Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 175 of 311
Found at i:59492352 original size:40 final size:40
Alignment explanation
Indices: 59492209--59492345 Score: 195
Period size: 40 Copynumber: 3.4 Consensus size: 40
59492199 TGTTATACTC
*
59492209 TCTGTTTGGCATGTTTCGGTTGGATCAGCTCTTATGAGCT
1 TCTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCT
* ** *
59492249 TCTATTTGATGTGTTTCGGTTGGATCAGCTATTATGAGCT
1 TCTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCT
*
59492289 TCTGTTTGGTGTGTTTCGGTTGGAGT-AGCTCTTATGAGCT
1 TCTGTTTGGCGTGTTTCGGTTGGA-TCAGCTCTTATGAGCT
*
59492329 TTTGTTTGGCGTGTTTC
1 TCTGTTTGGCGTGTTTC
59492346 AATTGGATTA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 85 0.99
41 1 0.01
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.46
Consensus pattern (40 bp):
TCTGTTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCT
Found at i:59498506 original size:25 final size:24
Alignment explanation
Indices: 59498469--59498631 Score: 96
Period size: 24 Copynumber: 6.7 Consensus size: 24
59498459 GAAATGACAT
*
59498469 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
*
59498494 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
** * *
59498518 TTACATTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
59498542 TGTCAATACGAGTGTGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* * *
59498569 -GGCACTATGTCTGCAGG-TTAGCA
1 TGGCACTATGTGTGC-GGATTTGAA
* * * *
59498592 TGGCACTAAGTGTACCGATTTCAA
1 TGGCACTATGTGTGCGGATTTGAA
*
59498616 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
59498632 AAATCGATTG
Statistics
Matches: 99, Mismatches: 33, Indels: 13
0.68 0.23 0.09
Matches are distributed among these distances:
23 2 0.02
24 61 0.62
25 19 0.19
26 15 0.15
27 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:59500634 original size:18 final size:18
Alignment explanation
Indices: 59500611--59500645 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
59500601 TGTTTGTGTG
59500611 CTTAATTTG-ATAAAAGGA
1 CTTAA-TTGCATAAAAGGA
59500629 CTTAATTGCATAAAAGG
1 CTTAATTGCATAAAAGG
59500646 TAAAAGTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (18 bp):
CTTAATTGCATAAAAGGA
Found at i:59505079 original size:18 final size:18
Alignment explanation
Indices: 59505056--59505091 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59505046 CTCTAAAATG
59505056 ATATACATACAATTCCTT
1 ATATACATACAATTCCTT
59505074 ATATACATACAATTCCTT
1 ATATACATACAATTCCTT
59505092 GGTTACCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATACATACAATTCCTT
Found at i:59510070 original size:49 final size:49
Alignment explanation
Indices: 59510011--59510235 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
59510001 CTGGTACGCA
* * * *
59510011 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
59510060 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * * *
59510109 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
59510159 TAGTATCCTGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-TTATCCGGTACACG
*
59510210 TAGCAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59510236 TGCGACCTCA
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 79 0.52
50 43 0.28
51 30 0.20
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:59512241 original size:164 final size:164
Alignment explanation
Indices: 59511961--59512288 Score: 593
Period size: 164 Copynumber: 2.0 Consensus size: 164
59511951 CTGGAGTAAT
* * *
59511961 TGCACACGGGTGTGTCACACGGGCGTGTCCCTACCGAGCCCAAGTATAGCCCTATTCGAAAAAGG
1 TGCACACGGGTGTGTCACACGGGCATGTCACTACCGAGCCCAAGTATAGCCCTATTCAAAAAAGG
* *
59512026 CCAATTTTAAGGGCTCTTAGGCATTCTAAATCCTATTTAAACACTTGAGGAGGCACTTAGGAAGG
66 CCAATTTTAAGGGCTCTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGGAAGG
59512091 GAGACGCAGAGTAAGAGGCAAGGAATTACTCAAG
131 GAGACGCAGAGTAAGAGGCAAGGAATTACTCAAG
*
59512125 TGCACATGGGTGTGTCACACGGGCATGTCACTACCGAGCCCAAGTATAGCCCTATTCAAAAAAGG
1 TGCACACGGGTGTGTCACACGGGCATGTCACTACCGAGCCCAAGTATAGCCCTATTCAAAAAAGG
59512190 CCAATTTTAAGGGCTCTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGGAAGG
66 CCAATTTTAAGGGCTCTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGGAAGG
*
59512255 GAGATGCAGAGTAAGAGGCAAGGAATTACTCAAG
131 GAGACGCAGAGTAAGAGGCAAGGAATTACTCAAG
59512289 GGAAGTCGAT
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
164 157 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (164 bp):
TGCACACGGGTGTGTCACACGGGCATGTCACTACCGAGCCCAAGTATAGCCCTATTCAAAAAAGG
CCAATTTTAAGGGCTCTTAGGCATTCTAAAGCCTATTTAAACACCTGAGGAGGCACTTAGGAAGG
GAGACGCAGAGTAAGAGGCAAGGAATTACTCAAG
Found at i:59518760 original size:18 final size:17
Alignment explanation
Indices: 59518734--59518768 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59518724 CACTATTAAA
59518734 ATGAATTTTAATTGATAT
1 ATGAATTTT-ATTGATAT
*
59518752 ATGATTTTTATTGATAT
1 ATGAATTTTATTGATAT
59518769 GTCTTGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (17 bp):
ATGAATTTTATTGATAT
Found at i:59539088 original size:46 final size:45
Alignment explanation
Indices: 59539019--59539189 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
59539009 GTAACCCGCC
* *
59539019 CCTAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
59539064 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * ** *
59539114 -CTCA-CGAACTCGGACTCAACTCAACAAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
59539157 CTGTAAGTGAACTTGGACTCAACTCAACGAGTT
1 C-CTAAGTGAACTCGGACTCAACTCAACGAGTT
59539190 TGGATGCTCA
Statistics
Matches: 101, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 4 0.04
46 54 0.53
47 26 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:59539134 original size:93 final size:93
Alignment explanation
Indices: 59539026--59539196 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
59539016 GCCCCTAAGT
* * ** *
59539026 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59539091 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
59539119 GAACTCGGACTCAACTCAACAAGTTCGAACATTCGCATCTGTAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
59539184 CGAGTTTGGATGC
66 CGAGTTCGGATGC
59539197 TCAACCATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59539769 original size:12 final size:12
Alignment explanation
Indices: 59539752--59539777 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59539742 GGCAACATCA
59539752 AATTCTCACTCT
1 AATTCTCACTCT
59539764 AATTCTCACTCT
1 AATTCTCACTCT
59539776 AA
1 AA
59539778 CATGTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTCTCACTCT
Found at i:59544461 original size:27 final size:27
Alignment explanation
Indices: 59544430--59544607 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
59544420 TAAATTGTAC
59544430 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** * *
59544457 TGCACTAAGTGTGCGAAATAAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59544483 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* * *
59544511 GGCACTAAGTGTGCAAGTTTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59544539 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59544566 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59544593 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59544608 GACTCAATAT
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 102 0.83
28 21 0.17
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59544571 original size:82 final size:81
Alignment explanation
Indices: 59544431--59544586 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
59544421 AAATTGTACA
* * * *
59544431 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATAAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCAATTTAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCACTAAGTGT
59544496 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
59544512 GCACTAAGTGTGCAAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCAA-TTTAACTATGTAGCACTAAGTGTGCGAAATAAATACGAT-GCACTAAGT
*
59544576 GTGCGAGTTGA
64 GTGCGAATTGA
59544587 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCAATTTAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59544598 original size:82 final size:81
Alignment explanation
Indices: 59544427--59544606 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 81
59544417 GATTAAATTG
* * * *
59544427 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATAAATATGATGCACTAA
1 TACAGCACTAAGTGTGCAATTTAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCACTAA
59544492 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** * *
59544508 TGCGGCACTAAGTGTGCAAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCAA-TTTAACTATGTAGCACTAAGTGTGCGAAATAAATACGAT-GCACT
* **
59544572 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59544590 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
59544607 GGACTCAATA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 63 0.79
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCAATTTAACTATGTAGCACTAAGTGTGCGAAATAAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59549872 original size:93 final size:93
Alignment explanation
Indices: 59549764--59549934 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
59549754 GCCCCTAAGT
* ** *
59549764 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
59549829 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
59549857 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
59549922 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59549935 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59549922 original size:46 final size:45
Alignment explanation
Indices: 59549757--59549929 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
59549747 GTAACCCGCC
* * ** *
59549757 CCTAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCACAT
* *
59549802 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCACAT
* * *
59549852 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCACAT
59549895 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCG
59549930 GATGCTCAAC
Statistics
Matches: 105, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.54
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCACAT
Found at i:59559612 original size:79 final size:80
Alignment explanation
Indices: 59559513--59559733 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
59559503 CTCGTTCAAG
* * ** * *
59559513 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
59559576 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
59559592 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
59559657 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
59559672 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
59559734 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:59559664 original size:80 final size:80
Alignment explanation
Indices: 59559553--59559733 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
59559543 CTCATTCAAT
* * *
59559553 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
59559616 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
59559632 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
59559696 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
59559713 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
59559734 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:59559693 original size:40 final size:40
Alignment explanation
Indices: 59559550--59559733 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
59559540 TAACTCATTC
* *
59559550 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
59559590 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
59559630 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
59559670 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
59559711 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59559734 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:59567500 original size:79 final size:80
Alignment explanation
Indices: 59567401--59567621 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
59567391 CTCGTTCAAG
* * ** * *
59567401 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
59567464 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
59567480 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
59567545 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
59567560 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
59567622 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:59567552 original size:80 final size:80
Alignment explanation
Indices: 59567441--59567621 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
59567431 CTCATTCAAT
* * *
59567441 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
59567504 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
59567520 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
59567584 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
59567601 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
59567622 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:59567581 original size:40 final size:40
Alignment explanation
Indices: 59567438--59567621 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
59567428 TAACTCATTC
* *
59567438 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
59567478 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
59567518 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
59567558 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
59567599 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59567622 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:59573182 original size:43 final size:43
Alignment explanation
Indices: 59573094--59573232 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 43
59573084 GTGATTACAG
* *
59573094 GTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTATAT
1 GTAAGACCATGTCTAGGACATTGGCATCGTAATGAGATTATAT
*
59573137 GTAAGACCATGTCTAGGACATTGGCATCGTTAAT-CGATT-TCAT
1 GTAAGACCATGTCTAGGACATTGGCATCG-TAATGAGATTAT-AT
* * * * * * * *
59573180 GTAAGACCCTGTTTGGGACAATGGCTTCG-ATATGTGATAACAT
1 GTAAGACCATGTCTAGGACATTGGCATCGTA-ATGAGATTATAT
59573223 GTAAGACCAT
1 GTAAGACCAT
59573233 ATTTGAGATA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 72 0.91
44 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GTAAGACCATGTCTAGGACATTGGCATCGTAATGAGATTATAT
Found at i:59579198 original size:43 final size:42
Alignment explanation
Indices: 59579100--59579229 Score: 115
Period size: 43 Copynumber: 3.1 Consensus size: 42
59579090 GGTTACCGAG
* * * *
59579100 ATGTGATTATATGTAAGACCATGTCTAGGACATTGGCATTGT
1 ATGTGATTACATGTAAGTCCATGTCTGGGACAGTGGCATTGT
59579142 AT-TGACATTACATGTAAGTCCATGTCTGGGACAGTGGC-TTCGAT
1 ATGTG--ATTACATGTAAGTCCATGTCTGGGACAGTGGCATT-G-T
* * * *
59579186 ATGTGATAACATGTAAGAT-CATATCTGGGATA-TGGCATTAT
1 ATGTGATTACATGTAAG-TCCATGTCTGGGACAGTGGCATTGT
59579227 ATG
1 ATG
59579230 AACTTATGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
41 6 0.08
42 8 0.11
43 53 0.73
44 4 0.05
45 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGTCCATGTCTGGGACAGTGGCATTGT
Found at i:59582228 original size:43 final size:42
Alignment explanation
Indices: 59582160--59582274 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 42
59582150 TCTCATACAT
* * *
59582160 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATTGA
1 TGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATA-CGA
59582203 TG-CAACAGTCCCAGACAG-GGTCTTACACGAAATCAAATACGA
1 TGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATACGA
* *
59582245 TGCCAACGTCCCAGATGTGGTCTTATACGA
1 TGCCAACGTCCCAGACGTGGTCTTACACGA
59582275 TAACACATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.02
42 27 0.43
43 34 0.54
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
TGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATACGA
Found at i:59590847 original size:39 final size:39
Alignment explanation
Indices: 59590744--59590939 Score: 227
Period size: 39 Copynumber: 4.9 Consensus size: 39
59590734 TTGAATGATG
* *
59590744 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
59590783 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
59590824 TCCGGGCTAAGCCGGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59590863 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
59590902 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
59590940 TAACCGGGCG
Statistics
Matches: 139, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 72 0.52
40 55 0.40
41 11 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59590947 original size:40 final size:39
Alignment explanation
Indices: 59590744--59590967 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 39
59590734 TTGAATGATG
* * *
59590744 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
59590784 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
59590823 TTCCGGGCTAAG-CCGGAAGGCATTTGTGCGAGATACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
59590862 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
59590902 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
59590942 ACCGGGCGATGTCCCGAAGGCTTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59590968 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 72 0.45
40 80 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:59590989 original size:79 final size:79
Alignment explanation
Indices: 59590797--59591000 Score: 191
Period size: 79 Copynumber: 2.6 Consensus size: 79
59590787 GGACTAAGAT
** * * * * * *
59590797 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCGGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
* *
59590861 ATTCCGGGCTAAGC
66 ATACCGGGCGAAGC
** * *
59590875 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
59590939 ATAACCGGGCGATGTC
66 AT-ACCGGGCGAAG-C
* * *
59590955 CCGAAGGCTTTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
59591001 TACGTGATTT
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
78 34 0.32
79 47 0.45
80 24 0.23
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCGAAGC
Found at i:59594016 original size:39 final size:39
Alignment explanation
Indices: 59593961--59594086 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
59593951 GACTTAATGG
*
59593961 CTAGCAGGCCTCGTGCCGGTAATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* * *
59594000 CTAGTAGGCCTTGTGCCGGTGATAAATTTAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* * * *
59594039 CTAGCAGGCCTCGTGCCGGTGTTAAGTCCGGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
59594078 CTAGCAGGC
1 CTAGCAGGC
59594087 AAAATGCCGG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:59601562 original size:40 final size:40
Alignment explanation
Indices: 59601488--59601712 Score: 312
Period size: 40 Copynumber: 5.6 Consensus size: 40
59601478 AACCCAAGTA
* * * *
59601488 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
59601527 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59601567 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
59601610 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59601650 CCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59601690 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59601713 CATCCGAATA
Statistics
Matches: 168, Mismatches: 11, Indels: 13
0.88 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 118 0.70
41 1 0.01
43 36 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59601611 original size:83 final size:83
Alignment explanation
Indices: 59601488--59601712 Score: 322
Period size: 83 Copynumber: 2.8 Consensus size: 83
59601478 AACCCAAGTA
* * * *
59601488 CCTTCGAGATTTAG-CCGGATATAG-CA--ACTCGCACACATGCCTTCGGGTCTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
59601549 TAGTCACTAGCACAAATG
66 TAGTCACTAGCACAAATG
* *
59601567 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGAT
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
59601631 ATAGTCACTAGCACAAATG
65 ATAGTCACTAGCACAAATG
*
59601650 CCTTCGGGACTTAGCCCGGATATGGTCACTA---GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
59601712 T
66 T
59601713 CATCCGAATA
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
79 12 0.09
80 41 0.31
81 1 0.01
83 77 0.58
84 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (83 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
TAGTCACTAGCACAAATG
Found at i:59605596 original size:15 final size:15
Alignment explanation
Indices: 59605561--59605606 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
59605551 TTGTAAACTT
59605561 TTGTATTTATTTTTATGG
1 TTGT-TTTA-TTTT-TGG
*
59605579 TTGTTTTGTTTTTGG
1 TTGTTTTATTTTTGG
59605594 TTGTTTTATTTTT
1 TTGTTTTATTTTT
59605607 ATTTCTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 15 0.58
16 4 0.15
17 3 0.12
18 4 0.15
ACGTcount: A:0.09, C:0.00, G:0.17, T:0.74
Consensus pattern (15 bp):
TTGTTTTATTTTTGG
Found at i:59608804 original size:37 final size:37
Alignment explanation
Indices: 59608741--59608816 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
59608731 AGAAAAGCAC
*
59608741 TTTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTTAATATTAAATTAATAAAATACTATTAAAAT-AATA
* *
59608779 TTTAAT-TTAATTTAATATTAA-ACTATTAAAATAATA
1 TTTAATATTAAATTAATA-AAATACTATTAAAATAATA
59608815 TT
1 TT
59608817 ATTTTTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 6 0.18
37 20 0.59
38 8 0.24
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (37 bp):
TTTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:59612198 original size:27 final size:27
Alignment explanation
Indices: 59612161--59612365 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
59612151 TAAATTGTAC
59612161 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59612188 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59612215 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59612241 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59612269 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59612297 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59612324 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59612351 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59612366 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59612300 original size:109 final size:108
Alignment explanation
Indices: 59612162--59612365 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
59612152 AAATTGTACA
* *
59612162 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
59612227 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
59612270 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
59612335 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
59612366 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:59619109 original size:27 final size:27
Alignment explanation
Indices: 59619072--59619276 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
59619062 TAAATTGTAC
59619072 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
59619099 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59619126 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59619152 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59619180 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59619208 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59619235 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59619262 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59619277 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59619211 original size:109 final size:108
Alignment explanation
Indices: 59619073--59619276 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
59619063 AAATTGTACA
* *
59619073 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
59619138 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
59619181 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
59619246 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
59619277 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:59626356 original size:24 final size:24
Alignment explanation
Indices: 59626328--59626374 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
59626318 TCAACATGTC
59626328 AATCTCTTAAAGCTCGAAACATAA
1 AATCTCTTAAAGCTCGAAACATAA
59626352 AATCTCTTAAAGCTCGAAACATA
1 AATCTCTTAAAGCTCGAAACATA
59626375 CATGGTTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (24 bp):
AATCTCTTAAAGCTCGAAACATAA
Found at i:59637170 original size:46 final size:47
Alignment explanation
Indices: 59637001--59637216 Score: 157
Period size: 46 Copynumber: 4.6 Consensus size: 47
59636991 TATGAGAGCA
**
59637001 AGTGTAAGACCATGTCTGGGACATGGCATCGAAATTGA-GACGA-GT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCG--GCT-ACGA-GATGTAGCT
* *
59637049 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGAGATGT-AGCT
* * * *
59637095 AGTATAAGA-TATATCTGGGA-AT-GCATCGGCTACGAGATGT-GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAGCT
* * *
59637138 AGTGTAAGACCCTGTCTGGGACATGGCATCGGC-ACAGATATGCTAGAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTAC-GAGATG-T--AGCT
*
59637188 TGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
59637217 TGGCACCTGC
Statistics
Matches: 136, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
43 11 0.08
44 14 0.10
45 21 0.15
46 37 0.27
47 15 0.11
48 9 0.07
50 29 0.21
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAGCT
Found at i:59641556 original size:53 final size:53
Alignment explanation
Indices: 59641452--59641556 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 53
59641442 TTCCTTTTTA
* * ** *
59641452 AACTTACCATTACCATGTCTTGACATGGTATTATGTGGTATCCTTGCCTTATG
1 AACTCACCATTACCATGCCTTGACATGGTATTACATGGGATCCTTGCCTTATG
* * * * *
59641505 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTAT
1 AACTCACCATTACCATGCCTTGACATGGTATTACATGGGATCCTTGCCTTAT
59641557 AGTAGTTTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
AACTCACCATTACCATGCCTTGACATGGTATTACATGGGATCCTTGCCTTATG
Found at i:59648780 original size:47 final size:47
Alignment explanation
Indices: 59648729--59649014 Score: 468
Period size: 47 Copynumber: 6.1 Consensus size: 47
59648719 TTAGGATTTT
* *
59648729 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
59648776 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
59648823 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
59648870 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* *
59648917 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
59648964 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
59649009 ATGTGA
1 ATGTGA
59649015 AATATATATA
Statistics
Matches: 226, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 24 0.11
47 202 0.89
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:59649043 original size:50 final size:50
Alignment explanation
Indices: 59648973--59649119 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
59648963 AATGTGGTGA
*
59648973 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
*
59649022 ATATGAGATATGCATATGTGGTAAAGGCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* *
59649072 ATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
59649120 GTAGGCGATG
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 7 0.08
50 84 0.92
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:59649377 original size:37 final size:37
Alignment explanation
Indices: 59649269--59649377 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
59649259 GGAAATATAT
* *
59649269 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
59649306 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
59649343 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
59649378 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:59656564 original size:46 final size:47
Alignment explanation
Indices: 59656451--59656573 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 47
59656441 GCCACATTAT
* * * *
59656451 GAGAGCAAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGAGAC
* * * *
59656499 GAGTGCTAATGTAAGACATGCCTGGGACATGG-ATCAGCCTCGAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGAC
59656545 GTA-AGCTAGTGTAAGACATGTCTGGGACA
1 G-AGAGCTAGTGTAAGACATGTCTGGGACA
59656574 CGTATCGACT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 34 0.54
47 16 0.25
48 13 0.21
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGAC
Found at i:59662733 original size:42 final size:42
Alignment explanation
Indices: 59662681--59662772 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
59662671 TGGCCCTTAG
* * ** *
59662681 GCCCAATTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
59662723 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
59662765 GCCCATTT
1 GCCCATTT
59662773 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:59663314 original size:24 final size:23
Alignment explanation
Indices: 59663216--59663316 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 23
59663206 AAAGGCTGTC
59663216 AGGAGAAGATTTAGGAGCTGATA
1 AGGAGAAGATTTAGGAGCTGATA
*
59663239 AGAGAGAGGATTTAGGAGCTGATA
1 AG-GAGAAGATTTAGGAGCTGATA
*
59663263 AGGGAGAGGATTTAGGAGCTGATAA
1 A-GGAGAAGATTTAGGAGCTGAT-A
59663288 AGGAGAAGATTTAGGAGCTGATCA
1 AGGAGAAGATTTAGGAGCTGAT-A
59663312 AGGAG
1 AGGAG
59663317 CAGGAGTTGG
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
23 2 0.03
24 67 0.93
25 3 0.04
ACGTcount: A:0.38, C:0.05, G:0.38, T:0.20
Consensus pattern (23 bp):
AGGAGAAGATTTAGGAGCTGATA
Found at i:59671166 original size:24 final size:24
Alignment explanation
Indices: 59671135--59671225 Score: 139
Period size: 24 Copynumber: 3.8 Consensus size: 24
59671125 GGCTGTTAGA
59671135 AGAAGATTTAGGAGCTGATAAGAG
1 AGAAGATTTAGGAGCTGATAAGAG
* *
59671159 AGAGGATTTAGGAGCTGATAAGGG
1 AGAAGATTTAGGAGCTGATAAGAG
59671183 AGAAGATTTAGGAGCTGATAA-AGG
1 AGAAGATTTAGGAGCTGATAAGA-G
*
59671207 AGAATATTTAGGAGCTGAT
1 AGAAGATTTAGGAGCTGAT
59671226 CAATGAGCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.23
Consensus pattern (24 bp):
AGAAGATTTAGGAGCTGATAAGAG
Found at i:59673725 original size:25 final size:26
Alignment explanation
Indices: 59673674--59673743 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
59673664 CTCTTTTAAT
* *
59673674 AACTGGGGCAAAGTCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTCTGATA
*
59673699 AACTGGGGCAGAGCCCTTTTC-GGTA
1 AACTGGGGCAGAGCCCTTTTCTGATA
*
59673724 AACTAGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
59673744 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAGAGCCCTTTTCTGATA
Found at i:59674633 original size:27 final size:26
Alignment explanation
Indices: 59674603--59674702 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 26
59674593 GTAAATCTAC
59674603 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTA-TAATTTTGT
* * *
59674630 AAACCAATGGCATTCCTATAATTTT-T
1 AAACCAAGGGTATT-TTATAATTTTGT
*
59674656 AAAAAAGTCAAGGGTATTTCTATAATTTTGT
1 ---AAA-CCAAGGGTATTT-TATAATTTTGT
* *
59674687 AAATCAGGGGTATTTT
1 AAACCAAGGGTATTTT
59674703 GGTAATTCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
26 2 0.03
27 30 0.52
28 5 0.09
29 3 0.05
30 17 0.29
31 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (26 bp):
AAACCAAGGGTATTTTATAATTTTGT
Found at i:59674717 original size:27 final size:27
Alignment explanation
Indices: 59674687--59674766 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
59674677 ATAATTTTGT
*
59674687 AAATCAGGGGTATTTTGGTAATTCTAC
1 AAATCAGTGGTATTTTGGTAATTCTAC
* *
59674714 AAAT-TGATGGTATTTCGGTAATTTCT-C
1 AAATCAG-TGGTATTTTGGTAA-TTCTAC
*
59674741 AAACCAGTGGTATTTTGGTAATTCTA
1 AAATCAGTGGTATTTTGGTAATTCTA
59674767 TCCTACAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 5 0.12
27 33 0.77
28 5 0.12
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATCAGTGGTATTTTGGTAATTCTAC
Found at i:59674886 original size:27 final size:27
Alignment explanation
Indices: 59674795--59674886 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
59674785 GTAATTTCAT
59674795 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
59674822 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * * * *
59674849 AATCAATGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
59674876 AATCGAGGGTA
1 AATCGAGGGTA
59674887 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:59677279 original size:42 final size:42
Alignment explanation
Indices: 59677232--59677319 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
59677222 CCTTAGGCCT
* *** *
59677232 ATTTCAATATCACATGTAATGTTAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
59677274 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
59677316 ATTT
1 ATTT
59677320 AGGGAAACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (42 bp):
ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
Found at i:59677495 original size:25 final size:24
Alignment explanation
Indices: 59677467--59677535 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 24
59677457 CTCTTTTAAT
59677467 AACTGGGGCAGAGCCCTTTCGGATA
1 AACTGGGGCAGAGCCCTTTCGG-TA
59677492 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCC-TTTCGGTA
*
59677517 AACTGGGGCAGAGCACTTT
1 AACTGGGGCAGAGCCCTTT
59677536 TAGCACTTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 3 0.07
25 33 0.79
26 6 0.14
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (24 bp):
AACTGGGGCAGAGCCCTTTCGGTA
Found at i:59677595 original size:16 final size:15
Alignment explanation
Indices: 59677569--59677598 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59677559 CCCATATCCC
59677569 ATGCAAATGTCATGT
1 ATGCAAATGTCATGT
59677584 ATGCAGAATGTCATG
1 ATGCA-AATGTCATG
59677599 CCCATATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (15 bp):
ATGCAAATGTCATGT
Found at i:59678425 original size:27 final size:26
Alignment explanation
Indices: 59678395--59678494 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 26
59678385 GTAAATCTAC
59678395 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTA-TAATTTTGT
* * *
59678422 AAACCAATGGCATTCCTATAATTTT-T
1 AAACCAAGGGTATT-TTATAATTTTGT
*
59678448 AAAAAAGTCAAGGGTATTTCTATAATTTTGT
1 ---AAA-CCAAGGGTATTT-TATAATTTTGT
* *
59678479 AAATCAGGGGTATTTT
1 AAACCAAGGGTATTTT
59678495 GGTAATTCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
26 2 0.03
27 30 0.52
28 5 0.09
29 3 0.05
30 17 0.29
31 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (26 bp):
AAACCAAGGGTATTTTATAATTTTGT
Found at i:59678509 original size:27 final size:27
Alignment explanation
Indices: 59678479--59678558 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
59678469 ATAATTTTGT
*
59678479 AAATCAGGGGTATTTTGGTAATTCTAC
1 AAATCAGTGGTATTTTGGTAATTCTAC
* *
59678506 AAAT-TGATGGTATTTCGGTAATTTCT-C
1 AAATCAG-TGGTATTTTGGTAA-TTCTAC
*
59678533 AAACCAGTGGTATTTTGGTAATTCTA
1 AAATCAGTGGTATTTTGGTAATTCTA
59678559 TCCTACAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 5 0.12
27 33 0.77
28 5 0.12
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATCAGTGGTATTTTGGTAATTCTAC
Found at i:59678678 original size:27 final size:27
Alignment explanation
Indices: 59678587--59678678 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
59678577 GTAATTTCAT
59678587 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
59678614 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * * * *
59678641 AATCAATGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
59678668 AATCGAGGGTA
1 AATCGAGGGTA
59678679 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:59681065 original size:42 final size:42
Alignment explanation
Indices: 59681018--59681105 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
59681008 CCTTAGGCCT
* *** *
59681018 ATTTCAATATCACATGTAATGTTAATGGATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
59681060 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
59681102 ATTT
1 ATTT
59681106 AGGGAACTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (42 bp):
ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
Found at i:59681302 original size:25 final size:26
Alignment explanation
Indices: 59681252--59681320 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
59681242 CTCTTTTAAT
59681252 AACTGGGGCA-AGCCC-TTTCGGATA
1 AACTGGGGCAGAGCCCTTTTCGGATA
59681276 AACTGGGGCAGAGCCCTTTTCGG-TA
1 AACTGGGGCAGAGCCCTTTTCGGATA
*
59681301 AACTGGGGCAGAGCACTTTT
1 AACTGGGGCAGAGCCCTTTT
59681321 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 10 0.24
25 26 0.62
26 6 0.14
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAGAGCCCTTTTCGGATA
Found at i:59681379 original size:16 final size:15
Alignment explanation
Indices: 59681353--59681382 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59681343 CCCATATCCC
59681353 ATGCAAATGTCATGT
1 ATGCAAATGTCATGT
59681368 ATGCAGAATGTCATG
1 ATGCA-AATGTCATG
59681383 CCCATATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (15 bp):
ATGCAAATGTCATGT
Found at i:59682184 original size:27 final size:27
Alignment explanation
Indices: 59682123--59682186 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
59682113 GGCGTATTCA
59682123 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
59682150 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
59682177 TCTTTTTACC
1 TCATTTTACC
59682187 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:59682354 original size:27 final size:27
Alignment explanation
Indices: 59682304--59682400 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
59682294 AAAAAGTCAA
* *
59682304 GGGTATTTCT-GTAATTTTTTAAATCAG
1 GGGTATTT-TGGTAATTTCTCAAATCAG
* *
59682331 GGGTATTTTGGAAATTT-TACAAAT-TG
1 GGGTATTTTGGTAATTTCT-CAAATCAG
* *
59682357 AGGGTATTTCGGTAATTTCTCAAACCAG
1 -GGGTATTTTGGTAATTTCTCAAATCAG
*
59682385 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
59682401 CTATCCTACA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
26 3 0.05
27 51 0.91
28 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCTCAAATCAG
Found at i:59682492 original size:27 final size:27
Alignment explanation
Indices: 59682422--59682547 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 27
59682412 GGGTATTTCA
* *
59682422 GTAATTTCAT-AATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
59682448 GTAA-TTTA-AACT-GAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG
*
59682472 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* * * ****
59682499 ATAATTCTATAAATCAAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
59682526 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTATAAATCGAGGGTA
59682548 TTTCAGTAAT
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
24 15 0.19
25 8 0.10
26 7 0.09
27 47 0.61
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAACG
Found at i:59684793 original size:46 final size:46
Alignment explanation
Indices: 59684650--59684816 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
59684640 TGTGTGAGCT
* * **
59684650 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACAT-A-AGCC
* * * * * *
59684696 AGAGTAAGACCACGTCTGGGACATGGCATCCGCATTGAGACAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGACA-TAAGCC
59684743 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACATAAGCC
59684789 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
59684817 GGCTAAACGT
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 14 0.14
46 51 0.52
47 23 0.23
48 7 0.07
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACATAAGCC
Found at i:59687283 original size:42 final size:42
Alignment explanation
Indices: 59687231--59687358 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
59687221 ATACATAGTA
* * * **
59687231 TCATAACAATGCCATATCCCAAATATGATCTTACATGGGATC
1 TCATATCAATGCCATATCCCAGATATGATCTTACACGAAATC
* * * *
59687273 TCATATCAATGTCAATAGCCCAGCTAT-AGTCTTTCACGAAATC
1 TCATATCAATG-CCATATCCCAGATATGA-TCTTACACGAAATC
* * *
59687316 TCATATCGATGCCATATCCCAGATATGGTCTTACACGTAATC
1 TCATATCAATGCCATATCCCAGATATGATCTTACACGAAATC
59687358 T
1 T
59687359 TAGCTAACCC
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 36 0.54
43 31 0.46
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (42 bp):
TCATATCAATGCCATATCCCAGATATGATCTTACACGAAATC
Found at i:59696736 original size:47 final size:47
Alignment explanation
Indices: 59696667--59697348 Score: 1247
Period size: 47 Copynumber: 14.5 Consensus size: 47
59696657 GTGTGTATAC
* *
59696667 GTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTAATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59696714 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59696761 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59696808 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
59696855 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59696902 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59696949 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59696996 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
59697043 GTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59697090 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
59697137 GTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59697184 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
59697231 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
59697278 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
59697325 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
59697349 TCCCGAAGGG
Statistics
Matches: 617, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 617 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:59697523 original size:37 final size:37
Alignment explanation
Indices: 59697467--59697545 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59697457 CCGAGCTCTA
* * *
59697467 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
59697504 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59697541 AAGAC
1 AAGAC
59697546 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59702806 original size:19 final size:20
Alignment explanation
Indices: 59702782--59702819 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
59702772 GGTACCACCA
59702782 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
59702801 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
59702820 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:59703158 original size:93 final size:93
Alignment explanation
Indices: 59703048--59703218 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59703038 GCCCCTAAGT
* *
59703048 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
59703113 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
59703141 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
59703206 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59703219 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59703215 original size:46 final size:46
Alignment explanation
Indices: 59703043--59703215 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
59703033 AACCCGCCCC
* * *
59703043 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
59703089 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
59703137 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
59703182 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59703216 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:59710373 original size:19 final size:20
Alignment explanation
Indices: 59710349--59710386 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
59710339 GGTATCACCA
59710349 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
59710368 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
59710387 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:59710712 original size:45 final size:46
Alignment explanation
Indices: 59710609--59710733 Score: 207
Period size: 45 Copynumber: 2.7 Consensus size: 46
59710599 AACCCGCCCC
* * *
59710609 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
59710655 TAAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
59710700 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59710734 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 40 0.54
46 34 0.46
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:59729277 original size:39 final size:40
Alignment explanation
Indices: 59729110--59729278 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
59729100 GCTCCTCGTT
* * *
59729110 CAAATGCCTT-GGGACATAGCCCGG-TTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59729148 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
59729187 CGAATGCCTTCGGGTCTTAACCCGGATTTAGTACCTTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
* * *
59729228 CAAA-GGCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
59729267 CAAATG-CTTCGG
1 CAAATGCCTTCGG
59729279 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
37 8 0.07
38 13 0.11
39 28 0.25
40 53 0.46
41 12 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59739537 original size:39 final size:40
Alignment explanation
Indices: 59739492--59739715 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
59739482 GCTCCTCGTT
* * * *
59739492 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59739532 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
59739571 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
59739610 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
59739650 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
59739691 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59739716 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 70 0.45
40 76 0.48
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59739595 original size:79 final size:77
Alignment explanation
Indices: 59739492--59739715 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
59739482 GCTCCTCGTT
* * *
59739492 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCACACAAAGCCTTCGGGACTTAACCCGGA
59739557 TTTAATAACTCGCA
65 TTT-ATAACTCGCA
* * * *
59739571 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCACACAAA-GCCTTCGGGACTTAACCCGG-
* *
59739636 ATTTGTATCTCGCA
64 ATTTATAACTCGCA
* * * * *
59739650 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ACTCA-CACAAAGCCTTCGGGACTTAACCCG
59739714 GA
63 GA
59739716 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 12 0.10
79 79 0.65
80 25 0.20
81 6 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCACACAAAGCCTTCGGGACTTAACCCGGAT
TTATAACTCGCA
Found at i:59739724 original size:41 final size:41
Alignment explanation
Indices: 59739647--59739724 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59739637 TTTGTATCTC
* * *
59739647 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59739688 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59739725 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59741382 original size:56 final size:56
Alignment explanation
Indices: 59741333--59741529 Score: 294
Period size: 56 Copynumber: 3.6 Consensus size: 56
59741323 TTACTCATAA
* *
59741333 ACACATAT-T-AGAATCACATATCGATACCAACGTATGAAACGTGGACTTACTCGC
1 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGC
* * *
59741387 ACACATATATCGGAATCACATATCGATGCAAACGTATTAAATGTGGACTTACTCGC
1 ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGC
*
59741443 ACACATATATCA-AAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
1 ACACATATATCAGAA-TCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGC
59741499 ACACATATATCA-AAGTCACATATCGATGCCA
1 ACACATATATCAGAA-TCACATATCGATGCCA
59741530 CATATTCTTC
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 8 0.06
55 3 0.02
56 120 0.92
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (56 bp):
ACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTCGC
Found at i:59745391 original size:30 final size:29
Alignment explanation
Indices: 59745357--59745424 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
59745347 ATGAATCGGA
59745357 AGCTTTGGCACTAAGTGTGCAATTTAAACT
1 AGCTTTGGCACTAAGTGTGCAATTT-AACT
* *
59745387 AGCTTTGGCACTAAGTGTGCGATTTACCT
1 AGCTTTGGCACTAAGTGTGCAATTTAACT
59745416 AGCTTTGGC
1 AGCTTTGGC
59745425 TACTTGAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCAATTTAACT
Found at i:59752486 original size:30 final size:29
Alignment explanation
Indices: 59752452--59752515 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
59752442 ATGAATCGGA
59752452 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
59752482 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
59752511 AGCTT
1 AGCTT
59752516 CGGCTACTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:59754642 original size:5 final size:5
Alignment explanation
Indices: 59754632--59754656 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
59754622 CAAAATTAGT
59754632 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
59754657 GTATAGCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:59758258 original size:27 final size:27
Alignment explanation
Indices: 59758227--59758395 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
59758217 TTGATTGATC
* *
59758227 AAAATGACTATTTTACCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
*
59758254 AAAATGATTGTTTTGCCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* *
59758281 AACATGACTGTTTTGCCCTTATGTTGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* * **
59758308 AAAATGATTGTTTTTCTTTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
* *
59758335 AAAATGATTGTTTTTCCCTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
*
59758362 AAAATGACTGTTTTGCCTTTATGTGGT
1 AAAATGACTGTTTTGCCCTTATGTGGT
59758389 AAAATGA
1 AAAATGA
59758396 TTGAAAAGCC
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (27 bp):
AAAATGACTGTTTTGCCCTTATGTGGT
Found at i:59758332 original size:81 final size:81
Alignment explanation
Indices: 59758245--59758398 Score: 272
Period size: 81 Copynumber: 1.9 Consensus size: 81
59758235 TATTTTACCC
* *
59758245 TTATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAACATGACTGTTTTGCCCTTATGTTGTAA
1 TTATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAA
59758310 AATGATTGTTTTTCTT
66 AATGATTGTTTTTCTT
* *
59758326 TTATGTGGTAAAATGATTGTTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCTTTATGTGGTAA
1 TTATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAA
59758391 AATGATTG
66 AATGATTG
59758399 AAAAGCCCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.47
Consensus pattern (81 bp):
TTATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAA
AATGATTGTTTTTCTT
Found at i:59758416 original size:81 final size:81
Alignment explanation
Indices: 59758250--59758430 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
59758240 TACCCTTATG
* * *
59758250 TGGTAAAATGATTGTTTTGCCCTTATGTGGTAACATGACTGTTTTGCCCTTATGTTGTAAAATGA
1 TGGTAAAATGATTGTTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGA
***** *** **
59758315 TTGTTTTTCTTTTATG
66 TTGAAAAGCCCCTACA
*
59758331 TGGTAAAATGATTGTTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCTTTATGTGGTAAAATGA
1 TGGTAAAATGATTGTTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGA
59758396 TTGAAAAGCCCCTACA
66 TTGAAAAGCCCCTACA
* *
59758412 TGGTAAATTGACTGTTTTT
1 TGGTAAAATGATTGTTTTT
59758431 ATTTTAGCAT
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (81 bp):
TGGTAAAATGATTGTTTTTCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGA
TTGAAAAGCCCCTACA
Found at i:59763342 original size:27 final size:27
Alignment explanation
Indices: 59763289--59763344 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
59763279 CATGTCCCAC
59763289 ATGGGTCAAATTTCATACATGAACCCT
1 ATGGGTCAAATTTCATACATGAACCCT
59763316 ATGGGTCAAATTTCATACATGAACCCT
1 ATGGGTCAAATTTCATACATGAACCCT
59763343 AT
1 AT
59763345 CTCGAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (27 bp):
ATGGGTCAAATTTCATACATGAACCCT
Found at i:59770320 original size:51 final size:50
Alignment explanation
Indices: 59770193--59770340 Score: 181
Period size: 51 Copynumber: 3.0 Consensus size: 50
59770183 TGTAGACAAG
* * * *
59770193 GTTATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAA
1 GTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * * * *
59770243 -TTATCCAGTATACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 GTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA
* *
59770293 GTTATCGGGTACACATAGTAGCATGCACTTAGTACTACACATGTGACC
1 GTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
59770341 TCACAATAGA
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 37 0.46
50 4 0.05
51 39 0.49
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (50 bp):
GTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:59777569 original size:40 final size:41
Alignment explanation
Indices: 59777495--59777594 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 41
59777485 AATTATACTT
* * * * *
59777495 CTGAATTGCACATATGTGCTCGTATTTGTCCTTCGGTA-CC
1 CTGAATTGCACATACGTGCCCCTATTAGTACTTCGGTACCC
*
59777535 TTGAATTGCACATACGTGCCCCTATTAGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTAGTACTTCGGTACCC
59777576 CT-AATTG-ACATACGTGCCC
1 CTGAATTGCACATACGTGCCC
59777595 TTGTTTACAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 12 0.23
40 37 0.71
41 3 0.06
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTATTAGTACTTCGGTACCC
Found at i:59784625 original size:19 final size:19
Alignment explanation
Indices: 59784587--59784625 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59784577 TGATTTTATT
* * *
59784587 TATCATATTATAATGTACA
1 TATCATATTAAAAAGAACA
59784606 TATCATATTAAAAAGAACA
1 TATCATATTAAAAAGAACA
59784625 T
1 T
59784626 TTCAATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (19 bp):
TATCATATTAAAAAGAACA
Found at i:59793183 original size:34 final size:38
Alignment explanation
Indices: 59793145--59793237 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 38
59793135 TGTTACTGAG
* *
59793145 ATGGGCTTAGGCCCAAACTGATACTG-AT-ATTA-T-A
1 ATGGGCTTAGGCCCAAACTGAAAATGAATCATTACTAA
* **
59793179 ATGGGCTAAGGCCTTAACTGAAAATGAATCATTACTAAA
1 ATGGGCTTAGGCCCAAACTGAAAATGAATCATTACT-AA
*
59793218 ATGGGCTTAGGCCCAGACTG
1 ATGGGCTTAGGCCCAAACTG
59793238 TATTTGTTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
34 21 0.47
35 2 0.04
36 4 0.09
37 1 0.02
39 17 0.38
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (38 bp):
ATGGGCTTAGGCCCAAACTGAAAATGAATCATTACTAA
Found at i:59810948 original size:14 final size:14
Alignment explanation
Indices: 59810926--59810959 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59810916 AATAGAAAAC
*
59810926 TTTTCATCACTTTT
1 TTTTTATCACTTTT
59810940 TTTTTATCACTTTT
1 TTTTTATCACTTTT
*
59810954 TCTTTA
1 TTTTTA
59810960 ACCTCCGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTATCACTTTT
Found at i:59815103 original size:42 final size:42
Alignment explanation
Indices: 59814997--59815141 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 42
59814987 GAAAAGCTCG
* * *
59814997 TACAAGGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCTAGACAG-GGTCTTACACGTAATCACA
* * * * *
59815039 TATCGATGCCACTATCCCAGACAGGGTCTTACACG-AACTCATA
1 TA-CAATGCCAATGTCCTAGACAGGGTCTTACACGTAA-TCACA
*
59815082 TACAATGCCAATGTCCTAGACATGGTCTTACACGTAAATCACA
1 TACAATGCCAATGTCCTAGACAGGGTCTTACACGT-AATCACA
* *
59815125 AATCGATGCCAATGTCC
1 TA-CAATGCCAATGTCC
59815142 CATATGTGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 31 0.38
43 34 0.42
44 16 0.20
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATGTCCTAGACAGGGTCTTACACGTAATCACA
Found at i:59816324 original size:27 final size:26
Alignment explanation
Indices: 59816287--59816398 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
59816277 AGCATGGCTG
* *
59816287 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAAAGCCA
*
59816313 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAAAGCCA
59816341 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAAAGCCA
*
59816368 CCAGATCAGATAATTGTGGCATAA-CCA
1 CCAGAACAGATAA-TGTGGCA-AAGCCA
59816395 CCAG
1 CCAG
59816399 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.08
27 52 0.68
28 18 0.24
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAAAGCCA
Found at i:59816378 original size:54 final size:54
Alignment explanation
Indices: 59816287--59816398 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
59816277 AGCATGGCTG
* *
59816287 CCAGAACAGATAATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * *
59816341 CCAGAACAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAACCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
59816395 CCAG
1 CCAG
59816399 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:59822603 original size:47 final size:47
Alignment explanation
Indices: 59822544--59823125 Score: 939
Period size: 47 Copynumber: 12.4 Consensus size: 47
59822534 GATGTACAAG
* * *
59822544 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
59822591 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59822638 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
59822685 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
59822732 GTGTATATATGTGATAAGGCCGACTGGCCAACGTGATAAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
59822779 GTGTATATATGTGATAAGGCCGACTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59822826 GTGTATATATGTGATAAGGCCGACTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
59822873 GTGTATATATGTGGTAAGGCCGAATGGCCAATGTAATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
59822920 GTGTGTATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59822967 GTGTATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * ** * * *
59823014 GTGTATATATGAGATAAGACTTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59823061 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
59823108 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
59823126 TCCCGAAGGG
Statistics
Matches: 500, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 500 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:59822627 original size:22 final size:22
Alignment explanation
Indices: 59822599--59822721 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59822589 AAGTGTATAT
59822599 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
59822621 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
*
59822645 TATGTGATAAGGCCGAGTGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
59822668 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
59822692 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
59822715 ATGTGAT
1 ATGTGAT
59822722 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 23 0.33
23 15 0.22
24 15 0.22
25 16 0.23
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:59828678 original size:27 final size:27
Alignment explanation
Indices: 59828647--59828749 Score: 120
Period size: 27 Copynumber: 3.8 Consensus size: 27
59828637 CTGCCAGAAT
* *
59828647 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
59828674 AGATAATCGTGGCAGAGCCACCAGA-AT
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
59828701 AGATATATGTGGCAGAGCCACCAAAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
59828728 AGATAATTGTGGCATAGCCACC
1 AGATAA-TGTGGCAGAGCCACC
59828750 TGTACGCTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.02
27 48 0.73
28 17 0.26
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:59828731 original size:54 final size:54
Alignment explanation
Indices: 59828640--59828749 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
59828630 AGTATGGCTG
* *
59828640 CCAGAATAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAATAGATAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCA
* * *
59828694 CCAGAATAGATATATGTGGCAGAGCCACCAAAT-CAGATAATTGTGGCATAGCCA
1 CCAGAATAGATA-ATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCA
59828748 CC
1 CC
59828750 TGTACGCTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAATAGATAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAGCCA
Found at i:59839826 original size:23 final size:23
Alignment explanation
Indices: 59839791--59839925 Score: 112
Period size: 23 Copynumber: 5.7 Consensus size: 23
59839781 GACTCACCAT
*
59839791 AGCTCATAAGAGCTTACTGTTTC
1 AGCTCATTAGAGCTTACTGTTTC
* * *
59839814 AGCTCATTGGAGCTTACCGATTC
1 AGCTCATTAGAGCTTACTGTTTC
* *
59839837 AGCTCGA-AAAAGCTTACTG-TTC
1 AGCTC-ATTAGAGCTTACTGTTTC
* *
59839859 AGCTCAATAGAGCTTACTCTTTTC
1 AGCTCATTAGAGCTTACT-GTTTC
* *
59839883 AGCTCAATAGACCTTACTGTTTATC
1 AGCTCATTAGAGCTTACTG-TT-TC
*
59839908 AGCTCATGAAGAGCTTAC
1 AGCTCAT-TAGAGCTTAC
59839926 CGACCATGTC
Statistics
Matches: 89, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.01
22 17 0.19
23 32 0.36
24 23 0.26
25 8 0.09
26 8 0.09
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (23 bp):
AGCTCATTAGAGCTTACTGTTTC
Found at i:59841479 original size:28 final size:28
Alignment explanation
Indices: 59841437--59841498 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
59841427 TAAAATTGTG
*
59841437 ATAGTGTGATTACTCCTAACATTCTTTA
1 ATAGTGTGATAACTCCTAACATTCTTTA
* * *
59841465 ATAGTTTGATAACTCCTGACATTTTTTA
1 ATAGTGTGATAACTCCTAACATTCTTTA
59841493 AT-GTGT
1 ATAGTGT
59841499 TTTCATATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (28 bp):
ATAGTGTGATAACTCCTAACATTCTTTA
Found at i:59855743 original size:24 final size:24
Alignment explanation
Indices: 59855714--59855874 Score: 112
Period size: 24 Copynumber: 6.6 Consensus size: 24
59855704 CAATCAATTT
59855714 CACACACATAGTGCTATTCAAATC
1 CACACACATAGTGCTATTCAAATC
* * * * * *
59855738 CGCACACTTAGTGCCATGCTAACC
1 CACACACATAGTGCTATTCAAATC
* **
59855762 CACACACATAATGCCT-TAGAAATC
1 CACACACATAGTG-CTATTCAAATC
* *
59855786 CACACACTCGTATTGAC-ATTCAAAT-
1 CACACA--CATAGTG-CTATTCAAATC
*
59855811 CAGCACACATAGTGCTATTCAATTC
1 CA-CACACATAGTGCTATTCAAATC
* *
59855836 CGCACACATAGTGCCATTCAAAATC
1 CACACACATAGTGCTATTC-AAATC
*
59855861 CACACACTTAGTGC
1 CACACACATAGTGC
59855875 CAATGTCATT
Statistics
Matches: 102, Mismatches: 27, Indels: 15
0.71 0.19 0.10
Matches are distributed among these distances:
23 1 0.01
24 66 0.65
25 20 0.20
26 15 0.15
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.24
Consensus pattern (24 bp):
CACACACATAGTGCTATTCAAATC
Found at i:59855842 original size:74 final size:75
Alignment explanation
Indices: 59855729--59855868 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 75
59855719 ACATAGTGCT
* *
59855729 ATTCAAATCCGCACACTTAGTGCCATGCTAACCCACACACATAATGCC-TT-AGAAATCCACACA
1 ATTCAAATCAGCACACATAGTGCCATGCTAACCCACACACATAATGCCATTCA-AAATCCACACA
59855792 CTCGTATTGAC
65 CTCGTATTGAC
* * * * *
59855803 ATTCAAATCAGCACACATAGTGCTATTC-AATTCCGCACACATAGTGCCATTCAAAATCCACACA
1 ATTCAAATCAGCACACATAGTGCCATGCTAA-CCCACACACATAATGCCATTCAAAATCCACACA
59855867 CT
65 CT
59855869 TAGTGCCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
73 2 0.04
74 38 0.68
75 15 0.27
76 1 0.02
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (75 bp):
ATTCAAATCAGCACACATAGTGCCATGCTAACCCACACACATAATGCCATTCAAAATCCACACAC
TCGTATTGAC
Found at i:59873232 original size:40 final size:40
Alignment explanation
Indices: 59873077--59873238 Score: 211
Period size: 40 Copynumber: 4.1 Consensus size: 40
59873067 ATAACTGGAG
* * *
59873077 TAAGATCCGAAGGCATTCGTGCGAGTTGTTATATCTGGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGC
* * * * *
59873117 TATGTCCCGAAGGCATTTATGCTAG-TGATTATATTCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGC
* *
59873157 TAAGACCCGAAGGCATTTGTGCGAGTTATTATATCCAGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGC
59873197 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGC
59873236 TAA
1 TAA
59873239 ATCCTGAAGA
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 8 0.08
40 95 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGC
Found at i:59881305 original size:39 final size:38
Alignment explanation
Indices: 59881238--59881392 Score: 181
Period size: 39 Copynumber: 4.0 Consensus size: 38
59881228 ACTAAGATCC
* * *
59881238 GGCATTCGTGCGAGT-TTATATCCGCGGCTATGTCCCGAA
1 GGCATTTGTGCGAGTGTTATAT-C-CGGCTAAGACCCGAA
* *
59881277 GGCATTTATGCTAGTGATTATATCCGGCTAAGACCCGAA
1 GGCATTTGTGCGAGTG-TTATATCCGGCTAAGACCCGAA
*
59881316 GGCATTTGTGCGAGTTGCTATATCCGGCTAAGACCCGAA
1 GGCATTTGTGCGAG-TGTTATATCCGGCTAAGACCCGAA
*
59881355 GGCATTTGTGCGAGTTTTATAT-CGGCTAA-ATCCCGAA
1 GGCATTTGTGCGAGTGTTATATCCGGCTAAGA-CCCGAA
59881392 G
1 G
59881393 ATGCTTGGGT
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
36 1 0.01
37 14 0.14
38 6 0.06
39 72 0.71
40 3 0.03
41 6 0.06
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (38 bp):
GGCATTTGTGCGAGTGTTATATCCGGCTAAGACCCGAA
Found at i:59883662 original size:40 final size:40
Alignment explanation
Indices: 59883574--59883750 Score: 162
Period size: 39 Copynumber: 4.3 Consensus size: 40
59883564 ATATCCGGAC
* *
59883574 TAAGATCCGAAGGCATTTGTGCGA-ATAC-AAATTCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTACTAAA-TCCGGGT
* * *
59883613 TAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* *
59883653 TAAGACCCGAAGGCATTCGTGCGAGTTATTAAATAAATCCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAG---TT-ACTAAAT-CCGGGT
* * * *
59883698 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* *
59883737 TATGTCCCGAAGGC
1 TAAGACCCGAAGGC
59883751 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
39 39 0.34
40 37 0.32
41 5 0.04
43 1 0.01
44 13 0.11
45 20 0.17
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:59883723 original size:44 final size:44
Alignment explanation
Indices: 59883574--59883729 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 44
59883564 ATATCCGGAC
* * *
59883574 TAAGATCCGAAGGCATTTGTGCGA-ATAC-AAAT---TCCGGGT
1 TAAGACCCGAAGGCATTCGTGCGAGTTACTAAATAAATCCGGGT
* * * *
59883613 TAAGCCCCGAAGGCCTTTGTGCGAGGTAC----TAAATCCGGGT
1 TAAGACCCGAAGGCATTCGTGCGAGTTACTAAATAAATCCGGGT
*
59883653 TAAGACCCGAAGGCATTCGTGCGAGTTATTAAATAAATCCCGGGT
1 TAAGACCCGAAGGCATTCGTGCGAGTTACTAAATAAAT-CCGGGT
* *
59883698 TAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TAAGACCCGAAGGCATTCGTGCGAGTTACTAAA
59883730 ACCGGGCTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
39 21 0.22
40 34 0.35
44 18 0.19
45 22 0.23
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
TAAGACCCGAAGGCATTCGTGCGAGTTACTAAATAAATCCGGGT
Found at i:59891438 original size:39 final size:40
Alignment explanation
Indices: 59891303--59891526 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
59891293 TTGAATGCTG
* * * * *
59891303 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
59891343 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59891382 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59891422 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59891462 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
59891501 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
59891527 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 67 0.43
40 82 0.52
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59891443 original size:79 final size:78
Alignment explanation
Indices: 59891303--59891526 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
59891293 TTGAATGCTG
* * * * *
59891303 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
59891367 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * *
59891382 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
59891447 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
59891462 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
59891527 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 10 0.08
79 81 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:59891544 original size:79 final size:79
Alignment explanation
Indices: 59891383--59891559 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
59891373 AGATACAAAT
* * * *
59891383 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
59891448 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
59891462 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
59891526 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
59891541 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59891560 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 25 0.30
79 58 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:59908546 original size:120 final size:119
Alignment explanation
Indices: 59908312--59908572 Score: 339
Period size: 120 Copynumber: 2.2 Consensus size: 119
59908302 TATTCGGATG
* * * * *
59908312 ATAACCGGGCTAAGTTCCAAAGGCATTTATGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAAATCCGGGCTAAGCCCGAAGGCAA
* **
59908377 TTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
66 TTGTACAAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGAACGAG-TAGCT
* *
59908431 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTA-AATCCGGGCTAAG-CCCGAAGGC
* *
59908495 AATTGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
64 AATTGTACAAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGAACGAGTAGCT
* **
59908551 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59908573 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
119 61 0.49
120 63 0.51
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGACTAAATCCGGGCTAAGCCCGAAGGCAA
TTGTACAAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGAACGAGTAGCT
Found at i:59908553 original size:40 final size:40
Alignment explanation
Indices: 59908312--59908539 Score: 334
Period size: 40 Copynumber: 5.7 Consensus size: 40
59908302 TATTCGGATG
* * * * *
59908312 ATAACCGGGCTAAGTTCCAAAGGCATTTATGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59908352 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59908391 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
59908431 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
59908471 ATAATCGGGCTAAGTCCCGAAGGCAATTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
59908511 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
59908540 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 32 0.19
40 138 0.81
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:59919262 original size:27 final size:27
Alignment explanation
Indices: 59919232--59919296 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
59919222 GATCACTGAA
* *
59919232 CACTTTGCTATGTTTAGCACACTATAT
1 CACTTTGCCATGATTAGCACACTATAT
* *
59919259 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTAGCACACTATAT
*
59919286 AACTTTGCCAT
1 CACTTTGCCAT
59919297 AGTTCAACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTAGCACACTATAT
Found at i:59919429 original size:31 final size:31
Alignment explanation
Indices: 59919360--59919533 Score: 215
Period size: 31 Copynumber: 5.5 Consensus size: 31
59919350 AGTTTAGCTA
* *
59919360 AAGCTACCACTTATCACTTG-TCACTTGTAGCCG
1 AAGCTACCACTTTTCAC-TGATCA--GGTAGCCG
* * *
59919393 AAGCTACCACTATTCAGTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* *
59919424 GAGCTACCACTTTTCACTAATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* *
59919455 AAGCTACTACTTTTCACTCATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* *
59919486 AAGCTACCACTTTTCACTGATCGGGTAGTCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
59919517 AAGCTACCACTTTTCAC
1 AAGCTACCACTTTTCAC
59919534 ATTGTACACA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
31 104 0.85
32 2 0.02
33 17 0.14
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCCG
Found at i:59924420 original size:40 final size:40
Alignment explanation
Indices: 59924311--59924531 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
59924301 TATTCGGATG
* * * *
59924311 ATAACCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
59924351 A-ATTCCGGGCTAAG-CCCGAAGG-AATTTGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCAA-TTGTGCGAGTTACT
59924390 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
59924430 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
59924470 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
59924510 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59924532 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 47 0.29
40 113 0.69
41 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:59926440 original size:15 final size:16
Alignment explanation
Indices: 59926420--59926452 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
59926410 TGTAATCCAG
59926420 TTTTATTTTCTTT-TT
1 TTTTATTTTCTTTATT
59926435 TTTTATTTTCTTTATT
1 TTTTATTTTCTTTATT
59926451 TT
1 TT
59926453 CTTCAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTATTTTCTTTATT
Found at i:59926684 original size:21 final size:23
Alignment explanation
Indices: 59926658--59926703 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
59926648 TTCCTCTTTA
*
59926658 TTTCTTCTATTTTA-TA-TGTTG
1 TTTCTTCTATTGTATTATTGTTG
59926679 TTTCTTCTATTGTATTATTGTTG
1 TTTCTTCTATTGTATTATTGTTG
59926702 TT
1 TT
59926704 GCTGCCTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 2 0.09
23 7 0.32
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.67
Consensus pattern (23 bp):
TTTCTTCTATTGTATTATTGTTG
Found at i:59927119 original size:16 final size:16
Alignment explanation
Indices: 59927098--59927130 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
59927088 AAAATATCAT
59927098 GATTCTGTGGTTATGA
1 GATTCTGTGGTTATGA
59927114 GATTCTGTGGTTATGA
1 GATTCTGTGGTTATGA
59927130 G
1 G
59927131 CACAAGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.33, T:0.42
Consensus pattern (16 bp):
GATTCTGTGGTTATGA
Found at i:59927469 original size:111 final size:112
Alignment explanation
Indices: 59927249--59927478 Score: 281
Period size: 111 Copynumber: 2.1 Consensus size: 112
59927239 AGAATTAAAC
* * *
59927249 AAAA-AAATTAAGAGTGTGTTGGGCTGAGTAACCGAGGTGGGATGCTTGGGTTGTCATTCCACTT
1 AAAATAAATTAAGAGTATGTTGGGCTGAGTAACCGAGGTGGGATGCTTGAGTTGTCATTCCAATT
* * *
59927313 CGCATCAAAAGGGCCAAAACATTCTTAAACCAAAAAATATAAATAAT
66 CGCACCAAAAGGGCCAAAACACTCTTAAACCAAAAAAAATAAATAAT
* * *
59927360 ATAATAAATTAGGAGTATGTTGGGCTGAGTAACCG-GGTTGGGGTGCTT-AGTTGTCATTCCAAT
1 AAAATAAATTAAGAGTATGTTGGGCTGAGTAACCGAGG-TGGGATGCTTGAGTTGTCATTCCAAT
** * *
59927423 TCGTGCCAAAAGGGCCAATACACTCTT-AAGCATTAAAAAAAT-AATAAT
65 TCGCACCAAAAGGGCCAAAACACTCTTAAACCA--AAAAAAATAAATAAT
59927471 AAAATAAA
1 AAAATAAA
59927479 AATAAATAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
110 4 0.04
111 53 0.52
112 44 0.44
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (112 bp):
AAAATAAATTAAGAGTATGTTGGGCTGAGTAACCGAGGTGGGATGCTTGAGTTGTCATTCCAATT
CGCACCAAAAGGGCCAAAACACTCTTAAACCAAAAAAAATAAATAAT
Found at i:59927482 original size:14 final size:15
Alignment explanation
Indices: 59927456--59927495 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
59927446 TCTTAAGCAT
59927456 TAAAA-AAATAATAA
1 TAAAATAAATAATAA
59927470 TAAAATAAA-AATAA
1 TAAAATAAATAATAA
59927484 -ATAAATAAATAA
1 TA-AAATAAATAA
59927496 AACGAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 17 0.74
15 5 0.22
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAATAAATAATAA
Found at i:59927486 original size:18 final size:17
Alignment explanation
Indices: 59927459--59927497 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
59927449 TAAGCATTAA
59927459 AAAAATAAT-AATAAAAT
1 AAAAATAATAAAT-AAAT
59927476 AAAAATAAATAAATAAAT
1 AAAAAT-AATAAATAAAT
59927494 AAAA
1 AAAA
59927498 CGAAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 11 0.55
19 3 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATAATAAATAAAT
Found at i:59928090 original size:12 final size:12
Alignment explanation
Indices: 59928073--59928102 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59928063 AAATTTGAAT
*
59928073 ATTATTTTTAGG
1 ATTATTGTTAGG
59928085 ATTATTGTTAGG
1 ATTATTGTTAGG
59928097 ATTATT
1 ATTATT
59928103 ATGATATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (12 bp):
ATTATTGTTAGG
Found at i:59929143 original size:23 final size:27
Alignment explanation
Indices: 59929115--59929169 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
59929105 AAACAAAAAC
59929115 TCATATTTAT-A-TA-GTTAAAATAT-
1 TCATATTTATAACTAGGTTAAAATATG
*
59929138 TCATATTTCTAACTAGGTTAAAATATG
1 TCATATTTATAACTAGGTTAAAATATG
59929165 TCATA
1 TCATA
59929170 AATCCTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 9 0.33
24 1 0.04
25 2 0.07
26 10 0.37
27 5 0.19
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (27 bp):
TCATATTTATAACTAGGTTAAAATATG
Found at i:59929631 original size:16 final size:16
Alignment explanation
Indices: 59929600--59929636 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
59929590 TTTTGAAGAA
59929600 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
59929616 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
59929632 TATTA
1 TATTA
59929637 AAATAGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Done.