 ATATGGCCCATCTGGCCCAAATCACATT
1 ATATGGCCCATCAGGCCCAATTCACTTT
64196982 ATAT
1 ATAT
64196986 TCATGCTCAC
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
27 6 0.06
28 43 0.43
29 48 0.48
30 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATTCACTTT
Found at i:64196913 original size:57 final size:57
Alignment explanation
Indices: 64196840--64196981 Score: 166
Period size: 57 Copynumber: 2.5 Consensus size: 57
64196830 ACATACATGA
* *
64196840 ATATGGCCCA-CTAGGCCCAATCT-CATTTAAATGGCCCATCCGGCCCAAT-TCACGTTT
1 ATATGGCCCATC-AGGCCCAATCTACATTCAAATGGCCCATCAGGCCCAATCTCA--TTT
* * *
64196897 ATATGGCCCATCAGGCCCAATTTACATTCATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATCAGGCCCAATCTACATTCAAATGGCCCATCAGGCCCAATCTCATTT
*
64196954 ATATGGCCCATCTGGCCCAAATC-ACATT
1 ATATGGCCCATCAGGCCC-AATCTACATT
64196982 ATATTCATGC
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
57 45 0.61
58 26 0.35
59 3 0.04
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (57 bp):
ATATGGCCCATCAGGCCCAATCTACATTCAAATGGCCCATCAGGCCCAATCTCATTT
Found at i:64198464 original size:9 final size:9
Alignment explanation
Indices: 64198450--64198481 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
64198440 AAGTTTAGGA
64198450 TTTTGGGAT
1 TTTTGGGAT
64198459 TTTTGGG--
1 TTTTGGGAT
64198466 TTTTGGGAT
1 TTTTGGGAT
64198475 TTTTGGG
1 TTTTGGG
64198482 GCATTAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (9 bp):
TTTTGGGAT
Found at i:64198471 original size:16 final size:16
Alignment explanation
Indices: 64198450--64198481 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
64198440 AAGTTTAGGA
64198450 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
64198466 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
64198482 GCATTAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (16 bp):
TTTTGGGATTTTTGGG
Found at i:64219113 original size:24 final size:24
Alignment explanation
Indices: 64219081--64219156 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
64219071 AGAGTCTGAT
64219081 GGCGCTGTCCCTTAAGCGGGAGCA
1 GGCGCTGTCCCTTAAGCGGGAGCA
*
64219105 GGCGCTGTCCCTTAAGTGGGAGCA
1 GGCGCTGTCCCTTAAGCGGGAGCA
* * * * *
64219129 AGCTCTGTCCCTTGAGCAGGAGCG
1 GGCGCTGTCCCTTAAGCGGGAGCA
64219153 GGCG
1 GGCG
64219157 TATTACTTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.16, C:0.28, G:0.38, T:0.18
Consensus pattern (24 bp):
GGCGCTGTCCCTTAAGCGGGAGCA
Found at i:64221428 original size:43 final size:43
Alignment explanation
Indices: 64221293--64221444 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
64221283 ACATAGGATC
* * * **
64221293 CGATATGTGTTTTTGTGTAAGACCACATCTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
* **
64221336 CGACT-TATGATTTACGTGTAAGACCATGTCTGGGACA-TCGAAAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCAT
* * *
64221380 -TATATTTGATTTCGTGTAAGACCTTGTTTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* *
64221422 CGATATTTGATTACATGTAAGAC
1 CGATATTTGATTTCGTGTAAGAC
64221445 GACGTCTAGG
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
42 25 0.29
43 38 0.44
44 23 0.27
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:64227103 original size:37 final size:37
Alignment explanation
Indices: 64227053--64227131 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
64227043 TTATTACGAA
* * *
64227053 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
64227090 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
64227127 GTCTT
1 GTCTT
64227132 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:64227413 original size:47 final size:47
Alignment explanation
Indices: 64227312--64227896 Score: 924
Period size: 47 Copynumber: 12.3 Consensus size: 47
64227302 GGCCATCGGC
64227312 CACA-ATATACACTTTCACATTCATCACATCGGC-ATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
64227357 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* *
64227404 TACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
64227451 CACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
64227498 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
64227545 -ACATATATACATATACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
64227595 CACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
64227642 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* *
64227689 CACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACACATATAC----ACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* * *
64227740 CACATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* *
64227787 CACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* *
64227836 TACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
64227883 CACACATATACACT
1 CACACATATACACT
64227897 CTCTTGGCTG
Statistics
Matches: 508, Mismatches: 19, Indels: 24
0.92 0.03 0.04
Matches are distributed among these distances:
45 4 0.01
46 38 0.07
47 330 0.65
49 46 0.09
50 36 0.07
51 54 0.11
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
Found at i:64227636 original size:191 final size:188
Alignment explanation
Indices: 64227312--64227896 Score: 921
Period size: 191 Copynumber: 3.1 Consensus size: 188
64227302 GGCCATCGGC
64227312 CACA-ATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATCACACATATAC---ACTTT
1 CACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTAT-ACA-ATATACATAACTTT
*
64227373 CACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGC
64 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
64227438 TATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTAT
129 TATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
64227498 CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATACATATATACATATACTT
1 CACACATATACACTTTCACATTCATCACATCGGC-ATTAGGCCTTATACA-ATATACATA-ACTT
* * *
64227563 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGG
63 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
64227628 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
128 CTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* *
64227689 CACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-C-ACATACATACA
1 CACACATATAC----ACTTTCACATTCATCACATCGG-CATTAGGCCTTATACAATATACATA-A
64227752 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCAC
60 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATACACTTTCACATTCATCAC
* * *
64227817 ATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
123 ATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
64227882 T
188 T
64227883 CACACATATACACT
1 CACACATATACACT
64227897 CTCTTGGCTG
Statistics
Matches: 370, Mismatches: 16, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
186 4 0.01
187 38 0.10
188 12 0.03
190 3 0.01
191 135 0.36
192 49 0.13
194 94 0.25
195 34 0.09
196 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (188 bp):
CACACATATACACTTTCACATTCATCACATCGGCATTAGGCCTTATACAATATACATAACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTA
TTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
Found at i:64227741 original size:22 final size:22
Alignment explanation
Indices: 64227716--64227791 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
64227706 TTTCACATTC
64227716 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
64227738 ATCACATACATACACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
64227762 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
64227785 ATCACAT
1 ATCACAT
64227792 ATACATACAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:64232234 original size:42 final size:42
Alignment explanation
Indices: 64232119--64232290 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 42
64232109 ACATAGGATC
* * * * *
64232119 CGATATGTGTTTTCATGTAAGACCAC-GTCTAGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACC-CTGTCTGGGAC-ATGGCAT
* * *
64232162 CGACT-TATGATTTACGTGTAAGACCATGTCTGGAACATCGGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCCTGTCTGGGACAT-GGCAT
* *
64232206 CG-TATTTTATTTCGTGTAAGACCCTGTCTGGGACAATGACAT
1 CGATATTTGATTTCGTGTAAGACCCTGTCTGGGAC-ATGGCAT
* *
64232248 CGATATTTGATTACATGTAAGACCAC-GTCTGGGACATTGGCAT
1 CGATATTTGATTTCGTGTAAGACC-CTGTCTGGGACA-TGGCAT
64232291 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 28 0.27
43 50 0.48
44 26 0.25
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
CGATATTTGATTTCGTGTAAGACCCTGTCTGGGACATGGCAT
Found at i:64234726 original size:46 final size:45
Alignment explanation
Indices: 64234670--64234835 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 45
64234660 TGGTTGAGCA
64234670 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* ** * *
64234716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATG-GA-T-GCGAAG
*
64234762 TCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* *
64234807 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
64234836 GCTTATGGGC
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 1 0.01
45 30 0.30
46 60 0.60
47 1 0.01
48 3 0.03
49 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAG
Found at i:64234830 original size:91 final size:92
Alignment explanation
Indices: 64234667--64234836 Score: 297
Period size: 91 Copynumber: 1.9 Consensus size: 92
64234657 GGATGGTTGA
* * *
64234667 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64234732 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
64234759 GCATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64234823 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
64234837 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 67 0.91
92 7 0.09
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:64242266 original size:46 final size:45
Alignment explanation
Indices: 64242212--64242377 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
64242202 GTTGAGCATC
64242212 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-GTT
* * * ** * *
64242258 CGAACTCGTTCAGTTGAGTCTGAGTTCGTGAAATGTAACTAG-GCA-TT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATG-GA-T-GCGAAGTT
* * *
64242305 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-GTT
*
64242350 CTGAGCTCGTTGAGTTGAGTCCGAGTTC
1 C-GAACTCGTTGAGTTGAGTCCGAGTTC
64242378 GCTTATGGGC
Statistics
Matches: 95, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 55 0.58
47 29 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAGTT
Found at i:64242376 original size:93 final size:93
Alignment explanation
Indices: 64242207--64242378 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
64242197 GGATGGTTGA
* * *
64242207 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTTCGAACTCGTTCAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTCAGT
*
64242272 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
64242300 GCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTC-GAACTCGTTCAG
64242364 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
64242379 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTCAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:64245526 original size:14 final size:14
Alignment explanation
Indices: 64245509--64245538 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64245499 TTAAAGCACG
*
64245509 AAAATTTCACACAT
1 AAAAATTCACACAT
64245523 AAAAATTCACACAT
1 AAAAATTCACACAT
64245537 AA
1 AA
64245539 TAAAGTCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATTCACACAT
Found at i:64254145 original size:79 final size:80
Alignment explanation
Indices: 64254010--64254193 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
64254000 TTGAATGATG
* *
64254010 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCGGACTAAGATCCGAAGGCAATT
64254074 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
64254088 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAT-CGGACTAAGAT-CCGAAGGCA
*
64254150 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
64254168 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64254194 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 18 0.20
79 57 0.63
80 15 0.17
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:64254200 original size:40 final size:39
Alignment explanation
Indices: 64254011--64254193 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 39
64254001 TGAATGATGT
* * * *
64254011 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
64254050 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
64254090 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64254128 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64254169 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64254194 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 55 0.46
40 63 0.52
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64254215 original size:79 final size:79
Alignment explanation
Indices: 64254062--64254226 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
64254052 GGACTAAGAT
* * **
64254062 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
64254127 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
64254141 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
64254204 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
64254220 CCGAAGG
1 CCGAAGG
64254227 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:64259586 original size:12 final size:12
Alignment explanation
Indices: 64259569--64259593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64259559 ATGTAAATGA
64259569 TCTTGATGATTT
1 TCTTGATGATTT
64259581 TCTTGATGATTT
1 TCTTGATGATTT
64259593 T
1 T
64259594 TACACTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:64260385 original size:47 final size:46
Alignment explanation
Indices: 64260310--64260627 Score: 227
Period size: 47 Copynumber: 6.7 Consensus size: 46
64260300 AATTACTTAT
*
64260310 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCCACATGATGA
* * * *
64260356 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATTG-GCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCCACA-TGATGA
* * * *
64260404 GTGCCACTGTAAGGCATGTCTGGGACATGCATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCCAC-ATGATGA
* * ** *
64260451 -TAGCCAGTGTAAGACGTGTCTGGGACATGCATCG-GCTGA-GA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGCCCACATGATG-A
* ** * * *
64260495 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGTATAT-ACGG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GC--CCACATGATGA
* * * *
64260543 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAT-A
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCCAC-ATGATGA
*
64260591 ATAGCCAGTGTAAGATCATGTCTGGGACATGGCATCG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
64260628 GTAACTTATC
Statistics
Matches: 217, Mismatches: 36, Indels: 35
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.00
44 31 0.14
45 3 0.01
46 22 0.10
47 66 0.30
48 40 0.18
49 49 0.23
50 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCCACATGATGA
Found at i:64260471 original size:94 final size:92
Alignment explanation
Indices: 64260310--64260628 Score: 328
Period size: 94 Copynumber: 3.4 Consensus size: 92
64260300 AATTACTTAT
* *
64260310 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCCAC-ATTATGAGT-GCCAGTGTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-TATGA-TAGCCAGTGTAAGACCA
*
64260373 TGTCTGGGACATGGCATTGGCATAGAGATGA
64 TGTCTGGGACATGGCATCGGC-T-GAGATGA
* * *
64260404 GTGCCACTGTAAGGCATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGA-CGT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAT-ATGATAGCCAGTGTAAGACCAT
*
64260468 GTCTGGGACAT-GCATCGGCTGAGA-GTT
65 GTCTGGGACATGGCATCGGCTGAGATG-A
* * * ** *
64260495 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAT-GTATATACGGGAGCTAGTGTAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCG-ATAT--GATAGCCAGTGTAAGACC
64260559 ATGTCTGGGACATGGCATCGGCCTCGATGAT-A
63 ATGTCTGGGACATGGCATCGG-CT-GA-GATGA
*
64260591 ATAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
64260629 TAACTTATCC
Statistics
Matches: 189, Mismatches: 20, Indels: 27
0.80 0.08 0.11
Matches are distributed among these distances:
90 4 0.02
91 39 0.21
92 14 0.07
93 20 0.11
94 57 0.30
95 19 0.10
96 3 0.02
97 13 0.07
98 14 0.07
99 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATGATAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCTGAGATGA
Found at i:64291719 original size:70 final size:70
Alignment explanation
Indices: 64291605--64291742 Score: 249
Period size: 70 Copynumber: 2.0 Consensus size: 70
64291595 ATAAATCTGA
*
64291605 AATTAAGTCTATAATTTTGTTTTCTTTAAAGTTACAGACGGAGTTATGAAAACTCACTTCTTGTT
1 AATTAAGTCTATAATTTTGTTTTCTTTAAAGTTACAGACGGAGTTATGAAAACTCACTTCCTGTT
64291670 TGTCT
66 TGTCT
* *
64291675 AATTAAGTTTATAATTTTGTTTTCTTTAAAGTTACAGACTGAGTTATGAAAACTCACTTCCTGTT
1 AATTAAGTCTATAATTTTGTTTTCTTTAAAGTTACAGACGGAGTTATGAAAACTCACTTCCTGTT
64291740 TGT
66 TGT
64291743 TTATCACTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (70 bp):
AATTAAGTCTATAATTTTGTTTTCTTTAAAGTTACAGACGGAGTTATGAAAACTCACTTCCTGTT
TGTCT
Found at i:64297523 original size:48 final size:48
Alignment explanation
Indices: 64297454--64297719 Score: 326
Period size: 48 Copynumber: 5.6 Consensus size: 48
64297444 TAAAGTACCA
* * * * * *
64297454 ATGCCATGTCCCAGACTTGGTCTTGCATGAATC-CACATATCATCGACA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATCGACG
* *
64297502 ATGCCATGTCCCAGACATGGTCTTACA-ATGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-AGCACATATATCATCGACG
* *
64297550 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATTATC-ATCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGA-CG
* * *
64297598 --GCGATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGACG
*
64297644 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGACG
* *
64297692 ATGCCATGTCCCAGACATAGACTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
64297720 GGAATCTCAT
Statistics
Matches: 194, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
46 43 0.22
47 1 0.01
48 149 0.77
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGACG
Found at i:64297617 original size:94 final size:95
Alignment explanation
Indices: 64297454--64297719 Score: 342
Period size: 94 Copynumber: 2.8 Consensus size: 95
64297444 TAAAGTACCA
* * * * * *
64297454 ATGCCATGTCCCAGACTTGGTCTTGCATGAATC-CACATATCATCGA-CAATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATC-ATCGA-GCCATGTCCCAGA
*
64297517 CATGGTCTTACA-ATGGCACATATATCATCGTCG
63 CATGGTCTTACACA-GGCACATATATCATCGCCG
* * *
64297550 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATTATCATCG-GCGATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCATCGAGCCATGTCCCAGACAT
64297614 GGTCTTACACAGGCACATATATCATCGCCG
66 GGTCTTACACAGGCACATATATCATCGCCG
*
64297644 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCATCGA-GCCATGTCCCAGACA
* *
64297709 TAGACTTACAC
65 TGGTCTTACAC
64297720 GGAATCTCAT
Statistics
Matches: 149, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
94 87 0.58
95 4 0.03
96 58 0.39
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCATCGAGCCATGTCCCAGACAT
GGTCTTACACAGGCACATATATCATCGCCG
Found at i:64301817 original size:14 final size:14
Alignment explanation
Indices: 64301798--64301832 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
64301788 GTAAAGATTC
64301798 AATCTTTAATTCAA
1 AATCTTTAATTCAA
64301812 AATCTTTAATTCAA
1 AATCTTTAATTCAA
*
64301826 ACTCTTT
1 AATCTTT
64301833 CGTGTTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (14 bp):
AATCTTTAATTCAA
Found at i:64305346 original size:48 final size:48
Alignment explanation
Indices: 64305269--64305580 Score: 437
Period size: 48 Copynumber: 6.5 Consensus size: 48
64305259 GTACCAATGT
* * *
64305269 CATGTCCCAGATATGGTCTTATA-ATGGCACATATATCATCGTCGATGC
1 CATGTCCCAGACATGGTCTTACACA-GGCACATATATCATCGCCGATGC
* *
64305317 CATGTCCCAGACATGGTTTTACACAGGCACATATATCATCGTCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* * * * * *
64305365 CATGTCTCTGACATTGTCTTACATAGGCACATATATCATCACCGATTC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* *
64305413 CATGTCCCAGACATGGTCTTACACAGGCGCATATATCATCGTCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* *
64305461 CATGTCCTAGACATGGTCTTACACAGGCGCATATATCATCGCCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* * *
64305509 CATGTCCCAAACATGGTCTTACACAGGTACATATATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
*
64305557 CATGTCCCACACATGGTCTTACAC
1 CATGTCCCAGACATGGTCTTACAC
64305581 TAGCACACTT
Statistics
Matches: 236, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
48 235 1.00
49 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
Found at i:64307448 original size:12 final size:12
Alignment explanation
Indices: 64307428--64307460 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
64307418 GACGCCACAC
*
64307428 GGCCCTGTGGTA
1 GGCCATGTGGTA
64307440 GGCCATGTGGTA
1 GGCCATGTGGTA
64307452 GGCCATGTG
1 GGCCATGTG
64307461 CCATACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.21, G:0.42, T:0.24
Consensus pattern (12 bp):
GGCCATGTGGTA
Found at i:64321687 original size:68 final size:68
Alignment explanation
Indices: 64321610--64321761 Score: 168
Period size: 67 Copynumber: 2.2 Consensus size: 68
64321600 CATCATGTGT
* * * *
64321610 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
64321673 AGTAG
64 AGTAG
* * * * *
64321678 ACAAGAGAGCTACG-G-GATATATGTATCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAA
64321741 GTAG
65 GTAG
64321745 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
64321762 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 23 0.33
65 3 0.04
66 3 0.04
67 26 0.37
68 15 0.21
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCAAG
TAG
Found at i:64326829 original size:17 final size:17
Alignment explanation
Indices: 64326790--64326832 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
64326780 GTATGATTGT
**
64326790 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
64326806 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
64326823 ATTGACATTT
1 ATTGACATTT
64326833 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:64338825 original size:111 final size:115
Alignment explanation
Indices: 64338695--64338905 Score: 306
Period size: 111 Copynumber: 1.9 Consensus size: 115
64338685 AAATTTTTAC
*
64338695 TTTTGGTTTTGGGACACTGATGAG-CGACACCAACTTTATCAGATT-AA-TT-TTTTTTT-GTTC
1 TTTTGGTTTTGGGACACTGATG-GCCAACACCAACTTTATCAGATTAAATTTATTTTTTTGGTTC
* * * *
64338755 TGGGACACTAATGGCCGGCACCAACTTTATCAGATTTAAAAATATATTTTT
65 CGAGACACTAATGGCCGACACCAACTTTAACAGATTTAAAAATATATTTTT
*
64338806 TTTTGGTTTTGGGACACTGATGGCCAATACCAACTTTATCAGATTAAAATTTATTTTTTTGGTTC
1 TTTTGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATT-AAATTTATTTTTTTGGTTC
*
64338871 CGAGACACTGATGGCCGACACCAACTTTAACAGAT
65 CGAGACACTAATGGCCGACACCAACTTTAACAGAT
64338906 ATATATATAG
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
110 1 0.01
111 41 0.47
113 2 0.02
114 2 0.02
115 7 0.08
116 34 0.39
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (115 bp):
TTTTGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATTAAATTTATTTTTTTGGTTCC
GAGACACTAATGGCCGACACCAACTTTAACAGATTTAAAAATATATTTTT
Found at i:64338894 original size:56 final size:55
Alignment explanation
Indices: 64338684--64338905 Score: 247
Period size: 56 Copynumber: 4.0 Consensus size: 55
64338674 TTCGGGTTCC
* *
64338684 AAAATTTTTACTTTTGGTTTTGGGACACTGATGAG-CGACACCAACTTTATCAGATT
1 AAAATTTTT-TTTTTGGTTCTGGGACACTGATG-GCCGACACCAACTTTATCAGATT
* *
64338740 --AA-TTTTTTTTT-GTTCTGGGACACTAATGGCCGGCACCAACTTTATCAGATTT
1 AAAATTTTTTTTTTGGTTCTGGGACACTGATGGCCGACACCAACTTTATCAGA-TT
* * *
64338792 AAAAATATATTTTTTTTTGGTTTTGGGACACTGATGGCCAATACCAACTTTATCAGATT
1 --AAA-AT-TTTTTTTTTGGTTCTGGGACACTGATGGCCGACACCAACTTTATCAGATT
* * *
64338851 AAAATTTATTTTTTTGGTTCCGAGACACTGATGGCCGACACCAACTTTAACAGAT
1 AAAATTT-TTTTTTTGGTTCTGGGACACTGATGGCCGACACCAACTTTATCAGAT
64338906 ATATATATAG
Statistics
Matches: 140, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
50 1 0.01
51 33 0.24
52 6 0.04
53 4 0.03
54 2 0.01
55 2 0.01
56 44 0.31
57 4 0.03
59 11 0.08
60 33 0.24
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (55 bp):
AAAATTTTTTTTTTGGTTCTGGGACACTGATGGCCGACACCAACTTTATCAGATT
Found at i:64341897 original size:6 final size:6
Alignment explanation
Indices: 64341886--64341936 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
64341876 ATATATAAAA
* * *
64341886 AAATTG AAATTG AAAGTTG -TATTG -AATTG AAATTC AATTTG AAATTG
1 AAATTG AAATTG AAA-TTG AAATTG AAATTG AAATTG AAATTG AAATTG
64341933 AAAT
1 AAAT
64341937 GAATTTATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
5 7 0.19
6 27 0.73
7 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.37
Consensus pattern (6 bp):
AAATTG
Found at i:64341932 original size:23 final size:23
Alignment explanation
Indices: 64341906--64341952 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
64341896 TGAAAGTTGT
*
64341906 ATTGAATTGAAATTCA-ATTTGAA
1 ATTGAAATG-AATTCATATTTGAA
*
64341929 ATTGAAATGAATTTATATTTGAA
1 ATTGAAATGAATTCATATTTGAA
64341952 A
1 A
64341953 AAGAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (23 bp):
ATTGAAATGAATTCATATTTGAA
Found at i:64341941 original size:17 final size:18
Alignment explanation
Indices: 64341889--64341942 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
64341879 TATAAAAAAA
*
64341889 TTGAAATTGAAAGTTGTA-
1 TTGAAATTGAAA-TTGAAT
*
64341907 TTG-AATTGAAATTCAAT
1 TTGAAATTGAAATTGAAT
64341924 TTGAAATTGAAA-TGAAT
1 TTGAAATTGAAATTGAAT
64341941 TT
1 TT
64341943 ATATTTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 3 0.10
17 17 0.55
18 11 0.35
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.41
Consensus pattern (18 bp):
TTGAAATTGAAATTGAAT
Found at i:64342160 original size:28 final size:28
Alignment explanation
Indices: 64342129--64342205 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
64342119 ATTGAAATTC
* *
64342129 AAATTGTACTTGAAATGAAATTAAAATG
1 AAATTATACTTAAAATGAAATTAAAATG
* *
64342157 AAATTATATTTAAAATGAAATTAAAATA
1 AAATTATACTTAAAATGAAATTAAAATG
* *
64342185 AAAATATATTTAAAAATGAAA
1 AAATTATACTT-AAAATGAAA
64342206 AAAATATTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 34 0.79
29 9 0.21
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.32
Consensus pattern (28 bp):
AAATTATACTTAAAATGAAATTAAAATG
Found at i:64342188 original size:17 final size:17
Alignment explanation
Indices: 64342146--64342189 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
64342136 ACTTGAAATG
64342146 AAATTAAAATGAAATTA
1 AAATTAAAATGAAATTA
* *
64342163 TATTTAAAATGAAATTA
1 AAATTAAAATGAAATTA
*
64342180 AAATAAAAAT
1 AAATTAAAAT
64342190 ATATTTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AAATTAAAATGAAATTA
Found at i:64342394 original size:6 final size:6
Alignment explanation
Indices: 64342380--64342419 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
64342370 GAAAAAAAAG
*
64342380 TGAAA- TGAAAT TGAAAT TGAAAT TGAAA- TGAAAT TCAAAT
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
64342420 AAAATGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (6 bp):
TGAAAT
Found at i:64342394 original size:11 final size:11
Alignment explanation
Indices: 64342380--64342424 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
64342370 GAAAAAAAAG
64342380 TGAAATGAAAT
1 TGAAATGAAAT
64342391 TGAAATTGAAAT
1 TGAAA-TGAAAT
64342403 TGAAATGAAAT
1 TGAAATGAAAT
* *
64342414 TCAAATAAAAT
1 TGAAATGAAAT
64342425 GAGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (11 bp):
TGAAATGAAAT
Found at i:64342430 original size:23 final size:23
Alignment explanation
Indices: 64342381--64342430 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
64342371 AAAAAAAAGT
* * *
64342381 GAAATGAAATTGAAATTGAAATT
1 GAAATGAAATTCAAATTAAAATA
64342404 GAAATGAAATTCAAA-TAAAATGA
1 GAAATGAAATTCAAATTAAAAT-A
64342427 GAAA
1 GAAA
64342431 AAAATGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (23 bp):
GAAATGAAATTCAAATTAAAATA
Found at i:64342448 original size:38 final size:38
Alignment explanation
Indices: 64342400--64342523 Score: 109
Period size: 38 Copynumber: 3.4 Consensus size: 38
64342390 TTGAAATTGA
*
64342400 AATTGAAATGAAATTCAAATAAAATGAGAAAAAAATGG
1 AATTCAAATGAAATTCAAATAAAATGAGAAAAAAATGG
* * * * *
64342438 AATTCAAATGAAGTTTTAATTAAAA-AAGAAAAAAGT-G
1 AATTCAAATGAA-ATTCAAATAAAATGAGAAAAAAATGG
* *
64342475 AAAT-AAAT----TTCAAATAAAATGAGAAAAAAAAGG
1 AATTCAAATGAAATTCAAATAAAATGAGAAAAAAATGG
64342508 AAATTCAAATGAAATT
1 -AATTCAAATGAAATT
64342524 TAAAAAGAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
31 9 0.14
32 8 0.12
33 1 0.02
34 3 0.05
35 4 0.06
36 4 0.06
37 4 0.06
38 20 0.31
39 11 0.17
ACGTcount: A:0.60, C:0.03, G:0.13, T:0.23
Consensus pattern (38 bp):
AATTCAAATGAAATTCAAATAAAATGAGAAAAAAATGG
Found at i:64342517 original size:23 final size:21
Alignment explanation
Indices: 64342491--64342549 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 21
64342481 ATTTCAAATA
64342491 AAATGAGAAAAAAAAGGAAATTC
1 AAATGA-AAAAAAAA-GAAATTC
* *
64342514 AAATGAAATTTAAAAAGAAATTG
1 AAATGAAA--AAAAAAGAAATTC
64342537 AAATGAAAAAAAA
1 AAATGAAAAAAAA
64342550 TTTACATGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 4 0.13
22 2 0.06
23 20 0.65
24 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.14, T:0.17
Consensus pattern (21 bp):
AAATGAAAAAAAAAGAAATTC
Found at i:64342529 original size:96 final size:94
Alignment explanation
Indices: 64342326--64342522 Score: 231
Period size: 96 Copynumber: 2.1 Consensus size: 94
64342316 AATTGAATTG
64342326 AAAA-AGAAAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAAAGAAAAAAAAGTGAAATGAAA
1 AAAATAGAAAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAAAG-AAAAAAAGTGAAATGAAA
* *** *
64342390 TTGAAATTGAAATTGAAATGAAATTCAAAT
65 TTCAAATTGAAAAAAAAAGGAAATTCAAAT
*
64342420 AAAATGAGAAAAAAATGGAATTCAAATGAAGTTTTAATT-AAAAAAG-AAAAAAGTGAAAT-AAA
1 AAAAT-AGAAAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAAAGAAAAAAAGTGAAATGAAA
64342482 TTTCAAATAAAATGAGAAAAAAAAGGAAATTCAAAT
65 -TTCAAAT----TGA-AAAAAAAAGGAAATTCAAAT
*
64342518 GAAAT
1 AAAAT
64342523 TTAAAAAGAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
92 3 0.03
93 19 0.22
94 4 0.05
95 7 0.08
96 32 0.36
97 3 0.03
98 20 0.23
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.22
Consensus pattern (94 bp):
AAAATAGAAAAAAATGAAATTCAAATGAAGTTTTAATTAAAAAAAGAAAAAAAGTGAAATGAAAT
TCAAATTGAAAAAAAAAGGAAATTCAAAT
Found at i:64342614 original size:17 final size:17
Alignment explanation
Indices: 64342592--64342659 Score: 127
Period size: 17 Copynumber: 4.0 Consensus size: 17
64342582 GGAAAAAAAG
64342592 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
*
64342609 TGAAATGAAATTCAATT
1 TGAAATGAAATTCAAAT
64342626 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
64342643 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
64342660 AATATTAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 49 1.00
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
TGAAATGAAATTCAAAT
Found at i:64342619 original size:11 final size:11
Alignment explanation
Indices: 64342592--64342698 Score: 58
Period size: 11 Copynumber: 9.5 Consensus size: 11
64342582 GGAAAAAAAG
64342592 TGAAA-TGAAA
1 TGAAATTGAAA
*
64342602 TTCAAATTGAAA
1 -TGAAATTGAAA
* *
64342614 TGAAATTCAATT
1 TGAAATTGAA-A
64342626 TGAAA-TGAAA
1 TGAAATTGAAA
*
64342636 TTCAAATTGAAA
1 -TGAAATTGAAA
*
64342648 TGAAATTCAAA
1 TGAAATTGAAA
*
64342659 T-AATATTAAAAAA
1 TGAA-ATT--GAAA
*
64342672 TGAAATTTAAA
1 TGAAATTGAAA
* *
64342683 AGAAATTGAAC
1 TGAAATTGAAA
64342694 TGAAA
1 TGAAA
64342699 AAAATTGACA
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
10 2 0.03
11 47 0.64
12 15 0.21
13 7 0.10
14 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (11 bp):
TGAAATTGAAA
Found at i:64342802 original size:154 final size:156
Alignment explanation
Indices: 64342514--64342814 Score: 366
Period size: 154 Copynumber: 1.9 Consensus size: 156
64342504 AAGGAAATTC
* *
64342514 AAATGAAATTTAAAAAGAAATTGAAATGAAAAAAAATTTACATGACAAAATGATTTTTTAATTAA
1 AAATGAAATTTAAAAAGAAATTGAAATGAAAAAAAATTGACATGACAAAATGAGTTTTTAATTAA
** * * * **
64342579 AAAGGAAAAAAAGTGAAATGAAATTCAAATTGAAATGAAATTCAATTTGAAATGAAATTCAAATT
66 AAAAAAAAAAAAGTGAAATGAAATT-AAATTGAAAAGAAATTCAAATTCAAATGAAATTCAAAAA
64342644 GAAA-TGAAATT-CAAATAATATTAAA
130 GAAATTGAAATTACAAATAATATTAAA
* *
64342669 AAATGAAATTT-AAAAGAAATTGAACTG-AAAAAAATTGACATGA-TAAATGAAGTTTTTAATTA
1 AAATGAAATTTAAAAAGAAATTGAAATGAAAAAAAATTGACATGACAAAATG-AGTTTTTAATT-
* *
64342731 AAAAATAAAAAAAAAAGTGAAATGAAATT-AA-TGAGAAAGAAAATT-AAATTCAAATGAATTTT
64 -AAAA-AAAAAAAAAAGTGAAATGAAATTAAATTGA-AAAG-AAATTCAAATTCAAATGAAATTC
64342793 AAAAAGAAATTGAAATTACAAA
125 AAAAAGAAATTGAAATTACAAA
64342815 AAAAAATTGA
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
152 5 0.04
153 28 0.22
154 40 0.32
155 27 0.22
156 25 0.20
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.27
Consensus pattern (156 bp):
AAATGAAATTTAAAAAGAAATTGAAATGAAAAAAAATTGACATGACAAAATGAGTTTTTAATTAA
AAAAAAAAAAAAGTGAAATGAAATTAAATTGAAAAGAAATTCAAATTCAAATGAAATTCAAAAAG
AAATTGAAATTACAAATAATATTAAA
Found at i:64342895 original size:32 final size:32
Alignment explanation
Indices: 64342859--64342919 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
64342849 AAAAAAAGAG
64342859 TGAAATAAAATTCAAATCACATGAGAAAAGGT
1 TGAAATAAAATTCAAATCACATGAGAAAAGGT
* *
64342891 TGAAATGAAATTCAAATGACATGAGAAAA
1 TGAAATAAAATTCAAATCACATGAGAAAA
64342920 ATTAAATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.21
Consensus pattern (32 bp):
TGAAATAAAATTCAAATCACATGAGAAAAGGT
Found at i:64342940 original size:20 final size:20
Alignment explanation
Indices: 64342898--64342940 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
64342888 GGTTGAAATG
* *
64342898 AAATTCAAATGACATGAGAA
1 AAATTCAAATGAAATGAAAA
64342918 AAATT-AAATTGAAATGAAAA
1 AAATTCAAA-TGAAATGAAAA
64342938 AAA
1 AAA
64342941 AAAGATTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.21
Consensus pattern (20 bp):
AAATTCAAATGAAATGAAAA
Found at i:64344395 original size:88 final size:89
Alignment explanation
Indices: 64344267--64344489 Score: 306
Period size: 89 Copynumber: 2.5 Consensus size: 89
64344257 TTGAAAAATT
* * * * *
64344267 AATAATACGCAAC-AAATTAAATTTATAAATACAAGAAAATACAAACATTCTAGAATATTAA-AC
1 AATAATAC-AAACTAAATTAAATTTATAGATACAAAAAAATACAAACATTCTAAAAAATTAATAC
64344330 ACGAAAATATAAAATTCGAACAACA
65 ACGAAAATATAAAATTCGAACAACA
*
64344355 AATAATACAAACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATACA
1 AATAATACAAACTAAATTAAATTTATAGATACAAAAAAATACAAACATTCTAAAAAATTAATACA
* * *
64344420 TGAAAATATAAAATTTGAATAACA
66 CGAAAATATAAAATTCGAACAACA
* **
64344444 AATAATACAGACTAAATTTGATTTATAGATACAAAAATAATACAAA
1 AATAATACAAACTAAATTAAATTTATAGATACAAAAA-AATACAAA
64344490 AATTTTGAAT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
87 3 0.03
88 51 0.43
89 57 0.48
90 8 0.07
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (89 bp):
AATAATACAAACTAAATTAAATTTATAGATACAAAAAAATACAAACATTCTAAAAAATTAATACA
CGAAAATATAAAATTCGAACAACA
Found at i:64345066 original size:54 final size:54
Alignment explanation
Indices: 64345001--64345160 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
64344991 AAGAATATTT
* * *
64345001 TTAAATCTGATAAATTTGGTGCTGGCCATCAATGTCCCAAAACCAAAAAAAAAA
1 TTAAATCTGATAAAATTGGTGCTGGCCATCAGTGTCCTAAAACCAAAAAAAAAA
* *
64345055 TTAAATCTGATAAAATTGGTG-TCGACCATCAGTGTCCTAGAACC-AAAAAAAAA
1 TTAAATCTGATAAAATTGGTGCT-GGCCATCAGTGTCCTAAAACCAAAAAAAAAA
* *
64345108 TT-AATCTGATAAAGTTGGTGCTGGCCATTAGTGTCCTAAAACCAAAAAAAAAA
1 TTAAATCTGATAAAATTGGTGCTGGCCATCAGTGTCCTAAAACCAAAAAAAAAA
64345161 ATTAGGACCC
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
52 35 0.37
53 22 0.23
54 37 0.39
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (54 bp):
TTAAATCTGATAAAATTGGTGCTGGCCATCAGTGTCCTAAAACCAAAAAAAAAA
Found at i:64345126 original size:52 final size:53
Alignment explanation
Indices: 64345001--64345159 Score: 223
Period size: 52 Copynumber: 3.0 Consensus size: 53
64344991 AAGAATATTT
* * *
64345001 TTAAATCTGATAAATTTGGTGCTGGCCATCAATGTCCCAAAACCAAAAAAAAAA
1 TTAAATCTGATAAAATTGGTGCTGGCCATCAGTGTCCTAAAACC-AAAAAAAAA
* *
64345055 TTAAATCTGATAAAATTGGTG-TCGACCATCAGTGTCCTAGAACCAAAAAAAAA
1 TTAAATCTGATAAAATTGGTGCT-GGCCATCAGTGTCCTAAAACCAAAAAAAAA
* *
64345108 TT-AATCTGATAAAGTTGGTGCTGGCCATTAGTGTCCTAAAACCAAAAAAAAA
1 TTAAATCTGATAAAATTGGTGCTGGCCATCAGTGTCCTAAAACCAAAAAAAAA
64345160 AATTAGGACC
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
52 44 0.47
53 13 0.14
54 37 0.39
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (53 bp):
TTAAATCTGATAAAATTGGTGCTGGCCATCAGTGTCCTAAAACCAAAAAAAAA
Found at i:64349929 original size:46 final size:46
Alignment explanation
Indices: 64349879--64350003 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 46
64349869 TGAGCATCCG
* *
64349879 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* * *
64349925 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* * * *
64349971 AGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64350004 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
Found at i:64355531 original size:19 final size:20
Alignment explanation
Indices: 64355491--64355532 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
64355481 TTGATTCATG
64355491 TTTTCAATCTCATATCTCAA
1 TTTTCAATCTCATATCTCAA
64355511 TTTTCAATTCTCA-AT-TCAA
1 TTTTCAA-TCTCATATCTCAA
64355530 TTT
1 TTT
64355533 CTCGTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 5 0.24
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTCAATCTCATATCTCAA
Found at i:64356189 original size:15 final size:15
Alignment explanation
Indices: 64356163--64356219 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
64356153 CATATATATT
64356163 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
64356177 ATATAATTTCAATCA
1 ATATAATTTCAATCA
* * *
64356192 AAATAATTTTAATTA
1 ATATAATTTCAATCA
*
64356207 ATATAAATTCAAT
1 ATATAATTTCAAT
64356220 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:64356924 original size:13 final size:12
Alignment explanation
Indices: 64356898--64356936 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
64356888 AAACCTTAAA
64356898 TTTTTCCTTTTCT
1 TTTTTCC-TTTCT
64356911 TTCTTTCCTTTCT
1 TT-TTTCCTTTCT
64356924 TTTTCTCCTTTCT
1 TTTT-TCCTTTCT
64356937 CCCCTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 17 0.71
14 5 0.21
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTCCTTTCT
Found at i:64362620 original size:32 final size:32
Alignment explanation
Indices: 64362579--64362642 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
64362569 TGACAGAGCC
*
64362579 GAGGTCATGTTGCTCAAGGACATTGTCGTGTA
1 GAGGTCATGTTGCTCAAGGACATTATCGTGTA
64362611 GAGGTCATGTTGCTCAAGGACATTATCGTGTA
1 GAGGTCATGTTGCTCAAGGACATTATCGTGTA
64362643 ACTATCTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (32 bp):
GAGGTCATGTTGCTCAAGGACATTATCGTGTA
Found at i:64363751 original size:20 final size:20
Alignment explanation
Indices: 64363723--64363763 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
64363713 TCGAAATGCT
* *
64363723 AACAGAGGCACTAAAGTGCA
1 AACAAAGGCACCAAAGTGCA
64363743 AACAAAGGCACCAAAGTGCA
1 AACAAAGGCACCAAAGTGCA
64363763 A
1 A
64363764 TCTCGTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.22, G:0.22, T:0.07
Consensus pattern (20 bp):
AACAAAGGCACCAAAGTGCA
Found at i:64364026 original size:25 final size:25
Alignment explanation
Indices: 64363996--64364045 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
64363986 TACTTAATTG
64363996 TAAGAAATTTCATAATTAAAATCCA
1 TAAGAAATTTCATAATTAAAATCCA
64364021 TAAGAAATTTCATAATTAAAATCCA
1 TAAGAAATTTCATAATTAAAATCCA
64364046 ATATACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (25 bp):
TAAGAAATTTCATAATTAAAATCCA
Found at i:64367961 original size:31 final size:31
Alignment explanation
Indices: 64367925--64367988 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
64367915 TAAATTGGTG
64367925 GTCCTTAAATGGTAATACAACCATTGGTTAA
1 GTCCTTAAATGGTAATACAACCATTGGTTAA
64367956 GTCCTTAAATGGTAATACAACCATTGGTTAA
1 GTCCTTAAATGGTAATACAACCATTGGTTAA
64367987 GT
1 GT
64367989 TATTGGACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (31 bp):
GTCCTTAAATGGTAATACAACCATTGGTTAA
Found at i:64369002 original size:42 final size:42
Alignment explanation
Indices: 64368940--64369093 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
64368930 TAAGATTACG
*
64368940 TGTAAGACCATATCTAGGATATGGCATCAATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCA
* * *
64368982 TGTAAGACTATATCTGGGATATGGCATCAATATGAGGCTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCA
* * * * *
64369024 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGACT-TCA
64369067 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
64369094 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 63 0.66
43 33 0.34
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCA
Found at i:64369080 original size:85 final size:84
Alignment explanation
Indices: 64368938--64369093 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 84
64368928 ACTAAGATTA
* * * *
64368938 CGTGTAAGACCATATCTAGGATATGGCATCAATATGAGACTTCATGTAAGACTATATCTGGGATA
1 CGTGTAAGACCATAGCTAGGATATGGCATCAATACGAGACTCCATGTAAGACCATATCTGGGATA
64369003 TGGCATCAATATGAGGCTT
66 TGGCATCAATATGAGGCTT
* * *
64369022 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TCCCATGTAAGACCATATCTGGGA
1 CGTGTAAGACCATAGCTAGGATA-TGGCATCAATACGAGACT-CCATGTAAGACCATATCTGGGA
64369086 TATGGCAT
64 TATGGCAT
64369094 TGGTATGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 21 0.33
85 42 0.67
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (84 bp):
CGTGTAAGACCATAGCTAGGATATGGCATCAATACGAGACTCCATGTAAGACCATATCTGGGATA
TGGCATCAATATGAGGCTT
Found at i:64371599 original size:79 final size:81
Alignment explanation
Indices: 64371463--64371647 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
64371453 TTGAATGATG
* *
64371463 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
64371527 TGTGCGACATACTAAT-
66 TGTGCGACATA-TAATA
* * * **
64371543 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
** *
64371605 TTGTGCGAGTTATTATA
65 TTGTGCGACATATAATA
* *
64371622 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64371648 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 4 0.04
79 53 0.60
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGACATATAATA
Found at i:64371654 original size:40 final size:40
Alignment explanation
Indices: 64371463--64371647 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
64371453 TTGAATGATG
* * * *
64371463 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** *
64371503 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGACATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
64371543 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
64371582 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64371623 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64371648 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64376150 original size:37 final size:37
Alignment explanation
Indices: 64376100--64376175 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
64376090 CGTGAAATAC
*
64376100 TCATTCTTTTGGGTAGACCTTTTTAGCCATGTTAAGG
1 TCATTCTTTTGGGTAGACCTTTTTAGCCACGTTAAGG
64376137 TCATTCTTTTGGGTAGACCTTTTTAGCCACGTTAAGG
1 TCATTCTTTTGGGTAGACCTTTTTAGCCACGTTAAGG
64376174 TC
1 TC
64376176 TACTATTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (37 bp):
TCATTCTTTTGGGTAGACCTTTTTAGCCACGTTAAGG
Found at i:64382158 original size:23 final size:22
Alignment explanation
Indices: 64382128--64382172 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
64382118 TTTGTCCATG
**
64382128 CACCGAAACCACTGTGAACCAC
1 CACCGAAACCACCATGAACCAC
64382150 CACCTGAAACCACCATGAACCAC
1 CACC-GAAACCACCATGAACCAC
64382173 TGCTGTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.38, C:0.42, G:0.11, T:0.09
Consensus pattern (22 bp):
CACCGAAACCACCATGAACCAC
Found at i:64383691 original size:10 final size:10
Alignment explanation
Indices: 64383664--64383713 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
64383654 TTAAATTCTA
64383664 AAAGATAAA-
1 AAAGATAAAT
*
64383673 AATAAATAAAT
1 AA-AGATAAAT
*
64383684 AAAGATAATT
1 AAAGATAAAT
64383694 AAAGATAAAT
1 AAAGATAAAT
64383704 GAAA-ATAAAT
1 -AAAGATAAAT
64383714 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:64389632 original size:19 final size:18
Alignment explanation
Indices: 64389608--64389657 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
64389598 ACTGAACTGC
64389608 TTAAATATTTTTATAATTT
1 TTAAATATTTTTAT-ATTT
64389627 TTAAATA-TTTTATATTT
1 TTAAATATTTTTATATTT
*
64389644 TAAAATAATTTTTA
1 TTAAAT-ATTTTTA
64389658 CAAATTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 9 0.32
18 7 0.25
19 12 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATATTTTTATATTT
Found at i:64389639 original size:18 final size:17
Alignment explanation
Indices: 64389608--64389655 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
64389598 ACTGAACTGC
64389608 TTAAATATTTTTATAATTT
1 TTAAATA-TTTTAT-ATTT
64389627 TTAAATATTTTATATTT
1 TTAAATATTTTATATTT
*
64389644 TAAAATAATTTT
1 TTAAAT-ATTTT
64389656 TACAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.33
18 11 0.41
19 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAAATATTTTATATTT
Found at i:64389673 original size:28 final size:28
Alignment explanation
Indices: 64389620--64389684 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
64389610 AAATATTTTT
* * *
64389620 ATAATTTTTAAATATTTTATATTTTAAA
1 ATAATTTTTAAATATTTAAGAATTTAAA
*
64389648 ATAATTTTTACAA-ATTTAAGAATTTATA
1 ATAATTTTTA-AATATTTAAGAATTTAAA
*
64389676 ACAATTTTT
1 ATAATTTTT
64389685 TTTTATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (28 bp):
ATAATTTTTAAATATTTAAGAATTTAAA
Found at i:64389733 original size:20 final size:20
Alignment explanation
Indices: 64389686--64389755 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
64389676 ACAATTTTTT
64389686 TTTATAA-TTTTT-ACAACT-
1 TTTATAATTTTTTAACAA-TG
*
64389704 TTT-TACATTTTTTAAGAATG
1 TTTATA-ATTTTTTAACAATG
* * *
64389724 TTTATAATTTTTTTACTATT
1 TTTATAATTTTTTAACAATG
64389744 TTTATAATTTTT
1 TTTATAATTTTT
64389756 AATATTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 2 0.05
18 4 0.10
19 6 0.14
20 28 0.67
21 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTATAATTTTTTAACAATG
Found at i:64389756 original size:29 final size:28
Alignment explanation
Indices: 64389683--64389756 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
64389673 ATAACAATTT
64389683 TTTTTTATAATTTTTACAACTTTTTACA
1 TTTTTTATAATTTTTACAACTTTTTACA
* * * *
64389711 TTTTTTAAGAATGTTTATAATTTTTTTAC-
1 TTTTTT-ATAATTTTTACAA-CTTTTTACA
64389740 TATTTTTATAATTTTTA
1 T-TTTTTATAATTTTTA
64389757 ATATTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 6 0.16
29 19 0.51
30 12 0.32
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTTTATAATTTTTACAACTTTTTACA
Found at i:64389778 original size:18 final size:19
Alignment explanation
Indices: 64389747--64389793 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
64389737 TACTATTTTT
* *
64389747 ATAATTTTTAATATTTTAAA
1 ATAATTTAT-ATATTGTAAA
64389767 ATATATTTATATATTGTAAA
1 ATA-ATTTATATATTGTAAA
64389787 ATAATTT
1 ATAATTT
64389794 TTTAAATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATAATTTATATATTGTAAA
Found at i:64397423 original size:47 final size:45
Alignment explanation
Indices: 64397307--64397475 Score: 179
Period size: 44 Copynumber: 3.7 Consensus size: 45
64397297 GGATGGTTGA
*
64397307 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGAAT
*
64397353 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG-AA-T
* *
64397396 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGA--TGAAT
*
64397446 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
64397476 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 6, Indels: 22
0.79 0.04 0.16
Matches are distributed among these distances:
41 4 0.04
42 2 0.02
43 3 0.03
44 29 0.27
45 1 0.01
46 28 0.26
47 29 0.27
48 4 0.04
50 2 0.02
51 2 0.02
52 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGAAT
Found at i:64400456 original size:15 final size:15
Alignment explanation
Indices: 64400417--64400457 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
64400407 GTATCTTGGG
*
64400417 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
64400432 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
64400447 TTTCTTTATTC
1 TTTCTTTATTC
64400458 AGTTTTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:64404893 original size:43 final size:43
Alignment explanation
Indices: 64404845--64405341 Score: 516
Period size: 43 Copynumber: 11.6 Consensus size: 43
64404835 GGCACATATT
** * * * *
64404845 GTGCATCATCGAATAATACCAAAGAAACATACTGACACACATA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * * *
64404888 GTGCATTATTGGATAAAACCG-AGTCAACATACTGGCACATACA
1 GTGCATCATCGGGTAATACCGAAG-CAACATACTGGCACACACA
* * * * *
64404931 GTGCATCATTGGATAATACCGAAGCAATATATTGGCATACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * * *
64404974 GCGCATCATCGGGTAATATCAAAGCAACAGACTAGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* *
64405017 GTGCATCATCGAGTAATACCGAAGCAACATA-TTGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * *
64405059 GTGCATCA-CTGGGTAATACCGTAGCAACATTCTAGCACACATA
1 GTGCATCATC-GGGTAATACCGAAGCAACATACTGGCACACACA
* *
64405102 GTGCATCATCGGGTAATACCGAAGCAACATTCCGGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * *
64405145 ATGCATCGTCGGGTAATACCGAAACAAAATACTGGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * *
64405188 ATGCATCGTCGGGTAATACCGAAGCAACATATTGGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * *
64405231 GGTGCATCATCAGATAAAACCGAAGCAACATATTGGCACACACA
1 -GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * *
64405275 GTGCATCAGT-GGATAATATCGAAGCAATATACTGGCACACACA
1 GTGCATCA-TCGGGTAATACCGAAGCAACATACTGGCACACACA
** *
64405318 GTGCATCATTTGATAATACCGAAG
1 GTGCATCATCGGGTAATACCGAAG
64405342 TATAACTTGC
Statistics
Matches: 385, Mismatches: 61, Indels: 16
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.00
42 39 0.10
43 303 0.79
44 42 0.11
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (43 bp):
GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
Found at i:64405159 original size:171 final size:168
Alignment explanation
Indices: 64404845--64405340 Score: 548
Period size: 171 Copynumber: 2.9 Consensus size: 168
64404835 GGCACATATT
* * * * * *
64404845 GTGCATCATCGAATAATACCAAAGAAACATACTGACACACATAGTGCATTATTGGATAAAACCGA
1 GTGCATCATCGAGTAATACCGAAGCAACATATTG-CACACACAGTGCATCA-TGGATAAAACCGA
* * *
64404910 GTCAACATACTGGCACATACAGTGCATCATTGGATAATACCGAAGCAATATAT-TGGCATACACA
64 G-CAACATTCTGGCACACACAGTGCATCA-TGGATAATACCGAAGCAATAT-TCTGGCACACACA
* * *
64404974 GCGCATCATCGGGTAATATC-AAAGCAACAGACTAGCACACACA
126 GTGCATCATCGGGTAATACCGAAA-CAAAAGACTAGCACACACA
* *
64405017 GTGCATCATCGAGTAATACCGAAGCAACATATTGCACACACAGTGCATCACTGGGTAATACCGTA
1 GTGCATCATCGAGTAATACCGAAGCAACATATTGCACACACAGTGCATCA-TGGATAAAACCG-A
* * * * * *
64405082 GCAACATTCTAGCACACATAGTGCATCATCGGGTAATACCGAAGCAACATTCCGGCACACACAAT
64 GCAACATTCTGGCACACACAGTGCATCAT-GGATAATACCGAAGCAATATTCTGGCACACACAGT
* * *
64405147 GCATCGTCGGGTAATACCGAAACAAAATACTGGCACACACA
128 GCATCATCGGGTAATACCGAAACAAAAGACTAGCACACACA
* * * *
64405188 ATGCATCGTCGGGTAATACCGAAGCAACATATTGGCACACACAGGTGCATCATCAGATAAAACCG
1 GTGCATCATCGAGTAATACCGAAGCAACATATT-GCACACACA-GTGCATCAT-GGATAAAACCG
* *
64405253 AAGCAACATAT-TGGCACACACAGTGCATCAGTGGATAATATCGAAGCAATATACTGGCACACAC
63 -AGCAACAT-TCTGGCACACACAGTGCATCA-TGGATAATACCGAAGCAATATTCTGGCACACAC
** *
64405317 AGTGCATCATTTGATAATACCGAA
125 AGTGCATCATCGGGTAATACCGAA
64405341 GTATAACTTG
Statistics
Matches: 272, Mismatches: 43, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
170 2 0.01
171 136 0.50
172 45 0.17
173 87 0.32
174 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (168 bp):
GTGCATCATCGAGTAATACCGAAGCAACATATTGCACACACAGTGCATCATGGATAAAACCGAGC
AACATTCTGGCACACACAGTGCATCATGGATAATACCGAAGCAATATTCTGGCACACACAGTGCA
TCATCGGGTAATACCGAAACAAAAGACTAGCACACACA
Found at i:64414654 original size:12 final size:14
Alignment explanation
Indices: 64414639--64414670 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
64414629 GTGAGAACAC
64414639 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
64414651 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
64414665 ATGTGT
1 ATGTGT
64414671 TTAAGATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:64414753 original size:50 final size:51
Alignment explanation
Indices: 64414636--64414931 Score: 275
Period size: 50 Copynumber: 5.9 Consensus size: 51
64414626 ATTGTGAGAA
* * * * * *
64414636 CACATGTGTAGTACTATGTGTAGGCTACTATGTGT-TTAAGATGATTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGAT-A-GTTAGGT
*
64414688 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
* * * * * *
64414738 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGA-TAGTT-AGGT
* * *
64414789 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTATA-TCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
** * * * *
64414839 CACATGTGTAGTACTAAGTATAGGATAATACGTGTA-TCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
* * *
64414888 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAG
64414932 CTTCGGTTAC
Statistics
Matches: 198, Mismatches: 39, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
49 38 0.19
50 83 0.42
51 40 0.20
52 36 0.18
53 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
Found at i:64414921 original size:150 final size:152
Alignment explanation
Indices: 64414640--64414925 Score: 398
Period size: 151 Copynumber: 1.9 Consensus size: 152
64414630 TGAGAACACA
* * * * * * *
64414640 TGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGATTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATAAGATGA-GTTAGGTCACATGTGTAGTACTAA
* * *
64414705 GTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
65 GTACAGGATAATACGTGTACTAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
64414770 CGTACCCGACAACTTCAATCACG
130 CGTACCCGACAACTTCAATCACG
*
64414793 TGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGATG-GTTAGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATAAGATGAGTTAGGTCACATGTGTAGTACTAAG
* * * *
64414857 TATAGGATAATACGTGTA-TCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 TACAGGATAATACGTGTACT-AGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
64414920 CGTACC
130 CGTACC
64414926 AGATAGCTTC
Statistics
Matches: 117, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
150 41 0.35
151 43 0.37
153 33 0.28
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTATATAAGATGAGTTAGGTCACATGTGTAGTACTAAG
TACAGGATAATACGTGTACTAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGC
GTACCCGACAACTTCAATCACG
Found at i:64430010 original size:357 final size:357
Alignment explanation
Indices: 64429348--64430061 Score: 1135
Period size: 357 Copynumber: 2.0 Consensus size: 357
64429338 GGATGGTAAA
* * **
64429348 CAACTTTTACTAAGTGGTTTTTCATGGAAATGGCTTAAAGGGCTAAATTGTAAAAGTTGTGAAAA
1 CAACTTTTACTAAGTGGTTTTTCATGCAAATGACTTAAAGGGCTAAATTGTAAAAGTTGCAAAAA
* *
64429413 TAGGTAGAAAAATATAGAATGAAGGAAAAACATGGGCTGCTATAAGTGTGAATAACATTCGGCTA
66 TAGGTAGAAAAATATAGAATGAAGGAAAAACATGGGCTACTATAAGTGTGAATAAAATTCGGCTA
* ** *
64429478 GGCTTGGGTAGCCAAGGAATTACTACATTTCATTATACGAGCCTTAGGACTAAATTGTAAATATT
131 GGCCTGGGTAGCCAAGGAAGCACTACATTTCATTATACGAGCCTTAGGACTAAATTATAAATATT
* * *
64429543 GTCAACGGTTAGGGGCAAAATGGTCATTTTTCCCGAGGGTGAGTTTTAATCCTAAAATGAAAATT
196 GTCAAAGGTTAGGGGCAAAATGGTCATTTTTCCAGAGGGTGAGTTTTAATCCTAAAATGAAAAAT
* * *
64429608 TTGATGTATTAATAGTCTACGTTTATTGATATAGACCCCGAGGAACCAATTCCGGAGGTCAACTG
261 GTGATGTATTAATAGTCTAAGTTTATTGATATAGACCCCGAGGAACCAATTCCGGAGGTCAACCG
*
64429673 TGGAAAATAAAAGGTTTC-GTAATAATCGAGAC
326 TGGAAAACAAAAGGTTTCAG-AATAATCGAGAC
64429705 CAACTTTTACTAAGTGGTTTTTCATGCAAATGACTTAAAGGGCTAAATTGTAAAAGTTGCAAAAA
1 CAACTTTTACTAAGTGGTTTTTCATGCAAATGACTTAAAGGGCTAAATTGTAAAAGTTGCAAAAA
* *
64429770 TGGGTAGAAAAATATAGAATGAAGGAAAAACATGGGCTACTATAAGTGTGAATAAAATTTGGCTA
66 TAGGTAGAAAAATATAGAATGAAGGAAAAACATGGGCTACTATAAGTGTGAATAAAATTCGGCTA
* *
64429835 GGCCTGGGTAGCCAAGGAAGCGCATGCATTTCATTATACGAGCCTTAGGACTAAATTATAAATAT
131 GGCCTGGGTAGCCAAGGAAGCAC-TACATTTCATTATACGAGCCTTAGGACTAAATTATAAATAT
* *
64429900 TGTGAAAGGTTAGGGGCAAAATGGTCATTTTT-CATAGGGTGAGTTTTAATCCTAAAATGAAAAA
195 TGTCAAAGGTTAGGGGCAAAATGGTCATTTTTCCAGAGGGTGAGTTTTAATCCTAAAATGAAAAA
* * * *
64429964 TGTGATGTATTAATAGTCTAATTTTATTGATATAGACTCTGAGGAACCAATTCCGGAGGTCGACC
260 TGTGATGTATTAATAGTCTAAGTTTATTGATATAGACCCCGAGGAACCAATTCCGGAGGTCAACC
* *
64430029 GTGGAAAACGAAAGGTTTCAGAATAATTGAGAC
325 GTGGAAAACAAAAGGTTTCAGAATAATCGAGAC
64430062 ACGAATTCGA
Statistics
Matches: 326, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
357 256 0.79
358 70 0.21
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (357 bp):
CAACTTTTACTAAGTGGTTTTTCATGCAAATGACTTAAAGGGCTAAATTGTAAAAGTTGCAAAAA
TAGGTAGAAAAATATAGAATGAAGGAAAAACATGGGCTACTATAAGTGTGAATAAAATTCGGCTA
GGCCTGGGTAGCCAAGGAAGCACTACATTTCATTATACGAGCCTTAGGACTAAATTATAAATATT
GTCAAAGGTTAGGGGCAAAATGGTCATTTTTCCAGAGGGTGAGTTTTAATCCTAAAATGAAAAAT
GTGATGTATTAATAGTCTAAGTTTATTGATATAGACCCCGAGGAACCAATTCCGGAGGTCAACCG
TGGAAAACAAAAGGTTTCAGAATAATCGAGAC
Found at i:64433765 original size:46 final size:46
Alignment explanation
Indices: 64433616--64433802 Score: 171
Period size: 46 Copynumber: 4.0 Consensus size: 46
64433606 CACTTACGTG
* * * **** *
64433616 AGCCAGTGTAAGACATGTCTGGCACATTCATC-GACCATTTTATGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATGAT
* * * * * *
64433662 AGCCAATATAAGACCATGTCTGGGACATGGCATCAAC-ATTGAGACGAG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGATGAT
* * *
64433710 AGCTAGTGTAAGACATGTCTGGGATATGCATCGGCTACGAGATGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
64433756 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
64433802 A
1 A
64433803 TGTAACACCC
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
46 67 0.58
47 28 0.24
48 20 0.17
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
Found at i:64434694 original size:27 final size:27
Alignment explanation
Indices: 64434664--64434939 Score: 270
Period size: 27 Copynumber: 10.2 Consensus size: 27
64434654 TGAAATGCCA
* *
64434664 TCGATTTGTAAAATTACCGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* *
64434691 TCGATTTACAAAATTACTATTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* * *
64434718 TC-AGTTTACAGAATTACTATTTTACCC
1 TCGA-TTTATAAAATTACTGTTTTACCC
* *
64434745 TCGATTTATAGAATTACCGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* *
64434772 TCAATTTACAAAATTACTGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* *
64434799 TCGATTTATAAAATTTCTATTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* *
64434826 TCGATTTGTAAAATTACCGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* * * * * *
64434853 TTGATTTACAGAATGATTGGTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
*
64434880 TC-AGTTTACAAAATTA-TCGTTTTACCC
1 TCGA-TTTATAAAATTACT-GTTTTACCC
* * *
64434907 TCGATTTACAGAATTACTGTTTTATCC
1 TCGATTTATAAAATTACTGTTTTACCC
*
64434934 TTGATT
1 TCGATT
64434940 GTGAAATTAC
Statistics
Matches: 208, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
26 3 0.01
27 202 0.97
28 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
TCGATTTATAAAATTACTGTTTTACCC
Found at i:64434734 original size:54 final size:54
Alignment explanation
Indices: 64434673--64434930 Score: 320
Period size: 54 Copynumber: 4.8 Consensus size: 54
64434663 ATCGATTTGT
* *
64434673 AAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCAGTTTAC
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTAC
* ** * * *
64434727 AGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTAC
* * * * * **
64434781 AAAATTACTGTTTTACCCTCGATTTATAAAATTTCTATTTTACCCTC-GATTTGT
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAG-TTTAC
* * * *
64434835 AAAATTACCGTTTTACCCTTGATTTACAGAATGATTGGTTTACCCTCAGTTTAC
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTAC
*
64434889 AAAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTA
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTA
64434931 TCCTTGATTG
Statistics
Matches: 169, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
54 168 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
AAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAGTTTAC
Found at i:64434783 original size:81 final size:81
Alignment explanation
Indices: 64434664--64434939 Score: 349
Period size: 81 Copynumber: 3.4 Consensus size: 81
64434654 TGAAATGCCA
* * *
64434664 TCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCAGTTTACAG
1 TCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCAGTTTACAA
64434729 AATTACTATTTTACCC
66 AATTACTATTTTACCC
* * *
64434745 TCGATTTATAGAATTACCGTTTTACCCTCAATTTACAAAATTACTGTTTTACCCTC-GATTTATA
1 TCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCAG-TTTACA
*
64434809 AAATTTCTATTTTACCC
65 AAATTACTATTTTACCC
* * * * * *
64434826 TCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATGATTGGTTTACCCTCAGTTTACAA
1 TCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCAGTTTACAA
*
64434891 AATTA-TCGTTTTACCC
66 AATTACT-ATTTTACCC
* * * * *
64434907 TCGATTTACAGAATTACTGTTTTATCCTTGATT
1 TCGATTTATAAAATTACCGTTTTACCCTCGATT
64434940 GTGAAATTAC
Statistics
Matches: 169, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 166 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (81 bp):
TCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCAGTTTACAA
AATTACTATTTTACCC
Found at i:64434982 original size:27 final size:27
Alignment explanation
Indices: 64434944--64435139 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
64434934 TTGATTGTGA
* * *
64434944 AATTACTGAAATACCCCTGTAGGGAAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
64434971 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** * *
64434998 AATTATTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
64435025 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
64435052 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
64435079 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * * * *
64435106 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAG
64435133 AATTACC
1 AATTACC
64435140 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:64435376 original size:27 final size:26
Alignment explanation
Indices: 64435338--64435420 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
64435328 CGGAGTAAGC
64435338 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
64435365 GTTCTGGTGGCTTTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
64435391 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
64435418 GTT
1 GTT
64435421 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:64435540 original size:22 final size:22
Alignment explanation
Indices: 64435508--64435566 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
64435498 CCCGTTATTA
*
64435508 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
64435530 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
64435552 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
64435567 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:64435753 original size:27 final size:27
Alignment explanation
Indices: 64435731--64435797 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
64435721 TAGGTGGGTT
*
64435731 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
64435758 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
64435785 TGTCACGATATCT
1 TGCCACAATATCT
64435798 ATTCTGGCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:64435931 original size:6 final size:6
Alignment explanation
Indices: 64435922--64436078 Score: 119
Period size: 6 Copynumber: 25.8 Consensus size: 6
64435912 TTGCATTCAC
* * * *
64435922 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTA ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
64435971 -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
64436020 ATTCTG -TTACTA ATAT-TG ATTCTA ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
64436068 ATTCTG ATTCT
1 ATTCTG ATTCT
64436079 CATTTTGGTT
Statistics
Matches: 123, Mismatches: 14, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
5 9 0.07
6 102 0.83
7 9 0.07
8 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:64436012 original size:55 final size:55
Alignment explanation
Indices: 64435922--64436049 Score: 195
Period size: 55 Copynumber: 2.3 Consensus size: 55
64435912 TTGCATTCAC
*
64435922 ATTCTGATTCTGATTCTGTCACCTAATTCTAATTCTAATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTAATTCTAATTCTGATTCTGTTACTA
* * *
64435977 ATTCTGATTCTGATTCTGTCACCTAATTTTGATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGTCACCTAATTCTAATTCTAATTCTGATTCTGTTACTA
*
64436032 ATAT-TGATTCTAATTCTG
1 AT-TCTGATTCTGATTCTG
64436050 ATTCTGTTAC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
55 66 0.99
56 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (55 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTAATTCTAATTCTGATTCTGTTACTA
Found at i:64440402 original size:101 final size:97
Alignment explanation
Indices: 64440231--64440461 Score: 309
Period size: 99 Copynumber: 2.3 Consensus size: 97
64440221 CTGGTACGCA
* * * *
64440231 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTATCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
*
64440296 GTACTACACACATGACCTAACCATCTGATACACG
66 GTACTACACACACGACC-AACCATC-GATACACG
* * *
64440330 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACATATAGTAGCCTGCACT
** ** *
64440395 TAGTACTACACATGCGACCAATTATCGGTACACG
64 TAGTACTACACACACGACCAACCATCGATACACG
64440429 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
64440462 TCACAATAGA
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
98 1 0.01
99 67 0.58
100 8 0.07
101 40 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (97 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
GTACTACACACACGACCAACCATCGATACACG
Found at i:64440725 original size:27 final size:27
Alignment explanation
Indices: 64440685--64440738 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64440675 AGGTACAACC
* *
64440685 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
64440712 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
64440739 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:64446197 original size:49 final size:49
Alignment explanation
Indices: 64446138--64446369 Score: 295
Period size: 49 Copynumber: 4.7 Consensus size: 49
64446128 CTAGTACGCA
* *
64446138 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** * *
64446187 TAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * ***
64446237 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
64446288 TAGTAGCCTGCACTTAGTACTACACAT-TCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGT-GACCAATTATCCGGTACACG
64446337 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
64446370 TCACAATAGA
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
49 71 0.46
50 48 0.31
51 36 0.23
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:64446635 original size:27 final size:27
Alignment explanation
Indices: 64446595--64446648 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64446585 AGGTACAACC
* *
64446595 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
64446622 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
64446649 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:64448833 original size:86 final size:85
Alignment explanation
Indices: 64448682--64448839 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 85
64448672 AGTACAATTC
* * *
64448682 CAACGTCCCAGATGTGGTCTTACATGTAATCAAATATTGATGCCACAGTCCCAGATAAGGTCTTA
1 CAACGTCCCAGACGTGGTCTTACATGTAACCAAATATTGATGCCACAGTCCCAGACAAGGTCTTA
*
64448747 CATGAAATCAAGTATAATGT
66 CACGAAATCAAGTATAATGT
* * **
64448767 CAACGTCCCCGACGTGGTCTTACATGTAAACCATAA-GTTGATGCCA-ACGTCCCAGACGTGGTC
1 CAACGTCCCAGACGTGGTCTTACATGT-AACCA-AATATTGATGCCACA-GTCCCAGACAAGGTC
64448830 TTACACGAAA
63 TTACACGAAA
64448840 ACACATATCA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 26 0.42
86 34 0.55
87 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (85 bp):
CAACGTCCCAGACGTGGTCTTACATGTAACCAAATATTGATGCCACAGTCCCAGACAAGGTCTTA
CACGAAATCAAGTATAATGT
Found at i:64463227 original size:47 final size:49
Alignment explanation
Indices: 64463158--64463429 Score: 209
Period size: 46 Copynumber: 5.8 Consensus size: 49
64463148 TGGGTAAGGT
* *
64463158 GTCGATGCCATGTCCCCGACATGGTTTTACACTAGCTCAT-ATCTCAA-
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAG
* *
64463205 GTCGATGCCATGTTCCAGACATGGTCTTACACT-GACT-ATCATCTCGTA-
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTC-AAG
* * * *
64463253 GTCGATG-CATGTCCCAGAGAT-GTCATACACTGGCTTA-CATCTCAAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAG
* * * * *
64463299 GCCAATG-CATGTCTCAGACAT-GTCTTACACTAGCTC-TCGTCTCAAT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAG
* * * *
64463345 GCCGATGCCATG-CCCTAGACATGGTCTTACACTGGCTC-TCA--TAATAT
1 GTCGATGCCATGTCCC-AGACATGGTCTTACACTAGCTCATCATCTCA-AG
* *
64463392 GACTGATG-CATGTCCCAGACAT-GTCTTACAGTAGCTCA
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCA
64463430 CAAACAAATG
Statistics
Matches: 186, Mismatches: 25, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 79 0.42
47 75 0.40
48 31 0.17
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAG
Found at i:64463441 original size:47 final size:47
Alignment explanation
Indices: 64463303--64463442 Score: 126
Period size: 47 Copynumber: 3.0 Consensus size: 47
64463293 CTCAAGGCCA
* ** *
64463303 ATGCATGTCTCAGACATGTCTTACACTAGCTCTC-GTCTCAATG-CCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAAAC-AAATGACCG
* * * *
64463349 ATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATA-ATATGACTG
1 ATG-CATGTCCC-AGACAT-GTCTTACACTAGCTCTCAAACAAATGACCG
* *
64463397 ATGCATGTCCCAGACATGTCTTACAGTAGCTCACAAACAAATGACC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAAACAAATGACC
64463443 TAAACGTCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
46 21 0.28
47 29 0.39
48 24 0.32
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAAACAAATGACCG
Found at i:64477171 original size:25 final size:25
Alignment explanation
Indices: 64477137--64477193 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
64477127 TCATGTACAT
*
64477137 GTATGCTCACACAAGCTGTGAATCG
1 GTATGCTCACACAAGCTATGAATCG
* *
64477162 GTATGCTCACACGAGCTATGAATTG
1 GTATGCTCACACAAGCTATGAATCG
64477187 GTATGCT
1 GTATGCT
64477194 TACAAGAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACAAGCTATGAATCG
Found at i:64477202 original size:25 final size:25
Alignment explanation
Indices: 64477137--64477203 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
64477127 TCATGTACAT
*
64477137 GTATGCTCACACA-AGCTGTGAATCG
1 GTATGCTCACA-AGAGCTATGAATCG
* *
64477162 GTATGCTCACACGAGCTATGAATTG
1 GTATGCTCACAAGAGCTATGAATCG
*
64477187 GTATGCTTACAAGAGCT
1 GTATGCTCACAAGAGCT
64477204 GTAAAATTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
GTATGCTCACAAGAGCTATGAATCG
Found at i:64487693 original size:264 final size:264
Alignment explanation
Indices: 64487214--64487739 Score: 908
Period size: 264 Copynumber: 2.0 Consensus size: 264
64487204 TAACTCAGTG
* * *
64487214 AACATACCGATTATTAAGATAATAGAACTTTATTCATACTAAAGTTTACCATACTTAACAAAATT
1 AACATAACAATTATTAAGAAAATAGAACTTTATTCATACTAAAGTTTACCATACTTAACAAAATT
* * *
64487279 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAGTTAATTCTAAGAGGAAATA
66 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
* * *
64487344 GTTTTAATTTTCGATCTCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAATATAC
131 ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAC
* *
64487409 TATACACCAAGTAGGATTCTAGAAAAGGGGAGGTGAGTCAATTTGAGTGCTTCAGTACCAAACTC
196 TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAACTC
64487474 TCTT
261 TCTT
* *
64487478 AACATAACAATTATTAAGAAAATATAACTTTATTCATACTAAAGTTTAGCATACTTAACAAAATT
1 AACATAACAATTATTAAGAAAATAGAACTTTATTCATACTAAAGTTTACCATACTTAACAAAATT
64487543 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
66 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
* *
64487608 ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCTTTGTTAGAAGTGAAAAGATAT
131 ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAC
*
64487673 TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAGCTC
196 TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAACTC
64487738 TC
261 TC
64487740 CTTAGATCCA
Statistics
Matches: 246, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
264 246 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (264 bp):
AACATAACAATTATTAAGAAAATAGAACTTTATTCATACTAAAGTTTACCATACTTAACAAAATT
TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAC
TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAACTC
TCTT
Found at i:64489195 original size:24 final size:26
Alignment explanation
Indices: 64489168--64489223 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
64489158 AATATTTTTC
* *
64489168 TAAAATATT-AATAATTTAAT-AAAT
1 TAAAATATTAAAGAATTAAATAAAAT
64489192 TAAAGA-ATTAAAGAATTAAATAAAAT
1 TAAA-ATATTAAAGAATTAAATAAAAT
64489218 TAAAAT
1 TAAAAT
64489224 TTAGGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 7 0.27
25 11 0.42
26 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (26 bp):
TAAAATATTAAAGAATTAAATAAAAT
Found at i:64491028 original size:40 final size:40
Alignment explanation
Indices: 64490973--64491164 Score: 289
Period size: 40 Copynumber: 4.8 Consensus size: 40
64490963 CGGATGATAA
64490973 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
64491013 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
64491053 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATT
* * *
64491094 -TGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
64491133 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64491165 AGCTATATCT
Statistics
Matches: 138, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 130 0.94
41 5 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:64493199 original size:16 final size:15
Alignment explanation
Indices: 64493174--64493207 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
64493164 AAGGCTAAAA
*
64493174 ATAATTAATATACATT
1 ATAATAAATATA-ATT
64493190 ATAATAAATATAATT
1 ATAATAAATATAATT
64493205 ATA
1 ATA
64493208 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:64493329 original size:29 final size:29
Alignment explanation
Indices: 64493275--64493330 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
64493265 GTCTTTAAAG
* *
64493275 ATATTTACAAAAAGAGACAACTAATTTCA
1 ATATTTACAAAAAGAGAAAACAAATTTCA
*
64493304 ATATTTACAGAAAGA-AAAACCAAATTT
1 ATATTTACAAAAAGAGAAAA-CAAATTT
64493331 TACAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
ATATTTACAAAAAGAGAAAACAAATTTCA
Found at i:64495694 original size:29 final size:29
Alignment explanation
Indices: 64495627--64495751 Score: 144
Period size: 29 Copynumber: 4.3 Consensus size: 29
64495617 AAGTCTACAT
* * * *
64495627 ACATGCATATGGCTCACTAGGCAC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
64495655 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
64495684 ATATTCGTATGGCCCATTAGGCCCAAATA
1 ACATTCATATGGCCCATTAGGCCCAAATC
** * *
64495713 ACATTCATACAGCCCATTAGGCGCACATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
64495742 ACATTCATAT
1 ACATTCATAT
64495752 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 20 0.25
29 61 0.75
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:64507967 original size:16 final size:15
Alignment explanation
Indices: 64507948--64507981 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
64507938 TTTTTTAATT
64507948 TTTATTTATTTCCTTA
1 TTTATTTATTT-CTTA
64507964 TTTATTTATTTCTTA
1 TTTATTTATTTCTTA
64507979 TTT
1 TTT
64507982 CTTAAGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTATTTCTTA
Found at i:64525979 original size:39 final size:39
Alignment explanation
Indices: 64525775--64525997 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
64525765 TTGAATGCTG
* * * * * *
64525775 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
64525815 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
64525855 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
64525895 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
64525935 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
64525974 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
64525998 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Done.