Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 74 of 444
Found at i:17526286 original size:40 final size:40
Alignment explanation
Indices: 17526230--17526518 Score: 140
Period size: 41 Copynumber: 7.1 Consensus size: 40
17526220 GCAAAAATTG
* *
17526230 TAAAACACAGAGCAATAGTGGCGTTTTACTAAAAATGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTACTAAAAACGCCGC
* * * ** *
17526271 TAAAAATAGTGCAATAGCGGCTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTACTAAAAACGCCGC
** *
17526311 TAAAAACAGAGCAATAGCGGCGCTTTTGGT-AAAACGCTGC
1 TAAAAACAGAGCAATAGCGGCG-TTTTACTAAAAACGCCGC
* * * * **
17526351 TAAAAGTCGGAGCATTAGCGGCTCTTTTGGT-AAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGC-GTTTTACTAAAAACGCCGC
* * * * ** *
17526392 TAAAAGTCAAAGCATTAGCGACGCTTTTGGT-AAAACACCGC
1 TAAAA-ACAGAGCAATAGCGGCG-TTTTACTAAAAACGCCGC
* * * **
17526433 TAAAAGTCGGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCG-TTTTACTAAAAACGCCGC
* * * *
17526474 TAAAAGTCGGAGCATTAACGGCGCTTTTGA-T-AAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCG-TTTT-ACTAAAAACGCCGC
17526515 TAAA
1 TAAA
17526519 TATAACCCCT
Statistics
Matches: 214, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
40 60 0.28
41 154 0.72
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTACTAAAAACGCCGC
Found at i:17526378 original size:41 final size:41
Alignment explanation
Indices: 17526285--17526518 Score: 335
Period size: 41 Copynumber: 5.7 Consensus size: 41
17526275 AATAGTGCAA
** * * * *
17526285 TAGCGGCTTTTTTGTTAAAACGCCGCTAAAA-ACAGAGCAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
*
17526325 TAGCGGCGCTTTTGGTAAAACGCTGCTAAAAGTCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
* **
17526366 TAGCGGCTCTTTTGGTAAAACGCCGCTAAAAGTCAAAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
* *
17526407 TAGCGACGCTTTTGGTAAAACACCGCTAAAAGTCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
17526448 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
* *
17526489 TAACGGCGCTTTTGATAAAACGCCGCTAAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAA
17526519 TATAACCCCT
Statistics
Matches: 173, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 27 0.16
41 146 0.84
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAT
Found at i:17526802 original size:15 final size:15
Alignment explanation
Indices: 17526763--17526813 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
17526753 CGGTTTAATA
*
17526763 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
17526777 TCTATGATTTAGGGT
1 TTTATGGTTTAAGGT
17526792 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
17526807 TTAATGG
1 TTTATGG
17526814 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:17527913 original size:4 final size:4
Alignment explanation
Indices: 17527900--17527935 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
17527890 AAGTGGATGG
17527900 TAAA -AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
17527936 TATTATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:17527985 original size:18 final size:18
Alignment explanation
Indices: 17527962--17527996 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17527952 TAGTAACAAA
*
17527962 AGTAAATAAAAGAAACAG
1 AGTAAAGAAAAGAAACAG
17527980 AGTAAAGAAAAGAAACA
1 AGTAAAGAAAAGAAACA
17527997 AAAAGAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.09
Consensus pattern (18 bp):
AGTAAAGAAAAGAAACAG
Found at i:17528008 original size:27 final size:30
Alignment explanation
Indices: 17527969--17528023 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
17527959 AAAAGTAAAT
*
17527969 AAAAGAAACAGAGTAAAGA-AA-AGAAACA
1 AAAAGAAACAGAGAAAAGAGAACAGAAACA
*
17527997 AAAAG-AATAGAGAAAAGAGAACAGAAA
1 AAAAGAAACAGAGAAAAGAGAACAGAAA
17528024 GCATTCGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.71, C:0.05, G:0.20, T:0.04
Consensus pattern (30 bp):
AAAAGAAACAGAGAAAAGAGAACAGAAACA
Found at i:17529578 original size:23 final size:23
Alignment explanation
Indices: 17529548--17529634 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
17529538 GCTTCACTGA
* *
17529548 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
17529571 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
17529592 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
17529614 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
17529635 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:17535916 original size:18 final size:18
Alignment explanation
Indices: 17535893--17535927 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17535883 TAGTAACAAA
*
17535893 AGTAAATAAAAGAAACAG
1 AGTAAAGAAAAGAAACAG
17535911 AGTAAAGAAAAGAAACA
1 AGTAAAGAAAAGAAACA
17535928 AAAAGAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.09
Consensus pattern (18 bp):
AGTAAAGAAAAGAAACAG
Found at i:17535939 original size:27 final size:30
Alignment explanation
Indices: 17535900--17535954 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
17535890 AAAAGTAAAT
*
17535900 AAAAGAAACAGAGTAAAGA-AA-AGAAACA
1 AAAAGAAACAGAGAAAAGAGAACAGAAACA
*
17535928 AAAAG-AATAGAGAAAAGAGAACAGAAA
1 AAAAGAAACAGAGAAAAGAGAACAGAAA
17535955 GCATTCGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.71, C:0.05, G:0.20, T:0.04
Consensus pattern (30 bp):
AAAAGAAACAGAGAAAAGAGAACAGAAACA
Found at i:17537508 original size:23 final size:23
Alignment explanation
Indices: 17537478--17537564 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
17537468 GCTTTACTGA
* *
17537478 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
17537501 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
17537522 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
17537544 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
17537565 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:17544208 original size:43 final size:43
Alignment explanation
Indices: 17544116--17544385 Score: 267
Period size: 43 Copynumber: 6.3 Consensus size: 43
17544106 GTTTATATTT
* * ***
17544116 TTTAGCGGCGTTTGTCA-AAAAAGCGTCGCTAAAGGTC-TGTTA
1 TTTAGCGGCGTTTGT-AGAAAAAGCGCCGCTAAAAGTCATGACC
* * * **
17544158 TATAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCATGACC
** *
17544201 TTTAGCGGCGTCTTCAAG-AAAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGT-TTGTAGAAAAAGCGCCGCTAAAAGTCATGACC
* * * *
17544244 TTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAAGTCATGACTT
1 TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCATGAC-C
* * *
17544288 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCATGACC
* * * * *
17544331 TTTAGCAGCGTTTGTGGGAAAAGCACCGTTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCATGACC
17544374 TTTAGCGGCGTT
1 TTTAGCGGCGTT
17544386 ACCAATAGCG
Statistics
Matches: 199, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 35 0.18
43 119 0.60
44 44 0.22
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTCATGACC
Found at i:17544320 original size:87 final size:87
Alignment explanation
Indices: 17544116--17544385 Score: 293
Period size: 87 Copynumber: 3.1 Consensus size: 87
17544106 GTTTATATTT
*** * * * *
17544116 TTTAGCGGCGTTTGTCAA-AAAAGCG-TCGCTAAAGGTC-TGTTATATAGCGGCGTTTTTAGAAA
1 TTTAGCGGCGTTTGT-AAGAAAAGCGCT-GCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAA
* * *
17544178 AAGCGCCGCTAAAGGTCATG-GTC
64 AAGCGACGCTAAAAGTCATGACTC
* *
17544201 TTTAGCGGCGTCTT-CAAGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAA
1 TTTAGCGGCGT-TTGTAAGAAAAGCGCTGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAA
*
17544265 AGCGACGCTAAAAGTCATGACTT
65 AGCGACGCTAAAAGTCATGACTC
** * *
17544288 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAAGTCATGACCTTTAGCAGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTAAGAAAAGCGCTGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAA
*
17544353 GC-ACCGTTAAAAGTCATGAC-C
66 GCGA-CGCTAAAAGTCATGACTC
17544374 TTTAGCGGCGTT
1 TTTAGCGGCGTT
17544386 ACCAATAGCG
Statistics
Matches: 157, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
84 2 0.01
85 28 0.18
86 53 0.34
87 74 0.47
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (87 bp):
TTTAGCGGCGTTTGTAAGAAAAGCGCTGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAA
GCGACGCTAAAAGTCATGACTC
Found at i:17544334 original size:130 final size:128
Alignment explanation
Indices: 17544116--17544385 Score: 310
Period size: 130 Copynumber: 2.1 Consensus size: 128
17544106 GTTTATATTT
* * *
17544116 TTTAGCGGCGTTTGTCAAAAAAGCGTCGCTAAAGGTCTGTTATATAGCGGCGTTTTTAGAAAAAG
1 TTTAGCGGCGTTTGTCAAAAAAGCGACGCTAAAAGTCTGTTATATAGCGGCGTTTGTAGAAAAAG
* ** * * *
17544181 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTCTT-CAAGAAAAGCGCCGCTAAAGGTCATGACC
66 CGCCGCTAAAAGTCATGACCTTTAGCAGCGT-TTGCAAGAAAAGCACCGCTAAAAGTCATGACC
*** * * *
17544244 TTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAAGTCATGACTT-TTTAGCGGCGTTTGTGGGAA
1 TTTAGCGGCGTTTGTCAAAAAAGCGACGCTAAAAGTC-TG--TTATATAGCGGCGTTTGTAGAAA
* *** *
17544308 AAGCGCTGCTAAAAGTCATGACCTTTAGCAGCGTTTGTGGGAAAAGCACCGTTAAAAGTCATGAC
63 AAGCGCCGCTAAAAGTCATGACCTTTAGCAGCGTTTGCAAGAAAAGCACCGCTAAAAGTCATGAC
17544373 C
128 C
17544374 TTTAGCGGCGTT
1 TTTAGCGGCGTT
17544386 ACCAATAGCG
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
128 32 0.27
129 4 0.03
130 80 0.68
131 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (128 bp):
TTTAGCGGCGTTTGTCAAAAAAGCGACGCTAAAAGTCTGTTATATAGCGGCGTTTGTAGAAAAAG
CGCCGCTAAAAGTCATGACCTTTAGCAGCGTTTGCAAGAAAAGCACCGCTAAAAGTCATGACC
Found at i:17546664 original size:24 final size:24
Alignment explanation
Indices: 17546596--17546664 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
17546586 AATGTTAGGC
* *
17546596 GGCTTGACCACAACGTTATTAAGT
1 GGCTTGACCACAACATTATTGAGT
* *
17546620 GGCTTGGCCACAACACTATTGAGT
1 GGCTTGACCACAACATTATTGAGT
*
17546644 GGCTTGTCCACAACATTATTG
1 GGCTTGACCACAACATTATTG
17546665 TAACGCCCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
GGCTTGACCACAACATTATTGAGT
Found at i:17547034 original size:26 final size:26
Alignment explanation
Indices: 17546996--17547079 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
17546986 TGATACAAAT
** *
17546996 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17547022 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17547048 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17547074 TGATAA
1 TGATAA
17547080 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:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:17551093 original size:53 final size:53
Alignment explanation
Indices: 17551013--17551120 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
17551003 AATGTATTAT
17551013 AATACATAAAAAGATATGAATTGAGTTGTCTTTCTCCTAGTTTCTTCTAGAGG
1 AATACATAAAAAGATATGAATTGAGTTGTCTTTCTCCTAGTTTCTTCTAGAGG
17551066 AATACATAAAAAGATATGAATTGAGTTGTCTTTCTCCTAGTTTCTTCTAGAGG
1 AATACATAAAAAGATATGAATTGAGTTGTCTTTCTCCTAGTTTCTTCTAGAGG
17551119 AA
1 AA
17551121 GCCAATACTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (53 bp):
AATACATAAAAAGATATGAATTGAGTTGTCTTTCTCCTAGTTTCTTCTAGAGG
Found at i:17552175 original size:46 final size:46
Alignment explanation
Indices: 17552056--17552176 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
17552046 AATTAGCTCT
* * * *
17552056 TTGTGCCTACCAGGCTTTATACCAGTGTACTGTAATGTATTGGGCC
1 TTGTGCCTAGCAGGCTTTATACCGGTGTACTGTAATGTATCGAGCC
* * *
17552102 TTATGCCTAGCAGGTTTTATGCCGGTGTACTGTAATGTATCGAGCC
1 TTGTGCCTAGCAGGCTTTATACCGGTGTACTGTAATGTATCGAGCC
* *
17552148 TTGTGCCTAGCAGGCTTCATACTGGTGTA
1 TTGTGCCTAGCAGGCTTTATACCGGTGTA
17552177 TCTATCGAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (46 bp):
TTGTGCCTAGCAGGCTTTATACCGGTGTACTGTAATGTATCGAGCC
Found at i:17552215 original size:40 final size:40
Alignment explanation
Indices: 17552132--17552246 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 40
17552122 GCCGGTGTAC
* *
17552132 TGTAATGTATCGAGCCTT-GTGCCTAGCAGGCTTCATACTGG
1 TGTAAT-TATCGAG-CTTAATGCCTAGCAGGCTTCATACCGG
* *
17552173 TGT-ATCTATCGAGCTTAATGCCTAGCAGGCTTCGTGCCGG
1 TGTAAT-TATCGAGCTTAATGCCTAGCAGGCTTCATACCGG
* * *
17552213 TGTAATTGTCGGGCTTAATGCCCTAGTAGGCTTC
1 TGTAATTATCGAGCTTAATG-CCTAGCAGGCTTC
17552247 TGGTCGGTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.05
40 43 0.68
41 17 0.27
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (40 bp):
TGTAATTATCGAGCTTAATGCCTAGCAGGCTTCATACCGG
Found at i:17560253 original size:29 final size:28
Alignment explanation
Indices: 17560217--17560369 Score: 82
Period size: 29 Copynumber: 5.2 Consensus size: 28
17560207 TCAAAAAAAC
*
17560217 TTAT-AAATATTATAAAAATTCTAATATA
1 TTATAAAATATTATAAAAATTATAA-ATA
* *
17560245 TTATAAAATAATATAAAACATATTTAAAATA
1 TTATAAAATATTATAAAA-AT-TAT-AAATA
* * *
17560276 TT-TAAAACT-TTCTATAAACTTATAAAAA
1 TTATAAAA-TATTATA-AAAATTATAAATA
* *
17560304 TTATAAAA-ATTCATAAAAGCTTATAAATT
1 TTATAAAATATT-ATAAAA-ATTATAAATA
* *
17560333 TTATAAAA-ACTTATAAAAAATTCTAATAAA
1 TTATAAAATA-TTAT-AAAAATTATAA-ATA
17560363 TTATAAA
1 TTATAAA
17560370 TAATCCCAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
28 15 0.15
29 45 0.46
30 25 0.26
31 11 0.11
32 2 0.02
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (28 bp):
TTATAAAATATTATAAAAATTATAAATA
Found at i:17560319 original size:10 final size:9
Alignment explanation
Indices: 17560193--17560369 Score: 95
Period size: 10 Copynumber: 18.1 Consensus size: 9
17560183 ATAAACTTGT
17560193 AAATTATAAA
1 AAATTAT-AA
*
17560203 AAATTCAAAA
1 AAATT-ATAA
17560213 AAACTTATAA
1 AAA-TTATAA
*
17560223 ATATTATAA
1 AAATTATAA
*
17560232 AAATTCTAA
1 AAATTATAA
*
17560241 TATATTATAA
1 -AAATTATAA
*
17560251 AATAATATAA
1 AA-ATTATAA
*
17560261 AACATATTTAA
1 AA-AT-TATAA
17560272 AATATT-TAA
1 AA-ATTATAA
* *
17560281 AACTTTCTATA
1 AA-ATTATA-A
*
17560292 AACTTATAA
1 AAATTATAA
17560301 AAATTATAA
1 AAATTATAA
17560310 AAATTCATAA
1 AAATT-ATAA
*
17560320 AAGCTTATAA
1 AA-ATTATAA
**
17560330 ATTTTATAA
1 AAATTATAA
17560339 AAACTTATAAA
1 AAA-TTAT-AA
*
17560350 AAATTCTAA
1 AAATTATAA
17560359 TAAATTATAA
1 -AAATTATAA
17560369 A
1 A
17560370 TAATCCCAAT
Statistics
Matches: 130, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
9 45 0.35
10 64 0.49
11 21 0.16
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:17561198 original size:50 final size:47
Alignment explanation
Indices: 17561116--17561235 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 47
17561106 TTTATAAATT
* * **
17561116 TTATAATTTGTTAGATATTTTTA-TATTATTTATAAGTTTTTATAAGTCA
1 TTATAAATT-TTA-ATATTTTTACTAAT-TTTATAAAATTTTATAAGTCA
* *
17561165 TTATAAAATTTTAAATATGTTTTACTAATTTTATAAAATTTTATAATTTA
1 TTAT-AAATTTT-AATAT-TTTTACTAATTTTATAAAATTTTATAAGTCA
17561215 TTATAAATTTTAATATTTTTA
1 TTATAAATTTTAATATTTTTA
17561236 ATTTGTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
47 5 0.08
48 5 0.08
49 17 0.28
50 31 0.51
51 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (47 bp):
TTATAAATTTTAATATTTTTACTAATTTTATAAAATTTTATAAGTCA
Found at i:17561213 original size:18 final size:20
Alignment explanation
Indices: 17561184--17561226 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
17561174 TTTAAATATG
17561184 TTTTACTAA-TT-TTATAAAA
1 TTTTACTAATTTATTAT-AAA
17561203 TTTTA-TAATTTATTATAAA
1 TTTTACTAATTTATTATAAA
17561222 TTTTA
1 TTTTA
17561227 ATATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.14
19 15 0.68
20 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTACTAATTTATTATAAA
Found at i:17561237 original size:26 final size:27
Alignment explanation
Indices: 17561202--17561252 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
17561192 ATTTTATAAA
17561202 ATTTTATAATTTATTATAAATTTTAAT
1 ATTTTATAATTTATTATAAATTTTAAT
*
17561229 ATTTT-TAATTTGTTATAAATTTTA
1 ATTTTATAATTTATTATAAATTTTA
17561253 TGAGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTTTATAATTTATTATAAATTTTAAT
Found at i:17568326 original size:14 final size:16
Alignment explanation
Indices: 17568307--17568340 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17568297 TGCATTCACT
17568307 TTGATA-TTC-CACCA
1 TTGATATTTCTCACCA
17568321 TTGATATTTCTCACCA
1 TTGATATTTCTCACCA
17568337 TTGA
1 TTGA
17568341 AAATGGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 3 0.17
16 9 0.50
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (16 bp):
TTGATATTTCTCACCA
Found at i:17570232 original size:40 final size:39
Alignment explanation
Indices: 17570188--17570318 Score: 104
Period size: 40 Copynumber: 3.3 Consensus size: 39
17570178 GTTTGGCACC
17570188 CAATGCCTCATCGGATAATTCGAAGTACTAAATTGACACT
1 CAATGCCTCATCGGATAATTCGAAGTA-TAAATTGACACT
* * * ** * *
17570228 CAATGTCTCATCAGCTAAACCGAAG--TAAATTGGCACC
1 CAATGCCTCATCGGATAATTCGAAGTATAAATTGACACT
* * * *
17570265 CAGTGCATCATTGAATTAATTCGAAGTAGTAAATTGACACT
1 CAATGCCTCATCGGA-TAATTCGAAGTA-TAAATTGACACT
* *
17570306 CAGTGTCTCATCG
1 CAATGCCTCATCG
17570319 ACTCGAAGTC
Statistics
Matches: 66, Mismatches: 21, Indels: 7
0.70 0.22 0.07
Matches are distributed among these distances:
37 18 0.27
38 8 0.12
40 20 0.30
41 20 0.30
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (39 bp):
CAATGCCTCATCGGATAATTCGAAGTATAAATTGACACT
Found at i:17572062 original size:15 final size:15
Alignment explanation
Indices: 17572042--17572078 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17572032 TGGCCTCGAA
17572042 ACCACTGTTTCCAAC
1 ACCACTGTTTCCAAC
*
17572057 ACCACTATTTCCAAC
1 ACCACTGTTTCCAAC
*
17572072 ACTACTG
1 ACCACTG
17572079 AAAAACGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.30, C:0.38, G:0.05, T:0.27
Consensus pattern (15 bp):
ACCACTGTTTCCAAC
Found at i:17572291 original size:19 final size:18
Alignment explanation
Indices: 17572267--17572315 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
17572257 GTACAATAAT
17572267 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTAC-AA
*
17572286 TTTTAT-ATTTCTTTACAT
1 TTTTATAATTT-TTTACAA
*
17572304 TTTTTTAATTTT
1 TTTTATAATTTT
17572316 CTGAGGACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTTACAA
Found at i:17572419 original size:27 final size:28
Alignment explanation
Indices: 17572389--17572443 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
17572379 AAAGTCTAAT
17572389 TTTTAAAAAAAATTAAATAA-TTTTATA
1 TTTTAAAAAAAATTAAATAACTTTTATA
*** *
17572416 TTTTATTTAAAATTTAATAACTTTTATA
1 TTTTAAAAAAAATTAAATAACTTTTATA
17572444 ACTTTTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTAAAAAAAATTAAATAACTTTTATA
Found at i:17572427 original size:28 final size:30
Alignment explanation
Indices: 17572397--17572453 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 30
17572387 ATTTTTAAAA
17572397 AAAATTAAATAA-TTTTAT-A-TTTTATTT
1 AAAATTAAATAACTTTTATAACTTTTATTT
*
17572424 AAAATTTAATAACTTTTATAACTTTTATTT
1 AAAATTAAATAACTTTTATAACTTTTATTT
17572454 TTTATCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 11 0.42
28 6 0.23
29 1 0.04
30 8 0.31
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (30 bp):
AAAATTAAATAACTTTTATAACTTTTATTT
Found at i:17573183 original size:19 final size:20
Alignment explanation
Indices: 17573140--17573184 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
17573130 TTTAATTATC
* *
17573140 AATAATTAATACATTTTAAT
1 AATATTTAATACATTTAAAT
*
17573160 TATATTTAAT-CATTTAAAT
1 AATATTTAATACATTTAAAT
17573179 AATATT
1 AATATT
17573185 ATTTTACATC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTTAATACATTTAAAT
Found at i:17581639 original size:22 final size:22
Alignment explanation
Indices: 17581614--17581659 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
17581604 CTGTTATGAG
17581614 TTAAAATATTTACTGTTCATCT
1 TTAAAATATTTACTGTTCATCT
*
17581636 TTAAAATATTTACTGTTTATCT
1 TTAAAATATTTACTGTTCATCT
17581658 TT
1 TT
17581660 CTTTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (22 bp):
TTAAAATATTTACTGTTCATCT
Found at i:17583339 original size:31 final size:31
Alignment explanation
Indices: 17583299--17583360 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
17583289 CTTAACAACC
* *
17583299 CAATGACTTAAAT-AAAAATGTTTGACTAGTT
1 CAATAACTTAAATGAAAAAT-TTTGAATAGTT
*
17583330 CAATAACTTAAATGAAAACTTTTGAATAGTT
1 CAATAACTTAAATGAAAAATTTTGAATAGTT
17583361 AAGTCATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (31 bp):
CAATAACTTAAATGAAAAATTTTGAATAGTT
Found at i:17591905 original size:34 final size:34
Alignment explanation
Indices: 17591841--17591921 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
17591831 TACAACTTTC
*
17591841 AAAAATTTT-AAAATTTAGAATTTTCAAAAAATAA
1 AAAAATTTTAAAAATTCAGAATTTTCAAAAAAT-A
*
17591875 AAAAATTTTAAAAATTCA-AATTTAT-TAAAAATA
1 AAAAATTTTAAAAATTCAGAATTT-TCAAAAAATA
* *
17591908 GAAAATTTAAAAAA
1 AAAAATTTTAAAAA
17591922 AAAAGTTAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 13 0.32
34 20 0.49
35 8 0.20
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (34 bp):
AAAAATTTTAAAAATTCAGAATTTTCAAAAAATA
Found at i:17591960 original size:28 final size:26
Alignment explanation
Indices: 17591921--17591978 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
17591911 AATTTAAAAA
*
17591921 AAAAAGTTAGAATTTTTCA-AAAATTAT
1 AAAAAGTTAGAA-GTTT-AGAAAATTAT
17591948 AAAAAGTTTAGAAGTTTAGAAAATTAT
1 AAAAAG-TTAGAAGTTTAGAAAATTAT
17591975 AAAA
1 AAAA
17591979 CCATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 21 0.75
28 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (26 bp):
AAAAAGTTAGAAGTTTAGAAAATTAT
Found at i:17592004 original size:9 final size:9
Alignment explanation
Indices: 17591939--17592137 Score: 56
Period size: 10 Copynumber: 21.6 Consensus size: 9
17591929 AGAATTTTTC
17591939 AAAAATTAT
1 AAAAATTAT
17591948 AAAAAGTT-T
1 AAAAA-TTAT
* *
17591957 AGAAGTT-T
1 AAAAATTAT
17591965 AGAAAATTAT
1 A-AAAATTAT
**
17591975 -AAAACCAT
1 AAAAATTAT
**
17591983 AAAAATTGC
1 AAAAATTAT
17591992 AAAAATTAT
1 AAAAATTAT
17592001 AAAACATTATT
1 AAAA-ATTA-T
* *
17592012 AAAATTTGTT
1 AAAAATT-AT
* *
17592022 AAACATAAT
1 AAAAATTAT
17592031 ATAAAATTATT
1 A-AAAATTA-T
17592042 AAAAA-T-T
1 AAAAATTAT
17592049 AAAAA--AT
1 AAAAATTAT
* *
17592056 -AGAATTTT
1 AAAAATTAT
17592064 GAAAAA-TAT
1 -AAAAATTAT
*
17592073 AAAAATTTAC
1 AAAAA-TTAT
17592083 AAAGAATTATT
1 AAA-AATTA-T
*
17592094 AAAAATAAT
1 AAAAATTAT
* *
17592103 GTAAAGTTAT
1 -AAAAATTAT
*
17592113 TAAAATTAT
1 AAAAATTAT
17592122 ATAAAATTAT
1 A-AAAATTAT
17592132 GAAAAA
1 -AAAAA
17592138 GAATTTGTAT
Statistics
Matches: 137, Mismatches: 32, Indels: 41
0.65 0.15 0.20
Matches are distributed among these distances:
6 3 0.02
7 7 0.05
8 16 0.12
9 42 0.31
10 56 0.41
11 13 0.09
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:17592126 original size:19 final size:19
Alignment explanation
Indices: 17592087--17592136 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
17592077 ATTTACAAAG
*
17592087 AATTATTAAAAATAATGTAA
1 AATTATT-AAAATAATATAA
* *
17592107 AGTTATTAAAATTATATAA
1 AATTATTAAAATAATATAA
*
17592126 AATTATGAAAA
1 AATTATTAAAA
17592137 AGAATTTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
AATTATTAAAATAATATAA
Found at i:17596557 original size:2 final size:2
Alignment explanation
Indices: 17596550--17596582 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17596540 ACTTTAATAA
*
17596550 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17596583 ATTATATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:17603471 original size:31 final size:31
Alignment explanation
Indices: 17603436--17603495 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
17603426 TTTTATTTTT
*
17603436 GTTC-AATTGGATAGCTAAACTTGGCTTTTAA
1 GTTCAAATTGG-TACCTAAACTTGGCTTTTAA
*
17603467 GTTCAAATTGGTACCTAAATTTGGCTTTT
1 GTTCAAATTGGTACCTAAACTTGGCTTTT
17603496 TTCTCCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (31 bp):
GTTCAAATTGGTACCTAAACTTGGCTTTTAA
Found at i:17611413 original size:17 final size:17
Alignment explanation
Indices: 17611379--17611412 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
17611369 AATGTATAAA
17611379 TAAATATTATTTTATTT
1 TAAATATTATTTTATTT
17611396 TAAATATT-TTTTATTT
1 TAAATATTATTTTATTT
17611412 T
1 T
17611413 TGTTTCGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAAATATTATTTTATTT
Found at i:17612898 original size:93 final size:93
Alignment explanation
Indices: 17612790--17612962 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
17612780 CGCCCATAAG
* * * * *
17612790 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAATCGGGCTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAAATCGGACTCAACTCA
* *
17612855 ATGAGCTTGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* **
17612883 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTTGACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAAATCGGACTCAACTCA
17612948 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
17612963 CAAATATCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAAATCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:17612949 original size:46 final size:46
Alignment explanation
Indices: 17612783--17612958 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
17612773 TGTAACCCGC
* * *
17612783 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* * * * *
17612829 CCATAAGTGAAATCGGGCTCAACTCAATGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* *
17612879 -C-TCA-CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* **
17612922 CCATAAGTGAACTCGGACTTGACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
17612959 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 57 0.56
47 24 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:17613118 original size:10 final size:10
Alignment explanation
Indices: 17613103--17613169 Score: 134
Period size: 10 Copynumber: 6.7 Consensus size: 10
17613093 TGCATGTTGT
17613103 ATAGAATTGC
1 ATAGAATTGC
17613113 ATAGAATTGC
1 ATAGAATTGC
17613123 ATAGAATTGC
1 ATAGAATTGC
17613133 ATAGAATTGC
1 ATAGAATTGC
17613143 ATAGAATTGC
1 ATAGAATTGC
17613153 ATAGAATTGC
1 ATAGAATTGC
17613163 ATAGAAT
1 ATAGAAT
17613170 GACCACAAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 57 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (10 bp):
ATAGAATTGC
Found at i:17613723 original size:171 final size:172
Alignment explanation
Indices: 17613430--17613770 Score: 621
Period size: 171 Copynumber: 2.0 Consensus size: 172
17613420 CTTTGGCAAA
*
17613430 ATTACCATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAGCC
1 ATTACCATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAACC
* *
17613495 TCATCCTATTTTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATAGCAACATCAAATT
66 TCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTACCTTCTATAGCAACATCAAATT
* *
17613560 CACACTCTAACATGTGCTTATGAATATTAGGTATTTTTACTG
131 CACACTCTAACATGTACTTATGAATATTAGGGATTTTTACTG
*
17613602 ATTACCA-TTTACCCCTAAACTTTCACATATTTACACTTTTTCCCCAAGGCTCGTAAATTAAACC
1 ATTACCATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAACC
17613666 TCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTACCTTCTATAGCAACATCAAATT
66 TCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTACCTTCTATAGCAACATCAAATT
17613731 CACACTCTAACATGTACTTATGAATATTAGGGATTTTTAC
131 CACACTCTAACATGTACTTATGAATATTAGGGATTTTTAC
17613771 CGATAATGTC
Statistics
Matches: 163, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
171 156 0.96
172 7 0.04
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (172 bp):
ATTACCATTTTACCCCTAAACTTTCACATATTTACACTTTTGCCCCAAGGCTCGTAAATTAAACC
TCATCCTATTTTCTTATGTTTTATGACATGCTAATCATTTTTACCTTCTATAGCAACATCAAATT
CACACTCTAACATGTACTTATGAATATTAGGGATTTTTACTG
Found at i:17624470 original size:15 final size:16
Alignment explanation
Indices: 17624452--17624484 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
17624442 AATATATTTT
17624452 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
17624467 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
17624484 T
1 T
17624485 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:17624569 original size:22 final size:22
Alignment explanation
Indices: 17624530--17624588 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
17624520 GTTTTAAGAA
*
17624530 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
17624551 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
17624573 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
17624589 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:17624605 original size:26 final size:24
Alignment explanation
Indices: 17624559--17624618 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
17624549 ATTTGTTTTA
*
17624559 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
17624583 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
17624609 TTTTTTATTT
1 ATATTTATTT
17624619 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:17624984 original size:19 final size:19
Alignment explanation
Indices: 17624960--17625007 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
17624950 AACTAATATA
*
17624960 AACAAAATTTGAACTTTAC
1 AACAAAATTCGAACTTTAC
*
17624979 AACAAAAATCGAACTTTAC
1 AACAAAATTCGAACTTTAC
17624998 AACAAAATTC
1 AACAAAATTC
17625008 AATATATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (19 bp):
AACAAAATTCGAACTTTAC
Found at i:17629258 original size:19 final size:18
Alignment explanation
Indices: 17629228--17629263 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17629218 TTATGAATTA
17629228 TTATTTTTATTTATTTAC
1 TTATTTTTATTTATTTAC
*
17629246 TTATTTATTATTTCTTTA
1 TTATTT-TTATTTATTTA
17629264 TCCTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTTATTTATTTAC
Found at i:17631327 original size:11 final size:11
Alignment explanation
Indices: 17631313--17631341 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17631303 GTTTTGACTC
17631313 TCCAATCATCT
1 TCCAATCATCT
17631324 TCCAATCATCT
1 TCCAATCATCT
17631335 TCCAATC
1 TCCAATC
17631342 CTTTCGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (11 bp):
TCCAATCATCT
Found at i:17632455 original size:46 final size:46
Alignment explanation
Indices: 17632395--17632714 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
17632385 TTTGACATGA
* * * * * * *
17632395 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
17632441 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** * ** * *
17632487 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCTGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
17632533 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
17632579 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
17632625 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
17632671 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
17632715 AGAGCACACT
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 246 0.98
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:17634885 original size:18 final size:20
Alignment explanation
Indices: 17634870--17634906 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17634860 TAATAATAAA
*
17634870 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
17634890 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
17634907 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:17641840 original size:55 final size:55
Alignment explanation
Indices: 17641740--17641860 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
17641730 TGCCCTTCAG
* * *
17641740 CCGTGGGCAACACTGACTTATCAACACGGCCATGGAACACACCCGTGCT-GCCTGC
1 CCGTGGACAACACTGACTTATCAACACAGCCATGGAACACACCCGTG-TGGCCTAC
* * * ** *
17641795 CCGTGGACAACACTGTCTTTTCAACACAGCTATGGTGCACGCCCGTGTGGCCTAC
1 CCGTGGACAACACTGACTTATCAACACAGCCATGGAACACACCCGTGTGGCCTAC
*
17641850 CCGTGTACAAC
1 CCGTGGACAAC
17641861 TTTGAGTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.02
55 54 0.98
ACGTcount: A:0.22, C:0.35, G:0.23, T:0.20
Consensus pattern (55 bp):
CCGTGGACAACACTGACTTATCAACACAGCCATGGAACACACCCGTGTGGCCTAC
Found at i:17654679 original size:18 final size:18
Alignment explanation
Indices: 17654656--17654690 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17654646 ACGTGAACTT
17654656 CCCAAAAAAATAAAAATC
1 CCCAAAAAAATAAAAATC
*
17654674 CCCAAAATAATAAAAAT
1 CCCAAAAAAATAAAAAT
17654691 AAAACTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.14
Consensus pattern (18 bp):
CCCAAAAAAATAAAAATC
Found at i:17659409 original size:22 final size:22
Alignment explanation
Indices: 17659383--17659427 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17659373 AATATTCAAG
17659383 TAAAAGGATTTTTGCATATTAC
1 TAAAAGGATTTTTGCATATTAC
17659405 TAAAAGGATTTTTGCATATTAC
1 TAAAAGGATTTTTGCATATTAC
17659427 T
1 T
17659428 CTAAAAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
TAAAAGGATTTTTGCATATTAC
Found at i:17659940 original size:44 final size:44
Alignment explanation
Indices: 17659870--17660479 Score: 463
Period size: 44 Copynumber: 13.6 Consensus size: 44
17659860 TACCATAAAG
* *
17659870 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
17659914 AATCTTATCTCCTTAAAATTGCAGTGGAGCAAATTAAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * ** *
17659958 AATCTTATCT-CTCTGAAGTTACAGTGAAATAGATTGAAGCTAAA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
17660002 AATCTTATAC-CCCTAAAGATGTAGTGG-GTCGGATTGAATCTACCATAA
1 AATCTTAT-CTCCTTGAAGTTGCAGTGGAG-CAGATTGAAGCTA-C---A
* * *
17660050 CGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGA-TGAAGCTACA
1 --AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* * * * *
17660096 AATCTTATCTCTTTAAAATTGTAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
17660140 AATCTCATCTCCCTGAAGTTGCAATAGAGCAGATTGAAACTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
17660184 AATCTTATCTTCC-TAAAGTTGTAGTGAAGCAGATTGAAGCTACG
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
17660228 AATCTTATCACCTTGAAGTTGCAGTGAAGCAGATTGAAGCTACC
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
17660272 AATCTTATCTTCTCGAAGTTGCAGTGGAGCAAGA-TAAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* *
17660316 AATCTTATCTTCTTGAAGTTGCAGTGGAGCAAGA-TAAAGCTAC-
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* * * ** *
17660359 AATCCTATAC-CCCTGAAGTTACAGTGG-GTTGGATTGAACTTACTATAGCA
1 AATCTTAT-CTCCTTGAAGTTGCAGTGGAG-CAGATTGAA---GC--TA-CA
*
17660409 AATCTTATCT-CTCTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGC-AGATTGAAGCTACA
*
17660453 AATCCTATAC-CCTTGAAGTTGCAGTGG
1 AATCTTAT-CTCCTTGAAGTTGCAGTGG
17660480 GTTAGAATGA
Statistics
Matches: 455, Mismatches: 78, Indels: 66
0.76 0.13 0.11
Matches are distributed among these distances:
42 3 0.01
43 31 0.07
44 336 0.74
45 13 0.03
46 2 0.00
47 1 0.00
48 3 0.01
49 5 0.01
50 55 0.12
51 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:17660655 original size:15 final size:13
Alignment explanation
Indices: 17660634--17660681 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 13
17660624 CGTCCAACCG
17660634 AAAACAATAAATAA
1 AAAACAA-AAATAA
17660648 ATAAACAAAATATAA
1 A-AAACAAAA-ATAA
17660663 AAAACCAAAAAATAA
1 AAAA-C-AAAAATAA
17660678 AAAA
1 AAAA
17660682 TCCAAGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.20
15 20 0.67
16 4 0.13
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAACAAAAATAA
Found at i:17661941 original size:19 final size:18
Alignment explanation
Indices: 17661911--17661956 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
17661901 TTATGAATTA
17661911 TTATTTTTATTTATTTAC
1 TTATTTTTATTTATTTAC
*
17661929 TTATTTATTATTTCTTTA-
1 TTATTT-TTATTTATTTAC
*
17661947 TTCTTTTTAT
1 TTATTTTTAT
17661957 ATTTAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTTTTATTTATTTAC
Found at i:17675667 original size:3 final size:3
Alignment explanation
Indices: 17675659--17675702 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
17675649 ATATTAGGCG
17675659 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17675703 TTGGGTGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17675948 original size:76 final size:76
Alignment explanation
Indices: 17675857--17676008 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
17675847 TCGTTATTTG
*
17675857 TTTGTATCAAATAATGGAGTAAAACTTTAAGAGTTAAAATATGATTTAAGTCTTATTAAATTTAA
1 TTTGTATCAAATAATGGAGTAAAAATTTAAGAGTTAAAATATGATTTAAGTCTTATTAAATTTAA
17675922 AACAATAGAGT
66 AACAATAGAGT
17675933 TTTGTATCAAATAATGGAGTAAAAATTTAAGAGTTAAAATATGATTTAAGTCTTATTAAATTTAA
1 TTTGTATCAAATAATGGAGTAAAAATTTAAGAGTTAAAATATGATTTAAGTCTTATTAAATTTAA
17675998 AACAATAGAGT
66 AACAATAGAGT
17676009 ACATTTGAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (76 bp):
TTTGTATCAAATAATGGAGTAAAAATTTAAGAGTTAAAATATGATTTAAGTCTTATTAAATTTAA
AACAATAGAGT
Found at i:17677385 original size:17 final size:16
Alignment explanation
Indices: 17677363--17677409 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
17677353 TTGTAATTTA
17677363 AATTAATTATAAAGGTT
1 AATTAATTATAAAGG-T
*
17677380 AATTAAGTA-AATAGGT
1 AATTAATTATAA-AGGT
17677396 AATTAATTGATAAA
1 AATTAATT-ATAAA
17677410 TTAATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.40
17 13 0.52
18 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (16 bp):
AATTAATTATAAAGGT
Found at i:17683914 original size:17 final size:16
Alignment explanation
Indices: 17683892--17683938 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
17683882 TTGTAATTTA
17683892 AATTAATTATAAAGGTT
1 AATTAATTATAAAGG-T
*
17683909 AATTAATTA-AATATGT
1 AATTAATTATAA-AGGT
17683925 AATTAATTGATAAA
1 AATTAATT-ATAAA
17683939 TTAATAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 11 0.42
17 13 0.50
18 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (16 bp):
AATTAATTATAAAGGT
Found at i:17683943 original size:16 final size:15
Alignment explanation
Indices: 17683892--17683943 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
17683882 TTGTAATTTA
17683892 AATTAATTATAAAGGTT
1 AATTAATTATAAA--TT
17683909 AATTAATTA-AATATGT
1 AATTAATTATAA-AT-T
17683925 AATTAATTGATAAATT
1 AATTAATT-ATAAATT
17683941 AAT
1 AAT
17683944 AAAACAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 1 0.03
16 15 0.48
17 13 0.42
18 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
AATTAATTATAAATT
Found at i:17686961 original size:46 final size:46
Alignment explanation
Indices: 17686793--17686962 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
17686783 AGCATCTAAA
* * * *
17686793 CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
*** ** * *
17686839 CTCGTTGAGTTGAGTCCGAGTTCGAGAGAT-G-TAAGTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC--CCGAG
*
17686886 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
17686932 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17686963 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 4 0.04
46 62 0.61
47 30 0.30
48 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
Found at i:17689201 original size:14 final size:14
Alignment explanation
Indices: 17689182--17689214 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
17689172 AGGGACAATG
17689182 TGATTGATTATGAA
1 TGATTGATTATGAA
17689196 TGATTGATTATGAA
1 TGATTGATTATGAA
17689210 TGATT
1 TGATT
17689215 TATATTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TGATTGATTATGAA
Found at i:17690061 original size:13 final size:14
Alignment explanation
Indices: 17690039--17690070 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17690029 ATATTTGTTA
17690039 TTAA-ATAGAT-TT
1 TTAATATAGATATT
17690051 TTAATATAGATATT
1 TTAATATAGATATT
17690065 TTAATA
1 TTAATA
17690071 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 6 0.33
14 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
TTAATATAGATATT
Found at i:17691247 original size:6 final size:6
Alignment explanation
Indices: 17691236--17691261 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17691226 ACTCTGTACC
17691236 TTACTG TTACTG TTACTG TTACTG TT
1 TTACTG TTACTG TTACTG TTACTG TT
17691262 CCGGATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (6 bp):
TTACTG
Found at i:17691282 original size:57 final size:59
Alignment explanation
Indices: 17691191--17691317 Score: 170
Period size: 57 Copynumber: 2.2 Consensus size: 59
17691181 AAGTGTCGCC
* *
17691191 TTACTGTTACTATTCCGGATTCGTTTCGAAGAGGTACTC-TGTA-C-CTTACTGTTACTG
1 TTACTGTTACTATTCCGGATTCGTTCCGAAGAGGTACTCGTGTATCGC-TACTGTTACTA
* * *
17691248 TTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTATCGCTACTGTTACTA
1 TTACTGTTACTATTCCGGATTCGTTCCGAAGAGGTACTC-GTGTATCGCTACTGTTACTA
17691308 TTACTGTTAC
1 TTACTGTTAC
17691318 CGTTATAGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
57 35 0.57
59 4 0.07
60 21 0.34
61 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (59 bp):
TTACTGTTACTATTCCGGATTCGTTCCGAAGAGGTACTCGTGTATCGCTACTGTTACTA
Found at i:17691457 original size:18 final size:18
Alignment explanation
Indices: 17691434--17691501 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
17691424 ATAAAGGTAC
*
17691434 TAAATAACTGATTGCTAT
1 TAAATAACTGACTGCTAT
* *
17691452 TAAATAACTGACTGTTAC
1 TAAATAACTGACTGCTAT
**
17691470 TGGATAACTGACTGCTAT
1 TAAATAACTGACTGCTAT
* *
17691488 TGAATAATTGACTG
1 TAAATAACTGACTG
17691502 TTACTGAATA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (18 bp):
TAAATAACTGACTGCTAT
Found at i:17691486 original size:36 final size:36
Alignment explanation
Indices: 17691431--17691512 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
17691421 TAAATAAAGG
* *
17691431 TACTAAATAACTGATTGCTATTAAATAACTGACTGT
1 TACTGAATAACTGACTGCTATTAAATAACTGACTGT
* * *
17691467 TACTGGATAACTGACTGCTATTGAATAATTGACTGT
1 TACTGAATAACTGACTGCTATTAAATAACTGACTGT
17691503 TACTGAATAA
1 TACTGAATAA
17691513 TTTATCGTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (36 bp):
TACTGAATAACTGACTGCTATTAAATAACTGACTGT
Found at i:17691509 original size:18 final size:18
Alignment explanation
Indices: 17691454--17691536 Score: 96
Period size: 18 Copynumber: 4.6 Consensus size: 18
17691444 ATTGCTATTA
*
17691454 AATAACTGACTGTTACTG
1 AATAATTGACTGTTACTG
* * * *
17691472 GATAACTGACTGCTATTG
1 AATAATTGACTGTTACTG
17691490 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
17691508 AATAATTTA-TCGTTACTG
1 AATAATTGACT-GTTACTG
17691526 AATAATTGACT
1 AATAATTGACT
17691537 ATTAAAGAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
17 1 0.02
18 52 0.96
19 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGACTGTTACTG
Found at i:17696739 original size:30 final size:31
Alignment explanation
Indices: 17696701--17696765 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
17696691 AACTTATTTT
17696701 ATTT-TTAATTTTGTT-ATTATTTTAAAGGC
1 ATTTGTTAATTTTGTTAATTATTTTAAAGGC
* * *
17696730 ATTTGTTAATTTTTTTAATTATTTTAGAGGT
1 ATTTGTTAATTTTGTTAATTATTTTAAAGGC
17696761 ATTTG
1 ATTTG
17696766 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 4 0.13
30 10 0.32
31 17 0.55
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (31 bp):
ATTTGTTAATTTTGTTAATTATTTTAAAGGC
Found at i:17700004 original size:20 final size:20
Alignment explanation
Indices: 17699962--17700005 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
17699952 TAAAATAGTT
* * * *
17699962 TTTTTATTTTTTACATATTA
1 TTTTTATTTTTCAAAAATCA
17699982 TTTTTATTTTTCAAAAATCA
1 TTTTTATTTTTCAAAAATCA
17700002 TTTT
1 TTTT
17700006 AAAAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTATTTTTCAAAAATCA
Found at i:17700479 original size:18 final size:18
Alignment explanation
Indices: 17700452--17700487 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17700442 ATCGGATCAC
*
17700452 CTTTGTTTTAATAAAACG
1 CTTTGGTTTAATAAAACG
*
17700470 CTTTGGTTTACTAAAACG
1 CTTTGGTTTAATAAAACG
17700488 ATGTTTCTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (18 bp):
CTTTGGTTTAATAAAACG
Found at i:17701355 original size:24 final size:25
Alignment explanation
Indices: 17701305--17701360 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
17701295 TATTTAAAGG
* * *
17701305 TTTAGAATAGATACTATAAAAACAA
1 TTTAAAATAAATAATATAAAAACAA
17701330 TTTAAAATAAATAATAT-AAAACAA
1 TTTAAAATAAATAATATAAAAACAA
17701354 TTTAAAA
1 TTTAAAA
17701361 ATCATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (25 bp):
TTTAAAATAAATAATATAAAAACAA
Found at i:17701361 original size:25 final size:26
Alignment explanation
Indices: 17701323--17701388 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 26
17701313 AGATACTATA
17701323 AAAACAATTTAAAATAAATAATA-T-
1 AAAACAATTTAAAATAAATAATATTC
* *
17701347 AAAACAATTTAAAAATCATTAATATTC
1 AAAACAATTT-AAAATAAATAATATTC
17701374 AAAACAA--TAAAATAA
1 AAAACAATTTAAAATAA
17701389 TACCTAGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 16 0.44
25 12 0.33
26 1 0.03
27 7 0.19
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAACAATTTAAAATAAATAATATTC
Found at i:17701688 original size:26 final size:27
Alignment explanation
Indices: 17701615--17701702 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 27
17701605 CATATATAAA
* *
17701615 AAAATAGATCACATATAAAAAAATAGTTT
1 AAAATAAATAACATAT--AAAAATAGTTT
*
17701644 AAAGTAAATAACATATAAAAATA-TTT
1 AAAATAAATAACATATAAAAATAGTTT
* * **
17701670 AAAATAAATAATATGT-AAAGGAGTTT
1 AAAATAAATAACATATAAAAATAGTTT
17701696 AAAATAA
1 AAAATAA
17701703 CTGATGCGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.08
26 26 0.52
27 7 0.14
29 13 0.26
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATAAATAACATATAAAAATAGTTT
Found at i:17702003 original size:16 final size:17
Alignment explanation
Indices: 17701974--17702006 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17701964 TAAAATAATC
17701974 TAAAGTAAAGAATATAT
1 TAAAGTAAAGAATATAT
*
17701991 TAAA-TAAATAATATAT
1 TAAAGTAAAGAATATAT
17702007 GGGAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TAAAGTAAAGAATATAT
Found at i:17720266 original size:26 final size:26
Alignment explanation
Indices: 17720231--17720289 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
17720221 TCTTCTCGAT
17720231 TTTCTTCAAGGAGTCATGGGAATTCA
1 TTTCTTCAAGGAGTCATGGGAATTCA
17720257 TTTCTTCAAGGAGTCATGGGAATTCA
1 TTTCTTCAAGGAGTCATGGGAATTCA
17720283 -TTCTTCA
1 TTTCTTCA
17720290 CCCTTCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.21
26 26 0.79
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (26 bp):
TTTCTTCAAGGAGTCATGGGAATTCA
Found at i:17720479 original size:20 final size:20
Alignment explanation
Indices: 17720438--17720481 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17720428 TCCACTTTAC
*
17720438 TTTAATCTATATTTTCACTA
1 TTTAATCTATATTTTCAATA
*
17720458 TTTAAT-TATTATTTTGAATA
1 TTTAATCTA-TATTTTCAATA
17720478 TTTA
1 TTTA
17720482 TCATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAATCTATATTTTCAATA
Found at i:17724068 original size:45 final size:45
Alignment explanation
Indices: 17724004--17724097 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
17723994 CTATATATGT
* * *
17724004 ATTTATAGAAAACACTTAAGTGATTATTTCATTTGCAGTGGAAAA
1 ATTTACAGAAAACACTTAAGTGATTACTTAATTTGCAGTGGAAAA
*
17724049 ATTTACAGAAAACACTTAAGTGATTACTTAATTTGTAGTGGAAAA
1 ATTTACAGAAAACACTTAAGTGATTACTTAATTTGCAGTGGAAAA
17724094 ATTT
1 ATTT
17724098 TGGAGTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (45 bp):
ATTTACAGAAAACACTTAAGTGATTACTTAATTTGCAGTGGAAAA
Found at i:17729391 original size:115 final size:112
Alignment explanation
Indices: 17729161--17729370 Score: 273
Period size: 115 Copynumber: 1.9 Consensus size: 112
17729151 ATCAGTATTT
* * *
17729161 AAAAAAAATTGGTTCTAACCATGTAATGGCTGGCACTAGGTACTTTTTTCGTGTCCCAATGCAAT
1 AAAAAAAATTGGTGCTAACCATGTAATGGCTGGCACCAAGTACTTTTTTCGTGTCCCAATGC-AT
* * * *
17729226 TTTTTTTTACTTTAGTACACTGATGGCCGGCACCAGTTAAATTTAAAAA
65 TTTTGTTTA-TTTAGGACACTGATGGCCGACACCAGTTAAATTAAAAAA
**
17729275 AAAAAAAATTGGATGCTGGCCATGTAATGGCTGGCACCAAGTACTTTTTTC-TGTCCCAATGC-T
1 AAAAAAAATTGG-TGCTAACCATGTAATGGCTGGCACCAAGTACTTTTTTCGTGTCCCAATGCAT
* *
17729338 TTTTGTTT-TTTGGGACAGTGATGGCCGACACCA
65 TTTTGTTTATTTAGGACACTGATGGCCGACACCA
17729371 ACTTTATCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
110 21 0.25
112 8 0.09
114 23 0.27
115 33 0.39
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (112 bp):
AAAAAAAATTGGTGCTAACCATGTAATGGCTGGCACCAAGTACTTTTTTCGTGTCCCAATGCATT
TTTGTTTATTTAGGACACTGATGGCCGACACCAGTTAAATTAAAAAA
Found at i:17730036 original size:91 final size:90
Alignment explanation
Indices: 17729848--17730150 Score: 448
Period size: 90 Copynumber: 3.4 Consensus size: 90
17729838 TCAAAATAAT
* * *
17729848 TGTATT-ATTTCTTTAAAATGTTTGTATTTTTTTATATCTGTAAATTTAATGTACTTGTTTAGGA
1 TGTATTAATTTC-TTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGA
*
17729912 TTTAAGGTATCATTTTTATATTTTCA
65 TTTAAGGTATCATTTTTATATTTTCG
* * *
17729938 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATATATAAATTTAATATAGTTGTTTACGAT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGAT
*
17730003 GTAAGGTATCATTTTTTATATTTTCG
66 TTAAGGTATCA-TTTTTATATTTTCG
* * * *
17730029 TGTATTAATTTCTTAGAATATTT-TATTTTATTATACCTGTAAATTTAATACAGTTGTTTAGGAT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGAT
*
17730093 TTAAGGTTTCATTTTTATATTTTCG
66 TTAAGGTATCATTTTTATATTTTCG
*
17730118 TGTATTAATTTATTAGAATGTTTGTATTTTTTT
1 TGTATTAATTTCTTAGAATGTTTGTATTTTTTT
17730151 TTTGTATATG
Statistics
Matches: 190, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
89 35 0.18
90 115 0.61
91 40 0.21
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (90 bp):
TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGAT
TTAAGGTATCATTTTTATATTTTCG
Found at i:17730691 original size:25 final size:25
Alignment explanation
Indices: 17730657--17730707 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
17730647 GAGTTAATGG
17730657 GTATTGCATGATCAAAGGTGCCGAT
1 GTATTGCATGATCAAAGGTGCCGAT
17730682 GTATTGCATGATCAAAGGTGCCGAT
1 GTATTGCATGATCAAAGGTGCCGAT
17730707 G
1 G
17730708 GAAAACTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (25 bp):
GTATTGCATGATCAAAGGTGCCGAT
Found at i:17735626 original size:11 final size:11
Alignment explanation
Indices: 17735609--17735704 Score: 60
Period size: 11 Copynumber: 9.0 Consensus size: 11
17735599 CTTTTTTTTT
17735609 CATTTCATTTA
1 CATTTCATTTA
* *
17735620 TATTTCATTTG
1 CATTTCATTTA
17735631 CATTTCATTT-
1 CATTTCATTTA
*
17735641 C--TTCCTATT-
1 CATTTCAT-TTA
17735650 CATTTCATTTA
1 CATTTCATTTA
* * *
17735661 TATTT-TTGTTT
1 CATTTCAT-TTA
17735672 CATTTCATTT-
1 CATTTCATTTA
*
17735682 CATTTACATTTC
1 CATTT-CATTTA
17735694 CATTTCATTTA
1 CATTTCATTTA
17735705 AATTATTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
8 4 0.06
9 3 0.05
10 9 0.14
11 44 0.67
12 6 0.09
ACGTcount: A:0.21, C:0.18, G:0.02, T:0.59
Consensus pattern (11 bp):
CATTTCATTTA
Found at i:17735634 original size:6 final size:5
Alignment explanation
Indices: 17735606--17735703 Score: 74
Period size: 5 Copynumber: 18.6 Consensus size: 5
17735596 TCTCTTTTTT
* *
17735606 TTTCA TTTCA TTTATA TTTCA TTTGCA TTTCA TTTC- -TTCC TATTCA
1 TTTCA TTTCA TTT-CA TTTCA TTT-CA TTTCA TTTCA TTTCA T-TTCA
* **
17735652 TTTCA TTTATA TTTTTG TTTCA TTTCA TTTCA TTTACA TTTCCA TTTCA
1 TTTCA TTT-CA -TTTCA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA
17735701 TTT
1 TTT
17735704 AAATTATTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.04
5 46 0.60
6 25 0.32
7 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.02, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:17735637 original size:22 final size:21
Alignment explanation
Indices: 17735606--17735703 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 21
17735596 TCTCTTTTTT
17735606 TTTCATTTCATTTATATTTCA
1 TTTCATTTCATTTATATTTCA
* *
17735627 TTTGCATTTCATTTCTTCCTATTCA
1 TTT-CATTTCATTT-AT-AT-TTCA
* * *
17735652 TTTCATTTATATTTTTGTTTCA
1 TTTCATTT-CATTTATATTTCA
*
17735674 TTTCATTTCATTTACATTTCCA
1 TTTCATTTCATTTATATTT-CA
17735696 TTTCATTT
1 TTTCATTT
17735704 AAATTATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
21 10 0.16
22 32 0.51
23 2 0.03
24 8 0.13
25 11 0.17
ACGTcount: A:0.19, C:0.17, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTCATTTCATTTATATTTCA
Found at i:17735699 original size:17 final size:16
Alignment explanation
Indices: 17735606--17735704 Score: 63
Period size: 16 Copynumber: 6.6 Consensus size: 16
17735596 TCTCTTTTTT
*
17735606 TTTCATTT-CATTTATA
1 TTTCATTTACATTT-CA
*
17735622 TTTCATTTGCATTTCA
1 TTTCATTTACATTTCA
*
17735638 TTTC--TT-CCTATTCA
1 TTTCATTTACAT-TTCA
*
17735652 TTTCATTTATA-TT--
1 TTTCATTTACATTTCA
*
17735665 TTT-GTTT-CATTTCA
1 TTTCATTTACATTTCA
17735679 TTTCATTTACATTTCCA
1 TTTCATTTACATTT-CA
17735696 TTTCATTTA
1 TTTCATTTA
17735705 AATTATTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
11 1 0.02
12 5 0.08
13 5 0.08
14 13 0.20
15 5 0.08
16 20 0.31
17 16 0.25
ACGTcount: A:0.20, C:0.17, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTCATTTACATTTCA
Found at i:17735699 original size:27 final size:27
Alignment explanation
Indices: 17735648--17735703 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
17735638 TTTCTTCCTA
* ***
17735648 TTCATTTCATTTATATTTTTGTTTCAT
1 TTCATTTCATTTACATTTCCATTTCAT
17735675 TTCATTTCATTTACATTTCCATTTCAT
1 TTCATTTCATTTACATTTCCATTTCAT
17735702 TT
1 TT
17735704 AAATTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.62
Consensus pattern (27 bp):
TTCATTTCATTTACATTTCCATTTCAT
Found at i:17735840 original size:5 final size:5
Alignment explanation
Indices: 17735830--17735907 Score: 57
Period size: 5 Copynumber: 14.0 Consensus size: 5
17735820 TTCATAATCA
* * *
17735830 TCATT TCATT TTATAT TCATT TAACATT TCATT TGATT TAATT TCATAT
1 TCATT TCATT TCAT-T TCATT T--CATT TCATT TCATT TCATT TCAT-T
17735879 TCATATT TCATT TAACATT TCATT TCATT
1 TC--ATT TCATT T--CATT TCATT TCATT
17735908 ATTTTTTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
5 38 0.63
6 7 0.12
7 13 0.22
8 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.56
Consensus pattern (5 bp):
TCATT
Found at i:17735858 original size:23 final size:22
Alignment explanation
Indices: 17735831--17735903 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
17735821 TCATAATCAT
17735831 CATTTCATTTTATATTCATTTAA
1 CATTTCATTTTAT-TTCATTTAA
* *
17735854 CATTTCATTTGATTTAATTT--
1 CATTTCATTTTATTTCATTTAA
17735874 CATATTCA---TATTTCATTTAA
1 CAT-TTCATTTTATTTCATTTAA
17735894 CATTTCATTT
1 CATTTCATTT
17735904 CATTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
18 8 0.20
19 4 0.10
20 6 0.15
21 4 0.10
22 6 0.15
23 12 0.30
ACGTcount: A:0.29, C:0.14, G:0.01, T:0.56
Consensus pattern (22 bp):
CATTTCATTTTATTTCATTTAA
Found at i:17735863 original size:28 final size:28
Alignment explanation
Indices: 17735830--17735906 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
17735820 TTCATAATCA
*
17735830 TCATTTCATTTTATATTCAT-TTAACATT
1 TCATTTCATTTAAT-TTCATATTAACATT
* * *
17735858 TCATTTGATTTAATTTCATATTCATATT
1 TCATTTCATTTAATTTCATATTAACATT
*
17735886 TCATTTAACATTTCATTTCAT
1 TCATTT--CATTTAATTTCAT
17735907 TATTTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 5 0.12
28 24 0.60
30 11 0.28
ACGTcount: A:0.29, C:0.14, G:0.01, T:0.56
Consensus pattern (28 bp):
TCATTTCATTTAATTTCATATTAACATT
Found at i:17735888 original size:13 final size:12
Alignment explanation
Indices: 17735827--17735911 Score: 55
Period size: 12 Copynumber: 6.7 Consensus size: 12
17735817 CATTTCATAA
17735827 TCATCATTTCATT
1 TCAT-ATTTCATT
*
17735840 TTATA-TTCATT
1 TCATATTTCATT
* *
17735851 TAACATTTCATT
1 TCATATTTCATT
*
17735863 TGATTTAATTTCATAT
1 TCA--T-ATTTCAT-T
17735879 TCATATTTCATT
1 TCATATTTCATT
* *
17735891 TAACATTTCATT
1 TCATATTTCATT
17735903 TCATTATTT
1 TCA-TATTT
17735912 TTTTTCATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
11 9 0.16
12 22 0.39
13 14 0.25
14 1 0.02
15 7 0.12
16 3 0.05
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.56
Consensus pattern (12 bp):
TCATATTTCATT
Found at i:17735906 original size:30 final size:28
Alignment explanation
Indices: 17735855--17735931 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
17735845 TTCATTTAAC
*
17735855 ATTTCATTT-GATTTAATTTCA-TATTCAT
1 ATTTCATTTAAATTT-ATTTCATTATT-AT
*
17735883 ATTTCATTTAACATTTCATTTCATTATTTT
1 ATTTCATTTAA-ATTT-ATTTCATTATTAT
*
17735913 TTTTCATTTAAATTTATTT
1 ATTTCATTTAAATTTATTT
17735932 TTTTCCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 13 0.31
29 4 0.10
30 21 0.50
31 4 0.10
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.61
Consensus pattern (28 bp):
ATTTCATTTAAATTTATTTCATTATTAT
Found at i:17736031 original size:18 final size:18
Alignment explanation
Indices: 17735994--17736033 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17735984 ATTTATCTTT
*
17735994 TTTTCAATTCAATTTTTA
1 TTTTCAATTCAATTTATA
17736012 TTTTCAATTC-ATTTCATA
1 TTTTCAATTCAATTT-ATA
17736030 TTTT
1 TTTT
17736034 TTCTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTCAATTCAATTTATA
Found at i:17736431 original size:5 final size:5
Alignment explanation
Indices: 17736421--17736530 Score: 94
Period size: 5 Copynumber: 20.2 Consensus size: 5
17736411 CTTTCTTTTT
* * *
17736421 TTTCA TTTCA TTTCTA TTTCAA TTCCA TTTAA TTTGAA TTTCTA TTTCA
1 TTTCA TTTCA TTTC-A TTTC-A TTTCA TTTCA TTT-CA TTTC-A TTTCA
* *
17736470 TTTCA TTTGAA TTTCTA TTTCA TTTCA TTTGAA TTTCCA TTTCA TTTCA
1 TTTCA TTT-CA TTTC-A TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA
17736519 TTTCCA TTTCA T
1 TTT-CA TTTCA T
17736531 CTAAATTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
5 47 0.53
6 41 0.47
ACGTcount: A:0.23, C:0.17, G:0.03, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:17736476 original size:27 final size:26
Alignment explanation
Indices: 17736425--17736632 Score: 125
Period size: 27 Copynumber: 8.0 Consensus size: 26
17736415 CTTTTTTTTC
* *
17736425 ATTTCATTTCTATTTCAATTCCATTTA
1 ATTTAATTTCTATTTC-ATTTCATTTA
17736452 ATTTGAATTTCTATTTCATTTCA--T-
1 ATTT-AATTTCTATTTCATTTCATTTA
*
17736476 -TTGAATTTCTATTTCATTTCATTTGA
1 ATTTAATTTCTATTTCATTTCATTT-A
* *
17736502 ATTTCCATTTC-ATTTCATTTCCATTTC
1 ATTT-AATTTCTATTTCATTT-CATTTA
* * * *
17736529 ATCTAAATTATATTT-TTTTCCATTTA
1 ATTTAATTTCTATTTCATTT-CATTTA
*
17736555 A---AATTT-TTTTCTCATTTCATTTAA
1 ATTTAATTTCTATT-TCATTTCATTT-A
*
17736579 ATTTAATTT-TTTTCTCATTTCATTTAA
1 ATTTAATTTCTATT-TCATTTCATTT-A
*
17736606 ATTTAATTT-TTTTATCATTTCATTTA
1 ATTTAATTTCTATT-TCATTTCATTTA
17736632 A
1 A
17736633 ATTATCTTTT
Statistics
Matches: 150, Mismatches: 16, Indels: 31
0.76 0.08 0.16
Matches are distributed among these distances:
22 21 0.14
23 12 0.08
24 6 0.04
25 1 0.01
26 15 0.10
27 74 0.49
28 21 0.14
ACGTcount: A:0.26, C:0.14, G:0.01, T:0.59
Consensus pattern (26 bp):
ATTTAATTTCTATTTCATTTCATTTA
Found at i:17736528 original size:22 final size:22
Alignment explanation
Indices: 17736421--17736521 Score: 148
Period size: 22 Copynumber: 4.6 Consensus size: 22
17736411 CTTTCTTTTT
** *
17736421 TTTCATTTCATTTCTATTTCAA
1 TTTCATTTCATTTGAATTTCTA
* *
17736443 TTCCATTTAATTTGAATTTCTA
1 TTTCATTTCATTTGAATTTCTA
17736465 TTTCATTTCATTTGAATTTCTA
1 TTTCATTTCATTTGAATTTCTA
*
17736487 TTTCATTTCATTTGAATTTCCA
1 TTTCATTTCATTTGAATTTCTA
17736509 TTTCATTTCATTT
1 TTTCATTTCATTT
17736522 CCATTTCATC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.23, C:0.16, G:0.03, T:0.58
Consensus pattern (22 bp):
TTTCATTTCATTTGAATTTCTA
Found at i:17736558 original size:22 final size:22
Alignment explanation
Indices: 17736533--17736673 Score: 67
Period size: 27 Copynumber: 6.0 Consensus size: 22
17736523 CATTTCATCT
17736533 AAATTATATTTTTTTCCATTTA
1 AAATTATATTTTTTTCCATTTA
*
17736555 AAATT-T-TTTTCTCATTTCATTTA
1 AAATTATATTTT-T--TTCCATTTA
*
17736578 AATTTA-ATTTTTTTCTCATTTCA
1 AAATTATATTTTTTTC-CATTT-A
*
17736601 TTTAAATT-TAATTTTTTTATCATTTCA
1 ---AAATTAT-ATTTTTTT-CCATTT-A
* *
17736628 TTTAAATTATCTTTTTTTACATTTA
1 ---AAATTATATTTTTTTCCATTTA
17736653 AAATTA-ATTTTTTTCTCATTT
1 AAATTATATTTTTTTC-CATTT
17736674 CGTTTAAATT
Statistics
Matches: 95, Mismatches: 9, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
20 4 0.04
21 11 0.12
22 21 0.22
23 14 0.15
24 4 0.04
25 1 0.01
26 9 0.09
27 30 0.32
28 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (22 bp):
AAATTATATTTTTTTCCATTTA
Found at i:17736633 original size:27 final size:27
Alignment explanation
Indices: 17736556--17736943 Score: 235
Period size: 27 Copynumber: 16.0 Consensus size: 27
17736546 TTCCATTTAA
17736556 AATTTTTTTCTCATTTCATTTAAATTT
1 AATTTTTTTCTCATTTCATTTAAATTT
17736583 AATTTTTTTCTCATTTCATTTAAATTT
1 AATTTTTTTCTCATTTCATTTAAATTT
*
17736610 AATTTTTTTATCATTTCATTTAAA-TT
1 AATTTTTTTCTCATTTCATTTAAATTT
*
17736636 -ATCTTTTTT-T-A---CATTTAAAATT
1 AAT-TTTTTTCTCATTTCATTTAAATTT
*
17736658 AATTTTTTTCTCATTTCGTTTAAA-TT
1 AATTTTTTTCTCATTTCATTTAAATTT
17736684 -ATCTTTGTTTC-CA--T--TTT-AATTT
1 AAT-TTT-TTTCTCATTTCATTTAAATTT
17736706 AATTTTTTTCTCATTTCATTTAAATTT
1 AATTTTTTTCTCATTTCATTTAAATTT
*
17736733 --TCTTGTTTC-CA--T--TTT-AATTT
1 AAT-TTTTTTCTCATTTCATTTAAATTT
*
17736753 AATTTTTTTTCTCATTTCATTTTAATTT
1 AA-TTTTTTTCTCATTTCATTTAAATTT
*
17736781 AAATTTTTTCTCATTTCATTT--A--T
1 AATTTTTTTCTCATTTCATTTAAATTT
**
17736804 -ATTTTTTTC-CATGTAAATTT--A---
1 AATTTTTTTCTCAT-TTCATTTAAATTT
* *
17736825 -ATTTTTTCCTTATTTCATTTAAA-TT
1 AATTTTTTTCTCATTTCATTTAAATTT
*
17736850 -ATCTTTTT-TC----CATTTAAATTT
1 AATTTTTTTCTCATTTCATTTAAATTT
* *
17736871 AATTTCTTCCTCATTTCATTTAAA-TT
1 AATTTTTTTCTCATTTCATTTAAATTT
* * *
17736897 -A--TCTTTCT--TTCCATTTTAATTT
1 AATTTTTTTCTCATTTCATTTAAATTT
17736919 AA-TTTTTTCTCATTTCATTTAAATT
1 AATTTTTTTCTCATTTCATTTAAATT
17736944 ATCTTTCTTA
Statistics
Matches: 291, Mismatches: 24, Indels: 93
0.71 0.06 0.23
Matches are distributed among these distances:
20 13 0.04
21 44 0.15
22 47 0.16
23 20 0.07
24 11 0.04
25 17 0.06
26 37 0.13
27 95 0.33
28 7 0.02
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (27 bp):
AATTTTTTTCTCATTTCATTTAAATTT
Found at i:17736654 original size:48 final size:48
Alignment explanation
Indices: 17736519--17736779 Score: 293
Period size: 48 Copynumber: 5.4 Consensus size: 48
17736509 TTTCATTTCA
* *
17736519 TTTC-CATTTCATCTAAATTATATTTTTTTCCATTT-AA---AATTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTT
17736562 TTTCTCATTTCATTTAAATTTAAT-TTTTTTCTCATTTCATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAA-TT-ATCTTTTTT-TC----CATTTAAATTTAATTTT
* * *
17736616 TTTATCATTTCATTTAAATTATCTTTTTTTACATTTAAAATTAATTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTT
* * *
17736664 TTTCTCATTTCGTTTAAATTATCTTTGTTTCCATTTTAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTT
* * *
17736712 TTTCTCATTTCATTTAAATTTTC-TTGTTTCCATTTTAATTTAATTTTT
1 TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA-TTTT
*
17736760 TTTCTCATTTCATTTTAATT
1 TTTCTCATTTCATTTAAATT
17736780 TAAATTTTTT
Statistics
Matches: 191, Mismatches: 13, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
43 4 0.02
44 12 0.06
45 8 0.04
46 4 0.02
47 20 0.10
48 102 0.53
50 5 0.03
51 2 0.01
52 3 0.02
53 8 0.04
54 23 0.12
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (48 bp):
TTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTT
Found at i:17736669 original size:75 final size:74
Alignment explanation
Indices: 17736569--17736896 Score: 276
Period size: 75 Copynumber: 4.5 Consensus size: 74
17736559 TTTTTTCTCA
*
17736569 TTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTATCATTTCATTTAAA
1 TTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAA
17736634 TTATCTTTT
66 TTATCTTTT
* * *
17736643 TTTACATTTAAAATTAATTTTTTTCTCATTTCGTTTAAA-TT-ATCTTTGTTTC-CATTTTAATT
1 TTT-CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAAT-TTT-TTTCTCA-TTTCATT
17736705 T-AA-T-T-TTTT
62 TAAATTATCTTTT
* * * * * *
17736714 TCTCATTT-CATTTAAATTTTCTTGT--TTCCATTTTAATTTAATTTTTTTTCTCATTTCATTTT
1 TTTCATTTAAATTT-AATTTTTTTCTCATTTCATTTAAATTTAA-TTTTTTTCTCATTTCA-TTT
* **
17736776 AATTTAAATTTT
63 AAATTATCTTTT
* * * *
17736788 TTCTCATTT-CATTT-ATATTTTTT-TC----CATGTAAATTTAATTTTTTCCTTATTTCATTTA
1 TT-TCATTTAAATTTAAT-TTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTCATTTCATTTA
17736846 AATTATCTTTT
64 AATTATCTTTT
* * *
17736857 TTCCATTTAAATTTAATTTCTTCCTCATTTCATTTAAATT
1 TTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATT
17736897 ATCTTTCTTT
Statistics
Matches: 201, Mismatches: 29, Indels: 48
0.72 0.10 0.17
Matches are distributed among these distances:
68 13 0.06
69 35 0.17
70 41 0.20
71 19 0.09
72 2 0.01
73 6 0.03
74 31 0.15
75 54 0.27
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (74 bp):
TTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAA
TTATCTTTT
Found at i:17736809 original size:48 final size:48
Alignment explanation
Indices: 17736549--17736973 Score: 217
Period size: 48 Copynumber: 8.8 Consensus size: 48
17736539 TATTTTTTTC
* *
17736549 CATTTAAAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTCATTT
1 CATTT-AAA-TTTTTTCTCATTTCATTTTAATTTAAATTTTTTCTCATTT
* * **
17736599 CATTTAAATTTAATTTTTTTATCATTTCA-TTTAAATTATCTTTTTT-TACATTT
1 CATTT--A---AA-TTTTTTCTCATTTCATTTTAATTTAAATTTTTTCT-CATTT
* * * * * **
17736652 AAAATTAATTTTTTTCTCATTTC-GTTTAAATTATCTTTGTTTC-CATTTT
1 -CATTTAAATTTTTTCTCATTTCATTTTAATTTAAATTT-TTTCTCA-TTT
* * * ** *
17736701 AATTTAATTTTTTTCTCATTTCATTTAAATTT-TCTTGTTTC-CATTTT
1 CATTTAAATTTTTTCTCATTTCATTTTAATTTAAATTTTTTCTCA-TTT
* *
17736748 AATTTAATTTTTTTTCTCATTTCATTTTAATTTAAATTTTTTCTCATTT
1 CATTTAA-ATTTTTTCTCATTTCATTTTAATTTAAATTTTTTCTCATTT
* * * *
17736797 CATTTATATTTTTT-TC----CATGTAAATTT-AATTTTTTCCTTATTT
1 CATTTAAATTTTTTCTCATTTCATTTTAATTTAAATTTTTT-CTCATTT
* * *
17736840 CATTTAAATTATCTTT-T--TTCCATTTAAATTT-AATTTCTTCCTCATTT
1 CATTTAAATT-T-TTTCTCATTTCATTTTAATTTAAATTT-TTTCTCATTT
*
17736887 CATTTAAATTATCTTTCT--TTCCATTTTAATTT-AATTTTTTCTCATTT
1 CATTTAAATT-T-TTTCTCATTTCATTTTAATTTAAATTTTTTCTCATTT
** *
17736934 CATTTAAATTATCTTTCT--TACCATTTTAATTTATATTTTT
1 CATTTAAATT-T-TTTCTCATTTCATTTTAATTTAAATTTTT
17736974 CTGATATTAA
Statistics
Matches: 320, Mismatches: 32, Indels: 48
0.80 0.08 0.12
Matches are distributed among these distances:
42 8 0.03
43 24 0.08
44 1 0.00
45 4 0.01
47 96 0.30
48 111 0.35
49 27 0.08
50 7 0.02
51 2 0.01
52 2 0.01
53 18 0.06
54 20 0.06
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (48 bp):
CATTTAAATTTTTTCTCATTTCATTTTAATTTAAATTTTTTCTCATTT
Found at i:17736873 original size:47 final size:47
Alignment explanation
Indices: 17736770--17736973 Score: 276
Period size: 47 Copynumber: 4.4 Consensus size: 47
17736760 TTTCTCATTT
17736770 CATTTTAATTTAAATTTTTTCTCATTTCATTT--A-TAT-TTT-TTTC
1 CATTTTAATTT-AATTTTTTCTCATTTCATTTAAATTATCTTTCTTTC
* * *
17736813 CATGTAAATTTAATTTTTTCCTTATTTCATTTAAATTATCTTT-TTTC
1 CATTTTAATTTAATTTTTT-CTCATTTCATTTAAATTATCTTTCTTTC
* *
17736860 CATTTAAATTTAATTTCTTCCTCATTTCATTTAAATTATCTTTCTTTC
1 CATTTTAATTTAATTT-TTTCTCATTTCATTTAAATTATCTTTCTTTC
*
17736908 CATTTTAATTTAATTTTTTCTCATTTCATTTAAATTATCTTTCTTAC
1 CATTTTAATTTAATTTTTTCTCATTTCATTTAAATTATCTTTCTTTC
17736955 CATTTTAATTTATATTTTT
1 CATTTTAATTTA-ATTTTT
17736974 CTGATATTAA
Statistics
Matches: 144, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
42 8 0.06
43 20 0.14
45 1 0.01
46 3 0.02
47 85 0.59
48 27 0.19
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (47 bp):
CATTTTAATTTAATTTTTTCTCATTTCATTTAAATTATCTTTCTTTC
Found at i:17736958 original size:21 final size:21
Alignment explanation
Indices: 17736840--17736964 Score: 83
Period size: 21 Copynumber: 5.5 Consensus size: 21
17736830 TTCCTTATTT
17736840 CATTTAAATTATCTTT-TTTC
1 CATTTAAATTATCTTTCTTTC
17736860 CATTTAAATTTAATTTCTTCCTCATTT-
1 CATTTAAA-TT-A--TCTT--TC-TTTC
17736887 CATTTAAATTATCTTTCTTTC
1 CATTTAAATTATCTTTCTTTC
* * *
17736908 CATTTTAATTTAATTTTTTCTCATTT
1 CA-TTTAAATT-A-TCTTTCT--TTC
*
17736934 CATTTAAATTATCTTTCTTAC
1 CATTTAAATTATCTTTCTTTC
*
17736955 CATTTTAATT
1 CATTTAAATT
17736965 TATATTTTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
20 11 0.13
21 16 0.19
22 8 0.10
23 11 0.13
24 11 0.13
25 8 0.10
26 7 0.08
27 8 0.10
28 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (21 bp):
CATTTAAATTATCTTTCTTTC
Found at i:17740722 original size:94 final size:94
Alignment explanation
Indices: 17740561--17740750 Score: 335
Period size: 94 Copynumber: 2.0 Consensus size: 94
17740551 AAAAATACTA
* * * *
17740561 TTAATTTTAGATTATTTTGATGATTGTTTTCGAACCTGAGTTATTTTTATAAATATCAAAACTTT
1 TTAATTTCAAATTATTTTGATGATTGTTTTCGAACCTGAGTTATTTTTAAAAATATCAAAAATTT
17740626 TTGAGTTAGATTGATAAAATAGCCATGGT
66 TTGAGTTAGATTGATAAAATAGCCATGGT
17740655 TTAATTTCAAATTATTTTGATGATTGTTTTCGAACCTGAGTTATTTTTAAAAATATCAAAAATTT
1 TTAATTTCAAATTATTTTGATGATTGTTTTCGAACCTGAGTTATTTTTAAAAATATCAAAAATTT
*
17740720 TTGAGTTAGATTGATAAAATAGCTATGGT
66 TTGAGTTAGATTGATAAAATAGCCATGGT
17740749 TT
1 TT
17740751 TCCTCTGACT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (94 bp):
TTAATTTCAAATTATTTTGATGATTGTTTTCGAACCTGAGTTATTTTTAAAAATATCAAAAATTT
TTGAGTTAGATTGATAAAATAGCCATGGT
Found at i:17744887 original size:126 final size:126
Alignment explanation
Indices: 17744744--17744997 Score: 438
Period size: 126 Copynumber: 2.0 Consensus size: 126
17744734 TAACGAATGT
* *
17744744 TAATGAAAACAATAAAAAATTGACATGTGGCATGCTACATGGTGACACATCAACATATATTTTT-
1 TAATGAAAACAATAAAAAATTGACATGTGACATGCCACATGGTGACACATCAACATATATTTTTA
* *
17744808 AAAAATAAAATAAATCCTAAAAGTTAATATATTTTTTTAAAAAATAAACGTTCAAATGAATC
66 AAAAATAAAATAAATCCTAAAAGTTAATATA-TTTTTAAAAAAATAAACGGTCAAATGAATC
*
17744870 TAATGAAAATAATAAAAAATTGACATGTGACATGCCACATGGTGACACATCAACATATATTTTTA
1 TAATGAAAACAATAAAAAATTGACATGTGACATGCCACATGGTGACACATCAACATATATTTTTA
*
17744935 AAAAATAAAATAAATCCTAAAATTTAATATATTTTTAAAAAAATAAACGGTCAAATGAATC
66 AAAAATAAAATAAATCCTAAAAGTTAATATATTTTTAAAAAAATAAACGGTCAAATGAATC
17744996 TA
1 TA
17744998 GACAAATAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
126 91 0.75
127 30 0.25
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (126 bp):
TAATGAAAACAATAAAAAATTGACATGTGACATGCCACATGGTGACACATCAACATATATTTTTA
AAAAATAAAATAAATCCTAAAAGTTAATATATTTTTAAAAAAATAAACGGTCAAATGAATC
Found at i:17745104 original size:8 final size:8
Alignment explanation
Indices: 17745078--17745138 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 8
17745068 AAATATTATT
17745078 TAAAAATTA
1 TAAAAA-TA
17745087 TAACAAATA
1 TAA-AAATA
17745096 TAAAAATA
1 TAAAAATA
* *
17745104 TAAGAACA
1 TAAAAATA
17745112 TACAAAATCA
1 TA-AAAAT-A
17745122 TAAAAAT-
1 TAAAAATA
17745129 T-AAAATA
1 TAAAAATA
17745136 TAA
1 TAA
17745139 TTTTAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
6 5 0.12
7 2 0.05
8 14 0.33
9 16 0.37
10 6 0.14
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.25
Consensus pattern (8 bp):
TAAAAATA
Found at i:17746237 original size:21 final size:20
Alignment explanation
Indices: 17746173--17746237 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
17746163 TCCAATTTTC
* *
17746173 TTTAAAAACATTTTAAACA-C
1 TTTAAAAA-ATTTGAAACATG
*
17746193 TTTAAAACAATTTGGAA-ATGG
1 TTTAAAA-AATTTGAAACAT-G
17746214 TTTAAAAATATTTGAAACATG
1 TTTAAAAA-ATTTGAAACATG
17746235 TTT
1 TTT
17746238 TTGAGTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 1 0.03
20 14 0.39
21 19 0.53
22 2 0.06
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (20 bp):
TTTAAAAAATTTGAAACATG
Found at i:17757189 original size:46 final size:46
Alignment explanation
Indices: 17757137--17757533 Score: 553
Period size: 46 Copynumber: 8.6 Consensus size: 46
17757127 TCCCATAGTG
* *
17757137 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCTATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTA
* *
17757183 TCTTTCAACCATGGTCTTATTCTTTTCATGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
17757229 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * ** * *
17757275 TCTTTCAACCATGGGCTTATTCATTTCCCGTCATGTTACCCTGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
17757321 TCTCTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
17757367 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* *
17757413 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
17757459 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
*
17757505 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
17757534 TTTAGAGAGC
Statistics
Matches: 322, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.01
46 318 0.99
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
Found at i:17757485 original size:21 final size:21
Alignment explanation
Indices: 17757461--17757532 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
17757451 CCATGGTATC
17757461 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* *
17757482 TTTCATATCATGTTGTCATGGTA-TC-
1 TTTCA-ACCATG--GTC-T--TACACA
17757507 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
17757528 TTTCA
1 TTTCA
17757533 TTTTAGAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:17759409 original size:27 final size:26
Alignment explanation
Indices: 17759371--17759423 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
17759361 TACATACTAA
17759371 TAAAATAATAATAATAAT-ATATCTTAT
1 TAAAATAATAATAA-AATAATAT-TTAT
*
17759398 TAAAATATTAATAAAATAATATTTAT
1 TAAAATAATAATAAAATAATATTTAT
17759424 CTAATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATAATAATAAAATAATATTTAT
Found at i:17762420 original size:46 final size:46
Alignment explanation
Indices: 17762355--17762674 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
17762345 TTATCTTTGA
* * * * * *
17762355 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCAATTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-ATTTCATGT
*
17762401 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
17762447 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * * **
17762493 CACGCTGTCATGGTATCTTTCAAACATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * *
17762539 CATCTTGCCATGGTATCTCTCAACCATGGTCTCATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* ** *
17762585 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * *
17762631 CATGTTCCCATGGTGTCTTTCAACCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
17762675 TTTAGAGAGC
Statistics
Matches: 237, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 4 0.02
46 233 0.98
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:17764450 original size:8 final size:8
Alignment explanation
Indices: 17764439--17764468 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
17764429 CTTTACATAC
17764439 TAATAAAA
1 TAATAAAA
17764447 TAATAAAA
1 TAATAAAA
17764455 TAATAATAA
1 TAATAA-AA
17764464 TAATA
1 TAATA
17764469 TATCTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TAATAAAA
Found at i:17764481 original size:27 final size:27
Alignment explanation
Indices: 17764450--17764526 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
17764440 AATAAAATAA
*
17764450 TAAAATAATAATAATAATATATCTTAT
1 TAAAATAATAATAATAATATATCTAAT
*
17764477 TAAAATATTAATAAAATAATATTTATCTAAT
1 TAAAATAATAAT--AATAATA--TATCTAAT
*
17764508 T-AAATAATTATAA-AATATA
1 TAAAATAATAATAATAATATA
17764527 AAAATATCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 2 0.05
27 15 0.36
28 2 0.05
29 7 0.17
30 8 0.19
31 8 0.19
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAAATAATAATAATAATATATCTAAT
Found at i:17766747 original size:24 final size:24
Alignment explanation
Indices: 17766714--17766787 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
17766704 AAGTCTGTTT
*
17766714 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
17766738 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
17766762 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
17766786 GG
1 GG
17766788 TGAACTATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:17768173 original size:27 final size:26
Alignment explanation
Indices: 17768135--17768214 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
17768125 AGCGTCCTGG
*
17768135 TGGCTATGCCACAATTATCTGATCTGA
1 TGGCTCTGCCAC-ATTATCTGATCTGA
*
17768162 TGGCTCTGCCACGATTATCTGTATCTGG
1 TGGCTCTGCCAC-ATTATCTG-ATCTGA
* ** *
17768190 TGACTCTATCACATTATCTGTTCTG
1 TGGCTCTGCCACATTATCTGATCTG
17768215 GCAGCCATGC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.09
27 27 0.60
28 14 0.31
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGATCTGA
Found at i:17770254 original size:37 final size:37
Alignment explanation
Indices: 17770204--17770327 Score: 214
Period size: 37 Copynumber: 3.3 Consensus size: 37
17770194 TACGAAGTCT
17770204 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
*
17770241 TACCCGGACATAATCTCCACACGTAGTCATCGGGTTG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
17770278 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC-
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
17770314 TCACCCGGAACATA
1 T-ACCCGG-ACATA
17770328 TTTCCAAGTT
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
36 1 0.01
37 77 0.93
38 5 0.06
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:17770440 original size:49 final size:49
Alignment explanation
Indices: 17770376--17770572 Score: 340
Period size: 49 Copynumber: 4.0 Consensus size: 49
17770366 ATTCACATTA
* *
17770376 GCCATTCGGCTTTATCACATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
*
17770425 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
* *
17770474 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
*
17770523 GCCATTAGGCCTTATCACATATAGATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
17770572 G
1 G
17770573 ATATATATAC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 142 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
Found at i:17770545 original size:98 final size:98
Alignment explanation
Indices: 17770376--17771019 Score: 553
Period size: 98 Copynumber: 6.7 Consensus size: 98
17770366 ATTCACATTA
* * * *
17770376 GCCATTCGGCTTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
17770441 ACATATATATACATTTTCACATTCATCACGTCG
66 ACATATATATACATTTTCACATTCATCACGTCG
17770474 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
* *
17770539 ACATATAGATACATTTTCACATTCATCACATCG
66 ACATATATATACATTTTCACATTCATCACGTCG
* * * ** * * *
17770572 G--A-TA----TATAT-ACATTTTC--ACATTCATCACA-TCGGC-CATTAGGCC-TTA-TCACA
1 GCCATTAGGCCT-TATCACATATACATACATT-TTCACATTCATCAC-GTCGGCCATTAGGC-C-
* ** * * ** * *
17770623 TATATATACAT-T-TTCACATTCATCAC-GTCGGC-CATTAG
61 T-TAT-CACATATATATACATT-TTCACATTCATCAC-GTCG
* * * * ** * *
17770661 GCC-TTA-TCAC--AT-ATATATACATTTTCACATTCATCAC-GTCGGC-CATTAGGCC-TTA--
1 GCCATTAGGC-CTTATCACATATACA---T-ACATT-TTCACATTCATCAC-GTCGGCCATTAGG
* * * *
17770716 --TCA-CATATACATA--CATTTTCACATTCATCACCTCG
59 CCTTATCACATATATATACATTTTCACATTCATCACGTCG
*
17770751 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCAGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
*
17770816 ACATATACATACATTTTCACATTCATCACGTCG
66 ACATATATATACATTTTCACATTCATCACGTCG
*
17770849 GCCATTAGGCCTTATCAAATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
*
17770914 ACATATACATACATTTTCACATTCATCACGTCG
66 ACATATATATACATTTTCACATTCATCACGTCG
*
17770947 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
17771012 ACATATAT
66 ACATATAT
17771020 TATTATGTAC
Statistics
Matches: 447, Mismatches: 57, Indels: 84
0.76 0.10 0.14
Matches are distributed among these distances:
87 1 0.00
88 6 0.01
89 33 0.07
90 40 0.09
91 23 0.05
92 13 0.03
93 3 0.01
94 8 0.02
95 4 0.01
96 8 0.02
98 308 0.69
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
ACATATATATACATTTTCACATTCATCACGTCG
Found at i:17770559 original size:147 final size:147
Alignment explanation
Indices: 17770376--17771019 Score: 607
Period size: 147 Copynumber: 4.5 Consensus size: 147
17770366 ATTCACATTA
* * *
17770376 GCCATTCGGCTTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
17770441 ACATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATACATACATTT
66 ACATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATACATACATTT
17770506 TCACATTCATCACGTCG
131 TCACATTCATCACGTCG
*
17770523 GCCATTAGGCCTTATCACATATAGATACATTTTCACATTCATCACATCGG--A-TA----TATAT
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCT-TAT
* ** * * * * * *
17770581 -ACAT-T-T-TCACATTCATCACA-TCGGC-CATTAGGCC-TTA-TCACATATATATACATTTTC
65 CACATATATAT-ACATT-TTCACATTCATCAC-GTCGGCCATTAGGC-C-T-TAT-CACATATAC
* * ** * *
17770638 --ACATTCATCAC-GTCGGC-CATTAG
123 ATACATT-TTCACATTCATCAC-GTCG
* * * * * * ** *
17770661 GCC-TTA-TCACATATATATACATTTTC--ACATTCATCAC-GTCGGC-CATTAGGCC--T----
1 GCCATTAGGC-C-T-TAT-CACATATACATACATT-TTCACATTCATCACA-TCGGCCATTAGGC
* *
17770714 --TATCACATATACATACATTTTCACATTCATCACCTCGGCCATTAGGCCTTATCACATATACAT
60 CTTATCACATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATACAT
*
17770777 ACATTTTCACATTCATCACGTCA
125 ACATTTTCACATTCATCACGTCG
*
17770800 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
* *
17770865 AAATATACATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATACATACATTT
66 ACATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATACATACATTT
17770930 TCACATTCATCACGTCG
131 TCACATTCATCACGTCG
17770947 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
17771012 ACATATAT
66 ACATATAT
17771020 TATTATGTAC
Statistics
Matches: 392, Mismatches: 61, Indels: 88
0.72 0.11 0.16
Matches are distributed among these distances:
136 5 0.01
137 29 0.07
138 60 0.15
139 61 0.16
140 28 0.07
141 6 0.02
144 2 0.01
145 1 0.00
147 200 0.51
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (147 bp):
GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATACATACATTT
TCACATTCATCACGTCG
Done.