Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 1 of 202
Found at i:22 original size:7 final size:7
Alignment explanation
Indices: 10--191 Score: 143
Period size: 7 Copynumber: 25.0 Consensus size: 7
1 AACCCATAT
10 ACCCTAA
1 ACCCTAA
17 ACCCTAA
1 ACCCTAA
24 ACCTCCCTAA
1 A---CCCTAA
34 ACCCTAA
1 ACCCTAA
*
41 ACCTTAA
1 ACCCTAA
48 A-CCT-A
1 ACCCTAA
***
53 ACCCCCC
1 ACCCTAA
60 ACCCTCAA
1 ACCCT-AA
*
68 ACCCCAA
1 ACCCTAA
75 ACCCCTAA
1 A-CCCTAA
83 ACCCTAA
1 ACCCTAA
*
90 ACCTTAA
1 ACCCTAA
97 ACCCTAA
1 ACCCTAA
*
104 ACCCCAA
1 ACCCTAA
*
111 ACACCAAA
1 AC-CCTAA
119 ACCCTAAA
1 ACCCT-AA
127 ACCCTAA
1 ACCCTAA
*
134 ACCCAAA
1 ACCCTAA
*
141 ATCCTAA
1 ACCCTAA
**
148 ACTTTAAA
1 ACCCT-AA
156 ACCCCTAA
1 A-CCCTAA
*
164 ATCCTAA
1 ACCCTAA
171 ACCCTAA
1 ACCCTAA
*
178 ACCTTAA
1 ACCCTAA
185 ACCCTAA
1 ACCCTAA
192 GGAATAAACA
Statistics
Matches: 138, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
5 2 0.01
6 4 0.03
7 94 0.68
8 29 0.21
9 2 0.01
10 7 0.05
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:33 original size:17 final size:17
Alignment explanation
Indices: 11--44 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1 AACCCATATA
11 CCCTAAACCCTAAACCT
1 CCCTAAACCCTAAACCT
28 CCCTAAACCCTAAACCT
1 CCCTAAACCCTAAACCT
45 TAAACCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (17 bp):
CCCTAAACCCTAAACCT
Found at i:129 original size:37 final size:36
Alignment explanation
Indices: 60--180 Score: 118
Period size: 37 Copynumber: 3.3 Consensus size: 36
50 CTAACCCCCC
* *
60 ACCCTCAAACCCCAAACCCCTAAACCCT-AAACCTTAA
1 ACCCT-AAACCCCAAACACCAAAACCCTAAAACC-TAA
97 ACCCTAAACCCCAAACACCAAAACCCTAAAACCCTAA
1 ACCCTAAACCCCAAACACCAAAACCCTAAAA-CCTAA
* * * *** *
134 ACCCAAAATCCTAAACTTTAAAACCCCTAAATCCTAA
1 ACCCTAAACCCCAAACACCAAAA-CCCTAAAACCTAA
171 ACCCTAAACC
1 ACCCTAAACC
181 TTAAACCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
36 20 0.29
37 41 0.59
38 9 0.13
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (36 bp):
ACCCTAAACCCCAAACACCAAAACCCTAAAACCTAA
Found at i:129 original size:44 final size:43
Alignment explanation
Indices: 10--191 Score: 161
Period size: 44 Copynumber: 4.2 Consensus size: 43
1 AACCCATAT
* * *
10 ACCCTAAACCCTAAACCTCCCTAAACCCTAAACCTTAAACC-T-A
1 ACCCTAAACCCCAAA-C-CCCAAAACCCTAAACCCTAAACCTTAA
*** *
53 ACCCCCCACCCTCAAACCCCAAACCCCTAAACCCTAAACCTTAA
1 ACCCTAAACCC-CAAACCCCAAAACCCTAAACCCTAAACCTTAA
* **
97 ACCCTAAACCCCAAACACCAAAACCCTAAAACCCTAAACCCAAA
1 ACCCTAAACCCCAAACCCCAAAACCCT-AAACCCTAAACCTTAA
* *** * *
141 ATCCTAAACTTTAAAACCCCTAAATCCTAAACCCTAAACCTTAA
1 ACCCTAAAC-CCCAAACCCCAAAACCCTAAACCCTAAACCTTAA
185 ACCCTAA
1 ACCCTAA
192 GGAATAAACA
Statistics
Matches: 110, Mismatches: 24, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
42 20 0.18
43 24 0.22
44 54 0.49
45 12 0.11
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (43 bp):
ACCCTAAACCCCAAACCCCAAAACCCTAAACCCTAAACCTTAA
Found at i:162 original size:30 final size:30
Alignment explanation
Indices: 66--191 Score: 127
Period size: 29 Copynumber: 4.3 Consensus size: 30
56 CCCCACCCTC
* *
66 AAACCCCAAACCCCTAAACCCTAAACCTT-
1 AAACCCTAAACCCCAAAACCCTAAACCTTA
* *
95 AAACCCTAAACCCC-AAACACCAAAACCCTA
1 AAACCCTAAACCCCAAAAC-CCTAAACCTTA
* *
125 AAACCCTAAA-CCCAAAATCCTAAACTTTA
1 AAACCCTAAACCCCAAAACCCTAAACCTTA
* *
154 AAACCCCTAAA-TCCTAAACCCTAAACCTT-
1 AAA-CCCTAAACCCCAAAACCCTAAACCTTA
183 AAACCCTAA
1 AAACCCTAA
192 GGAATAAACA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
28 10 0.12
29 38 0.46
30 34 0.41
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (30 bp):
AAACCCTAAACCCCAAAACCCTAAACCTTA
Found at i:270 original size:32 final size:32
Alignment explanation
Indices: 234--308 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
224 GCATATCCGA
234 AGAATGGGATAAATCCAAACCGGGATAACCGC
1 AGAATGGGATAAATCCAAACCGGGATAACCGC
* * * * *
266 AGAATAGGATAACTCTAAACCGGGATATCCTC
1 AGAATGGGATAAATCCAAACCGGGATAACCGC
*
298 CGAATGGGATA
1 AGAATGGGATA
309 TCCCTACCTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (32 bp):
AGAATGGGATAAATCCAAACCGGGATAACCGC
Found at i:493 original size:33 final size:32
Alignment explanation
Indices: 456--542 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 32
446 AATCCAGGTT
* *
456 GGGATATCCTAAGAATGGGATAAATCCTGATCC
1 GGGATATCCTAAGAATGGGATAAAT-CTAAACC
* ** * *
489 GGGATAACCGCATAATTGGATAAATCTAAACC
1 GGGATATCCTAAGAATGGGATAAATCTAAACC
**
521 GGGATATCCTTCGAATGGGATA
1 GGGATATCCTAAGAATGGGATA
543 TCCCTACCTG
Statistics
Matches: 41, Mismatches: 13, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
32 21 0.51
33 20 0.49
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (32 bp):
GGGATATCCTAAGAATGGGATAAATCTAAACC
Found at i:598 original size:234 final size:233
Alignment explanation
Indices: 190--698 Score: 813
Period size: 234 Copynumber: 2.2 Consensus size: 233
180 CTTAAACCCT
* * * *
190 AAGGAATAAACAGGGAATAGCTTAATCCAAGTTAGCATATCCGAAGAATGGGATAAATCCAAACC
1 AAGGAATAACCAGGGAATAGCTTAATCCAGGTTGGGATATCCGAAGAATGGGATAAATCCAAACC
*
255 GGGATAACCGCAGAATAGGATAACTCTAAACCGGGATATCCTCCGAATGGGATATCCCTACCTGG
66 GGGATAACCGCAGAATAGGATAAATCTAAACCGGGATATCCTCCGAATGGGATATCCCTACCTGG
* * * *
320 AATAACTACGGTAGGTTCCCCGGTCTAAGCTCGAAAAAACGATGAACCGGTGTCTAAACCATCTA
131 AATAACTACGGTAGATTACCCGGTCTAAACTCGAAAAAACGATGAACCGGAGTCTAAACCATCTA
* *
385 AAACCGGCTATAGGATACCGAACCGGGACGGCAATTGA
196 AAACCGGCTATAGGATAACGAACCGGGACGGCAATTAA
* * * *
423 AAGGAATAACCGGGGAATAGCTTAATCCAGGTTGGGATATCCTAAGAATGGGATAAATCCTGATC
1 AAGGAATAACCAGGGAATAGCTTAATCCAGGTTGGGATATCCGAAGAATGGGATAAATCC-AAAC
* * *
488 CGGGATAACCGCATAATTGGATAAATCTAAACCGGGATATCCTTCGAATGGGATATCCCTACCTG
65 CGGGATAACCGCAGAATAGGATAAATCTAAACCGGGATATCCTCCGAATGGGATATCCCTACCTG
553 GAATAACTACGGTAGATTACCCGGTCTAAACTCGAAAAAACGATGAACCGGAGTCTAAACCATCT
130 GAATAACTACGGTAGATTACCCGGTCTAAACTCGAAAAAACGATGAACCGGAGTCTAAACCATCT
*
618 AAAACCGGCTATAGGATAACGAACCGGGACGGCATTTAA
195 AAAACCGGCTATAGGATAACGAACCGGGACGGCAATTAA
*
657 AAGGAATAACCCGGGAATAGCTTAAAT-CAGGTTGGGATATCC
1 AAGGAATAACCAGGGAATAGCTT-AATCCAGGTTGGGATATCC
699 CCGGGTTATC
Statistics
Matches: 254, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
233 54 0.21
234 197 0.78
235 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (233 bp):
AAGGAATAACCAGGGAATAGCTTAATCCAGGTTGGGATATCCGAAGAATGGGATAAATCCAAACC
GGGATAACCGCAGAATAGGATAAATCTAAACCGGGATATCCTCCGAATGGGATATCCCTACCTGG
AATAACTACGGTAGATTACCCGGTCTAAACTCGAAAAAACGATGAACCGGAGTCTAAACCATCTA
AAACCGGCTATAGGATAACGAACCGGGACGGCAATTAA
Found at i:1334 original size:33 final size:33
Alignment explanation
Indices: 1292--1357 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1282 ACAGAGGAAA
*
1292 ATTTAATCTTTGAAAGACAAAACATCAGACTAT
1 ATTTAATCTTTGAAAGACAAAACAGCAGACTAT
* *
1325 ATTTCATCTTTGAAAGACAAAACAGCGGACTAT
1 ATTTAATCTTTGAAAGACAAAACAGCAGACTAT
1358 TATGTACGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (33 bp):
ATTTAATCTTTGAAAGACAAAACAGCAGACTAT
Found at i:4940 original size:230 final size:229
Alignment explanation
Indices: 4548--5056 Score: 718
Period size: 230 Copynumber: 2.2 Consensus size: 229
4538 AGCACATGTC
*
4548 AACTAAAAACAGAGAGGAATAGTATTCTGCTAAGCAGAA-ATTACAAAAATATTATAAAGATACT
1 AACTAAAAACAGAGAGGAATAGTATTCTGCTCAGC-GAATATTACAAAAATATTATAAAGATACT
* *
4612 ATCCTGAATTCTGAGAGCAAAGGAACTAGTGTAATGTTATTTGGAAAATGAACTATAATGACAAA
65 ATCCTCAATTCTGAGAGCAAAGGAACTAGTGTAATGTTAATTGGAAAATGAACTATAATGACAAA
* * ** *
4677 AATATAAATGATAAGCCGAAATCTAAGCGTGATTTGGGCCCAAAAAAACCAAACCACAAAATTAT
130 AATATAAATGAAAAGCCAAAATCTAAGCGTGATTCAGGCCCAAAAAAACCAAACCACAAAATTAC
*
4742 TCTACTAAGCAAAAACAAGAAAAGAAGAATATATT
195 TCTACTAAGCAAAAACAAGAAAAGAAGAATATATA
* * * * *
4777 AACTAAAAACAGAGAGGAAAATTATTCTGCTCAGCGAATATTACAAAAATCTTAATATAGATATT
1 AACTAAAAACAGAGAGGAATAGTATTCTGCTCAGCGAATATTACAAAAATATT-ATAAAGATACT
* * * * * *
4842 TTCTTC-AGTCTTGGGAGCAATGGAACTAGTGTCATGTTAATTGGAAAA-GTAACTATAATGACA
65 ATCCTCAATTC-TGAGAGCAAAGGAACTAGTGTAATGTTAATTGGAAAATG-AACTATAATGACA
* * * *
4905 AAAATATAAATGAAAAGCCAAAATCTAATCGTGATTCAGGCTCAAAAACACCAAACCCCAAAATT
128 AAAATATAAATGAAAAGCCAAAATCTAAGCGTGATTCAGGCCCAAAAAAACCAAACCACAAAATT
*
4970 ACTCTGCTAAGCAAAAACAAGAAAAGAAGAATATATA
193 ACTCTACTAAGCAAAAACAAGAAAAGAAGAATATATA
**
5007 AACTAAAAACAGAGAGGAATAGTATTCTGCTCAGCGGCTATTACAAAAAT
1 AACTAAAAACAGAGAGGAATAGTATTCTGCTCAGCGAATATTACAAAAAT
5057 TATTCTGCTA
Statistics
Matches: 247, Mismatches: 29, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
228 3 0.01
229 49 0.20
230 195 0.79
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (229 bp):
AACTAAAAACAGAGAGGAATAGTATTCTGCTCAGCGAATATTACAAAAATATTATAAAGATACTA
TCCTCAATTCTGAGAGCAAAGGAACTAGTGTAATGTTAATTGGAAAATGAACTATAATGACAAAA
ATATAAATGAAAAGCCAAAATCTAAGCGTGATTCAGGCCCAAAAAAACCAAACCACAAAATTACT
CTACTAAGCAAAAACAAGAAAAGAAGAATATATA
Found at i:9338 original size:15 final size:16
Alignment explanation
Indices: 9320--9391 Score: 121
Period size: 16 Copynumber: 4.6 Consensus size: 16
9310 TATCCGTTTT
9320 CGGGATATCCCAAA-C
1 CGGGATATCCCAAACC
*
9335 CGGGATATTCCAAACC
1 CGGGATATCCCAAACC
9351 CGGGATATCCCAAACC
1 CGGGATATCCCAAACC
9367 CGGGATATCCCAAA-C
1 CGGGATATCCCAAACC
9382 CGGGATATCC
1 CGGGATATCC
9392 GCGGAATGGG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
15 24 0.44
16 30 0.56
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (16 bp):
CGGGATATCCCAAACC
Found at i:9355 original size:31 final size:31
Alignment explanation
Indices: 9320--9391 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 31
9310 TATCCGTTTT
*
9320 CGGGATATCCCAAA-CCGGGATATTCCAAACC
1 CGGGATATCCCAAACCCGGGATATCCCAAA-C
9351 CGGGATATCCCAAACCCGGGATATCCCAAAC
1 CGGGATATCCCAAACCCGGGATATCCCAAAC
9382 CGGGATATCC
1 CGGGATATCC
9392 GCGGAATGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 25 0.64
32 14 0.36
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (31 bp):
CGGGATATCCCAAACCCGGGATATCCCAAAC
Found at i:9481 original size:21 final size:21
Alignment explanation
Indices: 9449--9488 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9439 TCCAGAAGCA
9449 TAAAAAATCTGAACCGGACAC
1 TAAAAAATCTGAACCGGACAC
*
9470 TAAAACAA-CTGACCCGGAC
1 TAAAA-AATCTGAACCGGAC
9489 GGGGGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.45, C:0.28, G:0.15, T:0.12
Consensus pattern (21 bp):
TAAAAAATCTGAACCGGACAC
Found at i:19599 original size:15 final size:15
Alignment explanation
Indices: 19579--19635 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
19569 TCCCTAAAAT
19579 GGGATATCCCAAGCC
1 GGGATATCCCAAGCC
** **
19594 GGGATATCCGTAGAAT
1 GGGATATCCCAAG-CC
*
19610 GGAATATCCCAAGCC
1 GGGATATCCCAAGCC
19625 GGGATATCCCA
1 GGGATATCCCA
19636 TTAACTACGT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
15 21 0.68
16 10 0.32
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (15 bp):
GGGATATCCCAAGCC
Found at i:19601 original size:31 final size:31
Alignment explanation
Indices: 19559--19634 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
19549 CTAGACCCCC
* *
19559 AGCCGGAATATCCCTAAAATGGGATATCCCA
1 AGCCGGGATATCCCTAAAATGGAATATCCCA
* *
19590 AGCCGGGATATCCGTAGAATGGAATATCCCA
1 AGCCGGGATATCCCTAAAATGGAATATCCCA
19621 AGCCGGGATATCCC
1 AGCCGGGATATCCC
19635 ATTAACTACG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (31 bp):
AGCCGGGATATCCCTAAAATGGAATATCCCA
Found at i:25288 original size:637 final size:637
Alignment explanation
Indices: 24073--25321 Score: 2381
Period size: 637 Copynumber: 2.0 Consensus size: 637
24063 CCATTAATGA
24073 ATTGAGCTGAAGAGATTGTTATTAAATATTTAATAATAATATTTACGACATCAATTTACAAAAAC
1 ATTGAGCTGAAGAGATTGTTATTAAATATTTAATAATAATATTTACGACATCAATTTACAAAAAC
*
24138 AAAGTATCAATACTGAATTTTCCGTAAATATAAATTAAAACTAAACTACAAAGTAATCATCATAC
66 AAAGTATCAAAACTGAATTTTCCGTAAATATAAATTAAAACTAAACTACAAAGTAATCATCATAC
** *
24203 TATTCATATCGAGCTGCTTTCATTAGTTTTTGGTTTGAAATTCTTTTTCTTCACAAACAGTAGGA
131 TATTCATATCGAGCTGCTTTCATTAGTACTTGGTTTGAAATTCTTTTCCTTCACAAACAGTAGGA
*
24268 ATTGATGATATGTTTATTTAGCTTGACATTATAGAGGTGATTGAATAGGCTCTTTGTAAGCTTCC
196 ATTGATGATATGTTTATTTAGCTTGACATTATAAAGGTGATTGAATAGGCTCTTTGTAAGCTTCC
*
24333 AGTAGTAGAACTGAATATGGGATTTCAGCAGTTAACTAATATAAGCGTTTTCTCCATCATCAGGA
261 AGTAGTAGAACTGAATATGAGATTTCAGCAGTTAACTAATATAAGCGTTTTCTCCATCATCAGGA
*
24398 AAAGGCCATTGAAAAAGGTTCTGTTGAAACCTTGATGCATGAGCATTTACGTTTTGCACAAGGCT
326 AAAGGCCATTGAAAAAGGTTATGTTGAAACCTTGATGCATGAGCATTTACGTTTTGCACAAGGCT
24463 TGCTTGAGGTGTTGATCTTTGTGACTTCTATCACCATATGGAATAAAGGCATCATTAGCTAAATA
391 TGCTTGAGGTGTTGATCTTTGTGACTTCTATCACCATATGGAATAAAGGCATCATTAGCTAAATA
*
24528 ATTCTTTGCTTCCCTATAGCAGTTTTTACTGGGAGAAATATGTTTTGCAGAAAGGAGAAAACAAG
456 ATTCTTTGCTTCCCTATAGCAGTTTTTACTGGGAGAAATATGTTTTGCAGAAAAGAGAAAACAAG
*
24593 GTCTTTCAGATTTCAATGTTTGAATAGCATTTGATTTATATGTTCTTTTTTCATTAATTTCAAAT
521 GTCTTTCAGATTTCAATGGTTGAATAGCATTTGATTTATATGTTCTTTTTTCATTAATTTCAAAT
24658 TCATTAGAAATGTTTATTGATTGCACACGTAGCAGAATATAAATAATATTTT
586 TCATTAGAAATGTTTATTGATTGCACACGTAGCAGAATATAAATAATATTTT
24710 ATTGAGCTGAAGAGATTGTTATTAAATATTTAATAATAATATTTACGACATCAATTTACAAAAAC
1 ATTGAGCTGAAGAGATTGTTATTAAATATTTAATAATAATATTTACGACATCAATTTACAAAAAC
*
24775 AAAGTATCAAAACTGAATTTTCCGTAAATATAAATTGAAACTAAACTACAAAGTAATCATCATAC
66 AAAGTATCAAAACTGAATTTTCCGTAAATATAAATTAAAACTAAACTACAAAGTAATCATCATAC
24840 TATTCATATCGAGCTGCTTTCATTAGTACTTGGTTTGAAATTCTTTTCCTTCACAAACAGTAGGA
131 TATTCATATCGAGCTGCTTTCATTAGTACTTGGTTTGAAATTCTTTTCCTTCACAAACAGTAGGA
*
24905 ATTGATGATATGTTTATTTAGCTTGACATTTTAAAGGTGATTGAATAGGCTCTTTGTAAGCTTCC
196 ATTGATGATATGTTTATTTAGCTTGACATTATAAAGGTGATTGAATAGGCTCTTTGTAAGCTTCC
24970 AGTAGTAGAACTGAATATGAGATTTCAGCAGTTAACTAATATAAGCGTTTTCTCCATCATCAGGA
261 AGTAGTAGAACTGAATATGAGATTTCAGCAGTTAACTAATATAAGCGTTTTCTCCATCATCAGGA
*
25035 AAAGGCCATTGAAAAAGGTTATGTTGAAACCTTGATGTATGAGCATTTACGTTTTGCACAAGGCT
326 AAAGGCCATTGAAAAAGGTTATGTTGAAACCTTGATGCATGAGCATTTACGTTTTGCACAAGGCT
25100 TGCTTGAGGTGTTGATCTTTGTGACTTCTATCACCATATGGAATAAAGGCATCATTAGCTAAATA
391 TGCTTGAGGTGTTGATCTTTGTGACTTCTATCACCATATGGAATAAAGGCATCATTAGCTAAATA
25165 ATTCTTTGCTTCCCTATAGCAGTTTTTACTGGGAGAAATATGTTTTGCAGAAAAGAGAAAACAAG
456 ATTCTTTGCTTCCCTATAGCAGTTTTTACTGGGAGAAATATGTTTTGCAGAAAAGAGAAAACAAG
25230 GTCTTTCAGATTTCAATGGTTGAATAGCATTTGATTTATATGTTCTTTTTTCATTAATTTCAAAT
521 GTCTTTCAGATTTCAATGGTTGAATAGCATTTGATTTATATGTTCTTTTTTCATTAATTTCAAAT
*
25295 TCATTAGCAATGTTTATTGATTGCACA
586 TCATTAGAAATGTTTATTGATTGCACA
25322 AGTCAGAGAG
Statistics
Matches: 599, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
637 599 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (637 bp):
ATTGAGCTGAAGAGATTGTTATTAAATATTTAATAATAATATTTACGACATCAATTTACAAAAAC
AAAGTATCAAAACTGAATTTTCCGTAAATATAAATTAAAACTAAACTACAAAGTAATCATCATAC
TATTCATATCGAGCTGCTTTCATTAGTACTTGGTTTGAAATTCTTTTCCTTCACAAACAGTAGGA
ATTGATGATATGTTTATTTAGCTTGACATTATAAAGGTGATTGAATAGGCTCTTTGTAAGCTTCC
AGTAGTAGAACTGAATATGAGATTTCAGCAGTTAACTAATATAAGCGTTTTCTCCATCATCAGGA
AAAGGCCATTGAAAAAGGTTATGTTGAAACCTTGATGCATGAGCATTTACGTTTTGCACAAGGCT
TGCTTGAGGTGTTGATCTTTGTGACTTCTATCACCATATGGAATAAAGGCATCATTAGCTAAATA
ATTCTTTGCTTCCCTATAGCAGTTTTTACTGGGAGAAATATGTTTTGCAGAAAAGAGAAAACAAG
GTCTTTCAGATTTCAATGGTTGAATAGCATTTGATTTATATGTTCTTTTTTCATTAATTTCAAAT
TCATTAGAAATGTTTATTGATTGCACACGTAGCAGAATATAAATAATATTTT
Found at i:30334 original size:42 final size:42
Alignment explanation
Indices: 30275--30362 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
30265 CAACCAGAAA
30275 CATTATCCCGATTAGGCAGAACCTGGAGCTCAAACTTGCCAG
1 CATTATCCCGATTAGGCAGAACCTGGAGCTCAAACTTGCCAG
30317 CATTATCCCGATTAGGCAGAACCTGGAGCTCAAACTTGCCAG
1 CATTATCCCGATTAGGCAGAACCTGGAGCTCAAACTTGCCAG
30359 CATT
1 CATT
30363 CCATAATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (42 bp):
CATTATCCCGATTAGGCAGAACCTGGAGCTCAAACTTGCCAG
Found at i:31045 original size:12 final size:12
Alignment explanation
Indices: 31028--31063 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
31018 CCACTTCATT
31028 TGGAACAGTTTC
1 TGGAACAGTTTC
31040 TGGAACAGTTTC
1 TGGAACAGTTTC
31052 TGGAACAGTTTC
1 TGGAACAGTTTC
31064 ACATGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (12 bp):
TGGAACAGTTTC
Found at i:36471 original size:12 final size:12
Alignment explanation
Indices: 36454--36480 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36444 TCTCTTGGAT
36454 CACTAAAAATGA
1 CACTAAAAATGA
36466 CACTAAAAATGA
1 CACTAAAAATGA
36478 CAC
1 CAC
36481 AATCTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (12 bp):
CACTAAAAATGA
Found at i:45538 original size:32 final size:32
Alignment explanation
Indices: 45497--45561 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
45487 AAGATGAGGG
*
45497 CAAAGGTGAACATGGCTCAATGGAGAGCCGAT
1 CAAAGGTGAACACGGCTCAATGGAGAGCCGAT
45529 CAAAGGTGAACACGGCTCAATGGAGAGCCGAT
1 CAAAGGTGAACACGGCTCAATGGAGAGCCGAT
45561 C
1 C
45562 GTAATATTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.31, T:0.14
Consensus pattern (32 bp):
CAAAGGTGAACACGGCTCAATGGAGAGCCGAT
Found at i:51076 original size:30 final size:31
Alignment explanation
Indices: 51037--51135 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
51027 TTCGAGTCAA
* *
51037 GACTAAAATTTTA-AAACTTGAAAAGTATAGG
1 GACT-AAATTTGATAAACTTGAAAAGTACAGG
* * *
51068 GATTAAATTTGATCAATTTGAAAAGTACAGG
1 GACTAAATTTGATAAACTTGAAAAGTACAGG
* *
51099 GACTAAATTTGATCAAA-TT--AAAGTATAGA
1 GACTAAATTTGAT-AAACTTGAAAAGTACAGG
51128 GACTAAAT
1 GACTAAAT
51136 ACAGCACTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
29 16 0.28
30 7 0.12
31 32 0.56
32 2 0.04
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (31 bp):
GACTAAATTTGATAAACTTGAAAAGTACAGG
Found at i:51090 original size:31 final size:31
Alignment explanation
Indices: 51054--51135 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
51044 ATTTTAAAAC
* *
51054 TTGAAAAGTATAGGGATTAAATTTGATCAAT
1 TTGAAAAGTATAGGGACTAAATTTGATCAAA
*
51085 TTGAAAAGTACAGGGACTAAATTTGATCAAA
1 TTGAAAAGTATAGGGACTAAATTTGATCAAA
*
51116 TT--AAAGTATAGAGACTAAAT
1 TTGAAAAGTATAGGGACTAAAT
51136 ACAGCACTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 16 0.35
31 30 0.65
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (31 bp):
TTGAAAAGTATAGGGACTAAATTTGATCAAA
Found at i:53283 original size:23 final size:23
Alignment explanation
Indices: 53253--53298 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
53243 CTTGGTTTGG
53253 GTTCCCAATCTCATCAACCAAGT
1 GTTCCCAATCTCATCAACCAAGT
53276 GTTCCCAATCTCATCAACCAAGT
1 GTTCCCAATCTCATCAACCAAGT
53299 CATTCGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (23 bp):
GTTCCCAATCTCATCAACCAAGT
Found at i:58805 original size:14 final size:15
Alignment explanation
Indices: 58780--58808 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58770 TTATTAGCAA
58780 GTAAATTTAAAAAAT
1 GTAAATTTAAAAAAT
58795 GTAAA-TTAAAAAAT
1 GTAAATTTAAAAAAT
58809 TTCATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
GTAAATTTAAAAAAT
Found at i:65422 original size:24 final size:24
Alignment explanation
Indices: 65394--65441 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
65384 TCTGTTGAAA
* *
65394 GTATAAAAATGCTATTATTTAAGT
1 GTATAAAAATACTATTAATTAAGT
*
65418 GTATAAAAATATTATTAATTAAGT
1 GTATAAAAATACTATTAATTAAGT
65442 TTTAGTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (24 bp):
GTATAAAAATACTATTAATTAAGT
Found at i:65897 original size:19 final size:19
Alignment explanation
Indices: 65873--65910 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65863 AGGAAAAGAA
*
65873 AATTCACTATGTCAAATTC
1 AATTCACTATATCAAATTC
65892 AATTCACTATATCAAATTC
1 AATTCACTATATCAAATTC
65911 GAATGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (19 bp):
AATTCACTATATCAAATTC
Found at i:66552 original size:14 final size:14
Alignment explanation
Indices: 66533--66559 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66523 CAATTAAGTC
66533 TACTTTAGTACTTG
1 TACTTTAGTACTTG
66547 TACTTTAGTACTT
1 TACTTTAGTACTT
66560 AAATTGGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TACTTTAGTACTTG
Found at i:86245 original size:34 final size:35
Alignment explanation
Indices: 86185--86256 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 35
86175 ATTAAAGAGC
86185 AACCATTTATGGGGATAAAAAAATGAGAAACACAA
1 AACCATTTATGGGGATAAAAAAATGAGAAACACAA
86220 AACCATTTATGGGGAT-AAAAAATGAGAAACACAA
1 AACCATTTATGGGGATAAAAAAATGAGAAACACAA
86254 AAC
1 AAC
86257 ATTCATCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 21 0.57
35 16 0.43
ACGTcount: A:0.54, C:0.12, G:0.17, T:0.17
Consensus pattern (35 bp):
AACCATTTATGGGGATAAAAAAATGAGAAACACAA
Found at i:90866 original size:2 final size:2
Alignment explanation
Indices: 90859--90897 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
90849 ATTCAACATT
90859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90898 TTGTGCTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91371 original size:31 final size:33
Alignment explanation
Indices: 91336--91403 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
91326 TTTTTAATCT
* *
91336 AAATTTGACCCTCAACCTTTT-AAAAAGAGTC-
1 AAATTTGACCATCAACCTTTTGAAAAAAAGTCG
* *
91367 AAATTTGACCATTAACTTTTTGAAAAAAAGTCG
1 AAATTTGACCATCAACCTTTTGAAAAAAAGTCG
91400 AAAT
1 AAAT
91404 GATGTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 18 0.58
32 9 0.29
33 4 0.13
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (33 bp):
AAATTTGACCATCAACCTTTTGAAAAAAAGTCG
Found at i:94132 original size:24 final size:25
Alignment explanation
Indices: 94105--94152 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
94095 AGAGGAAAGT
94105 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
94129 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
94153 TATGGAGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:94301 original size:15 final size:15
Alignment explanation
Indices: 94281--94331 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
94271 ACAACATGAT
94281 AACGTAAATGACTAA
1 AACGTAAATGACTAA
* *
94296 AACGT-AAT-ATTTCA
1 AACGTAAATGA-CTAA
*
94310 AACATAAATGACTAA
1 AACGTAAATGACTAA
94325 AACGTAA
1 AACGTAA
94332 CCTAAGGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.33
15 16 0.59
16 1 0.04
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.24
Consensus pattern (15 bp):
AACGTAAATGACTAA
Found at i:96189 original size:13 final size:13
Alignment explanation
Indices: 96171--96216 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
96161 AAATTATCCA
96171 ACCCAACCTAATT
1 ACCCAACCTAATT
96184 ACCCAACCTAATT
1 ACCCAACCTAATT
*
96197 ACCCAACCCAATT
1 ACCCAACCTAATT
96210 A-CCAACC
1 ACCCAACC
96217 CAACCCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 6 0.19
13 26 0.81
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
ACCCAACCTAATT
Found at i:96264 original size:39 final size:39
Alignment explanation
Indices: 96214--96320 Score: 180
Period size: 39 Copynumber: 2.8 Consensus size: 39
96204 CCAATTACCA
*
96214 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCAAATT
96253 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCAAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCAAATT
* *
96292 A-CAAACCCAATAAAAATAAAACTAAAGTC
1 ACCCAACCCAATAAAACTAAAACTAAAGTC
96321 CAACTCTAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 26 0.40
39 39 0.60
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.17
Consensus pattern (39 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCAAATT
Found at i:96482 original size:17 final size:17
Alignment explanation
Indices: 96462--96522 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
96452 ATTTCAAGAC
96462 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
96479 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
96498 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
96516 TTATGTA
1 TTATGTA
96523 GTGATTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 4 0.12
20 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:96498 original size:37 final size:37
Alignment explanation
Indices: 96457--96531 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
96447 TGTTAATTTC
96457 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
96494 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
96531 A
1 A
96532 TTCAGATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:148650 original size:23 final size:22
Alignment explanation
Indices: 148624--148669 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
148614 ATCCAAGATC
148624 AAAACAA-CTCAAACCCAAAATTT
1 AAAACAATC-CAAA-CCAAAATTT
*
148647 AAAACAATCCAAATCAAAATTT
1 AAAACAATCCAAACCAAAATTT
148669 A
1 A
148670 CATAAATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 11 0.52
24 1 0.05
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAACAATCCAAACCAAAATTT
Found at i:151076 original size:20 final size:22
Alignment explanation
Indices: 151036--151076 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
151026 AATTATTAAA
*
151036 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
151058 TAATAAAT-T-ATTTAATATT
1 TAATAAATATAATTTAATATT
151077 CAATTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:151091 original size:18 final size:18
Alignment explanation
Indices: 151068--151102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
151058 TAATAAATTA
* *
151068 TTTAATATTCAATTTTAT
1 TTTAATAATAAATTTTAT
151086 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
151103 AAAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:151116 original size:15 final size:16
Alignment explanation
Indices: 151089--151119 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
151079 ATTTTATTTT
151089 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
151105 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
151120 TAAATTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:160129 original size:19 final size:20
Alignment explanation
Indices: 160095--160132 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
160085 ATTTTTTTTA
*
160095 AAATAATAATGATTAAATTT
1 AAATAATAAGGATTAAATTT
160115 AAATAA-AAGGATTAAATT
1 AAATAATAAGGATTAAATT
160133 GATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
AAATAATAAGGATTAAATTT
Found at i:177737 original size:21 final size:21
Alignment explanation
Indices: 177695--177737 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
177685 TTATATCTTT
* *
177695 AAATTATTACTATTATTATTA
1 AAATTATTAATATTAATATTA
177716 AAATTATTAAT-TTAATAGTTA
1 AAATTATTAATATTAATA-TTA
177737 A
1 A
177738 TTTTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATTATTAATATTAATATTA
Found at i:177961 original size:17 final size:17
Alignment explanation
Indices: 177941--177979 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
177931 ACGGTTAAAT
177941 TAATAATTTTAACAATA
1 TAATAATTTTAACAATA
*
177958 TAATAATTTTAATAATA
1 TAATAATTTTAACAATA
177975 TAATA
1 TAATA
177980 TTATAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTTTAACAATA
Found at i:179995 original size:2 final size:2
Alignment explanation
Indices: 179936--179981 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
179926 TTCCAAGCAA
179936 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
179978 CT CT
1 CT CT
179982 ATCTTTTGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:190807 original size:21 final size:18
Alignment explanation
Indices: 190777--190825 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
190767 ACATGGATAA
*
190777 ATTTTCTAAAAGTTTGTATG
1 ATTTT-TAAAAATTTGT-TG
190797 AACTTTTTAAAAATTTGTTG
1 -A-TTTTTAAAAATTTGTTG
190817 ATTTTTAAA
1 ATTTTTAAA
190826 TATATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 2 0.08
21 11 0.42
22 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (18 bp):
ATTTTTAAAAATTTGTTG
Found at i:192449 original size:19 final size:19
Alignment explanation
Indices: 192427--192528 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
192417 CTTTATTCTC
192427 ATTTAATAACTCTATTTTA
1 ATTTAATAACTCTATTTTA
* * *
192446 ATTTAATAA-ACTATTCTC
1 ATTTAATAACTCTATTTTA
192464 ATTTAATAACTCTATTTTA
1 ATTTAATAACTCTATTTTA
*
192483 ATTTAATAA-ACTATTCTT-
1 ATTTAATAACTCTATT-TTA
192501 ATTTAATAACTCTATTTTA
1 ATTTAATAACTCTATTTTA
192520 ATTTAATAA
1 ATTTAATAA
192529 ACTAGAATAG
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
18 31 0.44
19 40 0.56
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAATAACTCTATTTTA
Found at i:192466 original size:37 final size:37
Alignment explanation
Indices: 192420--192532 Score: 217
Period size: 37 Copynumber: 3.1 Consensus size: 37
192410 CTCTATTCTT
192420 TATTCTCATTTAATAACTCTATTTTAATTTAATAAAC
1 TATTCTCATTTAATAACTCTATTTTAATTTAATAAAC
192457 TATTCTCATTTAATAACTCTATTTTAATTTAATAAAC
1 TATTCTCATTTAATAACTCTATTTTAATTTAATAAAC
*
192494 TATTCTTATTTAATAACTCTATTTTAATTTAATAAAC
1 TATTCTCATTTAATAACTCTATTTTAATTTAATAAAC
192531 TA
1 TA
192533 GAATAGTTTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (37 bp):
TATTCTCATTTAATAACTCTATTTTAATTTAATAAAC
Found at i:192547 original size:18 final size:18
Alignment explanation
Indices: 192520--192613 Score: 84
Period size: 18 Copynumber: 5.1 Consensus size: 18
192510 CTCTATTTTA
*
192520 ATTTAATAAACTAGAATAG
1 ATTTATTAAA-TAGAATAG
*
192539 -TTTATTAAATTAAAATAG
1 ATTTATTAAA-TAGAATAG
*
192557 AGTTATTAAATGAGAATAG
1 ATTTATTAAAT-AGAATAG
*
192576 -TTTATTAAATTAAAATAG
1 ATTTATTAAA-TAGAATAG
*
192594 AGTTATTAAATGAGAATAG
1 ATTTATTAAAT-AGAATAG
192613 A
1 A
192614 GAATAGAGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
18 31 0.51
19 30 0.49
ACGTcount: A:0.50, C:0.01, G:0.13, T:0.36
Consensus pattern (18 bp):
ATTTATTAAATAGAATAG
Found at i:192564 original size:19 final size:19
Alignment explanation
Indices: 192540--192614 Score: 98
Period size: 19 Copynumber: 4.0 Consensus size: 19
192530 CTAGAATAGT
*
192540 TTATTAAATTAAAATAGAG
1 TTATTAAATGAAAATAGAG
* *
192559 TTATTAAATGAGAATAG-T
1 TTATTAAATGAAAATAGAG
*
192577 TTATTAAATTAAAATAGAG
1 TTATTAAATGAAAATAGAG
*
192596 TTATTAAATGAGAATAGAG
1 TTATTAAATGAAAATAGAG
192615 AATAGAGAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 15 0.32
19 32 0.68
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (19 bp):
TTATTAAATGAAAATAGAG
Found at i:192573 original size:37 final size:37
Alignment explanation
Indices: 192532--192612 Score: 162
Period size: 37 Copynumber: 2.2 Consensus size: 37
192522 TTAATAAACT
192532 AGAATAGTTTATTAAATTAAAATAGAGTTATTAAATG
1 AGAATAGTTTATTAAATTAAAATAGAGTTATTAAATG
192569 AGAATAGTTTATTAAATTAAAATAGAGTTATTAAATG
1 AGAATAGTTTATTAAATTAAAATAGAGTTATTAAATG
192606 AGAATAG
1 AGAATAG
192613 AGAATAGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (37 bp):
AGAATAGTTTATTAAATTAAAATAGAGTTATTAAATG
Found at i:193379 original size:27 final size:27
Alignment explanation
Indices: 193341--193419 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
193331 CATTTTAGTC
* *
193341 CTTTAGCACCATTCGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
193368 CTTTGGCACCATTGGTGCCCCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
* *
193395 CTTTGGCACCTTTGGTGCCGGCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
193420 GTGATTGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.15, C:0.34, G:0.20, T:0.30
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:193505 original size:26 final size:28
Alignment explanation
Indices: 193476--193536 Score: 99
Period size: 26 Copynumber: 2.2 Consensus size: 28
193466 TTTTTTAAGT
193476 ATATTTTAGTAAAT-AAAAAAA-TTATA
1 ATATTTTAGTAAATAAAAAAAAGTTATA
*
193502 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTAGTAAATAAAAAAAAGTTATA
193530 ATATTTT
1 ATATTTT
193537 GGTTATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 13 0.41
27 7 0.22
28 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (28 bp):
ATATTTTAGTAAATAAAAAAAAGTTATA
Found at i:193530 original size:28 final size:26
Alignment explanation
Indices: 193476--193539 Score: 101
Period size: 28 Copynumber: 2.4 Consensus size: 26
193466 TTTTTTAAGT
*
193476 ATATTTTAGTAAATAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAATTATA
193502 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAA-TTATA
193530 ATATTTTGGT
1 ATATTTTGGT
193540 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 13 0.37
27 7 0.20
28 15 0.43
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAATTATA
Found at i:196656 original size:2 final size:2
Alignment explanation
Indices: 196651--196682 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
196641 CTACCACAAC
196651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
196683 AATCCAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:197964 original size:17 final size:18
Alignment explanation
Indices: 197944--197980 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
197934 TAGTGCATTA
*
197944 TATTTTTAA-AAAAAAAT
1 TATTTTAAATAAAAAAAT
197961 TATTTTAAATAAAAAAAT
1 TATTTTAAATAAAAAAAT
197979 TA
1 TA
197981 ATCTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTTTAAATAAAAAAAT
Found at i:197987 original size:18 final size:18
Alignment explanation
Indices: 197953--197987 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
197943 ATATTTTTAA
* *
197953 AAAAAAATTATTTTAAAT
1 AAAAAAATTAATCTAAAT
197971 AAAAAAATTAATCTAAA
1 AAAAAAATTAATCTAAA
197988 AATATCTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAAATTAATCTAAAT
Found at i:201769 original size:2 final size:2
Alignment explanation
Indices: 201762--201801 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
201752 ACTGCAACAA
201762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
201802 GCATACAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:217023 original size:20 final size:22
Alignment explanation
Indices: 216998--217040 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
216988 TAAAAATTTT
*
216998 ATTTATTTTTAT-CGTTA-CAA
1 ATTTATCTTTATACGTTAGCAA
217018 ATTTATCTTTATACGTTAGCAA
1 ATTTATCTTTATACGTTAGCAA
217040 A
1 A
217041 ATGTACACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTATCTTTATACGTTAGCAA
Found at i:222787 original size:27 final size:27
Alignment explanation
Indices: 222757--222842 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
222747 GTGGCTGAAG
* *
222757 AGGTGGGACCTTCGAAGGTGCCTTCAC
1 AGGTGGGACCTTCAAAGGTGCCTTCGC
222784 AGGTGGGACCTTCAAAGGTGCC-TCGGC
1 AGGTGGGACCTTCAAAGGTGCCTTC-GC
*
222811 AGGTGGGACCTTCAAAGGCGCCTTCGC
1 AGGTGGGACCTTCAAAGGTGCCTTCGC
222838 AGGTG
1 AGGTG
222843 TCTAAACCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
26 2 0.04
27 50 0.93
28 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.20
Consensus pattern (27 bp):
AGGTGGGACCTTCAAAGGTGCCTTCGC
Found at i:229199 original size:17 final size:18
Alignment explanation
Indices: 229177--229210 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
229167 ATTCCATGTT
229177 ATTTTTTTTA-ATTTTTA
1 ATTTTTTTTATATTTTTA
229194 ATTTTTTTTATATTTTT
1 ATTTTTTTTATATTTTT
229211 TAAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTTTTTATATTTTTA
Found at i:232124 original size:2 final size:2
Alignment explanation
Indices: 232117--232145 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
232107 TTCATGAGTG
232117 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
232146 GGTCGAGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:235017 original size:18 final size:18
Alignment explanation
Indices: 234994--235032 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
234984 TTACACGTTG
234994 TGTAATTTGATCTTTT-TT
1 TGTAATTT-ATCTTTTCTT
*
235012 TGTAATTTTTCTTTTCTT
1 TGTAATTTATCTTTTCTT
235030 TGT
1 TGT
235033 GACCCTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (18 bp):
TGTAATTTATCTTTTCTT
Found at i:246196 original size:21 final size:21
Alignment explanation
Indices: 246172--246251 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
246162 AACAGAAGAA
*
246172 CATAAGTGCTAAACAGAAACT
1 CATAAGGGCTAAACAGAAACT
* * *
246193 CATAAGGGTTGAACAGAAGCT
1 CATAAGGGCTAAACAGAAACT
* * *
246214 CATAAGAGCTAAACGGAAACC
1 CATAAGGGCTAAACAGAAACT
*
246235 CATAAGGGTTAAACAGA
1 CATAAGGGCTAAACAGA
246252 GGCTCAAAAG
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (21 bp):
CATAAGGGCTAAACAGAAACT
Found at i:246219 original size:42 final size:42
Alignment explanation
Indices: 246160--246312 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
246150 GTCCGAAGGC
** *
246160 TGAACAGAAGAACATAAGTGCTAAACAGAAACTCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGT
* *
246202 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGT
* * * * * * * *
246244 TAAACAGAGGCTCAAAAGAGTTGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGT
* *
246286 TGAACAGAAGCTCGTGAGAGCTAAACA
1 TGAACAGAAGCTCATAAGAGCTAAACA
246313 AAAAGTAAAC
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGT
Found at i:246285 original size:21 final size:21
Alignment explanation
Indices: 246183--246294 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
246173 ATAAGTGCTA
*
246183 AACAGAAACTCATAAGGGTTG
1 AACAGAAACTCATAAGAGTTG
* * *
246204 AACAGAAGCTCATAAGAGCTA
1 AACAGAAACTCATAAGAGTTG
* * * *
246225 AACGGAAACCCATAAGGGTTA
1 AACAGAAACTCATAAGAGTTG
** *
246246 AACAGAGGCTCAAAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
* *
246267 AACGGAAACTCATATGAGTTG
1 AACAGAAACTCATAAGAGTTG
246288 AACAGAA
1 AACAGAA
246295 GCTCGTGAGA
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGTTG
Found at i:246940 original size:22 final size:22
Alignment explanation
Indices: 246912--246991 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
246902 TTTACTTTAA
246912 AGCTTAGTACGTTAGCCATGAG
1 AGCTTAGTACGTTAGCCATGAG
246934 AGCTTAGTACGTTAGCCATGAG
1 AGCTTAGTACGTTAGCCATGAG
* * * **
246956 GGTTTAGTTCGTTAAACATGAG
1 AGCTTAGTACGTTAGCCATGAG
246978 AGCTTAGTACGTTA
1 AGCTTAGTACGTTA
246992 AACTATCTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (22 bp):
AGCTTAGTACGTTAGCCATGAG
Found at i:247629 original size:3 final size:3
Alignment explanation
Indices: 247621--247660 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
247611 TCACAATATG
*
247621 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
247661 TATTTACCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:247984 original size:24 final size:25
Alignment explanation
Indices: 247944--248002 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
247934 ATTTTAATTT
*
247944 ATTTAA-TAACATAATA-TCATTATA
1 ATTTAATTATCATAATATTCA-TATA
247968 ATTTAATTATCAT-ATATTCATATA
1 ATTTAATTATCATAATATTCATATA
*
247992 ATATAAATTAT
1 AT-TTAATTAT
248003 ATTTTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTAATTATCATAATATTCATATA
Found at i:248012 original size:22 final size:21
Alignment explanation
Indices: 247964--248029 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 21
247954 ATAATATCAT
*
247964 TATAATTTAATTATCATATATTCA
1 TATAA-TTAATTAT-ATAT-TTAA
247988 TATAATATAAATTATAT-TTTAA
1 TATAAT-T-AATTATATATTTAA
*
248010 TATCATTAATTATATATTTA
1 TATAATTAATTATATATTTA
248030 GACAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 8 0.22
21 5 0.14
22 8 0.22
23 2 0.05
24 8 0.22
25 6 0.16
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TATAATTAATTATATATTTAA
Found at i:248360 original size:21 final size:21
Alignment explanation
Indices: 248336--248440 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
248326 AACAGAAACC
*
248336 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGTTGAACGGAAGCT
* * *
248357 CATAAGAGCTAAACGGAAAC-
1 CATAAGAGTTGAACGGAAGCT
* * * *
248377 CTATAAGGGTTAAACAGAGGCT
1 C-ATAAGAGTTGAACGGAAGCT
* * *
248399 CAAAAGAGTTGAACGAAAACT
1 CATAAGAGTTGAACGGAAGCT
* *
248420 CATATGAGTTGAACAGAAGCT
1 CATAAGAGTTGAACGGAAGCT
248441 TGTGAGAGCT
Statistics
Matches: 61, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 1 0.02
21 59 0.97
22 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (21 bp):
CATAAGAGTTGAACGGAAGCT
Found at i:248376 original size:42 final size:42
Alignment explanation
Indices: 248316--248455 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 42
248306 GGTCGTTACA
* * *
248316 ATAAGTGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCTC
1 ATAAGAGCTAAACGGAAACCCATAAGGGTTGAACAGAAGCTC
* * *
248358 ATAAGAGCTAAACGGAAACCTATAAGGGTTAAACAGAGGCTC
1 ATAAGAGCTAAACGGAAACCCATAAGGGTTGAACAGAAGCTC
* * * * * * * *
248400 AAAAGAGTTGAACGAAAACTCATATGAGTTGAACAGAAGCTT
1 ATAAGAGCTAAACGGAAACCCATAAGGGTTGAACAGAAGCTC
* *
248442 GTGAGAGCTAAACG
1 ATAAGAGCTAAACG
248456 AAAAGTAAAC
Statistics
Matches: 76, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (42 bp):
ATAAGAGCTAAACGGAAACCCATAAGGGTTGAACAGAAGCTC
Found at i:258237 original size:3 final size:3
Alignment explanation
Indices: 258217--258253 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
258207 AAATCACACA
* *
258217 AAT AAC AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
258254 GCGAACCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:267933 original size:2 final size:2
Alignment explanation
Indices: 267926--267957 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
267916 TGGAAGCTAA
267926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
267958 GTTAAAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:279387 original size:16 final size:16
Alignment explanation
Indices: 279368--279401 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
279358 TATATATATA
*
279368 TATATAGACACACACT
1 TATATACACACACACT
*
279384 TATATACATACACACT
1 TATATACACACACACT
279400 TA
1 TA
279402 ACAGAAGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (16 bp):
TATATACACACACACT
Found at i:281916 original size:24 final size:23
Alignment explanation
Indices: 281878--281922 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
281868 GAAAACTTAA
281878 AATAATTATGATAAATTTAAAAT
1 AATAATTATGATAAATTTAAAAT
*
281901 AATAATATGTGATAAATTTAAA
1 AATAAT-TATGATAAATTTAAA
281923 CAACATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (23 bp):
AATAATTATGATAAATTTAAAAT
Found at i:290595 original size:3 final size:3
Alignment explanation
Indices: 290587--290629 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
290577 AACCAAACAA
290587 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
290630 GTCCAAAGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:306922 original size:5 final size:5
Alignment explanation
Indices: 306912--306953 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
306902 TGAAAAATGT
*
306912 GAAGA GAAGA GAAGA GAAGA GACGA GAAGA GAAGA GAAGA GA
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GA
306954 CCGAGACACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.57, C:0.02, G:0.40, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:306940 original size:20 final size:21
Alignment explanation
Indices: 306915--306959 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
306905 AAAATGTGAA
306915 GAGAAGAGAAGAGAAGAGA-C
1 GAGAAGAGAAGAGAAGAGACC
306935 GAGAAGAGAAGAGAAGAGACC
1 GAGAAGAGAAGAGAAGAGACC
306956 GAGA
1 GAGA
306960 CACATACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.53, C:0.07, G:0.40, T:0.00
Consensus pattern (21 bp):
GAGAAGAGAAGAGAAGAGACC
Found at i:319643 original size:37 final size:38
Alignment explanation
Indices: 319601--319698 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 38
319591 ATGATATTCG
*
319601 TTAAACTAGTGCTATATTTCATTTTGTTTCAT-ATCCC
1 TTAAACTAGTGCTATATTTCATTTTGTTTCATAATACC
* **
319638 TTAAACTAAT-CTATA---C-TTTTGTTTTGTAATACC
1 TTAAACTAGTGCTATATTTCATTTTGTTTCATAATACC
*
319671 TTAAACTGGTGCTATATTTCA-TTTGTTT
1 TTAAACTAGTGCTATATTTCATTTTGTTT
319699 AAGATGATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
32 9 0.18
33 13 0.27
34 5 0.10
36 5 0.10
37 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (38 bp):
TTAAACTAGTGCTATATTTCATTTTGTTTCATAATACC
Found at i:321497 original size:20 final size:19
Alignment explanation
Indices: 321447--321497 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
321437 CACCACTCTC
321447 TGTATATGCTTTTTATGCT
1 TGTATATGCTTTTTATGCT
* * * *
321466 T-TTTATGTTTTTCTTTGGT
1 TGTATATGCTTTT-TATGCT
321485 TGTATATGCTTTT
1 TGTATATGCTTTT
321498 GGTATGGTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 9 0.38
ACGTcount: A:0.12, C:0.08, G:0.16, T:0.65
Consensus pattern (19 bp):
TGTATATGCTTTTTATGCT
Found at i:323739 original size:27 final size:27
Alignment explanation
Indices: 323701--323768 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
323691 CATATCTGGA
323701 AGGCGCCAATGGTGGTGCCTATTTAGG
1 AGGCGCCAATGGTGGTGCCTATTTAGG
*
323728 AGGCGCCAATGGTGGTGCCTATTTGGG
1 AGGCGCCAATGGTGGTGCCTATTTAGG
323755 AGGCGCCAATGGTG
1 AGGCGCCAATGGTG
323769 AACAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.18, C:0.19, G:0.40, T:0.24
Consensus pattern (27 bp):
AGGCGCCAATGGTGGTGCCTATTTAGG
Found at i:323895 original size:19 final size:19
Alignment explanation
Indices: 323889--324011 Score: 68
Period size: 22 Copynumber: 5.9 Consensus size: 19
323879 CATACAAAAT
*
323889 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
323908 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
323930 TACAAAATTATAATATTACAATATTCA
1 TAC-AAA--AT--TA---CAATATTCA
*
323957 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
323976 TAAAAAAATTATAATATTC-
1 T-ACAAAATTACAATATTCA
* *
323995 TACAAAGTTACCATATT
1 TACAAAATTACAATATT
324012 ACAATATGCA
Statistics
Matches: 82, Mismatches: 11, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
18 12 0.15
19 14 0.17
20 18 0.22
22 21 0.26
24 3 0.04
26 2 0.02
27 12 0.15
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:323925 original size:30 final size:27
Alignment explanation
Indices: 323868--323973 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
323858 ATATCCCCAC
*
323868 ATTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
323895 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
323917 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
323944 ATTACAATATTCATACAACATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
323971 ATT
1 ATT
323974 CATAAAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
22 15 0.22
23 5 0.07
24 1 0.01
25 1 0.01
26 5 0.07
27 42 0.61
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:323945 original size:49 final size:49
Alignment explanation
Indices: 323815--324184 Score: 226
Period size: 49 Copynumber: 7.7 Consensus size: 49
323805 AATTAATTAT
* *
323815 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTATAATATTACAATATTCATAC
*** * * *
323863 -CCCACATTATAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
323911 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* * *
323960 ---AACATTACAATATTCATAAAAAAATTATAATATTCTACAA-AGT--TAC
1 AAAAAAATTACAATATTCAT-ACAAAATTATAATA-T-TACAATATTCATAC
* * * *
324006 ---CATATTACAATATGCATAC-AAA--A-AA-ATTATAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* * *
324047 AAGGTTACTAAAGTACAATATTCATACAAAATTATAATATTACAATATTCATTC
1 AA----A-AAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* *
324101 AAAAAAA--ATAATATTCATACAAAATTACACAT-TTACCAATATTTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATA-ATATTA-CAATA-TTCATAC
** ** *
324150 TTAAAAATTGTAATATTCATAGC-AAACTATAATAT
1 AAAAAAATTACAATATTCATA-CAAAATTATAATAT
324185 NNNNNNNNNN
Statistics
Matches: 254, Mismatches: 38, Indels: 57
0.73 0.11 0.16
Matches are distributed among these distances:
38 4 0.02
39 3 0.01
40 1 0.00
41 5 0.02
42 1 0.00
44 3 0.01
45 21 0.08
46 33 0.13
47 53 0.21
48 11 0.04
49 75 0.30
50 6 0.02
51 18 0.07
52 2 0.01
53 2 0.01
54 16 0.06
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
Found at i:324013 original size:46 final size:45
Alignment explanation
Indices: 323914--324087 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
323904 TTCATACAAA
* * *
323914 AAAATTGCAATATTCATACAAAATTATAATA-T-TACAATATTCATAC
1 AAAATTACAATATTCATAAAAAATTATAATATTCTACAA-AGT--TAC
*
323960 AACATTACAATATTCATAAAAAAATTATAATATTCTACAAAGTTAC
1 AAAATTACAATATTCAT-AAAAAATTATAATATTCTACAAAGTTAC
* * * *
324006 CATATTACAATATGCATACAAAAAAATTATAATATTCATACAAGGTTAC
1 AAAATTACAATATTCAT---AAAAAATTATAATATTC-TACAAAGTTAC
* * *
324055 TAAAGTACAATATTCATACAAAATTATAATATT
1 AAAATTACAATATTCATAAAAAATTATAATATT
324088 ACAATATTCA
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
46 47 0.43
47 13 0.12
48 21 0.19
49 28 0.26
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (45 bp):
AAAATTACAATATTCATAAAAAATTATAATATTCTACAAAGTTAC
Found at i:324024 original size:114 final size:115
Alignment explanation
Indices: 323868--324087 Score: 327
Period size: 114 Copynumber: 1.9 Consensus size: 115
323858 ATATCCCCAC
* *
323868 ATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATAC
1 ATTATAATATTCATACAAAATTACAATATTACAATATGCATACAAAAAAATTACAATATTCATAC
* *
323933 AAAATTA-TAATATTACAATATTCATACAACATTACAATATTCATAAAAAA
66 AAAATTACTAA-AGTACAATATTCATACAAAATTACAATATTCATAAAAAA
* * *
323983 ATTATAATATTC-TACAAAGTTACCATATTACAATATGCATACAAAAAAATTATAATATTCATAC
1 ATTATAATATTCATACAAAATTACAATATTACAATATGCATACAAAAAAATTACAATATTCATAC
** *
324047 AAGGTTACTAAAGTACAATATTCATACAAAATTATAATATT
66 AAAATTACTAAAGTACAATATTCATACAAAATTACAATATT
324088 ACAATATTCA
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
114 79 0.84
115 15 0.16
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.34
Consensus pattern (115 bp):
ATTATAATATTCATACAAAATTACAATATTACAATATGCATACAAAAAAATTACAATATTCATAC
AAAATTACTAAAGTACAATATTCATACAAAATTACAATATTCATAAAAAA
Found at i:324024 original size:141 final size:139
Alignment explanation
Indices: 323821--324098 Score: 334
Period size: 141 Copynumber: 2.0 Consensus size: 139
323811 TTATAAAATA
* * *
323821 ATTACAATATTCATACAAAAAATTACAATATTACAATATATCCCCACATTATAATATTCATACAA
1 ATTACAATATTCATACAAAAAATTACAATATTACAATATATCACCACATTACAATATGCATAC-A
* *
323886 AATTACAATATTACAATATTCATACAA-A-AAAATTGCAATATTCATACAAAATTATAATATTAC
65 AA--A-AA-ATTACAATATTCATACAAGACAAAAGTACAATATTCATACAAAATTATAATATTAC
323949 AATATTCATACAAC
126 AATATTCATACAAC
* *
323963 ATTACAATATTCATA-AAAAAATTATAATATTCTACAA-AGT-T-ACCATATTACAATATGCATA
1 ATTACAATATTCATACAAAAAATTACAATA-T-TACAATA-TATCACCACATTACAATATGCATA
* *
324024 CAAAAAAATTATAATATTCATACAAGGTTACTAAAGTACAATATTCATACAAAATTATAATATTA
63 CAAAAAAATTACAATATTCATACAA-G--ACAAAAGTACAATATTCATACAAAATTATAATATTA
324089 CAATATTCAT
125 CAATATTCAT
324099 TCAAAAAAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
136 17 0.14
137 2 0.02
138 1 0.01
140 4 0.03
141 71 0.60
142 18 0.15
143 6 0.05
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (139 bp):
ATTACAATATTCATACAAAAAATTACAATATTACAATATATCACCACATTACAATATGCATACAA
AAAAATTACAATATTCATACAAGACAAAAGTACAATATTCATACAAAATTATAATATTACAATAT
TCATACAAC
Found at i:324067 original size:27 final size:27
Alignment explanation
Indices: 324036--324104 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
324026 AAAAAATTAT
**
324036 AATATTCATACAAGGTTACTAA-AGTAC
1 AATATTCATACAAAATTA-TAATAGTAC
*
324063 AATATTCATACAAAATTATAATATTAC
1 AATATTCATACAAAATTATAATAGTAC
*
324090 AATATTCATTCAAAA
1 AATATTCATACAAAA
324105 AAAATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.33
Consensus pattern (27 bp):
AATATTCATACAAAATTATAATAGTAC
Found at i:324114 original size:28 final size:27
Alignment explanation
Indices: 324007--324115 Score: 77
Period size: 27 Copynumber: 4.2 Consensus size: 27
323997 CAAAGTTACC
*
324007 ATATTACAATATGCATACAAAAAAAT-
1 ATATTACAATATTCATACAAAAAAATA
*** *
324033 -TA-T--AATATTCATACAAGGTTACTA
1 ATATTACAATATTCATACAA-AAAAATA
* **
324057 A-AGTACAATATTCATACAAAATTATA
1 ATATTACAATATTCATACAAAAAAATA
*
324083 ATATTACAATATTCATTCAAAAAAAATA
1 ATATTACAATATTCATAC-AAAAAAATA
324111 ATATT
1 ATATT
324116 CATACAAAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
22 12 0.19
23 2 0.03
24 2 0.03
25 3 0.05
26 4 0.06
27 27 0.44
28 12 0.19
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (27 bp):
ATATTACAATATTCATACAAAAAAATA
Found at i:324149 original size:76 final size:75
Alignment explanation
Indices: 323988--324128 Score: 196
Period size: 76 Copynumber: 1.9 Consensus size: 75
323978 AAAAAATTAT
* ** **
323988 AATATTC-TACAAAGTTACCATATTACAATATGCATACAAAAAAATTATAATATTCATACAAGGT
1 AATATTCATACAAAATTATAATATTACAATATGCATACAAAAAAA-TATAATATTCATACAAAAT
324052 TACTAAAGTAC
65 TACTAAAGTAC
* *
324063 AATATTCATACAAAATTATAATATTACAATATTCATTCAAAAAAA-ATAATATTCATACAAAATT
1 AATATTCATACAAAATTATAATATTACAATATGCATACAAAAAAATATAATATTCATACAAAATT
324127 AC
66 AC
324129 ACATTTACCA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
74 19 0.33
75 7 0.12
76 32 0.55
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (75 bp):
AATATTCATACAAAATTATAATATTACAATATGCATACAAAAAAATATAATATTCATACAAAATT
ACTAAAGTAC
Found at i:324357 original size:22 final size:22
Alignment explanation
Indices: 324321--324368 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
324311 NNNNNNNNAT
*
324321 AAAAAAATTATAATATTCATAC
1 AAAAAAATTAAAATATTCATAC
*
324343 AAAAAATTTAAAATATTCATAC
1 AAAAAAATTAAAATATTCATAC
324365 AAAA
1 AAAA
324369 TTCTAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATTAAAATATTCATAC
Found at i:330539 original size:16 final size:17
Alignment explanation
Indices: 330518--330550 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
330508 TCCACACAAC
*
330518 AAAATTGATTTG-TTTT
1 AAAATTAATTTGCTTTT
330534 AAAATTAATTTGCTTTT
1 AAAATTAATTTGCTTTT
330551 GGTCCCTGTT
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:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
AAAATTAATTTGCTTTT
Found at i:341327 original size:97 final size:97
Alignment explanation
Indices: 341211--341401 Score: 355
Period size: 97 Copynumber: 2.0 Consensus size: 97
341201 AATCCTCACA
*
341211 CCTTCTAGCTTCTATTCAAGCATACAAAAGCAAAGAGAAATCACCTTAGAACCAGAAATCGCGTC
1 CCTTCTAGCTTCTATTCAAGCATACAAAAGCAAAGAGAAATCACCTTAGAACCAGAAATCGCATC
*
341276 GTTTCCTCTGCTTCGAAGCCTTCTTTTTCGGG
66 GTTTCCTCTGCTTCGAAGCCTTATTTTTCGGG
*
341308 CCTTCTAGCTTCTATTCAAGCATACAAAAGCAAAGAGAAATCATCTTAGAACCAGAAATCGCATC
1 CCTTCTAGCTTCTATTCAAGCATACAAAAGCAAAGAGAAATCACCTTAGAACCAGAAATCGCATC
341373 GTTTCCTCTGCTTCGAAGCCTTATTTTTC
66 GTTTCCTCTGCTTCGAAGCCTTATTTTTC
341402 TCGGGGCTGC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (97 bp):
CCTTCTAGCTTCTATTCAAGCATACAAAAGCAAAGAGAAATCACCTTAGAACCAGAAATCGCATC
GTTTCCTCTGCTTCGAAGCCTTATTTTTCGGG
Found at i:347261 original size:31 final size:31
Alignment explanation
Indices: 347226--347301 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
347216 ATGAAGGAAT
* *
347226 AATTGCCAAGTTCA-GACCTCAATGTGAGAAC
1 AATTGCCAAGTTCAGGACC-CAATATAAGAAC
* *
347257 AATTGCTAAGTTCAGGTCCCAATATAAGAAC
1 AATTGCCAAGTTCAGGACCCAATATAAGAAC
*
347288 AATTACCAAGTTCA
1 AATTGCCAAGTTCA
347302 AATATTAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 35 0.92
32 3 0.08
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (31 bp):
AATTGCCAAGTTCAGGACCCAATATAAGAAC
Found at i:353081 original size:3 final size:3
Alignment explanation
Indices: 353073--353110 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
353063 TCAGTTAGAA
353073 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
353111 GACTTTAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:363132 original size:30 final size:29
Alignment explanation
Indices: 363087--363183 Score: 79
Period size: 36 Copynumber: 3.1 Consensus size: 29
363077 AATTCAAATG
**
363087 TATATGTTTTATATATTGCCGAATTGATT
1 TATATGTAATATATATTGCCGAATTGATT
363116 TATATGTAGATATATATATATATTGCCGAATTGATTT
1 TATA--T-G---TA-ATATATATTGCCGAATTGA-TT
*
363153 GTATATGT-ATATATATTGCCAAATTGATT
1 -TATATGTAATATATATTGCCGAATTGATT
363182 TA
1 TA
363184 AGATCCCGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
28 2 0.04
29 6 0.11
30 18 0.32
31 1 0.02
32 2 0.04
35 2 0.04
36 19 0.34
37 2 0.04
38 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.47
Consensus pattern (29 bp):
TATATGTAATATATATTGCCGAATTGATT
Found at i:363138 original size:36 final size:38
Alignment explanation
Indices: 363096--363168 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
363086 GTATATGTTT
363096 TATATATTGCCGAATTGA-TT-TATATGTAGATATATA
1 TATATATTGCCGAATTGATTTGTATATGTAGATATATA
*
363132 TATATATTGCCGAATTGATTTGTATATGTATATATAT
1 TATATATTGCCGAATTGATTTGTATATGTAGATATAT
363169 TGCCAAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 18 0.53
37 2 0.06
38 14 0.41
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (38 bp):
TATATATTGCCGAATTGATTTGTATATGTAGATATATA
Found at i:363413 original size:48 final size:48
Alignment explanation
Indices: 363178--363412 Score: 319
Period size: 48 Copynumber: 4.9 Consensus size: 48
363168 TTGCCAAATT
* * * * *
363178 GATTTAAGATCCCGTATAAGACTATATTTGAGATATGACATCGGCATC
1 GATTTGAGATCTCGTATAAGACCATATCTGGGATATGACATCGGCATC
* * *
363226 GATTTGAGATC-CTGTATAAGACCATGTCTGGAATATGGCATCGGCATC
1 GATTTGAGATCTC-GTATAAGACCATATCTGGGATATGACATCGGCATC
* *
363274 GATTTGAGATCTCGTATAAGACCATGTCTAGGATATGACATCGGCATC
1 GATTTGAGATCTCGTATAAGACCATATCTGGGATATGACATCGGCATC
* * *
363322 GTTTTGAGATCTCGTATAAGACCATATCTGGGATATGACATCGACATT
1 GATTTGAGATCTCGTATAAGACCATATCTGGGATATGACATCGGCATC
* *
363370 GATTTGAGATTTCGTATAAGACCATATCTGGGATATGAGATCG
1 GATTTGAGATCTCGTATAAGACCATATCTGGGATATGACATCG
363413 ATGTGAGACT
Statistics
Matches: 167, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 165 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (48 bp):
GATTTGAGATCTCGTATAAGACCATATCTGGGATATGACATCGGCATC
Found at i:363433 original size:42 final size:42
Alignment explanation
Indices: 363271--363467 Score: 160
Period size: 48 Copynumber: 4.4 Consensus size: 42
363261 TGGCATCGGC
* * * * *
363271 ATCGATTTGAGATCTCGTATAAGACCATGTCTAGGATATGAC
1 ATCGATGTGAGATTTCGTATAAGACCATATCTGGGATATGAG
* *
363313 ATCGGCATCGTTTTGAGATCTCGTATAAGACCATATCTGGGATATGAC
1 ATC-G-AT-G---TGAGATTTCGTATAAGACCATATCTGGGATATGAG
363361 ATCGACATTGATTTGAGATTTCGTATAAGACCATATCTGGGATATGAG
1 ATCG--A-TG---TGAGATTTCGTATAAGACCATATCTGGGATATGAG
* * * * *
363409 ATCGATGTGAGACTTCGTGTAAGACCATAGCTGGGCTATGGG
1 ATCGATGTGAGATTTCGTATAAGACCATATCTGGGATATGAG
*
363451 CATCGATATGAGATTTC
1 -ATCGATGTGAGATTTC
363468 CATGTAAGAC
Statistics
Matches: 133, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
42 33 0.25
43 15 0.11
44 2 0.02
45 2 0.02
46 1 0.01
47 1 0.01
48 78 0.59
49 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
ATCGATGTGAGATTTCGTATAAGACCATATCTGGGATATGAG
Found at i:363480 original size:44 final size:42
Alignment explanation
Indices: 363386--363480 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
363376 AGATTTCGTA
* * *
363386 TAAGACCATATCTGGGATATGAGATCGATGTGAGACTTCGTG
1 TAAGACCATAGCTGGGATATGAGATCGATATGAGACTTCATG
* * *
363428 TAAGACCATAGCTGGGCTATGGGCATCGATATGAGATTTCCATG
1 TAAGACCATAGCTGGGATATGAG-ATCGATATGAGACTT-CATG
363472 TAAGACCAT
1 TAAGACCAT
363481 GTCTAGGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 20 0.44
43 13 0.29
44 12 0.27
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
TAAGACCATAGCTGGGATATGAGATCGATATGAGACTTCATG
Found at i:368881 original size:2 final size:2
Alignment explanation
Indices: 368874--368916 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
368864 TACTATATGC
368874 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
368916 A
1 A
368917 AGACATGGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:383999 original size:62 final size:62
Alignment explanation
Indices: 383901--384032 Score: 192
Period size: 62 Copynumber: 2.1 Consensus size: 62
383891 GAAATTAAAT
* * *
383901 TTGTGAAATGACTTGTATTCTAAATTGACATCATTGATTCAAAGATTTAGAAGCAAAATTCA
1 TTGTGAAATGACTTCTAATATAAATTGACATCATTGATTCAAAGATTTAGAAGCAAAATTCA
* * * * *
383963 TTGTGAAATGACTTCTAATATAACTTGGCATTATTGATTCAAAGATTTAGAATCAAAATTCG
1 TTGTGAAATGACTTCTAATATAAATTGACATCATTGATTCAAAGATTTAGAAGCAAAATTCA
384025 TTGTGAAA
1 TTGTGAAA
384033 AATGTGATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (62 bp):
TTGTGAAATGACTTCTAATATAAATTGACATCATTGATTCAAAGATTTAGAAGCAAAATTCA
Found at i:390554 original size:20 final size:19
Alignment explanation
Indices: 390519--390556 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
390509 TTTTGCATCA
390519 TAAAAAATTAAAATTAATT
1 TAAAAAATTAAAATTAATT
*
390538 TAAATAATTATAAATTAAT
1 TAAAAAATTA-AAATTAAT
390557 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAAATTAAAATTAATT
Found at i:390562 original size:20 final size:19
Alignment explanation
Indices: 390520--390564 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
390510 TTTGCATCAT
*
390520 AAAA-AATTAAAATTAATT
1 AAAATAATTAAAATTAATA
*
390538 TAAATAATTATAAATTAATA
1 AAAATAATTA-AAATTAATA
390558 AAAATAA
1 AAAATAA
390565 AATTAACTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 5 0.23
20 14 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATAATTAAAATTAATA
Found at i:401194 original size:2 final size:2
Alignment explanation
Indices: 401187--401244 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
401177 AGCTATTACA
*
401187 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
401229 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
401245 GAACAATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:410173 original size:2 final size:2
Alignment explanation
Indices: 410166--410211 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
410156 GGCACCTACT
*
410166 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
410208 TA TA
1 TA TA
410212 CACCACGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:417671 original size:18 final size:19
Alignment explanation
Indices: 417629--417672 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
417619 CCACATTAAT
* * *
417629 CCTAAAACTTAGCAAATTT
1 CCTAAAACTTAGAAAACTC
417648 CCTAAAACTT-GAAAACTC
1 CCTAAAACTTAGAAAACTC
417666 CCTAAAA
1 CCTAAAA
417673 TACAATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (19 bp):
CCTAAAACTTAGAAAACTC
Found at i:420569 original size:21 final size:19
Alignment explanation
Indices: 420517--420570 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
420507 CACATCGTTA
420517 TTTAAAATTATTATTAACATG
1 TTTAAAA-T-TTATTAACATG
* *
420538 TTTAGAGTTTATTAACATTG
1 TTTAAAATTTATTAACA-TG
420558 TTTTAAAATTTAT
1 -TTTAAAATTTAT
420571 CCTTTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 15 0.56
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTAAAATTTATTAACATG
Found at i:421754 original size:16 final size:16
Alignment explanation
Indices: 421735--421780 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
421725 TCAAATTTTC
421735 TTTTCAAAGGATCGTA
1 TTTTCAAAGGATCGTA
421751 TTTT-AAA--ATC---
1 TTTTCAAAGGATCGTA
421761 TTTTCAAAGGATCGTA
1 TTTTCAAAGGATCGTA
421777 TTTT
1 TTTT
421781 AAAATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 12
0.67 0.00 0.33
Matches are distributed among these distances:
10 4 0.17
11 3 0.12
13 6 0.25
15 3 0.12
16 8 0.33
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (16 bp):
TTTTCAAAGGATCGTA
Found at i:421766 original size:26 final size:26
Alignment explanation
Indices: 421733--421795 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
421723 ACTCAAATTT
421733 TCTTTTCAAAGGATCGTATTTTAAAA
1 TCTTTTCAAAGGATCGTATTTTAAAA
421759 TCTTTTCAAAGGATCGTATTTTAAAA
1 TCTTTTCAAAGGATCGTATTTTAAAA
421785 TCTTTTCAAAG
1 TCTTTTCAAAG
421796 TTTCGACACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (26 bp):
TCTTTTCAAAGGATCGTATTTTAAAA
Found at i:436183 original size:29 final size:29
Alignment explanation
Indices: 436150--436209 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
436140 TATATTGTCC
436150 TTTTCAATTTTTATAACTTCATATTTAAG
1 TTTTCAATTTTTATAACTTCATATTTAAG
436179 TTTTCAATTTTTATAACTTCATATTTAAG
1 TTTTCAATTTTTATAACTTCATATTTAAG
436208 TT
1 TT
436210 ATTTAAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (29 bp):
TTTTCAATTTTTATAACTTCATATTTAAG
Found at i:454326 original size:16 final size:16
Alignment explanation
Indices: 454307--454338 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
454297 AAATGATACA
454307 AACCCAAAATGACATG
1 AACCCAAAATGACATG
*
454323 AACCCGAAATGACATG
1 AACCCAAAATGACATG
454339 TGCAAGTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (16 bp):
AACCCAAAATGACATG
Found at i:455861 original size:27 final size:28
Alignment explanation
Indices: 455814--455869 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
455804 TATAATTTAC
* *
455814 TTAGAATTTTTTAAATGTTTTTTTATTT
1 TTAGAATTTTATAAATGTTTTTTAATTT
455842 TTAG-ATTTTATATAAT-TTTTTTAATTT
1 TTAGAATTTTATA-AATGTTTTTTAATTT
455869 T
1 T
455870 CATGTGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (28 bp):
TTAGAATTTTATAAATGTTTTTTAATTT
Found at i:459683 original size:14 final size:15
Alignment explanation
Indices: 459653--459686 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
459643 TCAACATGTT
459653 TTTTA-ATATTTACA
1 TTTTATATATTTACA
459667 TTTTATATATTTA-A
1 TTTTATATATTTACA
459681 TTTTAT
1 TTTTAT
459687 GTGATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATATATTTACA
Found at i:462853 original size:24 final size:24
Alignment explanation
Indices: 462821--462868 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
462811 GGCAGTGAAC
462821 ATCCTTAACCATTAGACCATTACA
1 ATCCTTAACCATTAGACCATTACA
462845 ATCCTTAACCATTAGACCATTACA
1 ATCCTTAACCATTAGACCATTACA
462869 TAGAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (24 bp):
ATCCTTAACCATTAGACCATTACA
Found at i:463822 original size:15 final size:15
Alignment explanation
Indices: 463804--463837 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
463794 TAAAGTCCTC
*
463804 TCAATAATGTCGATT
1 TCAACAATGTCGATT
463819 TCAACAATGTCGATT
1 TCAACAATGTCGATT
463834 TCAA
1 TCAA
463838 GATTTGAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (15 bp):
TCAACAATGTCGATT
Found at i:469843 original size:3 final size:3
Alignment explanation
Indices: 469835--469869 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
469825 TTCACTCTCC
469835 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
469870 TAAAAAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:475077 original size:2 final size:2
Alignment explanation
Indices: 475070--475109 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
475060 ATGCAAAAAG
475070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
475110 ATTTACTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:476872 original size:22 final size:22
Alignment explanation
Indices: 476844--476895 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
476834 ACGGTGGTTT
476844 CCTCCTCC-CTCTCTCACACGTG
1 CCTCCTCCTCTC-CTCACACGTG
*
476866 CCTCCTCCTCTCCTCGCACGTG
1 CCTCCTCCTCTCCTCACACGTG
*
476888 ACT-CTCCT
1 CCTCCTCCT
476896 ACCCCCCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 5 0.19
22 19 0.70
23 3 0.11
ACGTcount: A:0.08, C:0.54, G:0.10, T:0.29
Consensus pattern (22 bp):
CCTCCTCCTCTCCTCACACGTG
Found at i:479821 original size:29 final size:29
Alignment explanation
Indices: 479780--479838 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
479770 GTACAAAAAT
479780 TTTTATGATACTTTTATCGTTGAGTTTTA
1 TTTTATGATACTTTTATCGTTGAGTTTTA
479809 TTTTATGATACTTTTATCGTTGAGTTTTA
1 TTTTATGATACTTTTATCGTTGAGTTTTA
479838 T
1 T
479839 CTTGAGTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (29 bp):
TTTTATGATACTTTTATCGTTGAGTTTTA
Done.