Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 161 of 352
Found at i:52627398 original size:42 final size:42
Alignment explanation
Indices: 52627336--52627458 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 42
52627326 CGATATGTGT
* *
52627336 TTTCGTGTAAGGCCACGTCTGGGACGTTGGCATCGTATTTGA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGA
*
52627378 TTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATTGATATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATTG-TATTTGA
* * *
52627421 TTACATGTAAGACCACATCTGGGACGTTGGCATTGTAT
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGTAT
52627459 GAGCTTTTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 32 0.46
43 35 0.51
44 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGA
Found at i:52639762 original size:94 final size:91
Alignment explanation
Indices: 52639649--52639827 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 91
52639639 AAATTAAGTC
* * * *
52639649 TCTCTTTTTTTTTTTCACTCAATTGAGCACTTGAACTTTTAAAATGTATCAAAAGGACCCTCAAA
1 TCTCTTTTTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAA-AACACTCAAA
52639714 ATTCTTCAAAAAGAGCAATTAAGCCCTT
65 ATTCTTCAAAAA-AGCAATTAAGCCCTT
* *
52639742 TCTCTTTTTTTTTTTCCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAACACTCAAA
1 TCTCTTTTTTTTTTT-CACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAACACTCAAA
* *
52639807 ATTTTTCATAAAAGCAATTAA
65 ATTCTTCAAAAAAGCAATTAA
52639828 ACCCCTGCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
92 9 0.12
93 33 0.43
94 35 0.45
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (91 bp):
TCTCTTTTTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAACACTCAAAA
TTCTTCAAAAAAGCAATTAAGCCCTT
Found at i:52639883 original size:27 final size:29
Alignment explanation
Indices: 52639838--52639893 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
52639828 ACCCCTGCTC
52639838 TTATTAAAACTTT-AAAAAAAT-TAAAAA
1 TTATTAAAACTTTAAAAAAAATATAAAAA
*
52639865 TTATT-AAATTTTAATAAAAAATATAAAAA
1 TTATTAAAACTTTAA-AAAAAATATAAAAA
52639894 AATATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 6 0.24
28 7 0.28
29 6 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
TTATTAAAACTTTAAAAAAAATATAAAAA
Found at i:52639905 original size:29 final size:30
Alignment explanation
Indices: 52639850--52639914 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
52639840 ATTAAAACTT
* *
52639850 TAAAAAAATTAAAAATTATTAA-ATTTTAA
1 TAAAAAAATAAAAAAATATTAATATTTTAA
* *
52639879 TAAAAAATATAAAAAAATA-TAATTTTTTTA
1 TAAAAAA-ATAAAAAAATATTAATATTTTAA
52639909 TAAAAA
1 TAAAAA
52639915 TCGTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
TAAAAAAATAAAAAAATATTAATATTTTAA
Found at i:52640189 original size:27 final size:27
Alignment explanation
Indices: 52640159--52640211 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
52640149 TTTCTTAAGA
52640159 ATTTATAAAAAATTTATAATTTTTTAT
1 ATTTATAAAAAATTTATAATTTTTTAT
* * * *
52640186 ATTTCTATATATTTTATAATTTTTTA
1 ATTTATAAAAAATTTATAATTTTTTA
52640212 CGATAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTTATAAAAAATTTATAATTTTTTAT
Found at i:52644306 original size:19 final size:20
Alignment explanation
Indices: 52644282--52644325 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
52644272 ATTAAACTGT
52644282 TTTCTTTTA-TATTTATTTA
1 TTTCTTTTATTATTTATTTA
*
52644301 TTTC-TTTATTATTTCTTTA
1 TTTCTTTTATTATTTATTTA
52644320 -TTCTTT
1 TTTCTTT
52644326 CTCATGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTCTTTTATTATTTATTTA
Found at i:52644314 original size:11 final size:11
Alignment explanation
Indices: 52644293--52644327 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
52644283 TTCTTTTATA
52644293 TTTATTTATTTC
1 TTTA-TTATTTC
52644305 TTTATTATTTC
1 TTTATTATTTC
*
52644316 TTTATTCTTTC
1 TTTATTATTTC
52644327 T
1 T
52644328 CATGTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTC
Found at i:52644583 original size:67 final size:66
Alignment explanation
Indices: 52644445--52644593 Score: 176
Period size: 66 Copynumber: 2.2 Consensus size: 66
52644435 TACTTATTTT
** *
52644445 ATTTATTTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTTAATATTATTTTTTTGCCTAT
1 ATTTATTTATTTA-TTATTCTTTTACTTTTAAAATACTTAAATTTAATATTATTTACTTCCCTAT
*
52644510 TT
65 TC
* * * *
52644512 ATTTATTTATTTATTATTCTTTTATTTTTTAAATATTTAAATTTGATATTACTTATACTTCCCT-
1 ATTTATTTATTTATTATTCTTTTACTTTTAAAATACTTAAATTTAATATTA-TT-TACTTCCCTA
52644576 TTC
64 TTC
52644579 ATTTAATTT-TTTATT
1 ATTT-ATTTATTTATT
52644594 TTTTATTTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
66 34 0.48
67 27 0.38
68 10 0.14
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (66 bp):
ATTTATTTATTTATTATTCTTTTACTTTTAAAATACTTAAATTTAATATTATTTACTTCCCTATT
C
Found at i:52649191 original size:21 final size:24
Alignment explanation
Indices: 52649167--52649219 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
52649157 TAGCTATAGA
*
52649167 AATTAAA-A-TAATTAT-ACCATT
1 AATTAAACACTAATTATAACAATT
*
52649188 AATTACAACACTCATTATAACAATT
1 AATTA-AACACTAATTATAACAATT
52649213 AATTAAA
1 AATTAAA
52649220 TTTCTATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.19
22 2 0.08
23 1 0.04
24 8 0.31
25 10 0.38
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTAAACACTAATTATAACAATT
Found at i:52649891 original size:5 final size:5
Alignment explanation
Indices: 52649883--52649976 Score: 163
Period size: 5 Copynumber: 18.6 Consensus size: 5
52649873 TTATTTTAAA
52649883 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
52649933 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-AATTT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATA
52649977 CTTTTTATCT
Statistics
Matches: 86, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
4 2 0.02
5 80 0.93
6 2 0.02
7 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:52650032 original size:17 final size:16
Alignment explanation
Indices: 52649988--52650032 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
52649978 TTTTTATCTA
* *
52649988 ATTAATATAATATTTT
1 ATTAATAAAATAATTT
*
52650004 ATTAATATAATAATTT
1 ATTAATAAAATAATTT
52650020 ATTATATAAAATA
1 ATTA-ATAAAATA
52650033 TCTTTTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAATAAAATAATTT
Found at i:52650974 original size:19 final size:19
Alignment explanation
Indices: 52650950--52650994 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52650940 AATGCTTCTT
52650950 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
52650969 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
52650988 TATGCAT
1 TTTGCAT
52650995 CAAATTTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:52661814 original size:39 final size:40
Alignment explanation
Indices: 52661769--52661992 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
52661759 GCTCCTCGTT
* * * *
52661769 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
52661809 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
52661848 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
52661888 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
52661927 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
52661968 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
52661993 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 67 0.42
40 79 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:52661872 original size:79 final size:78
Alignment explanation
Indices: 52661769--52661992 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
52661759 GCTCCTCGTT
* * *
52661769 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
52661834 TTTAATAACTCGCA
66 TTT-ATAACTCGCA
* * * *
52661848 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
52661912 AATTTGTATCTCGCA
65 -ATTTATAACTCGCA
* * * * * *
52661927 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
52661991 GA
64 GA
52661993 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
78 3 0.02
79 90 0.74
80 28 0.23
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
TTTATAACTCGCA
Found at i:52662001 original size:41 final size:41
Alignment explanation
Indices: 52661924--52662001 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
52661914 TTTGTATCTC
* * *
52661924 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
52661965 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
52662002 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:52669683 original size:39 final size:40
Alignment explanation
Indices: 52669636--52669858 Score: 233
Period size: 39 Copynumber: 5.7 Consensus size: 40
52669626 GCTCCTCGTT
* * * *
52669636 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
52669676 C-AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
52669714 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
52669754 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
52669793 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
52669834 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
52669859 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 9 0.06
39 88 0.56
40 49 0.31
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:52669818 original size:79 final size:78
Alignment explanation
Indices: 52669636--52669858 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 78
52669626 GCTCCTCGTT
* * * *
52669636 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
52669700 ATTTAATACTCGCA
65 ATTTAATACTCGCA
* *
52669714 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
*
52669778 AATTT-GTATCTCGCA
64 AATTTAATA-CTCGCA
* * * * *
52669793 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
52669857 GA
63 GA
52669859 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 51 0.41
79 52 0.42
80 19 0.15
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATACTCGCA
Found at i:52669867 original size:41 final size:41
Alignment explanation
Indices: 52669790--52669867 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
52669780 TTTGTATCTC
* * *
52669790 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
52669831 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
52669868 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:52672240 original size:44 final size:44
Alignment explanation
Indices: 52672185--52672842 Score: 330
Period size: 44 Copynumber: 14.6 Consensus size: 44
52672175 AGTCGTGGCG
* * * *
52672185 AATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTAAAGCCACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
52672229 AATCTTATCTTCTTGAATTTACAGTGGAGTAGATCGAAGATAGCA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * * *
52672274 AATCTTATC-TCTCTAAAGTCGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
52672318 AACCTTATC-TCTCTGAAGTTACAGTGGAGCATG-TTGAAGTTACA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCA-GATTGAAGCTACA
* * ** *
52672362 AATCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAATATAGCG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* *
52672407 AATCTTAT-TTCCCT-AAGGTTGCAGTGGAACAGATTAAAGCTACAAATTACA
1 AATCTTATCTT-CCTGAA-GTTGCAGTGGAGCAGATTGAAG---C----TACA
* *
52672458 AATCTTATC-TCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACA
** * * * * * *
52672502 GGTCTTAT-TGCCCTGAAGTTGTAGTAGAGTAGATCGAAGATAGCA
1 AATCTTATCT-TCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * * *
52672547 AATCTTATC-TCTCTAAAGTTGTAGTAGAGCAGATTAAAGCTAAA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * * *
52672591 AACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * * * *
52672636 AATCCTAT-TTCCCTAAAATTGCAGTGGAACAAATTAAAGCTACA
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** * *
52672680 AGTTACAGATCCTATCTCTTGAAGTTGTAGTGGAGCAGATTGAAGTTACA
1 A-AT-CTTAT-CT-TC-C-TGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * ** *
52672730 AATCTTATC-TCTCTGAAGTTGCAATGGAGTAGATCGAAATTAAA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * **
52672774 AATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATTGAAATTACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
52672818 ATTCCTATAC-CCCTGAAGTTGCAGT
1 AATCTTAT-CTTCCTGAAGTTGCAGT
52672843 AGGTTGGAAT
Statistics
Matches: 461, Mismatches: 118, Indels: 70
0.71 0.18 0.11
Matches are distributed among these distances:
43 1 0.00
44 254 0.55
45 133 0.29
46 3 0.01
47 1 0.00
48 5 0.01
49 3 0.01
50 27 0.06
51 30 0.07
52 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:52672508 original size:140 final size:133
Alignment explanation
Indices: 52672188--52672629 Score: 419
Period size: 133 Copynumber: 3.3 Consensus size: 133
52672178 CGTGGCGAAT
** * * ** * * * *
52672188 CTTATCTTCC-TGAAGTTGTAGTGGAGTAGATTAAAGCCACAAATCTTATCT-TCTTGAATTTAC
1 CTTATC-TCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTAT-TGCCCTGAAGTTGC
* * * * *
52672251 AGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTCGCAGTAGAGCAGATTAAAGCTA
64 AGTAGAGCAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAAGCTA
*
52672316 TAAAC
129 AAAAC
**
52672321 CTTATCT-CTCTGAAGTTACAGTGGAGCATG-TTGAAGTTACAAATCTTATCT-TTCTGAAGTTG
1 CTTATCTCCT-TGAAGTTACAGTGGAGCA-GATTGAAGTTACAAATCTTAT-TGCCCTGAAGTTG
* * * * * *
52672383 CAGTGGAGCAGA-CTGAATATAGCGAATCTTATTTCCCTAAGGTTGCAGTGGAACAGATTAAAGC
63 CAGTAGAGCAGATC-GAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAAGC
52672447 TACAAATTAC
127 TA-AAA--AC
**
52672457 AAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAGGTCTTATTGCCCTGAAGTT
1 ----CTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATTGCCCTGAAGTT
* * * * *
52672522 GTAGTAGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGC
62 GCAGTAGAGCAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAAGC
52672587 TAAAAAC
127 TAAAAAC
* * *
52672594 CTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAG
1 CTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAG
52672630 ATAGCGAATC
Statistics
Matches: 256, Mismatches: 38, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
131 1 0.00
132 2 0.01
133 134 0.52
134 3 0.01
136 2 0.01
137 2 0.01
139 5 0.02
140 104 0.41
141 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (133 bp):
CTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATTGCCCTGAAGTTGCAG
TAGAGCAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAACAGATTAAAGCTAAA
AAC
Found at i:52672556 original size:229 final size:227
Alignment explanation
Indices: 52672226--52672844 Score: 708
Period size: 229 Copynumber: 2.7 Consensus size: 227
52672216 GATTAAAGCC
* * * * *
52672226 ACAAATCTTATCTTCTTGAATTTACAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAA
1 ACAAATCTTATC-TCTTGAAGTTACAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCTCTGAA
* * ** * * * * **
52672291 GTCGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCTGAAGTTACAGTGGAGCATG-TTGA
64 GTTGCAGTAGAGTAGATCGAAGATAAAAATCTTATCTCTCTAAAGTTGTAGTGGAGCA-GATTGA
* ** * * * *
52672355 AGTTACAAATCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAATATAGCGAATCTTATTTCCC
128 AGTTACAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCGAATCCTATTTCCC
** *
52672420 TAAGGTTGCAGTGGAACAGATTAAAGCTACAAATT
193 TAAAATTGCAGTGGAACAAATTAAAGCTACAAATT
** *
52672455 ACAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAGGTCTTAT-TGCCCTGAA
1 ACAAATCTTATCT-CTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCT-CTCTGAA
* * * *
52672519 GTTGTAGTAGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAA
64 GTTGCAGTAGAGTAGATCGAAGATA-AAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGA
* *
52672584 AGCTAAAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCGAATCCTATTTCCC
128 AGTTACAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCGAATCCTATTTCCC
*
52672649 TAAAATTGCAGTGGAACAAATTAAAGCTACAAGTT
193 TAAAATTGCAGTGGAACAAATTAAAGCTACAAATT
* * **
52672684 ACAGATCCTATCTCTTGAAGTTGTAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGT
1 ACAAATCTTATCTCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGT
* * * * *
52672749 TGCAATGGAGTAGATCGAA-ATTAAAAATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATTGAAA
66 TGCAGTAGAGTAGATCGAAGA-TAAAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAG
* *
52672813 TTACAATTCC-TATAC-CCCTGAAGTTGCAGTAG
130 TTACAA-ACCTTAT-CTCCCTGAAGTTACAGTAG
52672845 GTTGGAATGA
Statistics
Matches: 328, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
227 60 0.18
228 100 0.30
229 168 0.51
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (227 bp):
ACAAATCTTATCTCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGT
TGCAGTAGAGTAGATCGAAGATAAAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAGT
TACAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCGAATCCTATTTCCCTAA
AATTGCAGTGGAACAAATTAAAGCTACAAATT
Found at i:52672607 original size:89 final size:89
Alignment explanation
Indices: 52672185--52672680 Score: 351
Period size: 89 Copynumber: 5.5 Consensus size: 89
52672175 AGTCGTGGCG
* * * * * * *
52672185 AATCTTATCT-TCCTGAAGTTGTAGTGGAGTAGATTAAAGCCACAAATCTTATCTTCTTGAATTT
1 AATCTTATCTCT-CTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTT
*
52672249 ACAGTGGAGTAGATCGAAGATAGCA
65 ACAGTAGAGTAGATCGAAGATAGCA
* * * * *
52672274 AATCTTATCTCTCTAAAGTCGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCTGAAGTTA
1 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTA
* * * *
52672339 CAGTGGAGCATG-TTGAAGTTA-CA
66 CAGTAGAGTA-GATCGAAGATAGCA
* * * * ** * *
52672362 AATCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAATATAGCGAATCTTATTTCCCT-AAGGT
1 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCTTATCTCCCTGAA-GT
* * * * * *
52672426 TGCAGTGGAACAGATTAAAGCTACAAATTA-CA
64 TACAGT-----AGAGTAGATCGA-AGA-TAGCA
* * * * **
52672458 AATCTTATCTC-CTTGAAGTTACAGTGGAGCAGATTGAAGTTACAGGTCTTAT-TGCCCTGAAGT
1 AATCTTATCTCTC-TAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT-CCCTGAAGT
**
52672521 TGTAGTAGAGTAGATCGAAGATAGCA
64 TACAGTAGAGTAGATCGAAGATAGCA
* * * *
52672547 AATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCTAAAAACCTTATCTCCCTGAAGTTA
1 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTA
* *
52672612 CAGTAGAGCAGA-CTGAAGATAGCG
66 CAGTAGAGTAGATC-GAAGATAGCA
* * * * * *
52672636 AATCCTATTTCCCTAAAATTGCAGTGGAACAAATTAAAGCTACAA
1 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAA
52672681 GTTACAGATC
Statistics
Matches: 313, Mismatches: 75, Indels: 38
0.73 0.18 0.09
Matches are distributed among these distances:
88 41 0.13
89 194 0.62
90 12 0.04
94 5 0.02
95 20 0.06
96 41 0.13
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTA
CAGTAGAGTAGATCGAAGATAGCA
Found at i:52673023 original size:16 final size:16
Alignment explanation
Indices: 52672998--52673030 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52672988 TTGTCCGGGC
52672998 TCAACCAAAA-AAAAA
1 TCAACCAAAATAAAAA
52673013 TCAATCCAAAATAAAAA
1 TCAA-CCAAAATAAAAA
52673030 T
1 T
52673031 AAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (16 bp):
TCAACCAAAATAAAAA
Found at i:52674486 original size:56 final size:60
Alignment explanation
Indices: 52674414--52674557 Score: 161
Period size: 64 Copynumber: 2.4 Consensus size: 60
52674404 TATTTCTCAT
* * *
52674414 ATACTTGAATCTAATATCACTTATTT-TATTTATTTA-T-TTATTCTTTTA-CTTTTAAA
1 ATACTTAAATTTAATATTACTTATTTCTATTTATTTATTATTATTCTTTTATCTTTTAAA
* * *
52674470 ATACTTAAATTTAATATTATTTGTTTTGCCTATTTATTTATTTATTATTCTTTTATTTTTTAAA
1 ATACTTAAATTTAATATTACTT-ATTT--CTATTTATTTA-TTATTATTCTTTTATCTTTTAAA
*
52674534 ATATTTAAATTTAATATTACTTAT
1 ATACTTAAATTTAATATTACTTAT
52674558 ACTTCCCTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
56 18 0.25
57 3 0.04
60 10 0.14
62 1 0.01
63 12 0.17
64 27 0.38
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (60 bp):
ATACTTAAATTTAATATTACTTATTTCTATTTATTTATTATTATTCTTTTATCTTTTAAA
Found at i:52674573 original size:64 final size:64
Alignment explanation
Indices: 52674441--52674589 Score: 178
Period size: 64 Copynumber: 2.3 Consensus size: 64
52674431 CACTTATTTT
* * * * *
52674441 ATTTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTTAATATTATTTGTTTTGCCTATTT
1 ATTTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTTAATATTACTTATCTTCCCTATTC
* *
52674505 ATTTATTTA-TTATTCTTTTATTTTTTAAAATATTTAAATTTAATATTACTTATACTTCCCT-TT
1 ATTTATTTATTTATTCTTTTA-CTTTTAAAATACTTAAATTTAATATTACTTAT-CTTCCCTATT
52674568 C
64 C
*
52674569 ATTTATTTTTTTTATT-TTTTA
1 ATTTA-TTTATTTATTCTTTTA
52674590 TTTCAAAGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
63 11 0.15
64 44 0.60
65 13 0.18
66 5 0.07
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (64 bp):
ATTTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTTAATATTACTTATCTTCCCTATTC
Found at i:52683397 original size:23 final size:23
Alignment explanation
Indices: 52683333--52683411 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
52683323 GAAAACTCAT
*
52683333 AAGAGCCTTAATCAGGAAGTTCACA
1 AAGAGCC-T-ATCAGGAAGCTCACA
* * * *
52683358 AAGAATCATATCGGGAAGCTCGCA
1 AAG-AGCCTATCAGGAAGCTCACA
*
52683382 AAGAGCCTATCAGGAAGCTCATA
1 AAGAGCCTATCAGGAAGCTCACA
*
52683405 AAAAGCC
1 AAGAGCC
52683412 ATGTAATGGG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
23 21 0.50
24 15 0.36
25 4 0.10
26 2 0.05
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (23 bp):
AAGAGCCTATCAGGAAGCTCACA
Found at i:52687020 original size:16 final size:15
Alignment explanation
Indices: 52686999--52687028 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52686989 ATTAACCATA
52686999 TATTTAGTTATTTTTT
1 TATTTAGTT-TTTTTT
52687015 TATTTAGTTTTTTT
1 TATTTAGTTTTTTT
52687029 ATATAATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TATTTAGTTTTTTTT
Found at i:52687692 original size:35 final size:35
Alignment explanation
Indices: 52687621--52687694 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
52687611 TTTTTTCTTG
* *
52687621 TTATGTTATGCTTGAAAGTTTTGTTAAGGGATTAC
1 TTATGTTATGCTTGAAAGTTTTGTTAAGGAACTAC
52687656 TTATGTT-TGCTTGAAAG-TTTGTTAAGGAAAACTAC
1 TTATGTTATGCTTGAAAGTTTTGTTAAGG--AACTAC
52687691 TTAT
1 TTAT
52687695 ATTTATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 10 0.29
34 10 0.29
35 15 0.43
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (35 bp):
TTATGTTATGCTTGAAAGTTTTGTTAAGGAACTAC
Found at i:52687722 original size:11 final size:11
Alignment explanation
Indices: 52687691--52687724 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
52687681 GGAAAACTAC
52687691 TTATATTTATA
1 TTATATTTATA
*
52687702 TTAAATTTATA
1 TTATATTTATA
*
52687713 TTATAGTTATA
1 TTATATTTATA
52687724 T
1 T
52687725 CATCAATGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (11 bp):
TTATATTTATA
Found at i:52704506 original size:16 final size:16
Alignment explanation
Indices: 52704485--52704520 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
52704475 CTTATTTATA
52704485 AAGTTTGTAAAATGGG
1 AAGTTTGTAAAATGGG
52704501 AAGTTTGTAAAATGGG
1 AAGTTTGTAAAATGGG
52704517 AAGT
1 AAGT
52704521 AAGATGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (16 bp):
AAGTTTGTAAAATGGG
Found at i:52705494 original size:19 final size:19
Alignment explanation
Indices: 52705470--52705507 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52705460 TGAAAATGTG
52705470 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
52705489 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
52705508 CATGATGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:52711177 original size:30 final size:30
Alignment explanation
Indices: 52711143--52711203 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
52711133 TTCCCGAGCC
52711143 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
52711173 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
52711203 T
1 T
52711204 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:52712018 original size:64 final size:65
Alignment explanation
Indices: 52711938--52712121 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 65
52711928 AGACATTATG
* * *
52711938 ATGTAGCTAGGTCGCATGGGTGATAC-GATGTGTACACCATGTAGATAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACAGATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
52712002 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACAGATG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
52712067 AA
64 AA
* * * * *
52712069 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACAGATGTGTACACCATGTAG-ACAAGAGAGC
52712122 CGAACTATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 7 0.07
66 18 0.19
67 31 0.32
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGATACAGATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:52713605 original size:47 final size:47
Alignment explanation
Indices: 52713487--52713614 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 47
52713477 GGATGATTGA
*
52713487 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
52713535 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
52713578 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
52713615 TGTAACACCC
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:52714665 original size:47 final size:47
Alignment explanation
Indices: 52714587--52715096 Score: 759
Period size: 47 Copynumber: 10.6 Consensus size: 47
52714577 CCCTTCGGGA
* * * * * *
52714587 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
52714634 CCTGTCACATATATACACTTTCACATTCATCACATCGGATATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52714681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52714728 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52714779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52714826 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52714875 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52714922 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52714971 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52715018 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52715067 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
52715097 TCAAATATAC
Statistics
Matches: 423, Mismatches: 30, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
47 244 0.58
49 134 0.32
51 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52714865 original size:96 final size:96
Alignment explanation
Indices: 52714587--52715096 Score: 871
Period size: 96 Copynumber: 5.3 Consensus size: 96
52714577 CCCTTCGGGA
* * * * * * * *
52714587 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* ** *
52714650 ACTTTCACATTCATCACATCGGATATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
52714681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAT
52714746 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATTGGCCATTCGGC
52714779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52714844 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
*
52714875 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52714940 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
52714971 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
52715036 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
52715067 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
52715097 TCAAATATAC
Statistics
Matches: 398, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
94 47 0.12
96 261 0.66
98 90 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:52717418 original size:85 final size:85
Alignment explanation
Indices: 52717289--52717467 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
52717279 TATTTTATTG
*
52717289 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52717354 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52717374 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52717439 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52717459 CCCATGCTC
1 CCCATGCTC
52717468 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:52723706 original size:15 final size:15
Alignment explanation
Indices: 52723686--52723750 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
52723676 GTATCTTGGG
52723686 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
52723701 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
52723716 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
52723731 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
52723745 TTTCTT
1 TTTCTT
52723751 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:52723718 original size:30 final size:31
Alignment explanation
Indices: 52723682--52723750 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
52723672 TATCGTATCT
52723682 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
52723712 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
52723742 -GGTTTTCTT
1 TGGGTTTCTT
52723751 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:52726012 original size:49 final size:48
Alignment explanation
Indices: 52725882--52726025 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 48
52725872 TCTATTGTGA
*
52725882 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGT
* * * * *
52725933 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-T
52725982 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
52726026 TAGCTTCGGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 5 0.06
49 40 0.49
50 2 0.02
51 34 0.42
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGT
Found at i:52732472 original size:26 final size:26
Alignment explanation
Indices: 52732392--52732615 Score: 134
Period size: 26 Copynumber: 8.6 Consensus size: 26
52732382 GATAATAGTA
* *
52732392 CCTGCT-AATAATTCACCGGCTTAAAG
1 CCTGCTAAATAA-TCACCGGCTCAAGG
* * * * *
52732418 CCTACTAAAATAAACACCGACTTATGG
1 CCTGCT-AAATAATCACCGGCTCAAGG
* *
52732445 CCTGCTAAATAACCACCAGCTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* * *
52732471 CCTGTTAAATAATCATCGGCTCATA-T
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * *
52732497 CTTGCTAAATAATTACCGGCTTAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
52732523 CTTGCTAAATAATCACCGGCTCATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * * *
52732549 TCTACTAATTAATCATCGGCTTATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * *
52732575 CCTACTAATTAATCATCGGCTCATGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
52732601 CCTGCTAGAT-ATCAC
1 CCTGCTAAATAATCAC
52732616 ATCATATACT
Statistics
Matches: 155, Mismatches: 37, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
25 5 0.03
26 128 0.83
27 17 0.11
28 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAGG
Found at i:52732569 original size:52 final size:52
Alignment explanation
Indices: 52732449--52732598 Score: 160
Period size: 52 Copynumber: 2.9 Consensus size: 52
52732439 TTATGGCCTG
* * * * *
52732449 CTAAATAACCACCAGCTCAAGGCCTGTTAAATAATCATCGGCTCATATCTTG
1 CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATATCTTA
* * *
52732501 CTAAATAATTACCGGCTTAAGGCTTGCTAAATAATCACCGGCTCATAGTC-TA
1 CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATA-TCTTA
* * * *
52732553 CTAATTAATCATCGGCTTATA-GCCTACTAATTAATCATCGGCTCAT
1 CTAAATAATCACCGGCTTA-AGGCCTGCTAAATAATCATCGGCTCAT
52732599 GGCCTGCTAG
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
52 78 0.96
53 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (52 bp):
CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATATCTTA
Found at i:52732595 original size:78 final size:78
Alignment explanation
Indices: 52732398--52732607 Score: 197
Period size: 78 Copynumber: 2.7 Consensus size: 78
52732388 AGTACCTGCT
* * * * *
52732398 AATAATTCACCGGCTTAAAGCCTACTAAAATAAACACCGACTTATGGCCTGCTAAATAACCACCA
1 AATAA-TCATCGGCTTATAGCCTACT-AAATAATCACCGGCTTAAGGCCTGCTAAATAACCACCA
**
52732463 GCTCAAGGCCTGTTA
64 GCTCAAGGCCTACTA
* * * * * * * *
52732478 AATAATCATCGGCTCATATCTTGCTAAATAATTACCGGCTTAAGGCTTGCTAAATAATCACCGGC
1 AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTAAGGCCTGCTAAATAACCACCAGC
*
52732543 TCATA-GTCTACTA
66 TCA-AGGCCTACTA
* * * * *
52732556 ATTAATCATCGGCTTATAGCCTACTAATTAATCATCGGCTCATGGCCTGCTA
1 AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTAAGGCCTGCTA
52732608 GATATCACAT
Statistics
Matches: 102, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
78 82 0.80
79 15 0.15
80 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (78 bp):
AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTAAGGCCTGCTAAATAACCACCAGC
TCAAGGCCTACTA
Found at i:52735628 original size:13 final size:13
Alignment explanation
Indices: 52735610--52735635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52735600 TTAACCTTAA
52735610 ACATTTCATCTTC
1 ACATTTCATCTTC
52735623 ACATTTCATCTTC
1 ACATTTCATCTTC
52735636 TTGTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
ACATTTCATCTTC
Found at i:52740736 original size:23 final size:25
Alignment explanation
Indices: 52740694--52740739 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
52740684 ATAAATAATT
52740694 AAATATGAATATTTAATAATATTAA
1 AAATATGAATATTTAATAATATTAA
*
52740719 AAATAT-AATATTT-TTAATATT
1 AAATATGAATATTTAATAATATT
52740740 TTTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATATGAATATTTAATAATATTAA
Found at i:52743468 original size:24 final size:23
Alignment explanation
Indices: 52743441--52743500 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
52743431 ATTTATAAAT
**
52743441 TAAAAATATACATGATTATGTACA
1 TAAAAATATACAT-AAAATGTACA
*
52743465 TAAAAGTAT-CGATAAAATGTACA
1 TAAAAATATAC-ATAAAATGTACA
52743488 TAAAAAT-TACATA
1 TAAAAATATACATA
52743501 TGATAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.13
23 16 0.53
24 10 0.33
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.30
Consensus pattern (23 bp):
TAAAAATATACATAAAATGTACA
Found at i:52744353 original size:27 final size:27
Alignment explanation
Indices: 52744322--52744377 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
52744312 TCATTGCACA
52744322 TAGAACATCTCATGGAGATCAACTAAT
1 TAGAACATCTCATGGAGATCAACTAAT
* *
52744349 TAGAACGTCTCATGGAGGTCAACTAAT
1 TAGAACATCTCATGGAGATCAACTAAT
52744376 TA
1 TA
52744378 AATGAGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
TAGAACATCTCATGGAGATCAACTAAT
Found at i:52751669 original size:47 final size:47
Alignment explanation
Indices: 52751606--52751909 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
52751596 CCCTTCGGGA
* * *
52751606 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
52751653 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52751700 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
52751747 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52751794 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52751841 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
52751890 CCTACCACATATATATACTT
1 CTTATCACATATATACACTT
52751910 GTACATCAAT
Statistics
Matches: 237, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 193 0.81
49 44 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:52755065 original size:39 final size:39
Alignment explanation
Indices: 52755042--52755146 Score: 192
Period size: 39 Copynumber: 2.7 Consensus size: 39
52755032 TCCCAGCACG
* *
52755042 TAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
52755081 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
52755120 TAGCCTGCGGATCTCATGTCCGGATAT
1 TAGCCTGCGGATCTCATGTCCGGATAT
52755147 TTCCAATCTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (39 bp):
TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
Found at i:52763248 original size:39 final size:39
Alignment explanation
Indices: 52763225--52763329 Score: 192
Period size: 39 Copynumber: 2.7 Consensus size: 39
52763215 TCCCAGCACG
* *
52763225 TAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
52763264 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
52763303 TAGCCTGCGGATCTCATGTCCGGATAT
1 TAGCCTGCGGATCTCATGTCCGGATAT
52763330 TTCCAATCTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (39 bp):
TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
Found at i:52775339 original size:50 final size:50
Alignment explanation
Indices: 52775258--52775552 Score: 464
Period size: 50 Copynumber: 5.9 Consensus size: 50
52775248 TACTAGGGTA
* * * *
52775258 ATATGTGAGCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCTCCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
*
52775308 ATACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
*
52775358 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* * * **
52775408 ATATGAGAACCAGTATAAGACCATGTCTGGGACATGACATCGGCACTAAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
*
52775458 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
52775508 ATATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATTGGCA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
52775553 TGTTACCCTT
Statistics
Matches: 225, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 225 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
Found at i:52777478 original size:47 final size:45
Alignment explanation
Indices: 52777408--52777722 Score: 238
Period size: 47 Copynumber: 6.8 Consensus size: 45
52777398 TTATTTGTGT
*
52777408 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TATGATGAGA
*
52777454 GCCAGTGTAAGATCATGTCTGGGACATGGCATCGG--TATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTA-T--GATGAGA
*
52777502 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT--ATGATG-AGA
* * * ** *
52777548 GTCAGTGTAAGACATGTCT--GACATGCATCAG-TTGCGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTATGATGA-GA
*
52777590 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATG-TGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C---TATGATGAGA
* * *
52777640 GCTAGTGTAAGACCATGTCTGAGACATGACATC-GACT-TGATGGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTATGAT-GA-GA
52777687 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
52777723 ATTATACCCT
Statistics
Matches: 217, Mismatches: 22, Indels: 58
0.73 0.07 0.20
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 14 0.06
43 8 0.04
44 13 0.06
45 9 0.04
46 50 0.23
47 58 0.27
48 27 0.12
49 2 0.01
50 30 0.14
51 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTATGATGAGA
Found at i:52777586 original size:44 final size:42
Alignment explanation
Indices: 52777505--52777610 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 42
52777495 GACGAGAGCT
*
52777505 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGTC
1 AGTGTAAGACATGTCT--GACATGCATCAGCCTCGAGATGT--GTC
*
52777551 AGTGTAAGACATGTCTGACATGCATCAG-TTGCGAGATGTGTC
1 AGTGTAAGACATGTCTGACATGCATCAGCCT-CGAGATGTGTC
52777593 AGTGTAAGACCATGTCTG
1 AGTGTAAGA-CATGTCTG
52777611 GGACATGGCA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
42 12 0.21
43 9 0.16
44 19 0.34
46 16 0.29
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (42 bp):
AGTGTAAGACATGTCTGACATGCATCAGCCTCGAGATGTGTC
Found at i:52794329 original size:14 final size:14
Alignment explanation
Indices: 52794310--52794346 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
52794300 GAATAGATCA
52794310 GATCCTTCACACGT
1 GATCCTTCACACGT
52794324 GATCCTTCACACGT
1 GATCCTTCACACGT
*
52794338 GATTCTTCA
1 GATCCTTCA
52794347 TACTGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (14 bp):
GATCCTTCACACGT
Found at i:52795178 original size:16 final size:16
Alignment explanation
Indices: 52795157--52795188 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52795147 TTCTTTTAAG
52795157 CTGTTTTTTCATATTT
1 CTGTTTTTTCATATTT
52795173 CTGTTTTTTCATATTT
1 CTGTTTTTTCATATTT
52795189 TTGGTACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.69
Consensus pattern (16 bp):
CTGTTTTTTCATATTT
Found at i:52796005 original size:20 final size:20
Alignment explanation
Indices: 52795977--52796017 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52795967 TTTCGCTTAG
52795977 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
* * *
52795997 CTCATATGAGTTTTAGTTAA
1 CTCACATGAGCTTCAGTTAA
52796017 C
1 C
52796018 CCTAATGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
CTCACATGAGCTTCAGTTAA
Found at i:52799530 original size:5 final size:5
Alignment explanation
Indices: 52799520--52799544 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
52799510 TATGTTATTA
52799520 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
52799545 CTTATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:52808866 original size:15 final size:15
Alignment explanation
Indices: 52808839--52808879 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
52808829 CTTGTATTTA
*
52808839 TTTT-ATTAATAATG
1 TTTTCATTATTAATG
52808853 TTTTCATTATTAATG
1 TTTTCATTATTAATG
52808868 -TTTCAATTATTA
1 TTTTC-ATTATTA
52808880 TCAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (15 bp):
TTTTCATTATTAATG
Found at i:52814437 original size:28 final size:28
Alignment explanation
Indices: 52814399--52814456 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
52814389 ACTAAGTTAC
52814399 AAAACTCGACTGTGGATTTGGGTTTTAA
1 AAAACTCGACTGTGGATTTGGGTTTTAA
*
52814427 AAAACTTGACTGTGGATTTGGGTTTTAA
1 AAAACTCGACTGTGGATTTGGGTTTTAA
52814455 AA
1 AA
52814457 CTTAGTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAACTCGACTGTGGATTTGGGTTTTAA
Found at i:52816666 original size:9 final size:9
Alignment explanation
Indices: 52816652--52816677 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
52816642 TGGCACCGAA
52816652 GGAGCTTAC
1 GGAGCTTAC
52816661 GGAGCTTAC
1 GGAGCTTAC
52816670 GGAGCTTA
1 GGAGCTTA
52816678 AGGCTCAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (9 bp):
GGAGCTTAC
Found at i:52827751 original size:18 final size:19
Alignment explanation
Indices: 52827717--52827753 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52827707 ATACAACTAA
*
52827717 TTTAATTATTATTTTATTT
1 TTTAATAATTATTTTATTT
52827736 TTTAATAATT-TTTTATTT
1 TTTAATAATTATTTTATTT
52827754 GTAATTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTAATAATTATTTTATTT
Found at i:52832827 original size:16 final size:16
Alignment explanation
Indices: 52832806--52832839 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
52832796 TTTTAAGGTA
52832806 ACCTACAATGTAATTT
1 ACCTACAATGTAATTT
52832822 ACCTACAATGTAATTT
1 ACCTACAATGTAATTT
52832838 AC
1 AC
52832840 TCTATATTTA
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:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (16 bp):
ACCTACAATGTAATTT
Found at i:52843162 original size:5 final size:5
Alignment explanation
Indices: 52843152--52843178 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
52843142 GATGCCAACC
52843152 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
52843179 TTTATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:52843452 original size:28 final size:28
Alignment explanation
Indices: 52843412--52843467 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
52843402 CATAACATAG
52843412 TCCAAATTCGTACTAATAGACACTTATA
1 TCCAAATTCGTACTAATAGACACTTATA
52843440 TCCAAATTCGTACTAATAGACACTTATA
1 TCCAAATTCGTACTAATAGACACTTATA
52843468 CCTTTTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.32
Consensus pattern (28 bp):
TCCAAATTCGTACTAATAGACACTTATA
Found at i:52845781 original size:26 final size:26
Alignment explanation
Indices: 52845752--52845803 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
52845742 ACCAATGAAA
* *
52845752 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGAGAATCAGCACATAGCAACCCC
52845778 TCGGAGAATCAGCACATAGCAACCCC
1 TCGGAGAATCAGCACATAGCAACCCC
52845804 CTTTCACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.35, G:0.21, T:0.13
Consensus pattern (26 bp):
TCGGAGAATCAGCACATAGCAACCCC
Found at i:52845787 original size:104 final size:103
Alignment explanation
Indices: 52845512--52845879 Score: 587
Period size: 103 Copynumber: 3.6 Consensus size: 103
52845502 TAGCCGTTAT
** *
52845512 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
52845577 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
52845615 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
52845680 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
*
52845719 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGA
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
52845783 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
52845823 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
52845880 TTTTATATAC
Statistics
Matches: 250, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
103 111 0.44
104 108 0.43
105 31 0.12
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:52849417 original size:15 final size:15
Alignment explanation
Indices: 52849397--52849431 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52849387 AAAGGCAAAT
*
52849397 GAAATCCTTTGTTTG
1 GAAATCCATTGTTTG
52849412 GAAATCCATTGTTTG
1 GAAATCCATTGTTTG
*
52849427 CAAAT
1 GAAAT
52849432 TTGACATCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (15 bp):
GAAATCCATTGTTTG
Found at i:52855892 original size:130 final size:130
Alignment explanation
Indices: 52855653--52856060 Score: 498
Period size: 130 Copynumber: 3.1 Consensus size: 130
52855643 TGTGAAATAA
* * * *
52855653 CTCACTAATTTACGATCACGATTGATATTATCAAGGCTCGTTGA-TTACGATCACAGCCTAAGTT
1 CTCACTGATTTACGATCACGATTGATATTATTAAGGCTCGTTGATTTACAATCACAACCTAAGTT
* * * *
52855717 CAGTAATTTACGATCATAAACAATTTCTTTTGAGTTAGCTAATTTACGATCGCAACTCCAAACAG
66 CATTAATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAACAG
* * * *
52855782 CTCACTGATTTATGATCACGACTGATATTATTAAAGCGT-GTTGATTTACAATCACACCCTAAGT
1 CTCACTGATTTACGATCACGATTGATATTATTAAGGC-TCGTTGATTTACAATCACAACCTAAGT
* *
52855846 TCATTAATTTACGATCATGAACAATTTCTTCTGAGTTAGTTGATTTACGATCACAACTCCAAACA
65 TCATTAATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAACA
*
52855911 A
130 G
*** * * *
52855912 CTTGTTGATTTACGATCATTG-TTGATATTATTAAGGCTCGTTGGTTTACAGTCACAACCTAAGT
1 CTCACTGATTTACGATCA-CGATTGATATTATTAAGGCTCGTTGATTTACAATCACAACCTAAGT
* * * * * * *
52855976 TTATTGATTTATGATCATGAACAATTTCTTTTGAGTTTGTTGATTTATGATTGCAACTCCAAATA
65 TCATTAATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAACA
52856041 G
130 G
** *
52856042 CTTGCTGATTTACAATCAC
1 CTCACTGATTTACGATCAC
52856061 AACTTAAGTT
Statistics
Matches: 238, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
129 38 0.16
130 199 0.84
131 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (130 bp):
CTCACTGATTTACGATCACGATTGATATTATTAAGGCTCGTTGATTTACAATCACAACCTAAGTT
CATTAATTTACGATCATGAACAATTTCTTTTGAGTTAGTTGATTTACGATCGCAACTCCAAACAG
Found at i:52856127 original size:94 final size:94
Alignment explanation
Indices: 52855956--52856128 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
52855946 GGCTCGTTGG
* * * * * *
52855956 TTTACAGTCACAACCTAAGTTTATTGATTTATGATCATGAACAATTTCTTTTGAGTTTGTTGATT
1 TTTACAATCACAACCTAAGTTCATTGATTTAAGATCATGAACAATTTCTTCTGAGTTAGCTGATT
* **
52856021 TATGATTGCAACTCCAAATAGCTTGCTGA
66 TACGATCCCAACTCCAAATAGCTTGCTGA
*
52856050 TTTACAATCACAACTTAAGTTCATTGATTTAAGATCATGAACAATTTCTTCTGAGTTAGCTGATT
1 TTTACAATCACAACCTAAGTTCATTGATTTAAGATCATGAACAATTTCTTCTGAGTTAGCTGATT
52856115 TACGATCCCAACTC
66 TACGATCCCAACTC
52856129 ATGATTGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (94 bp):
TTTACAATCACAACCTAAGTTCATTGATTTAAGATCATGAACAATTTCTTCTGAGTTAGCTGATT
TACGATCCCAACTCCAAATAGCTTGCTGA
Found at i:52856362 original size:130 final size:130
Alignment explanation
Indices: 52856140--52856467 Score: 421
Period size: 130 Copynumber: 2.5 Consensus size: 130
52856130 TGATTGCAAT
* * * *
52856140 TGATATTATTAAGACTCGCTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAAAA
1 TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
* * * ** *
52856205 ATTTCTTCTAAGTTAGCTGATTTATGAT-AGCAACTCCAAACAACTGGCTGACTTATGATTAC-G
66 ATTTCTTCTAAGTAAGCTAATTTATGATCA-CAACTCCAAACAAATGGCTGACTTACAATCACAG
52856268 AC
130 -C
*
52856270 TGATATTATTGAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
1 TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
* * *
52856335 ATTTCTTCTGAGTAAG-TCAATTTATGATCACAACTCCAAACAAATTGCTGATTTACAATCACAG
66 ATTTCTTCTAAGTAAGCT-AATTTATGATCACAACTCCAAACAAATGGCTGACTTACAATCACAG
*
52856399 T
130 C
* * * * *
52856400 TGTTATTATTAAGGCTCGCTAATTTACGATCACAA-TTAAGTTCATTGATTTACAATCATGGACA
1 TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
52856464 ATTT
66 ATTT
52856468 ATTCCCAAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
129 31 0.18
130 141 0.81
131 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (130 bp):
TGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAACA
ATTTCTTCTAAGTAAGCTAATTTATGATCACAACTCCAAACAAATGGCTGACTTACAATCACAGC
Found at i:52863280 original size:25 final size:25
Alignment explanation
Indices: 52863251--52863318 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
52863241 TTTAAATAAT
52863251 TGGGGCAAAGCCCTTTTCAATAAAC
1 TGGGGCAAAGCCCTTTTCAATAAAC
**
52863276 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCAATAAAC
*
52863301 TGGGGCAAAGCCTTTTTC
1 TGGGGCAAAGCCCTTTTC
52863319 CACATTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCAATAAAC
Found at i:52863390 original size:21 final size:21
Alignment explanation
Indices: 52863366--52863435 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
52863356 TATAGTGAAT
* *
52863366 ATATCATAGCATATCATGTTC
1 ATATCATAACATATCATGTGC
*
52863387 ATATCATAATATATCATGTGC
1 ATATCATAACATATCATGTGC
52863408 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
52863429 ATATCAT
1 ATATCAT
52863436 GTCATATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:52863393 original size:5 final size:5
Alignment explanation
Indices: 52863366--52863442 Score: 57
Period size: 5 Copynumber: 14.8 Consensus size: 5
52863356 TATAGTGAAT
* * *
52863366 ATATC ATAGC ATATC ATGTTC ATATC ATAAT- ATATC ATGTGC ATATC
1 ATATC ATATC ATATC AT-ATC ATATC AT-ATC ATATC ATAT-C ATATC
* * *
52863413 ATAAC ATATC ATGTGC ATATC ATGTC ATAT
1 ATATC ATATC ATAT-C ATATC ATATC ATAT
52863443 TATGTATATC
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
4 2 0.04
5 39 0.71
6 14 0.25
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (5 bp):
ATATC
Found at i:52863421 original size:31 final size:31
Alignment explanation
Indices: 52863363--52863424 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
52863353 GCATATAGTG
**
52863363 AATATATCATAGCATATCATGTTCATATCAT
1 AATATATCATAGCATATCATGAACATATCAT
*
52863394 AATATATCATGTGCATATCAT-AACATATCAT
1 AATATATCAT-AGCATATCATGAACATATCAT
52863425 GTGCATATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (31 bp):
AATATATCATAGCATATCATGAACATATCAT
Found at i:52871254 original size:6 final size:6
Alignment explanation
Indices: 52871245--52871292 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
52871235 AACTAGAACT
*
52871245 AGAATC AGAATC AGAATC AGAATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
52871293 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 2 0.05
6 30 0.81
7 3 0.08
8 2 0.05
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:52871260 original size:18 final size:18
Alignment explanation
Indices: 52871230--52871291 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
52871220 AAGAAACATT
52871230 ATCAGAACTAGAA-CTAGA
1 ATCAGAACTAGAATC-AGA
52871248 ATCAGAA-TCAGAATCAGA
1 ATCAGAACT-AGAATCAGA
*
52871266 ATCAGGTAAC-AGAATCAAA
1 ATCA-G-AACTAGAATCAGA
52871285 ATCAGAA
1 ATCAGAA
52871292 TGTGAATGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 3 0.08
18 19 0.50
19 14 0.37
20 2 0.05
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (18 bp):
ATCAGAACTAGAATCAGA
Found at i:52871710 original size:27 final size:27
Alignment explanation
Indices: 52871680--52872167 Score: 584
Period size: 27 Copynumber: 18.1 Consensus size: 27
52871670 ACACCCTAAA
* *
52871680 GGTAAAATGGTAATTTTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
** *
52871707 GGTAAAACGGTAATTTTGTAAATC-AA
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
52871733 TGTAAAATAGTAATTTTGTAAATCAAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
** *
52871760 GGTAAAACGGTAATTTT-TCAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
52871786 GGTAAAACAATAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
52871813 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
52871840 GGTAAAACAGTAATTTTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
52871867 GGTAAAATAGTAATTCTATAAATCTAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* ** *
52871894 GGTAAAACAGTAATCCTGTAAATCGAA
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
52871921 CGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*
52871948 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*
52871975 GGTAAAATAGTAACTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
52872002 GGTAAAATAGTAATTCTATAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
52872029 GGTAAAATGGTAATTTTGTAAATCAAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
*
52872056 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* *
52872083 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * * *
52872110 GGTAAAACAGTAATTCTGTATATCAAG
1 GGTAAAATAGTAATTTTGTAAATCGAG
* * *
52872137 GGTAAAATGGTAATTCTGTAAATCGGG
1 GGTAAAATAGTAATTTTGTAAATCGAG
52872164 GGTA
1 GGTA
52872168 CTTTGGTAAT
Statistics
Matches: 399, Mismatches: 60, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 44 0.11
27 355 0.89
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GGTAAAATAGTAATTTTGTAAATCGAG
Found at i:52872283 original size:26 final size:26
Alignment explanation
Indices: 52872173--52872286 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 26
52872163 GGGTACTTTG
* *
52872173 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAACTAG-GGGTATTTCA
* * * **
52872200 GTAATTTCACAAATCAGAGGTATTTTG
1 GTAATTTTACAACT-AGGGGTATTTCA
* * *
52872227 GTAACTTTGCAAACTAGGGGTATGTT-G
1 GTAATTTTAC-AACTAGGGGTAT-TTCA
52872254 GTAATTTTACAACTAGGGGTATTTCA
1 GTAATTTTACAACTAGGGGTATTTCA
52872280 GTAATTT
1 GTAATTT
52872287 GGTAAACTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
25 2 0.03
26 19 0.28
27 42 0.61
28 6 0.09
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (26 bp):
GTAATTTTACAACTAGGGGTATTTCA
Found at i:52875789 original size:39 final size:39
Alignment explanation
Indices: 52875735--52875813 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
52875725 GTTTTCATGA
*
52875735 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATGTTC
1 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
52875774 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
1 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
52875813 T
1 T
52875814 TTCAGTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (39 bp):
TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
Found at i:52892242 original size:26 final size:25
Alignment explanation
Indices: 52892200--52892256 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
52892190 ACACACTGCA
* *
52892200 GCTCTTATGAGCATCCTG-TTATATG
1 GCTCTTACGAGCATCCTGATTA-AAG
*
52892225 GCTCTTCACGAGCTTCCTGATTAAAG
1 GCTCTT-ACGAGCATCCTGATTAAAG
52892251 GCTCTT
1 GCTCTT
52892257 TGTGAGCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.22
26 18 0.67
27 3 0.11
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTTACGAGCATCCTGATTAAAG
Found at i:52892360 original size:25 final size:25
Alignment explanation
Indices: 52892222--52892415 Score: 82
Period size: 25 Copynumber: 7.8 Consensus size: 25
52892212 ATCCTGTTAT
* *
52892222 ATGGCTCTTCACGAGCTTCCTGATTA
1 ATGGCTCTTC-GGAGCTTCCCGATTA
* * * *
52892248 AAGGCTCTTTGTGAGCTTCCTGACTA
1 ATGGCTCTTCG-GAGCTTCCCGATTA
** *
52892274 ATGGCTCTGAGGAGCTTCCC-AAT-
1 ATGGCTCTTCGGAGCTTCCCGATTA
* **
52892297 ATGGCTCGCTT--GAACTTCTAGA-TA
1 ATGGCT--CTTCGGAGCTTCCCGATTA
*
52892321 CATGGCT-ATCTGGAGCTTCCCGATTA
1 -ATGGCTCTTC-GGAGCTTCCCGATTA
*
52892347 ATGGCTCTTCGGAGCTACCCG-TTA
1 ATGGCTCTTCGGAGCTTCCCGATTA
* * * *
52892371 TTGGCTC-GCATGAGCTTCCTGATT-
1 ATGGCTCTTC-GGAGCTTCCCGATTA
**
52892395 ATGGCTCTTATGAGCTTCCCG
1 ATGGCTCTTCGGAGCTTCCCG
52892416 TTATATAGCC
Statistics
Matches: 126, Mismatches: 28, Indels: 30
0.68 0.15 0.16
Matches are distributed among these distances:
22 1 0.01
23 14 0.11
24 36 0.29
25 42 0.33
26 33 0.26
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTTCCCGATTA
Found at i:52892385 original size:24 final size:24
Alignment explanation
Indices: 52892358--52892419 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
52892348 TGGCTCTTCG
*
52892358 GAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
* **
52892382 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCGCAT
52892406 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
52892420 ATAGCCTGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:52892399 original size:73 final size:73
Alignment explanation
Indices: 52892220--52892415 Score: 173
Period size: 73 Copynumber: 2.7 Consensus size: 73
52892210 GCATCCTGTT
* * * * * *
52892220 ATATGGCTCTTCACGAGCTTCCTGATTAAAGGCTCTTTGTGAGCTTCCTGACTAATGGCTCTGAG
1 ATATGGCTC-GCATGAGCTTCCTGATT-ATGGCTATCTGTGAGCTTCCCGACTAATGGCTCTGAG
*
52892285 GAGCTTCCCA
64 GAGCTACCCA
* * * * **
52892295 ATATGGCTCGCTTGAACTT-CTAGATACATGGCTATCTG-GAGCTTCCCGATTAATGGCTCTTCG
1 ATATGGCTCGCATGAGCTTCCT-GAT-TATGGCTATCTGTGAGCTTCCCGACTAATGGCTCTGAG
*
52892358 GAGCTACCCG
64 GAGCTACCCA
* * *
52892368 TTATTGGCTCGCATGAGCTTCCTGATTATGGCTCT-TATGAGCTTCCCG
1 ATA-TGGCTCGCATGAGCTTCCTGATTATGGCTATCTGTGAGCTTCCCG
52892416 TTATATAGCC
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
72 1 0.01
73 50 0.52
74 34 0.35
75 11 0.11
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.33
Consensus pattern (73 bp):
ATATGGCTCGCATGAGCTTCCTGATTATGGCTATCTGTGAGCTTCCCGACTAATGGCTCTGAGGA
GCTACCCA
Found at i:52892436 original size:49 final size:49
Alignment explanation
Indices: 52892334--52892437 Score: 113
Period size: 48 Copynumber: 2.1 Consensus size: 49
52892324 GGCTATCTGG
* * *
52892334 AGCTTCCCGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATG
1 AGCTTCCCGATTAATGGCTCTTAGGAGCTACCCGTTATTGCCTCGCATA
* * * *
52892383 AGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCGTTATATAGCCT-GGATA
1 AGCTTCCCGATTAATGGCTCTTAGGAGCTACCCGTTAT-T-GCCTCGCATA
52892432 AGCTTC
1 AGCTTC
52892438 TAGTTATATA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 22 0.48
49 21 0.46
50 3 0.07
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (49 bp):
AGCTTCCCGATTAATGGCTCTTAGGAGCTACCCGTTATTGCCTCGCATA
Found at i:52892437 original size:25 final size:25
Alignment explanation
Indices: 52892407--52892471 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
52892397 GGCTCTTATG
* **
52892407 AGCTTCCCGTTATATAGC-CTGGATA
1 AGCTTCCAGTTATATAGCTC-ACATA
*
52892432 AGCTTCTAGTTATATAGCTCACATA
1 AGCTTCCAGTTATATAGCTCACATA
*
52892457 AGCTTCCTGTTATAT
1 AGCTTCCAGTTATAT
52892472 GGCTTGAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (25 bp):
AGCTTCCAGTTATATAGCTCACATA
Found at i:52895535 original size:10 final size:10
Alignment explanation
Indices: 52895462--52895537 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
52895452 CCAAATTTAA
52895462 AAAAAT-TA-
1 AAAAATATAT
52895470 AAAAATATAT
1 AAAAATATAT
* *
52895480 GAAAATACAT
1 AAAAATATAT
*
52895490 AAATAT-TAT
1 AAAAATATAT
*
52895499 ACAACATATAAT
1 A-AAAATAT-AT
*
52895511 AATAAAT-TTT
1 AA-AAATATAT
52895521 AAAAATATAT
1 AAAAATATAT
52895531 AAAAATA
1 AAAAATA
52895538 AAAAGTAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
8 6 0.12
9 9 0.17
10 28 0.54
11 3 0.06
12 6 0.12
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAAATATAT
Found at i:52895774 original size:26 final size:25
Alignment explanation
Indices: 52895739--52895789 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
52895729 GGGAGAGTTT
52895739 TTATTATTATTTAATATTTAATATAA
1 TTATTATTATTTAATA-TTAATATAA
* *
52895765 TTATTTTTATTTATTATTAATATAA
1 TTATTATTATTTAATATTAATATAA
52895790 AAATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTATTATTTAATATTAATATAA
Found at i:52897706 original size:9 final size:10
Alignment explanation
Indices: 52897681--52897705 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52897671 CTTAATTTAC
52897681 TTTTTTATTT
1 TTTTTTATTT
52897691 TTTTTTATTT
1 TTTTTTATTT
52897701 TTTTT
1 TTTTT
52897706 ACAATTACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:52901141 original size:26 final size:26
Alignment explanation
Indices: 52901119--52901172 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
52901109 CCACCAAGTC
52901119 TTGTTCTTTTAAAGTGATTCCAACTA
1 TTGTTCTTTTAAAGTGATTCCAACTA
52901145 TTGTTCTTTTAAAGTGATTCCAACTA
1 TTGTTCTTTTAAAGTGATTCCAACTA
52901171 TT
1 TT
52901173 CTTCCATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (26 bp):
TTGTTCTTTTAAAGTGATTCCAACTA
Found at i:52939421 original size:43 final size:44
Alignment explanation
Indices: 52939373--52939465 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
52939363 TCCTAATTGG
52939373 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
52939416 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
52939460 -AAAATA
1 GAAAATA
52939466 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:52939512 original size:19 final size:18
Alignment explanation
Indices: 52939488--52939527 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
52939478 GAATTAAAAC
52939488 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
52939507 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
52939525 TTA
1 TTA
52939528 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:52942794 original size:79 final size:80
Alignment explanation
Indices: 52942696--52942878 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
52942686 TACTCGTTCA
* *
52942696 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
52942759 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
52942776 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
52942840 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
52942855 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52942879 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:52942878 original size:40 final size:40
Alignment explanation
Indices: 52942677--52942878 Score: 234
Period size: 40 Copynumber: 5.1 Consensus size: 40
52942667 GAATTTAACT
** *
52942677 GGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
52942717 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
52942757 GGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
52942796 GGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
* * *
52942836 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
52942876 GGA
1 GGA
52942879 CATCATTCGA
Statistics
Matches: 139, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:52945737 original size:46 final size:46
Alignment explanation
Indices: 52945687--52945862 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
52945677 TGGTTGAGCA
52945687 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52945733 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
52945778 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52945826 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52945863 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52945843 original size:93 final size:93
Alignment explanation
Indices: 52945684--52945855 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52945674 GGATGGTTGA
* *
52945684 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52945749 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52945777 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52945842 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
52945856 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52953676 original size:79 final size:81
Alignment explanation
Indices: 52953567--52953749 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
52953557 TACTCGTTCA
* *
52953567 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
52953630 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
52953647 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
52953710 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
52953726 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52953750 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:52953749 original size:40 final size:40
Alignment explanation
Indices: 52953546--52953749 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
52953536 CGGAATTTAA
** *
52953546 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52953586 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52953626 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
52953665 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52953705 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52953745 CCGGA
1 CCGGA
52953750 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52958368 original size:43 final size:44
Alignment explanation
Indices: 52958307--52958399 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
52958297 TCCTAATTGG
52958307 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
52958350 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
52958394 -AAAATA
1 GAAAATA
52958400 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:52958446 original size:19 final size:18
Alignment explanation
Indices: 52958422--52958461 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
52958412 GAATTAAAAC
52958422 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
52958441 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
52958459 TTA
1 TTA
52958462 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:52960233 original size:8 final size:8
Alignment explanation
Indices: 52960220--52960248 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
52960210 GTTAGTTATT
52960220 TTATTTTA
1 TTATTTTA
52960228 TTATTTTA
1 TTATTTTA
52960236 TTATTTTA
1 TTATTTTA
52960244 TTATT
1 TTATT
52960249 ATTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTTTA
Found at i:52960258 original size:16 final size:16
Alignment explanation
Indices: 52960221--52960258 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52960211 TTAGTTATTT
*
52960221 TATTTTATTATTTTAT
1 TATTTTATTATTTTAA
52960237 TATTTTATTATTATTAA
1 TATTTTATTATT-TTAA
52960254 T-TTTT
1 TATTTT
52960259 GTTGTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTATTATTTTAA
Found at i:52971398 original size:46 final size:45
Alignment explanation
Indices: 52971348--52971522 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
52971338 TGGTTGAGCA
*
52971348 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAACG
* * * * * *
52971394 TCCGAGCTCGTTGAGTTGAGTCCGGGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAA--A--CG
* *
52971441 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTACGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAACG
* *
52971487 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTAGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
52971523 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 6 0.06
46 57 0.55
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAAACG
Found at i:52979277 original size:33 final size:33
Alignment explanation
Indices: 52979239--52979309 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
52979229 TATTAGTAAT
* *
52979239 TATTATTTACTTAT-AATAT-AAGTAAATATATTA
1 TATTA-TTA-TTATAAATATAAAATAAATAAATTA
52979272 TATTATTATTATAAATATAAAATAAATAAATTA
1 TATTATTATTATAAATATAAAATAAATAAATTA
*
52979305 AATTA
1 TATTA
52979310 ATACAATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 4 0.12
32 8 0.24
33 21 0.64
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (33 bp):
TATTATTATTATAAATATAAAATAAATAAATTA
Found at i:52979430 original size:5 final size:5
Alignment explanation
Indices: 52979420--52979446 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
52979410 AATAAATAAA
52979420 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
52979447 GTTTAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:52979567 original size:16 final size:17
Alignment explanation
Indices: 52979531--52979567 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
52979521 GGGGAAGGAA
52979531 AGAAAGAAATAAAAAGG
1 AGAAAGAAATAAAAAGG
*
52979548 -GAAAGAAA-AAGAAGG
1 AGAAAGAAATAAAAAGG
52979563 AGAAA
1 AGAAA
52979568 TTAGGGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (17 bp):
AGAAAGAAATAAAAAGG
Found at i:52981137 original size:15 final size:15
Alignment explanation
Indices: 52981117--52981145 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52981107 ATGCCTCACA
52981117 CAACGTGTTATCAAT
1 CAACGTGTTATCAAT
52981132 CAACGTGTTATCAA
1 CAACGTGTTATCAA
52981146 GCAATAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (15 bp):
CAACGTGTTATCAAT
Found at i:52988998 original size:15 final size:15
Alignment explanation
Indices: 52988924--52988996 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
52988914 GAGATGACAT
*
52988924 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
*
52988939 GAAGTCC-AGAATAAA
1 GAAATCCAAG-ATAAA
*
52988954 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
* *
52988969 GTAATCCAAGATACA
1 GAAATCCAAGATAAA
52988984 GAAATCCAAGATA
1 GAAATCCAAGATA
52988997 CAATATCATA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
14 2 0.04
15 45 0.92
16 2 0.04
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:52997224 original size:27 final size:27
Alignment explanation
Indices: 52997173--52997495 Score: 159
Period size: 27 Copynumber: 11.9 Consensus size: 27
52997163 AATACTTTAG
* * ** *
52997173 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* *
52997200 TTTATAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* **** *
52997227 TTTACAGAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * *
52997254 TTTACAGAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
*
52997281 TTTACAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
52997307 GTTTGTAAAATTACCAAAATACCACT-GG
1 -TTTACAAAATTACCAAAATACC-CTCGA
*** ** *
52997335 TTTGTGAAATTACTGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
52997362 TTTGTAAAATTATCAAAATACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTC-GA
* * *
52997389 TTTACAAAATTACAAAAATACCTTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * * *
52997416 CTTTCAAAAAATTA-TAGAAATACCATTGG
1 -TTT-ACAAAATTACCA-AAATACCCTCGA
* * *
52997445 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
** * *
52997472 TTTGTAAATTTACCAAAACACCCT
1 TTTACAAAATTACCAAAATACCCT
52997496 TGTAAGATGA
Statistics
Matches: 230, Mismatches: 56, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.01
27 199 0.87
28 10 0.04
29 18 0.08
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:52997303 original size:54 final size:52
Alignment explanation
Indices: 52997245--52997470 Score: 177
Period size: 54 Copynumber: 4.2 Consensus size: 52
52997235 ATTACCGTTT
* *
52997245 TACCCTTGATTTACAGAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTA-AAAATTA-TAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * *** *
52997299 TACCCCT-AGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACTGAAA
1 TACCCTTGA-TTT-AAAAATTA-TAAAATACC-CTTGGTTTACAAAATTACTAAAA
** * * * *
52997353 TACCCTCAATTTGTAAAATTATCAAAATACCCCTGATTTACAAAATTACAAAAA
1 TACCCTTGATTT-AAAAATTAT-AAAATACCCTTGGTTTACAAAATTACTAAAA
* *
52997407 TACCTTTGACTTTCAAAAAATTATAGAAATACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGA-TTT--AAAAATTATA-AAATACCCTTGGTTTACAAAATTACTAAAA
52997463 TACCCTTG
1 TACCCTTG
52997471 GTTTGTAAAT
Statistics
Matches: 135, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
53 2 0.01
54 86 0.64
55 6 0.04
56 41 0.30
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (52 bp):
TACCCTTGATTTAAAAATTATAAAATACCCTTGGTTTACAAAATTACTAAAA
Found at i:52997577 original size:27 final size:27
Alignment explanation
Indices: 52997515--52997577 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
52997505 AAATGACTAA
52997515 AATACCCCTAATAGGTAAAAAGACCGT
1 AATACCCCTAATAGGTAAAAAGACCGT
* **
52997542 AA-AGTCCCT-ATAGGGTAAAGTGACCGT
1 AATA-CCCCTAATA-GGTAAAAAGACCGT
52997569 AATACCCCT
1 AATACCCCT
52997578 GTATCGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
26 4 0.14
27 24 0.83
28 1 0.03
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (27 bp):
AATACCCCTAATAGGTAAAAAGACCGT
Found at i:52998473 original size:23 final size:24
Alignment explanation
Indices: 52998398--52998479 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
52998388 GAAGAAGTGC
* *
52998398 CAAAAGGGCTATG-CCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
52998421 CGAAAAGGGCTTTGCCCTAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
52998446 CAAAAGGGCTTTTCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
52998469 TAAAAGAGGCT
1 CAAAAG-GGCT
52998480 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 10 0.20
24 31 0.62
25 9 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:52998735 original size:31 final size:31
Alignment explanation
Indices: 52998686--52998768 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
52998676 CGCTTACAGT
*
52998686 AAAGGCTTC-GACCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
52998716 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
52998747 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
52998769 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 14 0.28
31 36 0.72
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:53005441 original size:43 final size:43
Alignment explanation
Indices: 53005375--53005533 Score: 193
Period size: 43 Copynumber: 3.7 Consensus size: 43
53005365 AGCTCATATA
*
53005375 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
*
53005418 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
*
53005460 ATGCCAACGTCCCAGACGTGGTCTTATACGTAA--AACATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAA-AT-A-TCG
* *
53005504 ATGCCAATGTCCCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
53005534 ATAACACACA
Statistics
Matches: 101, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 30 0.30
43 37 0.37
44 29 0.29
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:53013511 original size:27 final size:27
Alignment explanation
Indices: 53013481--53013534 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
53013471 ATCACCAAAA
*
53013481 TACCCCTCTAAGGTAAAATGACT-ATTT
1 TACCCCTCGAAGGT-AAATGACTGATTT
*
53013508 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTCGAAGGTAAATGACTGATTT
53013535 GTGCTACGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (27 bp):
TACCCCTCGAAGGTAAATGACTGATTT
Found at i:53013706 original size:25 final size:25
Alignment explanation
Indices: 53013678--53013747 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 25
53013668 CTAATACTTG
*
53013678 CAGCTTTGCTGCGTTACTGTACTGA
1 CAGCTTTGCTGCGATACTGTACTGA
* * * *
53013703 CAGCCTTGCTGCGATATTATTACTGG
1 CAGCTTTGCTGCGATACT-GTACTGA
*
53013729 CAACTTTGCTGCGATACTG
1 CAGCTTTGCTGCGATACTG
53013748 GTGTGTTGGT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (25 bp):
CAGCTTTGCTGCGATACTGTACTGA
Found at i:53017003 original size:53 final size:53
Alignment explanation
Indices: 53016923--53017107 Score: 196
Period size: 55 Copynumber: 3.4 Consensus size: 53
53016913 CATGTCTCAA
* *
53016923 CATGGTCTTACATGGTTTCCTTGCCTTATG-AACTCACCAATTCCATTCCTTGG
1 CATGGTCTTACATGG-TACCTTGCCTTATGAAACTTACCAATTCCATTCCTTGG
* * * * *
53016976 CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATTTCATGT-CTTGA
1 CATGGTCTTACATGGTACC-TTGCCTTAT-GAAACTTACCAATTCCAT-TCCTTGG
* *
53017031 CATGGTCTTACATGATATCCTTGCCTTA-GAAACTTTACCAATTTCCATGCCTTGG
1 CATGGTCTTACATGGTA-CCTTGCCTTATGAAAC-TTACCAA-TTCCATTCCTTGG
53017086 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTA-CCTT
53017108 AAACCCTAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 7 0.06
55 70 0.64
56 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (53 bp):
CATGGTCTTACATGGTACCTTGCCTTATGAAACTTACCAATTCCATTCCTTGG
Found at i:53017043 original size:55 final size:53
Alignment explanation
Indices: 53016900--53017107 Score: 190
Period size: 55 Copynumber: 3.8 Consensus size: 53
53016890 ATACTTCTGA
* ** *
53016900 AACTTACC-ATTGCCATGTCTCAACATGGTCTTACATGGTTTCCTTGCCTTAT-G
1 AACTTACCAATT-TCATGTCTTGACATGGTCTTACATGG-TACCTTGCCTTATAG
* * * *
53016953 AACTCACCAATTCCAT-TCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATTTCATGT-CTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * *
53017007 TAACTTATCAATTTCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA-
1 -AACTTACCAATTTCATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* *
53017061 AACTTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AAC-TTACCAATTT-CATGTCTTGACATGGTCTTACATGGTA-CCTT
53017108 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
52 3 0.02
53 40 0.31
54 13 0.10
55 70 0.54
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (53 bp):
AACTTACCAATTTCATGTCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:53031156 original size:29 final size:29
Alignment explanation
Indices: 53031124--53031281 Score: 187
Period size: 29 Copynumber: 5.4 Consensus size: 29
53031114 GGCTAATGAT
53031124 TATGAAAAGGGATGGTGACGACCATCGAA
1 TATGAAAAGGGATGGTGACGACCATCGAA
* *
53031153 TATGAAAATGGATGGTGACAACCATCGAA
1 TATGAAAAGGGATGGTGACGACCATCGAA
* * * *
53031182 TATGAAAAGGGATAGCT-TCAACTATC-AA
1 TATGAAAAGGGAT-GGTGACGACCATCGAA
* *
53031210 TTATGAAAAAGGATAGTGACGACCATC-AA
1 -TATGAAAAGGGATGGTGACGACCATCGAA
*
53031239 TTATGAAAAGGGATGATGACGACCATCGAA
1 -TATGAAAAGGGATGGTGACGACCATCGAA
53031269 TATGAAAAGGGAT
1 TATGAAAAGGGAT
53031282 AGCCTTGGCT
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.03
29 103 0.94
30 4 0.04
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCGAA
Found at i:53031300 original size:87 final size:87
Alignment explanation
Indices: 53031096--53031305 Score: 280
Period size: 87 Copynumber: 2.4 Consensus size: 87
53031086 TCATCAACTA
* * * * *
53031096 ATGAAAAGAGACAGCTTCGGCTAATGATTATGAAAAGGGATGGTGACGACCATCGAATATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAAGGATAGTGACGACCATCGAATATGAAAA
* *
53031161 TGGATGGTGACAACCATCGAAT
66 GGGATGATGACAACCATCGAAT
** **
53031183 ATGAAAAGGGATAGCTTCAACTATCAATTATGAAAAAGGATAGTGACGACCATC-AATTATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAAGGATAGTGACGACCATCGAA-TATGAAA
*
53031247 AGGGATGATGACGACCATCGAAT
65 AGGGATGATGACAACCATCGAAT
53031270 ATGAAAAGGGATAGCCTT-GGCTATTGATTATGAAAA
1 ATGAAAAGGGATAG-CTTCGGCTATTGATTATGAAAA
53031306 GCTATTGCTT
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
86 2 0.02
87 100 0.95
88 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (87 bp):
ATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAAGGATAGTGACGACCATCGAATATGAAAA
GGGATGATGACAACCATCGAAT
Found at i:53031301 original size:29 final size:29
Alignment explanation
Indices: 53031182--53031339 Score: 90
Period size: 29 Copynumber: 5.4 Consensus size: 29
53031172 AACCATCGAA
**
53031182 TATGAAAAGGGATAG-CTTCAACTATCAAT
1 TATGAAAAGGGATAGCCTT-GGCTATCAAT
* **** * *
53031211 TATGAAAAAGGATAGTGACGACCATCAAT
1 TATGAAAAGGGATAGCCTTGGCTATCAAT
* * *
53031240 TATGAAAAGGGATGATGAC--GACCATCGAA-
1 TATGAAAAGGGAT-A-GCCTTGGCTATC-AAT
**
53031269 TATGAAAAGGGATAGCCTTGGCTATTGAT
1 TATGAAAAGGGATAGCCTTGGCTATCAAT
** * *
53031298 TATGAAAAGCTATTGCTTTGGCTATCAAT
1 TATGAAAAGGGATAGCCTTGGCTATCAAT
53031327 TATGAAAAGGGAT
1 TATGAAAAGGGAT
53031340 GGGAATGATC
Statistics
Matches: 100, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 92 0.92
30 3 0.03
31 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.27
Consensus pattern (29 bp):
TATGAAAAGGGATAGCCTTGGCTATCAAT
Done.