Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 158 of 344
Found at i:52602631 original size:46 final size:48
Alignment explanation
Indices: 52602452--52602764 Score: 258
Period size: 47 Copynumber: 6.7 Consensus size: 48
52602442 TTTGTGTGCT
* * * * *
52602452 AGTGTAAGA-CATGTCTAGGACAT-CCATCAACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGATGAGAGCC
* * *
52602498 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-A-TTGATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGAT--GAGAGCC
* * *
52602546 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-CTTGATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTACATGATGAGAGCC
* *
52602592 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACATGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGATGAGAGCC
* * * * * *
52602636 AGTATAAGACCATGTCTGGGACATGGCGTCAGAACGGATACG-TGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TACATGATGAGAGCC
* *
52602686 AGTGTAAGACCATGTCTAGGACATGGCATCGACTTA-ACG-TGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TACATGATGAGAGCC
* *
52602733 AGTGCAAGACCATGTCTGGGATATGGCATCGA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA
52602765 TATTATACCC
Statistics
Matches: 222, Mismatches: 30, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.05
45 17 0.08
46 59 0.27
47 70 0.32
48 31 0.14
49 4 0.02
50 31 0.14
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGATGAGAGCC
Found at i:52613335 original size:30 final size:30
Alignment explanation
Indices: 52613301--52613371 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
52613291 CCGTATGGCT
**
52613301 GCCCGTGTGTCACACACGGTTTAGACACAC
1 GCCCGTGTGTCACACACGGTCCAGACACAC
52613331 GCCCGTGTGTCACACACGGTCCAGACACAC
1 GCCCGTGTGTCACACACGGTCCAGACACAC
52613361 GCCCGTGTGTC
1 GCCCGTGTGTC
52613372 TACCCGTGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.20, C:0.37, G:0.25, T:0.18
Consensus pattern (30 bp):
GCCCGTGTGTCACACACGGTCCAGACACAC
Found at i:52614744 original size:26 final size:26
Alignment explanation
Indices: 52614715--52614767 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
52614705 CTTGATCTAT
52614715 AATACTGAATCTAGCTCATTTAATAC
1 AATACTGAATCTAGCTCATTTAATAC
52614741 AATACTGAATCTAGCTCATTTAATAC
1 AATACTGAATCTAGCTCATTTAATAC
52614767 A
1 A
52614768 TACATTACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (26 bp):
AATACTGAATCTAGCTCATTTAATAC
Found at i:52616258 original size:54 final size:55
Alignment explanation
Indices: 52616193--52616308 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 55
52616183 AGCACACGGG
* * *
52616193 CGTGTGACCCTA-CTCAAGGAGTTACACGG-GTGAAGACATGGGC-TGAGACATGGT
1 CGTGTGACCCTAGCTCAAAG-GTTACACGGTCTG-AGACATGGGCATGAGACATAGT
* * * *
52616247 CGTGTGTCCCTAGTTCAAAGGTTACACGGTCTGAGACATGGGCATGTGACTTAGT
1 CGTGTGACCCTAGCTCAAAGGTTACACGGTCTGAGACATGGGCATGAGACATAGT
52616302 CGTGTGA
1 CGTGTGA
52616309 GTCATACGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 30 0.59
55 21 0.41
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (55 bp):
CGTGTGACCCTAGCTCAAAGGTTACACGGTCTGAGACATGGGCATGAGACATAGT
Found at i:52617743 original size:38 final size:38
Alignment explanation
Indices: 52617692--52617766 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
52617682 AAATAAAAGA
* * *
52617692 AAAGAAACAAAGAA-GGAAGAAACAGAATAGCAAACGGG
1 AAAGAAACAAAGAACGG-AGAAAAAGAAAAGAAAACGGG
*
52617730 AAAGAAAGAAAGAACGGAGAAAAAGAAAAGAAAACGG
1 AAAGAAACAAAGAACGGAGAAAAAGAAAAGAAAACGG
52617767 AAAAACTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 30 0.94
39 2 0.06
ACGTcount: A:0.64, C:0.08, G:0.27, T:0.01
Consensus pattern (38 bp):
AAAGAAACAAAGAACGGAGAAAAAGAAAAGAAAACGGG
Found at i:52625842 original size:22 final size:22
Alignment explanation
Indices: 52625804--52625851 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
52625794 AGAAATTAAG
52625804 TAGAAAAGAAGTATGAATTCAGT
1 TAGAAAAGAAG-ATGAATTCAGT
*
52625827 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTCAGT
52625849 TAG
1 TAG
52625852 GATTAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.23, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTCAGT
Found at i:52626774 original size:4 final size:4
Alignment explanation
Indices: 52626765--52626796 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
52626755 ATTGGTTTAG
52626765 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
52626797 GTTATATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:52627623 original size:30 final size:30
Alignment explanation
Indices: 52627587--52627646 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
52627577 AAACAAAGGG
52627587 AAGTAGCCAAACCATTCTATGAGATGCGCT
1 AAGTAGCCAAACCATTCTATGAGATGCGCT
*
52627617 AAGTAGCCAAACCATTTTATGAGATGCGCT
1 AAGTAGCCAAACCATTCTATGAGATGCGCT
52627647 CCTTTGTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (30 bp):
AAGTAGCCAAACCATTCTATGAGATGCGCT
Found at i:52634101 original size:27 final size:27
Alignment explanation
Indices: 52634070--52634247 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52634060 TAAATTGTAC
52634070 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52634097 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52634123 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52634151 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52634179 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52634206 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52634233 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52634248 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52634184 original size:82 final size:81
Alignment explanation
Indices: 52634071--52634226 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52634061 AAATTGTACA
* *
52634071 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
52634135 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52634152 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
52634217 TGCGAGTTGA
65 TGCGAATTGA
52634227 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52634238 original size:82 final size:81
Alignment explanation
Indices: 52634067--52634247 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
52634057 GATTAAATTG
* *
52634067 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
52634132 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
52634148 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
52634212 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
52634230 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52634248 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52649325 original size:40 final size:39
Alignment explanation
Indices: 52649241--52649465 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 39
52649231 TCGAATGATG
* * * *
52649241 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
52649281 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52649321 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
52649360 TCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCT-AAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
52649400 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
52649441 -CCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAG-TCCGAAGGCATTTG
52649466 AACGAATAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 116 0.72
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52649456 original size:80 final size:80
Alignment explanation
Indices: 52649241--52649465 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
52649231 TCGAATGATG
* * * * * *
52649241 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAGACCCGAAGGCATT
*
52649305 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
* *
52649321 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGG-TGAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCT-AAGACCCGAAGGCAT
*
52649383 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
52649400 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGACCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGACCCGAAGGCATTT
52649465 G
66 G
52649466 AACGAATAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.02
79 57 0.46
80 63 0.50
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:52653147 original size:15 final size:15
Alignment explanation
Indices: 52653127--52653157 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52653117 ATGTAAGCAA
52653127 ACCTAAGATTTGTGG
1 ACCTAAGATTTGTGG
52653142 ACCTAAGATTTGTGG
1 ACCTAAGATTTGTGG
52653157 A
1 A
52653158 ACTATCCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (15 bp):
ACCTAAGATTTGTGG
Found at i:52661184 original size:59 final size:59
Alignment explanation
Indices: 52661088--52661266 Score: 279
Period size: 59 Copynumber: 3.0 Consensus size: 59
52661078 TTGATACGTA
52661088 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
* * *
52661147 ATAGATGCTAGGGTCCGGGTGCTTTTCAGTAACCCCGTTGAGAGGCATGTGGA-TATGTG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGT-GATTATGTG
* * * *
52661206 ATACATGCTAGGGTCCAGGTGTTTTTGAGTAGCCCCATTGAGAGGCATGTGATTCTGTG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
52661265 AT
1 AT
52661267 CTGTGGTACT
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
58 2 0.02
59 104 0.96
60 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (59 bp):
ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
Found at i:52663016 original size:75 final size:75
Alignment explanation
Indices: 52662921--52663059 Score: 235
Period size: 75 Copynumber: 1.9 Consensus size: 75
52662911 ACGGCCTGGA
*
52662921 GACACGGGCGTGTAGCCTGGC-CGTGTGGTTCAATTTGTATGCTAACGTCATAAACAGAGAGTTA
1 GACACGGGCGTGTAGCCTGGCTAG-GTGGTTCAATTTGTATGCTAACGTCATAAACAGAGAGTTA
52662985 TACAACCTGAG
65 TACAACCTGAG
* *
52662996 GACACGGGCGTGTAGCCTGGCTAGGTGGTTCAATTTGTGTGCTGACGTCATAAACAGAGAGTTA
1 GACACGGGCGTGTAGCCTGGCTAGGTGGTTCAATTTGTATGCTAACGTCATAAACAGAGAGTTA
52663060 CGTGGCCTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 59 0.98
76 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (75 bp):
GACACGGGCGTGTAGCCTGGCTAGGTGGTTCAATTTGTATGCTAACGTCATAAACAGAGAGTTAT
ACAACCTGAG
Found at i:52665384 original size:40 final size:41
Alignment explanation
Indices: 52665249--52665434 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
52665239 TACTCGAATG
*
52665249 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
52665290 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
52665331 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
52665371 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
52665411 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
52665435 CTTGTGCGAG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 69 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:52665391 original size:81 final size:82
Alignment explanation
Indices: 52665251--52665404 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
52665241 CTCGAATGAT
* * *
52665251 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
52665316 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
52665333 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
52665396 TTTATGCTA
65 TTTATGCTA
52665405 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:52673346 original size:40 final size:41
Alignment explanation
Indices: 52673211--52673396 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
52673201 TACTCGAATG
*
52673211 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
52673252 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
52673293 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
52673333 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
52673373 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
52673397 CTTGTGCGAG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 69 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:52673353 original size:81 final size:82
Alignment explanation
Indices: 52673213--52673366 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
52673203 CTCGAATGAT
* * *
52673213 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
52673278 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
52673295 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
52673358 TTTATGCTA
65 TTTATGCTA
52673367 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:52678371 original size:46 final size:48
Alignment explanation
Indices: 52678321--52678444 Score: 189
Period size: 46 Copynumber: 2.6 Consensus size: 48
52678311 TACGAGTGCC
* *
52678321 AGTGTAAGACATGTCTGGGACATGCATCGGCATTTAGATA-A-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATATACGAGCT
*
52678367 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATATACGAGCT
*
52678415 AGTGTAAGACCTGTCTGGGACATGGCATCA
1 AGTGTAAGACATGTCTGGGACAT-GCATCA
52678445 ACACCGATAG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 37 0.52
47 1 0.01
48 27 0.38
49 6 0.08
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATATACGAGCT
Found at i:52678471 original size:49 final size:46
Alignment explanation
Indices: 52678318--52678479 Score: 157
Period size: 46 Copynumber: 3.4 Consensus size: 46
52678308 CATTACGAGT
* **
52678318 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-TTTAGATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGATAGAT-AGA
* * *
52678364 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-CTTGAGATATACGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCAC--GATAGATA-GA
* * *
52678412 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCA-CGATAGAT-AGA
*
52678461 GCCAGTGTAAGACCTGTCT
1 GCCAGTGTAAGACATGTCT
52678480 AAGACACGAC
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
46 32 0.33
47 1 0.01
48 30 0.31
49 32 0.33
50 1 0.01
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGATAGATAGA
Found at i:52678542 original size:49 final size:49
Alignment explanation
Indices: 52678415--52678544 Score: 125
Period size: 49 Copynumber: 2.7 Consensus size: 49
52678405 TATACGAGCT
* ** *
52678415 AGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGCC
1 AGTGTAAAACCTGTCTGGGACATGGCATTGACACCGATAGATGAAAGCC
* ** * * * * * * *
52678464 AGTGTAAGACCTGTCTAAGACACGACATTGGCCCCGGTATATGAAAGTC
1 AGTGTAAAACCTGTCTGGGACATGGCATTGACACCGATAGATGAAAGCC
*
52678513 AGTTTAAAACCTGTCTGGGACATGGCATTGAC
1 AGTGTAAAACCTGTCTGGGACATGGCATTGAC
52678545 CTTGATATGC
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (49 bp):
AGTGTAAAACCTGTCTGGGACATGGCATTGACACCGATAGATGAAAGCC
Found at i:52679082 original size:45 final size:45
Alignment explanation
Indices: 52679033--52679123 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
52679023 TAGCCTAAGA
52679033 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
1 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
52679078 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
1 ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
52679123 A
1 A
52679124 ATTTAATCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (45 bp):
ATAAAAGGGCTTGTTTATTAAACTAATTATCTAAACTAATTAACT
Found at i:52679114 original size:13 final size:13
Alignment explanation
Indices: 52679092--52679124 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52679082 AAGGGCTTGT
52679092 TTAT-TAAACTAA
1 TTATCTAAACTAA
52679104 TTATCTAAACTAA
1 TTATCTAAACTAA
*
52679117 TTAACTAA
1 TTATCTAA
52679125 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:52681610 original size:10 final size:11
Alignment explanation
Indices: 52681593--52681627 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
52681583 TATGTCTTAT
52681593 AACAAAAAATA
1 AACAAAAAATA
52681604 AACAAAAAATA
1 AACAAAAAATA
*
52681615 AAAATAAAAATA
1 AACA-AAAAATA
52681627 A
1 A
52681628 GAGGATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (11 bp):
AACAAAAAATA
Found at i:52691736 original size:27 final size:27
Alignment explanation
Indices: 52691698--52691766 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
52691688 NNNNNNNNNN
* *
52691698 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTACAT
*
52691725 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTACAT
*
52691752 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52691767 GACTCAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTACAT
Found at i:52694987 original size:13 final size:13
Alignment explanation
Indices: 52694969--52694993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52694959 GGGATTTAAT
52694969 GAATAAAAGAAAA
1 GAATAAAAGAAAA
52694982 GAATAAAAGAAA
1 GAATAAAAGAAA
52694994 GCAAATGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
GAATAAAAGAAAA
Found at i:52696311 original size:27 final size:27
Alignment explanation
Indices: 52696280--52696457 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
52696270 TAAATTGTAC
*
52696280 AGCACTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52696307 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52696333 ATGCACTAAGTGTGCGAGTTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52696361 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52696389 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
52696416 AGCACTAAGTGTACGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52696443 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52696458 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52696394 original size:82 final size:81
Alignment explanation
Indices: 52696281--52696436 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
52696271 AAATTGTACA
* * *
52696281 GCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
*
52696345 TGCGAGTTGACCATGCG
65 TACGAGTTGACCATGCG
** *
52696362 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
52696427 TACGAGTTGA
65 TACGAGTTGA
52696437 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
ACGAGTTGACCATGCG
Found at i:52696448 original size:82 final size:81
Alignment explanation
Indices: 52696277--52696457 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
52696267 GATTAAATTG
* * *
52696277 TACAGCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
52696342 GTGTGCGAGTTGACCA
66 GTGTACGAGTTGACCA
* * ** *
52696358 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
52696422 AAGTGTACGAGTTGATTA
64 AAGTGTACGAGTTGACCA
* *
52696440 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52696458 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTACGAGTTGACCA
Found at i:52704294 original size:27 final size:27
Alignment explanation
Indices: 52704263--52704413 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
52704253 TAAATTGTAC
*
52704263 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
52704290 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
52704316 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
52704344 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
52704372 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
52704399 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52704414 GACTCAATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:52704377 original size:82 final size:81
Alignment explanation
Indices: 52704264--52704413 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
52704254 AAATTGTACA
*
52704264 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
52704328 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
52704345 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
52704410 TGCG
65 TGCG
52704414 GACTCAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52704404 original size:55 final size:53
Alignment explanation
Indices: 52704263--52704413 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 53
52704253 TAAATTGTAC
* *
52704263 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* ** ** *
52704316 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * * *
52704371 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
52704414 GACTCAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.47
55 41 0.51
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:52706997 original size:39 final size:39
Alignment explanation
Indices: 52706943--52707021 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
52706933 AAAATACAGG
52706943 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
1 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
52706982 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
1 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
52707021 T
1 T
52707022 TCGAGAACCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (39 bp):
TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
Found at i:52710362 original size:47 final size:47
Alignment explanation
Indices: 52710311--52710422 Score: 215
Period size: 47 Copynumber: 2.4 Consensus size: 47
52710301 GTAAAACGTG
52710311 TCTGGGACATGCATCAGCCGCATCATGATAGCCCGTGTAAGACCACA
1 TCTGGGACATGCATCAGCCGCATCATGATAGCCCGTGTAAGACCACA
52710358 TCTGGGACATGCATCAGCCGCATCATGATAGCCCGTGTAAGACCACA
1 TCTGGGACATGCATCAGCCGCATCATGATAGCCCGTGTAAGACCACA
52710405 TCTGGGACATGGCATCAG
1 TCTGGGACAT-GCATCAG
52710423 TGTAGAGGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 57 0.89
48 7 0.11
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.20
Consensus pattern (47 bp):
TCTGGGACATGCATCAGCCGCATCATGATAGCCCGTGTAAGACCACA
Found at i:52710456 original size:94 final size:91
Alignment explanation
Indices: 52710358--52710560 Score: 237
Period size: 91 Copynumber: 2.2 Consensus size: 91
52710348 TAAGACCACA
*
52710358 TCTGGGACATGCATCAGCCGC-ATCATGATAGCCCGTGTAAGACCACATCTGGGACATGGCATCA
1 TCTGGGACATGCATCAGCCGCAATCATGATAGCCAGTGTAAGA-CACATCTGGGACAT-GCATC-
** * *
52710422 GTGTAGAGGTGAGTGCTAGTGTAAGACATG
63 GACTAAAGGTCA-TGCTAGTGTAAGACATG
** * * * **
52710452 TCTGGGACATGCATTGGCCTCAATGATGTTAGCCAGTGTAAGACATGTCTGGGACATGCATCGAC
1 TCTGGGACATGCATCAGCCGCAATCATGATAGCCAGTGTAAGACACATCTGGGACATGCATCGAC
**
52710517 TAAATTTCATGCTAGTGTAAGACATG
66 TAAAGGTCATGCTAGTGTAAGACATG
52710543 TCTGGGACATGCATCAGC
1 TCTGGGACATGCATCAGC
52710561 ACATGTACAC
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
91 33 0.36
92 6 0.07
93 5 0.05
94 30 0.33
95 18 0.20
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (91 bp):
TCTGGGACATGCATCAGCCGCAATCATGATAGCCAGTGTAAGACACATCTGGGACATGCATCGAC
TAAAGGTCATGCTAGTGTAAGACATG
Found at i:52710549 original size:44 final size:46
Alignment explanation
Indices: 52710435--52710557 Score: 164
Period size: 44 Copynumber: 2.7 Consensus size: 46
52710425 TAGAGGTGAG
* *
52710435 TGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAATGATGTTA
1 TGCTAGTGTAAGACATGTCTGGGACATGCA-TCGACTCAA-GATGTTA
*
52710483 -GCCAGTGTAAGACATGTCTGGGACATGCATCGACT-AA-AT-TTCA
1 TGCTAGTGTAAGACATGTCTGGGACATGCATCGACTCAAGATGTT-A
52710526 TGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGCTAGTGTAAGACATGTCTGGGACATGCATC
52710558 AGCACATGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
42 2 0.03
43 3 0.04
44 30 0.43
45 2 0.03
46 4 0.06
47 28 0.41
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (46 bp):
TGCTAGTGTAAGACATGTCTGGGACATGCATCGACTCAAGATGTTA
Found at i:52717890 original size:47 final size:46
Alignment explanation
Indices: 52717828--52718177 Score: 198
Period size: 47 Copynumber: 7.4 Consensus size: 46
52717818 AGAGCCAATA
* * * *
52717828 TAAGACCATGTCTGGGACATGGCATCGACATTGAGATGATGGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGACGTCGAGATGATAGCCAGTG
* * *
52717876 TAAGACGTGTCTGGGACATGCATC-A-GTCGCGTCATGATAGCCCGTG
1 TAAGACATGTCTGGGACATGCATCGACGTCGAG--ATGATAGCCAGTG
* * * * * *
52717922 TAAGACCACGTCTGGGACATGGCATCGGCGTAGAGGTGAGT-GCTAGAG
1 TAAGA-CATGTCTGGGACAT-GCATCGACGTCGAGATGA-TAGCCAGTG
* * * *
52717970 TAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTTAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGACGTCGA-GATGATAGCCAGTG
* * * *
52718017 TAAGACGTGTCTGGGACATGCATC-A-G-CTAAGTTTCG-T-GCTAGTG
1 TAAGACATGTCTGGGACATGCATCGACGTC-GAG-AT-GATAGCCAGTG
* * * *
52718061 TAAGACATGTCTAGGACATGCATCAGCACGT-GTACATGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATC-G-ACGTCG-AGATGATAGCCAGTG
* * * *
52718109 TAAGACCATGTCTAGGACATGGCATCGGCCTCGATGGA-GCTAGCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGACGTCGA--GATGATAGCCAGTG
52718158 TAAGACCATGTCTGGGACAT
1 TAAGA-CATGTCTGGGACAT
52718178 AGCAGTGACA
Statistics
Matches: 235, Mismatches: 42, Indels: 49
0.72 0.13 0.15
Matches are distributed among these distances:
44 33 0.14
45 5 0.02
46 33 0.14
47 71 0.30
48 39 0.17
49 44 0.19
50 10 0.04
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGACGTCGAGATGATAGCCAGTG
Found at i:52717989 original size:94 final size:94
Alignment explanation
Indices: 52717828--52718177 Score: 327
Period size: 94 Copynumber: 3.7 Consensus size: 94
52717818 AGAGCCAATA
* * * * *
52717828 TAAGACCATGTCTGGGACATGGCATCGACATTGAGATGA-TGGCTAGTGTAAGACGTGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGA
* *
52717892 CATGCATCAGTCGCGTCATGATAGCCCGTG
65 CATGCATCAGACGCGTCATGATAGCCAGTG
* *
52717922 TAAGACCACGTCTGGGACATGGCATCGGCGTAGAGGTGAGT-GCTAGAGTAAGACATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGA
* * * * * *
52717986 CATGCATCGGCCTCAATGATGTTAGCCAGTG
65 CATGCATCAGACGC-GTCATGATAGCCAGTG
* * * ** *
52718017 TAAGA-CGTGTCTGGGACAT-GCATCAGCTA-AGTTTCGT-GCTAGTGTAAGACATGTCTAGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGAC
* * *
52718078 ATGCATCAGCACGTGTACATGAGAGCTAGTG
66 ATGCATCAG-ACGCGT-CATGATAGCCAGTG
* * * *
52718109 TAAGACCATGTCTAGGACATGGCATCGGCCTCGATG-GAGCTAGCCAGTGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATGGCATCGG-CTAGAGGTGAG-TAGCTAGTGTAAGA-CATGTCTGG
52718173 GACAT
63 GACAT
52718178 AGCAGTGACA
Statistics
Matches: 204, Mismatches: 41, Indels: 18
0.78 0.16 0.07
Matches are distributed among these distances:
91 36 0.18
92 18 0.09
93 19 0.09
94 84 0.41
95 21 0.10
96 2 0.01
97 11 0.05
98 13 0.06
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTAGCTAGTGTAAGACATGTCTGGGAC
ATGCATCAGACGCGTCATGATAGCCAGTG
Found at i:52718078 original size:44 final size:47
Alignment explanation
Indices: 52717961--52718087 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 47
52717951 GTAGAGGTGA
* *
52717961 GTGCTAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTCAATGATGTT
* * *
52718009 -AGCCAGTGTAAGACGTGTCTGGGACATGCATCAGCT-AA-G-T-TT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAATGATGTT
*
52718051 CGTGCTAGTGTAAGACATGTCTAGGACATGCATCAGC
1 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
52718088 ACGTGTACAT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.03
43 1 0.01
44 32 0.47
45 2 0.03
46 2 0.03
47 29 0.43
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (47 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAATGATGTT
Found at i:52721867 original size:43 final size:42
Alignment explanation
Indices: 52721820--52721914 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
52721810 AGATGTAGTT
* * *
52721820 TTACATGTAATCGAATATCGATGCCACTGTCCCAGACAGGGTC
1 TTACATGTAATCAAATA-AGATGCCAATGTCCCAGACAGGGTC
* * *
52721863 TTACACGAAATCAAATAAGATGCCAATGTCCCAGACATGGTC
1 TTACATGTAATCAAATAAGATGCCAATGTCCCAGACAGGGTC
52721905 TTACATGTAA
1 TTACATGTAA
52721915 ATCATAAGTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 30 0.68
43 14 0.32
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (42 bp):
TTACATGTAATCAAATAAGATGCCAATGTCCCAGACAGGGTC
Found at i:52721893 original size:42 final size:44
Alignment explanation
Indices: 52721839--52721958 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 44
52721829 ATCGAATATC
*
52721839 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATCA-AA-TAA
1 GATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATAAGTAA
* * *
52721881 GATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAAGTCA
1 GATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCATAAGTAA
* * *
52721926 -ATACCAACGTCCCAAAC-GTGGTCTTACACGAAA
1 GATGCCAATGTCCCAGACAG-GGTCTTACACGAAA
52721959 ACACATATCG
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 28 0.43
43 9 0.14
44 26 0.40
45 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATAAGTAA
Found at i:52728511 original size:43 final size:42
Alignment explanation
Indices: 52728463--52728561 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
52728453 TCCAAGACGT
* * *
52728463 GGTCTTACATGTAATCGAATATCGGTGCC-ACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATA-AGATGCCGA-TATCCCAGACAG
* * * *
52728506 GGTCTTACACGAAATCAAATAAGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATAAGATGCCGATATCCCAGACAG
52728548 GGTCTTACATGTAA
1 GGTCTTACATGTAA
52728562 ATCATAAGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATAAGATGCCGATATCCCAGACAG
Found at i:52728546 original size:42 final size:43
Alignment explanation
Indices: 52728496--52728605 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
52728486 GGTGCCACTA
*
52728496 TCCCAGACAGGGTCTTACACGAAATCA-AA-TAAGATGCCGATG
1 TCCCAGACAGGGTCTTACACGAAATCATAAGT-AGATGCCAATG
* * *
52728538 TCCCAGACATGGTCTTACATGTAAATCATAAGTCGATGCCAATG
1 TCCCAGACAGGGTCTTACACG-AAATCATAAGTAGATGCCAATG
*
52728582 TCCCAAAC-GTGGTCTTACACGAAA
1 TCCCAGACAG-GGTCTTACACGAAA
52728606 ACACATATCG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
42 19 0.33
43 9 0.16
44 28 0.49
45 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCATAAGTAGATGCCAATG
Found at i:52728694 original size:11 final size:11
Alignment explanation
Indices: 52728678--52728703 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52728668 CTTTTCAGAC
52728678 GTCGAAACTTT
1 GTCGAAACTTT
52728689 GTCGAAACTTT
1 GTCGAAACTTT
52728700 GTCG
1 GTCG
52728704 GATATCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (11 bp):
GTCGAAACTTT
Found at i:52734798 original size:6 final size:6
Alignment explanation
Indices: 52734789--52734819 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
52734779 CAAATAAACC
*
52734789 AAAACG AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG A
52734820 CTTAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (6 bp):
AAAATG
Found at i:52735240 original size:19 final size:19
Alignment explanation
Indices: 52735218--52735261 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
52735208 TGAAATAAAC
52735218 TTTTACTAGTCAACAAGAG
1 TTTTACTAGTCAACAAGAG
*
52735237 TTTTACTAGTCAACAAGGG
1 TTTTACTAGTCAACAAGAG
52735256 TTTTAC
1 TTTTAC
52735262 ATTCTCTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
TTTTACTAGTCAACAAGAG
Found at i:52743606 original size:32 final size:32
Alignment explanation
Indices: 52743555--52743636 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 32
52743545 CAACCCCTCA
* * * * *
52743555 CAATCTCAATTGGGGCTAGCCCATCTCAGAAT
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
52743587 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
*
52743619 CAATATAAGTTGGGCCTA
1 CAATATCAGTTGGGCCTA
52743637 CAAACCCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (32 bp):
CAATATCAGTTGGGCCTAGCCCATATCAGAAC
Found at i:52744571 original size:44 final size:44
Alignment explanation
Indices: 52744519--52744618 Score: 182
Period size: 44 Copynumber: 2.3 Consensus size: 44
52744509 ACAGGCGTGT
52744519 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
1 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
* *
52744563 GGTTACACACGTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
1 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
52744607 GATTACACACCT
1 GATTACACACCT
52744619 GGTTGCGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
Found at i:52748938 original size:44 final size:44
Alignment explanation
Indices: 52748886--52748985 Score: 173
Period size: 44 Copynumber: 2.3 Consensus size: 44
52748876 ACAGGGGTGT
52748886 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
1 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
* *
52748930 GGTTACACACGTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
1 GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
*
52748974 GATTACTCACCT
1 GATTACACACCT
52748986 GGTTGCGAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
GATTACACACCTCTATTGGCTTTGACAGTAATTGAGTGGTGAAC
Found at i:52758753 original size:15 final size:15
Alignment explanation
Indices: 52758733--52758763 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52758723 AAACCTATAA
*
52758733 AAATTAAATTAAACT
1 AAATTAAATAAAACT
52758748 AAATTAAATAAAACT
1 AAATTAAATAAAACT
52758763 A
1 A
52758764 CTAAGTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:52760395 original size:46 final size:46
Alignment explanation
Indices: 52760334--52760699 Score: 511
Period size: 46 Copynumber: 8.0 Consensus size: 46
52760324 TTGACATGAC
* * * *
52760334 GCCATAGTGTCTTTCAACTATGGTCTTACTCAGTTTC-TGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTT
* * * ***
52760380 TCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCCGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTT
* ** * *
52760426 GCCATGGTATCTTTCAACCAAGGTCTTGTTCATTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTT
* *
52760472 GCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTT
52760518 GCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCATGTT
*
52760564 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTT
*
52760610 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTT
* *
52760656 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCATG
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATG
52760700 GACTTCACCA
Statistics
Matches: 292, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 3 0.01
46 289 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTT
Found at i:52762169 original size:40 final size:40
Alignment explanation
Indices: 52762079--52762299 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
52762069 ACCCAAGTAT
* * ** * *
52762079 CTTCGAGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
52762117 CTTCGGGTCTTAGCCCAGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
52762157 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
52762197 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52762237 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
52762278 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52762300 CATTCGAATA
Statistics
Matches: 151, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
38 10 0.07
39 17 0.11
40 94 0.62
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52770267 original size:40 final size:40
Alignment explanation
Indices: 52770175--52770394 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
52770165 ACCCAAGTAT
* ** * *
52770175 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
52770213 CTTC-GGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
52770252 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** * * *
52770292 CTTCGAGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52770332 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
52770373 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52770395 CATTCGAATA
Statistics
Matches: 148, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
37 6 0.04
38 19 0.13
39 9 0.06
40 84 0.57
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52785452 original size:18 final size:17
Alignment explanation
Indices: 52785426--52785459 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52785416 ATGAAATAAA
*
52785426 TAAATAAATAAATAAAAT
1 TAAAGAAAT-AATAAAAT
52785444 TAAAGAAATAATAAAA
1 TAAAGAAATAATAAAA
52785460 GTTTTACAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAGAAATAATAAAAT
Found at i:52786875 original size:38 final size:37
Alignment explanation
Indices: 52786824--52787030 Score: 169
Period size: 38 Copynumber: 5.6 Consensus size: 37
52786814 ACCCAAGTAT
* *
52786824 CTTCGGAT-TTAG-CCGGATATAACTACTCGCACAAGGC
1 CTTCGGGTCTTAGCCCGGATAT-AC-ACTCGCACAATGC
* * *
52786861 CTTCGGGTCTTAGCCCGG-TATGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-ACACTCGCA-CAATGC
* *
52786899 CTTCGGGACTTAGCCCGGATAT--AGTCGCACCAAATGC
1 CTTCGGGTCTTAGCCCGGATATACACTCGCA-C-AATGC
*
52786936 CTTCGGG--TTAGCCCGGATATAAACTCGCACAATGC
1 CTTCGGGTCTTAGCCCGGATATACACTCGCACAATGC
* * * *
52786971 CTTCGGATCTTAGTCCGGATAGT-CACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATA-TACACTCGCAC-AATGC
*
52787009 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
52787031 CATTCGAATA
Statistics
Matches: 139, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
35 24 0.17
36 6 0.04
37 50 0.36
38 52 0.37
39 7 0.05
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (37 bp):
CTTCGGGTCTTAGCCCGGATATACACTCGCACAATGC
Found at i:52786954 original size:35 final size:36
Alignment explanation
Indices: 52786848--52787030 Score: 151
Period size: 37 Copynumber: 5.0 Consensus size: 36
52786838 GGATATAACT
* * * *
52786848 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGTATGTC
1 ACTCGCACAAATGCCTTCGGG-ATTAGCCCGG-ATATA
* *
52786885 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT-
1 ACTCGCACAAATGCCTTCGGGA-TTAGCCCGGATATA
*
52786921 AGTCGCACCAAATGCCTTCGGG-TTAGCCCGGATATAA
1 ACTCGCA-CAAATGCCTTCGGGATTAGCCCGGATAT-A
* *
52786958 ACTCGCAC-AATGCCTTC-GGATCTTAGTCCGGATAGTC
1 ACTCGCACAAATGCCTTCGGGA--TTAGCCCGGATA-TA
* *
52786995 ACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 ACTCGCACAAATGCCTTCGGGA-TTAGCCCGGATAT
52787031 CATTCGAATA
Statistics
Matches: 121, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
34 2 0.02
35 22 0.18
36 6 0.05
37 47 0.39
38 41 0.34
39 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (36 bp):
ACTCGCACAAATGCCTTCGGGATTAGCCCGGATATA
Found at i:52787019 original size:110 final size:110
Alignment explanation
Indices: 52786832--52787030 Score: 312
Period size: 110 Copynumber: 1.8 Consensus size: 110
52786822 ATCTTCGGAT
* * *
52786832 TTAGCCGGATATAACTACTCGCACAAGGCCTTCGGGTCTTAGCCCGGTATGTCACTAGCATAAAT
1 TTAGCCGGATATAAC-ACTCGCACAAGGCCTTCGGATCTTAGCCCGGTATGTCACTAGCACAAAA
52786897 GCCTTCGGGACTTAGCCCGGATATAGTCGCACCAAATGCCTTCGGG
65 GCCTTCGGGACTTAGCCCGGATATAGTCGCACCAAATGCCTTCGGG
* *
52786943 TTAGCCCGGATATAA-ACTCGCACAATGCCTTCGGATCTTAGTCCGG-ATAGTCACTAGCACAAA
1 TTAG-CCGGATATAACACTCGCACAAGGCCTTCGGATCTTAGCCCGGTAT-GTCACTAGCACAAA
52787006 AGCCTTCGGGACTTAGCCCGGATAT
64 AGCCTTCGGGACTTAGCCCGGATAT
52787031 CATTCGAATA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
109 2 0.02
110 65 0.80
111 4 0.05
112 10 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (110 bp):
TTAGCCGGATATAACACTCGCACAAGGCCTTCGGATCTTAGCCCGGTATGTCACTAGCACAAAAG
CCTTCGGGACTTAGCCCGGATATAGTCGCACCAAATGCCTTCGGG
Found at i:52794442 original size:40 final size:40
Alignment explanation
Indices: 52794359--52794541 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
52794349 TCGTCACAAG
* * *
52794359 GCCTTCGGGTCTTAGCCCAGATATGGT-ACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
52794398 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * * *
52794438 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
52794478 GCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
52794519 GCCTTCGGGACTTAG-CCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
52794542 CATTCGAATA
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
39 26 0.21
40 75 0.61
41 19 0.15
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:52802470 original size:40 final size:40
Alignment explanation
Indices: 52802387--52802607 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
52802377 ACCCAAGTAT
** * *
52802387 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52802425 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52802465 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
52802505 CTTCGAGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
52802545 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
52802586 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
52802608 CATTCGAATA
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 95 0.63
41 29 0.19
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52810580 original size:40 final size:40
Alignment explanation
Indices: 52810490--52810709 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
52810480 ACCCAAGTAT
* ** * *
52810490 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
52810528 CTTCGAGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
52810568 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** * * *
52810608 CTTGGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
52810648 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
52810689 CTTC-GGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
52810710 CATTCGAATA
Statistics
Matches: 148, Mismatches: 30, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
38 10 0.07
39 17 0.11
40 104 0.70
41 17 0.11
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:52814961 original size:147 final size:147
Alignment explanation
Indices: 52814694--52814985 Score: 566
Period size: 147 Copynumber: 2.0 Consensus size: 147
52814684 TTCATTTGAC
52814694 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
1 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
*
52814759 GTTGAATAATTGAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
66 GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
52814824 CCTTATTAGGTTTCATT
131 CCTTATTAGGTTTCATT
52814841 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
1 TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
*
52814906 GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTGCATTAACTCGATCTATGGATTC
66 GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
52814971 CCTTATTAGGTTTCA
131 CCTTATTAGGTTTCA
52814986 CCCTCATCTG
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (147 bp):
TTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGACTAATAACGTCTAACCCTAG
GTTGAATAATTAAAATCTCTTTCTAATTAACACCCTAGAATTACATTAACTCGATCTATGGATTC
CCTTATTAGGTTTCATT
Found at i:52832173 original size:17 final size:16
Alignment explanation
Indices: 52832134--52832182 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
52832124 ATTCACCAAA
*
52832134 TGATACTATCTGCCAT
1 TGATACTATCTGCCAG
*
52832150 TCAATACTATCTGCCAGG
1 T-GATACTATCTGCCA-G
*
52832168 TGATACAATCTGCCA
1 TGATACTATCTGCCA
52832183 AAGATGTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (16 bp):
TGATACTATCTGCCAG
Found at i:52834781 original size:3 final size:3
Alignment explanation
Indices: 52834773--52834799 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
52834763 AAATAGATAT
52834773 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
52834800 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52834785 original size:24 final size:23
Alignment explanation
Indices: 52834742--52834787 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
52834732 GTGTACAATT
*
52834742 ATAGTATTTATACTTGTTATTAA
1 ATAGTATTTATACTTATTATTAA
52834765 ATAGATATTTATTA-TTATTATTA
1 ATAG-TATTTA-TACTTATTATTA
52834788 TTATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 14 0.70
25 2 0.10
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (23 bp):
ATAGTATTTATACTTATTATTAA
Found at i:52834827 original size:16 final size:16
Alignment explanation
Indices: 52834789--52834830 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
52834779 TTATTATTAT
52834789 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
52834805 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
52834820 TATTAATTATA
1 TATTAATTATA
52834831 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:52842182 original size:16 final size:17
Alignment explanation
Indices: 52842158--52842201 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
52842148 AGTGTTATTG
52842158 TTGAATTGAATGA-GAA
1 TTGAATTGAATGATGAA
*
52842174 TTGAGTTGAATGATGAA
1 TTGAATTGAATGATGAA
*
52842191 TATGTATTGAA
1 T-TGAATTGAA
52842202 ATTGAATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 12 0.52
17 4 0.17
18 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (17 bp):
TTGAATTGAATGATGAA
Found at i:52856836 original size:18 final size:21
Alignment explanation
Indices: 52856813--52856853 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
52856803 CACCCAATTT
52856813 AAGAAGAA-AT-TTG-AAAAA
1 AAGAAGAAGATATTGTAAAAA
52856831 AAGAAGAAGATATTGTAAAAA
1 AAGAAGAAGATATTGTAAAAA
52856852 AA
1 AA
52856854 AAATGTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 3 0.15
21 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (21 bp):
AAGAAGAAGATATTGTAAAAA
Found at i:52856837 original size:21 final size:22
Alignment explanation
Indices: 52856813--52856854 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
52856803 CACCCAATTT
*
52856813 AAGAAGAAATT-TGAAAAAAAG
1 AAGAAGAAATTGTAAAAAAAAG
*
52856834 AAGAAGATATTGTAAAAAAAA
1 AAGAAGAAATTGTAAAAAAAA
52856855 AATGTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (22 bp):
AAGAAGAAATTGTAAAAAAAAG
Found at i:52858548 original size:17 final size:18
Alignment explanation
Indices: 52858526--52858566 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
52858516 TCATAAAAAA
52858526 TTTTAAGAAAACAAT-AT
1 TTTTAAGAAAACAATAAT
* *
52858543 TTTTAAGATAATAATAAT
1 TTTTAAGAAAACAATAAT
52858561 TTTTAA
1 TTTTAA
52858567 AAGGAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTTAAGAAAACAATAAT
Found at i:52859460 original size:26 final size:26
Alignment explanation
Indices: 52859393--52859464 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
52859383 TCTCATACCT
52859393 ATTTTA-CCCTCAATAAAA-TTTGACG
1 ATTTTACCCCT-AATAAAATTTTGACG
* **
52859418 ATTTTACCCATGGTAAAATTTTGACG
1 ATTTTACCCCTAATAAAATTTTGACG
52859444 ATTTTACCCCTAATAAAATTT
1 ATTTTACCCCTAATAAAATTT
52859465 CGAGAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
25 11 0.28
26 28 0.72
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:52877580 original size:79 final size:78
Alignment explanation
Indices: 52877478--52877700 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
52877468 GCTCCTCGTT
* *
52877478 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52877543 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
52877558 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52877621 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
52877636 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
52877699 GA
63 GA
52877701 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:52877595 original size:39 final size:40
Alignment explanation
Indices: 52877478--52877700 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
52877468 GCTCCTCGTT
* *
52877478 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52877518 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52877558 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52877597 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52877636 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52877677 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52877701 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52885502 original size:40 final size:40
Alignment explanation
Indices: 52885458--52885719 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
52885448 GCTCCTCGTT
* *
52885458 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52885498 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52885538 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52885577 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52885616 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52885655 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52885696 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52885720 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52892827 original size:13 final size:13
Alignment explanation
Indices: 52892809--52892835 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52892799 CCAATATTAT
52892809 TGGTATTAGTACC
1 TGGTATTAGTACC
52892822 TGGTATTAGTACC
1 TGGTATTAGTACC
52892835 T
1 T
52892836 ATAATCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (13 bp):
TGGTATTAGTACC
Found at i:52893343 original size:15 final size:15
Alignment explanation
Indices: 52893323--52893352 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
52893313 AATTGTTGTA
52893323 TCTGAACATATCTTT
1 TCTGAACATATCTTT
52893338 TCTGAACATATCTTT
1 TCTGAACATATCTTT
52893353 CCTTTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TCTGAACATATCTTT
Found at i:52896068 original size:23 final size:23
Alignment explanation
Indices: 52896042--52896093 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
52896032 GCCTTTGCAA
52896042 CATATTCTGAGGAGCCTTTT-TGG
1 CATATTCTGAGGAG-CTTTTGTGG
*
52896065 CATATTCTGTGGAGCTTTTGTGG
1 CATATTCTGAGGAGCTTTTGTGG
52896088 CATATT
1 CATATT
52896094 TTGTAATGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (23 bp):
CATATTCTGAGGAGCTTTTGTGG
Found at i:52897882 original size:42 final size:41
Alignment explanation
Indices: 52897835--52897988 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 41
52897825 TACCATACCA
*
52897835 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAAG-AATCTCATATCG
* * * *
52897877 ATGCCAATAGCCTA-ACTATGGTCTTACACAAAATCTCATATTG
1 ATGCC-ATATCCCAGA-TATGGTCTTACA-AGAATCTCATATCG
* *
52897920 GTGCCAAATCCCAGATATGGTCTTACAAGAAGTCTCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACAAGAA-TCTCATATC-G
*
52897962 ATGTCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
52897989 CATAAACTTA
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 55 0.60
43 34 0.37
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAATCTCATATCG
Found at i:52903986 original size:25 final size:26
Alignment explanation
Indices: 52903936--52903991 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
52903926 TGCTCTTTCA
*
52903936 AGCT-ATGAACAGTAAGCTCCTCTTG
1 AGCTGATGAACAGTAAGCTCCTATTG
*
52903961 AGCTGATGGACAGTAAGCT-CTATTG
1 AGCTGATGAACAGTAAGCTCCTATTG
52903986 AGCTGA
1 AGCTGA
52903992 AATGATAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (26 bp):
AGCTGATGAACAGTAAGCTCCTATTG
Found at i:52907627 original size:15 final size:16
Alignment explanation
Indices: 52907607--52907636 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52907597 AAGATCTTAT
52907607 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
52907622 AATCATAACCTTACT
1 AATCATAACCTTACT
52907637 AAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:52907854 original size:42 final size:41
Alignment explanation
Indices: 52907807--52907960 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
52907797 TACCATACCA
*
52907807 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAAG-AATCTCATATCG
* * * * *
52907849 ATGCCAATAGCCTA-ACTACGGTCTTACACAAAATCTCATATTG
1 ATGCC-ATATCCCAGA-TATGGTCTTACA-AGAATCTCATATCG
* * *
52907892 GTGCCAAATCCCAAATATGGTCTTACAAGAAGTCTCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACAAGAA-TCTCATATC-G
*
52907934 ATGTCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
52907961 CATAAACTTA
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
41 3 0.03
42 53 0.60
43 33 0.37
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAATCTCATATCG
Found at i:52917338 original size:28 final size:28
Alignment explanation
Indices: 52917305--52917360 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
52917295 AAATAAAAAC
52917305 TCTTAAATAAAATAGTGGTAAAATACTA
1 TCTTAAATAAAATAGTGGTAAAATACTA
52917333 TCTTAAATAAAATAGTGGTAAAATACTA
1 TCTTAAATAAAATAGTGGTAAAATACTA
52917361 AGCAATTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (28 bp):
TCTTAAATAAAATAGTGGTAAAATACTA
Found at i:52930928 original size:13 final size:13
Alignment explanation
Indices: 52930910--52930935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52930900 GCTCGACAGG
52930910 GACACGCCCGTGT
1 GACACGCCCGTGT
52930923 GACACGCCCGTGT
1 GACACGCCCGTGT
52930936 TCGATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:52936085 original size:27 final size:27
Alignment explanation
Indices: 52936054--52936231 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52936044 TAAATTGTAC
52936054 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52936081 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52936107 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52936135 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52936163 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52936190 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52936217 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52936232 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52936168 original size:82 final size:81
Alignment explanation
Indices: 52936055--52936210 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52936045 AAATTGTACA
* *
52936055 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
52936119 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52936136 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
52936201 TGCGAGTTGA
65 TGCGAATTGA
52936211 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52936222 original size:82 final size:81
Alignment explanation
Indices: 52936051--52936231 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
52936041 GATTAAATTG
* *
52936051 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
52936116 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
52936132 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
52936196 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
52936214 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52936232 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52940439 original size:35 final size:35
Alignment explanation
Indices: 52940395--52940478 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
52940385 ACATGTGAGT
*
52940395 TTATATTGAATTTGTGTATTCGG-TCATATGCGAAG
1 TTATATTGAATTTGTATATTCGGCT-ATATGCGAAG
* * * *
52940430 TTATCTTGAATGTGTATATTCGGCTATATGTGATG
1 TTATATTGAATTTGTATATTCGGCTATATGCGAAG
*
52940465 TTCTATTGAATTTG
1 TTATATTGAATTTG
52940479 AATTATAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.46
Consensus pattern (35 bp):
TTATATTGAATTTGTATATTCGGCTATATGCGAAG
Found at i:52948833 original size:21 final size:20
Alignment explanation
Indices: 52948805--52948843 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
52948795 CAAAACTTGT
52948805 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
52948825 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
52948844 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:52950276 original size:111 final size:110
Alignment explanation
Indices: 52950137--52950361 Score: 414
Period size: 111 Copynumber: 2.0 Consensus size: 110
52950127 GCATACTGAC
* *
52950137 TTTAATTCAATTTCAACACCAGGGGAAACACGGCCGCGCAACATGACCATGTGTCACACACGGCT
1 TTTAATTCAATTTCAACACCAGGGGAAACAAGGCCACGCAACATGACCATGTGTCACACACGGCT
52950202 AAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
66 AAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
*
52950247 TTTAATTTCAATTTCAACACCTGGGGAAACAAGGCCACGCAACATGACCATGTGTCACACACGGC
1 TTTAA-TTCAATTTCAACACCAGGGGAAACAAGGCCACGCAACATGACCATGTGTCACACACGGC
52950312 TAAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
65 TAAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
52950358 TTTA
1 TTTA
52950362 CCAAGCCATT
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
110 5 0.05
111 106 0.95
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (110 bp):
TTTAATTCAATTTCAACACCAGGGGAAACAAGGCCACGCAACATGACCATGTGTCACACACGGCT
AAGACACACGTCCGTGTCTCTACCCATGTGGACAAAAATAGGCCA
Found at i:52951278 original size:42 final size:42
Alignment explanation
Indices: 52951212--52951295 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
52951202 GCCATAGTCC
*
52951212 AACTATGGTTTTACACATTCGTCGCCAAGGCCCTACCATGGT
1 AACTATGGTTTTACAAATTCGTCGCCAAGGCCCTACCATGGT
*
52951254 AACTATGGTTTTACAAATTTGTCGCCAAGGCCCTACCATGGT
1 AACTATGGTTTTACAAATTCGTCGCCAAGGCCCTACCATGGT
52951296 CTTACATTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (42 bp):
AACTATGGTTTTACAAATTCGTCGCCAAGGCCCTACCATGGT
Found at i:52951622 original size:12 final size:13
Alignment explanation
Indices: 52951597--52951626 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
52951587 AAGTAATCAA
52951597 AATCAACTTATTT
1 AATCAACTTATTT
52951610 AATCAAC-TATTT
1 AATCAACTTATTT
52951622 AATCA
1 AATCA
52951627 CTTTAGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (13 bp):
AATCAACTTATTT
Found at i:52960853 original size:21 final size:21
Alignment explanation
Indices: 52960814--52960853 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52960804 ACACGGTGTT
* *
52960814 GAGGAAACAATGTGGGAACTA
1 GAGGAAACAATGAGAGAACTA
*
52960835 GAGGATACAATGAGAGAAC
1 GAGGAAACAATGAGAGAAC
52960854 ACTATCCGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.33, T:0.12
Consensus pattern (21 bp):
GAGGAAACAATGAGAGAACTA
Found at i:52968129 original size:47 final size:45
Alignment explanation
Indices: 52967978--52968153 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
52967968 ACATCTCATA
* * * *
52967978 GCCGATGCATGTCCCAGACATGTCTTACACTGGATTACGTCCCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG-CT-CGTCTCAATG
52968024 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG--CTCGTCTCAATG
* *
52968070 GCTGATGCCATGTCCCAGACATGGTCTTACATTAGCTC-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCGTC-TCAA--TG
* *
52968118 GCCGATGCATGTCCCAGACATGTCATACAGTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
52968154 ACACAAATGA
Statistics
Matches: 113, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
45 4 0.04
46 61 0.54
47 31 0.27
48 17 0.15
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTCTCAATG
Found at i:52971374 original size:13 final size:13
Alignment explanation
Indices: 52971356--52971380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52971346 ATTCAAATTT
52971356 ATTATTAGGATAC
1 ATTATTAGGATAC
52971369 ATTATTAGGATA
1 ATTATTAGGATA
52971381 GGATAATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTATTAGGATAC
Found at i:52972106 original size:13 final size:14
Alignment explanation
Indices: 52972088--52972116 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
52972078 AAGGGATATG
52972088 GTTAAAAT-TTTAA
1 GTTAAAATATTTAA
52972101 GTTAAAATATTTAA
1 GTTAAAATATTTAA
52972115 GT
1 GT
52972117 CGGGTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (14 bp):
GTTAAAATATTTAA
Found at i:52973487 original size:27 final size:27
Alignment explanation
Indices: 52973389--52973495 Score: 101
Period size: 28 Copynumber: 3.9 Consensus size: 27
52973379 CTGCCAGTAA
* * *
52973389 AGATA-TTGTGACAGAGTCACCAAATAC
1 AGATATTTGTGGCAGAGCCACCAGAT-C
* * *
52973416 AGATAATTGTGGCAGGGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAG-ATC
*
52973444 AGATATTTAT-GCTAGAGCCACCAGATC
1 AGATATTTGTGGC-AGAGCCACCAGATC
*
52973471 AGGTATTTGTGGCAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
52973496 ACACTTCCTC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 29 0.45
28 35 0.54
29 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
AGATATTTGTGGCAGAGCCACCAGATC
Found at i:52974601 original size:17 final size:17
Alignment explanation
Indices: 52974576--52974608 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52974566 TCAGATATGG
52974576 AGAAAAGAAAAGATGAA
1 AGAAAAGAAAAGATGAA
*
52974593 AGAAGAGAAAAGATGA
1 AGAAAAGAAAAGATGA
52974609 GAATGGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (17 bp):
AGAAAAGAAAAGATGAA
Found at i:52976669 original size:21 final size:21
Alignment explanation
Indices: 52976594--52976659 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
52976584 GTCTTGAATT
52976594 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
52976615 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
52976640 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
52976660 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:52977936 original size:29 final size:30
Alignment explanation
Indices: 52977899--52977959 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
52977889 TTTGATTTAG
* *
52977899 AAAACAATTTAAAGTATAAATTTAT-TAAA
1 AAAACAATTTAAAATATAAATATATGTAAA
*
52977928 AAAATAATTTAAAATATAAATATATGTAAA
1 AAAACAATTTAAAATATAAATATATGTAAA
52977958 AA
1 AA
52977960 CAGCTTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAACAATTTAAAATATAAATATATGTAAA
Found at i:52978059 original size:19 final size:20
Alignment explanation
Indices: 52978035--52978078 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
52978025 TCCAAACACT
52978035 AGAAAAGTAAATC-GTTTCC
1 AGAAAAGTAAATCAGTTTCC
*
52978054 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCAGTTTCC
52978074 AGAAA
1 AGAAA
52978079 TCATTTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (20 bp):
AGAAAAGTAAATCAGTTTCC
Found at i:52978099 original size:14 final size:14
Alignment explanation
Indices: 52978062--52978092 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52978052 CCAGAAAAGT
52978062 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
52978076 AAATCATTTTCCGG
1 AAATCATTTTCCAG
52978090 AAA
1 AAA
52978093 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:52984327 original size:46 final size:44
Alignment explanation
Indices: 52984229--52984443 Score: 157
Period size: 46 Copynumber: 4.7 Consensus size: 44
52984219 ATAACTGTAT
* * * *
52984229 CGATGCCATGTTCCAGGCATGATCTTACACTGAC-ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTTCATCT-G-AGGC
*
52984275 CAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCCTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CAT-CTGAGGC
* * * *
52984321 CGATGCATGTCCTAGACATGTCTTACACTAGAACTTC-TCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-G-GCTTCATCT-GAGGC
** * * *
52984367 TAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTGAGGC
*
52984415 CGATGCATGTCCTAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
52984444 AGCTCACAGA
Statistics
Matches: 135, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 56 0.41
47 32 0.24
48 19 0.14
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTGAGGC
Found at i:52984393 original size:94 final size:92
Alignment explanation
Indices: 52984276--52984445 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 92
52984266 TCTCGTAGCC
* **
52984276 AATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCCTGAGGCCGATGCATGTCCTAGACAT
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATAATGAGGCCGATGCATGTCCTAGACAT
52984340 GTCTTACACTAGAACTTCTCTCAATGCT
65 GTCTTACACTAGAACTTCTCTCAATGCT
*
52984368 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCTAGACA
1 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGAGGCCGATGCATGTCCTAGACA
52984433 TGTCTTACACTAG
64 TGTCTTACACTAG
52984446 CTCACAGAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 52 0.73
95 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (92 bp):
AATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCCGATGCATGTCCTAGACATG
TCTTACACTAGAACTTCTCTCAATGCT
Found at i:52984447 original size:46 final size:46
Alignment explanation
Indices: 52984277--52984448 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
52984267 CTCGTAGCCA
* ** *
52984277 ATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCCTGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATAATGTGGCCG
* **
52984323 ATGCATGTCCTAGACATGTCTTACACTAGAACTTCTC-TCAA--T-GCTA
1 ATGCATGTCCCAGACATGTCTTACACTAG--C-TCTCAT-AATGTGGCCG
52984369 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGGCCG
*
52984417 ATGCATGTCCTAGACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
52984449 ACAGAAATGA
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
45 6 0.06
46 49 0.47
47 27 0.26
48 19 0.18
49 2 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGGCCG
Found at i:52991652 original size:25 final size:24
Alignment explanation
Indices: 52991598--52991659 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
52991588 AGATTCAGTT
* *
52991598 TTTTCTTCTTCTTTTTCTTCTTTTC
1 TTTTCTT-TTCTTTTTCTTCTCTAC
52991623 TTTTCTTTTCTTTTCTCTTCATCTAC
1 TTTTCTTTTCTTTT-TCTTC-TCTAC
52991649 -TTTCTTTTCTT
1 TTTTCTTTTCTT
52991660 CTTTTCCTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 7 0.21
25 23 0.70
26 3 0.09
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCTTTTCTTTTTCTTCTCTAC
Found at i:52991657 original size:5 final size:5
Alignment explanation
Indices: 52991598--52991638 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
52991588 AGATTCAGTT
*
52991598 TTTTC TTCTTC TTTT- TCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
52991639 CTTCATCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:52995811 original size:40 final size:40
Alignment explanation
Indices: 52995756--52996112 Score: 570
Period size: 40 Copynumber: 8.9 Consensus size: 40
52995746 GCATGAGCAT
52995756 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
52995796 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
52995836 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
52995876 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
52995916 TTGATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
52995956 TTGATATATCTGGGCTAAAACCCGAAGACATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
52995996 TTGATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
52996036 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
52996076 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
52996113 TTGCGGTTAT
Statistics
Matches: 289, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 289 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:53004149 original size:40 final size:40
Alignment explanation
Indices: 53004094--53004421 Score: 548
Period size: 40 Copynumber: 8.2 Consensus size: 40
53004084 GCATGAGCAT
53004094 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
53004134 TTGATATATCCGGGCTAAGACCCGAAGGCAATTCTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
53004174 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTACGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
53004214 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
53004254 TTGATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
53004294 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
53004334 TTGATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
53004374 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
53004414 TTGCTATA
1 TTGATATA
53004422 CCCGACCTTG
Statistics
Matches: 266, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 266 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:53007500 original size:42 final size:42
Alignment explanation
Indices: 53007394--53007507 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
53007384 CGTACCAATG
* * * *
53007394 CCATATCCCAGATATGGTCATACATGTAATCTCATATCGATT
1 CCATATCCCAGATATGGTCTTACACGTAATCCCATATCGATA
* ** *
53007436 CCAATATCCCAGCTATTATCTTATACG-AAGTCCCATATCGATA
1 CC-ATATCCCAGATATGGTCTTACACGTAA-TCCCATATCGATA
*
53007479 CCATATCCCAGATATGGTCTTACATGTAA
1 CCATATCCCAGATATGGTCTTACACGTAA
53007508 ATCTCAGTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
42 23 0.41
43 33 0.59
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGTAATCCCATATCGATA
Found at i:53009672 original size:116 final size:116
Alignment explanation
Indices: 53009468--53009700 Score: 466
Period size: 116 Copynumber: 2.0 Consensus size: 116
53009458 CAGTTAGGAG
53009468 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
1 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
53009533 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
66 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
53009584 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
1 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
53009649 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
66 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
53009700 A
1 A
53009701 TTTTGGTTTT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (116 bp):
ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
Found at i:53011595 original size:25 final size:25
Alignment explanation
Indices: 53011567--53011622 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
53011557 ATGGAGGAAG
53011567 CATACTGATACTGGTGGCTTTGCCA
1 CATACTGATACTGGTGGCTTTGCCA
* *
53011592 CATATATTGTTACTGGTGGCTTTGCCA
1 C--ATACTGATACTGGTGGCTTTGCCA
53011619 CATA
1 CATA
53011623 TCTATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
27 23 0.85
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (25 bp):
CATACTGATACTGGTGGCTTTGCCA
Found at i:53015372 original size:27 final size:27
Alignment explanation
Indices: 53015332--53015414 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
53015322 TGGAGGAAGC
* *
53015332 ATACTGATACTGGTGGCTTCGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
*
53015359 ATACTGTTATTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
53015386 ATACTGTTACTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
53015413 AT
1 AT
53015415 CTATTGATAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
ATACTGTTACTGGTGGCTTTGCCACAT
Found at i:53020301 original size:29 final size:29
Alignment explanation
Indices: 53020266--53020339 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53020256 GTTGTGAGAT
* *
53020266 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53020295 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53020324 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53020340 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53028673 original size:29 final size:30
Alignment explanation
Indices: 53028638--53028711 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
53028628 GTTGTGAGAT
* *
53028638 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGGACTTGAAAGTACA
* *
53028667 TGGCACTAAGTGTGC-GATTTTAAAGTACA
1 TGGCACTAAGTGTGCGGACTTGAAAGTACA
53028696 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53028712 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGGACTTGAAAGTACA
Found at i:53040986 original size:50 final size:50
Alignment explanation
Indices: 53040874--53041237 Score: 269
Period size: 50 Copynumber: 7.5 Consensus size: 50
53040864 AGATGTCGAC
* * * * * * * *
53040874 GCCATGTCCCGGACATGGTCTTACACTGGCTCGC--ACATCAAAGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
53040922 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
* * * *
53040972 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTC-AGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GCCGAT
* * * *
53041022 ACCATGTCCCAGACATGTTCTTACTCTGACACATC-T-TA---A-GCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTC-TCATATATCGAGGCCGAT
* * * * *
53041067 GCTATGTCCCAGACATGGTCTTACGCT-AGCTTTCATATCTCGAGGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCGAT
* * * * **
53041117 GCCATCTCCCAGACATGGTCTTACACT-AGCTCTC--GTCTCAATACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCGAT
* * * *
53041165 GTCATGTCCCAAACATGGTCTTACACT-AGCTCTCATA-AT-GTGGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCGAT
*
53041213 G-CATGTGCCAGACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
53041238 AGTACACATA
Statistics
Matches: 255, Mismatches: 48, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
44 3 0.01
45 30 0.12
46 11 0.04
47 13 0.05
48 76 0.30
49 5 0.02
50 115 0.45
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
Found at i:53041127 original size:95 final size:95
Alignment explanation
Indices: 53040874--53041201 Score: 277
Period size: 98 Copynumber: 3.4 Consensus size: 95
53040864 AGATGTCGAC
* * * * ** * *
53040874 GCCATGTCCCGGACATGGTCTTACACTGGCTCGCACATCAAAGT--CAATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAGTGCCAATACCATCTCCCAGACA
* *
53040937 TGGTCTTACACTGACTC-TCATATATCGAGGCCGAT
66 TGGTCTTACTCTGACACATC-T-TA---A-GCCGAT
* * * *
53040972 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTCAGTGCCAATACCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAGTGCCAATACCATCTCCCAGACA
*
53041037 TGTTCTTACTCTGACACATCTTAAGCCGAT
66 TGGTCTTACTCTGACACATCTTAAGCCGAT
* * * ** *
53041067 GCTATGTCCCAGACATGGTCTTACGCTAGCTTTCATATCTCGAG-GCTGATGCCATCTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC-AGTGCCAATACCATCTCCCAGAC
* * * * * *
53041131 ATGGTCTTACACTAGCTCTCGTCTCAATACCGAT
65 ATGGTCTTACTCT-G-ACACATCTTAA-GCCGAT
* *
53041165 GTCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
53041202 ATGTGGCCAA
Statistics
Matches: 190, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
95 68 0.36
96 4 0.02
97 7 0.04
98 74 0.39
99 2 0.01
100 33 0.17
101 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (95 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAGTGCCAATACCATCTCCCAGACA
TGGTCTTACTCTGACACATCTTAAGCCGAT
Found at i:53041224 original size:145 final size:144
Alignment explanation
Indices: 53040875--53041239 Score: 366
Period size: 145 Copynumber: 2.5 Consensus size: 144
53040865 GATGTCGACG
** * *
53040875 CCATGTCCCGGACATGGTCTTACACTGGCTCGCACATCA-AAGTCAATGCCATGTCCCAGACATG
1 CCATGTCCCAAACATGGTCTTACACT-G---ACACATCATAAGCCAATG-CATGTCCCAGACATG
* *
53040939 GTCTTACACT-GACTCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
61 GTCTTACACTAGACTCTCATATATCGAGGCCGATGCCATCTCCCAGACATGGTCTTACACTAGCT
* *
53041003 CTCATCTGTCAGTGCCAATA
126 CTCATC-GTCAATACCAATA
* * * * *
53041023 CCATGTCCCAGACATGTTCTTACTCTGACACATCTTAAGCCGATGCTATGTCCCAGACATGGTCT
1 CCATGTCCCAAACATGGTCTTACACTGACACATCATAAGCCAATGC-ATGTCCCAGACATGGTCT
* * * * *
53041088 TACGCTAG-CTTTCATATCTCGAGGCTGATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCG
65 TACACTAGACTCTCATATATCGAGGCCGATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCA
* *
53041152 TC-TCAATACCGATG
130 TCGTCAATACCAATA
* * *
53041166 TCATGTCCCAAACATGGTCTTACACT-AGCTC-TCATAATGTGGCCAATGCATGTGCCAGACAT-
1 CCATGTCCCAAACATGGTCTTACACTGA-CACATCATAA----GCCAATGCATGTCCCAGACATG
53041228 GTCTTACACTAG
61 GTCTTACACTAG
53041240 TACACATATC
Statistics
Matches: 182, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
142 6 0.03
143 32 0.18
144 18 0.10
145 94 0.52
146 8 0.04
147 1 0.01
148 23 0.13
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (144 bp):
CCATGTCCCAAACATGGTCTTACACTGACACATCATAAGCCAATGCATGTCCCAGACATGGTCTT
ACACTAGACTCTCATATATCGAGGCCGATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCAT
CGTCAATACCAATA
Found at i:53044679 original size:29 final size:29
Alignment explanation
Indices: 53044642--53044718 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
53044632 TGAATGTGAC
* *
53044642 TGGGCCTAACGGGCCATATA-AATGTTATT
1 TGGGCCTAATGGGCCATATACAA-GTGATT
*
53044671 TGGGCCTAATGGGCCATGTACAAGTGATT
1 TGGGCCTAATGGGCCATATACAAGTGATT
53044700 TGGGCCTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
53044719 GAATATGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 41 0.95
30 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAAGTGATT
Found at i:53044739 original size:28 final size:29
Alignment explanation
Indices: 53044629--53044739 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 29
53044619 GTGAGCATGA
* * *
53044629 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* * *
53044657 ATATAAATGTTATTTGGGCCTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
*
53044686 ATGT-ACA-AGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATA-TGATTTGGGCCTAATGGGCC
*
53044715 ATATGAATATGA-TTGGGCTTAATGG
1 ATATGAATATGATTTGGGCCTAATGG
53044740 TCCAGATACA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
28 23 0.33
29 44 0.64
30 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Done.