Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 104 of 207
Found at i:31254644 original size:4 final size:4
Alignment explanation
Indices: 31254625--31254678 Score: 90
Period size: 4 Copynumber: 13.5 Consensus size: 4
31254615 TACTTGTTGG
* *
31254625 TACA TACG TACG TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
31254673 TACA TA
1 TACA TA
31254679 TTTAAATCTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:31261597 original size:15 final size:15
Alignment explanation
Indices: 31261577--31261606 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31261567 TATTAGTATC
*
31261577 TTTCCTAACTTAGAG
1 TTTCCTAAATTAGAG
31261592 TTTCCTAAATTAGAG
1 TTTCCTAAATTAGAG
31261607 AAATAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TTTCCTAAATTAGAG
Found at i:31268201 original size:29 final size:29
Alignment explanation
Indices: 31268158--31268213 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
31268148 AAATGTTGAA
*
31268158 CTTTTAAAAAGATTACGAGATTAGACCTG
1 CTTTTAAAAAAATTACGAGATTAGACCTG
* *
31268187 CTTTTAAAAAAATTATGGGATTAGACC
1 CTTTTAAAAAAATTACGAGATTAGACC
31268214 GAAAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (29 bp):
CTTTTAAAAAAATTACGAGATTAGACCTG
Found at i:31270181 original size:34 final size:34
Alignment explanation
Indices: 31270138--31270205 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
31270128 CGATGGCATT
31270138 CATAACTCATCGACGATTGCTATTCGCCAACTTA
1 CATAACTCATCGACGATTGCTATTCGCCAACTTA
* *
31270172 CATAACTCATTGACGATTGCTATTCGCTAACTTA
1 CATAACTCATCGACGATTGCTATTCGCCAACTTA
31270206 ACACGACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (34 bp):
CATAACTCATCGACGATTGCTATTCGCCAACTTA
Found at i:31274058 original size:14 final size:15
Alignment explanation
Indices: 31274009--31274058 Score: 77
Period size: 14 Copynumber: 3.5 Consensus size: 15
31273999 AGTAAAATAC
31274009 TTTCTGGAAAATGAT
1 TTTCTGGAAAATGAT
31274024 TTT-TGGAAAATGAT
1 TTTCTGGAAAATGAT
*
31274038 TTACTGGAAAAT-AT
1 TTTCTGGAAAATGAT
31274052 TTTCTGG
1 TTTCTGG
31274059 TGTTTGGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (15 bp):
TTTCTGGAAAATGAT
Found at i:31274194 original size:38 final size:38
Alignment explanation
Indices: 31274151--31274269 Score: 95
Period size: 38 Copynumber: 3.2 Consensus size: 38
31274141 TATTAATATT
31274151 ATATATTAATAATTTTTTATATTTTTAATTGTTTTTAC
1 ATATATTAATAATTTTTTATATTTTTAATTGTTTTTAC
* * * ** *
31274189 ATATATTGCAATGATTTTGT-TGTTTTTACA----TCATAT
1 ATATATT--AATAATTTTTTATATTTTTA-ATTGTTTTTAC
* *
31274225 ATATATTAATAAATTTTTATATTTTAAATTGTTTTTAC
1 ATATATTAATAATTTTTTATATTTTTAATTGTTTTTAC
*
31274263 TTATATT
1 ATATATT
31274270 GTAATGATTT
Statistics
Matches: 58, Mismatches: 15, Indels: 16
0.65 0.17 0.18
Matches are distributed among these distances:
34 9 0.16
35 6 0.10
36 10 0.17
38 16 0.28
39 7 0.12
40 10 0.17
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (38 bp):
ATATATTAATAATTTTTTATATTTTTAATTGTTTTTAC
Found at i:31275555 original size:35 final size:36
Alignment explanation
Indices: 31275509--31275577 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
31275499 TGTCAGTCGT
31275509 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
31275544 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
31275578 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:31277391 original size:33 final size:33
Alignment explanation
Indices: 31277354--31277420 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
31277344 TGCAATCGTT
31277354 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
* * *
31277387 AGGGTGAAGAGAGTGAAGAGATGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
31277420 A
1 A
31277421 ATGTCTTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.43, T:0.13
Consensus pattern (33 bp):
AGGGTAAAGAGAGTGAAAAGAGGAGCTGTGGAA
Found at i:31284724 original size:12 final size:12
Alignment explanation
Indices: 31284686--31284730 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
31284676 AAATTTCATA
*
31284686 AAAACATAGTTT
1 AAAACATACTTT
*
31284698 ATAAACAATATTTT
1 A-AAAC-ATACTTT
31284712 AAAACATACTTT
1 AAAACATACTTT
31284724 AAAACAT
1 AAAACAT
31284731 TAAATCTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 14 0.48
13 8 0.28
14 7 0.24
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAACATACTTT
Found at i:31284770 original size:13 final size:13
Alignment explanation
Indices: 31284752--31284782 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31284742 AGAGAATGCG
*
31284752 TAAAACATATCTT
1 TAAAACATAACTT
31284765 TAAAACATAACTT
1 TAAAACATAACTT
31284778 TAAAA
1 TAAAA
31284783 ACGTATACTG
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:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACATAACTT
Found at i:31285905 original size:27 final size:26
Alignment explanation
Indices: 31285873--31285973 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 26
31285863 AACATGTTAG
* *
31285873 GAAAGAAAATCCTTTATGGCGTAAAAT
1 GAAAGAAAA-CCTTTGTGGCGTAATAT
31285900 GAAAGAAAAACCTTTGTGGCGTAATAT
1 GAAAG-AAAACCTTTGTGGCGTAATAT
* *
31285927 GAAAGGAACACCTCTGTGGCGTAATAT
1 GAAA-GAAAACCTTTGTGGCGTAATAT
*
31285954 GAAAGAATAGCCTTTGTGGC
1 GAAAGAA-AACCTTTGTGGC
31285974 AAACTCTGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 3 0.05
27 56 0.88
28 5 0.08
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (26 bp):
GAAAGAAAACCTTTGTGGCGTAATAT
Found at i:31288980 original size:50 final size:50
Alignment explanation
Indices: 31288831--31289121 Score: 291
Period size: 50 Copynumber: 5.9 Consensus size: 50
31288821 TGATAATAAC
* * ** * *
31288831 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT--
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCG
* * * * * **
31288879 ACTG-CAATGCTATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 A-TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCG
* * * ** *
31288929 GTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCG
* * * *
31288979 GTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACATCTTATCTCG
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
31289029 ATGCCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTTATATCA
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
31289079 ATGCCAACGCCATGTCCCAGACAAGGTCTTACAGGGGACCTCT
1 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
31289122 TTACCCAAAT
Statistics
Matches: 205, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
48 37 0.18
49 4 0.02
50 164 0.80
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:31290884 original size:40 final size:40
Alignment explanation
Indices: 31290840--31291063 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
31290830 AAGTGAATAT
* * * * *
31290840 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAA
31290880 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
31290920 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* *
31290960 ATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
31291000 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
31291039 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
31291064 TGAACGAGGA
Statistics
Matches: 169, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 35 0.21
40 134 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
Found at i:31291083 original size:79 final size:80
Alignment explanation
Indices: 31290840--31291098 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
31290830 AAGTGAATAT
* * * * * * *
31290840 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
31290904 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
31290920 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
31290985 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
31291000 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
31291064 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
31291079 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
31291099 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:31298713 original size:40 final size:40
Alignment explanation
Indices: 31298630--31298892 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
31298620 TTGAATGCTG
* * * * * *
31298630 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
31298670 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
31298710 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
31298750 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
31298790 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31298830 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31298869 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31298893 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:31298912 original size:79 final size:80
Alignment explanation
Indices: 31298669--31298927 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
31298659 AAGTGAATAT
* * * * * * *
31298669 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
31298733 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
31298749 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
31298814 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
31298829 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
31298893 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
31298908 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
31298928 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:31304162 original size:24 final size:24
Alignment explanation
Indices: 31304134--31304183 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
31304124 ACATGCTGAA
31304134 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTCTATGACAACAT
31304158 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTCTATGACAACAT
31304182 CA
1 CA
31304184 AATTCTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.40
Consensus pattern (24 bp):
CATTTTTCCCTTCTATGACAACAT
Found at i:31307095 original size:29 final size:29
Alignment explanation
Indices: 31307053--31307123 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
31307043 AAAGAGGGGA
** * * *
31307053 AAGTATCCATCAAGCGAAGTTCGCAAATC
1 AAGTATCCGCCAAGCGAAATCCACAAATC
* *
31307082 AAGTATCCGCCAAGTGAAATCCACAAGTC
1 AAGTATCCGCCAAGCGAAATCCACAAATC
*
31307111 ACGTATCCGCCAA
1 AAGTATCCGCCAA
31307124 ATGCGCCTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (29 bp):
AAGTATCCGCCAAGCGAAATCCACAAATC
Found at i:31311483 original size:91 final size:91
Alignment explanation
Indices: 31311325--31311506 Score: 328
Period size: 91 Copynumber: 2.0 Consensus size: 91
31311315 TCTTTTCATT
* *
31311325 AATTTCCATATCAAATATTAACTTTTCCTTCATAAGAATCATTTATCTAACTCATTTTTCAATTT
1 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
31311390 TCTAGTCAATTCACTATATCCGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
*
31311416 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTTAAATT
1 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
*
31311481 TCTAGTCAATTCACTATATCTGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
31311507 TTGAATAATG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.44
Consensus pattern (91 bp):
AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
TCTAGTCAATTCACTATATCCGCTTC
Found at i:31325170 original size:27 final size:26
Alignment explanation
Indices: 31325103--31325200 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
31325093 TAATGAGATT
31325103 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATT-AA
*
31325130 ATGCACTAAGTGTGCGAGTATAATGTAA
1 A-GCACTAAGTGTGCGAGTTTAAT-TAA
*
31325158 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTA--A
31325186 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31325201 TACTTATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTTAATTAA
Found at i:31326253 original size:47 final size:47
Alignment explanation
Indices: 31326187--31326521 Score: 397
Period size: 47 Copynumber: 7.1 Consensus size: 47
31326177 CCAAATTTGA
31326187 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * *
31326233 TGTCCAATTTTGAATGTATTGATGTTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * *
31326280 TGTCCAATTTTGAGTGTACTAATGCTGTCCATTTTAATGTATGATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
*
31326327 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
31326374 TGTCCGATTATGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * *
31326421 TGTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * ** *
31326468 TGTCC-ATTTTGAGCAGATT-ATTGCTGTCCAATTTGTTGAATAATTGC
1 TGTCCAATTTTGAGTATATTGA-TGCTGTCCATTTTAATGTATAA-TGC
31326515 TGTCCAA
1 TGTCCAA
31326522 AACAGGGTTG
Statistics
Matches: 258, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 35 0.14
47 221 0.86
48 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:31327354 original size:15 final size:14
Alignment explanation
Indices: 31327333--31327372 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
31327323 GAAATAGGCA
31327333 AGAAGAAGGAAAAG
1 AGAAGAAGGAAAAG
31327347 AGGAAGAAGGAAAAG
1 A-GAAGAAGGAAAAG
31327362 AGAACGAAGGA
1 AGAA-GAAGGA
31327373 GGTGAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.60, C:0.03, G:0.38, T:0.00
Consensus pattern (14 bp):
AGAAGAAGGAAAAG
Found at i:31338084 original size:50 final size:50
Alignment explanation
Indices: 31338019--31338206 Score: 214
Period size: 50 Copynumber: 3.6 Consensus size: 50
31338009 TCTTGTACTA
* * **
31338019 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
31338069 CCCATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
** ** *
31338119 CCAACACCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATAATCTCAAAGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
31338175 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
31338207 AGATCTCTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
50 82 0.71
53 2 0.02
56 31 0.27
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:31341306 original size:25 final size:25
Alignment explanation
Indices: 31341278--31341335 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
31341268 ATGCTCATAC
31341278 GAGCTGTGAATCGGTATGCTCT-CAT
1 GAGCTGTGAATCGGTATGCT-TACAT
* * *
31341303 GAGCTATAAATTGGTATGCTTACAT
1 GAGCTGTGAATCGGTATGCTTACAT
*
31341328 GAGTTGTG
1 GAGCTGTG
31341336 GGTCAGAACG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (25 bp):
GAGCTGTGAATCGGTATGCTTACAT
Found at i:31360155 original size:25 final size:25
Alignment explanation
Indices: 31360103--31360197 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
31360093 TCATGTACAT
* * *
31360103 GTATGCTCATACGAGCTATGAATTA
1 GTATGCTCACACGAGCTATAAATCA
* * *
31360128 GTATGCTCACTCGAGCTGTAGATCA
1 GTATGCTCACACGAGCTATAAATCA
* * *
31360153 GTATGCTCTCACGTGCTATAAATCG
1 GTATGCTCACACGAGCTATAAATCA
*
31360178 GTATGCTCACACAAGCTATA
1 GTATGCTCACACGAGCTATA
31360198 GGTCAAAGTG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCA
Found at i:31364712 original size:45 final size:45
Alignment explanation
Indices: 31364635--31364725 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
31364625 AGATACTCCA
* * * *
31364635 TGGATTCAGCACATAACAACTACCTTATTAATCAATGATGTCCGG
1 TGGAATCAACACATAACAACCACCTTACTAATCAATGATGTCCGG
* *
31364680 TGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTTCGG
1 TGGAATCAACACATAACAACCACCTTACTAATCAATGATGTCCGG
31364725 T
1 T
31364726 TTACATAGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (45 bp):
TGGAATCAACACATAACAACCACCTTACTAATCAATGATGTCCGG
Found at i:31364789 original size:51 final size:51
Alignment explanation
Indices: 31364731--31364917 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 51
31364721 TCGGTTTACA
* * *
31364731 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCAATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATTACCATCCAGTACACG
* ** * * * *
31364782 TAGTAGCCTACACATAGTACTACACACGTGATCAAAACTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGACCATTACCATCCAGTACACG
* * * * *
31364833 TAGTAGCCTATACATAGTACTACACATGCGACC--TATCATTCCAGTGCACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATTACCA-TCCAGTACACG
*
31364883 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
31364918 CACTTTCACT
Statistics
Matches: 108, Mismatches: 25, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 36 0.33
51 70 0.65
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATTACCATCCAGTACACG
Found at i:31364912 original size:101 final size:101
Alignment explanation
Indices: 31364729--31364913 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
31364719 GTTCGGTTTA
* *
31364729 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCAATACACGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCAATACACGTAGTAGCCTACA
31364794 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * * * *
31364831 CATAGTAGCCTATACATAGTACTACACATGCGACC-TATCATTCCAGTGCACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCAATACACGTAGTAGCCTACA
31364895 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
31364914 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCAATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:31374531 original size:27 final size:27
Alignment explanation
Indices: 31374493--31374849 Score: 344
Period size: 27 Copynumber: 13.3 Consensus size: 27
31374483 ATTCATGGGC
* * *
31374493 AAATAACCGAAATACCCGCAAAGGATA
1 AAATGACCGAAATACCCTCAAAGGGTA
*
31374520 AAATGACCGAAATGCCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* **
31374547 AAAT-ATTCGAAATACCCTTGAAGGGTA
1 AAATGA-CCGAAATACCCTCAAAGGGTA
* * **
31374574 AAATGACTGAAATACCTTTGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* * *
31374601 AAATGACTGAAATACTCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* * *
31374628 AAATGATCGAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
*
31374655 AAATGACCAAAATA-CCTCTAAAGGGTA
1 AAATGACCGAAATACCCTC-AAAGGGTA
** **
31374682 AAATGACTAAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
** *
31374709 AAATGACTAAAATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* **
31374736 AAATAACTAAAATACCC-CGAAAGGGTA
1 AAATGACCGAAATACCCTC-AAAGGGTA
* *
31374763 AAATGACTGAAATACCCTCAAAGAGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* * *
31374790 AAATGACCAAAATACCCTCGAGGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
* *
31374817 AAATGACCAAAATACCC-CATAGGGTA
1 AAATGACCGAAATACCCTCAAAGGGTA
31374843 AAATGAC
1 AAATGAC
31374850 TGTTATACCC
Statistics
Matches: 285, Mismatches: 39, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.06
27 262 0.92
28 5 0.02
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCAAAGGGTA
Found at i:31374638 original size:81 final size:81
Alignment explanation
Indices: 31374513--31374860 Score: 382
Period size: 81 Copynumber: 4.3 Consensus size: 81
31374503 AATACCCGCA
* * * * *
31374513 AAGGATAAAATGACCGAAATGCCCTCAAAGGGTAAAAT-ATTCGAAATACCCTTGAAGGGTAAAA
1 AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGA-TCAAAATACCCTCGAAGGGTAAAA
** *
31374577 TGACTGAAATACCTTTG
65 TGACCAAAATACCTCTG
* * * *
31374594 AAGGGTAAAATGACTGAAATACTCTCGAAGGGTAAAATGATCGAAATGCCCTCGAAGGGTAAAAT
1 AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATCAAAATACCCTCGAAGGGTAAAAT
*
31374659 GACCAAAATACCTCTA
66 GACCAAAATACCTCTG
* ** **
31374675 AAGGGTAAAATGACTAAAATACCCTTGAAGGGTAAAATGA-CTAAAATACCCTTAAAGGGTAAAA
1 AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATC-AAAATACCCTCGAAGGGTAAAA
* * *
31374739 TAACTAAAATACC-CCG
65 TGACCAAAATACCTCTG
* * *
31374755 AAAGGGTAAAATGACTGAAATACCCTCAAAGAGTAAAATGACCAAAATACCCTCGAGGGGTAAAA
1 -AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATCAAAATACCCTCGAAGGGTAAAA
*
31374820 TGACCAAAATACC-C-C
65 TGACCAAAATACCTCTG
**
31374835 ATAGGGTAAAATGACTGTTATACCCT
1 A-AGGGTAAAATGACTGAAATACCCT
31374861 TAGGAGTTGA
Statistics
Matches: 228, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.00
80 24 0.11
81 201 0.88
82 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.20
Consensus pattern (81 bp):
AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGATCAAAATACCCTCGAAGGGTAAAAT
GACCAAAATACCTCTG
Found at i:31375064 original size:27 final size:26
Alignment explanation
Indices: 31375028--31375095 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 26
31375018 CACATATATA
* *
31375028 GTTACTGGCAGCTTTGCTGCGTTACT
1 GTTACTGGCAGCTTTGCTACGTCACT
31375054 GTTACTGGGCAGCTTTGCTACGTCACT
1 GTTACT-GGCAGCTTTGCTACGTCACT
* **
31375081 ATTACTAACAGCTTT
1 GTTACTGGCAGCTTT
31375096 ACTGCGATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 13 0.36
27 23 0.64
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTACTGGCAGCTTTGCTACGTCACT
Found at i:31375250 original size:28 final size:30
Alignment explanation
Indices: 31375218--31375287 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
31375208 CTGATTATTG
*
31375218 TATTGGGCTAAGGCTC-C-CACTGTTACTA
1 TATTGGGCTAAGGCCCACACACTGTTACTA
*
31375246 TATTGGGCTAAGGCCCACACACTGTTACTG
1 TATTGGGCTAAGGCCCACACACTGTTACTA
*
31375276 TAATGGGCTAAG
1 TATTGGGCTAAG
31375288 TTTCACACTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 15 0.41
29 1 0.03
30 21 0.57
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (30 bp):
TATTGGGCTAAGGCCCACACACTGTTACTA
Found at i:31378064 original size:42 final size:42
Alignment explanation
Indices: 31377979--31378068 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
31377969 ATGATCTAGC
*
31377979 ACACGGCCTAGCACATGGGCATGTGAGACCATATTGAGTGTT
1 ACACGGCCTAGCACATGGGCATGTGAGACCATATTGAGAGTT
* * * *
31378021 ACACGGTCTGGCACATTGGCATGTGA-CCCA-ACTTAGAGAGTT
1 ACACGGCCTAGCACATGGGCATGTGAGACCATA-TT-GAGAGTT
31378063 ACACGG
1 ACACGG
31378069 GCGCGGACAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.02
41 5 0.12
42 35 0.85
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (42 bp):
ACACGGCCTAGCACATGGGCATGTGAGACCATATTGAGAGTT
Found at i:31385030 original size:16 final size:15
Alignment explanation
Indices: 31385006--31385036 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
31384996 TAATATGAAT
31385006 GATATGTGATATATG
1 GATATGTGATATATG
31385021 GATATGGTGATATATG
1 GATAT-GTGATATATG
31385037 CATACCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GATATGTGATATATG
Found at i:31388537 original size:39 final size:40
Alignment explanation
Indices: 31388492--31388716 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
31388482 GCTCCTCGTT
* * * *
31388492 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31388532 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31388571 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
31388611 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
31388651 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31388692 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31388717 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31388585 original size:40 final size:38
Alignment explanation
Indices: 31388459--31388716 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
31388449 AAATCACGTA
* * *
31388459 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
31388498 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
31388537 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
31388577 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
31388617 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
31388657 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
31388697 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
31388717 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:31388725 original size:41 final size:41
Alignment explanation
Indices: 31388648--31388725 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31388638 CTTGTATCTC
* * *
31388648 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31388689 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31388726 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31396052 original size:39 final size:40
Alignment explanation
Indices: 31396007--31396231 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
31395997 GCTCCTCGTT
* * * *
31396007 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
31396047 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
31396086 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
31396126 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
31396166 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
31396207 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31396232 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31396240 original size:41 final size:41
Alignment explanation
Indices: 31396163--31396240 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31396153 CTTGTATCTC
* * *
31396163 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31396204 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31396241 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31402871 original size:40 final size:40
Alignment explanation
Indices: 31402787--31402970 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
31402777 TTGAATGCTG
* * * *
31402787 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
31402826 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
31402867 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
31402907 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
31402947 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31402971 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:31402924 original size:80 final size:81
Alignment explanation
Indices: 31402787--31402967 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
31402777 TTGAATGCTG
* * *
31402787 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
31402851 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
31402867 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
31402928 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
31402947 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
31402968 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:31416574 original size:40 final size:40
Alignment explanation
Indices: 31416530--31416658 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
31416520 TCGTAAAAGG
* *
31416530 TCGAGCATTAGTGGCACTTTTTGAAAAATGCCGCTATAGA
1 TCGAGCATTAGTGGCACGTTTTGAAAAACGCCGCTATAGA
* ** *
31416570 TCGAGCATTAGCGGTGCGTTTTGAAAAACGTCGCTATAGA
1 TCGAGCATTAGTGGCACGTTTTGAAAAACGCCGCTATAGA
* ** * * **
31416610 TCAAGCATTAGTGGTGC-TTTTCAAAAACACCATTATAGA
1 TCGAGCATTAGTGGCACGTTTTGAAAAACGCCGCTATAGA
*
31416649 TCAAGCATTA
1 TCGAGCATTA
31416659 CCGGTGCTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 27 0.36
40 49 0.64
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (40 bp):
TCGAGCATTAGTGGCACGTTTTGAAAAACGCCGCTATAGA
Found at i:31416647 original size:39 final size:39
Alignment explanation
Indices: 31416563--31416680 Score: 137
Period size: 39 Copynumber: 3.0 Consensus size: 39
31416553 AAAAATGCCG
* * ** *
31416563 CTATAGATCGAGCATTAGCGGTGCGTTTTGAAAAACGTCG
1 CTATAGATCAAGCATTAGCGGTGC-TTTTCAAAAACACCA
*
31416603 CTATAGATCAAGCATTAGTGGTGCTTTTCAAAAACACCA
1 CTATAGATCAAGCATTAGCGGTGCTTTTCAAAAACACCA
* * *
31416642 TTATAGATCAAGCATTACCGGTGCTTTTCGTAAAACACC
1 CTATAGATCAAGCATTAGCGGTGCTTTTC-AAAAACACC
31416681 GCAAAAAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
39 37 0.55
40 30 0.45
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (39 bp):
CTATAGATCAAGCATTAGCGGTGCTTTTCAAAAACACCA
Found at i:31416874 original size:155 final size:151
Alignment explanation
Indices: 31416588--31417122 Score: 493
Period size: 155 Copynumber: 3.5 Consensus size: 151
31416578 TAGCGGTGCG
* * * * * * ** *
31416588 TTTTGAAAAACGTCGCTATAGATCAAGCATTAGTGGTGCTT-TTCAAAAACACCATTATAGATCA
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGTGCTTGTTGAAAAACGCCGCTATAGATCG
* ** * * * * *
31416652 AGCATTACCGGTGCTTTTCGTAAAACACCGCAAAAAATGTTAAGCAAAACA-CGTCATTTGTTGT
66 AGCATTAGCGACGCTTTTTGGAAAACGCCGCAAAAAAT-TTGAGCAAAATAGCGTCATTTGTTGT
31416716 TGAGCTTTAGTGGCGTTAGTGGCGCT
130 TGAGCTTTAGTGGC--TAG-GGC-CT
* * *
31416742 TTTTAAAAAACGCCGCAATAGATCAAGCATTAGTGATGCTAT-TTGAAAAACGCCTCTATAGATC
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGTGCT-TGTTGAAAAACGCCGCTATAGATC
* * *
31416806 GAGCATTAGCTACGCTTTTTGGAAAATGCCGCAAAAAATTTGAGCAAAATAGCGTCGTTTGTTGT
65 GAGCATTAGCGACGCTTTTTGGAAAACGCCGCAAAAAATTTGAGCAAAATAGCGTCATTTGTTGT
31416871 TGAGCTTTAGTGGC-A----CT
130 TGAGCTTTAGTGGCTAGGGCCT
* * * * * * *
31416888 TTTTAAAAAATGCTGCAATAGATCAAAAATTAGTGGCGCTTGTCGAAAAACGCCGATATAGATTG
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGTGCTTGTTGAAAAACGCCGCTATAGATCG
**** * *
31416953 AGCATTAGCGGTATTTTTTGG-AAACGCCG-TAAAAAGTTGAGCAAAAT-GACGTCATTT-TT-T
66 AGCATTAGCGACGCTTTTTGGAAAACGCCGCAAAAAATTTGAGCAAAATAG-CGTCATTTGTTGT
*
31417013 TTAGCTTTAGTGGCATAAGCGGCACTT
130 TGAGCTTTAGTGGC-T-AG-GGC-C-T
* * * * *
31417040 TTTTAAGAAATGCCGCAATAGATCAAGAATTAGCGGTGCTTGTTGAAAAATGTCGCTATAGATCG
1 TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGTGCTTGTTGAAAAACGCCGCTATAGATCG
31417105 AGCATTAGCGACGCTTTT
66 AGCATTAGCGACGCTTTT
31417123 AACAAAACTC
Statistics
Matches: 313, Mismatches: 54, Indels: 30
0.79 0.14 0.08
Matches are distributed among these distances:
142 14 0.04
143 3 0.01
144 23 0.07
145 9 0.03
146 71 0.23
151 1 0.00
152 71 0.23
154 46 0.15
155 75 0.24
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (151 bp):
TTTTAAAAAACGCCGCAATAGATCAAGAATTAGTGGTGCTTGTTGAAAAACGCCGCTATAGATCG
AGCATTAGCGACGCTTTTTGGAAAACGCCGCAAAAAATTTGAGCAAAATAGCGTCATTTGTTGTT
GAGCTTTAGTGGCTAGGGCCT
Found at i:31416911 original size:146 final size:145
Alignment explanation
Indices: 31416731--31417193 Score: 433
Period size: 146 Copynumber: 3.1 Consensus size: 145
31416721 TTTAGTGGCG
* * * *
31416731 TTAGTGGCGCTTTTTAAAAAACGCCGCAATAGATCAAGCATTAGTGATGCTAT-TTGAAAAACGC
1 TTAGTGGCACTTTTTAAAAAATGCCGCAATAGATCAAGAATTAGTGGTGCT-TGTTGAAAAACGC
* *
31416795 CTCTATAGATCGAGCATTAGCTACGCTTTTTGGAAAATGCCGCAAAAAATTTGAGCAAAAT-AGC
65 CGCTATAGATCGAGCATTAGCTACGCTTTTTGGAAAATGCCG-AAAAAAGTTGAGCAAAATGA-C
31416859 GTCGTTTGTTGTTGAGCT
128 GTCGTTTGTTGTTGAGCT
* * * *
31416877 TTAGTGGCACTTTTTAAAAAATGCTGCAATAGATCAAAAATTAGTGGCGCTTGTCGAAAAACGCC
1 TTAGTGGCACTTTTTAAAAAATGCCGCAATAGATCAAGAATTAGTGGTGCTTGTTGAAAAACGCC
* * * * *
31416942 GATATAGATTGAGCATTAGCGGTA--TTTTTTGG-AAACGCCGTAAAAAGTTGAGCAAAATGACG
66 GCTATAGATCGAGCATTAGC--TACGCTTTTTGGAAAATGCCGAAAAAAGTTGAGCAAAATGACG
* *
31417004 TCATTT-TT-TTTAGCT
129 TCGTTTGTTGTTGAGCT
* *
31417019 TTAGTGGCATAAGCGGCACTTTTTTAAGAAATGCCGCAATAGATCAAGAATTAGCGGTGCTTGTT
1 TTA---G--T----GGCAC-TTTTTAAAAAATGCCGCAATAGATCAAGAATTAGTGGTGCTTGTT
* * * *** *
31417084 GAAAAATGTCGCTATAGATCGAGCATTAGCGACGCTTTTAACAAAACT-CCGTAAAAAGGTTGAG
56 GAAAAACGCCGCTATAGATCGAGCATTAGCTACGCTTTTTGGAAAA-TGCCG-AAAAAAGTTGAG
* * *
31417148 -AAATTGATGTTGTTTGTTGTTGAGCT
119 CAAAATGACGTCGTTTGTTGTTGAGCT
*
31417174 TTAGTGGCA-TTTTCAAAAAA
1 TTAGTGGCACTTTTTAAAAAA
31417194 GTTGAGCTTT
Statistics
Matches: 254, Mismatches: 42, Indels: 44
0.75 0.12 0.13
Matches are distributed among these distances:
142 9 0.04
143 2 0.01
144 32 0.13
145 10 0.04
146 83 0.33
147 1 0.00
148 2 0.01
150 2 0.01
151 5 0.02
152 70 0.28
153 17 0.07
154 12 0.05
155 9 0.04
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (145 bp):
TTAGTGGCACTTTTTAAAAAATGCCGCAATAGATCAAGAATTAGTGGTGCTTGTTGAAAAACGCC
GCTATAGATCGAGCATTAGCTACGCTTTTTGGAAAATGCCGAAAAAAGTTGAGCAAAATGACGTC
GTTTGTTGTTGAGCT
Found at i:31417379 original size:29 final size:28
Alignment explanation
Indices: 31417320--31417384 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
31417310 TATTTTGGGA
* *
31417320 TTAGAGTTTTGAGTTTATGGTTTATGGT
1 TTAGAGTTTTGAGTTTAGGGTTTATGAT
* *
31417348 TTAGAGTTTTGTAGTTTGGGGTTTATTAT
1 TTAGAGTTTTG-AGTTTAGGGTTTATGAT
*
31417377 TTATAGTT
1 TTAGAGTT
31417385 AGGGTTTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.55
Consensus pattern (28 bp):
TTAGAGTTTTGAGTTTAGGGTTTATGAT
Found at i:31417393 original size:21 final size:21
Alignment explanation
Indices: 31417359--31417398 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31417349 TAGAGTTTTG
* *
31417359 TAGTTTGGGGTTTATTATTTA
1 TAGTTAGGGGTTTAGTATTTA
*
31417380 TAGTTAGGGTTTTAGTATT
1 TAGTTAGGGGTTTAGTATT
31417399 GTTCATGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
TAGTTAGGGGTTTAGTATTTA
Found at i:31417584 original size:7 final size:7
Alignment explanation
Indices: 31417541--31417734 Score: 61
Period size: 7 Copynumber: 27.4 Consensus size: 7
31417531 TATTTAAGGC
31417541 TTAGGGT
1 TTAGGGT
*
31417548 GTA-GGT
1 TTAGGGT
* *
31417554 TTATGAT
1 TTAGGGT
*
31417561 TTGGGGT
1 TTAGGGT
* *
31417568 TTAAGTT
1 TTAGGGT
31417575 TTAGGGT
1 TTAGGGT
* *
31417582 TTATGAT
1 TTAGGGT
*
31417589 TTAGTGT
1 TTAGGGT
* *
31417596 TAAGAGT
1 TTAGGGT
**
31417603 TTAATGT
1 TTAGGGT
**
31417610 TTACAGT
1 TTAGGGT
31417617 TTAGGGT
1 TTAGGGT
*
31417624 GTA-GGT
1 TTAGGGT
*
31417630 TTATTGG-
1 TTA-GGGT
*
31417637 TTAGTGT
1 TTAGGGT
31417644 TTAGGGT
1 TTAGGGT
*
31417651 TTATGGT
1 TTAGGGT
*
31417658 TTATGGT
1 TTAGGGT
* *
31417665 TTATGAT
1 TTAGGGT
*
31417672 TTAGGGG
1 TTAGGGT
*
31417679 TTAGGGGC
1 TTA-GGGT
31417687 TTAGGGT
1 TTAGGGT
**
31417694 TTAAAGT
1 TTAGGGT
31417701 TTATGGGTT
1 TTA-GGG-T
*
31417710 TTAGGAGC
1 TTAGG-GT
*
31417718 TTAGGGC
1 TTAGGGT
*
31417725 TTAGTGT
1 TTAGGGT
31417732 TTA
1 TTA
31417735 TTGTTTGAAA
Statistics
Matches: 135, Mismatches: 44, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
6 11 0.08
7 103 0.76
8 16 0.12
9 5 0.04
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:31417605 original size:28 final size:28
Alignment explanation
Indices: 31417551--31417696 Score: 95
Period size: 28 Copynumber: 5.2 Consensus size: 28
31417541 TTAGGGTGTA
* *
31417551 GGTTTATGATTTGGGGTTTAAGTTTTAG
1 GGTTTATGATTTAGGGTTTAAGGTTTAG
* *
31417579 GGTTTATGATTTAGTG-TTAAGAGTTTAA
1 GGTTTATGATTTAGGGTTTAAG-GTTTAG
* * * *
31417607 TGTTTA-CAGTTTAGGGTGT-AGGTTTATT
1 GGTTTATGA-TTTAGGGTTTAAGGTTTA-G
* *
31417635 GG-TTAGTG-TTTAGGGTTTATGGTTTAT
1 GGTTTA-TGATTTAGGGTTTAAGGTTTAG
* * *
31417662 GGTTTATGATTTAGGGGTTAGGGGCTTAG
1 GGTTTATGATTTAGGGTTTA-AGGTTTAG
31417691 GGTTTA
1 GGTTTA
31417697 AAGTTTATGG
Statistics
Matches: 91, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
27 28 0.31
28 51 0.56
29 12 0.13
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (28 bp):
GGTTTATGATTTAGGGTTTAAGGTTTAG
Found at i:31417640 original size:20 final size:20
Alignment explanation
Indices: 31417617--31417658 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
31417607 TGTTTACAGT
31417617 TTAGGGTGTA-GGTTTATTGG
1 TTAGGGTGTAGGGTTTA-TGG
* *
31417637 TTAGTGTTTAGGGTTTATGG
1 TTAGGGTGTAGGGTTTATGG
31417657 TT
1 TT
31417659 TATGGTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (20 bp):
TTAGGGTGTAGGGTTTATGG
Found at i:31418149 original size:18 final size:18
Alignment explanation
Indices: 31418126--31418181 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
31418116 TCCCAACCCA
31418126 TCTGTTGCATCGCCCTCC
1 TCTGTTGCATCGCCCTCC
*
31418144 TCTGTTGCATCGCCTTCC
1 TCTGTTGCATCGCCCTCC
* *
31418162 TCTGCTGCATCGCGCTCC
1 TCTGTTGCATCGCCCTCC
31418180 TC
1 TC
31418182 GACCCGACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.05, C:0.43, G:0.18, T:0.34
Consensus pattern (18 bp):
TCTGTTGCATCGCCCTCC
Found at i:31418522 original size:14 final size:14
Alignment explanation
Indices: 31418503--31418533 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31418493 TGCTTTGGGA
31418503 AAAAATGGATTTAT
1 AAAAATGGATTTAT
31418517 AAAAATGGATTTAT
1 AAAAATGGATTTAT
31418531 AAA
1 AAA
31418534 CATATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (14 bp):
AAAAATGGATTTAT
Found at i:31419926 original size:9 final size:9
Alignment explanation
Indices: 31419914--31420160 Score: 131
Period size: 9 Copynumber: 26.0 Consensus size: 9
31419904 AAATATATAT
31419914 CATAACTTA
1 CATAACTTA
31419923 CATAACTTA
1 CATAACTTA
*
31419932 CATAATTTA
1 CATAACTTA
31419941 CATAACTTA
1 CATAACTTA
*
31419950 CATAA-ATA
1 CATAACTTA
* * *
31419958 TATATCATA
1 CATAACTTA
*
31419967 GCAAAACTTA
1 -CATAACTTA
31419977 CATAACTTA
1 CATAACTTA
*
31419986 CATAATTTA
1 CATAACTTA
31419995 CATAACTTTA
1 CATAAC-TTA
* *
31420005 AAGAA-TTAA
1 CATAACTT-A
* *
31420014 AAAAATCTTTGGA
1 CATAA-C-TT--A
*
31420027 TCTTAACTTA
1 -CATAACTTA
31420037 -ATAACTTATA
1 CATAAC-T-TA
* *
31420047 TATATATCATA
1 CATA-A-CTTA
31420058 TCATAACTTA
1 -CATAACTTA
*
31420068 CATAACTCA
1 CATAACTTA
*
31420077 CAAAACTTA
1 CATAACTTA
*
31420086 CGTAACTTA
1 CATAACTTA
31420095 CATAACTTA
1 CATAACTTA
* *
31420104 TATATATCATA
1 CATA-A-CTTA
*
31420115 TCATAACTTT
1 -CATAACTTA
*
31420125 CATAACTCA
1 CATAACTTA
31420134 CATAACTTA
1 CATAACTTA
31420143 CATAACTTA
1 CATAACTTA
*
31420152 CGTAACTTA
1 CATAACTTA
31420161 ATTATACTTA
Statistics
Matches: 182, Mismatches: 38, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
8 11 0.06
9 125 0.69
10 20 0.11
11 10 0.05
12 11 0.06
13 3 0.02
14 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:31420119 original size:57 final size:57
Alignment explanation
Indices: 31420030--31420160 Score: 201
Period size: 57 Copynumber: 2.3 Consensus size: 57
31420020 CTTTGGATCT
*
31420030 TAACTTA-ATAACTTATATATATATCATATCATAACTTACATAACTCACAAAACTTACG
1 TAACTTACATAAC-T-TATATATATCATATCATAACTTACATAACTCACAAAACTTACA
* *
31420088 TAACTTACATAACTTATATATATCATATCATAACTTTCATAACTCACATAACTTACA
1 TAACTTACATAACTTATATATATCATATCATAACTTACATAACTCACAAAACTTACA
*
31420145 TAACTTACGTAACTTA
1 TAACTTACATAACTTA
31420161 ATTATACTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
57 55 0.81
58 8 0.12
59 5 0.07
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (57 bp):
TAACTTACATAACTTATATATATCATATCATAACTTACATAACTCACAAAACTTACA
Found at i:31425904 original size:43 final size:42
Alignment explanation
Indices: 31425866--31425950 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
31425856 TAAAGAATAG
* * *
31425866 TATTTTTAGCGGCGATTGTGATAAAAGAGCCGCTAAAGATCA
1 TATTTTTAGCAGAGATTGTGAAAAAAGAGCCGCTAAAGATCA
* * * *
31425908 TGTTTTTAGCAGAGTTTGTGAAAAAAGTGCCGCTAAAGGTCA
1 TATTTTTAGCAGAGATTGTGAAAAAAGAGCCGCTAAAGATCA
31425950 T
1 T
31425951 GCTATTTAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
TATTTTTAGCAGAGATTGTGAAAAAAGAGCCGCTAAAGATCA
Found at i:31426039 original size:43 final size:43
Alignment explanation
Indices: 31425881--31426041 Score: 182
Period size: 43 Copynumber: 3.8 Consensus size: 43
31425871 TTAGCGGCGA
* *
31425881 TTGTGATAAAAGAGCCGCTAAAGATCATGTT-TTTAGCAGA-GT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAG-AGACGT
* * * * * * *
31425923 TTGTGAAAAAAGTGCCGCTAAAGGTCATGCTATTTAGCGGCAT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGACGT
* *
31425966 TTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGACGT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGACGT
* *
31426009 TTGTGATAATAGCGCCACTAAAGGTCATGTTCT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
31426042 ATAGCGGCGT
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 28 0.28
43 71 0.72
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGACGT
Found at i:31426048 original size:86 final size:85
Alignment explanation
Indices: 31425872--31426050 Score: 218
Period size: 86 Copynumber: 2.1 Consensus size: 85
31425862 ATAGTATTTT
*
31425872 TAGCGGCGATTGTGATAAAAGAGCCGCTAAAGATCATGTTTTTAGCAGAGTTTGTGAAAAAAGTG
1 TAGCGGCGATTGTGATAAAAGAGCCGCTAAAGATCATGTTTTTAGCAGAGTTTGTGAAAAAAGCG
* *
31425937 CCGCTAAAGGTCATGCTATT
66 CCACTAAAGGTCATGCTATA
* * * * * *
31425957 TAGCGGC-ATTTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTTTAG-TGACGTTTGTGATAATA
1 TAGCGGCGA-TTGTGATAAAAGAGCCGCTAAAGATCATGTT-TTTAGCAGA-GTTTGTGAAAAAA
* *
31426020 GCGCCACTAAAGGTCATGTTCTA
63 GCGCCACTAAAGGTCATGCTATA
31426043 TAGCGGCG
1 TAGCGGCG
31426051 TTATTTCACA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
84 1 0.01
85 37 0.47
86 41 0.52
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (85 bp):
TAGCGGCGATTGTGATAAAAGAGCCGCTAAAGATCATGTTTTTAGCAGAGTTTGTGAAAAAAGCG
CCACTAAAGGTCATGCTATA
Found at i:31426102 original size:15 final size:15
Alignment explanation
Indices: 31426082--31426111 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31426072 AAATTTAACA
31426082 GCGTTATCTATAGCG
1 GCGTTATCTATAGCG
31426097 GCGTTATCTATAGCG
1 GCGTTATCTATAGCG
31426112 TCGCTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
GCGTTATCTATAGCG
Found at i:31428866 original size:11 final size:11
Alignment explanation
Indices: 31428852--31428909 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
31428842 CACCACTTCT
31428852 CCACCATAACA
1 CCACCATAACA
* *
31428863 CCACTATACCA
1 CCACCATAACA
* **
31428874 CCACCCTAGTA
1 CCACCATAACA
*
31428885 CCACTATAACA
1 CCACCATAACA
*
31428896 CCACCATAGCA
1 CCACCATAACA
31428907 CCA
1 CCA
31428910 TTATATCACT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.38, C:0.45, G:0.03, T:0.14
Consensus pattern (11 bp):
CCACCATAACA
Found at i:31428877 original size:22 final size:22
Alignment explanation
Indices: 31428852--31428914 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
31428842 CACCACTTCT
* *
31428852 CCACCATAACACCACTATACCA
1 CCACCATAGCACCACTATAACA
* *
31428874 CCACCCTAGTACCACTATAACA
1 CCACCATAGCACCACTATAACA
*
31428896 CCACCATAGCACCATTATA
1 CCACCATAGCACCACTATA
31428915 TCACTACCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.41, G:0.03, T:0.17
Consensus pattern (22 bp):
CCACCATAGCACCACTATAACA
Found at i:31435212 original size:18 final size:18
Alignment explanation
Indices: 31435189--31435224 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31435179 AAGAAAGGAA
31435189 CTCAAACCTCTATAATAT
1 CTCAAACCTCTATAATAT
31435207 CTCAAACCTCTATAATAT
1 CTCAAACCTCTATAATAT
31435225 GCTTTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
CTCAAACCTCTATAATAT
Found at i:31437366 original size:28 final size:28
Alignment explanation
Indices: 31437331--31437384 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
31437321 CAGTAACAGT
*
31437331 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
*
31437359 ACAGTGTGGGCCTAAGCCCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
31437385 TATCACTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:31437552 original size:26 final size:26
Alignment explanation
Indices: 31437502--31437552 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
31437492 CCAATATCGC
* *
31437502 AGCATAGCTGCCAGTAGTAATAATGT
1 AGCAGAGCTGCCAGTAGTAAGAATGT
*
31437528 AGCAGAGCTGCCAGTAGTCAGAATG
1 AGCAGAGCTGCCAGTAGTAAGAATG
31437553 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (26 bp):
AGCAGAGCTGCCAGTAGTAAGAATGT
Found at i:31437673 original size:32 final size:32
Alignment explanation
Indices: 31437627--31437807 Score: 137
Period size: 32 Copynumber: 5.7 Consensus size: 32
31437617 TAATGGGATT
* * *
31437627 GGCACAAATCCATCAGTAGCAGTGATATGACC
1 GGCACACAGCCATCAGTAGCAGTGATATGATC
* * * * * *
31437659 GGCACACAGTCATCAATAACGGTAACATGATC
1 GGCACACAGCCATCAGTAGCAGTGATATGATC
* * *
31437691 GACACAAAGCCATCAGTAGTAGTGATATGATC
1 GGCACACAGCCATCAGTAGCAGTGATATGATC
* ** * * *
31437723 GGCACACAGCCATTAGTAAAAGGGAAATGATT
1 GGCACACAGCCATCAGTAGCAGTGATATGATC
* * * * * *
31437755 GACACACAACCATCGGTAACGGTAATATGATC
1 GGCACACAGCCATCAGTAGCAGTGATATGATC
*
31437787 GGCACAAAGCCATCAGTAGCA
1 GGCACACAGCCATCAGTAGCA
31437808 TCGCAGCAAA
Statistics
Matches: 107, Mismatches: 42, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
32 107 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (32 bp):
GGCACACAGCCATCAGTAGCAGTGATATGATC
Found at i:31437753 original size:64 final size:64
Alignment explanation
Indices: 31437629--31437804 Score: 194
Period size: 64 Copynumber: 2.7 Consensus size: 64
31437619 ATGGGATTGG
* * * * *
31437629 CACAAATCCATCAGTAGCAGTGATATGACCGGCACACAGTCATCAAT-AACGGTAACATGATCGA
1 CACAAA-CCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGA
* * *
31437693 CACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATTAGTAAAAGGGAA-ATGATTGA
1 CACAAA-CCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGA
* * * * *
31437757 CACACAACCATCGGTAACGGTAATATGATCGGCACAAAGCCATCAGTA
1 CACA-AACCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTA
31437805 GCATCGCAGC
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 86 0.91
65 8 0.09
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (64 bp):
CACAAACCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGA
Found at i:31437817 original size:23 final size:23
Alignment explanation
Indices: 31437791--31437845 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
31437781 ATGATCGGCA
**
31437791 CAAAGCCATCAGTAGCATCGCAG
1 CAAAGCCATCAACAGCATCGCAG
*
31437814 CAAAGTTGCCATCAACAGTATCGCAG
1 CAAA---GCCATCAACAGCATCGCAG
31437840 CAAAGC
1 CAAAGC
31437846 TGCCAGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
23 6 0.23
26 20 0.77
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.15
Consensus pattern (23 bp):
CAAAGCCATCAACAGCATCGCAG
Found at i:31438008 original size:24 final size:23
Alignment explanation
Indices: 31437976--31438048 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
31437966 CCATGCTCAG
*
31437976 AATCAGTCATTCAAATCATAGACA
1 AATCAGTCATTCAAA-CACAGACA
*
31438000 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAGACA
* * *
31438024 AATCAGTCATTTAACCCCAGACA
1 AATCAGTCATTCAAACACAGACA
31438047 AA
1 AA
31438049 ACAATCGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 11 0.26
24 27 0.64
25 4 0.10
ACGTcount: A:0.47, C:0.26, G:0.08, T:0.19
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:31438162 original size:54 final size:55
Alignment explanation
Indices: 31438079--31438456 Score: 361
Period size: 54 Copynumber: 7.1 Consensus size: 55
31438069 GGCAAAAATA
*
31438079 GTCA-TTTACCC-ATCA-GGGCATTACGGTCATTTTACCTTACAGA-GGTATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACGGTCATTTTACCCTACAGAGGGTATTACG
* * * *
31438131 GTCATTTTACCTTACAGGGGTATTACGGTCATTTTACCTTACA-AGGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGAGGGTATTACG
* * * * *
31438185 GTCATTTTACCCTACAGTGGCATTACAGTCATTTTACCCTATAG-CGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGAGGGTATTACG
* *
31438239 GTCATTTTACCTTATA-GGGCATTACGGTCATTTTACCCTACA-AGGGTATT-CTG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGAGGGTATTAC-G
* * * * *
31438292 GTCATTTTACCCTACAAGGGTATTACGATTATTTTACCCTATAG-GGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGAGGGTATTACG
* * * * * * *
31438346 ATCATTTTACCTTAC-GAGGGTATTATGGTCATTTTATCCTAC-GAGGGTGTTTCG
1 GTCATTTTACCCTACAG-GGGCATTACGGTCATTTTACCCTACAGAGGGTATTACG
** * * *
31438400 GTCATTTTACCCTATGGGGGCATTTCAGTCATTTTACCC-ATC-GAGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTA-CAGAGGGTATTACG
31438454 GTC
1 GTC
31438457 CAGATACCGA
Statistics
Matches: 270, Mismatches: 42, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
52 5 0.02
53 54 0.20
54 209 0.77
55 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (55 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGAGGGTATTACG
Found at i:31438201 original size:81 final size:82
Alignment explanation
Indices: 31438079--31438456 Score: 377
Period size: 81 Copynumber: 4.7 Consensus size: 82
31438069 GGCAAAAATA
* * *
31438079 GTCA-TTTACCC-ATCAGGGCATTACGGTCATTTTACCTTACAGA-GGTATTACGGTCATTTTAC
1 GTCATTTTACCCTATAAGGGCATTACAGTCATTTTACCCTACAGAGGGTATTACGGTCATTTTAC
*
31438141 CTTACAGGGGTATTACG
66 CCTACAGGGGTATTACG
* * * * * *
31438158 GTCATTTTACCTTACAAGGGTATTACAGTCATTTTACCCTACAG-TGGCATTACAGTCATTTTAC
1 GTCATTTTACCCTATAAGGGCATTACAGTCATTTTACCCTACAGAGGGTATTACGGTCATTTTAC
* * *
31438222 CCTATAGCGGTATTACA
66 CCTACAGGGGTATTACG
* *
31438239 GTCATTTTACCTTAT-AGGGCATTACGGTCATTTTACCCTACA-AGGGTATT-CTGGTCATTTTA
1 GTCATTTTACCCTATAAGGGCATTACAGTCATTTTACCCTACAGAGGGTATTAC-GGTCATTTTA
*
31438301 CCCTACAAGGGTATTACG
65 CCCTACAGGGGTATTACG
* * * * * *
31438319 ATTATTTTACCCTATAGGGGTATTAC-GATCATTTTACCTTAC-GAGGGTATTATGGTCATTTTA
1 GTCATTTTACCCTATAAGGGCATTACAG-TCATTTTACCCTACAGAGGGTATTACGGTCATTTTA
*
31438382 TCCTACGAGGGTGT-TT-CG
65 CCCTAC-AGGG-GTATTACG
** * *
31438400 GTCATTTTACCCTATGGGGGCATTTCAGTCATTTTACCC-ATC-GAGGGTATTTCGGTC
1 GTCATTTTACCCTATAAGGGCATTACAGTCATTTTACCCTA-CAGAGGGTATTACGGTC
31438457 CAGATACCGA
Statistics
Matches: 247, Mismatches: 39, Indels: 24
0.80 0.13 0.08
Matches are distributed among these distances:
79 5 0.02
80 73 0.30
81 161 0.65
82 6 0.02
83 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (82 bp):
GTCATTTTACCCTATAAGGGCATTACAGTCATTTTACCCTACAGAGGGTATTACGGTCATTTTAC
CCTACAGGGGTATTACG
Found at i:31438425 original size:27 final size:27
Alignment explanation
Indices: 31438093--31438413 Score: 346
Period size: 27 Copynumber: 11.9 Consensus size: 27
31438083 TTTACCCATC
* *
31438093 AGGGCATTACGGTCATTTTACCTTAC-
1 AGGGTATTACGGTCATTTTACCCTACA
*
31438119 AGAGGTATTACGGTCATTTTACCTTACA
1 AG-GGTATTACGGTCATTTTACCCTACA
* *
31438147 GGGGTATTACGGTCATTTTACCTTACA
1 AGGGTATTACGGTCATTTTACCCTACA
*
31438174 AGGGTATTACAGTCATTTTACCCTAC-
1 AGGGTATTACGGTCATTTTACCCTACA
* * *
31438200 AGTGGCATTACAGTCATTTTACCCTA-T
1 AG-GGTATTACGGTCATTTTACCCTACA
* * *
31438227 AGCGGTATTACAGTCATTTTACCTTA-T
1 AG-GGTATTACGGTCATTTTACCCTACA
*
31438254 AGGGCATTACGGTCATTTTACCCTACA
1 AGGGTATTACGGTCATTTTACCCTACA
31438281 AGGGTATT-CTGGTCATTTTACCCTACA
1 AGGGTATTAC-GGTCATTTTACCCTACA
* * *
31438308 AGGGTATTACGATTATTTTACCCTATA
1 AGGGTATTACGGTCATTTTACCCTACA
* * * *
31438335 GGGGTATTACGATCATTTTACCTTACG
1 AGGGTATTACGGTCATTTTACCCTACA
* * *
31438362 AGGGTATTATGGTCATTTTATCCTACG
1 AGGGTATTACGGTCATTTTACCCTACA
* *
31438389 AGGGTGTTTCGGTCATTTTACCCTA
1 AGGGTATTACGGTCATTTTACCCTA
31438414 TGGGGGCATT
Statistics
Matches: 257, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
26 25 0.10
27 230 0.89
28 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
AGGGTATTACGGTCATTTTACCCTACA
Found at i:31438430 original size:27 final size:27
Alignment explanation
Indices: 31438078--31438438 Score: 301
Period size: 27 Copynumber: 13.5 Consensus size: 27
31438068 GGGCAAAAAT
*
31438078 AGTCA-TTTACCC-ATC-AGGGCATTAC
1 AGTCATTTTACCCTA-CAAGGGTATTAC
* *
31438103 GGTCATTTTACCTTAC-AGAGGTATTAC
1 AGTCATTTTACCCTACAAG-GGTATTAC
* * *
31438130 GGTCATTTTACCTTACAGGGGTATTAC
1 AGTCATTTTACCCTACAAGGGTATTAC
* *
31438157 GGTCATTTTACCTTACAAGGGTATTAC
1 AGTCATTTTACCCTACAAGGGTATTAC
*
31438184 AGTCATTTTACCCTAC-AGTGGCATTAC
1 AGTCATTTTACCCTACAAG-GGTATTAC
*
31438211 AGTCATTTTACCCTA-TAGCGGTATTAC
1 AGTCATTTTACCCTACAAG-GGTATTAC
* * *
31438238 AGTCATTTTACCTTA-TAGGGCATTAC
1 AGTCATTTTACCCTACAAGGGTATTAC
*
31438264 GGTCATTTTACCCTACAAGGGTATT-C
1 AGTCATTTTACCCTACAAGGGTATTAC
*
31438290 TGGTCATTTTACCCTACAAGGGTATTAC
1 -AGTCATTTTACCCTACAAGGGTATTAC
* * *
31438318 -GATTATTTTACCCTATAGGGGTATTAC
1 AG-TCATTTTACCCTACAAGGGTATTAC
* * *
31438345 -GATCATTTTACCTTACGAGGGTATTAT
1 AG-TCATTTTACCCTACAAGGGTATTAC
* * * * *
31438372 GGTCATTTTATCCTACGAGGGTGTTTC
1 AGTCATTTTACCCTACAAGGGTATTAC
* *** * *
31438399 GGTCATTTTACCCTATGGGGGCATTTC
1 AGTCATTTTACCCTACAAGGGTATTAC
31438426 AGTCATTTTACCC
1 AGTCATTTTACCC
31438439 ATCGAGGGTA
Statistics
Matches: 289, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.01
26 33 0.11
27 249 0.86
28 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
AGTCATTTTACCCTACAAGGGTATTAC
Found at i:31439835 original size:20 final size:21
Alignment explanation
Indices: 31439791--31439842 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
31439781 AAAATCCCAC
31439791 AAGTATCGATACTTTTTAAAT
1 AAGTATCGATACTTTTTAAAT
31439812 AAGTATCGATA-TTTTTCAAA-
1 AAGTATCGATACTTTTT-AAAT
31439832 AAGTATCGATA
1 AAGTATCGATA
31439843 AAATAGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
AAGTATCGATACTTTTTAAAT
Found at i:31451848 original size:39 final size:39
Alignment explanation
Indices: 31451773--31451880 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 39
31451763 TTTGGATAAA
* * *
31451773 AAAACGCCGCTAAAAATCAAGCATTATCGGCGCTTTTAAG
1 AAAACGCC-CTAAAAATCGAGCATTAGCGGCACTTTTAAG
* * **
31451813 AAAACGCCCTAAAGATCGAGTATTAGCGGCACTTTTTGG
1 AAAACGCCCTAAAAATCGAGCATTAGCGGCACTTTTAAG
*
31451852 AAAACGCATCTAAAAAT-GAGCATTAGCGG
1 AAAACGC-CCTAAAAATCGAGCATTAGCGG
31451881 TGTTTTCCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
39 42 0.74
40 15 0.26
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (39 bp):
AAAACGCCCTAAAAATCGAGCATTAGCGGCACTTTTAAG
Found at i:31452049 original size:44 final size:41
Alignment explanation
Indices: 31451934--31452115 Score: 179
Period size: 41 Copynumber: 4.4 Consensus size: 41
31451924 GTTTTCGAGG
* * * * **
31451934 CTTTAGCGACGTTTTTAAAGAAGTGCCGCTAATTCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTCAAGT
* *
31451975 C-TTAGCGGCATTTTTGAAGAGGCGCCGCTAATACTCAAGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTCAAGT
* * * **
31452015 CTTTAGCGGCATTTTTTTTGAAGAAGCGCTGCTAATTCTCGGGT
1 CTTTAGCGGC---GTTTTTGAAGAAGCGCCGCTAATACTCAAGT
31452059 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTA-TCAAGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAA-TACTCAAGT
* *
31452100 CTTTAGCAGTGTTTTT
1 CTTTAGCGGCGTTTTT
31452116 TCAAAAAATA
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
40 32 0.28
41 47 0.41
42 1 0.01
44 35 0.30
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTCAAGT
Found at i:31452090 original size:85 final size:84
Alignment explanation
Indices: 31451945--31452106 Score: 254
Period size: 85 Copynumber: 1.9 Consensus size: 84
31451935 TTTAGCGACG
* *
31451945 TTTTTAAAGAAGTGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAGAGGCGCCGCTAA-TAC
1 TTTTTAAAGAAGCGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAGAAGCGCCGCTAATTA-
31452009 TCAAGTCTTTAGCGGCATTT
65 TCAAGTCTTTAGCGGCATTT
* * *
31452029 TTTTTGAAGAAGCGCTGCTAATTCTCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTA
1 TTTTTAAAGAAGCGCCGCTAATTCTCGGGTC-TTAGCGGCATTTTTGAAGAAGCGCCGCTAATTA
31452094 TCAAGTCTTTAGC
65 TCAAGTCTTTAGC
31452107 AGTGTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
84 28 0.39
85 41 0.58
86 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (84 bp):
TTTTTAAAGAAGCGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAGAAGCGCCGCTAATTAT
CAAGTCTTTAGCGGCATTT
Found at i:31453331 original size:9 final size:9
Alignment explanation
Indices: 31453313--31453423 Score: 163
Period size: 9 Copynumber: 12.4 Consensus size: 9
31453303 TAGTGATTCA
31453313 AATT-GGTT
1 AATTCGGTT
31453321 AATTCGGTT
1 AATTCGGTT
*
31453330 AATTCGGGT
1 AATTCGGTT
31453339 AATTCGGTT
1 AATTCGGTT
**
31453348 AATTCGGGC
1 AATTCGGTT
31453357 AATTCAGG-T
1 AATTC-GGTT
31453366 AATTCGGTT
1 AATTCGGTT
*
31453375 AATTCGGGT
1 AATTCGGTT
31453384 AATTCGGTT
1 AATTCGGTT
31453393 AATTCGGTT
1 AATTCGGTT
31453402 AATTCGGTT
1 AATTCGGTT
31453411 AATTCGGTT
1 AATTCGGTT
31453420 AATT
1 AATT
31453424 TTTAACCAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
8 6 0.06
9 85 0.91
10 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:31453467 original size:9 final size:9
Alignment explanation
Indices: 31453453--31453479 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
31453443 ATATATAATT
31453453 TTCGGTTAA
1 TTCGGTTAA
31453462 TTCGGTTAA
1 TTCGGTTAA
31453471 TTCGGTTAA
1 TTCGGTTAA
31453480 CCGACTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:31455664 original size:20 final size:19
Alignment explanation
Indices: 31455632--31455678 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
31455622 CTTAATGCAG
31455632 AAAA-ATAACACAATA-ATA
1 AAAATATAACACAA-ACATA
*
31455650 ACAAATATAATACAAACATA
1 A-AAATATAACACAAACATA
31455670 AAAATATAA
1 AAAATATAA
31455679 AATAAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 12 0.48
20 12 0.48
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATATAACACAAACATA
Found at i:31455685 original size:19 final size:20
Alignment explanation
Indices: 31455647--31455685 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
31455637 TAACACAATA
*
31455647 ATAACAAATATAATACAAAC
1 ATAACAAATATAAAACAAAC
*
31455667 ATAA-AAATATAAAATAAAC
1 ATAACAAATATAAAACAAAC
31455686 CAAAACTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAACAAATATAAAACAAAC
Found at i:31457491 original size:5 final size:5
Alignment explanation
Indices: 31457481--31457512 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
31457471 GATTCTTGTT
31457481 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
31457513 GGCAAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:31458077 original size:43 final size:43
Alignment explanation
Indices: 31458026--31458116 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
31458016 CTTTGAGTTC
*
31458026 ATTA-CAAGATTTCCTTGATTAAGAAAATGT-ATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAT-TCATTATATCTTTT
* *
31458068 ATTACCAAGATTTACTTGATTAAGAAAATTCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
31458111 ATTACC
1 ATTACC
31458117 TTGCAATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
Found at i:31458543 original size:43 final size:43
Alignment explanation
Indices: 31458485--31458668 Score: 253
Period size: 43 Copynumber: 4.3 Consensus size: 43
31458475 TTTTTACGAG
* * * * *
31458485 AAGCACCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGACAAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGA-TAA
* * *
31458528 AAGTGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* *
31458571 AAGCGCCACTAAAGGTCATGGTCTTTTGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
*
31458614 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
31458657 AAGCGCCGCTAA
1 AAGCGCCGCTAA
31458669 TACTTTTAGT
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 106 0.85
44 19 0.15
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
Found at i:31458812 original size:16 final size:16
Alignment explanation
Indices: 31458791--31458824 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31458781 ACAACTACTG
31458791 TTGTATTAACATTTAT
1 TTGTATTAACATTTAT
31458807 TTGTATTAACATTTAT
1 TTGTATTAACATTTAT
31458823 TT
1 TT
31458825 AGACACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTGTATTAACATTTAT
Found at i:31465100 original size:43 final size:44
Alignment explanation
Indices: 31465038--31465136 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 44
31465028 TGTCTCAAAC
* ** * *
31465038 ATGGTCTTACATGCAAATCTCGTATCGGTGCCAATAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGACAATAGCCCAGCT
*
31465082 ATGGTCTTACACG-AAATCTCAAATCGATGACAGTAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGACAATAGCCCAGCT
31465125 ATGGTCTTACAC
1 ATGGTCTTACAC
31465137 ATAAACACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 37 0.76
44 12 0.24
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGGTCTTACACGCAAATCTCAAATCGATGACAATAGCCCAGCT
Found at i:31467877 original size:17 final size:18
Alignment explanation
Indices: 31467846--31467879 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31467836 GATCAGTTTT
31467846 GGTATCGATAAAAAATTA
1 GGTATCGATAAAAAATTA
31467864 GGTATCGA-AAAAAATT
1 GGTATCGATAAAAAATT
31467880 GTACTAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (18 bp):
GGTATCGATAAAAAATTA
Found at i:31478590 original size:14 final size:15
Alignment explanation
Indices: 31478571--31478610 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
31478561 GGGAAGTTGG
31478571 GAAATTAGGGAA-AA
1 GAAATTAGGGAAGAA
31478585 GAAATTAGGGAAGAA
1 GAAATTAGGGAAGAA
* *
31478600 TAACTTAGGGA
1 GAAATTAGGGA
31478611 TTTCAGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.03, G:0.30, T:0.17
Consensus pattern (15 bp):
GAAATTAGGGAAGAA
Found at i:31478875 original size:115 final size:116
Alignment explanation
Indices: 31478720--31478930 Score: 311
Period size: 115 Copynumber: 1.8 Consensus size: 116
31478710 AAAAACACCA
* * * * * *
31478720 CTAATGTATAAACTTTTGTGGCGTTTTAGTCAAAATGCCACTAAAAACATAGCTAAAAA-TA-GC
1 CTAATGTATAAACCTTTGCGGCGTTTTAGACAAAACGCCACTAAAAACACAGCTAAAAACGACGC
*
31478783 ATCGTTTTGTAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
66 --CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
*
31478836 CTAATGTAT-AACCTTTGCGGCGTTTTAGACAAAACGCCACTAAAAATACAGCTAAAAACGACGC
1 CTAATGTATAAACCTTTGCGGCGTTTTAGACAAAACGCCACTAAAAACACAGCTAAAAACGACGC
31478900 CGTTTTGCAAACTTTTAATACATATTCACGG
66 CGTTTTGCAAACTTTTAATACATATTCACGG
31478931 TGTTTGGACC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
115 73 0.86
116 10 0.12
117 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (116 bp):
CTAATGTATAAACCTTTGCGGCGTTTTAGACAAAACGCCACTAAAAACACAGCTAAAAACGACGC
CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
Found at i:31478985 original size:41 final size:41
Alignment explanation
Indices: 31478928--31479005 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
31478918 TACATATTCA
31478928 CGGTGTTTGGACCAAAAACGCCACTATTGCTCAACTTTTTG
1 CGGTGTTTGGACCAAAAACGCCACTATTGCTCAACTTTTTG
*
31478969 CGGTGTTTGGACCAAAAATGCCACTATTGCTCAACTT
1 CGGTGTTTGGACCAAAAACGCCACTATTGCTCAACTT
31479006 AATTAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (41 bp):
CGGTGTTTGGACCAAAAACGCCACTATTGCTCAACTTTTTG
Found at i:31495093 original size:4 final size:4
Alignment explanation
Indices: 31495084--31495111 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
31495074 TATTTTTATT
31495084 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
31495112 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:31500951 original size:6 final size:6
Alignment explanation
Indices: 31500940--31500977 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
31500930 TGAAACTTTG
* *
31500940 ATTTTA ATTTTA ATTTTA ACTTTG ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
31500978 ATTCATAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (6 bp):
ATTTTA
Found at i:31501095 original size:3 final size:3
Alignment explanation
Indices: 31501087--31501117 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
31501077 TTGGATTGAT
*
31501087 TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31501118 GCAATTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31506537 original size:29 final size:28
Alignment explanation
Indices: 31506505--31506566 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
31506495 TATTTTTTAA
*
31506505 TTTTTTAATTTAAAATATTTTAAAATACT
1 TTTTTTAATTTAAAAT-TTTTAAAATAAT
* ***
31506534 TTTTTTATTTTTTTATTTTTAAAATAAT
1 TTTTTTAATTTAAAATTTTTAAAATAAT
31506562 TTTTT
1 TTTTT
31506567 GGTGTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTTTTAATTTAAAATTTTTAAAATAAT
Found at i:31508139 original size:18 final size:18
Alignment explanation
Indices: 31508116--31508160 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
31508106 TAAAGTCCAT
31508116 AAAAGTTCAAAACATAAG
1 AAAAGTTCAAAACATAAG
31508134 AAAAGTTCAAAACATAAG
1 AAAAGTTCAAAACATAAG
*
31508152 AAAAATTCA
1 AAAAGTTCA
31508161 TAATCGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.18
Consensus pattern (18 bp):
AAAAGTTCAAAACATAAG
Found at i:31508626 original size:50 final size:50
Alignment explanation
Indices: 31508492--31508628 Score: 168
Period size: 50 Copynumber: 2.7 Consensus size: 50
31508482 CCATTTGTGC
* * *
31508492 ACAAGCCACCACTGATTTGCAGATAAACTGCCACTAATAACACTTTGAGG
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
* * * *
31508542 ACAAGCTACCACTGATATGCAAATGTACTACCACTTATAACACTTTGTA-G
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTG-AGG
* * *
31508592 ACTAGCCACCACTGATATGTAGATATATTGCCACTTA
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTA
31508629 CTTCGACCTT
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 71 0.99
51 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (50 bp):
ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTGAGG
Found at i:31513142 original size:25 final size:25
Alignment explanation
Indices: 31513113--31513390 Score: 144
Period size: 25 Copynumber: 11.2 Consensus size: 25
31513103 GGAAGCTTCG
31513113 GAGAGCCATTTATCAGGAAGCTCAT
1 GAGAGCCATTTATCAGGAAGCTCAT
* * *
31513138 TAGAGCCAATTATC-GAAAAGCTC-T
1 GAGAGCCATTTATCAG-GAAGCTCAT
* *
31513162 GGAGAGTCATTTAT-TGTGAAGCTCAT
1 -GAGAGCCATTTATCAG-GAAGCTCAT
* *
31513188 TAGAGCCAATTATC-GAGAAGCTC-T
1 GAGAGCCATTTATCAG-GAAGCTCAT
* **
31513212 AGAGAGCCATTAATTGGGAAGCTC-T
1 -GAGAGCCATTTATCAGGAAGCTCAT
* **
31513237 AGAGAGCCATTAATTGGGAAGCTCAT
1 -GAGAGCCATTTATCAGGAAGCTCAT
* * * * *
31513263 AAGAGCTA-TAATTAGGAAGCTTAT
1 GAGAGCCATTTATCAGGAAGCTCAT
* * * *
31513287 GGGAGCCA-ATATCGGGAAGCTTC-G
1 GAGAGCCATTTATCAGGAAGC-TCAT
*
31513311 GAGAGCCATTTATCAGGAAGCACAT
1 GAGAGCCATTTATCAGGAAGCTCAT
* * **
31513336 TAGAGCCAATTATCAAAAAGCTC-T
1 GAGAGCCATTTATCAGGAAGCTCAT
* *
31513360 GGAGAGCCATTAATCGGGAAGCTCAT
1 -GAGAGCCATTTATCAGGAAGCTCAT
*
31513386 TAGAG
1 GAGAG
31513391 TTGTGGTGTG
Statistics
Matches: 194, Mismatches: 46, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
24 39 0.20
25 151 0.78
26 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (25 bp):
GAGAGCCATTTATCAGGAAGCTCAT
Found at i:31513159 original size:50 final size:50
Alignment explanation
Indices: 31513104--31513390 Score: 257
Period size: 50 Copynumber: 5.8 Consensus size: 50
31513094 CGTGCAATGG
*
31513104 GAAGCT-TCGGAGAGCCATTTATCAGGAAGCTCATTAGAGCCAATTATCGA
1 GAAGCTCT-GGAGAGCCATTAATCAGGAAGCTCATTAGAGCCAATTATCGA
* * * *
31513154 AAAGCTCTGGAGAGTCATTTAT-TGTGAAGCTCATTAGAGCCAATTATCGA
1 GAAGCTCTGGAGAGCCATTAATCAG-GAAGCTCATTAGAGCCAATTATCGA
* ** * * *
31513204 GAAGCTCTAGAGAGCCATTAATTGGGAAGCTC-TAGAGAGCC-ATTAATTGG
1 GAAGCTCTGGAGAGCCATTAATCAGGAAGCTCAT-TAGAGCCAATT-ATCGA
* * * * ** *
31513254 GAAGCTCAT-AAGAGCTA-TAATTAGGAAGCTTATGGGAGCCAA-TATCGG
1 GAAGCTC-TGGAGAGCCATTAATCAGGAAGCTCATTAGAGCCAATTATCGA
* * *
31513302 GAAGCT-TCGGAGAGCCATTTATCAGGAAGCACATTAGAGCCAATTATCAA
1 GAAGCTCT-GGAGAGCCATTAATCAGGAAGCTCATTAGAGCCAATTATCGA
* *
31513352 AAAGCTCTGGAGAGCCATTAATCGGGAAGCTCATTAGAG
1 GAAGCTCTGGAGAGCCATTAATCAGGAAGCTCATTAGAG
31513391 TTGTGGTGTG
Statistics
Matches: 193, Mismatches: 31, Indels: 26
0.77 0.12 0.10
Matches are distributed among these distances:
46 1 0.01
48 16 0.08
49 43 0.22
50 129 0.67
51 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (50 bp):
GAAGCTCTGGAGAGCCATTAATCAGGAAGCTCATTAGAGCCAATTATCGA
Found at i:31513194 original size:75 final size:74
Alignment explanation
Indices: 31513114--31513383 Score: 241
Period size: 75 Copynumber: 3.6 Consensus size: 74
31513104 GAAGCTTCGG
* * ** *
31513114 AGAGCCATTTATCAGGAAGCTCATTAGAGCCAATTATCGAAAAGCTCTGGAGAGTCATTTATTGT
1 AGAGCCAATTATCAGGAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCATTTATTG-
31513179 GAAGCTCATT
65 GAAGCTCATT
* * *
31513189 AGAGCCAATTATC-GAGAAGCTC-TAGAGAGCC-ATTAATTGGGAAGCTCTAGAGAGCCATTAAT
1 AGAGCCAATTATCAG-GAAGCTCAT-GAGAGCCAATT-ATCGGGAAGCTCTGGAGAGCCATTTAT
*
31513251 TGGGAAGCTCATA
63 T-GGAAGCTCATT
* * * * * *
31513264 AGAG-CTATAATTAGGAAGCTTATGGGAGCCAA-TATCGGGAAGCT-TCGGAGAGCCATTTATCA
1 AGAGCCAATTATCAGGAAGCTCATGAGAGCCAATTATCGGGAAGCTCT-GGAGAGCCATTTAT-T
*
31513326 GGAAGCACATT
64 GGAAGCTCATT
**
31513337 AGAGCCAATTATCAAAAAGCTC-TGGAGAGCC-ATTAATCGGGAAGCTC
1 AGAGCCAATTATCAGGAAGCTCAT-GAGAGCCAATT-ATCGGGAAGCTC
31513384 ATTAGAGTTG
Statistics
Matches: 154, Mismatches: 27, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
72 1 0.01
73 37 0.24
74 41 0.27
75 74 0.48
76 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (74 bp):
AGAGCCAATTATCAGGAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCATTTATTGG
AAGCTCATT
Found at i:31514036 original size:65 final size:65
Alignment explanation
Indices: 31513832--31514037 Score: 172
Period size: 65 Copynumber: 3.2 Consensus size: 65
31513822 AAAAATGAAA
*
31513832 TTCATACAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
1 TTCATAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
* ** * * * ** ** * ** *
31513897 TTCATAAAATTGAA-AATTTTTCTATGAATTTTCC-ATCTTTTCAATTTAGTCCCTA-AA--TCA
1 TTCATAAAATTTAATCCTTATTCCAAG-CCTAGCCGA--TTTTC-ATAT-GTCAATAGAAGCCCA
*
31513957 T-AAT
61 TGTAT
31513961 TTCATCAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTA
1 TTCAT-AAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTA
31514026 T
65 T
31514027 TTCATAAAATT
1 TTCATAAAATT
31514038 GAAAATTTTT
Statistics
Matches: 98, Mismatches: 31, Indels: 24
0.64 0.20 0.16
Matches are distributed among these distances:
62 5 0.05
63 5 0.05
64 20 0.20
65 38 0.39
66 20 0.20
67 5 0.05
68 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (65 bp):
TTCATAAAATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTAT
Found at i:31514072 original size:130 final size:130
Alignment explanation
Indices: 31513839--31514102 Score: 510
Period size: 130 Copynumber: 2.0 Consensus size: 130
31513829 AAATTCATAC
31513839 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
1 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
*
31513904 AATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
66 AATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
31513969 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
1 AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
*
31514034 AATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATAATTTCATCAA
66 AATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
31514099 AATT
1 AATT
31514103 CTCTTTACAA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (130 bp):
AATTTAATCCTTATTCCAAGCCTAGCCGATTTTCATATGTCAATAGAAGCCCATGTATTTCATAA
AATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATAATTTCATCAA
Found at i:31514101 original size:65 final size:64
Alignment explanation
Indices: 31513895--31514102 Score: 158
Period size: 65 Copynumber: 3.2 Consensus size: 64
31513885 AAGCCCATGT
* *
31513895 ATTTCATAAAATTGAAAATTTTTCTATGAATTTTCCATCTTTTCAATTTAGTCCCTAAATCATA
1 ATTTCATAAAATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
* ** * ** ** * **
31513959 ATTTCATCAAAATTTAATCCTTATTCCAA-G-CCTAGCCGA--TTTTC-ATAT-GTCAATAGAAG
1 ATTTCAT-AAAATTGAA-AATT-TTTCAATGAATTTTCC-ATCTTTTCAATTTAGTCCCT--AAG
* *
31514018 CCCATGT
60 -TCAT-A
31514025 ATTTCATAAAATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
1 ATTTCATAAAATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
31514089 ATTTCATCAAAATT
1 ATTTCAT-AAAATT
31514103 CTCTTTACAA
Statistics
Matches: 101, Mismatches: 28, Indels: 29
0.64 0.18 0.18
Matches are distributed among these distances:
62 4 0.04
63 8 0.08
64 25 0.25
65 34 0.34
66 19 0.19
67 7 0.07
68 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (64 bp):
ATTTCATAAAATTGAAAATTTTTCAATGAATTTTCCATCTTTTCAATTTAGTCCCTAAGTCATA
Found at i:31519344 original size:13 final size:13
Alignment explanation
Indices: 31519326--31519377 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 13
31519316 GGACACACGC
31519326 CCGTGTGTCCAGG
1 CCGTGTGTCCAGG
*
31519339 CCGTGTGTCTCACACGC
1 CCGTGTG--TC-CA-GG
31519356 CCGTGTGTCCAGG
1 CCGTGTGTCCAGG
31519369 CCGTGTGTC
1 CCGTGTGTC
31519378 TCACACGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 17 0.52
14 2 0.06
15 4 0.12
16 2 0.06
17 8 0.24
ACGTcount: A:0.08, C:0.35, G:0.33, T:0.25
Consensus pattern (13 bp):
CCGTGTGTCCAGG
Found at i:31519355 original size:30 final size:30
Alignment explanation
Indices: 31519319--31519384 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
31519309 GTGTAGGGGA
31519319 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
1 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
31519349 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
1 CACACGCCCGTGTGTCCAGGCCGTGTGTCT
31519379 CACACG
1 CACACG
31519385 GTCAAGAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (30 bp):
CACACGCCCGTGTGTCCAGGCCGTGTGTCT
Found at i:31520664 original size:50 final size:50
Alignment explanation
Indices: 31520621--31520725 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
31520611 AGCTCTTGCA
**
31520621 AGCCAATTATCGAGAAGCTTCGA-AGAGCCATTTCTCGGGAAGCTCATTAG
1 AGCCAATTATCGAGAAGC-TCGAGAGAGCCATTAATCGGGAAGCTCATTAG
* *
31520671 AGCCAATTATCGAGAAGCTCTAGAGAGCCATTAATCGGGAAGCTCATAAG
1 AGCCAATTATCGAGAAGCTCGAGAGAGCCATTAATCGGGAAGCTCATTAG
31520721 AGCCA
1 AGCCA
31520726 TAATTAGGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 3 0.06
50 47 0.94
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (50 bp):
AGCCAATTATCGAGAAGCTCGAGAGAGCCATTAATCGGGAAGCTCATTAG
Found at i:31520726 original size:25 final size:24
Alignment explanation
Indices: 31520621--31520726 Score: 99
Period size: 25 Copynumber: 4.2 Consensus size: 24
31520611 AGCTCTTGCA
* *
31520621 AGCCAATTATCGAGAAGCTTC-GAAG
1 AGCC-ATTATCGGGAAGC-TCATAAG
* *
31520646 AGCCATTTCTCGGGAAGCTCATTAG
1 AGCCA-TTATCGGGAAGCTCATAAG
*
31520671 AGCCAATTATCGAGAAGCTC-TAGAG
1 AGCC-ATTATCGGGAAGCTCATA-AG
31520696 AGCCATTAATCGGGAAGCTCATAAG
1 AGCCATT-ATCGGGAAGCTCATAAG
31520721 AGCCAT
1 AGCCAT
31520727 AATTAGGTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
24 7 0.10
25 57 0.85
26 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (24 bp):
AGCCATTATCGGGAAGCTCATAAG
Found at i:31530114 original size:33 final size:33
Alignment explanation
Indices: 31530077--31530160 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
31530067 GTCAAGACAG
* *
31530077 TAAACATGAAATAGAGATAGTCCACCGGAACAA
1 TAAACATAAAATAAAGATAGTCCACCGGAACAA
* * *
31530110 TAAACACAAAATAAAGATAGTCCAGCGGGACAA
1 TAAACATAAAATAAAGATAGTCCACCGGAACAA
*
31530143 TAAACATAGAATAAAGAT
1 TAAACATAAAATAAAGAT
31530161 GGCCCGTTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.15
Consensus pattern (33 bp):
TAAACATAAAATAAAGATAGTCCACCGGAACAA
Found at i:31537652 original size:24 final size:24
Alignment explanation
Indices: 31537620--31537668 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
31537610 TTGAGGTAAG
31537620 TCAAATTCATGAAATACCCTGGTT
1 TCAAATTCATGAAATACCCTGGTT
*
31537644 TCAAATTCATGAAATACCTTGGTT
1 TCAAATTCATGAAATACCCTGGTT
31537668 T
1 T
31537669 GTTGATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (24 bp):
TCAAATTCATGAAATACCCTGGTT
Found at i:31541716 original size:9 final size:9
Alignment explanation
Indices: 31541702--31541740 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
31541692 TCAATCATCC
*
31541702 CTCATCCCT
1 CTCATCTCT
31541711 CTCATCTCT
1 CTCATCTCT
31541720 CATCATCTCT
1 C-TCATCTCT
*
31541730 CTCAACTCT
1 CTCATCTCT
31541739 CT
1 CT
31541741 TAGCTCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.38
Consensus pattern (9 bp):
CTCATCTCT
Found at i:31541731 original size:19 final size:19
Alignment explanation
Indices: 31541703--31541739 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31541693 CAATCATCCC
*
31541703 TCATCCCTCTCATCTCTCA
1 TCATCCCTCTCAACTCTCA
*
31541722 TCATCTCTCTCAACTCTC
1 TCATCCCTCTCAACTCTC
31541740 TTAGCTCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.46, G:0.00, T:0.38
Consensus pattern (19 bp):
TCATCCCTCTCAACTCTCA
Found at i:31545255 original size:15 final size:15
Alignment explanation
Indices: 31545235--31545264 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31545225 TAGATATACC
31545235 ATTCATTCAACAATT
1 ATTCATTCAACAATT
*
31545250 ATTCATTTAACAATT
1 ATTCATTCAACAATT
31545265 CACATTCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTCATTCAACAATT
Found at i:31545407 original size:13 final size:13
Alignment explanation
Indices: 31545367--31545399 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
31545357 ATATAATCGA
31545367 TTCATATAGCCAT
1 TTCATATAGCCAT
*
31545380 TTCATATAACCAT
1 TTCATATAGCCAT
31545393 TTCATAT
1 TTCATAT
31545400 GGTCATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.42
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:31558302 original size:3 final size:3
Alignment explanation
Indices: 31558294--31558327 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
31558284 TGTAAAAAAC
31558294 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
31558328 GGTAATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:31560109 original size:50 final size:50
Alignment explanation
Indices: 31559955--31560109 Score: 123
Period size: 50 Copynumber: 3.1 Consensus size: 50
31559945 TTGGGGAAAC
* * * *
31559955 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCTCCTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCCTGGGGAGT
** * * * * * ** * * * *
31560005 AAGATTTGCTGTTATAGCTTTAATCTTTTTAACTGCAAT-GTCAGGGAAGC
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTG-AATCGCCTGGGGAGT
* *
31560055 AAGATTCACCAATGTGGCTTTAATCTATTCCACTGTATCGCCTGGGGAGT
1 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCCTGGGGAGT
31560105 AAGAT
1 AAGAT
31560110 CTGTAATTCT
Statistics
Matches: 72, Mismatches: 31, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
49 2 0.03
50 69 0.96
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
AAGATTCACCGATGTGGCTTTAATCTATTCCACTGAATCGCCTGGGGAGT
Found at i:31560601 original size:132 final size:131
Alignment explanation
Indices: 31560427--31560862 Score: 565
Period size: 132 Copynumber: 3.3 Consensus size: 131
31560417 AAATAGGATA
* * **
31560427 ACTGACTTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAATCTTCCATCTTTAATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATC-TTAATCTGCTCCA
* * *
31560492 CTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
65 CTACTACTTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAA
31560557 TT
130 TT
* * * *
31560559 ACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGCAAAATCCACCATCTTCGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTT-AATCTGCTCCA
* * *
31560624 CTACTAATTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCATTGCTGCTTAGGGAAGTAGAA
65 CTACTACTTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAA
31560689 TT
130 TT
* * * *
31560691 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGCGGTAAAATCCGCCATC--AACCTGCTCCAC
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTAATCTGCTCCAC
* ** * * * *
31560754 TGC-AGCCGAGAGAGGTAAGGTTTATAATCTTCAATCTATTCCACTGCTGCCTAGGG-AGATAGA
66 TACTA-CTTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAG-TAGA
31560817 ATT
129 ATT
* *
31560820 ACCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT
1 ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT
31560863 TTGTAATCAA
Statistics
Matches: 267, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
128 3 0.01
129 101 0.38
131 2 0.01
132 161 0.60
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (131 bp):
ACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTAATCTGCTCCAC
TACTACTTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAAT
T
Found at i:31560913 original size:129 final size:129
Alignment explanation
Indices: 31560427--31560914 Score: 473
Period size: 132 Copynumber: 3.7 Consensus size: 129
31560417 AAATAGGATA
* * * * * *
31560427 ACTGACTTCAATGTACTCCGCTGTAACCACAGGGAGGTAAAAT-CTTCCATCTTTAATCTGCTCC
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGT-CATC---AACCTACTCC
* * ** * * *
31560491 ACTACTACTTAGGGAGATAAGATCTGAA-ATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
62 ACTGCAACCGAGGGAGGTAAGGTCT-AATATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAG
31560555 AATT
126 AATT
* * * * * * *
31560559 ACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGCAAAATCCACCATCTTCGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT---CCGTCATCAACCTACTCCA
* ** * * * *
31560624 CTACTAA-TTAGGGAGGTAAGATCTAAAATCTTCAATCTATTCCATTGCTGCTTAGGGAAGTAGA
63 CTGC-AACCGAGGGAGGTAAGGTCTAATATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGA
31560688 ATT
127 ATT
* * *
31560691 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGCGGTAAAATCCGCCATCAACCTGCTCCACTG
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCAACCTACTCCACTG
* * *
31560756 CAGCCGAGAGAGGTAAGGT-TTATAATCTTCAATCTATTCCACTGCTGCCTAGGG-AGATAGAAT
66 CAACCGAGGGAGGTAAGGTCTAAT-ATCTTCAATCTATTCCACTGCTGCCTAGGGAAG-TAGAAT
31560819 T
129 T
* ** *
31560820 ACCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTTGTAATCAACCTACTCCACTG
1 ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCAACCTACTCCACTG
* * **
31560885 CAACCGCGGGAGGCAAGGTCTGGTATCTTC
66 CAACCGAGGGAGGTAAGGTCTAATATCTTC
31560915 GATATGCTTC
Statistics
Matches: 300, Mismatches: 46, Indels: 23
0.81 0.12 0.06
Matches are distributed among these distances:
128 5 0.02
129 141 0.47
130 2 0.01
131 2 0.01
132 144 0.48
133 1 0.00
135 3 0.01
136 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (129 bp):
ACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCAACCTACTCCACTG
CAACCGAGGGAGGTAAGGTCTAATATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATT
Found at i:31560928 original size:129 final size:129
Alignment explanation
Indices: 31560518--31560903 Score: 400
Period size: 129 Copynumber: 3.0 Consensus size: 129
31560508 TAAGATCTGA
* * *
31560518 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATATATTCCACTGCTGCCTAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGT
* * * * * * * * ** * * *
31560583 AATCACAGGGAGGCAAAATCCACCATCTTCGATCTACTCCACTACTAA-TTAGGGAGGTAAGATC
66 AACCTCAGGGAGGTAAAATCC-GCA--ATCAACCTACTCCACTGC-AACCGAGAGAGGCAAGGT-
*
31560647 T-AA
126 TGAT
* * * *
31560650 AATCTTCAATCTATTCCATTGCTGCTTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATATATTCCACTGCTGCCTAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGT
* * * * * *
31560715 AACCTCAGGGCGGTAAAATCCGCCATCAACCTGCTCCACTGCAGCCGAGAGAGGTAAGGTTTAT
66 AACCTCAGGGAGGTAAAATCCGCAATCAACCTACTCCACTGCAACCGAGAGAGGCAAGGTTGAT
*
31560779 AATCTTCAATCTATTCCACTGCTGCCTAGGG-AGATAGAATTACCGGCTTCAATGTACTCCACTG
1 AATCTTCAATATATTCCACTGCTGCCTAGGGAAG-TAGAATTACCGGCTTCAATGTACTCCACTG
** * * *
31560843 TAACCTCAGGGAGGTAAAATTTGTAATCAACCTACTCCACTGCAACCGCGGGAGGCAAGGT
65 TAACCTCAGGGAGGTAAAATCCGCAATCAACCTACTCCACTGCAACCGAGAGAGGCAAGGT
31560904 CTGGTATCTT
Statistics
Matches: 218, Mismatches: 33, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
128 4 0.02
129 134 0.61
131 1 0.00
132 79 0.36
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (129 bp):
AATCTTCAATATATTCCACTGCTGCCTAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGT
AACCTCAGGGAGGTAAAATCCGCAATCAACCTACTCCACTGCAACCGAGAGAGGCAAGGTTGAT
Found at i:31561030 original size:86 final size:88
Alignment explanation
Indices: 31560878--31561037 Score: 245
Period size: 86 Copynumber: 1.8 Consensus size: 88
31560868 ATCAACCTAC
* *
31560878 TCCACTGCAACCGCGGGAGGCAAGGTCTGGTATCTTCGATATGCTTCACTGTCAATGCAGGAAGG
1 TCCACTGCAACCGAGGGAGGCAAGGTCTGGTATCTTCGATATACTTCACTGTCAATGCAGGAAGG
31560943 CAAGATCTGGTAACTTAACCTCT
66 CAAGATCTGGTAACTTAACCTCT
* * *
31560966 TCCACTGCAACCGAGGGAGGCAAGG-CTTTGT-T-TTCGATCTACTTCACTGTCGATGCAGGAAG
1 TCCACTGCAACCGAGGGAGGCAAGGTC-TGGTATCTTCGATATACTTCACTGTCAATGCAGGAAG
31561028 GCAAGATCTG
65 GCAAGATCTG
31561038 CTATCTTCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
86 37 0.56
87 2 0.03
88 27 0.41
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (88 bp):
TCCACTGCAACCGAGGGAGGCAAGGTCTGGTATCTTCGATATACTTCACTGTCAATGCAGGAAGG
CAAGATCTGGTAACTTAACCTCT
Found at i:31570573 original size:52 final size:52
Alignment explanation
Indices: 31570517--31570633 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
31570507 AACAAGGGAC
*
31570517 ACACGATCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
*
31570569 ACACGGTCGTGTCCAAGCCTGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
1 ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
31570621 ACACGGTCGTGTC
1 ACACGGTCGTGTC
31570634 ACACGACCGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (52 bp):
ACACGGTCGTGTCCAAGCCCGTGTCCTCACGTGTAACTCACTGAGTAAGGTT
Found at i:31571524 original size:40 final size:40
Alignment explanation
Indices: 31571379--31571614 Score: 217
Period size: 40 Copynumber: 5.9 Consensus size: 40
31571369 GATTCAAGGT
* * * * * * * *
31571379 TACCAAAGTATAAACAAGGGCACATAAGTGCATTCTGGGC
1 TACCGAAGTACAAACAAGGACACGTATGTGCAATCAGGGG
* * *
31571419 TACCGAAGTACAAATAATGG-CATGTATTTGCAATCAGGGG
1 TACCGAAGTACAAACAA-GGACACGTATGTGCAATCAGGGG
* * * * *
31571459 TATCAAAGTTCAAGCAGGGGA-ACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAACA-AGGACACGTATGTGCAATCAGGGG
* ***
31571499 CACCGAAGTACAAACAAGGACACGTATGCATAATCAGGGG
1 TACCGAAGTACAAACAAGGACACGTATGTGCAATCAGGGG
*
31571539 TACCGAAGTACAAACAGGGACACGTATGCT-CAATCAGGGG
1 TACCGAAGTACAAACAAGGACACGTATG-TGCAATCAGGGG
* *
31571579 TACCGAAGTACAAACAAGGGCACTTATGTGCAATCA
1 TACCGAAGTACAAACAAGGACACGTATGTGCAATCA
31571615 TCAATATGAT
Statistics
Matches: 156, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
39 4 0.03
40 150 0.96
41 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (40 bp):
TACCGAAGTACAAACAAGGACACGTATGTGCAATCAGGGG
Found at i:31575055 original size:17 final size:17
Alignment explanation
Indices: 31575033--31575066 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31575023 CACTAACATG
*
31575033 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
*
31575050 AAAATGCAATGATAATA
1 AAAATGCAATGACAATA
31575067 TATACTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:31589598 original size:24 final size:24
Alignment explanation
Indices: 31589571--31589628 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 24
31589561 GCGCTTCAAG
31589571 AGTTG-CTAATGGGTCAAAAGGAGA
1 AGTTGACT-ATGGGTCAAAAGGAGA
*
31589595 AGTTTGAGTATGGGTCAAAAGGAGA
1 AG-TTGACTATGGGTCAAAAGGAGA
31589620 AGTTTGACT
1 AG-TTGACT
31589629 GTACGGTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 27 0.90
26 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (24 bp):
AGTTGACTATGGGTCAAAAGGAGA
Done.