Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 210 of 279
Found at i:68546277 original size:81 final size:81
Alignment explanation
Indices: 68546166--68546315 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
68546156 GAAAGTCAAG
* ** *
68546166 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
68546230 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
*
68546247 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
68546311 TAATT
65 TAATT
68546316 CTATCCTACA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 1 0.02
81 59 0.95
82 2 0.03
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:68546332 original size:81 final size:81
Alignment explanation
Indices: 68546165--68546348 Score: 214
Period size: 81 Copynumber: 2.3 Consensus size: 81
68546155 AGAAAGTCAA
* ** *
68546165 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
68546230 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* * *
68546246 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTC
**
68546309 GGTAA-TTCTATCCTA-CAG
64 GGTAATTTC-A-CAAACCAG
*
68546327 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
68546349 TCGAGGGTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
80 4 0.05
81 80 0.91
82 4 0.05
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:68546395 original size:54 final size:53
Alignment explanation
Indices: 68546337--68546468 Score: 135
Period size: 54 Copynumber: 2.4 Consensus size: 53
68546327 GGGTATTTCA
68546337 GTAATTT-CACAATCGAGGGTAAAACGAATAACTT-TGTAAA-CTGAAGGTAAAATG
1 GTAATTTGCA-AATCGAGGGTAAAACG-ATAA-TTCTGTAAATC-GAAGGTAAAATG
* * *
68546391 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAA-TTTGCAAATCGAGGGTAAAACGATAATTCTGTAAATCGAAGGTAAAATG
** *
68546445 GTAATTCTATAAATCGAAGGTAAA
1 GTAATT-TGCAAATCGAGGGTAAA
68546469 GCGGCAATTC
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
53 4 0.06
54 43 0.63
55 20 0.29
56 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (53 bp):
GTAATTTGCAAATCGAGGGTAAAACGATAATTCTGTAAATCGAAGGTAAAATG
Found at i:68546402 original size:27 final size:27
Alignment explanation
Indices: 68546371--68546468 Score: 135
Period size: 27 Copynumber: 3.6 Consensus size: 27
68546361 CGAATAACTT
*
68546371 TGTAAA-CTGAAGGTAAAATGGTAATTT
1 TGTAAATC-GAAGGTAAAATGGTAATTC
* *
68546398 TGTAAATCGAGGGTAAAACGGTAATTC
1 TGTAAATCGAAGGTAAAATGGTAATTC
*
68546425 TGTAAATCGAGGGTAAAATGGTAATTC
1 TGTAAATCGAAGGTAAAATGGTAATTC
*
68546452 TATAAATCGAAGGTAAA
1 TGTAAATCGAAGGTAAA
68546469 GCGGCAATTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 63 0.98
28 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
TGTAAATCGAAGGTAAAATGGTAATTC
Found at i:68546477 original size:27 final size:27
Alignment explanation
Indices: 68546379--68546490 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 27
68546369 TTTGTAAACT
* * *
68546379 GAAGGTAAAATGGTAATTTTGTAAATC
1 GAAGGTAAAACGGTAATTCTATAAATC
* *
68546406 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAAGGTAAAACGGTAATTCTATAAATC
* *
68546433 GAGGGTAAAATGGTAATTCTATAAATC
1 GAAGGTAAAACGGTAATTCTATAAATC
* * *
68546460 GAAGGTAAAGCGGCAATTCTACAAATC
1 GAAGGTAAAACGGTAATTCTATAAATC
68546487 -AAGG
1 GAAGG
68546491 ACATTTCAGT
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 4 0.05
27 71 0.95
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
GAAGGTAAAACGGTAATTCTATAAATC
Found at i:68546486 original size:54 final size:54
Alignment explanation
Indices: 68546382--68546486 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
68546372 GTAAACTGAA
* * * * **
68546382 GGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGCAATTCTACAAATCGAG
*
68546436 GGTAAAATGGTAATTCTATAAATCGAAGGTAAAGCGGCAATTCTACAAATC
1 GGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGCAATTCTACAAATC
68546487 AAGGACATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (54 bp):
GGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGCAATTCTACAAATCGAG
Found at i:68551349 original size:20 final size:20
Alignment explanation
Indices: 68551326--68551365 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68551316 CATAGATTAA
68551326 AAATAAAAATAATTAGATAT
1 AAATAAAAATAATTAGATAT
* * *
68551346 AAATGAATATATTTAGATAT
1 AAATAAAAATAATTAGATAT
68551366 TAAGTAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (20 bp):
AAATAAAAATAATTAGATAT
Found at i:68551876 original size:74 final size:75
Alignment explanation
Indices: 68551751--68551939 Score: 197
Period size: 75 Copynumber: 2.5 Consensus size: 75
68551741 GAAAAATATA
* * * * *
68551751 TAAAA-ATAAAAAAAAATAA-AAAATTAAACATAAATGAATTTATTTGGACATTGAGTAGA-AAT
1 TAAAATATAACAAAAAATAATAAAATTATA-A-AAA--AATATATTTGAACATTAAGTA-ACAAT
68551813 T-AATCACAAATAAT
61 TAAATCACAAATAAT
* ** *
68551827 TAAAATATAACAATAAATTTTAAAATTATTAAAAAATATATTTGAACATTAAGTAACAATTAAAT
1 TAAAATATAACAAAAAATAATAAAATTATAAAAAAATATATTTGAACATTAAGTAACAATTAAAT
68551892 CACAAATAAT
66 CACAAATAAT
* * *
68551902 TTAAATGTAATAAAAAATAATAAAATTATAAAAAAATA
1 TAAAATATAACAAAAAATAATAAAATTATAAAAAAATA
68551940 ATTCTTTTAC
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
73 1 0.01
74 22 0.24
75 44 0.47
76 8 0.09
77 11 0.12
78 7 0.08
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (75 bp):
TAAAATATAACAAAAAATAATAAAATTATAAAAAAATATATTTGAACATTAAGTAACAATTAAAT
CACAAATAAT
Found at i:68557946 original size:26 final size:26
Alignment explanation
Indices: 68557864--68557948 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 26
68557854 TTTATCATAT
68557864 AACTGGAGGCCT-AGCCTCTTTT-AAT-
1 AACTGG-GGCCTAAGCC-CTTTTCAATA
** **
68557889 AACTGGGGCAAAAGCCC-TTTCGGTA
1 AACTGGGGCCTAAGCCCTTTTCAATA
*
68557914 AATTGGGGCCTAAGCCCTTTTCAATA
1 AACTGGGGCCTAAGCCCTTTTCAATA
68557940 AACTGGGGC
1 AACTGGGGC
68557949 AAATACCCAA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
23 3 0.07
24 5 0.11
25 24 0.52
26 14 0.30
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCCTAAGCCCTTTTCAATA
Found at i:68558002 original size:20 final size:20
Alignment explanation
Indices: 68557977--68558055 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
68557967 ATTTATGAAT
*
68557977 ACATCATGTGCATGTCATAC
1 ACATCATGTGCATATCATAC
68557997 ACATCATGTGCATATCATAC
1 ACATCATGTGCATATCATAC
*
68558017 ATATCATGTGCATATCATAC
1 ACATCATGTGCATATCATAC
*
68558037 ATATCATGTGCATATCATA
1 ACATCATGTGCATATCATA
68558056 TCAATATTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (20 bp):
ACATCATGTGCATATCATAC
Found at i:68558013 original size:11 final size:11
Alignment explanation
Indices: 68557999--68558054 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
68557989 TGTCATACAC
68557999 ATCATGTGCAT
1 ATCATGTGCAT
*
68558010 ATCA--TACAT
1 ATCATGTGCAT
68558019 ATCATGTGCAT
1 ATCATGTGCAT
*
68558030 ATCA--TACAT
1 ATCATGTGCAT
68558039 ATCATGTGCAT
1 ATCATGTGCAT
68558050 ATCAT
1 ATCAT
68558055 ATCAATATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:68574158 original size:12 final size:12
Alignment explanation
Indices: 68574141--68574172 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
68574131 GGCCACACAA
68574141 CCATGTGCTAGG
1 CCATGTGCTAGG
*
68574153 CCATGTGGTAGG
1 CCATGTGCTAGG
68574165 CCATGTGC
1 CCATGTGC
68574173 ATGACACGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.25, G:0.34, T:0.25
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:68578622 original size:40 final size:40
Alignment explanation
Indices: 68578574--68578721 Score: 235
Period size: 40 Copynumber: 3.7 Consensus size: 40
68578564 GCTTCTTGCT
68578574 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68578614 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
68578654 CAAATGCCTTCGAGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68578694 CAAATGCCTTCGGG-CTTAGCCTGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
68578722 CAATCCGAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 11 0.11
40 86 0.89
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:68584599 original size:40 final size:40
Alignment explanation
Indices: 68584512--68584729 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
68584502 AAGCCAAGTA
* * *
68584512 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
68584550 CCTTCGGGACATAGACCGGATATAGTAACTCGCATC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-CAAATG
* * *
68584590 CCTTCGGGACTTAGCCCAGATATAGTAGCTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
68584630 CCTTCGGGACTTGGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
68584670 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGGA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
68584711 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
68584730 TTATCATCCA
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 12 0.08
39 18 0.12
40 97 0.63
41 24 0.16
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:68592294 original size:39 final size:39
Alignment explanation
Indices: 68592247--68592332 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 39
68592237 GGGATTTAAT
68592247 CGGATATAGCT-ACT-CACTCAATGCCTTCGGGACATAGCC
1 CGGATATAG-TAACTCCAC-CAATGCCTTCGGGACATAGCC
*
68592286 CGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTC-CACCAATGCCTTCGGGACATAGCC
68592326 CGGATAT
1 CGGATAT
68592333 CATTCGAGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
38 1 0.02
39 12 0.28
40 27 0.63
41 3 0.07
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CGGATATAGTAACTCCACCAATGCCTTCGGGACATAGCC
Found at i:68601012 original size:68 final size:68
Alignment explanation
Indices: 68600903--68601037 Score: 252
Period size: 68 Copynumber: 2.0 Consensus size: 68
68600893 GTACGACCCC
* *
68600903 TAATTATCTCTGGTTAATTTGTAATGAATTTCCAAATTCGGAGTAGGGGATCCAGAAACCGTTCT
1 TAATTATCTCTGGTTAATTTGTAATGAATTTCAAAAGTCGGAGTAGGGGATCCAGAAACCGTTCT
68600968 GGA
66 GGA
68600971 TAATTATCTCTGGTTAATTTGTAATGAATTTCAAAAGTCGGAGTAGGGGATCCAGAAACCGTTCT
1 TAATTATCTCTGGTTAATTTGTAATGAATTTCAAAAGTCGGAGTAGGGGATCCAGAAACCGTTCT
68601036 GG
66 GG
68601038 CCCTGTCCCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (68 bp):
TAATTATCTCTGGTTAATTTGTAATGAATTTCAAAAGTCGGAGTAGGGGATCCAGAAACCGTTCT
GGA
Found at i:68601268 original size:69 final size:69
Alignment explanation
Indices: 68601157--68601293 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
68601147 CAATTAATTT
*
68601157 CACTCCTACTATTTTTAGTGATTTTTCAATCTCATGATACTGCTGCTGCCAGCATCTGTTACGAA
1 CACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTACGAA
68601222 AGTC
66 AGTC
68601226 CACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTACGAA
1 CACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTACGAA
68601291 AGT
66 AGT
68601294 AACTAGGTCC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (69 bp):
CACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTACGAA
AGTC
Found at i:68602025 original size:27 final size:27
Alignment explanation
Indices: 68601995--68602172 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
68601985 ATATTGAGCC
* *
68601995 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
68602022 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
68602049 CGCACACTTAGTGCTACATAGTCAACCT
1 CGCACACTTAGTGCTACATAATCAA-CT
** ** *
68602077 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
68602104 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
68602131 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
68602158 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68602173 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:68602134 original size:82 final size:81
Alignment explanation
Indices: 68602016--68602171 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
68602006 TGCTATATAA
* * *
68602016 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
68602081 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
68602098 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
68602162 CACTTAGTGC
65 CACTTAGTGC
68602172 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:68602161 original size:54 final size:54
Alignment explanation
Indices: 68601995--68602171 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
68601985 ATATTGAGCC
* * * *
68601995 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
68602049 CGCACACTTAGTGC-TACATAGTCAACCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAA-CTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
68602104 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
68602158 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68602172 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 44 0.43
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:68608340 original size:64 final size:64
Alignment explanation
Indices: 68608260--68608443 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
68608250 AGACATTATG
* * *
68608260 ATGTAGCTAGGTCGCATGGGTGATCCTATGTGTACACCATGTAGACAAGAGATCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATCCTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
68608324 ATGTAGCTAGGTCGCATGCGTGGTTCC-AGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATCCTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
68608388 TAA
62 TAA
* * * * *
68608391 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATCCT-ATGTGTACACCATGTAG-ACAAGAGAGC
68608444 CGAACTATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 22 0.22
65 7 0.07
66 17 0.17
67 32 0.33
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATCCTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:68615168 original size:11 final size:10
Alignment explanation
Indices: 68615116--68615170 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 10
68615106 GATGAGATTT
68615116 TGATAT-ACA
1 TGATATGACA
*
68615125 TGATTTGACA
1 TGATATGACA
*
68615135 TGATATACACA
1 TGATAT-GACA
*
68615146 TGATATG-TA
1 TGATATGACA
68615155 TGATATGCACA
1 TGATATG-ACA
68615166 TGATA
1 TGATA
68615171 AATTCATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 13 0.36
10 8 0.22
11 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:68615249 original size:25 final size:25
Alignment explanation
Indices: 68615217--68615282 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
68615207 GAGGAAGTGC
68615217 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
68615242 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
68615267 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
68615283 TGTAACACCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:68619284 original size:60 final size:60
Alignment explanation
Indices: 68619191--68619312 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
68619181 ACCACCCACA
68619191 CCGAATCTTTCTTGGTGGGTGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
1 CCGAATCTTTCTTGGTGGGTGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
* *
68619251 CCGAATCTTTCTTGGTGGGTGTCGAAGGTAACCCACTCACAAAGTCCATTGTTATTCTTT
1 CCGAATCTTTCTTGGTGGGTGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
68619311 CC
1 CC
68619313 CACTTCTATA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (60 bp):
CCGAATCTTTCTTGGTGGGTGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
Found at i:68626405 original size:30 final size:31
Alignment explanation
Indices: 68626371--68626453 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
68626361 CATTTACAGC
*
68626371 AAAGGCTTCGGCCTAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
68626401 AAAGGGTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
68626432 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
68626454 TTGAGATTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 24 0.52
31 22 0.48
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:68626436 original size:31 final size:30
Alignment explanation
Indices: 68626369--68626448 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 30
68626359 ACCATTTACA
* *
68626369 GCAAAGGCTTCGGCCTAGTGATATGATAAT
1 GCAAAGGCTTCGGCCCAGTGACATGATAAT
* *
68626399 GAAAAGGGTTCGGCCCAGTGACATGAATAAT
1 GCAAAGGCTTCGGCCCAGTGACATG-ATAAT
68626430 GCAAAGGCTTCGGCCCAGT
1 GCAAAGGCTTCGGCCCAGT
68626449 ATATGTTGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 21 0.49
31 22 0.51
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (30 bp):
GCAAAGGCTTCGGCCCAGTGACATGATAAT
Found at i:68632832 original size:25 final size:25
Alignment explanation
Indices: 68632796--68632865 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
68632786 GAGGAAGTGC
*
68632796 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* * *
68632821 AAAAGGGTTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
68632846 AAAAGGGCTTTGCCTCAGTT
1 AAAAGGGCTTTGCCCCAGTT
68632866 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:68632878 original size:24 final size:24
Alignment explanation
Indices: 68632846--68632892 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
68632836 CAGTTTATCG
**
68632846 AAAAGGGCTTTGCCT-CAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
68632869 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
68632893 GTGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:68635026 original size:30 final size:30
Alignment explanation
Indices: 68634968--68635028 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68634958 TTCCCGAGCC
*
68634968 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
* * * *
68634998 TAGGGGCAAAATTATAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
68635028 T
1 T
68635029 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTATAAATATGCAAAAGTT
Found at i:68635811 original size:68 final size:62
Alignment explanation
Indices: 68635688--68635944 Score: 194
Period size: 68 Copynumber: 3.9 Consensus size: 62
68635678 TGGATGATAC
** * * * *
68635688 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TAT-TAGCTAGGTCACATGGGTGATACT-AGTGTACACCATGTAG-ACAAGAGAGCTAC
68635752 AAG
62 --G
*
68635755 ACATTATGATATAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TAT-AT-TAGCTAGGTCACATGGGTGATACTA-GTGTACACCATGTAGACAAGAGAGCTAC
68635820 G
62 G
* * ** * * * *
68635821 TGATATATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGACACCATGTAGACAAGAGAGCTAC
1 AGATATAT-TAGCTAGGTCACATGGGTGATACTA-GTG--TACACCATGTAGACAAGAGAGCTAC
68635886 G
62 G
* * *
68635887 AGATAAATTGGCTAGGTCACATGGGTGATACTGAGTGTTCACCATGT-GTACAAGAGAG
1 AGATATATTAGCTAGGTCACATGGGTGATACT-AGTGTACACCATGTAG-ACAAGAGAG
68635945 TCGAACAATA
Statistics
Matches: 152, Mismatches: 30, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 24 0.16
65 23 0.15
66 34 0.22
67 4 0.03
68 48 0.32
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (62 bp):
AGATATATTAGCTAGGTCACATGGGTGATACTAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:68637679 original size:16 final size:17
Alignment explanation
Indices: 68637652--68637686 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
68637642 ATTCCCCTTT
68637652 CACCTATTCATTCAACA
1 CACCTATTCATTCAACA
*
68637669 CACCT-TTCATTCCACA
1 CACCTATTCATTCAACA
68637685 CA
1 CA
68637687 TCTCTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (17 bp):
CACCTATTCATTCAACA
Found at i:68638981 original size:24 final size:24
Alignment explanation
Indices: 68638949--68638996 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
68638939 TTGTTGAAAG
68638949 CATACATGGCAAAAACTGACTCCT
1 CATACATGGCAAAAACTGACTCCT
68638973 CATACATGGCAAAAACTGACTCCT
1 CATACATGGCAAAAACTGACTCCT
68638997 TGATCCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (24 bp):
CATACATGGCAAAAACTGACTCCT
Found at i:68641468 original size:43 final size:42
Alignment explanation
Indices: 68641420--68641585 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 42
68641410 TTATTGAGAA
* *
68641420 GTGATTACATGTAAGACCATGTTTGGAACATTGGCATTATATT
1 GTGATTACATGTAAGACCATGTCTGGGACATTGGCATTATA-T
* *
68641463 GTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTAAT
1 GTGATTACATGTAAGACCATGTCTGGGACATTGGCATTA-T-AT
* * * * *
68641507 -CGATTTCGTATAAGACTC-TGTCTGGGACAGTGGCATTGATAT
1 GTGATTACATGTAAGAC-CATGTCTGGGACATTGGCATT-ATAT
* * *
68641549 GTGATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 GTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
68641586 GTACGAGCTA
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
42 10 0.10
43 86 0.85
44 4 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (42 bp):
GTGATTACATGTAAGACCATGTCTGGGACATTGGCATTATAT
Found at i:68642119 original size:28 final size:28
Alignment explanation
Indices: 68642069--68642123 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
68642059 CAGGGATTTC
68642069 CACACAGCCTGACACACATCCGTGTCCCT
1 CACACAGCCTGACACACA-CCGTGTCCCT
68642098 CACACAGCCATGACACAC-CCGTGTCC
1 CACACAGCC-TGACACACACCGTGTCC
68642124 TAGCCCGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 8 0.32
29 9 0.36
30 8 0.32
ACGTcount: A:0.25, C:0.45, G:0.15, T:0.15
Consensus pattern (28 bp):
CACACAGCCTGACACACACCGTGTCCCT
Found at i:68643273 original size:49 final size:49
Alignment explanation
Indices: 68643201--68643418 Score: 177
Period size: 46 Copynumber: 4.6 Consensus size: 49
68643191 ATTGCAGCCA
** * * *
68643201 CCGATGCCATGTCCTGGATAGGTCTTACACTACCTCTCATCTATCGATA
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATG
* * * *
68643250 TCGATGCCATGTCCCAGACAGGTCTTACACTAGCT-T-GTTTATCCCGAGG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTAT--CGATG
* * *
68643299 CCAATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATC--TCAATG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATG
* * * *
68643345 CCGATGCC-TGTCCCAAACACGTCTTACACTAGCACTCAT-AAT-G-TGG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGAT-G
* *
68643391 CCAATG-CATGTCCCAGACATGTCTTACA
1 CCGATGCCATGTCCCAGACAGGTCTTACA
68643419 TTGGCTCACA
Statistics
Matches: 136, Mismatches: 24, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
45 2 0.01
46 60 0.44
47 6 0.04
48 29 0.21
49 38 0.28
50 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGATG
Found at i:68650669 original size:49 final size:49
Alignment explanation
Indices: 68650611--68650715 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 49
68650601 GTCGATGTCG
* *
68650611 TGTCACAGACAAGTCTTAT-ACTGACTTTCATATATCGAG-GCCGATGCCA
1 TGTCCCAGACAAGTCTT-TCACTGACTCTCATATATC-AGTGCCGATGCCA
* * * *
68650660 TGTCCCAGACAGGTCTTTCACTGGCTCTCATCTATCAGTGTCGATGCCA
1 TGTCCCAGACAAGTCTTTCACTGACTCTCATATATCAGTGCCGATGCCA
68650709 TGTCCCA
1 TGTCCCA
68650716 TACAGGTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 3 0.06
49 45 0.94
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (49 bp):
TGTCCCAGACAAGTCTTTCACTGACTCTCATATATCAGTGCCGATGCCA
Found at i:68652694 original size:25 final size:25
Alignment explanation
Indices: 68652621--68652696 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
68652611 GGAACACATT
* *
68652621 TTCA-CAAAATTTTACCAGGGGCAAA
1 TTCATCAAAATTTTACTA-GGGTAAA
* * *
68652646 ATCGTCAAAATTTTACTAAAGGTAAA
1 TTCATCAAAATTTTACT-AGGGTAAA
68652672 TTCATCAAAATTTTACTAGGGTAAA
1 TTCATCAAAATTTTACTAGGGTAAA
68652697 ATAGGGATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 9 0.22
26 31 0.76
27 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (25 bp):
TTCATCAAAATTTTACTAGGGTAAA
Found at i:68653827 original size:27 final size:27
Alignment explanation
Indices: 68653750--68653828 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
68653740 GACTATCTTC
* * *
68653750 TGTTTAATGTCCCATTAGACTATCCCG
1 TGTTTAACGTCCTATTAGACTATCCCA
* * * *
68653777 TGTTTAACGTCCTCTCAAAGTATCCCA
1 TGTTTAACGTCCTATTAGACTATCCCA
* *
68653804 TGTTTAACGTCCTGTTAGATTATCC
1 TGTTTAACGTCCTATTAGACTATCC
68653829 TTGATGTCAT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (27 bp):
TGTTTAACGTCCTATTAGACTATCCCA
Found at i:68656174 original size:17 final size:17
Alignment explanation
Indices: 68656152--68656187 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
68656142 GAATTAATGG
68656152 TAAGTTTTCTTATTAAC
1 TAAGTTTTCTTATTAAC
68656169 TAAGTTTTCTTATTAAC
1 TAAGTTTTCTTATTAAC
68656186 TA
1 TA
68656188 TACAAGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (17 bp):
TAAGTTTTCTTATTAAC
Found at i:68660501 original size:15 final size:15
Alignment explanation
Indices: 68660455--68660502 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
68660445 AAACCTACAA
*
68660455 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
68660470 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
68660484 AAACTTCATATCCAT
1 AAACTTCATATCCAT
68660499 AAAC
1 AAAC
68660503 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:68661563 original size:12 final size:12
Alignment explanation
Indices: 68661548--68661581 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
68661538 CTTGAAAGAG
* *
68661548 ATTGAGAAAGTC
1 ATTGAAAAAGCC
68661560 ATTGAAAAAGCC
1 ATTGAAAAAGCC
68661572 ATTGAAAAAG
1 ATTGAAAAAG
68661582 AAAAAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.21
Consensus pattern (12 bp):
ATTGAAAAAGCC
Found at i:68661713 original size:30 final size:28
Alignment explanation
Indices: 68661677--68661732 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
68661667 AAGCGAAAAA
* *
68661677 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
68661707 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
68661733 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:68665653 original size:48 final size:48
Alignment explanation
Indices: 68665601--68665783 Score: 233
Period size: 48 Copynumber: 3.8 Consensus size: 48
68665591 CTCGCACACT
* * * * *
68665601 AAGTGTTAATATCATGACCTGAAGCCAACTCAATGTATCTCGCACCGG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
* *
68665649 AAGTGCTAATACCATGGCCCGAAGCCAAATCAATGTATCTTGCACCCG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
* * **
68665697 AAGTGCTAATATTATGGCCCGAAGCCAAATCAATGTATCTTGCACTTG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
* *
68665745 AAGTGCTAATATCAT-AGCCTGAAACCAAATCAATGTATC
1 AAGTGCTAATATCATGA-CCCGAAGCCAAATCAATGTATC
68665784 CCGTAATGAC
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTTGCACCCG
Found at i:68665773 original size:96 final size:96
Alignment explanation
Indices: 68665601--68665783 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 96
68665591 CTCGCACACT
* * * *
68665601 AAGTGTTAATATCATGACCTGAAGCCAACTCAATGTATCTCGCACCGGAAGTGCTAATACCATGG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTCGCACCGGAAGTGCTAATACCATAG
*
68665666 CCCGAAGCCAAATCAATGTATCTTGCACCCG
66 CCCGAAACCAAATCAATGTATCTTGCACCCG
* * * ** *
68665697 AAGTGCTAATATTATGGCCCGAAGCCAAATCAATGTATCTTGCACTTGAAGTGCTAATATCATAG
1 AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTCGCACCGGAAGTGCTAATACCATAG
*
68665762 CCTGAAACCAAATCAATGTATC
66 CCCGAAACCAAATCAATGTATC
68665784 CCGTAATGAC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (96 bp):
AAGTGCTAATATCATGACCCGAAGCCAAATCAATGTATCTCGCACCGGAAGTGCTAATACCATAG
CCCGAAACCAAATCAATGTATCTTGCACCCG
Found at i:68667035 original size:24 final size:24
Alignment explanation
Indices: 68667007--68667058 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
68666997 TTAGTAGGTC
* *
68667007 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
68667031 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
68667055 AAAT
1 AAAT
68667059 CTTCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:68668999 original size:24 final size:24
Alignment explanation
Indices: 68668971--68669022 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
68668961 TTAGTAGGTC
* *
68668971 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
68668995 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
68669019 AAAT
1 AAAT
68669023 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:68672425 original size:44 final size:43
Alignment explanation
Indices: 68672375--68672462 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 43
68672365 CCATATTTCC
* *
68672375 AATTCCTTCAAATTTTCAAAGTTCTTGTATAATCGATCGGAAG
1 AATTCCTTCAAATTTTCAAAGTTCTTATACAATCGATCGGAAG
* * *
68672418 NAATTCCTTCAAGTTTTCAGAGTTCTTATACAATGGATCGGAAG
1 -AATTCCTTCAAATTTTCAAAGTTCTTATACAATCGATCGGAAG
68672462 A
1 A
68672463 TCCAAAAGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (43 bp):
AATTCCTTCAAATTTTCAAAGTTCTTATACAATCGATCGGAAG
Found at i:68673134 original size:21 final size:21
Alignment explanation
Indices: 68673108--68673149 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
68673098 ATCCGGAAGG
68673108 AGCATCTCAAGAAGTTTCTAT
1 AGCATCTCAAGAAGTTTCTAT
68673129 AGCATCTCAAGAAGTTTCTAT
1 AGCATCTCAAGAAGTTTCTAT
68673150 CTTAAGAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
AGCATCTCAAGAAGTTTCTAT
Found at i:68680484 original size:11 final size:11
Alignment explanation
Indices: 68680468--68680499 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
68680458 TCAACACTTC
68680468 TCCCCCACCAT
1 TCCCCCACCAT
68680479 TCCCCCACCAT
1 TCCCCCACCAT
*
68680490 TCCACCACCA
1 TCCCCCACCA
68680500 CTTGCCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.62, G:0.00, T:0.16
Consensus pattern (11 bp):
TCCCCCACCAT
Found at i:68680614 original size:14 final size:14
Alignment explanation
Indices: 68680595--68680658 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
68680585 ATATTATTTA
68680595 TTTCTTTTCTCTCT
1 TTTCTTTTCTCTCT
*
68680609 TTTCTTTCCTCTCT
1 TTTCTTTTCTCTCT
* *
68680623 TTTATTTTATC-CT
1 TTTCTTTTCTCTCT
* *
68680636 TTTCATTTCATTTCT
1 TTTCTTTTC-TCTCT
*
68680651 CTTCTTTT
1 TTTCTTTT
68680659 GACTTAAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
13 8 0.21
14 22 0.58
15 8 0.21
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCTTTTCTCTCT
Found at i:68680658 original size:28 final size:28
Alignment explanation
Indices: 68680596--68680658 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
68680586 TATTATTTAT
* * *
68680596 TTCTTTTCTCTCTTTTCTTTCCTCTCTT
1 TTCTTTTATCTCTTTTCTTTCATCTCTC
* *
68680624 TTATTTTATC-CTTTTCATTTCATTTCTC
1 TTCTTTTATCTCTTTTC-TTTCATCTCTC
68680652 TTCTTTT
1 TTCTTTT
68680659 GACTTAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.68
Consensus pattern (28 bp):
TTCTTTTATCTCTTTTCTTTCATCTCTC
Found at i:68691225 original size:17 final size:17
Alignment explanation
Indices: 68691189--68691228 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
68691179 ACTAAAAATA
**
68691189 GGCCCACACGCTTGTAT
1 GGCCCACACGCTTACAT
*
68691206 GGCCCACACGCTTACCT
1 GGCCCACACGCTTACAT
68691223 GGCCCA
1 GGCCCA
68691229 GCCAATATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.42, G:0.23, T:0.17
Consensus pattern (17 bp):
GGCCCACACGCTTACAT
Found at i:68692120 original size:8 final size:8
Alignment explanation
Indices: 68692107--68692137 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
68692097 ATTTAAGTAA
68692107 ATATTATT
1 ATATTATT
68692115 ATATTATT
1 ATATTATT
68692123 ATATTATT
1 ATATTATT
68692131 ATATTAT
1 ATATTAT
68692138 ATTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:68692313 original size:4 final size:4
Alignment explanation
Indices: 68692306--68692391 Score: 52
Period size: 4 Copynumber: 20.8 Consensus size: 4
68692296 AAAAGAAACA
*
68692306 AAAG AAAG AAAG AAAG AAAAG GAAG AACAG AATAG AAACG AAA- AAA-
1 AAAG AAAG AAAG AAAG -AAAG AAAG AA-AG AA-AG AAA-G AAAG AAAG
* ** *
68692352 AAGG GGAG AAAG AAAG AAAAG AAA- AAGGG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG -AAAG AAAG AA-AG AAAG AAAG AAA
68692392 AGGGAGAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
3 7 0.11
4 35 0.55
5 22 0.34
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:68692319 original size:17 final size:17
Alignment explanation
Indices: 68692297--68692337 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
68692287 TAAATAAACA
68692297 AAAGAAACAAAAGAAAG
1 AAAGAAACAAAAGAAAG
* *
68692314 AAAGAAAGAAAAGGAAG
1 AAAGAAACAAAAGAAAG
68692331 AACAGAA
1 AA-AGAA
68692338 TAGAAACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAACAAAAGAAAG
Found at i:68692361 original size:24 final size:23
Alignment explanation
Indices: 68692312--68692393 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 23
68692302 AACAAAAGAA
* *
68692312 AGAAAGAAAGAAAAGGAAGAA--C
1 AGAAAGAAAGAAAA-GAAAAAGGG
*
68692334 AGAATAGAAACGAAAA-AAAAGGGG
1 AGAA-AGAAA-GAAAAGAAAAAGGG
68692358 AGAAAGAAAGAAAAGAAAAA-GG
1 AGAAAGAAAGAAAAGAAAAAGGG
68692380 -GAAAGAAAGAAAAG
1 AGAAAGAAAGAAAAG
68692394 GGAGAAATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 14 0.27
22 14 0.27
23 14 0.27
24 9 0.18
ACGTcount: A:0.68, C:0.02, G:0.28, T:0.01
Consensus pattern (23 bp):
AGAAAGAAAGAAAAGAAAAAGGG
Found at i:68692390 original size:16 final size:16
Alignment explanation
Indices: 68692363--68692396 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
68692353 AGGGGAGAAA
68692363 GAAAGAAAAGAAAAAGG
1 GAAAGAAAAG-AAAAGG
68692380 GAAAG-AAAGAAAAGG
1 GAAAGAAAAGAAAAGG
68692395 GA
1 GA
68692397 GAAATTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAGG
Found at i:68692400 original size:17 final size:18
Alignment explanation
Indices: 68692362--68692400 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
68692352 AAGGGGAGAA
68692362 AGAAAGAAAAGAAAAAGG
1 AGAAAGAAAAGAAAAAGG
*
68692380 -GAAAG-AAAGAAAAGGG
1 AGAAAGAAAAGAAAAAGG
68692396 AGAAA
1 AGAAA
68692401 TTAGGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAAGAAAAAGG
Found at i:68693308 original size:40 final size:39
Alignment explanation
Indices: 68693256--68693371 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
68693246 CCTTCTCAAG
*
68693256 AATTAAAAGTGAATAGGATTTATTCCTAATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
* *
68693297 AATTAAAGTGAATAGGATTTAATCCTGATTCACTAGAAA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * * *
68693336 TATATAAAGTGGATAGGATTTGTTCTTGATTCACTA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTA
68693372 TGGTAACTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.05
40 59 0.89
41 4 0.06
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:68695819 original size:7 final size:7
Alignment explanation
Indices: 68695807--68695851 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
68695797 TTGGAAAGCC
68695807 TTTTTAT
1 TTTTTAT
68695814 TTTTTAT
1 TTTTTAT
68695821 TTTTTAT
1 TTTTTAT
68695828 TTTATT-T
1 TTT-TTAT
*
68695835 TGTTTTGT
1 T-TTTTAT
68695843 TTTTTAT
1 TTTTTAT
68695850 TT
1 TT
68695852 AGTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:68707049 original size:5 final size:5
Alignment explanation
Indices: 68707039--68707070 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
68707029 TTGTGTGTTC
68707039 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
68707071 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:68707053 original size:9 final size:9
Alignment explanation
Indices: 68707039--68707069 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
68707029 TTGTGTGTTC
68707039 TTTATTTTA
1 TTTATTTTA
68707048 TTTATTTTA
1 TTTATTTTA
68707057 TTTTATTTTA
1 -TTTATTTTA
68707067 TTT
1 TTT
68707070 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:68711500 original size:5 final size:5
Alignment explanation
Indices: 68711490--68711530 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
68711480 TTGTGTGTTC
68711490 TTTAT TTTA- TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
68711531 TCACAAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:68711504 original size:9 final size:9
Alignment explanation
Indices: 68711490--68711529 Score: 71
Period size: 9 Copynumber: 4.3 Consensus size: 9
68711480 TTGTGTGTTC
68711490 TTTATTTTA
1 TTTATTTTA
68711499 TTTATTTTA
1 TTTATTTTA
68711508 TTTATTTTA
1 TTTATTTTA
68711517 TTTTATTTTA
1 -TTTATTTTA
68711527 TTT
1 TTT
68711530 TTCACAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:68711509 original size:14 final size:14
Alignment explanation
Indices: 68711490--68711529 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
68711480 TTGTGTGTTC
68711490 TTTATTTTATTTAT
1 TTTATTTTATTTAT
68711504 TTTA-TTTATTTTAT
1 TTTATTTTA-TTTAT
68711518 TTTATTTTATTT
1 TTTATTTTATTT
68711530 TTCACAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:68721247 original size:26 final size:26
Alignment explanation
Indices: 68721218--68721270 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
68721208 ATTTTTCTAT
68721218 AAAAAAATTAAACAATA-ATAAAATAA
1 AAAAAAATTAAA-AATATATAAAATAA
* *
68721244 AAAAATATTAAAAATATATAAACTAA
1 AAAAAAATTAAAAATATATAAAATAA
68721270 A
1 A
68721271 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAAAAATTAAAAATATATAAAATAA
Found at i:68721258 original size:9 final size:9
Alignment explanation
Indices: 68721217--68721322 Score: 63
Period size: 9 Copynumber: 10.8 Consensus size: 9
68721207 TATTTTTCTA
*
68721217 TAAAAAAAT
1 TAAAAATAT
*
68721226 TAAACAATAA
1 TAAA-AATAT
68721236 T-AAAATA-
1 TAAAAATAT
*
68721243 AAAAAATAT
1 TAAAAATAT
68721252 TAAAAATAT
1 TAAAAATAT
68721261 ATAAACTAAATAT
1 -T-AA--AAATAT
68721274 TAAAAATATT
1 TAAAAATA-T
68721284 TAAATTAACTAT
1 TAAA--AA-TAT
68721296 TAAAAATATT
1 TAAAAATA-T
68721306 ATAAAAATAT
1 -TAAAAATAT
*
68721316 AAAAAAT
1 TAAAAAT
68721323 CTAATAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
8 10 0.13
9 27 0.34
10 14 0.18
11 12 0.15
12 8 0.10
13 8 0.10
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAAAATAT
Found at i:68721259 original size:22 final size:23
Alignment explanation
Indices: 68721234--68721281 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
68721224 ATTAAACAAT
68721234 AATAAAATAAA-AAAATATTAAA
1 AATAAAATAAACAAAATATTAAA
* *
68721256 AAT-ATATAAACTAAATATTAAA
1 AATAAAATAAACAAAATATTAAA
68721278 AATA
1 AATA
68721282 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AATAAAATAAACAAAATATTAAA
Found at i:68721282 original size:22 final size:22
Alignment explanation
Indices: 68721246--68721310 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
68721236 TAAAATAAAA
68721246 AAATATTAAAAATATATAAACT
1 AAATATTAAAAATATATAAACT
* *
68721268 AAATATTAAAAATATTTAAATT
1 AAATATTAAAAATATATAAACT
*
68721290 AACTATTAAAAATATTATAAA
1 AAATATTAAAAATA-TATAAA
68721311 AATATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
22 33 0.87
23 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATTAAAAATATATAAACT
Found at i:68721868 original size:9 final size:9
Alignment explanation
Indices: 68721856--68721991 Score: 62
Period size: 9 Copynumber: 14.3 Consensus size: 9
68721846 TTATGACTTT
68721856 TTTTAATAA
1 TTTTAATAA
*
68721865 TTTTCATAA
1 TTTTAATAA
*
68721874 GTTTATATCAA
1 TTTTA-AT-AA
*
68721885 TTTTAATCA
1 TTTTAATAA
*
68721894 TTTTAATCA
1 TTTTAATAA
*
68721903 TTTTATAGAA
1 TTTTA-ATAA
*
68721913 TTTTAATACGT
1 TTTTAATA--A
*
68721924 TTTTATAAAA
1 TTTTA-ATAA
68721934 TTTTAA-ATA
1 TTTTAATA-A
*
68721943 TTTTGAATATG
1 TTTT-AATA-A
*
68721954 TTTTACTAA
1 TTTTAATAA
68721963 TTTT-AT-A
1 TTTTAATAA
*
68721970 TTTTTATAA
1 TTTTAATAA
*
68721979 CTTTTTATAA
1 -TTTTAATAA
68721989 TTT
1 TTT
68721992 ATTAGATTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
7 5 0.05
8 4 0.04
9 42 0.42
10 30 0.30
11 17 0.17
12 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.57
Consensus pattern (9 bp):
TTTTAATAA
Found at i:68721890 original size:29 final size:28
Alignment explanation
Indices: 68721856--68721920 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
68721846 TTATGACTTT
*
68721856 TTTTAATAATTTTCATAAGTTTATATCAA
1 TTTTAATAATTTTAATAAGTTTATA-CAA
* * * *
68721885 TTTTAATCATTTTAATCATTTTATAGAA
1 TTTTAATAATTTTAATAAGTTTATACAA
68721913 TTTTAATA
1 TTTTAATA
68721921 CGTTTTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTTAATAATTTTAATAAGTTTATACAA
Found at i:68721915 original size:19 final size:21
Alignment explanation
Indices: 68721893--68721939 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
68721883 AATTTTAATC
*
68721893 ATTTTAAT-C-ATTTTATAGA
1 ATTTTAATACGATTTTATAAA
*
68721912 ATTTTAATACGTTTTTATAAA
1 ATTTTAATACGATTTTATAAA
68721933 ATTTTAA
1 ATTTTAA
68721940 ATATTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 1 0.04
21 15 0.62
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTTAATACGATTTTATAAA
Found at i:68721976 original size:8 final size:8
Alignment explanation
Indices: 68721949--68722071 Score: 52
Period size: 8 Copynumber: 14.0 Consensus size: 8
68721939 AATATTTTGA
68721949 ATATGTTTT
1 ATAT-TTTT
*
68721958 ACTAATTTT
1 A-TATTTTT
68721967 ATATTTTT
1 ATATTTTT
68721975 ATAACTTTTT
1 AT-A-TTTTT
68721985 ATAATTTATT
1 AT-ATTT-TT
*
68721995 AGATTTTTT
1 ATA-TTTTT
68722004 ATATTTTT
1 ATATTTTT
*
68722012 ATAAAATTATAT
1 AT---ATT-TTT
* *
68722024 CTATTTTC
1 ATATTTTT
68722032 ATATTTTT
1 ATATTTTT
*
68722040 A-ATATTT
1 ATATTTTT
*
68722047 A-ATGATCTT
1 ATAT--TTTT
68722056 ATATTTTT
1 ATATTTTT
68722064 ATATTTTT
1 ATATTTTT
68722072 TTCTAATTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
7 8 0.09
8 34 0.39
9 21 0.24
10 19 0.22
11 3 0.03
12 3 0.03
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
ATATTTTT
Found at i:68722374 original size:29 final size:28
Alignment explanation
Indices: 68722341--68722419 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
68722331 TCTATGTGCT
*
68722341 CTTTTAAATTTTAAAATTTAGTCTCTATA
1 CTTTT-AATTTTAAAATCTAGTCTCTATA
*
68722370 CTTTT-ATTTCTAGAAATCTAGTCTCTCTA
1 CTTTTAATTT-TA-AAATCTAGTCTCTATA
* *
68722399 TTTTTAGATTTCAAAATCTAG
1 CTTTTA-ATTTTAAAATCTAG
68722420 ATTCAACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 31 0.74
30 1 0.02
31 4 0.10
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.49
Consensus pattern (28 bp):
CTTTTAATTTTAAAATCTAGTCTCTATA
Found at i:68724070 original size:18 final size:18
Alignment explanation
Indices: 68724047--68724083 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
68724037 AAATTCTTAT
68724047 AACTAGGAATTTTAACAA
1 AACTAGGAATTTTAACAA
**
68724065 AACTAGGGGTTTTAACAA
1 AACTAGGAATTTTAACAA
68724083 A
1 A
68724084 CACGTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AACTAGGAATTTTAACAA
Found at i:68724917 original size:143 final size:143
Alignment explanation
Indices: 68724659--68724944 Score: 527
Period size: 143 Copynumber: 2.0 Consensus size: 143
68724649 GTTAGTCACT
*
68724659 GACCATGCGTATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
1 GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
*
68724724 CCGATAGTTAGTACATTGGGTACATGACTTTTGTATGGCATGACTTTACTAGCAACAATGGAATT
66 CCGATAGTTAGTACATTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAATGGAATT
68724789 CATAGCTCAATTA
131 CATAGCTCAATTA
68724802 GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
1 GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
* * *
68724867 CCGATAGTTGGTACGTTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAGTGGAATT
66 CCGATAGTTAGTACATTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAATGGAATT
68724932 CATAGCTCAATTA
131 CATAGCTCAATTA
68724945 AAGAGTTAAC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 138 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (143 bp):
GACCATGCATATGTAACTCATGTGCTTTGAAATAAGTGGAGGCTTATGCTCTAAAGATGATCAAG
CCGATAGTTAGTACATTGGGTACATGACTTGTGTATGGCATGACTTTACTAGCAACAATGGAATT
CATAGCTCAATTA
Found at i:68727209 original size:51 final size:51
Alignment explanation
Indices: 68727149--68727322 Score: 287
Period size: 51 Copynumber: 3.4 Consensus size: 51
68727139 TTTGAGTACT
*
68727149 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* * * *
68727200 TCTGATCAGTGATAAGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
68727250 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
68727301 TCTGATCAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
68727323 ATGTGATTAG
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 45 0.40
51 67 0.60
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:68731872 original size:72 final size:72
Alignment explanation
Indices: 68731787--68732146 Score: 711
Period size: 72 Copynumber: 5.0 Consensus size: 72
68731777 GAAATCGTGC
68731787 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
1 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
68731852 CGTATGA
66 CGTATGA
68731859 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
1 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
68731924 CGTATGA
66 CGTATGA
68731931 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
1 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
68731996 CGTATGA
66 CGTATGA
68732003 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
1 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
68732068 CGTATGA
66 CGTATGA
*
68732075 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTTTCAA
1 CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
68732140 CGTATGA
66 CGTATGA
68732147 GCTTTTGGAA
Statistics
Matches: 287, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 287 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (72 bp):
CCTACTGTGCTGGGTTTCGATTTCCCGTTGGACTAAATAATTGAACATCCTTTTGTAATTGTCAA
CGTATGA
Found at i:68741856 original size:34 final size:34
Alignment explanation
Indices: 68741813--68741984 Score: 344
Period size: 34 Copynumber: 5.1 Consensus size: 34
68741803 TGCTTATTAT
68741813 ATGTAAAACTTATTATTTTATGATATTATATGAA
1 ATGTAAAACTTATTATTTTATGATATTATATGAA
68741847 ATGTAAAACTTATTATTTTATGATATTATATGAA
1 ATGTAAAACTTATTATTTTATGATATTATATGAA
68741881 ATGTAAAACTTATTATTTTATGATATTATATGAA
1 ATGTAAAACTTATTATTTTATGATATTATATGAA
68741915 ATGTAAAACTTATTATTTTATGATATTATATGAA
1 ATGTAAAACTTATTATTTTATGATATTATATGAA
68741949 ATGTAAAACTTATTATTTTATGATATTATATGAA
1 ATGTAAAACTTATTATTTTATGATATTATATGAA
68741983 AT
1 AT
68741985 AACGAAAATA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 138 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (34 bp):
ATGTAAAACTTATTATTTTATGATATTATATGAA
Found at i:68742519 original size:26 final size:26
Alignment explanation
Indices: 68742490--68742573 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
68742480 TGATACAAAT
** *
68742490 TGATAATATGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68742516 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68742542 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
68742568 TGATAA
1 TGATAA
68742574 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:68744245 original size:27 final size:26
Alignment explanation
Indices: 68744196--68744309 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
68744186 GAGGAAGCGT
* * *
68744196 TCTGGTGGCTATGCTACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-ATTATCTGA
*
68744223 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGA
*
68744250 TCTGGTGGCTCTGCCATGATTATCTGTA
1 TCTGGTGGCTCTGCCA-CATTATCTG-A
* * *
68744278 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGA
68744304 TCTGGT
1 TCTGGT
68744310 AGCCATGCTG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:68754139 original size:9 final size:9
Alignment explanation
Indices: 68754116--68754150 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
68754106 CTCTCTATTT
*
68754116 TCTCTAAAC
1 TCTCTCAAC
68754125 TCTCTCAAC
1 TCTCTCAAC
*
68754134 TCTCTCAAT
1 TCTCTCAAC
68754143 TCTCTCAA
1 TCTCTCAA
68754151 ATTTTGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:68754376 original size:10 final size:10
Alignment explanation
Indices: 68754361--68754386 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
68754351 AGTTTTTAAA
68754361 ATTTTAAAAT
1 ATTTTAAAAT
68754371 ATTTTAAAAT
1 ATTTTAAAAT
68754381 ATTTTA
1 ATTTTA
68754387 TTTTGTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:68758830 original size:26 final size:26
Alignment explanation
Indices: 68758801--68758883 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
68758791 TTGGATCACC
68758801 AATAAATCATTAGTTTTGGTCTACGA
1 AATAAATCATTAGTTTTGGTCTACGA
* ** ** *
68758827 AATAAA-AAGAATGGATTGGATC-AC-C
1 AATAAATCATTA-GTTTTGG-TCTACGA
68758852 AATAAATCATTAGTTTTGGTCTACGA
1 AATAAATCATTAGTTTTGGTCTACGA
68758878 AATAAA
1 AATAAA
68758884 AAGGATGGGT
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 2 0.05
25 15 0.38
26 21 0.52
27 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (26 bp):
AATAAATCATTAGTTTTGGTCTACGA
Found at i:68758863 original size:51 final size:51
Alignment explanation
Indices: 68758789--68758891 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
68758779 TTTTAGGTGT
68758789 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
1 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
*
68758840 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGGATG
1 GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
68758891 G
1 G
68758892 GTTTGGGAGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (51 bp):
GATTGGATCACCAATAAATCATTAGTTTTGGTCTACGAAATAAAAAGAATG
Found at i:68758870 original size:25 final size:25
Alignment explanation
Indices: 68758791--68758870 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
68758781 TTAGGTGTGA
68758791 TTGGATCACCAATAAATCATTAGTT
1 TTGGATCACCAATAAATCATTAGTT
* * ** **
68758816 TTGG-TCTACGAAATAAA-AAGAATGGA
1 TTGGATC-AC-CAATAAATCATTA-GTT
68758842 TTGGATCACCAATAAATCATTAGTT
1 TTGGATCACCAATAAATCATTAGTT
68758867 TTGG
1 TTGG
68758871 TCTACGAAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
26 15 0.39
27 2 0.05
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (25 bp):
TTGGATCACCAATAAATCATTAGTT
Found at i:68759584 original size:5 final size:5
Alignment explanation
Indices: 68759576--68759653 Score: 52
Period size: 5 Copynumber: 15.0 Consensus size: 5
68759566 ACTATAGAGA
* * * * *
68759576 ATAAT ATAAT ATCAT ATAAT ATAAT AAAAAT TTAAT -TACAT ATAAT TTAAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATA-AT ATAAT ATAAT
68759627 AGTAA- ATAAT AATAGAT ATAAT ATAAT
1 A-TAAT ATAAT -ATA-AT ATAAT ATAAT
68759654 GGACATTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 5 0.09
5 36 0.62
6 15 0.26
7 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:68759611 original size:26 final size:27
Alignment explanation
Indices: 68759538--68759621 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 27
68759528 AGAAAATATT
68759538 TAAT-TAAT-AAAATATTAATAATACATA
1 TAATATAATAAAAAT-TTAAT-ATACATA
* * * *
68759565 TACTATAGAGAATAATATAATAT-CATA
1 TAATATA-ATAAAAATTTAATATACATA
68759592 TAATATAATAAAAATTTAAT-TACATA
1 TAATATAATAAAAATTTAATATACATA
68759618 TAAT
1 TAAT
68759622 TTAAAAGTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
25 1 0.02
26 18 0.40
27 13 0.29
28 4 0.09
29 5 0.11
30 4 0.09
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (27 bp):
TAATATAATAAAAATTTAATATACATA
Found at i:68761957 original size:206 final size:206
Alignment explanation
Indices: 68761551--68762431 Score: 1361
Period size: 206 Copynumber: 4.3 Consensus size: 206
68761541 TAAATCTGCT
* * *
68761551 TCTTCGATTTGTTCCTCGTAAACACAAGTATGCTAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
* ** * * * * * *
68761616 TCTGGAGGTTAGATCTGCTATGTATATGCTATTCGTCGAA-ATGGAGATGCCAGACTTCGATTTT
66 TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
* * *
68761680 TTCTCTGACAATACAGAGATGCCAAATCATATTAGATTTGCTTCATCGCAAACACGTGGAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
68761745 AATCAGCTATG
196 AATCAGCTATG
*
68761756 TCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
* * * * *
68761821 TCTGAAGGCCAGATCTACTATGTATCTGTTCGCCGTCGAATATGGAGACTCCAAACTTTGATTTG
66 TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
* *
68761886 TTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGGAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
68761951 AATCAGCTATG
196 AATCAGCTATG
* * *
68761962 TCTTTGATTTGTTCTTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
* * *
68762027 TCTGAAGACCAGATCTGCTATGTATCTGCTTTCCATCGAATATGGAGACGCCAAACTTCGATTTG
66 TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
* *
68762092 TTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
68762157 AATCAGCTATG
196 AATCAGCTATG
* * * *
68762168 AT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTAGATCTACTTCAGTCTAATC
1 -TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* * *
68762232 ATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAAATTTGATTT
65 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTT
* *
68762297 GTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTTAAAGCC
130 GTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCC
68762362 AAATCAGCTATG
195 AAATCAGCTATG
*
68762374 TCTTCGATTTGTTCCTTGTAAACACAAGGATGTCAAATCATCTTGGATCTTGCTTCAG
1 TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATC-TGCTTCAG
68762432 CCAGATCTAC
Statistics
Matches: 619, Mismatches: 53, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
205 93 0.15
206 518 0.84
207 8 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (206 bp):
TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
TCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
AATCAGCTATG
Found at i:68774039 original size:23 final size:23
Alignment explanation
Indices: 68773982--68774039 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
68773972 ATACAATTAG
* *
68773982 ACATATAAATATATACAAAACAA
1 ACATATATATATATAAAAAACAA
** *
68774005 ATGTA-ATAATATATAAAAAATAA
1 ACATATAT-ATATATAAAAAACAA
68774028 ACATATATATAT
1 ACATATATATAT
68774040 CAAACAAACA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
22 1 0.04
23 23 0.88
24 2 0.08
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (23 bp):
ACATATATATATATAAAAAACAA
Found at i:68774361 original size:5 final size:5
Alignment explanation
Indices: 68774353--68774430 Score: 52
Period size: 5 Copynumber: 15.0 Consensus size: 5
68774343 ACTATAGAGA
* * * * *
68774353 ATAAT ATAAT ATCAT ATAAT ATAAT AAAAAT TTAAT -TACAT ATAAT TTAAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATA-AT ATAAT ATAAT
68774404 AGTAA- ATAAT AATAGAT ATAAT ATAAT
1 A-TAAT ATAAT -ATA-AT ATAAT ATAAT
68774431 GGACAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 5 0.09
5 36 0.62
6 15 0.26
7 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:68774388 original size:26 final size:27
Alignment explanation
Indices: 68774315--68774398 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 27
68774305 AGAAAATATT
68774315 TAAT-TAAT-AAAATATTAATAATACATA
1 TAATATAATAAAAAT-TTAAT-ATACATA
* * * *
68774342 TACTATAGAGAATAATATAATAT-CATA
1 TAATATA-ATAAAAATTTAATATACATA
68774369 TAATATAATAAAAATTTAAT-TACATA
1 TAATATAATAAAAATTTAATATACATA
68774395 TAAT
1 TAAT
68774399 TTAAAAGTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
25 1 0.02
26 18 0.40
27 13 0.29
28 4 0.09
29 5 0.11
30 4 0.09
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (27 bp):
TAATATAATAAAAATTTAATATACATA
Found at i:68778649 original size:28 final size:28
Alignment explanation
Indices: 68778616--68778674 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
68778606 TTGGCATTTA
*
68778616 GTAATCACCTAAATGATATGTCATTGGC
1 GTAATCACCTAAATGATATGTCATTAGC
*
68778644 GTAATCACCTATATGATATGTCATTAGC
1 GTAATCACCTAAATGATATGTCATTAGC
68778672 GTA
1 GTA
68778675 CTGAGTCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (28 bp):
GTAATCACCTAAATGATATGTCATTAGC
Found at i:68782802 original size:30 final size:30
Alignment explanation
Indices: 68782768--68782828 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
68782758 AATATCCATG
68782768 ATCCATAAACATTTCACAATTTCATAACAT
1 ATCCATAAACATTTCACAATTTCATAACAT
68782798 ATCCATAAACATTTCACAATTTCATAACAT
1 ATCCATAAACATTTCACAATTTCATAACAT
68782828 A
1 A
68782829 CTTAACATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (30 bp):
ATCCATAAACATTTCACAATTTCATAACAT
Found at i:68783720 original size:20 final size:19
Alignment explanation
Indices: 68783681--68783720 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
68783671 TAATTAGTTT
**
68783681 TAAATTAAACTTAATTTAA
1 TAAATTAAACTTAAACTAA
68783700 TAAATTAAAACTTAAACTAA
1 TAAATT-AAACTTAAACTAA
68783720 T
1 T
68783721 TAAGCTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATTAAACTTAAACTAA
Found at i:68784595 original size:88 final size:86
Alignment explanation
Indices: 68784455--68784644 Score: 249
Period size: 88 Copynumber: 2.2 Consensus size: 86
68784445 CAGAAAAAGC
* * *
68784455 AATTAAGCCCCTAC--TTTTTTTTGCATTCATTTGGGTACTTGAACTTTCAAAATGAATCAAAAA
1 AATTAAGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAA
* * *
68784518 GGCCCTCAAACCTTTTTAAAAAT
66 GACCCTCAAA-C-TTTAAAAAAA
* * * *
68784541 AATTACGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTTAAAATGCATCAAAAC
1 AATTAAGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAA
*
68784606 TACCCTCAAACTTTAAAAAAA
66 GACCCTCAAACTTTAAAAAAA
68784627 AATTAAGCCCCTACTTTT
1 AATTAAGCCCCTACTTTT
68784645 ATTAAAGATT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 38 0.42
87 1 0.01
88 51 0.57
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (86 bp):
AATTAAGCCCCTACTTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAA
GACCCTCAAACTTTAAAAAAA
Found at i:68785140 original size:55 final size:56
Alignment explanation
Indices: 68785036--68785157 Score: 140
Period size: 55 Copynumber: 2.2 Consensus size: 56
68785026 AGGGGTCATT
* * * *
68785036 AATTTTTATGATTTTTATAAAATTTTACAATTTTTTATTTTTTACAATTTTTAT-TA
1 AATTTTAATAATTTTTATAAAATTTTACAATTTATTATTTATTACAATTTTT-TCTA
* ** *
68785092 AATTTTAATAATTTTTCTAAAA-TTTATTATTTATTATTTATTATAATTTTTTCTA
1 AATTTTAATAATTTTTATAAAATTTTACAATTTATTATTTATTACAATTTTTTCTA
*
68785147 ATTTTTAATAA
1 AATTTTAATAA
68785158 GAGCAGAGGC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
54 1 0.02
55 36 0.64
56 19 0.34
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (56 bp):
AATTTTAATAATTTTTATAAAATTTTACAATTTATTATTTATTACAATTTTTTCTA
Found at i:68785308 original size:87 final size:85
Alignment explanation
Indices: 68785165--68785377 Score: 234
Period size: 87 Copynumber: 2.5 Consensus size: 85
68785155 TAAGAGCAGA
* * ** * *
68785165 GGCTTAATTACTTTTTTGAAAAATTTTGA-GTTTTTTTGATGCATTTTGAAAGTTCAAATACCT-
1 GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTAATGCATTTTGAAAATTCAAAT-CCTC
* *
68785228 AGTTGAGTG-AAAAAAAGCAG
65 AATTGAGTGAAAAAAAAGAAG
* * * *
68785248 GAGCTTAATTGTTTTTTTTAAAGAAGTTTGAGGGCCTTTTTAATGCATTTTGAAAATTCAAGTGC
1 G-GCTTAATTGCTTTTTTGAAA-AAGTTTGAGGG-CTTTTTAATGCATTTTGAAAATTCAAATCC
68785313 TCAATTGAGTGCAAAAAAAAAAGAAG
63 TCAATTGAGTG---AAAAAAAAGAAG
68785339 GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTA
1 GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTA
68785378 CACCATTAAG
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
83 1 0.01
84 17 0.16
85 7 0.07
86 3 0.03
87 32 0.30
88 7 0.07
89 11 0.10
90 18 0.17
91 11 0.10
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (85 bp):
GGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTAATGCATTTTGAAAATTCAAATCCTCA
ATTGAGTGAAAAAAAAGAAG
Found at i:68787376 original size:26 final size:26
Alignment explanation
Indices: 68787347--68787501 Score: 82
Period size: 26 Copynumber: 6.2 Consensus size: 26
68787337 ATATAATAGA
68787347 AAGCTCACAAAGAGCCATTAATCAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
68787373 AAGCTCACAAATG-GCCTATT-A-C--G
1 AAGCTCACAAA-GAGCC-ATTAATCAGG
* * * *
68787396 AAGCTTATC--CGGGCAATATAAT-AGG
1 AAGCTCA-CAAAGAGCCAT-TAATCAGG
*
68787421 AAGCTCA-TAAGAGCCA-TAATCAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* **** *
68787445 AAGTTCACAAAGAATTTTTAATCAAG
1 AAGCTCACAAAGAGCCATTAATCAGG
68787471 AAGCTCACAAAGAGCC-TTCAATCAGG
1 AAGCTCACAAAGAGCCATT-AATCAGG
68787497 -AGCTC
1 AAGCTC
68787502 CAGATAGCCA
Statistics
Matches: 95, Mismatches: 19, Indels: 31
0.66 0.13 0.21
Matches are distributed among these distances:
21 3 0.03
22 3 0.03
23 12 0.13
24 10 0.11
25 23 0.24
26 40 0.42
27 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCATTAATCAGG
Found at i:68793110 original size:46 final size:47
Alignment explanation
Indices: 68793044--68793169 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 47
68793034 CACATTGTCA
* * *
68793044 CACATCACACACCGAAGCCATAGCCC-TGCCATGGTCTTACACGG-AT
1 CACATAACATACCGATGCCATAGCCCAT-CCATGGTCTTACACGGAAT
* * *
68793090 CACATAACATACCGATGCCATATCCCATCTATGGTCTTATACGGAAT
1 CACATAACATACCGATGCCATAGCCCATCCATGGTCTTACACGGAAT
68793137 CACATTATCACATCACACCGATGCCATAGCCCA
1 CACA-TA--ACAT---ACCGATGCCATAGCCCA
68793170 GTTGTGGTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
46 36 0.55
47 7 0.11
48 2 0.03
50 4 0.06
53 16 0.25
ACGTcount: A:0.31, C:0.34, G:0.13, T:0.21
Consensus pattern (47 bp):
CACATAACATACCGATGCCATAGCCCATCCATGGTCTTACACGGAAT
Found at i:68793230 original size:52 final size:52
Alignment explanation
Indices: 68793088--68793254 Score: 192
Period size: 52 Copynumber: 3.2 Consensus size: 52
68793078 TCTTACACGG
* * *
68793088 ATCACATAACATACCGATGCCATATCCCATCTATGGTCTTATACGGAATCACATT
1 ATCACAT--CATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACA-T
* * * * *
68793143 ATCACATCACACCGATGCCATAGCCCAGTTGTGGTCTTATACGGGAA-CACAA
1 ATCACATCATACCGATGCCATAACCCAGCTATGGTCTTATAC-GGAAGCACAT
** *
68793195 ATCACATTGTACCGATGCCATAACCTAGCTATGGTCTTATACGGAAGCACAT
1 ATCACATCATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACAT
68793247 ATCACATC
1 ATCACATC
68793255 TTTTCCGTCA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
51 4 0.04
52 46 0.48
53 34 0.36
54 4 0.04
55 7 0.07
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (52 bp):
ATCACATCATACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACAT
Found at i:68795931 original size:28 final size:28
Alignment explanation
Indices: 68795887--68795940 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
68795877 CTTATATTAT
* *
68795887 TATATTTTATTTAAATA-AGTTTTAATC
1 TATATTTGATTTAAATATAATTTTAATC
*
68795914 TATATCTTGATTTTAATATAATTTTAA
1 TATAT-TTGATTTAAATATAATTTTAA
68795941 ATTAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 10 0.45
29 7 0.32
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (28 bp):
TATATTTGATTTAAATATAATTTTAATC
Found at i:68799634 original size:19 final size:19
Alignment explanation
Indices: 68799598--68799636 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
68799588 TATTATTAAT
**
68799598 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
68799617 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
68799636 A
1 A
68799637 ATTAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:68810871 original size:22 final size:22
Alignment explanation
Indices: 68810845--68810893 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
68810835 TCATGTTTCA
*
68810845 AGACAAATGAGTGTATGTCTTG
1 AGACAAAGGAGTGTATGTCTTG
* *
68810867 GGACAAAGGAGTTTATGTCTTG
1 AGACAAAGGAGTGTATGTCTTG
68810889 AGACA
1 AGACA
68810894 TGACCTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (22 bp):
AGACAAAGGAGTGTATGTCTTG
Found at i:68812348 original size:26 final size:27
Alignment explanation
Indices: 68812245--68812354 Score: 83
Period size: 26 Copynumber: 4.3 Consensus size: 27
68812235 AGCATCCTGA
*
68812245 TATATGGCTCTTTGTGAGCTTCCCAAT
1 TATATGGCTATTTGTGAGCTTCCCAAT
* *
68812272 TA-AAGGCTCTTTGTGAGCTTCCCAA-
1 TATATGGCTATTTGTGAGCTTCCCAAT
* * * *
68812297 TAT-TAGCTCA-CT-TGAACTT-CCTAT
1 TATATGGCT-ATTTGTGAGCTTCCCAAT
*
68812321 TATATGGCTATTT-AGAGCTTCCCAAT
1 TATATGGCTATTTGTGAGCTTCCCAAT
68812347 TA-ATGGCT
1 TATATGGCT
68812355 CTTCGAAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
23 3 0.05
24 10 0.15
25 22 0.34
26 28 0.43
27 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (27 bp):
TATATGGCTATTTGTGAGCTTCCCAAT
Found at i:68819056 original size:27 final size:27
Alignment explanation
Indices: 68819033--68819129 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
68819023 TGTAAATTAG
*
68819033 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
* * * * * *
68819060 GGATGTTTCGGTAATTTCACAAGCCAA
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
68819087 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
*
68819114 GGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATT
68819130 CTACCCTATT
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:68819197 original size:27 final size:27
Alignment explanation
Indices: 68819161--68819252 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
68819151 GTAATTTCAC
*
68819161 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
68819188 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
68819215 AATCGATGGTAGAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
68819242 AATCGGGGGTA
1 AATCGAGGGTA
68819253 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:68821554 original size:31 final size:31
Alignment explanation
Indices: 68821516--68821594 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
68821506 TTTAACGGTT
68821516 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
68821547 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
68821578 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
68821595 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:68821665 original size:42 final size:42
Alignment explanation
Indices: 68821618--68821709 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
68821608 TGGCCCTTAG
* ** *
68821618 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
68821660 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
68821702 GCCCATTT
1 GCCCATTT
68821710 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:68821885 original size:25 final size:25
Alignment explanation
Indices: 68821857--68821926 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
68821847 CTCTTTTAAT
*
68821857 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
68821882 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
68821907 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
68821927 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:68822764 original size:27 final size:27
Alignment explanation
Indices: 68822734--68822798 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
68822724 GGGCATATTC
68822734 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
68822761 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
68822788 GTCTTTTTACC
1 GTCATTTTACC
68822799 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:68822900 original size:27 final size:27
Alignment explanation
Indices: 68822883--68822982 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
68822873 TTTTGTAAAT
*
68822883 TAGGGGTATTTTGGTAATTTTACAAAT
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * * * *
68822910 TAAGGATGTTTCGGTAATTTCACAAGC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
68822937 CAGTGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
68822964 TAGGGGTGTTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
68822983 CTACCCTATT
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:68823050 original size:27 final size:27
Alignment explanation
Indices: 68823014--68823105 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
68823004 GTAATTTCAC
*
68823014 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* **
68823041 AATCGAGGGTAAAATGGTAATTCCATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
68823068 AATCGATGGTAGAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
68823095 AATCGGGGGTA
1 AATCGAGGGTA
68823106 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:68827521 original size:43 final size:41
Alignment explanation
Indices: 68827485--68827598 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 41
68827475 TCCCTGATGT
68827485 GGTCTTACAT-GTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTAC-TCGTAATCACATATCGATGCCACTGTCCCAG--AG
* *
68827528 GGTCTTACTCGTAGTCACATATCGACGCCACTGTCCCAGAG
1 GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGAG
*
68827569 AAGGTCTTACTCGTATTCACATATCGATGC
1 --GGTCTTACTCGTAATCACATATCGATGC
68827599 TAATGTATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 2 0.03
42 1 0.02
43 61 0.95
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (41 bp):
GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGAG
Found at i:68831785 original size:40 final size:40
Alignment explanation
Indices: 68831704--68831925 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
68831694 CAACCAAGTA
** * *
68831704 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
68831743 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
68831783 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
68831823 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
** * * * *
68831863 CCTTCGGGACTTAGCCTAG-AATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
68831903 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
68831926 CATCCGAATA
Statistics
Matches: 162, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.09
40 147 0.91
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:68834055 original size:127 final size:127
Alignment explanation
Indices: 68833913--68834142 Score: 322
Period size: 127 Copynumber: 1.8 Consensus size: 127
68833903 AATTTTAAAA
* *
68833913 GGATATTCGGTTATTTAGGTTAAACGAGAAAAATCAAA-ACCTAGTAAGTTAGGGCACGATTTCT
1 GGATATTCGGCTATTTAGGTTAAACGAGAAAAATCAAACACC--GTAAGTTAGGGCACGACTTCT
68833977 CGAATTTCC-AAACACGAAATATTGCCTTATTTT-AAAATTATCATGCATTTTTTACAATTGAAG
64 CGAATTTCCAAAACACGAAATATT-CCTTATTTTCAAAATTATCATGCATTTTTTACAATTGAAG
* * * * * *
68834040 GGATATTTGGCTATTTAGGTTTAACGAGAAAATTGAAACACCGTAAGTTATGGTACGACTTCTCG
1 GGATATTCGGCTATTTAGGTTAAACGAGAAAAATCAAACACCGTAAGTTAGGGCACGACTTCTCG
* *
68834105 TATTTCCAAAACACGAAATATTCCTTGTTTTCAAAATT
66 AATTTCCAAAACACGAAATATTCCTTATTTTCAAAATT
68834143 TTCTTTTGTT
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
126 34 0.38
127 53 0.59
128 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (127 bp):
GGATATTCGGCTATTTAGGTTAAACGAGAAAAATCAAACACCGTAAGTTAGGGCACGACTTCTCG
AATTTCCAAAACACGAAATATTCCTTATTTTCAAAATTATCATGCATTTTTTACAATTGAAG
Found at i:68836394 original size:4 final size:4
Alignment explanation
Indices: 68836387--68836419 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
68836377 GGGGCTAATT
68836387 ATAA AT-A ATAA ATAA ATAA ATAA ATGAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA A
68836420 AGATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:68836505 original size:3 final size:3
Alignment explanation
Indices: 68836497--68836546 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
68836487 ATAAAATGAT
*
68836497 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
68836545 AA
1 AA
68836547 TAATAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:68840120 original size:41 final size:41
Alignment explanation
Indices: 68840063--68840212 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
68840053 TTGGGGTTTA
68840063 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
68840104 AATCCGAGCTTGGTCTCGAAGAGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
68840145 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
68840185 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
68840213 TGAGTCAGCG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:68842407 original size:42 final size:42
Alignment explanation
Indices: 68842358--68842452 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
68842348 TCCCAAACAG
* *
68842358 GGTCTTACACG-AAATCAAACACGAAGCCAACGTCCCATACGT
1 GGTCTTACACGAAAACCAAA-ACGAAGCCAACATCCCATACGT
* * *
68842400 GGTCTTACACGTAAAAACCAAATCGATGCCAACATCCTATACGT
1 GGTCTTACACG--AAAACCAAAACGAAGCCAACATCCCATACGT
68842444 GGTCTTACA
1 GGTCTTACA
68842453 TGATTTCACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 11 0.24
44 27 0.60
45 7 0.16
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (42 bp):
GGTCTTACACGAAAACCAAAACGAAGCCAACATCCCATACGT
Done.