Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 111 of 373
Found at i:36543891 original size:10 final size:10
Alignment explanation
Indices: 36543872--36543913 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
36543862 GCAATTAATT
36543872 AATTTT-AAA
1 AATTTTAAAA
36543881 AATTTTAAAA
1 AATTTTAAAA
*
36543891 AATTATAAAA
1 AATTTTAAAA
* *
36543901 AGTATTAAAA
1 AATTTTAAAA
36543911 AAT
1 AAT
36543914 ATAAATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 6 0.22
10 21 0.78
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:36543925 original size:19 final size:20
Alignment explanation
Indices: 36543872--36543918 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
36543862 GCAATTAATT
* *
36543872 AATTTTAAAAA-TTTTAAAA
1 AATTATAAAAAGTATTAAAA
36543891 AATTATAAAAAGTATTAAAA
1 AATTATAAAAAGTATTAAAA
36543911 AA-TATAAA
1 AATTATAAA
36543919 TATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AATTATAAAAAGTATTAAAA
Found at i:36544558 original size:18 final size:17
Alignment explanation
Indices: 36544529--36544568 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
36544519 GTTAGCAATT
36544529 AGTTAATTTTTTAAAAA
1 AGTTAATTTTTTAAAAA
*
36544546 AGTTAATTTTTTTAAAA
1 AGTTAATTTTTTAAAAA
*
36544563 TGTTAA
1 AGTTAA
36544569 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
AGTTAATTTTTTAAAAA
Found at i:36544613 original size:18 final size:17
Alignment explanation
Indices: 36544555--36544614 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
36544545 AAGTTAATTT
*
36544555 TTTTAAAATGTTAAAAA
1 TTTTAAAATATTAAAAA
36544572 TTTTAAAA-ATTCAATAAA
1 TTTTAAAATATT-AA-AAA
*
36544590 TTTTAAAATATTTAAAA
1 TTTTAAAATATTAAAAA
36544607 TTGTTAAA
1 TT-TTAAA
36544615 TAAGTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 2 0.05
17 15 0.41
18 17 0.46
19 3 0.08
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTTAAAATATTAAAAA
Found at i:36544624 original size:35 final size:34
Alignment explanation
Indices: 36544555--36544624 Score: 79
Period size: 35 Copynumber: 2.0 Consensus size: 34
36544545 AAGTTAATTT
* *
36544555 TTTTAAAATGTTAAAAATTTTAAAAATTCAATAAA
1 TTTTAAAATATTAAAAATTTTAAAAAGT-AATAAA
*
36544590 TTTTAAAATATTTAAAATTGTTAAATAAGT-ATAAA
1 TTTTAAAATATTAAAAATT-TTAAA-AAGTAATAAA
36544625 AATATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
35 22 0.73
36 5 0.17
37 3 0.10
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (34 bp):
TTTTAAAATATTAAAAATTTTAAAAAGTAATAAA
Found at i:36545163 original size:18 final size:18
Alignment explanation
Indices: 36545140--36545175 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
36545130 TTCAGGATAT
36545140 CTTTTTATAAT-TTTTAAA
1 CTTTTT-TAATATTTTAAA
36545158 CTTTTTTAATATTTTAAA
1 CTTTTTTAATATTTTAAA
36545176 AATTTGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
CTTTTTTAATATTTTAAA
Found at i:36546396 original size:27 final size:26
Alignment explanation
Indices: 36546315--36546406 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 26
36546305 AATTATATAA
* *
36546315 ATTATAAAATTATTAAAATTGCAAAAAAT
1 ATTAAAAAATTAT-AAAAATG--AAAAAT
* *
36546344 ATTAAAAATTTATTAAAATGACAAAAT
1 ATTAAAAAATTATAAAAATGA-AAAAT
36546371 ATTAAATAAATTATGAAAAAT-AAAAAT
1 ATTAAA-AAATTAT-AAAAATGAAAAAT
36546398 A-TAAAAAAT
1 ATTAAAAAAT
36546407 ATTTATAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
25 4 0.07
26 5 0.09
27 17 0.31
28 12 0.22
29 16 0.30
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
ATTAAAAAATTATAAAAATGAAAAAT
Found at i:36546492 original size:10 final size:11
Alignment explanation
Indices: 36546468--36546499 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
36546458 TATGAAATAC
36546468 AAAAATTATAT
1 AAAAATTATAT
36546479 AAAAATTATA-
1 AAAAATTATAT
36546489 AAAAATT-TAT
1 AAAAATTATAT
36546499 A
1 A
36546500 TGCTTCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 8 0.40
11 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:36546799 original size:19 final size:18
Alignment explanation
Indices: 36546750--36546799 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
36546740 TCATAATATA
*
36546750 TTGTAA-ATTTTATTAAT
1 TTGTAATATTTTAATAAT
36546767 TTGTAATATTTTAATAAT
1 TTGTAATATTTTAATAAT
36546785 TT-TATATACTTTTAA
1 TTGTA-ATA-TTTTAA
36546800 ATTTTTCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.28
18 15 0.52
19 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
TTGTAATATTTTAATAAT
Found at i:36546847 original size:16 final size:17
Alignment explanation
Indices: 36546826--36546857 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
36546816 TACAATTTTT
36546826 ATTTCTTTTT-TAATTC
1 ATTTCTTTTTATAATTC
36546842 ATTTCTTTTTATAATT
1 ATTTCTTTTTATAATT
36546858 ATATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTCTTTTTATAATTC
Found at i:36546898 original size:30 final size:30
Alignment explanation
Indices: 36546847--36546905 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
36546837 AATTCATTTC
*
36546847 TTTTTATAATTATATAATTTTTAAATTTTA
1 TTTTAATAATTATATAATTTTTAAATTTTA
*
36546877 TTTTAATAATTTTA-AATTTTTTAAATTTT
1 TTTTAATAATTATATAA-TTTTTAAATTTT
36546906 TAGTATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTAATAATTATATAATTTTTAAATTTTA
Found at i:36546948 original size:17 final size:20
Alignment explanation
Indices: 36546900--36546943 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
36546890 AAATTTTTTA
36546900 AATTTTTAG-TATTTAATAT
1 AATTTTTAGTTATTTAATAT
36546919 AATTTTTAGTTATTT-ATAT
1 AATTTTTAGTTATTTAATAT
36546938 -ATTTTT
1 AATTTTT
36546944 TTTATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
AATTTTTAGTTATTTAATAT
Found at i:36546953 original size:20 final size:20
Alignment explanation
Indices: 36546931--36546974 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
36546921 TTTTTAGTTA
*
36546931 TTTATATATTTTTTTTATAAT
1 TTTATATA-TCTTTTTATAAT
*
36546952 TTTCTATATCTTTTTATAAT
1 TTTATATATCTTTTTATAAT
36546972 TTT
1 TTT
36546975 TTTTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATATATCTTTTTATAAT
Found at i:36547008 original size:18 final size:18
Alignment explanation
Indices: 36546961--36547011 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
36546951 TTTTCTATAT
* *
36546961 CTTTTTATAATTTTTTTTA
1 CTTTTTA-AATATTTTGTA
36546980 CTTTTCT--ATATTTTGTA
1 CTTTT-TAAATATTTTGTA
36546997 CTTTTTAAATATTTT
1 CTTTTTAAATATTTT
36547012 ATATAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 13 0.48
18 7 0.26
19 5 0.19
20 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.69
Consensus pattern (18 bp):
CTTTTTAAATATTTTGTA
Found at i:36547714 original size:19 final size:19
Alignment explanation
Indices: 36547687--36547738 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
36547677 CAAAAAGATT
*
36547687 ATAAGAAATATTTAAAAAA
1 ATAAAAAATATTTAAAAAA
* **
36547706 ATAAAAAATAATTAAAATT
1 ATAAAAAATATTTAAAAAA
36547725 ATAATAAAATATTT
1 ATAA-AAAATATTT
36547739 TTTAATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
ATAAAAAATATTTAAAAAA
Found at i:36548504 original size:16 final size:17
Alignment explanation
Indices: 36548475--36548507 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36548465 AATATAAATT
*
36548475 AATTTAGATGATATTTA
1 AATTTAGATAATATTTA
36548492 AATTTAG-TAATATTTA
1 AATTTAGATAATATTTA
36548508 TAATATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
AATTTAGATAATATTTA
Found at i:36552537 original size:6 final size:6
Alignment explanation
Indices: 36552517--36552555 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
36552507 TCTTACTTTA
* *
36552517 CCCATTC CCCATC CTCATC CTCATC CCCATC CCCATC CC
1 CCCA-TC CCCATC CCCATC CCCATC CCCATC CCCATC CC
36552556 TTCTCATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.15, C:0.62, G:0.00, T:0.23
Consensus pattern (6 bp):
CCCATC
Found at i:36557149 original size:25 final size:27
Alignment explanation
Indices: 36557092--36557150 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
36557082 ATGAATTTGA
* *
36557092 TAAAAATAGAAAATAAATATTATATTT
1 TAAAAATAGAAAACAAATAATATATTT
36557119 TAAAAAT-GAAAACAAA-AATATATTT
1 TAAAAATAGAAAACAAATAATATATTT
*
36557144 TCAAAAT
1 TAAAAAT
36557151 TCAAATAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.48
26 8 0.28
27 7 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
TAAAAATAGAAAACAAATAATATATTT
Found at i:36562189 original size:68 final size:69
Alignment explanation
Indices: 36562098--36562233 Score: 195
Period size: 68 Copynumber: 2.0 Consensus size: 69
36562088 TTTTAATAAA
* * *
36562098 TTTAATATTAAATTAAATTTAATACTTATTTTAAT-AGTATGT-TATTAATTTAATATTAAAGTG
1 TTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTAT-TATATTAATTTAATATTAAAGCG
36562161 ATTAT
65 ATTAT
* * *
36562166 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGCGA
1 TTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGCGA
36562231 TTA
66 TTA
36562234 AGATTAAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 31 0.52
69 29 0.48
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (69 bp):
TTTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGCGA
TTAT
Found at i:36563118 original size:23 final size:21
Alignment explanation
Indices: 36563082--36563125 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
36563072 TAACAACTAT
36563082 GAAACTAAATAAAACCATAAA
1 GAAACTAAATAAAACCATAAA
*
36563103 GAAACATAAACTAAAACCCTAAA
1 GAAAC-TAAA-TAAAACCATAAA
36563126 ACTATAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.14
Consensus pattern (21 bp):
GAAACTAAATAAAACCATAAA
Found at i:36567115 original size:92 final size:92
Alignment explanation
Indices: 36567004--36567173 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
36566994 GCCCATAAGT
* *
36567004 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36567069 CGAGCTCGGATGCCTAGTTCATCTCTC
66 CGAGCTCGGATGCCTAGTTCATCTCTC
*
36567096 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
36567161 CGAGTTCGGATGC
66 CGAGCTCGGATGC
36567174 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTCATCTCTC
Found at i:36567170 original size:46 final size:46
Alignment explanation
Indices: 36566996--36567170 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
36566986 TGTAACCCGC
*
36566996 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
36567042 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A-T
* *** *
36567087 TCATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
36567134 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
36567171 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 5 0.05
46 90 0.82
47 5 0.05
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:36569039 original size:52 final size:51
Alignment explanation
Indices: 36568923--36569041 Score: 143
Period size: 50 Copynumber: 2.3 Consensus size: 51
36568913 TTAATAAAGT
* *
36568923 CATGCATTATGTAACT-CTCATGTTAGTTAAGTTTGCACCATAAATTATGA
1 CATGCATTATGTAACTCCTCATGTTAGTTAAATTTGCACCATAAATTAAGA
* * * *
36568973 TATACATTATGTAACTCCT-ATGTTAGTTAAAATTTGCATCATTAAATTAAGC
1 CATGCATTATGTAACTCCTCATGTTAGTT-AAATTTGCACCA-TAAATTAAGA
*
36569025 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
36569042 ATTTGTTCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 23 0.40
51 12 0.21
52 22 0.39
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (51 bp):
CATGCATTATGTAACTCCTCATGTTAGTTAAATTTGCACCATAAATTAAGA
Found at i:36572063 original size:40 final size:40
Alignment explanation
Indices: 36572018--36572242 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
36572008 CTTGCACAAG
* * * *
36572018 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
36572058 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGAACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
36572098 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* ** *
36572138 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCCCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * * *
36572178 GCCTTCGGATCTTAGTCCGGTTATAGTCACCAAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* *
36572219 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
36572243 CATTCGAATA
Statistics
Matches: 153, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 125 0.82
41 27 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:36580241 original size:40 final size:40
Alignment explanation
Indices: 36580195--36580419 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
36580185 CTTGCACAAG
* * * *
36580195 GCCTTCGGGTTTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36580235 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
36580275 GCCTTCGGGTTTTAGCCCGGATATAATCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
36580315 GCCTTTGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
36580355 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
36580396 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
36580420 CATTCGAATA
Statistics
Matches: 155, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 28 0.18
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:36580290 original size:80 final size:80
Alignment explanation
Indices: 36580159--36580419 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
36580149 CTCAAGTAAT
* * * * * * *
36580159 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTTTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAGT
*
36580222 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* *
36580237 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAG
36580301 TCACTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * * *
36580317 CTTTGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAGT
*
36580382 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
*
36580398 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
36580420 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 96 0.62
81 31 0.20
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:36580380 original size:120 final size:120
Alignment explanation
Indices: 36580159--36580419 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 120
36580149 CTCAAGTAAT
* * * *
36580159 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTTTTAGCCCGGATGTGGTC
1 CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTC
* * *
36580223 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
* * *
36580277 CTTCGGGTTTTAGCCCGGATATAA-TCACTAGCACAAATGCCTTTGGGTCTTAGCCCGGATATAG
1 CTTCGGGATTTAGCCCGGATATAACT-ACTAGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATAG
* * * *
36580341 -CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
64 TC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCACAAAAGC
* *
36580398 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGATTTAGCCCGGATAT
36580420 CATTCGAATA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 13 0.11
119 21 0.17
120 55 0.46
121 31 0.26
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (120 bp):
CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
Found at i:36582672 original size:10 final size:10
Alignment explanation
Indices: 36582645--36582704 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
36582635 TTAAATTCTA
36582645 AAAGATAAAT
1 AAAGATAAAT
36582655 ACAA-ATAAAT
1 A-AAGATAAAT
* *
36582665 AAGGATAATT
1 AAAGATAAAT
*
36582675 AAAGATAATT
1 AAAGATAAAT
36582685 AAAGATAAAT
1 AAAGATAAAT
36582695 AGAA-ATAAAT
1 A-AAGATAAAT
36582705 CCTAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 1 0.02
10 38 0.88
11 4 0.09
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:36582754 original size:14 final size:13
Alignment explanation
Indices: 36582718--36582755 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
36582708 AAATTTAAAT
36582718 CTAAATAATTATC
1 CTAAATAATTATC
*
36582731 CTTAATAATTATC
1 CTAAATAATTATC
36582744 CTAATATAATTA
1 CTAA-ATAATTA
36582756 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:36583526 original size:96 final size:97
Alignment explanation
Indices: 36583361--36583537 Score: 275
Period size: 96 Copynumber: 1.8 Consensus size: 97
36583351 ATTTAATTTA
* * *
36583361 TTTATTTTCACTTAGGAATATATTGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCCCA
1 TTTATTTTCACTTAAGAACATATCGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCCCA
* *
36583426 CCCCGGTTACTTAGCCCAACATTCTCCTAATT
66 CCCCGATTACTCAGCCCAACATTCTCCTAATT
* * *
36583458 TTTATTTT-TCTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCAGCCCA
1 TTTATTTTCACTTAAGAACATATCGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCCCA
36583522 CCCCGATTACTCAGCC
66 CCCCGATTACTCAGCC
36583538 TAAAATATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 64 0.89
97 8 0.11
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (97 bp):
TTTATTTTCACTTAAGAACATATCGAACCTTTTGACGCGAAGAAAGATGACAGCCAAGCACCCCA
CCCCGATTACTCAGCCCAACATTCTCCTAATT
Found at i:36586212 original size:5 final size:5
Alignment explanation
Indices: 36586202--36586280 Score: 112
Period size: 5 Copynumber: 16.4 Consensus size: 5
36586192 TTATCAACAT
36586202 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-A AATAA AAT-A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
*
36586250 AAT-A AATAA AATAA AAT-T AATAAA AATAA AA
1 AATAA AATAA AATAA AATAA AAT-AA AATAA AA
36586281 ATTGGGTTGC
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
4 15 0.22
5 50 0.74
6 3 0.04
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:36592102 original size:20 final size:19
Alignment explanation
Indices: 36592076--36592135 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
36592066 TTAAATTCTA
36592076 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
* * *
36592096 AAGGATAATTAAACATAATT
1 AAAGATAAATAAA-ATAAAT
36592116 AAAGATAAATAGAAATAAAT
1 AAAGATAAATA-AAATAAAT
36592136 CCTAAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:36592103 original size:10 final size:10
Alignment explanation
Indices: 36592076--36592135 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
36592066 TTAAATTCTA
36592076 AAAGATAAAT
1 AAAGATAAAT
36592086 ACAA-ATAAAT
1 A-AAGATAAAT
* *
36592096 AAGGATAATT
1 AAAGATAAAT
* *
36592106 AAACATAATT
1 AAAGATAAAT
36592116 AAAGATAAAT
1 AAAGATAAAT
36592126 AGAA-ATAAAT
1 A-AAGATAAAT
36592136 CCTAAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 36 0.88
11 4 0.10
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:36594043 original size:13 final size:14
Alignment explanation
Indices: 36594012--36594043 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
36594002 ACAATATGTT
36594012 AGAAATTTCGTATA
1 AGAAATTTCGTATA
36594026 A-AAATTTCGT-TA
1 AGAAATTTCGTATA
36594038 AGAAAT
1 AGAAAT
36594044 CTTTTCGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (14 bp):
AGAAATTTCGTATA
Found at i:36601075 original size:23 final size:23
Alignment explanation
Indices: 36601045--36601093 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
36601035 AGGCAAACCC
36601045 AATTCTCCTGATTCGACCCGTAG
1 AATTCTCCTGATTCGACCCGTAG
36601068 AATTCTCCTGATTCGACCCGTAG
1 AATTCTCCTGATTCGACCCGTAG
36601091 AAT
1 AAT
36601094 CTTACCATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (23 bp):
AATTCTCCTGATTCGACCCGTAG
Found at i:36606372 original size:46 final size:47
Alignment explanation
Indices: 36606189--36606372 Score: 146
Period size: 46 Copynumber: 3.9 Consensus size: 47
36606179 TCATTTGTGT
* * * * *
36606189 GCTAGTGTAAGACATGTCTGGGACATGCACCGGCCAC-ATTATG-AGA
1 GCTAGTGTAAGACATGTCTAGTACATGCATCGGCCTCGA-GATGTAGA
* * * * * * * *
36606235 GCCATTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAGATG-AGA
1 GCTAGTGTAAGA-CATGTCTAGTACAT-GCATCGGCCTCGAGATGTAGA
*
36606283 GCTAGTGTAAGACATGTCTAGTACATGCATCGGCCTCGCGATGTA-A
1 GCTAGTGTAAGACATGTCTAGTACATGCATCGGCCTCGAGATGTAGA
*
36606329 GCTAGTGTAAGACATGTCTGAG-ATATGCATCGG-CTACGAGATGT
1 GCTAGTGTAAGACATGTCT-AGTACATGCATCGGCCT-CGAGATGT
36606373 GTCAATGTAA
Statistics
Matches: 112, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 60 0.54
47 27 0.24
48 22 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTAGTACATGCATCGGCCTCGAGATGTAGA
Found at i:36607260 original size:30 final size:31
Alignment explanation
Indices: 36607208--36607289 Score: 134
Period size: 30 Copynumber: 2.7 Consensus size: 31
36607198 TCAGTCTCGA
36607208 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
36607238 CATATCACTGGGCCGAAG-CTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
36607268 CATATCACT-GGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
36607290 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
29 7 0.14
30 30 0.61
31 12 0.24
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:36607523 original size:24 final size:24
Alignment explanation
Indices: 36607496--36607579 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
36607486 CTGGAGGCCT
* *
36607496 AGCCTCTTTTAAT-AATTGGGTCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
36607520 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
36607545 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAA
36607570 AGCCCTTTTA
1 AGCCCTTTTA
36607580 GCACTTCCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.16
25 39 0.76
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:36607545 original size:25 final size:25
Alignment explanation
Indices: 36607512--36607578 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
36607502 TTTTAATAAT
*
36607512 TGGGTCAAAGCCC-TTTCTGATAAAC
1 TGGGGCAAAGCCCTTTTC-GATAAAC
*
36607537 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
36607562 TGGGGCAGAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
36607579 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 34 0.89
26 4 0.11
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:36608578 original size:56 final size:54
Alignment explanation
Indices: 36608504--36608695 Score: 208
Period size: 54 Copynumber: 3.5 Consensus size: 54
36608494 TTGGTAAATC
* * *
36608504 TACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTTGGTAATTTTGTAAACCAGTGGTATTTCTATAA-TTT
* * * *
36608559 TAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTT-TGATAATTT
1 TACAAA-TCAAGGGTATTTTGGTAATTTTGTAAACCAGTGGTATTTCT-ATAATTT
* * ** * *
36608614 TACAAATTAAGGGTATTTCGGTAATTTTACAAACTAGTGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTGTAAACCAGTGGTATTTCTATAATTT
*
36608668 TACAAA-CTAGGGGTATTTTGGTAATTTT
1 TACAAATC-AAGGGTATTTTGGTAATTTT
36608696 ACAAGCTAGG
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
54 62 0.54
55 14 0.12
56 38 0.33
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTTGGTAATTTTGTAAACCAGTGGTATTTCTATAATTT
Found at i:36608642 original size:27 final size:27
Alignment explanation
Indices: 36608485--36608720 Score: 181
Period size: 27 Copynumber: 8.7 Consensus size: 27
36608475 TTCATCCTAC
* * * *
36608485 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** *
36608512 AAGGGTATTTTAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
36608539 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
* **
36608567 CAAGGGTATTTTTGTAATTTTGTAAA-T
1 -AAGGGTATTTTGGTAATTTTACAAACT
* * *
36608594 CAGGGGTATTTTGATAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
*
36608622 AAGGGTATTTCGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
36608649 -AGTGGTATTTCGATAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
36608676 AGGGGTATTTTGGTAATTTTACAAGCT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
36608703 AGGGGTATTATGGTAATT
1 AAGGGTATTTTGGTAATT
36608721 CTATCCTATA
Statistics
Matches: 171, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 139 0.81
28 18 0.11
29 12 0.07
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:36608733 original size:54 final size:54
Alignment explanation
Indices: 36608595--36608753 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 54
36608585 TTTGTAAATC
* * * *
36608595 AGGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTCTACAAACTAGGGGTATTTCGGTAATTTTACAAACT
* * * *
36608649 AGTGGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTCGATAATTCTACAAACTAGGGGTATTTCGGTAATTTTACAAACT
* ** * *
36608703 AGGGGTATTAT-GGTAATTCTATCCTA-TAGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATT-TCGATAATTCTA-CAAACTAGGGGTATTTCGGTAATTTTACAA
36608754 TCGAGGGTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 86 0.97
55 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTCGATAATTCTACAAACTAGGGGTATTTCGGTAATTTTACAAACT
Found at i:36608737 original size:81 final size:81
Alignment explanation
Indices: 36608595--36608753 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 81
36608585 TTTGTAAATC
* * *
36608595 AGGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACTAGTGGTATTTC
1 AGGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTC
*
36608660 -GATAATTTTACAAACT
66 AG-TAATTTCACAAACT
* * * **
36608676 AGGGGTATTTTGGTAATTTTACAAGCTAGGGGTATTAT-GGTAATTCTATCCTA-TAGGGGTATT
1 AGGGGTATTTTGATAATTTTACAAACTAAGGGTATT-TCGGTAATTCTA-CAAACTAGGGGTATT
36608739 TCAGTAATTTCACAA
64 TCAGTAATTTCACAA
36608754 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
81 62 0.94
82 4 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTC
AGTAATTTCACAAACT
Found at i:36608786 original size:27 final size:27
Alignment explanation
Indices: 36608752--36608895 Score: 164
Period size: 27 Copynumber: 5.3 Consensus size: 27
36608742 GTAATTTCAC
36608752 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**
36608779 AA-CTGAGGGTAAAATAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
36608806 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * * *
36608833 AATTGAGAGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
36608860 AATCGAAGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
36608887 AATCGAGGG
1 AATCGAGGG
36608896 CATTTCAGTA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 97 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:36614957 original size:22 final size:21
Alignment explanation
Indices: 36614917--36614957 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36614907 TATACGGTAT
*
36614917 ATTTATCTTTTAAATTCATAA
1 ATTTATATTTTAAATTCATAA
*
36614938 ATTTATATTTCTATATTCAT
1 ATTTATATTT-TAAATTCAT
36614958 TTAACACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATATTTTAAATTCATAA
Found at i:36625182 original size:44 final size:44
Alignment explanation
Indices: 36625127--36625218 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
36625117 CCGATGTAAC
* * *
36625127 AGTAGCAGTACGACACACATGGTGTCTCATCAACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCAACTC-AAGGTCGA
** *
36625171 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAGGTCGA
36625215 AGTA
1 AGTA
36625219 TCCCTAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAGGTCGA
Found at i:36626246 original size:13 final size:13
Alignment explanation
Indices: 36626228--36626252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36626218 CTAATTTCCC
36626228 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
36626241 TTTCTTTCTTTC
1 TTTCTTTCTTTC
36626253 CTTCTTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:36626249 original size:17 final size:17
Alignment explanation
Indices: 36626227--36626263 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
36626217 CCTAATTTCC
*
36626227 CTTTCTTTCTTTCTTTT
1 CTTTCTTTCCTTCTTTT
36626244 CTTTCTTTCCTTCTTTT
1 CTTTCTTTCCTTCTTTT
36626261 CTT
1 CTT
36626264 CTCTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
CTTTCTTTCCTTCTTTT
Found at i:36626264 original size:8 final size:9
Alignment explanation
Indices: 36626227--36626312 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
36626217 CCTAATTTCC
36626227 CTTTC-TTT
1 CTTTCTTTT
36626235 CTTTCTTTT
1 CTTTCTTTT
36626244 CTTTC-TTT
1 CTTTCTTTT
*
36626252 CCTTCTTTT
1 CTTTCTTTT
*
36626261 CTTCTCTATT
1 CTT-TCTTTT
* *
36626271 -TTTGTTTCA
1 CTTTCTTT-T
*
36626280 CATTCTATTT
1 CTTTCT-TTT
*
36626290 CTTTTCTATT
1 C-TTTCTTTT
*
36626300 CTTTCATTT
1 CTTTCTTTT
36626309 CTTT
1 CTTT
36626313 TATTCTTTTG
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
8 15 0.26
9 25 0.43
10 12 0.21
11 6 0.10
ACGTcount: A:0.07, C:0.23, G:0.01, T:0.69
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:36626387 original size:18 final size:17
Alignment explanation
Indices: 36626361--36626400 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
36626351 ATAATATATA
*
36626361 TATTACTTAAATATTAAT
1 TATTTCTTAAATATT-AT
*
36626379 TATTTCTTAATTATTAT
1 TATTTCTTAAATATTAT
36626396 TATTT
1 TATTT
36626401 ACATATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTCTTAAATATTAT
Found at i:36626590 original size:28 final size:30
Alignment explanation
Indices: 36626523--36626591 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 30
36626513 TTATTTTATG
36626523 TTTA-TAATAATATTATAATAATATAATATA
1 TTTACTAAT-ATATTATAATAATATAATATA
36626553 TTTACT--TATATTATAAGTAA-ATAATA-A
1 TTTACTAATATATTATAA-TAATATAATATA
36626580 -TTACTAATATAT
1 TTTACTAATATAT
36626592 GTATTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 5 0.14
27 1 0.03
28 20 0.57
29 4 0.11
30 4 0.11
31 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTACTAATATATTATAATAATATAATATA
Found at i:36626807 original size:13 final size:14
Alignment explanation
Indices: 36626789--36626817 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36626779 AATCAACTTC
36626789 ATAAATATTT-CAA
1 ATAAATATTTACAA
36626802 ATAAATATTTACAA
1 ATAAATATTTACAA
36626816 AT
1 AT
36626818 CCATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATATTTACAA
Found at i:36629419 original size:21 final size:21
Alignment explanation
Indices: 36629348--36629420 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
36629338 AATCATATAA
*
36629348 GTTTCAG-TTAACCCTTACGG
1 GTTTCAGTTTAACCCTTTCGG
* * *
36629368 GTTTCAATTTAACTCTTAT-GA
1 GTTTCAGTTTAACCCTT-TCGG
* *
36629389 GCTTCTGTTTAACCCTTTCGG
1 GTTTCAGTTTAACCCTTTCGG
*
36629410 GTTTCCGTTTA
1 GTTTCAGTTTA
36629421 GCACTTATGT
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
20 7 0.18
21 32 0.82
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTTCGG
Found at i:36629428 original size:42 final size:42
Alignment explanation
Indices: 36629355--36629435 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
36629345 TAAGTTTCAG
*
36629355 TTAACCCTTACGGGTTTCAATTTAACTCTTATGAGCTTCTGT
1 TTAACCCTTACGGGTTTCAATTTAACACTTATGAGCTTCTGT
* ** * *
36629397 TTAACCCTTTCGGGTTTCCGTTTAGCACTTATGTGCTTC
1 TTAACCCTTACGGGTTTCAATTTAACACTTATGAGCTTC
36629436 AGTTAGCCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (42 bp):
TTAACCCTTACGGGTTTCAATTTAACACTTATGAGCTTCTGT
Found at i:36637188 original size:45 final size:45
Alignment explanation
Indices: 36637138--36637248 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
36637128 ATGTTCCGAC
*
36637138 TACTGTTACTGTTACTGTTACCAATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCAATTCAACACTTTGTGTGTCGAA
* * *
36637183 TACTGTTACTGTTA-TCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACT-GTTACCAATTCAACACTTTGTGTGTCGAA
36637228 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
36637249 TGTTACTGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 1 0.02
45 57 0.97
46 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCAATTCAACACTTTGTGTGTCGAA
Found at i:36637239 original size:6 final size:6
Alignment explanation
Indices: 36637228--36637264 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
36637218 GTGTGTTGAA
36637228 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT T
36637265 TCGAATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:36637449 original size:18 final size:18
Alignment explanation
Indices: 36637428--36637600 Score: 136
Period size: 18 Copynumber: 9.6 Consensus size: 18
36637418 TAACTGATTA
36637428 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
36637446 TTACTGGATAATAGACTG
1 TTACTGAATAATTGACTG
* * *
36637464 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
36637482 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
36637500 TTATTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* * *
36637518 TCAATGAATAAATGACTG
1 TTACTGAATAATTGACTG
* *
36637536 TTACTGAATAAATTAATTG
1 TTACTGAAT-AATTGACTG
* *
36637555 CTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
36637572 TTACTAAATAATTGACTG
1 TTACTGAATAATTGACTG
*
36637590 TTACTGGATAA
1 TTACTGAATAA
36637601 CCGATCAATT
Statistics
Matches: 121, Mismatches: 28, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
17 14 0.12
18 92 0.76
19 15 0.12
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:36637689 original size:18 final size:18
Alignment explanation
Indices: 36637416--36637693 Score: 130
Period size: 18 Copynumber: 15.1 Consensus size: 18
36637406 ATAGGTATAA
* *
36637416 AATAACTGATTATTACTG
1 AATAAATGATTGTTACTG
* *
36637434 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
36637452 GAT-AATAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
36637470 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
* ** *
36637488 AATAATTGATCATTATTG
1 AATAAATGATTGTTACTG
* * *
36637506 AATAACTGATTGTCAATG
1 AATAAATGATTGTTACTG
*
36637524 AATAAATGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
36637542 AATAAATTAATTGCTACTG
1 AATAAA-TGATTGTTACTG
** *
36637561 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* *
36637578 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
36637596 GATAACCGATCAATTGATCGATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * *
36637622 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
36637640 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
36637658 AATAAGTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
36637676 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
36637693 A
1 A
36637694 TTGTTAATGA
Statistics
Matches: 193, Mismatches: 55, Indels: 25
0.71 0.20 0.09
Matches are distributed among these distances:
17 18 0.09
18 142 0.74
19 15 0.08
21 2 0.01
22 5 0.03
23 2 0.01
26 9 0.05
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:36641145 original size:18 final size:18
Alignment explanation
Indices: 36641103--36641145 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36641093 GCCCATTCCG
*
36641103 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
36641121 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
36641139 AAGTATG
1 AAGTATG
36641146 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:36641668 original size:27 final size:28
Alignment explanation
Indices: 36641584--36641681 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
36641574 CATGAGATTG
* * * *
36641584 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
36641613 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
36641641 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
36641668 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
36641682 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:36641692 original size:27 final size:27
Alignment explanation
Indices: 36641612--36641694 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
36641602 TAAATTGTAC
* *
36641612 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
36641640 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
36641667 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
36641694 A
1 A
36641695 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:36641695 original size:29 final size:27
Alignment explanation
Indices: 36641584--36641695 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
36641574 CATGAGATTG
** * *
36641584 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
36641613 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
36641641 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
36641668 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
36641696 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:36648419 original size:37 final size:37
Alignment explanation
Indices: 36648369--36648447 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
36648359 TTATTACGAA
* *
36648369 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCGG
*
36648406 GTCTTACCCGGACAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
36648443 GTCTT
1 GTCTT
36648448 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
Found at i:36648644 original size:47 final size:47
Alignment explanation
Indices: 36648566--36648913 Score: 570
Period size: 47 Copynumber: 7.4 Consensus size: 47
36648556 CCCTTCGGGA
* * * * * * *
36648566 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36648613 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36648660 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36648707 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36648754 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36648801 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36648848 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36648895 CTTATCACATATATACACT
1 CTTATCACATATATACACT
36648914 GTCTTGGCGG
Statistics
Matches: 283, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 283 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36652511 original size:40 final size:40
Alignment explanation
Indices: 36652467--36652605 Score: 224
Period size: 40 Copynumber: 3.5 Consensus size: 40
36652457 TCTTCGAGGT
* * * *
36652467 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
36652507 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
36652547 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGGC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
36652587 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
36652606 CTCAATTCTC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:36654473 original size:37 final size:37
Alignment explanation
Indices: 36654423--36654501 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
36654413 TTATTACGAA
* *
36654423 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
36654460 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
36654497 GTCTT
1 GTCTT
36654502 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:36654698 original size:47 final size:47
Alignment explanation
Indices: 36654620--36655063 Score: 728
Period size: 47 Copynumber: 9.4 Consensus size: 47
36654610 CCCTTCGGGA
* * * * *
36654620 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
36654667 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36654714 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36654761 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36654808 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36654855 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36654902 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36654951 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36654998 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36655045 CTTATCACATATATACACT
1 CTTATCACATATATACACT
36655064 GTCTTGGCTG
Statistics
Matches: 374, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 2 0.01
47 328 0.88
49 44 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36655033 original size:237 final size:235
Alignment explanation
Indices: 36654620--36655063 Score: 773
Period size: 237 Copynumber: 1.9 Consensus size: 235
36654610 CCCTTCGGGA
** * * *
36654620 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTTGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATTGGCCACTTGGCCCTATCACATATATACAC
36654685 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
36654750 GGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
36654815 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
36654855 CTTATCACACATATACACTTTCACATTCATCACATTGGCCA-TTAGGCCTTATCACATATATATA
1 CTTATCACACATATACACTTTCACATCCATCACATTGGCCACTT-GGCCCTATCAC--ATATATA
*
36654919 CACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCAC
63 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
36654984 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
128 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
36655049 TCACATATATACACT
193 TCACATATATACACT
36655064 GTCTTGGCTG
Statistics
Matches: 197, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
234 2 0.01
235 45 0.23
237 150 0.76
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (235 bp):
CTTATCACACATATACACTTTCACATCCATCACATTGGCCACTTGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:36661644 original size:50 final size:50
Alignment explanation
Indices: 36661564--36661666 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 50
36661554 ACCATGGTAG
* * *
36661564 TATGTGTGATCCCATATAAGACCATGTCTGGGACATGGCATTAGCATCGA
1 TATGTGCGATCCCATATAAGACCATATCTGGGACATGGCATCAGCATCGA
* * *
36661614 TATGTGCGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGA
1 TATGTGCGATCCCATATAAGACCATATCTGGGACATGGCATCAGCATCGA
36661664 TAT
1 TAT
36661667 ATAATATCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (50 bp):
TATGTGCGATCCCATATAAGACCATATCTGGGACATGGCATCAGCATCGA
Found at i:36661829 original size:47 final size:48
Alignment explanation
Indices: 36661717--36661844 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 48
36661707 ATGAGATCCT
* *
36661717 GTATAAGACCA-TGTCTGGGACATGGCATCAGCATCATTATGAGGCCTC
1 GTATAAGACCAGT-TCTAGGACATGGCATCGGCATCATTATGAGGCCTC
* * *
36661765 GTATAAGACCACG-TCTAGGACCTGGCATCGGCGTC-TTATGAGGTCTC
1 GTATAAGACCA-GTTCTAGGACATGGCATCGGCATCATTATGAGGCCTC
*
36661812 GTATAAGA-CAGTATCTAGGATATGGCATCGGCA
1 GTATAAGACCAGT-TCTAGGACATGGCATCGGCA
36661845 CCAAGTTGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 2 0.03
47 36 0.53
48 29 0.43
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (48 bp):
GTATAAGACCAGTTCTAGGACATGGCATCGGCATCATTATGAGGCCTC
Found at i:36661903 original size:48 final size:48
Alignment explanation
Indices: 36661571--36661903 Score: 206
Period size: 48 Copynumber: 7.0 Consensus size: 48
36661561 TAGTATGTGT
* ** *
36661571 GATCCCATATAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTGC
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATA--TGA
* *
36661621 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATAT-A
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
* ** * * * ** *
36661668 TAATATC-AAGTAATACCATATCT---A-A-GATAT-GGCATTGATATGA
1 -GATCCCGTA-TAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
* *
36661711 GATCCTGTATAAGACCATGTCTGGGACATGGCATCAGCATC-ATTATGA
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGA-TATGA
* * * * * *
36661759 G-GCCTCGTATAAGACCACGTCTAGGACCTGGCATCGGCGTC-TTATGA
1 GATCC-CGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
* * * * * * *
36661806 GGTCTCGTATAAGA-CAGTATCTAGGATATGGCATCGGCACCAAGT-TGA
1 GATCCCGTATAAGACCA-TGTCTGGGACATGGCATCGGCATCGA-TATGA
* * *
36661854 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
36661902 GA
1 GA
36661904 CATTGTGTAA
Statistics
Matches: 213, Mismatches: 52, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
42 23 0.11
43 5 0.02
44 1 0.00
45 2 0.01
46 3 0.01
47 41 0.19
48 95 0.45
49 3 0.01
50 40 0.19
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
GATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGA
Found at i:36662854 original size:23 final size:23
Alignment explanation
Indices: 36662828--36662873 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36662818 AAATCTTCAG
36662828 GAATTTATTATCTTCGTGTGAGT
1 GAATTTATTATCTTCGTGTGAGT
36662851 GAATTTATTATCTTCGTGTGAGT
1 GAATTTATTATCTTCGTGTGAGT
36662874 TATACTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.48
Consensus pattern (23 bp):
GAATTTATTATCTTCGTGTGAGT
Found at i:36674864 original size:26 final size:26
Alignment explanation
Indices: 36674835--36674890 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
36674825 TGTATATATA
*
36674835 AAAAAGTATAATGAAAGAAAA-ATCTT
1 AAAAAGGATAAT-AAAGAAAATATCTT
* * *
36674861 AAAATGGATAATAAATAAAATATTTT
1 AAAAAGGATAATAAAGAAAATATCTT
36674887 AAAA
1 AAAA
36674891 TAAATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (26 bp):
AAAAAGGATAATAAAGAAAATATCTT
Found at i:36674891 original size:26 final size:26
Alignment explanation
Indices: 36674842--36674891 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
36674832 ATAAAAAAGT
36674842 ATAATGAAAGAAAAATCTTAAAATGG
1 ATAATGAAAGAAAAATCTTAAAATGG
* *
36674868 ATAAT-AAATAAAATATTTTAAAAT
1 ATAATGAAAGAAAA-ATCTTAAAAT
36674892 AAATAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (26 bp):
ATAATGAAAGAAAAATCTTAAAATGG
Found at i:36674897 original size:26 final size:26
Alignment explanation
Indices: 36674842--36674897 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
36674832 ATAAAAAAGT
**
36674842 ATAATGAAAGAAAAATCTTAAAATGG
1 ATAATGAAAGAAAAATCTTAAAATAA
* *
36674868 ATAAT-AAATAAAATATTTTAAAATAA
1 ATAATGAAAGAAAA-ATCTTAAAATAA
36674894 ATAA
1 ATAA
36674898 ATAGAGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (26 bp):
ATAATGAAAGAAAAATCTTAAAATAA
Found at i:36674911 original size:19 final size:19
Alignment explanation
Indices: 36674870--36674909 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36674860 TAAAATGGAT
* *
36674870 AATAAATAAAATATTTTAA
1 AATAAATAAAAGAGTTTAA
36674889 AATAAATAAATAGAGTTTAA
1 AATAAATAAA-AGAGTTTAA
36674909 A
1 A
36674910 TATATATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AATAAATAAAAGAGTTTAA
Found at i:36674980 original size:16 final size:16
Alignment explanation
Indices: 36674944--36674981 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36674934 ACAATTTGAA
36674944 ATAAAATATAAATAGT
1 ATAAAATATAAATAGT
*
36674960 TTAAAATATATAATA-T
1 ATAAAATATA-AATAGT
36674976 ATAAAA
1 ATAAAA
36674982 GGAAATCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
ATAAAATATAAATAGT
Found at i:36682475 original size:17 final size:18
Alignment explanation
Indices: 36682437--36682476 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
36682427 TTGTAATTAA
*
36682437 AATTAAGTTGAGAAAATT
1 AATTTAGTTGAGAAAATT
36682455 -ATTTAGTTGAG-AAATT
1 AATTTAGTTGAGAAAATT
36682471 AATTTA
1 AATTTA
36682477 ATTAATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (18 bp):
AATTTAGTTGAGAAAATT
Found at i:36697020 original size:93 final size:96
Alignment explanation
Indices: 36696923--36697142 Score: 295
Period size: 98 Copynumber: 2.3 Consensus size: 96
36696913 ATAACAAGCT
* * ** * *
36696923 AGTGTAAGACCTGTCTGGGACATGGCGTC-AGCT-TAT-TG-TGTGTCAGTGTAAGACCTGTCTA
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTATATATGAAAT-TCAATGTAAGACCTATCTA
*
36696984 GGACATGGCATCGACACCGATAGATGAGGGCC
65 GGACATGGCATCGACACCAATAGATGAGGGCC
*
36697016 AGTGTAAGACCTGTCTGGGACTTGGCATCAACCTCGATATATGAAATTCAATGTAAGACCTATCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCT--ATATATGAAATTCAATGTAAGACCTATCT
*
36697081 GGGACATGGCATCGACACCAATAGATGAGGGCC
64 AGGACATGGCATCGACACCAATAGATGAGGGCC
*
36697114 AGTGTAAGACCTGTCTGGGACACGGCATC
1 AGTGTAAGACCTGTCTGGGACATGGCATC
36697143 GACTTTAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
93 27 0.25
94 3 0.03
97 3 0.03
98 76 0.69
99 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACCTATATATGAAATTCAATGTAAGACCTATCTAG
GACATGGCATCGACACCAATAGATGAGGGCC
Found at i:36697026 original size:49 final size:49
Alignment explanation
Indices: 36696966--36697145 Score: 236
Period size: 49 Copynumber: 3.7 Consensus size: 49
36696956 TATTGTGTGT
*
36696966 CAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGGGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGGGC
* * * ****
36697015 CAGTGTAAGACCTGTCTGGGACTTGGCATCAAC-CTCGATATATGAAATT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGGGC
* * *
36697064 CAATGTAAGACCTATCTGGGACATGGCATCGACACCAATAGATGAGGGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGGGC
*
36697113 CAGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
36697146 TTTAATATAC
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.01
49 106 0.98
50 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGGGC
Found at i:36701121 original size:28 final size:28
Alignment explanation
Indices: 36701089--36701146 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
36701079 AATATTTGCC
* *
36701089 TATTTAAAAGAAGGCTTTTTATTGTACT
1 TATTTAAAAGAAAGCTTTTGATTGTACT
**
36701117 TATTTAGTAGAAAGCTTTTGATTGTACT
1 TATTTAAAAGAAAGCTTTTGATTGTACT
36701145 TA
1 TA
36701147 GTTCAAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.47
Consensus pattern (28 bp):
TATTTAAAAGAAAGCTTTTGATTGTACT
Found at i:36702408 original size:30 final size:30
Alignment explanation
Indices: 36702364--36702426 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
36702354 TCTTAACAAG
36702364 CAAATGCCTATAAAATAATAACAAAATTAA
1 CAAATGCCTATAAAATAATAACAAAATTAA
* * *
36702394 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTATAAAATAATAACAAAATTAA
36702424 CAA
1 CAA
36702427 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTATAAAATAATAACAAAATTAA
Found at i:36702433 original size:17 final size:17
Alignment explanation
Indices: 36702403--36702435 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36702393 ACAAATGTCT
36702403 TTAAAATAATAATAAAA
1 TTAAAATAATAATAAAA
36702420 TTAACAATAA-AATAAA
1 TTAA-AATAATAATAAA
36702436 TTTTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAATAATAATAAAA
Found at i:36703681 original size:26 final size:27
Alignment explanation
Indices: 36703651--36703714 Score: 96
Period size: 26 Copynumber: 2.4 Consensus size: 27
36703641 GTTATTGGTA
36703651 ATATATTTGAATTAT-TAAATTATTTT
1 ATATATTTGAATTATGTAAATTATTTT
*
36703677 ATATATTTGAATTATGTTAATTATTTT
1 ATATATTTGAATTATGTAAATTATTTT
*
36703704 TTAT-TTTGAAT
1 ATATATTTGAAT
36703715 AATATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (27 bp):
ATATATTTGAATTATGTAAATTATTTT
Found at i:36704620 original size:51 final size:51
Alignment explanation
Indices: 36704548--36704680 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
36704538 CAATCAAATC
* * *
36704548 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
36704599 TGTAATTTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
36704650 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
36704681 CATGTTTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:36709788 original size:17 final size:17
Alignment explanation
Indices: 36709766--36709850 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 17
36709756 AATATAAAAT
36709766 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
36709783 CATATCTTATCTAAGA-TA
1 CATATC-T-TCTAAGATTA
* * *
36709801 TATAATCTTATAA-AATA
1 CAT-ATCTTCTAAGATTA
* *
36709818 -ATATCTTATAAAATTA
1 CATATCTTCTAAGATTA
36709834 CATATCATATCTAAGAT
1 CATATC-T-TCTAAGAT
36709851 CTCTAAGATT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
15 9 0.16
16 6 0.11
17 17 0.31
18 7 0.13
19 16 0.29
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.40
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:36709797 original size:19 final size:19
Alignment explanation
Indices: 36709773--36709850 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
36709763 AATCATATCT
36709773 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
*
36709792 TCTAAGA-TATATAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
36709811 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
* *
36709826 --TAAAATTACATATCATA
1 TCTAAGATTACATATCTTA
36709843 TCTAAGAT
1 TCTAAGAT
36709851 CTCTAAGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 12 0.24
18 4 0.08
19 18 0.37
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:36709813 original size:51 final size:51
Alignment explanation
Indices: 36709752--36709882 Score: 172
Period size: 51 Copynumber: 2.6 Consensus size: 51
36709742 ATCAAATCTC
* * *
36709752 TAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATATA
1 TAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATA
** * * * *
36709803 TAATCTTATAAAATAATATCTTATAAAATTACATATCATATCTAAGATCTC
1 TAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATA
*
36709854 TAAGATTATAAAATCATATCTTTTAAGAT
1 TAAGATTATAAAATCATATCTTATAAGAT
36709883 CATGTTTCCA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (51 bp):
TAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATATA
Found at i:36709825 original size:15 final size:16
Alignment explanation
Indices: 36709758--36709839 Score: 69
Period size: 17 Copynumber: 4.9 Consensus size: 16
36709748 TCTCTAAGAA
36709758 TATAAAAT-CATATCT
1 TATAAAATACATATCT
* *
36709773 TCTAAGATTACATATCT
1 TATAA-AATACATATCT
* *
36709790 TATCTAAGATATATAATCT
1 TA--TAAAATACAT-ATCT
36709809 TATAAAATA-ATATCT
1 TATAAAATACATATCT
36709824 TATAAAATTACATATC
1 TATAAAA-TACATATC
36709840 ATATCTAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
15 15 0.28
16 6 0.11
17 19 0.36
18 4 0.08
19 9 0.17
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (16 bp):
TATAAAATACATATCT
Found at i:36711856 original size:42 final size:42
Alignment explanation
Indices: 36711793--36711955 Score: 161
Period size: 42 Copynumber: 3.9 Consensus size: 42
36711783 TAAGGTTATC
36711793 GAGACTAT-GTGTAAGACCATATCTGGGATATGGCATC-AGTAT
1 GAGACT-TCGTGTAAGACCATATCTGGGATATGGCATCGA-TAT
* * *
36711835 GAGACTTCGTGTAAGATCATATTTGGGATGTGGCATCGATAT
1 GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
* * * * * * *
36711877 GAGATTTCGTGTAAGACTATAGCTGGGCTATTAGCATCGAAAC
1 GAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
* *
36711920 GAGA-TCCTATGTAAGACCATATCTGGGATATGGCAT
1 GAGACTTC-GTGTAAGACCATATCTGGGATATGGCAT
36711956 TGGTGTGGTA
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 65 0.66
43 32 0.33
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
Found at i:36725422 original size:35 final size:35
Alignment explanation
Indices: 36725321--36725621 Score: 408
Period size: 35 Copynumber: 8.6 Consensus size: 35
36725311 TCCTTATTGA
* * *
36725321 AATACCATATCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
** **
36725356 AATGTCATACCTACG-TTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
36725390 AATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
36725425 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
36725460 AATACCATACCTACGTTTCATAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
36725495 GATACCATACCTACGTTGCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
36725530 GATACCATACCTACGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
36725565 AACACCATACTTACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
36725600 GATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
36725622 CTTTGCCATA
Statistics
Matches: 232, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
33 3 0.01
34 25 0.11
35 204 0.88
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:36725518 original size:105 final size:105
Alignment explanation
Indices: 36725322--36725621 Score: 467
Period size: 105 Copynumber: 2.9 Consensus size: 105
36725312 CCTTATTGAA
* * ** ** *
36725322 ATACCATATCTACATTTCACAACTCGGTATGGGAAATGTCATACCTACG-TTCTTAACTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
* *
36725386 GGATAATACCATACCTACGTTTCACAACTCGGTATGGATG
66 GGATGATACCATACCTACGTTTCACAACTCAGTATGGATG
*
36725426 ATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
*
36725491 GGATGATACCATACCTACGTTGCACAACTCAGTATGGATG
66 GGATGATACCATACCTACGTTTCACAACTCAGTATGGATG
* * *
36725531 ATACCATACCTACGTTTCACAACTCGGTATGGTTAACACCATACTTACGTTTCACAACTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
36725596 GGATGATACCATACCTACGTTTCACA
66 GGATGATACCATACCTACGTTTCACA
36725622 CTTTGCCATA
Statistics
Matches: 179, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
104 42 0.23
105 137 0.77
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (105 bp):
ATACCATACCTACGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCATAACTCAGTAT
GGATGATACCATACCTACGTTTCACAACTCAGTATGGATG
Found at i:36728536 original size:20 final size:20
Alignment explanation
Indices: 36728511--36728554 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
36728501 TAAATAAAAA
36728511 AAATGAGTATAATATA-TGTT
1 AAATGAGTATAATA-AGTGTT
36728531 AAATGAGTATAATAAGTGTT
1 AAATGAGTATAATAAGTGTT
36728551 AAAT
1 AAAT
36728555 TAGTGTGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (20 bp):
AAATGAGTATAATAAGTGTT
Found at i:36732881 original size:3 final size:3
Alignment explanation
Indices: 36732875--36732980 Score: 51
Period size: 3 Copynumber: 35.0 Consensus size: 3
36732865 ATATATAAAT
* * *** *
36732875 TTA TTA TTA TTA TTA TTA TT- TGTT TTA TTT TTA ACC TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* *
36732920 -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA ATA TT- TATA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA
36732964 TTA TTTA TTA TATA TTA
1 TTA -TTA TTA T-TA TTA
36732981 CTTTTCACAA
Statistics
Matches: 77, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
2 8 0.10
3 56 0.73
4 13 0.17
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:36732930 original size:7 final size:7
Alignment explanation
Indices: 36732918--36732980 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 7
36732908 ACCTTATTTT
36732918 TATATTA
1 TATATTA
36732925 TATATTA
1 TATATTA
36732932 TATAATTA
1 TAT-ATTA
36732940 T-T-TTA
1 TATATTA
*
36732945 TTATATAA
1 -TATATTA
36732953 TAT-TTA
1 TATATTA
36732959 TATTATTA
1 TA-TATTA
*
36732967 TTTATTA
1 TATATTA
36732974 TATATTA
1 TATATTA
36732981 CTTTTCACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
5 3 0.07
6 5 0.11
7 27 0.59
8 11 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATATTA
Found at i:36732946 original size:23 final size:26
Alignment explanation
Indices: 36732911--36732980 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
36732901 ATTTTTAACC
*
36732911 TTATTTTTATATTATATATTATATA-A
1 TTATTATT-TATTATATATTATATATA
* *
36732937 TTA-T-TTTATTATATAATATTTATA
1 TTATTATTTATTATATATTATATATA
36732961 TTATTATTTATTATATATTA
1 TTATTATTTATTATATATTA
36732981 CTTTTCACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 14 0.37
24 6 0.16
25 2 0.05
26 16 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTATTTATTATATATTATATATA
Found at i:36732948 original size:16 final size:16
Alignment explanation
Indices: 36732919--36732964 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
36732909 CCTTATTTTT
36732919 ATATTATATATTATATA
1 ATATT-TATATTATATA
36732936 ATTATTT-TATTATATA
1 A-TATTTATATTATATA
36732952 ATATTTATATTAT
1 ATATTTATATTAT
36732965 TATTTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 16 0.59
17 2 0.07
18 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTTATATTATATA
Found at i:36733002 original size:58 final size:56
Alignment explanation
Indices: 36732936--36733093 Score: 150
Period size: 54 Copynumber: 2.9 Consensus size: 56
36732926 ATATTATATA
*
36732936 ATTATTTTATTATATAATATTTATATTATTATTTATTATATATTACTTTTCACAAAAT
1 ATTATTTTATTATATAATATTTATA-TATTATTTATTACATATTACTTTT-ACAAAAT
* * * * * *
36732994 ATTATTTTA-CAT-TATTATTTATATATTA-TTATTACATTTTTACTTGTATAATAT
1 ATTATTTTATTATATAATATTTATATATTATTTATTACA-TATTACTTTTACAAAAT
*
36733048 ATT-TATTAATTATAT-ATA-TTATATATTATTT-TTACATATATACTTT
1 ATTAT-TTTATTATATAATATTTATATATTATTTATTACATAT-TACTTT
36733094 CATATTATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
53 3 0.04
54 38 0.46
55 19 0.23
56 11 0.13
57 2 0.02
58 9 0.11
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (56 bp):
ATTATTTTATTATATAATATTTATATATTATTTATTACATATTACTTTTACAAAAT
Found at i:36733043 original size:25 final size:24
Alignment explanation
Indices: 36732992--36733101 Score: 73
Period size: 25 Copynumber: 4.3 Consensus size: 24
36732982 TTTTCACAAA
*
36732992 ATATTATTTTACATTATTATTTAT
1 ATATTATTTTACATTATTACTTAT
* *
36733016 ATATTATTATTACATTTTTACTTGT
1 ATATTATT-TTACATTATTACTTAT
*
36733041 ATAATATATTTATTA-ATTATATATATTAT
1 AT-AT-TA-TT-TTACATTAT-TA-CTTAT
36733070 ATATTATTTTTACA-TATATACTT-T
1 ATATTA-TTTTACATTAT-TACTTAT
36733094 CATATTAT
1 -ATATTAT
36733102 ATTATAATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
24 10 0.14
25 23 0.32
26 11 0.15
27 12 0.17
28 10 0.14
29 5 0.07
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.58
Consensus pattern (24 bp):
ATATTATTTTACATTATTACTTAT
Found at i:36733070 original size:54 final size:51
Alignment explanation
Indices: 36733004--36733128 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 51
36732994 ATTATTTTAC
* *
36733004 ATTATTAT-TTATATATTATTATTACATTTTTACTTGT-ATAATATATTTATTA
1 ATTATTATATTATATATTATTATTACATATATACTT-TCATAATATA-TTA-TA
* *
36733056 ATTATATATATTATATATTATTTTTACATATATACTTTCATATTATATTATA
1 ATTAT-TATATTATATATTATTATTACATATATACTTTCATAATATATTATA
*
36733108 ATTATTTTA-TATTATATTATT
1 ATTATTATATTA-TATATTATT
36733129 TTTATACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
50 2 0.03
51 12 0.19
52 12 0.19
53 7 0.11
54 31 0.48
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (51 bp):
ATTATTATATTATATATTATTATTACATATATACTTTCATAATATATTATA
Found at i:36733105 original size:5 final size:5
Alignment explanation
Indices: 36733095--36733148 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
36733085 ATATACTTTC
* *
36733095 ATATT ATATT ATAATT ATTTT ATATT ATATT AT-TT TTA-T ACTATT ATA-T
1 ATATT ATATT AT-ATT ATATT ATATT ATATT ATATT ATATT A-TATT ATATT
36733144 ATATT
1 ATATT
36733149 TTTATCTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 8 0.20
5 25 0.62
6 7 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:36733127 original size:51 final size:51
Alignment explanation
Indices: 36732992--36733132 Score: 132
Period size: 54 Copynumber: 2.7 Consensus size: 51
36732982 TTTTCACAAA
* * *
36732992 ATATTAT-TT-TACATTATTATT-TA-TATATTATTATTACATTTTTACTTGT
1 ATATTATATTATA-ATTATT-TTATATTATATTATTTTTACATATATACTTGT
* *
36733041 ATAATATATTTATTAATTA-TATATATTATATATTATTTTTACATATATACTT-T
1 ATATTATA-TTA-TAATTATTTTATA-T-TATATTATTTTTACATATATACTTGT
36733094 CATATTATATTATAATTATTTTATATTATATTATTTTTA
1 -ATATTATATTATAATTATTTTATATTATATTATTTTTA
36733133 TACTATTATA
Statistics
Matches: 75, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
49 6 0.08
50 1 0.01
51 18 0.24
52 11 0.15
53 11 0.15
54 28 0.37
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (51 bp):
ATATTATATTATAATTATTTTATATTATATTATTTTTACATATATACTTGT
Found at i:36733133 original size:21 final size:20
Alignment explanation
Indices: 36733095--36733164 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
36733085 ATATACTTTC
**
36733095 ATATTATATTATAATTATTTT
1 ATATTATATTATTTTTA-TTT
36733116 ATATTATATTATTTTTA--T
1 ATATTATATTATTTTTATTT
36733134 ACTATTATATATATTTTTATCTAT
1 A-TATTATAT-TATTTTTAT-T-T
36733158 ATATTAT
1 ATATTAT
36733165 TATCATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 2 0.05
19 8 0.20
20 8 0.20
21 15 0.37
23 6 0.15
24 2 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTATATTATTTTTATTT
Found at i:36733141 original size:19 final size:18
Alignment explanation
Indices: 36733101--36733165 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 18
36733091 TTTCATATTA
36733101 TATTATAATTA-TTTTA--
1 TATTAT-ATTATTTTTATC
36733117 TATTATATTATTTTTATAC
1 TATTATATTATTTTTAT-C
36733136 TATTATATATATTTTTATC
1 TATTATAT-TATTTTTATC
36733155 TA-TATATTATT
1 TATTATATTATT
36733166 ATCATTAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.09
16 11 0.25
17 4 0.09
18 5 0.11
19 11 0.25
20 9 0.20
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTATATTATTTTTATC
Found at i:36733153 original size:26 final size:28
Alignment explanation
Indices: 36733115--36733167 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 28
36733105 ATAATTATTT
* *
36733115 TATATTATATTATTTTTATACTATTATA
1 TATATTATATTATCTATATACTATTATA
*
36733143 TATATT-T-TTATCTATATATTATTAT
1 TATATTATATTATCTATATACTATTAT
36733168 CATTAAAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 15 0.68
27 1 0.05
28 6 0.27
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TATATTATATTATCTATATACTATTATA
Found at i:36733322 original size:21 final size:23
Alignment explanation
Indices: 36733297--36733355 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
36733287 ATCATTAATT
*
36733297 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
36733318 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
36733342 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
36733356 AATATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:36733346 original size:23 final size:22
Alignment explanation
Indices: 36733299--36733375 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 22
36733289 CATTAATTAC
*
36733299 TTATTTTATAT-TATTCTA-AA
1 TTATTTTATATATATTATATAA
36733319 CTTATATTTATATATATTATATAA
1 -TTAT-TTTATATATATTATATAA
*
36733343 TTATTTTAT-TATA-AATATAA
1 TTATTTTATATATATTATATAA
* *
36733363 TTTTTTTACATAT
1 TTATTTTATATAT
36733376 TTGGTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.27
21 11 0.23
22 12 0.25
23 10 0.21
24 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATTTTATATATATTATATAA
Found at i:36733428 original size:18 final size:19
Alignment explanation
Indices: 36733407--36733453 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
36733397 TTCTAAACCA
36733407 ATATATTTTTTATT-TTAT
1 ATATATTTTTTATTCTTAT
* * *
36733425 ATATAATTATTATTCTTTT
1 ATATATTTTTTATTCTTAT
*
36733444 ATAAATTTTT
1 ATATATTTTT
36733454 GTTATTATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATATATTTTTTATTCTTAT
Found at i:36733504 original size:24 final size:25
Alignment explanation
Indices: 36733471--36733517 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
36733461 TATATTATAT
36733471 ATTATATTAAATA-C-TATTTTAAA
1 ATTATATTAAATATCATATTTTAAA
36733494 ATTATTATTAAATATCATATTTTA
1 ATTA-TATTAAATATCATATTTTA
36733518 TTTGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 9 0.43
25 1 0.05
26 7 0.33
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATATTAAATATCATATTTTAAA
Found at i:36746395 original size:79 final size:82
Alignment explanation
Indices: 36746284--36746468 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
36746274 GCTACTCGTT
* * *
36746284 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36746347 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * * **
36746364 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTTGTACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
36746427 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
36746444 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36746469 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:36746468 original size:40 final size:40
Alignment explanation
Indices: 36746265--36746468 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
36746255 CGGAATTTAA
** *
36746265 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
36746305 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36746345 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
36746384 CCGGA-ATTAGTATCTTGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36746424 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36746464 CCGGA
1 CCGGA
36746469 CATCATTCAA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36748833 original size:206 final size:206
Alignment explanation
Indices: 36748415--36748962 Score: 816
Period size: 206 Copynumber: 2.7 Consensus size: 206
36748405 TAGTTGAAGC
* * *
36748415 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAAGAGCAAATCGAAGACATGGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
*
36748480 TTTCACGTGCTTACGTTGAATCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * * * *
36748545 TCGAAGCCTGGCATTCTCCACTTCGATGAAGGGCAGACACGTAGCAAATCCACCCTTCAGATGTT
131 TCGAAGCCTGGCATTCTCCACTTCAAAGAAGAGCAGACACATAACAAATCCACCCTTCAGATATT
* **
36748610 TATACTAAAGT
196 TACACTAAACA
*
36748621 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATTGAAGACATAGTTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
36748686 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * *
36748751 TCGAAGTCTGGCA-TCTCCATTTCAACAG-AGAGCAGACACATAACAGATCTCA-CCTTCAGATA
131 TCGAAGCCTGGCATTCTCCACTTCAA-AGAAGAGCAGACACATAACAAATC-CACCCTTCAGAT-
36748813 ATTT-CACTGAAACA
193 ATTTACACT-AAACA
* * * *
36748827 AGATCCAAGATGATTTGGCATTCTTATGCTTACAAGGAACAAATCGAAGACATAGTTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
* * *
36748892 TTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAA
66 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
36748957 TCGAAG
131 TCGAAG
36748963 AAGCAGATTT
Statistics
Matches: 313, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
205 39 0.12
206 274 0.88
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (206 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGC
TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGCCTGGCATTCTCCACTTCAAAGAAGAGCAGACACATAACAAATCCACCCTTCAGATATT
TACACTAAACA
Found at i:36750707 original size:18 final size:18
Alignment explanation
Indices: 36750656--36750775 Score: 69
Period size: 20 Copynumber: 6.1 Consensus size: 18
36750646 TAACCCTATA
36750656 TATTTATTTCTATTATTAT
1 TATTTATTT-TATTATTAT
* *
36750675 ATATATAAATTTATTATTAT
1 -TAT-TTATTTTATTATTAT
* *
36750695 TATTTGTTTTATTTTTAACCT
1 TATTTATTTTATTATT-A--T
*
36750716 TATTTTTATATTATATATTAT
1 TA--TTTATTTTAT-TATTAT
*
36750737 ATAATTATTTTATTATATAT
1 -TATTTATTTTATTAT-TAT
**
36750757 TATTTATGATATTATTAT
1 TATTTATTTTATTATTAT
36750775 T
1 T
36750776 TATTATATAT
Statistics
Matches: 77, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
18 13 0.17
19 19 0.25
20 23 0.30
21 8 0.10
22 2 0.03
23 9 0.12
24 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTATTTTATTATTAT
Found at i:36750743 original size:15 final size:15
Alignment explanation
Indices: 36750725--36750784 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
36750715 TTATTTTTAT
*
36750725 ATTATATATTATATA
1 ATTATTTATTATATA
36750740 ATTATTTTATTATAT-
1 ATTA-TTTATTATATA
* *
36750755 ATTATTTATGATATT
1 ATTATTTATTATATA
36750770 ATTATTTATTATATA
1 ATTATTTATTATATA
36750785 TTACTTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 9 0.23
15 21 0.54
16 9 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTATTTATTATATA
Found at i:36750832 original size:11 final size:11
Alignment explanation
Indices: 36750816--36750975 Score: 63
Period size: 11 Copynumber: 14.6 Consensus size: 11
36750806 TATTTTACAT
36750816 TATTATTTATA
1 TATTATTTATA
36750827 TATTA-TTATTA
1 TATTATTTA-TA
*
36750838 TATT-TTTACTTG
1 TATTATTTA--TA
* * *
36750850 TATAATATATT
1 TATTATTTATA
*
36750861 TATTAATTATA
1 TATTATTTATA
36750872 TA-TA-TTATA
1 TATTATTTATA
*
36750881 TATTATTTTTACA
1 TATTA--TTTATA
*
36750894 TATATACTTT-CA
1 TAT-TA-TTTATA
36750906 TATTATATTATA
1 TATTAT-TTATA
36750918 -ATTATTT-TA
1 TATTATTTATA
36750927 TATTA--TAT-
1 TATTATTTATA
36750935 TATT-TTTATA
1 TATTATTTATA
*
36750945 CTATTATATATA
1 -TATTATTTATA
* *
36750957 TTTTTATCTATA
1 -TATTATTTATA
36750969 TATTATT
1 TATTATT
36750976 ATCATTAAAG
Statistics
Matches: 114, Mismatches: 17, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
8 5 0.04
9 13 0.11
10 14 0.12
11 42 0.37
12 25 0.22
13 13 0.11
14 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (11 bp):
TATTATTTATA
Found at i:36750834 original size:30 final size:30
Alignment explanation
Indices: 36750716--36750960 Score: 109
Period size: 30 Copynumber: 8.0 Consensus size: 30
36750706 TTTTTAACCT
*
36750716 TATTTTTATATTATATATTATATAATTATTTTA
1 TATTATTAT-TTATATATTAT-T-ATTATTTTA
*
36750749 TTATATATTATTTATGATATTATTATTTATTATA
1 -TAT-TATTATTTAT-ATATTATTA-TTATTTTA
* * *
36750783 TATTACTT-TTCACGA-AATATTATTATTTTA
1 TATTA-TTATTTA-TATATTATTATTATTTTA
* *
36750813 CATTATTATTTATATATTATTATTATATTTT
1 TATTATTATTTATATATTATTATTAT-TTTA
* * * *
36750844 TACTTGTATAATATATTTATTAATTATATATATTA
1 TA--T-TATTATTTATATATT-ATTAT-TATTTTA
* * *
36750879 TA-TATTATTTTTACA-TA-TA-TACTTTCA
1 TATTATTATTTATATATTATTATTA-TTTTA
*
36750906 TATTA-TA-TTATA-ATTATT-TTATATTA
1 TATTATTATTTATATATTATTATTATTTTA
36750932 TATTATT-TTTATACTATTA-TATATATTTT
1 TATTATTATTTATA-TATTATTAT-TATTTT
36750961 TATCTATATA
Statistics
Matches: 159, Mismatches: 28, Indels: 52
0.67 0.12 0.22
Matches are distributed among these distances:
25 1 0.01
26 16 0.10
27 16 0.10
28 5 0.03
29 9 0.06
30 30 0.19
31 18 0.11
32 6 0.04
33 7 0.04
34 27 0.17
35 21 0.13
36 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (30 bp):
TATTATTATTTATATATTATTATTATTTTA
Found at i:36750884 original size:54 final size:51
Alignment explanation
Indices: 36750814--36750938 Score: 130
Period size: 54 Copynumber: 2.4 Consensus size: 51
36750804 ATTATTTTAC
* * *
36750814 ATTATTAT-TTATATATTATTATTATATTTTTACTTGT-ATAATATATTTATTA
1 ATTATTATATTATATATTATTATTACATATATACTT-TCATAATATA-TTA-TA
* *
36750866 ATTATATATATTATATATTATTTTTACATATATACTTTCATATTATATTATA
1 ATTAT-TATATTATATATTATTATTACATATATACTTTCATAATATATTATA
*
36750918 ATTATTTTA-TATTATATTATT
1 ATTATTATATTA-TATATTATT
36750939 TTTATACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
50 2 0.03
51 12 0.19
52 12 0.19
53 7 0.11
54 30 0.48
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (51 bp):
ATTATTATATTATATATTATTATTACATATATACTTTCATAATATATTATA
Found at i:36750915 original size:5 final size:5
Alignment explanation
Indices: 36750905--36750958 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
36750895 ATATACTTTC
* *
36750905 ATATT ATATT ATAATT ATTTT ATATT ATATT AT-TT TTA-T ACTATT ATA-T
1 ATATT ATATT AT-ATT ATATT ATATT ATATT ATATT ATATT A-TATT ATATT
36750954 ATATT
1 ATATT
36750959 TTTATCTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 8 0.20
5 25 0.62
6 7 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:36750943 original size:21 final size:20
Alignment explanation
Indices: 36750905--36750974 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
36750895 ATATACTTTC
**
36750905 ATATTATATTATAATTATTTT
1 ATATTATATTATTTTTA-TTT
36750926 ATATTATATTATTTTTA--T
1 ATATTATATTATTTTTATTT
36750944 ACTATTATATATATTTTTATCTAT
1 A-TATTATAT-TATTTTTAT-T-T
36750968 ATATTAT
1 ATATTAT
36750975 TATCATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 2 0.05
19 8 0.20
20 8 0.20
21 15 0.37
23 6 0.15
24 2 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTATATTATTTTTATTT
Found at i:36751132 original size:21 final size:23
Alignment explanation
Indices: 36751107--36751165 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
36751097 ATCATTAATT
*
36751107 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
36751128 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
36751152 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
36751166 AATATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Done.