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 81 of 311
Found at i:25424927 original size:35 final size:35
Alignment explanation
Indices: 25424865--25424931 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
25424855 CAAAACATAT
25424865 TTCATAACTACTAGTCTATACATGCCATACTTCAA
1 TTCATAACTACTAGTCTATACATGCCATACTTCAA
25424900 TTCATAACTACTAGTCTATACATGCCATACTT
1 TTCATAACTACTAGTCTATACATGCCATACTT
25424932 TAAATATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (35 bp):
TTCATAACTACTAGTCTATACATGCCATACTTCAA
Found at i:25425452 original size:28 final size:29
Alignment explanation
Indices: 25425412--25425471 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
25425402 CAAATAGCTG
25425412 AAGCTAGTTTAAAT-CACACTTAGTGCCA
1 AAGCTAGTTTAAATCCACACTTAGTGCCA
25425440 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATC-CACACTTAGTGCCA
25425470 AA
1 AA
25425472 ACTTCCGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 14 0.47
30 16 0.53
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTTAAATCCACACTTAGTGCCA
Found at i:25438907 original size:24 final size:24
Alignment explanation
Indices: 25438879--25438955 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
25438869 AAAGCTGTTA
25438879 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
25438903 GGAGAGGATTTTGGAGCTGATAGG
1 GGAGAGGATTTAGGAGCTGATAAG
*
25438927 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
25438951 GGAGA
1 GGAGA
25438956 ACGGTGTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.30, C:0.04, G:0.44, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:25446770 original size:24 final size:24
Alignment explanation
Indices: 25446738--25446838 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
25446728 AAGGCTATCA
25446738 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
25446762 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
25446786 GGAGAGGATTTATGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* * *
25446810 GGAGAGGATTTAAGAGTTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
25446834 GGAGA
1 GGAGA
25446839 ACGGTGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.34, C:0.03, G:0.41, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:25448317 original size:27 final size:26
Alignment explanation
Indices: 25448278--25448344 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
25448268 CTATGCCATA
* * *
25448278 ATTATCTGATCTGGTGGCACT-TCCAC
1 ATTACCTGTTCTGGTGACACTGT-CAC
25448304 ATATACCTGTTCTGGTGACACTGTCAC
1 AT-TACCTGTTCTGGTGACACTGTCAC
*
25448331 ATTATCTGTTCTGG
1 ATTACCTGTTCTGG
25448345 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 13 0.37
27 21 0.60
28 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (26 bp):
ATTACCTGTTCTGGTGACACTGTCAC
Found at i:25450602 original size:13 final size:13
Alignment explanation
Indices: 25450584--25450609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25450574 TAATGGACAA
25450584 CCATTATGTGTTT
1 CCATTATGTGTTT
25450597 CCATTATGTGTTT
1 CCATTATGTGTTT
25450610 TGTAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
CCATTATGTGTTT
Found at i:25453125 original size:23 final size:22
Alignment explanation
Indices: 25453095--25453206 Score: 118
Period size: 23 Copynumber: 5.0 Consensus size: 22
25453085 TGAGCTGATG
*
25453095 AACAGTAAGCTCTATTGACCTGA
1 AACAGTAAGCTCTATTGAGCT-A
* *
25453118 AACGGTAAGCTCTATTAAGCTA
1 AACAGTAAGCTCTATTGAGCTA
25453140 AACAGTAAGCTCT-TTCGAGCTA
1 AACAGTAAGCTCTATT-GAGCTA
* * *
25453162 AACTGGTAAACTCTAATGAGCTAA
1 AAC-AGTAAGCTCTATTGAGCT-A
*
25453186 AACAGTAAGCTCTTTTGAGCT
1 AACAGTAAGCTCTATTGAGCT
25453207 GTAGTGAGTC
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.03
22 21 0.29
23 45 0.62
24 5 0.07
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTA
Found at i:25453145 original size:45 final size:45
Alignment explanation
Indices: 25453095--25453200 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 45
25453085 TGAGCTGATG
* *
25453095 AACAGTAAGCTCTATTGACCTGAAAC-GGTAAGCTCTATTAAGCT-A
1 AACAGTAAGCTCT-TTGACCT-AAACTGGTAAACTCTAATAAGCTAA
* *
25453140 AACAGTAAGCTCTTTCGAGCTAAACTGGTAAACTCTAATGAGCTAA
1 AACAGTAAGCTCTTT-GACCTAAACTGGTAAACTCTAATAAGCTAA
25453186 AACAGTAAGCTCTTT
1 AACAGTAAGCTCTTT
25453201 TGAGCTGTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 6 0.11
45 32 0.59
46 16 0.30
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (45 bp):
AACAGTAAGCTCTTTGACCTAAACTGGTAAACTCTAATAAGCTAA
Found at i:25457480 original size:12 final size:12
Alignment explanation
Indices: 25457463--25457492 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
25457453 TAGTTAGGAT
25457463 ACATATGTCATG
1 ACATATGTCATG
25457475 ACATATGTCATG
1 ACATATGTCATG
25457487 ACATAT
1 ACATAT
25457493 AAACCATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (12 bp):
ACATATGTCATG
Found at i:25457646 original size:42 final size:43
Alignment explanation
Indices: 25457590--25457699 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
25457580 CGACTTATGA
*
25457590 TTTATGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGG
1 TTTACGTGTAAGACCATGTCTGGGACAGT-GGCATCGATATTT-G
* *
25457633 TTT-CGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTG
1 TTTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTG
* *
25457675 TTTACTTGTAAGACCACGTCTGGGA
1 TTTACGTGTAAGACCATGTCTGGGA
25457700 TGTTGGAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 31 0.54
43 26 0.46
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (43 bp):
TTTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTG
Found at i:25458468 original size:10 final size:10
Alignment explanation
Indices: 25458429--25458471 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
25458419 TTGTGTATCA
*
25458429 TATGTTTTGG
1 TATGATTTGG
25458439 TATGATTTTGG
1 TATGA-TTTGG
25458450 CTCATGATTTGG
1 -T-ATGATTTGG
25458462 TATGATTTGG
1 TATGATTTGG
25458472 AATGGTGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 13 0.45
11 6 0.21
12 6 0.21
13 4 0.14
ACGTcount: A:0.16, C:0.05, G:0.28, T:0.51
Consensus pattern (10 bp):
TATGATTTGG
Found at i:25464066 original size:13 final size:13
Alignment explanation
Indices: 25464044--25464074 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25464034 TGATCAAGAT
*
25464044 TGACCGTGCAATA
1 TGACCCTGCAATA
25464057 TGACCCTGCAATA
1 TGACCCTGCAATA
25464070 TGACC
1 TGACC
25464075 GTGTGTCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (13 bp):
TGACCCTGCAATA
Found at i:25465044 original size:23 final size:22
Alignment explanation
Indices: 25465002--25465126 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 22
25464992 TGAGCTGATG
* *
25465002 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCGATCGAGCT-A
* *
25465025 AACGGTGAGCTCGATCGAGCTA
1 AACAGTAAGCTCGATCGAGCTA
**
25465047 AACAGTAAGCTC-ATAAAAGCTAA
1 AACAGTAAGCTCGAT-CGAGCT-A
* * *
25465070 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCGATCGAGCTA
* **
25465092 AACAGTAAGATCTTTCGAGCTA
1 AACAGTAAGCTCGATCGAGCTA
25465114 AATCAGTAAGCTC
1 AA-CAGTAAGCTC
25465127 CAATGAGCTG
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.02
22 35 0.43
23 43 0.52
24 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (22 bp):
AACAGTAAGCTCGATCGAGCTA
Found at i:25465113 original size:45 final size:44
Alignment explanation
Indices: 25465000--25465138 Score: 134
Period size: 45 Copynumber: 3.1 Consensus size: 44
25464990 CCTGAGCTGA
* * * * *
25465000 TGAACAGTAAGCTCTATTGAGCTGAAACGGTGAGCTCGATCGAGC
1 TGAACAGTAAGCTCT-TTGAGCTAAAACAGTAAGCTCCATTGAGC
* *** *
25465045 TAAACAGTAAGCTCATAAAAGCTAAAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTC-TTTGAGCTAAAACAGTAAGCTCCATTGAGC
* * *
25465090 TGAACAGTAAGATCTTTCGAGCTAAATCAGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTTT-GAGCTAAAACAGTAAGCTCCATTGAGC
25465135 TGAA
1 TGAA
25465139 ATAATAAGCT
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
44 1 0.01
45 73 0.97
46 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (44 bp):
TGAACAGTAAGCTCTTTGAGCTAAAACAGTAAGCTCCATTGAGC
Found at i:25465134 original size:23 final size:22
Alignment explanation
Indices: 25465002--25465149 Score: 77
Period size: 23 Copynumber: 6.5 Consensus size: 22
25464992 TGAGCTGATG
* *
25465002 AACAGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCCAATGAGCT-A
* * *
25465025 AACGGTGAGCT-CGATCGAGCTA
1 AACAGTAAGCTCCAAT-GAGCTA
**
25465047 AACAGTAAGCT-CATAAAAGCTAA
1 AACAGTAAGCTCCA-ATGAGCT-A
* * *
25465070 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCCAATGAGCTA
* **
25465092 AACAGTAAGAT-CTTTCGAGCTA
1 AACAGTAAGCTCCAAT-GAGCTA
25465114 AATCAGTAAGCTCCAATGAGCTGA
1 AA-CAGTAAGCTCCAATGAGCT-A
* *
25465138 AATAATAAGCTC
1 AACAGTAAGCTC
25465150 TTCCGAGCTG
Statistics
Matches: 93, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
21 2 0.02
22 33 0.35
23 52 0.56
24 6 0.06
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (22 bp):
AACAGTAAGCTCCAATGAGCTA
Found at i:25470131 original size:15 final size:16
Alignment explanation
Indices: 25470113--25470150 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
25470103 AATTAGAAAG
25470113 ATGAAAAGTT-ATTAA
1 ATGAAAAGTTAATTAA
* *
25470128 ATGATAATTTAATTAA
1 ATGAAAAGTTAATTAA
25470144 ATGAAAA
1 ATGAAAA
25470151 AAAAACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (16 bp):
ATGAAAAGTTAATTAA
Found at i:25471905 original size:39 final size:39
Alignment explanation
Indices: 25471701--25471923 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
25471691 TTGAATGCTG
* * * * * *
25471701 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
25471741 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
25471781 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
25471821 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
25471861 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
25471900 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25471924 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:25471943 original size:79 final size:80
Alignment explanation
Indices: 25471776--25471958 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
25471766 GTGCGAGATA
* * *
25471776 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
25471841 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
25471856 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
25471920 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
25471935 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
25471959 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:25478358 original size:40 final size:40
Alignment explanation
Indices: 25478321--25478488 Score: 173
Period size: 40 Copynumber: 4.3 Consensus size: 40
25478311 GGATTAAGAT
* *
25478321 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
25478361 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * ** *
25478401 CCGAAGGCAGTCGTGCGAGTTGTTAAAT-C-GGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
25478439 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGGT-
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTA-AGTC
25478478 CCGAAGGCATT
1 CCGAAGGCATT
25478489 TGAAACGAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
37 12 0.11
38 19 0.17
39 16 0.14
40 64 0.58
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:25478443 original size:38 final size:40
Alignment explanation
Indices: 25478333--25478470 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
25478323 GAAGGCCTTT
* * *
25478333 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTC
25478373 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTC
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTC
* * *
25478413 GTGCGAGTTGTTAAAT-C-GGTTATGTCCCGAAGGCA-TT
1 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTC
* * *
25478450 GTGTGAGTTACTAAAACCGGG
1 GTGCGAGTTATTAAATCCGGG
25478471 CTATGGTCCG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
37 13 0.15
38 18 0.21
39 3 0.03
40 52 0.60
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (40 bp):
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTC
Found at i:25482587 original size:47 final size:48
Alignment explanation
Indices: 25482472--25482605 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 48
25482462 AGGAATGTGA
* * * *
25482472 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-GACTCGA-TTCGAT
* * *
25482522 -AGTCAGTGTAAGACTATGTCTGGGACATGGCATCGACTTGA-TGGAT
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACTCGATTCGAT
*
25482568 GAGCCAGTGTAAGACTATGTCTGTGACATGGCATCGAC
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGAC
25482606 ATTATACCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 4 0.05
47 35 0.47
48 5 0.07
49 30 0.41
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACTCGATTCGAT
Found at i:25483197 original size:60 final size:60
Alignment explanation
Indices: 25483117--25483235 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
25483107 GGAAAATGGA
25483117 TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
1 TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
* *
25483177 TAGTGTTGAAAGTTATTATGTGAATGCAAGCTAGTCTTTCATGAATGTGGAATTGTTGG
1 TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGG
25483236 ATGGTTGAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.39
Consensus pattern (60 bp):
TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
Found at i:25483650 original size:12 final size:12
Alignment explanation
Indices: 25483633--25483660 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25483623 TTTTAGAAAT
25483633 GGGCTAAGACAC
1 GGGCTAAGACAC
25483645 GGGCTAAGACAC
1 GGGCTAAGACAC
25483657 GGGC
1 GGGC
25483661 ATGTCATGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.25, G:0.39, T:0.07
Consensus pattern (12 bp):
GGGCTAAGACAC
Found at i:25485237 original size:42 final size:44
Alignment explanation
Indices: 25485120--25485270 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 44
25485110 TCTGAAATAT
* * * * *
25485120 CGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGATATCTAATTTA
* * *
25485164 CGTGTAAGACCATTTCTAGGACATC-GACATCG-TATCTAATTT-
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCGATATCTAATTTA
* * *
25485206 TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATA-CTGAA-TTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGATATCT-AATTTA
* *
25485249 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
25485271 GTCGACATTA
Statistics
Matches: 84, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
42 29 0.35
43 29 0.35
44 25 0.30
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGATATCTAATTTA
Found at i:25487969 original size:39 final size:39
Alignment explanation
Indices: 25487834--25488053 Score: 194
Period size: 39 Copynumber: 5.6 Consensus size: 39
25487824 TTGAATGCTG
* * * * * *
25487834 TCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
25487873 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 T-CGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
25487913 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 T-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
25487953 TCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
25487992 TCCGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
1 TCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAA
* * *
25488031 CCGGGCTATGTCCCGAAGGCATT
1 TCGGGTTAAGTCCCGAAGGCATT
25488054 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
38 8 0.05
39 82 0.54
40 55 0.36
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:25488073 original size:78 final size:78
Alignment explanation
Indices: 25487908--25488088 Score: 202
Period size: 78 Copynumber: 2.3 Consensus size: 78
25487898 GTGCGAGATA
* * *
25487908 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCGGGTTAAGTCCCGAAGGC
1 CTAAATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAAACCGGGCTAAGTCCCGAAGGC
** **
25487973 AGTCGTGCGAGTTG
65 AGTCGAACGAGGAG
* * * *
25487987 TTAAATCCGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 CTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TAAAACCGGGCTAAGTCCCGAAGGC
* *
25488051 ATTTGAACGAGGAG
65 AGTCGAACGAGGAG
* *
25488065 CTATATCCGGTTAAATCCCGAAGG
1 CTAAATCCGGTTAAGTCCCGAAGG
25488089 TACATGATTG
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
77 9 0.11
78 68 0.81
79 7 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (78 bp):
CTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAAACCGGGCTAAGTCCCGAAGGCA
GTCGAACGAGGAG
Found at i:25492119 original size:47 final size:48
Alignment explanation
Indices: 25492004--25492137 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 48
25491994 AGGAATGTGA
* * * *
25492004 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-GACTCGA-TTCGAT
* * *
25492054 -AGTCAGTGTAAGACTATGTCTGGGACATGGCATCGACTTGA-TGGAT
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACTCGATTCGAT
*
25492100 GAGCCAGTGTAAGACTATGTCTGTGACATGGCATCGAC
1 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGAC
25492138 ATTATACCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 4 0.05
47 35 0.47
48 5 0.07
49 30 0.41
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACTCGATTCGAT
Found at i:25492734 original size:60 final size:60
Alignment explanation
Indices: 25492654--25492773 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
25492644 GGAAAATGGA
25492654 TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
1 TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
* *
25492714 TAGTGTTGAAAGTTATTATGTGAATGCAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
1 TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
25492774 ATGGTTGAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.38
Consensus pattern (60 bp):
TAGTATTGAAAGTTATTATGTGAATACAAGCTAGTCTTTCATGAATGTGGAATTGTTGGC
Found at i:25493189 original size:12 final size:12
Alignment explanation
Indices: 25493172--25493199 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25493162 TTTTAGAAAT
25493172 GGGCTAAGACAC
1 GGGCTAAGACAC
25493184 GGGCTAAGACAC
1 GGGCTAAGACAC
25493196 GGGC
1 GGGC
25493200 ATGTCATGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.25, G:0.39, T:0.07
Consensus pattern (12 bp):
GGGCTAAGACAC
Found at i:25497475 original size:41 final size:40
Alignment explanation
Indices: 25497356--25497576 Score: 213
Period size: 39 Copynumber: 5.6 Consensus size: 40
25497346 TTGAATGCTG
* * * * *
25497356 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * *
25497395 TCCGGATTAAGAT-CCGAAGGC-TTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
25497434 TCCGGGTTAAGTCCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGT-CCCGAAGGCATTCGTGCGAGTTACTAAA
* *
25497475 TCCGGGTTAAGTCCCGAAGGCAGTCGTGGCGAGTT-GTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGT-GCGAGTTACTAAA
* *
25497515 TCC-GGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
25497553 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25497577 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
37 6 0.04
38 12 0.08
39 74 0.47
40 30 0.19
41 34 0.22
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:25497596 original size:78 final size:79
Alignment explanation
Indices: 25497430--25497611 Score: 199
Period size: 78 Copynumber: 2.3 Consensus size: 79
25497420 TGCGAGATAC
* * *
25497430 TAAATCCGGGTTAAGTCCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 TAAATCC-GGTTAAGT-CCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* **
25497495 CAGTCGTGGCGAGTTG
64 CAGTCGTGACGAGGAG
* * *
25497511 TAAATCCGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
*
25497575 -T-TTGAACGAGGAG
66 GTCGTG-ACGAGGAG
* *
25497588 CTATATCCGGTTAAATCCCGAAGG
1 -TAAATCCGGTTAAGTCCCGAAGG
25497612 TGCAGTGATT
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
76 2 0.02
77 6 0.07
78 52 0.60
79 12 0.14
80 7 0.08
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
TAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
GTCGTGACGAGGAG
Found at i:25509903 original size:43 final size:43
Alignment explanation
Indices: 25509758--25509904 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 43
25509748 TCTCAGATAT
* * * * *
25509758 CGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTCAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGA-TACTGAATTA
* * *
25509802 CGTGTAAGACCATGTCTAGGACATC-GACATC-ATATCT-AATTT
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCGATA-CTGAATTA
* *
25509844 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGATACTGAATTA
*
25509887 CATGTAAGACCATGTCTG
1 CGTGTAAGACCATGTCTG
25509905 AGACGTCGGC
Statistics
Matches: 83, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 32 0.39
43 25 0.30
44 25 0.30
45 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGATACTGAATTA
Found at i:25509916 original size:43 final size:42
Alignment explanation
Indices: 25509799--25509916 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
25509789 GATTTCAGAT
* *
25509799 TTACGTGTAAGACCATGTCT-AGGACATCGACATCATATCTAA
1 TTACGTGTAAGACCATGTCTGA-GACGTCGGCATCATATCTAA
* * * *
25509841 TTTCGTGTAAGACCCTGTCTGGGACAG-AGGCATCGATA-CTGAA
1 TTACGTGTAAGACCATGTCTGAGAC-GTCGGCATC-ATATCT-AA
*
25509884 TTACATGTAAGACCATGTCTGAGACGTCGGCAT
1 TTACGTGTAAGACCATGTCTGAGACGTCGGCAT
25509917 TGTACTTGTC
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGAGACGTCGGCATCATATCTAA
Found at i:25512135 original size:48 final size:49
Alignment explanation
Indices: 25512060--25512154 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 49
25512050 TGTAAGACTT
* *
25512060 AGTAAATATGCACGGAAGTGCGTATCTACAGAAG-TATCATGTGCAATC
1 AGTAAACATGCACGGAAGTGCGGATCTACAGAAGCTATCATGTGCAATC
* **
25512108 AGTAAACATGCACGGGAGTTTGGATCTACAGAAGCTATCATGTGCAA
1 AGTAAACATGCACGGAAGTGCGGATCTACAGAAGCTATCATGTGCAA
25512155 GAGGTTTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 29 0.71
49 12 0.29
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (49 bp):
AGTAAACATGCACGGAAGTGCGGATCTACAGAAGCTATCATGTGCAATC
Found at i:25521358 original size:24 final size:24
Alignment explanation
Indices: 25521326--25521378 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
25521316 AAGGCTGTCA
25521326 GGAGAGGATTTAGGAGCTAATAAG
1 GGAGAGGATTTAGGAGCTAATAAG
* *
25521350 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTAATAAG
25521374 GGAGA
1 GGAGA
25521379 ACGGTGTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTAATAAG
Found at i:25522831 original size:27 final size:26
Alignment explanation
Indices: 25522800--25522900 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
25522790 CTGGTGGTTA
* *
25522800 TGCCACAATTATCTGATCTAGTGGCAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
*
25522827 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGGCAC
*
25522854 TGCCACAATTATCTGTTCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGGCAC
* *
25522881 TGTCACATTATTTGTTCTGG
1 TGCCACATTATCTGTTCTGG
25522901 CAGTCATGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
26 15 0.23
27 48 0.74
28 2 0.03
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGGCAC
Found at i:25522882 original size:54 final size:53
Alignment explanation
Indices: 25522790--25522900 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
25522780 AGAAAGCGTC
* *
25522790 CTGGTGGTTATGCCACAATTATCTGATCTAGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACACTGCCACAT-TATCTGTT
* * * * *
25522844 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACACTGCCACATTATCTGTT
25522897 CTGG
1 CTGG
25522901 CAGTCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 11 0.22
54 39 0.78
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACACTGCCACATTATCTGTT
Found at i:25534714 original size:30 final size:30
Alignment explanation
Indices: 25534678--25534738 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
25534668 TCATTAACTC
25534678 AAACTTTGGAA-ATATTACAATTTTGCCCCT
1 AAACTTTGGAATAT-TTACAATTTTGCCCCT
* * *
25534708 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAATATTTACAATTTTGCCCCT
25534738 A
1 A
25534739 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAATATTTACAATTTTGCCCCT
Found at i:25535691 original size:46 final size:44
Alignment explanation
Indices: 25535618--25535797 Score: 150
Period size: 46 Copynumber: 3.9 Consensus size: 44
25535608 GGGTTACTTG
* * *
25535618 TGTGCTAGTGTAAGTCATGCCTGGGACATGCATCGGCCT-CGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA
* *
25535662 TGTAAGCCAGTGTAAGACATATCTGGGACATGCATTGGCTACGAGA
1 TGT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
* * *
25535708 TGTGTCAGTGTAAGACTATGTCTGAGACATGGCATTGGC-ACGTATAGA
1 TGTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTACG---AGA
* * *
25535756 GGTGTCAATGTAAGACCATGTCTGGGACATGGCATCGG-TACG
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG
25535798 GATATGTGAG
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
44 15 0.13
45 16 0.14
46 44 0.39
48 38 0.33
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
Found at i:25535768 original size:48 final size:45
Alignment explanation
Indices: 25535672--25535790 Score: 143
Period size: 48 Copynumber: 2.6 Consensus size: 45
25535662 TGTAAGCCAG
* * *
25535672 TGTAAGACATATCTGGGACAT-GCATTGGCTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGACATGGCATTGGCTACGAGAGGTGTCAA
*
25535716 TGTAAGACTATGTCTGAGACATGGCATTGGC-ACGTATAGAGGTGTCAA
1 TGTAAGAC-ATGTCTGGGACATGGCATTGGCTACG---AGAGGTGTCAA
25535764 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGA-CATGTCTGGGACATGGCAT
25535791 CGGTACGGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
44 8 0.12
45 14 0.22
46 8 0.12
48 33 0.52
49 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGGCATTGGCTACGAGAGGTGTCAA
Found at i:25550798 original size:40 final size:40
Alignment explanation
Indices: 25550751--25550831 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
25550741 AATGCTTTAC
*
25550751 AATGCTCTTTTCCTATATTCCTCAGATTCTCCATATCACT
1 AATGCTCTTTTCCTAGATTCCTCAGATTCTCCATATCACT
*
25550791 AATGCTCTTTTCCTAGATTCCTCGGATTCTCCATATCACT
1 AATGCTCTTTTCCTAGATTCCTCAGATTCTCCATATCACT
25550831 A
1 A
25550832 GGTAAAGCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.30, G:0.07, T:0.41
Consensus pattern (40 bp):
AATGCTCTTTTCCTAGATTCCTCAGATTCTCCATATCACT
Found at i:25553743 original size:47 final size:47
Alignment explanation
Indices: 25553690--25553801 Score: 165
Period size: 46 Copynumber: 2.4 Consensus size: 47
25553680 GTGTGAATAA
*
25553690 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCAGAGAGT-AGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGA-TAAGT
* * *
25553737 TACCTTGATTTGGC-ACGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGATAAGT
25553783 TACCTTGATTTGGCTATGG
1 TACCTTGATTTGGCTATGG
25553802 AGGTACTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
45 1 0.02
46 40 0.69
47 17 0.29
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGATAAGT
Found at i:25558136 original size:100 final size:100
Alignment explanation
Indices: 25557963--25558154 Score: 278
Period size: 100 Copynumber: 1.9 Consensus size: 100
25557953 ACATTTCCAT
* * *
25557963 ATTTACAATAAAACACCTATATACATGCCACATCCCAAAACAAAATACAAAAACTACCAAAATTA
1 ATTTACAACAAAACACCTATATACATGCCACAACCCAAAACAAAATACAAAAACTACCAAAATGA
* * * *
25558028 CTGGATAGTGTGATCTTCTAGTCAATCCATCACAC
66 CTGAATAGTGTAAGCTTCTAATCAATCCATCACAC
**
25558063 ATTTACAACAAAACACCTATATACATGCCACAACCCAAAA-AAATATATGAAAACTACCAAAATG
1 ATTTACAACAAAACACCTATATACATGCCACAACCCAAAACAAA-ATACAAAAACTACCAAAATG
*
25558127 GCTGAATAGTGTAAGCTTCTAATCAATC
65 ACTGAATAGTGTAAGCTTCTAATCAATC
25558155 TGTCCCGTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 3 0.04
100 78 0.96
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.23
Consensus pattern (100 bp):
ATTTACAACAAAACACCTATATACATGCCACAACCCAAAACAAAATACAAAAACTACCAAAATGA
CTGAATAGTGTAAGCTTCTAATCAATCCATCACAC
Found at i:25558690 original size:20 final size:20
Alignment explanation
Indices: 25558673--25558711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25558663 ACCAAAGTCT
*
25558673 AAACAGAAGCACTGAAGTGC
1 AAACAGAAGCACCGAAGTGC
*
25558693 AAACGGAAGCACCGAAGTG
1 AAACAGAAGCACCGAAGTG
25558712 TAATCCTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.28, T:0.08
Consensus pattern (20 bp):
AAACAGAAGCACCGAAGTGC
Found at i:25567717 original size:26 final size:26
Alignment explanation
Indices: 25567688--25567747 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
25567678 TCCCTTTGAA
* * *
25567688 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
25567714 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
25567742 CCATTC
1 TCATTC
25567748 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:25567733 original size:28 final size:28
Alignment explanation
Indices: 25567702--25567773 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
25567692 TCGATATTTT
*
25567702 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
25567730 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
25567758 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
25567774 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:25577229 original size:26 final size:28
Alignment explanation
Indices: 25577191--25577242 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
25577181 ACAGTCATAT
* *
25577191 AACATACAGGGGTATATCCGTCATTTAC
1 AACATACAGGGGTATAACAGTCATTTAC
25577219 AACATA-A-GGGTATAACAGTCATTT
1 AACATACAGGGGTATAACAGTCATTT
25577243 CATAAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 1 0.05
28 6 0.27
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (28 bp):
AACATACAGGGGTATAACAGTCATTTAC
Found at i:25578200 original size:6 final size:6
Alignment explanation
Indices: 25578189--25578332 Score: 154
Period size: 6 Copynumber: 23.8 Consensus size: 6
25578179 AACCAAAATG
*
25578189 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
25578237 AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
25578285 AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
25578333 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 10, Indels: 22
0.79 0.07 0.15
Matches are distributed among these distances:
5 8 0.07
6 101 0.86
7 6 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:25578204 original size:30 final size:29
Alignment explanation
Indices: 25578168--25578265 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 29
25578158 AAGAAACATT
* * *
25578168 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
25578198 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
25578228 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
25578258 ATCAGAAT
1 ATCAGAAT
25578266 CAGAATCAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
29 1 0.02
30 54 0.92
31 4 0.07
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.19
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:25578246 original size:42 final size:42
Alignment explanation
Indices: 25578200--25578307 Score: 191
Period size: 42 Copynumber: 2.6 Consensus size: 42
25578190 GAATCAGAAT
25578200 CAGAATCAGTAA-CAGAATCAGAATCAGAATCAATATTAGTAA
1 CAGAATCAG-AATCAGAATCAGAATCAGAATCAATATTAGTAA
*
25578242 CAGAATCAGAATCAGAATCAGAATCAGAATCAGTATTAGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAATATTAGTAA
25578284 CAGAATCAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGAAT
25578308 TACGTGACAG
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (42 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAATATTAGTAA
Found at i:25578561 original size:27 final size:26
Alignment explanation
Indices: 25578521--25578572 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
25578511 GCGAGGCTGC
*
25578521 CAGATATTGTGGCGAAGTCACCAGAG
1 CAGATATTGTGGCGAAGCCACCAGAG
*
25578547 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGGCGAAGCCACCAGA
25578573 TTGCAACGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGGCGAAGCCACCAGAG
Found at i:25578583 original size:67 final size:68
Alignment explanation
Indices: 25578427--25578591 Score: 224
Period size: 71 Copynumber: 2.4 Consensus size: 68
25578417 CCGCTACACA
* ** * *
25578427 CCACCAGATTACAGCGAGGCTGCCAGATATTGTGGTTAGGCCACTAGAACAGATATATATATGTG
1 CCACCAGATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGCCACCAGAACAG--A-ATATATGTG
25578492 GCGAGG
63 GCGAGG
* *
25578498 CCACCAGATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGTCACCAGAGCAG-ATATATGTGGCG
1 CCACCAGATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGCCACCAGAACAGAATATATGTGGCG
25578562 AGG
66 AGG
*
25578565 CCACCAGATTGCAACGAGGCTGCCAGA
1 CCACCAGATTGCAGCGAGGCTGCCAGA
25578592 ATGCTTCCTC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
67 41 0.48
71 45 0.52
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (68 bp):
CCACCAGATTGCAGCGAGGCTGCCAGATATTGTGGCGAAGCCACCAGAACAGAATATATGTGGCG
AGG
Found at i:25578836 original size:27 final size:27
Alignment explanation
Indices: 25578806--25579181 Score: 446
Period size: 27 Copynumber: 13.9 Consensus size: 27
25578796 TAACATCTAG
*
25578806 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
25578833 GGGTAAAACGGTTATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25578860 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
25578887 AGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * * *
25578914 AGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25578941 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
25578968 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25578995 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
25579022 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25579049 CGATAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
25579076 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
25579103 GGGTAAAATGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** * *
25579130 GGGTAAAACAGTAATTTTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
25579157 GGGTAAAACGATAATTTTGTAAATC
1 GGGTAAAATGGTAATTTTGTAAATC
25579182 AAAGGTACTG
Statistics
Matches: 294, Mismatches: 55, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 294 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:25579201 original size:108 final size:108
Alignment explanation
Indices: 25578806--25579181 Score: 513
Period size: 108 Copynumber: 3.5 Consensus size: 108
25578796 TAACATCTAG
* * * * * *
25578806 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTTATTCTATAAATCGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGG
* * *
25578871 TAATTCTGTAAATCGAAGATAAAATAGTAATTTTGTAAATTGA
66 TAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATTGA
* * * *
25578914 AGGTAAAACGATAATTCTATAAATCGAGGGTAAAA-TAGTAATTTTGTAAATTGAGGGTAAAACG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAACG
25578978 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATTGA
65 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATTGA
* * * * **
25579022 GGGTAAAACGGTAATTCTATAAATCGACGATAAAATGGTAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGG
*
25579087 TAATTTTGTAAATCGAGGGTAAAAT-GATAATTTTGTAAATCGA
66 TAATTTTGTAAATCGAGGGTAAAATAG-TAATTTTGTAAATTGA
* * *
25579130 GGGTAAAACAGTAATTTTATAAATTGAGGGTAAAACGATAATTTTGTAAATC
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATC
25579182 AAAGGTACTG
Statistics
Matches: 235, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
107 1 0.00
108 234 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (108 bp):
GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGG
TAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATTGA
Found at i:25579215 original size:27 final size:27
Alignment explanation
Indices: 25579185--25579242 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
25579175 GTAAATCAAA
*
25579185 GGTACTGTGGTAATTTTACAAGTCGAG
1 GGTACTGTAGTAATTTTACAAGTCGAG
* * *
25579212 GGTATTTTAGTAATTTTACAGGTCGAG
1 GGTACTGTAGTAATTTTACAAGTCGAG
25579239 GGTA
1 GGTA
25579243 TTTCAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.36
Consensus pattern (27 bp):
GGTACTGTAGTAATTTTACAAGTCGAG
Found at i:25579240 original size:81 final size:81
Alignment explanation
Indices: 25579155--25579312 Score: 183
Period size: 81 Copynumber: 2.0 Consensus size: 81
25579145 TTTATAAATT
* *** *
25579155 GAGGGTAAAACGATAATTTTGTAAATCAAAGGTACTGTGGTAATTTTACAAGTCGA-GGGTATTT
1 GAGGGTAAAACAATAATTTCACAAATCAAAGGTACTGTGGTAATTTTACAA-ACGAGGGGTATTT
25579219 TAGTAATTTTACAGGTC
65 TAGTAATTTTACAGGTC
*** * * * *
25579236 GAGGGTATTTCAATAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GAGGGTAAAACAATAATTTCACAAATCAAAGGTACTGTGGTAATTTTACAAACGAGGGGTATTTT
*
25579301 GGTAATTTTACA
66 AGTAATTTTACA
25579313 AACTAGGGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (81 bp):
GAGGGTAAAACAATAATTTCACAAATCAAAGGTACTGTGGTAATTTTACAAACGAGGGGTATTTT
AGTAATTTTACAGGTC
Found at i:25579335 original size:81 final size:81
Alignment explanation
Indices: 25579177--25579326 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
25579167 ATAATTTTGT
* * ** *
25579177 AAATCAAAGGTACTGTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAGGTCGAGGGT
1 AAATCAAAGGTACTGTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAACTAGAGGGT
25579242 ATTTCAATAATTTCAC
66 ATTTCAATAATTTCAC
* * * *
25579258 AAATCAGAGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAG-GG
1 AAATCAAAGGTACTGTGGTAATTTTAC-AACTAGAGGGTATTTTAGTAATTTTAC-AACTAGAGG
25579321 GTATTT
64 GTATTT
25579327 TGGTAATTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
81 51 0.88
82 7 0.12
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (81 bp):
AAATCAAAGGTACTGTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAACTAGAGGGT
ATTTCAATAATTTCAC
Found at i:25579342 original size:27 final size:27
Alignment explanation
Indices: 25579192--25579361 Score: 148
Period size: 27 Copynumber: 6.3 Consensus size: 27
25579182 AAAGGTACTG
* *
25579192 TGGTAATTTTAC-AAGTCGAGGGTATTT
1 TGGTAATTTTACAAACTAG-GGGTATTT
* ** *
25579219 TAGTAATTTTAC-AGGTCGAGGGTATTT
1 TGGTAATTTTACAAACTAG-GGGTATTT
*** * *
25579246 CAATAATTTCACAAA-TCAGAGGTATTT
1 TGGTAATTTTACAAACT-AGGGGTATTT
25579273 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACTAGGGGTATTT
25579300 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACTAGGGGTATTT
* * * *
25579327 TGGTAATTTTATAAACCAAGGGCATTT
1 TGGTAATTTTACAAACTAGGGGTATTT
*
25579354 TGTTAATT
1 TGGTAATT
25579362 CTACCCTACA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 119 0.98
28 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAAACTAGGGGTATTT
Found at i:25581232 original size:6 final size:6
Alignment explanation
Indices: 25581221--25581376 Score: 110
Period size: 6 Copynumber: 25.8 Consensus size: 6
25581211 AACCAAAATG
* *
25581221 AGAATC AGAATC AGAATT AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
25581269 AGTAA-C ATAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATT
1 AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * * * *
25581317 AGTATT AGTAA-C AGAAAT- AGAATC AGAATT AGAATT ACGTGA-C AGAATC
1 AGAATC AG-AATC AG-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
25581366 AGAATC AGAAT
1 AGAATC AGAAT
25581377 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
5 11 0.09
6 100 0.83
7 8 0.07
8 2 0.02
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:25581236 original size:30 final size:30
Alignment explanation
Indices: 25581200--25581376 Score: 165
Period size: 30 Copynumber: 6.1 Consensus size: 30
25581190 AAGAAACATT
* *
25581200 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGTAA-CAAAATCAGAATCAGA
*
25581230 ATCAGAATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGTAACAAAATCAGAATCAGA
25581260 ATCA-ATATTAGTAAC---AT---AATCAGA
1 ATCAGA-ATTAGTAACAAAATCAGAATCAGA
* *
25581284 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGTAACAAAATCAGAATCAGA
* *
25581314 ATTAGTATTAGTAACAGAAAT-AGAATCAGA
1 ATCAGAATTAGTAACA-AAATCAGAATCAGA
* * *
25581344 ATTAGAATTACGTGACAGAATCAGAATCAGA
1 ATCAGAATTA-GTAACAAAATCAGAATCAGA
25581375 AT
1 AT
25581377 GTGAATGCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
24 19 0.15
25 1 0.01
27 4 0.03
29 1 0.01
30 77 0.62
31 22 0.18
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (30 bp):
ATCAGAATTAGTAACAAAATCAGAATCAGA
Found at i:25581248 original size:24 final size:24
Alignment explanation
Indices: 25581221--25581320 Score: 128
Period size: 24 Copynumber: 3.9 Consensus size: 24
25581211 AACCAAAATG
25581221 AGAATCAGAATCAGAATTAGTAAC
1 AGAATCAGAATCAGAATTAGTAAC
25581245 AGAATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAG-----A-ATTAGTAAC
* *
25581275 ATAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATTAGTAAC
25581299 AGAATCAGAATCAGAATTAGTA
1 AGAATCAGAATCAGAATTAGTA
25581321 TTAGTAACAG
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
24 42 0.64
25 1 0.02
29 1 0.02
30 22 0.33
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.22
Consensus pattern (24 bp):
AGAATCAGAATCAGAATTAGTAAC
Found at i:25581636 original size:27 final size:26
Alignment explanation
Indices: 25581596--25581646 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
25581586 CGAGGCTGCC
* *
25581596 AGATATTGTGGCGAAGTCACCAGAAT
1 AGATATTCTGGCGAAGCCACCAGAAT
*
25581622 AGATATGTCTGGCGAGGCCACCAGA
1 AGATAT-TCTGGCGAAGCCACCAGA
25581647 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (26 bp):
AGATATTCTGGCGAAGCCACCAGAAT
Found at i:25581911 original size:27 final size:27
Alignment explanation
Indices: 25581881--25582263 Score: 415
Period size: 27 Copynumber: 14.2 Consensus size: 27
25581871 TAACACCTAG
* * *
25581881 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
25581908 GGGTAAAACGGTTATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
25581935 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * ** *
25581962 AGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
25581989 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** *
25582016 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
25582043 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
**
25582070 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
25582097 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * * *
25582124 TGATAAAATGGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
**
25582151 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
25582178 GGGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
25582205 GGGTAAAACAGTAATTTTATAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** *
25582232 GGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
25582259 AGGTA
1 GGGTA
25582264 CTTTGGTAAT
Statistics
Matches: 299, Mismatches: 57, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 299 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:25582285 original size:27 final size:26
Alignment explanation
Indices: 25582253--25582434 Score: 143
Period size: 27 Copynumber: 6.8 Consensus size: 26
25582243 TAATTCTGTA
*
25582253 AATCGAAGGTACTTTGGTAATTTTAC
1 AATCGAAGGTATTTTGGTAATTTTAC
* *
25582279 AAGTCGAGGGTATTTTAGTAATTTTAC
1 AA-TCGAAGGTATTTTGGTAATTTTAC
** * ** *
25582306 TGGTCGAGGGTATTTCAGTAATTTCAC
1 -AATCGAAGGTATTTTGGTAATTTTAC
25582333 AAATC-AGAGGTATTTTGGTAATTTTAC
1 -AATCGA-AGGTATTTTGGTAATTTTAC
* * *
25582360 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCGA-AGGTATTTTGGTAATTTTAC
* * *
25582387 AAAC-TAGGTATTTTGGTAATTTTAT
1 AATCGAAGGTATTTTGGTAATTTTAC
* *
25582412 AAACCAAGGGTATTTTGGTAATT
1 AATCGAA-GGTATTTTGGTAATT
25582435 CTACCCTACA
Statistics
Matches: 130, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
25 22 0.17
26 7 0.05
27 101 0.78
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
AATCGAAGGTATTTTGGTAATTTTAC
Found at i:25582290 original size:81 final size:81
Alignment explanation
Indices: 25581881--25582263 Score: 500
Period size: 81 Copynumber: 4.7 Consensus size: 81
25581871 TAACACCTAG
* * * * *
25581881 GGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTTATTCTATAAATCGAGGGTAAAACGA
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA
*
25581946 TAATTCTATAAATCGA
66 TAATTTTATAAATCGA
* * *
25581962 AGATAAAATAGTAATTTTGTAAATTGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAA-T
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACG
* *
25582025 AGTAATTTTGTAAATTGA
65 A-TAATTTTATAAATCGA
* * * *
25582043 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGA
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA
*
25582108 TAATTCTATAAATCGA
66 TAATTTTATAAATCGA
* * * * *
25582124 TGATAAAATGGTAATTTTGTAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGA
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA
*
25582189 TAATTTTGTAAATCGA
66 TAATTTTATAAATCGA
* * * *
25582205 GGGTAAAACAGTAATTTTATAAATTGAGGGTAAAACAATAATTCTGTAAATCGAAGGTA
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
25582264 CTTTGGTAAT
Statistics
Matches: 262, Mismatches: 36, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 258 0.98
82 2 0.01
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA
TAATTTTATAAATCGA
Found at i:25582315 original size:81 final size:81
Alignment explanation
Indices: 25582230--25582386 Score: 176
Period size: 81 Copynumber: 1.9 Consensus size: 81
25582220 TTTATAAATT
** *
25582230 GAGGGTAAAACAATAA-TTCTGTAAATC-GAAGGTACTTTGGTAATTTTACAAGTCGA-GGGTAT
1 GAGGGTAAAACAATAATTTC-ACAAATCAG-AGGTACTTTGGTAATTTTACAA-ACGAGGGGTAT
25582292 TTTAGTAATTTTACTGGTC
63 TTTAGTAATTTTACTGGTC
*** * * *
25582311 GAGGGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GAGGGTAAAACAATAATTTCACAAATCAGAGGTACTTTGGTAATTTTACAAACGAGGGGTATTTT
*
25582376 GGTAATTTTAC
66 AGTAATTTTAC
25582387 AAACTAGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
80 2 0.03
81 57 0.90
82 4 0.06
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.38
Consensus pattern (81 bp):
GAGGGTAAAACAATAATTTCACAAATCAGAGGTACTTTGGTAATTTTACAAACGAGGGGTATTTT
AGTAATTTTACTGGTC
Found at i:25582423 original size:52 final size:54
Alignment explanation
Indices: 25582260--25582434 Score: 176
Period size: 54 Copynumber: 3.3 Consensus size: 54
25582250 GTAAATCGAA
* * * * **** *
25582260 GGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTTAGTAATTTTACTGGTCGAG
1 GGTATTTTGGTAATTTCACAAATCAGA-GGTATTTTGGTAATTTTACAAACCAAG
** * *
25582314 GGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACCAAG
* * *
25582368 GGTATTTTGGTAATTTTACAAA-C-TAGGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACCAAG
25582420 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
25582435 CTACCCTACA
Statistics
Matches: 100, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
52 40 0.40
53 1 0.01
54 57 0.57
55 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACCAAG
Found at i:25585471 original size:46 final size:46
Alignment explanation
Indices: 25585418--25585590 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
25585408 TGGTTGAGCA
*
25585418 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
25585464 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
25585511 TCCGAACTCATTGAGTTGAGTACGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25585557 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25585591 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.57
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:25585574 original size:93 final size:93
Alignment explanation
Indices: 25585415--25585585 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
25585405 GGATGGTTGA
* * * * *
25585415 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTACGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25585480 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
25585508 GCATCCGAACTCATTGAGTTGAGTACGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTACGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25585573 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25585586 ACTTAGGGGC
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:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTACGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25593173 original size:27 final size:26
Alignment explanation
Indices: 25593143--25593200 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
25593133 TGAGTTAATA
25593143 AATTCTCTATGAGTTTTTCTTTT-CAAG
1 AATTCTCT-TGAG-TTTTCTTTTACAAG
*
25593170 AATTTCTCTTGAGTTTTCTTTTAGAAG
1 AA-TTCTCTTGAGTTTTCTTTTACAAG
25593197 AATT
1 AATT
25593201 TTAACAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 11 0.39
27 11 0.39
28 6 0.21
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (26 bp):
AATTCTCTTGAGTTTTCTTTTACAAG
Found at i:25593201 original size:27 final size:28
Alignment explanation
Indices: 25593145--25593201 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
25593135 AGTTAATAAA
25593145 TTCTCTATGAGTTTTTCTTTTCAAGAAT
1 TTCTCTATGAGTTTTTCTTTTCAAGAAT
*
25593173 TTCTCT-TGAG-TTTTCTTTTAGAAGAAT
1 TTCTCTATGAGTTTTTCTTTT-CAAGAAT
25593200 TT
1 TT
25593202 TAACAATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.33
27 12 0.44
28 6 0.22
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.54
Consensus pattern (28 bp):
TTCTCTATGAGTTTTTCTTTTCAAGAAT
Found at i:25595663 original size:23 final size:25
Alignment explanation
Indices: 25595623--25595701 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 25
25595613 AGCTCCTCCT
*
25595623 GAGCTGATGGACAGTAAGCTCTG-AC
1 GAGCTGA-GAACAGTAAGCTCTGTAC
*
25595648 GATCTGA-AACAGTAAGCTC-GTAC
1 GAGCTGAGAACAGTAAGCTCTGTAC
* *
25595671 GAGCTGAGAACACTAAGCTCT-TAT
1 GAGCTGAGAACAGTAAGCTCTGTAC
25595695 GAGCTGA
1 GAGCTGA
25595702 TATATCGGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.02
23 19 0.41
24 20 0.43
25 6 0.13
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (25 bp):
GAGCTGAGAACAGTAAGCTCTGTAC
Found at i:25595687 original size:24 final size:23
Alignment explanation
Indices: 25595609--25595701 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 23
25595599 AGCTATGAAT
* *
25595609 AGTAAGCTCCTCCTGAGCTGATGGAC
1 AGTAAGCT-CTAC-GAGCTGA-GAAC
*
25595635 AGTAAGCTCTGACGATCTGA-AAC
1 AGTAAGCTCT-ACGAGCTGAGAAC
25595658 AGTAAGCTCGTACGAGCTGAGAAC
1 AGTAAGCTC-TACGAGCTGAGAAC
* *
25595682 ACTAAGCTCTTATGAGCTGA
1 AGTAAGCTC-TACGAGCTGA
25595702 TATATCGGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 19 0.33
24 21 0.37
25 8 0.14
26 9 0.16
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTACGAGCTGAGAAC
Found at i:25596575 original size:12 final size:12
Alignment explanation
Indices: 25596558--25596585 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25596548 CATACACGCC
25596558 CGTGTGCTAGGT
1 CGTGTGCTAGGT
25596570 CGTGTGCTAGGT
1 CGTGTGCTAGGT
25596582 CGTG
1 CGTG
25596586 CCAAACCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.18, G:0.43, T:0.32
Consensus pattern (12 bp):
CGTGTGCTAGGT
Found at i:25600296 original size:47 final size:47
Alignment explanation
Indices: 25600173--25600394 Score: 243
Period size: 48 Copynumber: 4.7 Consensus size: 47
25600163 GTTATACGTG
* * * * *
25600173 TAACGTGGTGCTAAGTGGATATACCACGATTACACAAAATGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
25600220 GTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * * * * *
25600268 TAATGTGGTGCTAAGTGGATATATCACGGTTAAACATGTAACGTGGTGC--
1 TAACGTGGTGCTAAGTGGATATACCACGGTT--ACATAT-A-TTGATTCAT
* *
25600317 TAA-GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTTAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
25600363 TAACGTGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
25600395 AACATGTAAC
Statistics
Matches: 144, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 8 0.06
47 54 0.38
48 65 0.45
49 8 0.06
50 1 0.01
51 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:25600322 original size:85 final size:85
Alignment explanation
Indices: 25600216--25600432 Score: 308
Period size: 95 Copynumber: 2.4 Consensus size: 85
25600206 ACAAAATGAT
* *
25600216 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
*
25600281 AGTGGATATATCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
25600301 ACATGTAACGTGGTGCTAAGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTTATTAA
1 ACATGTAA-------C---GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAA
25600366 CGTGGTGCTAAGTGGATATACCACGGTTAA
56 CGTGGTGCTAAGTGGATATACCACGGTTAA
25600396 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
25600433 TACATGTTAA
Statistics
Matches: 118, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
85 36 0.31
88 1 0.01
92 1 0.01
95 80 0.68
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:25600340 original size:95 final size:95
Alignment explanation
Indices: 25600226--25600418 Score: 359
Period size: 95 Copynumber: 2.0 Consensus size: 95
25600216 ACATGTAACA
*
25600226 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTAAGTGGATATA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
*
25600291 TCACGGTTAAACATGTAACGTGGTGCTAAG
66 CCACGGTTAAACATGTAACGTGGTGCTAAG
*
25600321 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTTATTAACGTGGTGCTAAGTGGATATA
1 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
25600386 CCACGGTTAAACATGTAACGTGGTGCTAAG
66 CCACGGTTAAACATGTAACGTGGTGCTAAG
25600416 TGG
1 TGG
25600419 ATATGCCACG
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (95 bp):
TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATA
CCACGGTTAAACATGTAACGTGGTGCTAAG
Found at i:25600414 original size:38 final size:38
Alignment explanation
Indices: 25600363--25600439 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
25600353 ATTGATTTAT
25600363 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
25600401 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
25600439 T
1 T
25600440 TAATTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:25604180 original size:47 final size:45
Alignment explanation
Indices: 25603984--25604246 Score: 165
Period size: 47 Copynumber: 5.6 Consensus size: 45
25603974 ATAAATTGCC
* * *
25603984 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATACATGTGTACT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATA-ATATG--CT
** * * **
25604034 GATGCATGTCGTAGACATGTCTTACACTAGCAC-AACTCTTA-GCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TAATATGCT
* * * * * * *
25604078 GATGCGTGCCCCAGACACGTCTTACACTAGCTATCTC-T-GTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCATAAT--ATGCT
* **
25604125 GATGCATGTCCCAGACATGTCTTACTCTGGCACTCATTTCTATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TAATATGCT
* * *
25604171 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATGCT
*
25604218 CATAGCATGTCCCAGACATGTCTTACACT
1 GAT-GCATGTCCCAGACATGTCTTACACT
25604247 AGCGCACAAA
Statistics
Matches: 170, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
44 29 0.17
45 5 0.03
46 21 0.12
47 66 0.39
48 32 0.19
49 13 0.08
50 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGCT
Found at i:25604226 original size:94 final size:92
Alignment explanation
Indices: 25603984--25604249 Score: 251
Period size: 94 Copynumber: 2.9 Consensus size: 92
25603974 ATAAATTGCC
* **
25603984 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATACATGT-GT-ACTGATGCATGTCGTA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGTCA-T-A-GCATGTCCCA
25604047 GACATGTCTTACACTAGCACAACTCTTAGCT
62 GACATGTCTTACACTAGCACAACTCTTAGCT
* * * * * * *
25604078 GATG-CGTGCCCCAGACA-CGTCTTACACTAGCTATCTC-T-GTCGAGGCCGAT-GCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GTGGTC-ATAGCATGTCCCA
* * * *
25604138 GACATGTCTTACTCTGGCAC-TCATTTCTATGCT
62 GACATGTCTTACACTAGCACAAC-TCT-TA-GCT
25604171 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCATAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCATAGCATGTCCCAGACA
25604236 TGTCTTACACTAGC
66 TGTCTTACACTAGC
25604250 GCACAAATCA
Statistics
Matches: 135, Mismatches: 23, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
90 1 0.01
91 29 0.21
92 15 0.11
93 25 0.19
94 51 0.38
95 14 0.10
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCATAGCATGTCCCAGACA
TGTCTTACACTAGCACAACTCTTAGCT
Found at i:25609047 original size:42 final size:42
Alignment explanation
Indices: 25608934--25609094 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 42
25608924 AGAAAGCTCG
** * *
25608934 TACAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
* *
25608976 TACCGATGCCACTGTCCCAGACA-GAGTCTTACATGAAATCAAA
1 TA-CAATGCCAATGTCCCAGACATG-GTCTTACATGAAATCAAA
* * *
25609019 TACAATGCCAATGTCCCAAACATGGTCTTACACGTAAAACATAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATG-AAATCA-AA
* * **
25609063 -GCAGATGCCAACGTCCCAGATGTGGTCTTACA
1 TACA-ATGCCAATGTCCCAGACATGGTCTTACA
25609095 CGATAACACA
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.30
43 42 0.43
44 26 0.27
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
Found at i:25609937 original size:42 final size:43
Alignment explanation
Indices: 25609837--25609950 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
25609827 AGCTTGTACA
* *
25609837 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* ** *
25609880 ATGCTATTGTCCCAGAAAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAACGTCCCAG-ACGTGGTCTTACACGAAATCAAATATCG
25609922 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
25609951 AAAAACACAC
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
41 2 0.03
42 24 0.41
43 31 0.53
44 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:25614874 original size:48 final size:48
Alignment explanation
Indices: 25614792--25615128 Score: 390
Period size: 48 Copynumber: 7.0 Consensus size: 48
25614782 ATACAAAAGG
* * * *
25614792 ATAAGATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 ATAA-ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
* *
25614841 ATAAATGCCTATGCCATGTTCCAAACATGGTCTTACATTGGCTCACAT
1 ATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
** * * * ** *
25614889 ATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCAT
1 ATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
*
25614937 ATAAATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
1 ATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
** * * *
25614985 ATCGAGGCCGATGCCATGTTCCAAACATGGTCTTATATTGGCTCACAT
1 ATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
* * * **
25615033 ATAAA-GTCAGATGCCATG-TCCTAGACATGGTCTTACACTAGCTTTCAT
1 ATAAATG-CCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACAT
* *
25615081 ATAAATGCCGATGCCATGTTCCAAACATGGTCTTATACAGGCTCACAT
1 ATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
25615129 CACCCTAGTA
Statistics
Matches: 237, Mismatches: 47, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
47 4 0.02
48 225 0.95
49 8 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
ATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
Found at i:25615059 original size:144 final size:144
Alignment explanation
Indices: 25614792--25615128 Score: 503
Period size: 144 Copynumber: 2.3 Consensus size: 144
25614782 ATACAAAAGG
* * * * *
25614792 ATAAGATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAAATGCCTATGCCA
1 ATAA-ATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAAAGGCCGATGCCA
** *
25614857 TGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCT
65 TGTTCCAAACATGGTCTTACATTGGCTCACATATAAAGGCAGATGCCATGTCCCAGACATGGTCT
25614922 TACACTAACTCTCAT
130 TACACTAACTCTCAT
**
25614937 ATAAATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCAT
1 ATAAATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAAAGGCCGATGCCAT
* * *
25615002 GTTCCAAACATGGTCTTATATTGGCTCACATATAAAGTCAGATGCCATGTCCTAGACATGGTCTT
66 GTTCCAAACATGGTCTTACATTGGCTCACATATAAAGGCAGATGCCATGTCCCAGACATGGTCTT
* *
25615067 ACACTAGCTTTCAT
131 ACACTAACTCTCAT
* * *
25615081 ATAAATGCCGATGCCATGTTCCAAACATGGTCTTATACAGGCTCACAT
1 ATAAATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
25615129 CACCCTAGTA
Statistics
Matches: 174, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
144 170 0.98
145 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (144 bp):
ATAAATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAAAGGCCGATGCCAT
GTTCCAAACATGGTCTTACATTGGCTCACATATAAAGGCAGATGCCATGTCCCAGACATGGTCTT
ACACTAACTCTCAT
Found at i:25620631 original size:40 final size:40
Alignment explanation
Indices: 25620533--25620795 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
25620523 TCCTCGTTCA
* * * * *
25620533 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25620572 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25620612 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25620652 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25620692 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25620732 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25620772 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25620796 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25628126 original size:40 final size:40
Alignment explanation
Indices: 25628028--25628290 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
25628018 TCCTCGTTCA
* * * * *
25628028 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25628067 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
25628107 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25628147 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25628187 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25628227 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25628267 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25628291 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25638532 original size:27 final size:26
Alignment explanation
Indices: 25638488--25638539 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25638478 CTCGCTACAA
*
25638488 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
25638515 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
25638540 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:25649731 original size:49 final size:50
Alignment explanation
Indices: 25649661--25649885 Score: 269
Period size: 49 Copynumber: 4.5 Consensus size: 50
25649651 TGAGGTCATG
* *
25649661 TGTGTAGTACTAACTGCAGGCTACTACGTGTACCGAATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGGTCACA
* * * *
25649710 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAA-TTAGGTCACA
* * ** *
25649761 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATC-AGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATTAGGTCACA
* *
25649811 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGGTCACA
*
25649860 TGTGTACTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
25649886 TGCATACCAG
Statistics
Matches: 152, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
49 64 0.42
50 50 0.33
51 38 0.25
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGGTCACA
Found at i:25649842 original size:101 final size:98
Alignment explanation
Indices: 25649660--25649887 Score: 296
Period size: 101 Copynumber: 2.3 Consensus size: 98
25649650 GTGAGGTCAT
* * * *
25649660 GTGTGTAGTACTAACTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACAGAATAATTGGTCACATGTGTAGTACTAAGT
*
25649725 GCAGGCTACTATGTGTACCCGATAACTTCGATCAC
66 GCAGGCTACTACGTGTACCCGATAA-TT-GATCAC
** *
25649760 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAG-ATGGTTAGGTCACGTGTGTAGTACTAA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CAGAATAATT-GGTCACATGTGTAGTACTAA
* * *
25649824 GTGCAGGCTACTACGTGTACCGGATAATTGGTCGC
64 GTGCAGGCTACTACGTGTACCCGATAATTGATCAC
* *
25649859 ATGTGTACTACTAAGTGCAGGCTACTATG
1 GTGTGTAGTACTAAGTGCAGGCTACTATG
25649888 CATACCAGAT
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
99 31 0.27
100 37 0.33
101 45 0.40
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACAGAATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCCGATAATTGATCAC
Found at i:25654959 original size:49 final size:49
Alignment explanation
Indices: 25654880--25655123 Score: 256
Period size: 49 Copynumber: 4.9 Consensus size: 49
25654870 CTATTTTGAG
*
25654880 GTCACATGTGTAGTACTAAGTACAGGCTACTATGTGTACCAGATAATTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
* * ** * *
25654929 GTCGCATGTGTAGTACTAAGTGCAGACTACTATGCATACCCGATAACTTC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTA
** * * * **
25654979 GATCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
* * * * *
25655029 GGCCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTACC-GAATAATTG
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATAATTA
* *
25655079 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
25655124 GCTTTGGGTA
Statistics
Matches: 156, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
49 78 0.50
50 44 0.28
51 34 0.22
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
Found at i:25659097 original size:48 final size:48
Alignment explanation
Indices: 25658941--25659272 Score: 355
Period size: 48 Copynumber: 6.9 Consensus size: 48
25658931 AAAGGGTAAG
* * * * *
25658941 ATGTTGATGCCATG-TCCTAGACATAGTCTTACACTAGCTCTCTTATAA
1 ATGTCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATAA
* ** * * **
25658989 AT-TCCAATGTTATGTTCCAAACATGGTCTTA-ACTGGCTCACGTATCG
1 ATGT-CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* * * * *
25659036 AGGTCGATCCCATGTACCAGACATGGTCTTACACTAGCTCTCATATAA
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
**
25659084 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATTG
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* * *
25659132 AGGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* * * * * *
25659180 AGGCCGATGCCATGTACTAGACATGGTCTTACACTAGCTCTCATATAA
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
* *
25659228 ATGCCGATGCGATGTTCCAAACATGGTCTTACACTAGCTCACATA
1 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
25659273 ACCCTAATAT
Statistics
Matches: 233, Mismatches: 47, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 34 0.15
48 196 0.84
49 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (48 bp):
ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAA
Found at i:25659224 original size:144 final size:143
Alignment explanation
Indices: 25659000--25659272 Score: 474
Period size: 144 Copynumber: 1.9 Consensus size: 143
25658990 TTCCAATGTT
* * *
25659000 ATGTTCCAAACATGGTCTTAACTGGCTCACGTATCGAGGTCGATCCCATGTACCAGACATGGTCT
1 ATGTTCCAAACATGGTCTTAACTGGCTCACATATCAAGGCCGATCCCATGTACCAGACATGGTCT
*
25659065 TACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAT
66 TACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAT
25659130 TGAGGTCGATGCC
131 TGAGGTCGATGCC
* *
25659143 ATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTACTAGACATGGTC
1 ATGTTCCAAACATGGTCTTA-ACTGGCTCACATATCAAGGCCGATCCCATGTACCAGACATGGTC
*
25659208 TTACACTAGCTCTCATATAAATGCCGATGCGATGTTCCAAACATGGTCTTACACTAGCTCACATA
65 TTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
25659273 ACCCTAATAT
Statistics
Matches: 122, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
143 20 0.16
144 102 0.84
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (143 bp):
ATGTTCCAAACATGGTCTTAACTGGCTCACATATCAAGGCCGATCCCATGTACCAGACATGGTCT
TACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAT
TGAGGTCGATGCC
Found at i:25659966 original size:51 final size:51
Alignment explanation
Indices: 25659906--25660016 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
25659896 CATGGCAAAA
*
25659906 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAGGGT
1 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAAGGT
25659957 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAAGGT
1 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAAGGT
*
25660008 CCCAAAAGT
1 CCCTAAAGT
25660017 ACAAAAATTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (51 bp):
CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAAGGT
Found at i:25663867 original size:29 final size:29
Alignment explanation
Indices: 25663825--25663883 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
25663815 AATAAATCAT
25663825 TTGTAATACAGATTTTCAAATGCTGAGCA
1 TTGTAATACAGATTTTCAAATGCTGAGCA
25663854 TTGTAATACAGATTTTCAAATGCTGAGCA
1 TTGTAATACAGATTTTCAAATGCTGAGCA
25663883 T
1 T
25663884 ACTCTAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (29 bp):
TTGTAATACAGATTTTCAAATGCTGAGCA
Found at i:25669175 original size:48 final size:48
Alignment explanation
Indices: 25669098--25669524 Score: 415
Period size: 48 Copynumber: 8.9 Consensus size: 48
25669088 AGTTATGTGT
*
25669098 GAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCATTATTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * * * * * * * * *
25669146 GAGCTAGTGTAAGACCTTGTCTGGGACATGGCATTGGCCTCAATAAGG
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * * * *
25669194 GAGCCAGTGTAAGACCATGTTTGAAACATGGCACCAGCATTGTTACGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * * * * * * *
25669242 GAGCTAGTGTAAGACCATGTTTGGGATATGACATCGGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * * *
25669290 GAGCCAGTGTAAGACCATGTATGGAACATGGCATCGACATTGTTGTGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * * * * *
25669338 GAGCTATTGTAAGACCATGTTTGGAACATTGCATCGGCCTCAATATGCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATG-A
* * * * *
25669387 -AGCCAATGTAAGACCATGTTTGGAACATGGCAGCAGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * **
25669434 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATGTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTAT-TATGA
* *
25669484 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
25669525 TTACCCTTTT
Statistics
Matches: 294, Mismatches: 81, Indels: 7
0.77 0.21 0.02
Matches are distributed among these distances:
48 249 0.85
49 2 0.01
50 43 0.15
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
Found at i:25669267 original size:96 final size:96
Alignment explanation
Indices: 25669098--25669524 Score: 520
Period size: 96 Copynumber: 4.4 Consensus size: 96
25669088 AGTTATGTGT
* *
25669098 GAGCCAGTGTAAGACCATGTTT-AGAACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGACC
1 GAGCCAGTGTAAGACCATGTTTGA-AACATGGCATCAGCATTGTTATGAGAGCTAGTGTAAGACC
* * * *
25669162 TTGTCTGGGACATGGCATTGGCCTCAATAAGG
65 ATGTCTGGGACATGGCATCGGCCTCAATATGA
* *
25669194 GAGCCAGTGTAAGACCATGTTTGAAACATGGCACCAGCATTGTTACGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCAGCATTGTTATGAGAGCTAGTGTAAGACCA
* * * *
25669259 TGTTTGGGATATGACATCGGCCTCAATATGT
66 TGTCTGGGACATGGCATCGGCCTCAATATGA
* * * *
25669290 GAGCCAGTGTAAGACCATGTATGGAACATGGCATC-GACATTGTTGTGAGAGCTATTGTAAGACC
1 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCAG-CATTGTTATGAGAGCTAGTGTAAGACC
* * *
25669354 ATGTTTGGAACATTGCATCGGCCTCAATATGCA
65 ATGTCTGGGACATGGCATCGGCCTCAATATG-A
* * * * *
25669387 -AGCCAATGTAAGACCATGTTTGGAACATGGCAGCAGCATTGTTATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCAGCATTGTTATGAGAGCTAGTGTAAGACCA
25669451 TGTCTGGGACATGGCATCGGCAC-CAATGTATGA
66 TGTCTGGGACATGGCATCGGC-CTCAA--TATGA
* ** *
25669484 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCAGCATT
25669525 TTACCCTTTT
Statistics
Matches: 286, Mismatches: 37, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.00
96 242 0.85
97 4 0.01
98 39 0.14
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCAGCATTGTTATGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCCTCAATATGA
Found at i:25669426 original size:192 final size:193
Alignment explanation
Indices: 25669095--25669524 Score: 594
Period size: 192 Copynumber: 2.2 Consensus size: 193
25669085 TAAAGTTATG
* *
25669095 TGTGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGA
1 TGTGAGCCAGTGTAAGACCATGTATGGAACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGA
* * * ** *
25669160 CCTTGTCTGGGACATGGCATTGGCCTCAATAAGGGAGCCAGTGTAAGACCATGTTTGAAACATGG
66 CCATGTCTGGAACATGGCATCGGCCTCAATAAGCAAGCCAATGTAAGACCATGTTTGAAACATGG
* * *
25669225 CACCAGCATTGTTACGAGAGCTAGTGTAAGACCATGTTTGGGATATGACATCGGC-CTCAA-TA
131 CACCAGCATTGTTACGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCAC-CAAGTA
* * * *
25669287 TGTGAGCCAGTGTAAGACCATGTATGGAACATGGCATCGACATTGTTGTGAGAGCTATTGTAAGA
1 TGTGAGCCAGTGTAAGACCATGTATGGAACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGA
* * * *
25669352 CCATGTTTGGAACATTGCATCGGCCTCAATATGCAAGCCAATGTAAGACCATGTTTGGAACATGG
66 CCATGTCTGGAACATGGCATCGGCCTCAATAAGCAAGCCAATGTAAGACCATGTTTGAAACATGG
* * * *
25669417 CAGCAGCATTGTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATGTA
131 CACCAGCATTGTTACGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCACCAA-GTA
* * *
25669481 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 TGTGAGCCAGTGTAAGACCATGTATGGAACATGGCATCGGCATT
25669525 TTACCCTTTT
Statistics
Matches: 208, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
192 165 0.79
193 1 0.00
194 42 0.20
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (193 bp):
TGTGAGCCAGTGTAAGACCATGTATGGAACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGA
CCATGTCTGGAACATGGCATCGGCCTCAATAAGCAAGCCAATGTAAGACCATGTTTGAAACATGG
CACCAGCATTGTTACGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCACCAAGTA
Found at i:25670078 original size:21 final size:19
Alignment explanation
Indices: 25670046--25670084 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
25670036 CCCTTGTCTT
*
25670046 AAATTTGGAAAATCATTAA
1 AAATTTGGAAAATAATTAA
25670065 AAATTGTGTGAAAATAATTA
1 AAATT-TG-GAAAATAATTA
25670085 TGGGTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (19 bp):
AAATTTGGAAAATAATTAA
Found at i:25676804 original size:24 final size:24
Alignment explanation
Indices: 25676777--25676832 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
25676767 TCCTAAAATC
* *
25676777 TCTCCATAATCCTCTCTTTGATTT
1 TCTCCACAATCCTCTCCTTGATTT
* *
25676801 TCTCCCCAATCCTCTCCTTGATTC
1 TCTCCACAATCCTCTCCTTGATTT
*
25676825 CCTCCACA
1 TCTCCACA
25676833 TAACACTCCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.41, G:0.04, T:0.39
Consensus pattern (24 bp):
TCTCCACAATCCTCTCCTTGATTT
Found at i:25680366 original size:49 final size:48
Alignment explanation
Indices: 25680309--25680479 Score: 168
Period size: 49 Copynumber: 3.5 Consensus size: 48
25680299 AAAGTCGATG
*
25680309 CCATGTCCCAAACAGGTCTTACACTGACTTTCATATCTCGAGACTGACT
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAGACTGA-T
* * * * ** *
25680358 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCAAT
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAGACT-GAT
* *
25680406 GCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCCGAT
1 -CCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATCTCGAGACTGAT
* *
25680455 GCATGTCCCAGACATGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
25680480 AGCTCTCGTC
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
48 26 0.26
49 71 0.72
50 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAGACTGAT
Found at i:25680429 original size:98 final size:97
Alignment explanation
Indices: 25680306--25680538 Score: 287
Period size: 98 Copynumber: 2.4 Consensus size: 97
25680296 ATCAAAGTCG
*
25680306 ATGCCATGTCCCAAACAGGTCTTACACT-GACTT-TCATATCTCGAGACTGACTCCATGTCCCAG
1 ATGCCATGTCCCAAACAGGTCTTACACTAG-CTTGT-ATATCTCGAGACCGA-TCCATGTCCCAG
*
25680369 ACAGGTCTTACACTGGCTCTCATCTATCGGTGTCA
63 ACAGGTCTTACACTAGCTCTCATCTATCGGTGTCA
* * *
25680404 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACA
1 ATGCCATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGACCGATCCATGTCCCAGACA
* * ** * *
25680469 TGTCTTACACTAGCTCTCGTC--TCAATGCCG
66 GGTCTTACACTAGCTCTCATCTATCGGTGTCA
* *
25680499 ATG-CATGTCCCATACATGTCTTACACTAGCTTGTATATCT
1 ATGCCATGTCCCAAACAGGTCTTACACTAGCTTGTATATCT
25680539 AGAGGTTGAT
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
94 35 0.29
95 8 0.07
97 32 0.27
98 43 0.36
99 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (97 bp):
ATGCCATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGACCGATCCATGTCCCAGACA
GGTCTTACACTAGCTCTCATCTATCGGTGTCA
Found at i:25680516 original size:46 final size:46
Alignment explanation
Indices: 25680359--25680622 Score: 185
Period size: 46 Copynumber: 5.6 Consensus size: 46
25680349 AGACTGACTC
* * * * * *
25680359 CATGTCCCAGACAGGTCTTACACTGGCTCTCATCT-ATCGGTGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA--AG-GCCGATG
* * ** *
25680407 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAAGGCCGATG
*
25680456 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGGCCGATG
* * **
25680502 CATGTCCCATACATGTCTTACACTAGCT-T-GTATATCTAGAGGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG--TCTC-A-AGGCCGATG
* * * * * * **
25680550 CATGTCCCATACTTGTCTTACACTGGCCCTCATAAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAGGCCGATG
25680596 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
25680623 ACACATATCA
Statistics
Matches: 176, Mismatches: 29, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 72 0.41
47 3 0.02
48 58 0.33
49 34 0.19
50 3 0.02
51 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGGCCGATG
Found at i:25680535 original size:94 final size:95
Alignment explanation
Indices: 25680257--25680622 Score: 361
Period size: 94 Copynumber: 3.8 Consensus size: 95
25680247 ATACGATGCC
* * ** * * * *
25680257 GATGCCATGTCCCAGGCATGGTCTTACATTGGCTAGCACATCAAAGTCGATGCCATGTCCCAAAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCTCATCAATGCCGATGCCATGTCCCAGAC
*
25680322 AGGTCTTACACT-GACTT-TCATATCTCGAGACT
64 AGGTCTTACACTAG-CTTGT-ATATCTCGAGGCT
* * ** * *
25680354 GACTCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCAATGCCATGTCCCAGA
1 GA-TGCATGTCCCAGACATGTCTTACACTGGCTCTC-TC-ATCAATGCCGATGCCATGTCCCAGA
*
25680419 CAGGTCTTACACTAGCTTGTATATCTCGAGGCC
63 CAGGTCTTACACTAGCTTGTATATCTCGAGGCT
* *
25680452 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTC-TCAATGCCGATG-CATGTCCCATACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTC-TCATCAATGCCGATGCCATGTCCCAGACA
* * *
25680515 TGTCTTACACTAGCTTGTATATCTAGAGGTT
65 GGTCTTACACTAGCTTGTATATCTCGAGGCT
* *
25680546 GATGCATGTCCCATACTTGTCTTACACTGGC-C-CTCAT-AATGTGGCCGATG-CATGTCCCAGA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCTCATCAA--T-GCCGATGCCATGTCCCAGA
*
25680607 CATGTCTTACACTAGC
63 CAGGTCTTACACTAGC
25680623 ACACATATCA
Statistics
Matches: 229, Mismatches: 31, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
91 4 0.02
92 2 0.01
93 2 0.01
94 100 0.44
95 8 0.03
96 14 0.06
97 47 0.21
98 50 0.22
99 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (95 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCTCATCAATGCCGATGCCATGTCCCAGACAG
GTCTTACACTAGCTTGTATATCTCGAGGCT
Found at i:25681309 original size:20 final size:18
Alignment explanation
Indices: 25681272--25681314 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
25681262 CTATAGCAAC
25681272 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
25681289 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
25681309 TTACAA
1 TCACAA
25681315 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:25682202 original size:17 final size:18
Alignment explanation
Indices: 25682180--25682214 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25682170 TGTAACGCCC
25682180 TGATTTTC-GGGATTTTT
1 TGATTTTCTGGGATTTTT
*
25682197 TGATTTTCTGTGATTTTT
1 TGATTTTCTGGGATTTTT
25682215 GGTAAATTTT
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:0.11, C:0.06, G:0.20, T:0.63
Consensus pattern (18 bp):
TGATTTTCTGGGATTTTT
Found at i:25688865 original size:36 final size:35
Alignment explanation
Indices: 25688788--25688865 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
25688778 TCAATAGGTC
**
25688788 CACAGTCATCTTGTGCGACCCGTGCAACCTTTGGT
1 CACAGTCATCTTGTGCGACCCGTGCAACCTTCAGT
* *
25688823 CCACAGTCATCTTGTGTGACCCGTGCGACCATATCAGT
1 -CACAGTCATCTTGTGCGACCCGTGCAACC-T-TCAGT
25688861 -ACAGT
1 CACAGT
25688866 ACACTTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 32 0.89
37 1 0.03
38 3 0.08
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.27
Consensus pattern (35 bp):
CACAGTCATCTTGTGCGACCCGTGCAACCTTCAGT
Found at i:25689055 original size:27 final size:27
Alignment explanation
Indices: 25688999--25689087 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
25688989 AGCAAATCGG
* * *
25688999 TCATTTTACCTTACCA-GGGTATTACAA
1 TCATTTTACCCTA-CAGGGGTATTTCGA
*
25689026 TCATTTTACCCTACAGGGGTATTTTGA
1 TCATTTTACCCTACAGGGGTATTTCGA
* *
25689053 TCATTCTACCCTA-TGGAGGTATTTCGA
1 TCATTTTACCCTACAGG-GGTATTTCGA
*
25689080 TCCTTTTA
1 TCATTTTA
25689088 TCACATGAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.08
27 47 0.92
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTTCGA
Found at i:25689113 original size:27 final size:27
Alignment explanation
Indices: 25689083--25689207 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
25689073 ATTTCGATCC
* *
25689083 TTTTATCACATGAGGGAAAAATCGTCA
1 TTTTATCACATAAGGGTAAAATCGTCA
*
25689110 TTTTATCACATAAGGGTAAAATCGTTA
1 TTTTATCACATAAGGGTAAAATCGTCA
* *
25689137 TTTTATCACATAAGGGCAAAATCATCA
1 TTTTATCACATAAGGGTAAAATCGTCA
* *
25689164 TTTTATCACATAAGAGTAAAATTGTCA
1 TTTTATCACATAAGGGTAAAATCGTCA
*
25689191 TTTTATCACATGAGGGT
1 TTTTATCACATAAGGGT
25689208 TTAGGCACGT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (27 bp):
TTTTATCACATAAGGGTAAAATCGTCA
Found at i:25695905 original size:40 final size:40
Alignment explanation
Indices: 25695860--25696084 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
25695850 CTTGCGCAAG
* * * *
25695860 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
25695900 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25695940 GCCTTCAGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
25695980 GCCTTCGGGTCTAAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCAGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
25696020 GCCTTCAGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCAGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
25696061 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCAGGTCTTAGCCCGGATAT
25696085 CATTCGAATA
Statistics
Matches: 153, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 124 0.81
41 28 0.18
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:25704101 original size:40 final size:40
Alignment explanation
Indices: 25704056--25704280 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
25704046 CTTGCGCAAG
* * * *
25704056 GCCTTCGGGTCTTAGTCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25704096 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25704136 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
25704176 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * *
25704216 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
25704257 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
25704281 CATTCGAATA
Statistics
Matches: 156, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:25708706 original size:122 final size:120
Alignment explanation
Indices: 25708550--25708773 Score: 340
Period size: 122 Copynumber: 1.9 Consensus size: 120
25708540 TTTTCATTTT
* * *
25708550 TCTATCATTTAATTTGCATTCTTAGGTTAGTTATCATACATTTCGTGTTAAATCAAGTTATTAGG
1 TCTATCATTTAATTTGCATTCCTAGGTTAGTTATCATACATTACGTGTTAAATCAAG--ATTAAG
* *
25708615 AACACCTCATACCCATGACATTACTATGCTTATTCTCATGCTATTACCATGCCAATA
64 AAAACCTCATACCCATGACATTACTATGCTCATTCTCATGCTATTACCATGCCAATA
**
25708672 TCTATCATTTAATTTGCATTCCTAGGTTAGTTATCATACATTACGTGTTAAATTGAGATTAAGAA
1 TCTATCATTTAATTTGCATTCCTAGGTTAGTTATCATACATTACGTGTTAAATCAAGATTAAGAA
* * *
25708737 AACCTCATACCCATTACATTTCTATTCTCATTCTCAT
66 AACCTCATACCCATGACATTACTATGCTCATTCTCAT
25708774 TGTTATTGTG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
120 39 0.42
122 53 0.58
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (120 bp):
TCTATCATTTAATTTGCATTCCTAGGTTAGTTATCATACATTACGTGTTAAATCAAGATTAAGAA
AACCTCATACCCATGACATTACTATGCTCATTCTCATGCTATTACCATGCCAATA
Found at i:25717792 original size:48 final size:48
Alignment explanation
Indices: 25717707--25717823 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
25717697 AAGCTGACGT
* * *
25717707 CATGTCCCAGACAGGTCTTACACTAGCTTGTGTATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * *
25717755 CTTGTCTCAAACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
*
25717803 CATGTCCCAGACATGTCTTAC
1 CATGTCCCAAACATGTCTTAC
25717824 TGTAACACCC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:25721910 original size:20 final size:18
Alignment explanation
Indices: 25721873--25721915 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
25721863 CTATAACAAC
25721873 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
25721890 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
25721910 TTACAA
1 TCACAA
25721916 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:25723237 original size:35 final size:35
Alignment explanation
Indices: 25723179--25723294 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
25723169 TTCATTATAT
* *
25723179 CATCACATATGGCCGAATATACAAGTTAGATAGAA
1 CATCACATATGGCCAAATATACAAGTTAGATACAA
* * * * *
25723214 CATCACATGTAGCCAAATTTACAAATTCA-ATACAT
1 CATCACATATGGCCAAATATACAAGTT-AGATACAA
*
25723249 CATCACATATGGCCAAATATACAAGTTAGATATAA
1 CATCACATATGGCCAAATATACAAGTTAGATACAA
25723284 CATCACATATG
1 CATCACATATG
25723295 TACATACCTA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
34 1 0.02
35 64 0.97
36 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (35 bp):
CATCACATATGGCCAAATATACAAGTTAGATACAA
Found at i:25727630 original size:20 final size:20
Alignment explanation
Indices: 25727605--25727673 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
25727595 CTATCACAAA
25727605 TCACATAGTTCATATACATT
1 TCACATAGTTCATATACATT
*
25727625 TCACATA-TTCCCA-ATTCATT
1 TCACATAGTT--CATATACATT
*
25727645 TGCACTATAGTTTATATACATT
1 T-CAC-ATAGTTCATATACATT
25727667 TCACATA
1 TCACATA
25727674 TTCCCAATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 2 0.05
20 17 0.43
21 9 0.22
22 10 0.25
23 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (20 bp):
TCACATAGTTCATATACATT
Found at i:25727668 original size:42 final size:43
Alignment explanation
Indices: 25727609--25727697 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 43
25727599 CACAAATCAC
25727609 ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCAC-T
1 ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCACAT
*
25727651 ATAGTTTATATACATTTCACATATTCCCAATTCATTTGCACAT
1 ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCACAT
25727694 ATAG
1 ATAG
25727698 CATATTTTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 40 0.89
43 5 0.11
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (43 bp):
ATAGTTCATATACATTTCACATATTCCCAATTCATTTGCACAT
Found at i:25727693 original size:21 final size:20
Alignment explanation
Indices: 25727621--25727695 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
25727611 AGTTCATATA
25727621 CATTTCACATATTCCCAATT
1 CATTTCACATATTCCCAATT
* *
25727641 CATTTGCACTATAGTT--TATATA
1 CATTT-CAC-ATA-TTCCCA-ATT
25727663 CATTTCACATATTCCCAATT
1 CATTTCACATATTCCCAATT
25727683 CATTTGCACATAT
1 CATTT-CACATAT
25727696 AGCATATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
19 2 0.05
20 15 0.34
21 15 0.34
22 10 0.23
23 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (20 bp):
CATTTCACATATTCCCAATT
Found at i:25737556 original size:14 final size:15
Alignment explanation
Indices: 25737527--25737559 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25737517 CTGGGATACC
25737527 AACACAAAAGTTAAG
1 AACACAAAAGTTAAG
*
25737542 AACACATAA-TTAAG
1 AACACAAAAGTTAAG
25737556 AACA
1 AACA
25737560 AGTTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.61, C:0.15, G:0.09, T:0.15
Consensus pattern (15 bp):
AACACAAAAGTTAAG
Found at i:25742642 original size:21 final size:21
Alignment explanation
Indices: 25742618--25742693 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
25742608 CTAGAAACCA
25742618 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
25742639 TGTGGTCTGAGTTC-TTGATAT
1 TGTGATCTGAACTCATTGA-GT
*
25742660 ATGTGACATCTAAACTCATTGAGT
1 -TGTG--ATCTGAACTCATTGAGT
*
25742684 TGTGGTCTGA
1 TGTGATCTGA
25742694 GTTCATGATG
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
20 4 0.10
21 16 0.41
22 4 0.10
23 4 0.10
24 7 0.18
25 4 0.10
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.39
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:25742679 original size:45 final size:45
Alignment explanation
Indices: 25742622--25742709 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
25742612 AAACCATGTG
* *
25742622 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCTTGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
*
25742667 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTG
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTG
25742710 GCACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Done.