Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 260 of 325
Found at i:81293388 original size:74 final size:76
Alignment explanation
Indices: 81293282--81293426 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
81293272 TTTTTGCCTT
*
81293282 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
81293344 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
81293356 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
81293421 AATTTC
66 AATTTC
81293427 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:81293394 original size:165 final size:166
Alignment explanation
Indices: 81293122--81293600 Score: 707
Period size: 165 Copynumber: 2.9 Consensus size: 166
81293112 CTACTTTTTC
81293122 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
81293187 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
81293252 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
81293287 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
81293352 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
81293417 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC------AAAA
*
81293459 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
81293524 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
81293585 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
81293601 CAAAAAATCA
Statistics
Matches: 287, Mismatches: 20, Indels: 11
0.90 0.06 0.03
Matches are distributed among these distances:
165 154 0.54
168 27 0.09
170 34 0.12
172 72 0.25
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:81293541 original size:72 final size:73
Alignment explanation
Indices: 81293457--81293963 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
81293447 TCAAAAAAAA
*
81293457 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
81293522 CTGTTTTC
66 CTGTTTTC
* * ** ** *
81293530 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
81293594 CTGTTTTC
66 CTGTTTTC
* * * ** *
81293602 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
81293667 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
81293678 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
81293743 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
81293757 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
81293821 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
81293834 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
81293899 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
81293926 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
81293964 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 53, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.09
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:81293780 original size:79 final size:76
Alignment explanation
Indices: 81293456--81294173 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
81293446 TTCAAAAAAA
** *
81293456 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
81293519 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
81293530 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
81293591 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
81293602 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
81293666 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
81293678 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
81293743 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
81293757 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
81293821 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
81293834 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
81293899 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
81293926 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
81293990 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
81294013 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
81294074 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
81294088 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
81294153 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
81294174 TAATGTCTGT
Statistics
Matches: 503, Mismatches: 84, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 120 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:81293834 original size:14 final size:13
Alignment explanation
Indices: 81293815--81293850 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
81293805 TGTCGAGGTA
81293815 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
81293828 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
81293842 TTTTCAAAA
1 TTTTCAAAA
81293851 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:81293935 original size:399 final size:392
Alignment explanation
Indices: 81293117--81293963 Score: 931
Period size: 399 Copynumber: 2.1 Consensus size: 392
81293107 AATTTCTACT
*
81293117 TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * *
81293181 ATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCG
66 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGGTCACACGCCG
*
81293246 AGGTATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGG
131 AGCTATTTTCAATTTCC----TT-AA---TT-CCTTTCAAAAAAATCAACTCATATTGCGAGAGG
* * * * **
81293311 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTAT
187 TGAGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTTATGTTGTCAAAAAAATCAACTCACAT
** *
81293376 TGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCCATTTTTCAATTTC
252 TGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTC
* *
81293441 TGCATTTCAAAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
317 TGCATTTC--------AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACACGCT
*
81293506 GAGGTAATTTCAATTTCTG
374 GAGCTAATTTCAATTTCTG
* ** * *
81293525 TTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * * * ** *
81293590 ATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCT
66 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGG-TCACACGCC
81293653 GAGCTATTTTCAATTT-C-T-A-T-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
130 GAGCTATTTTCAATTTCCTTAATTCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
81293713 GCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGC
195 GCCTCAG--CACACACTGAGGTA--ATTTCAATTTAT-GTTGTCAAAAAAATCAACTCACATTGC
* * * * * **
81293778 GAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG-
255 GAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGC
* * * *
81293842 TTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
320 ATTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACAC--GCTGAGCTAATT
81293906 TCAATTTCTG
383 TCAATTTCTG
81293916 TTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -----TTTTC---AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
81293964 TTTTTAATTT
Statistics
Matches: 375, Mismatches: 47, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
389 41 0.11
391 20 0.05
394 46 0.12
396 18 0.05
398 14 0.04
399 108 0.29
400 1 0.00
402 1 0.00
407 3 0.01
408 63 0.17
409 60 0.16
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (392 bp):
TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGGTCACACGCCG
AGCTATTTTCAATTTCCTTAATTCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGCACACACTGAGGTAATTTCAATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGG
TGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCATTTCA
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTC
TG
Found at i:81293981 original size:30 final size:30
Alignment explanation
Indices: 81293945--81294006 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
81293935 CAACTCATAT
81293945 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
81293975 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
81294005 TG
1 TG
81294007 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:81294107 original size:254 final size:248
Alignment explanation
Indices: 81293596--81294174 Score: 762
Period size: 254 Copynumber: 2.3 Consensus size: 248
81293586 TTCAATTTCT
* * *
81293596 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
81293661 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
81293722 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
81293787 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
81293841 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
81293905 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
81293970 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
81294032 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
81294095 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
81294159 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
81294175 AATGTCTGTT
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:81294822 original size:16 final size:16
Alignment explanation
Indices: 81294801--81294886 Score: 67
Period size: 16 Copynumber: 5.7 Consensus size: 16
81294791 CATTAAGCCC
81294801 CCCAAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
*
81294817 CCCAAAAAAAAAC-AA
1 CCCAAAAAAAACCTAA
** **
81294832 -AGAAAAAAAA-AGAA
1 CCCAAAAAAAACCTAA
*
81294846 ---AAAGAAAAACCTAC
1 CCCAAA-AAAAACCTAA
81294860 CCCAAAAAAAACCTAA
1 CCCAAAAAAAACCTAA
81294876 CCCAAAAAAAA
1 CCCAAAAAAAA
81294887 AAAAGAAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
12 3 0.05
13 5 0.09
14 11 0.20
15 2 0.04
16 32 0.57
17 3 0.05
ACGTcount: A:0.70, C:0.23, G:0.03, T:0.03
Consensus pattern (16 bp):
CCCAAAAAAAACCTAA
Found at i:81294870 original size:17 final size:17
Alignment explanation
Indices: 81294845--81294887 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
81294835 AAAAAAAAGA
81294845 AAAAGAAAAACCT-ACCC
1 AAAA-AAAAACCTAACCC
*
81294862 CAAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
81294879 AAAAAAAAA
1 AAAAAAAAA
81294888 AAAGAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.67, C:0.26, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:81294883 original size:43 final size:42
Alignment explanation
Indices: 81294807--81294899 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 42
81294797 GCCCCCCAAA
*
81294807 AAAAACCTAACCCAAAAAAAAACAAAGAAAAAAAAAGAAAAAG
1 AAAAACCTAACCCAAAAAAAAACAAACAAAAAAAAA-AAAAAG
* * *
81294850 AAAAACCTACCCCAAAAAAAACCTAACCCAAAAAAAAAAAAGAAG
1 AAAAACCTAACCCAAAAAAAAAC-AA-ACAAAAAAAAAAAA-AAG
81294895 AAAAA
1 AAAAA
81294900 AGAAAACCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 21 0.49
44 5 0.12
45 17 0.40
ACGTcount: A:0.73, C:0.18, G:0.05, T:0.03
Consensus pattern (42 bp):
AAAAACCTAACCCAAAAAAAAACAAACAAAAAAAAAAAAAAG
Found at i:81295747 original size:3 final size:3
Alignment explanation
Indices: 81295706--81295733 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
81295696 TTTATTGTAG
81295706 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
81295734 CATACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:81299294 original size:67 final size:68
Alignment explanation
Indices: 81299165--81299324 Score: 175
Period size: 67 Copynumber: 2.4 Consensus size: 68
81299155 GCCTCAAAAG
* * * ** *
81299165 GGGTTACAAGATGTAATACCATAGCTCGACTTTGACAAATAATAGATTCTGTTAGGATATTAAAC
1 GGGTTACAAGATGTAAGACCATAGCCCGACTTTAACAAATAATAGATTCTGCCAGGACATTAAAC
81299230 AT-
66 ATA
*
81299232 GGGTTACAAGATGTAAGACCATAGCCCGACTATGGTAACCAATAA-AG-TTC-GCCAGGACATTA
1 GGGTTACAAGATGTAAGACCATAGCCCGACT-T--TAACAAATAATAGATTCTGCCAGGACATTA
81299294 AACATA
63 AACATA
* * *
81299300 AGGTTGCAAGGTGTAAGACCATAGC
1 GGGTTACAAGATGTAAGACCATAGC
81299325 TCAGCTATGA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
67 43 0.54
68 26 0.33
69 2 0.03
70 8 0.10
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (68 bp):
GGGTTACAAGATGTAAGACCATAGCCCGACTTTAACAAATAATAGATTCTGCCAGGACATTAAAC
ATA
Found at i:81299357 original size:68 final size:67
Alignment explanation
Indices: 81299166--81299366 Score: 217
Period size: 68 Copynumber: 3.0 Consensus size: 67
81299156 CCTCAAAAGG
* * * *
81299166 GGTTACAAGATGTAATACCATAGCTCGACTTTGACAAATAATAGA-TTCTGTTAGGATATTAAAC
1 GGTTACAAGATGTAAGACCATAGCTCGACTATGACAACTAATAGAGTTCT-TTAGGACATTAAAC
*
81299230 ATG
65 ATA
* ** * * ***
81299233 GGTTACAAGATGTAAGACCATAGCCCGACTATGGTAACCAATAAAGTTCGCCAGGACATTAAACA
1 GGTTACAAGATGTAAGACCATAGCTCGACTATGACAACTAATAGAGTTCTTTAGGACATTAAACA
81299298 TAA
66 T-A
* * *
81299301 GGTTGCAAGGTGTAAGACCATAGCTC-AGCTATGACAACTAATAGAGTCCTTTAGGACATTAAAC
1 GGTTACAAGATGTAAGACCATAGCTCGA-CTATGACAACTAATAGAGTTCTTTAGGACATTAAAC
81299365 AT
65 AT
81299367 GGGCTTATAA
Statistics
Matches: 107, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
67 51 0.48
68 56 0.52
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (67 bp):
GGTTACAAGATGTAAGACCATAGCTCGACTATGACAACTAATAGAGTTCTTTAGGACATTAAACA
TA
Found at i:81299382 original size:68 final size:66
Alignment explanation
Indices: 81299165--81299400 Score: 197
Period size: 68 Copynumber: 3.5 Consensus size: 66
81299155 GCCTCAAAAG
* * * * *
81299165 GGGTTACAAGATGTAATACCATAGCTCGACTTTGACAAATAATAGA-TTCTGTTAGGATATTAAA
1 GGGTTAAAAG-TGTAAGACCATAGCTCGACTATGACAACTAATAGAGTTCT-TTAGGACATTAAA
81299229 CAT
64 CAT
* * ** * * ***
81299232 GGGTTACAAGATGTAAGACCATAGCCCGACTATGGTAACCAATAAAGTTCGCCAGGACATTAAAC
1 GGGTTAAAAG-TGTAAGACCATAGCTCGACTATGACAACTAATAGAGTTCTTTAGGACATTAAAC
81299297 AT
65 AT
* * * *
81299299 AAGGTTGCAAGGTGTAAGACCATAGCTC-AGCTATGACAACTAATAGAGTCCTTTAGGACATTAA
1 -GGGTT-AAAAGTGTAAGACCATAGCTCGA-CTATGACAACTAATAGAGTTCTTTAGGACATTAA
81299363 ACAT
63 ACAT
** *
81299367 GGGCTTATAAAGTGTAAGATGATAGCACGACTAT
1 GGG-TTA-AAAGTGTAAGACCATAGCTCGACTAT
81299401 AACACCAAAA
Statistics
Matches: 131, Mismatches: 31, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
67 54 0.41
68 74 0.56
69 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (66 bp):
GGGTTAAAAGTGTAAGACCATAGCTCGACTATGACAACTAATAGAGTTCTTTAGGACATTAAACA
T
Found at i:81299426 original size:135 final size:134
Alignment explanation
Indices: 81299166--81299470 Score: 307
Period size: 135 Copynumber: 2.3 Consensus size: 134
81299156 CCTCAAAAGG
* * * *
81299166 GGTTACAAGATGTAATACCATAGCTCGACTTTGACAAATAATAGATTCTGTTAGGATATTAAACA
1 GGTTACAAGATGTAAGACCATAGCTCGACTATGACAAATAATAGATCCTGTTAGGACATTAAACA
* * * * * *
81299231 TGGGTTACAAGATGTAAGACCATAGCCCGACTATGGTAACCAATAAAGTTCGCCAGGACATTAAA
66 TGGGTTAAAAGATGTAAGACCATAGCACGACTAT-GAAACCAATAAAGTCCACCAAGACATTAAA
81299296 CATAA
130 CATAA
* * *
81299301 GGTTGCAAGGTGTAAGACCATAGCTC-AGCTATGACAACTAATAGAGTCCT-TTAGGACATTAAA
1 GGTTACAAGATGTAAGACCATAGCTCGA-CTATGACAAATAATAGA-TCCTGTTAGGACATTAAA
**
81299364 CATGGGCTTATAAAG-TGTAAGATGATAGCACGACTAT-AACACCAA-AAGAGTCCACCAAGACA
64 CATGGG-TTA-AAAGATGTAAGACCATAGCACGACTATGAA-ACCAATAA-AGTCCACCAAGACA
* **
81299426 TTAAATATGG
125 TTAAACATAA
* * * *
81299436 GGTTACATG-TATAAGACTATAGCTTGACTATGACA
1 GGTTACAAGATGTAAGACCATAGCTCGACTATGACA
81299471 GCATATGGAG
Statistics
Matches: 140, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
134 25 0.18
135 87 0.62
136 25 0.18
137 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (134 bp):
GGTTACAAGATGTAAGACCATAGCTCGACTATGACAAATAATAGATCCTGTTAGGACATTAAACA
TGGGTTAAAAGATGTAAGACCATAGCACGACTATGAAACCAATAAAGTCCACCAAGACATTAAAC
ATAA
Found at i:81300423 original size:48 final size:48
Alignment explanation
Indices: 81300352--81300446 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
81300342 GCATTGGCTA
81300352 CACCAACTGAGTTCGTAGATTTCCCCCTCGAAATTCAAAGAGTTTAAC
1 CACCAACTGAGTTCGTAGATTTCCCCCTCGAAATTCAAAGAGTTTAAC
* *
81300400 CACCAACTGAGTTCGTAGGTTTCCCCCTCGAAATTCAAGGAGTTTAA
1 CACCAACTGAGTTCGTAGATTTCCCCCTCGAAATTCAAAGAGTTTAA
81300447 ATCTGTGCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
CACCAACTGAGTTCGTAGATTTCCCCCTCGAAATTCAAAGAGTTTAAC
Found at i:81301744 original size:29 final size:30
Alignment explanation
Indices: 81301707--81301775 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
81301697 CGAGAGTTCC
*
81301707 TAGTGACTATCCT-CTAAACAAGAGTCTGA
1 TAGTGACTATCCTGCCAAACAAGAGTCTGA
* * *
81301736 TAGTAACTAT-CTGCCAAACAAGAGTTTGG
1 TAGTGACTATCCTGCCAAACAAGAGTCTGA
81301765 TAGTGACTATC
1 TAGTGACTATC
81301776 ATTTAAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (30 bp):
TAGTGACTATCCTGCCAAACAAGAGTCTGA
Found at i:81303987 original size:14 final size:14
Alignment explanation
Indices: 81303968--81303996 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
81303958 GAAACTATTG
81303968 TTCTAAGCAAACTT
1 TTCTAAGCAAACTT
81303982 TTCTAAGCAAACTT
1 TTCTAAGCAAACTT
81303996 T
1 T
81303997 GTTAAAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (14 bp):
TTCTAAGCAAACTT
Found at i:81308976 original size:19 final size:19
Alignment explanation
Indices: 81308952--81308996 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
81308942 CGAAAAATGA
81308952 TTTCTGGAAATGATTTACT
1 TTTCTGGAAATGATTTACT
81308971 TTTCTGGAAATGATTTACT
1 TTTCTGGAAATGATTTACT
81308990 TTTCTGG
1 TTTCTGG
81308997 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.49
Consensus pattern (19 bp):
TTTCTGGAAATGATTTACT
Found at i:81309129 original size:18 final size:18
Alignment explanation
Indices: 81309072--81309132 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
81309062 AAAATTTGTT
*
81309072 TTTAAATATATTAATAAA
1 TTTACATATATTAATAAA
* **
81309090 TTT--ATATTTTCAATTATT
1 TTTACATATATT-AA-TAAA
81309108 TTTACATATATTAATAAA
1 TTTACATATATTAATAAA
81309126 TTTACAT
1 TTTACAT
81309133 TTTAAAAGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 6 0.18
17 2 0.06
18 17 0.52
19 2 0.06
20 6 0.18
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTACATATATTAATAAA
Found at i:81313208 original size:31 final size:31
Alignment explanation
Indices: 81313172--81313230 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
81313162 ATGGAAAAAA
** *
81313172 TTGAAGAATGGAAGAAAAAGAAGGCTTAAAG
1 TTGAAGAACAGAAGAAAAACAAGGCTTAAAG
81313203 TTGAAGAACAGAAGAAAAACAAGGCTTA
1 TTGAAGAACAGAAGAAAAACAAGGCTTA
81313231 CCTAGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.25, T:0.15
Consensus pattern (31 bp):
TTGAAGAACAGAAGAAAAACAAGGCTTAAAG
Found at i:81313950 original size:9 final size:9
Alignment explanation
Indices: 81313921--81313961 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
81313911 ATAAGTATTA
81313921 AATTAACTG
1 AATTAACTG
* *
81313930 AATTACCCG
1 AATTAACTG
81313939 AATTAACTG
1 AATTAACTG
81313948 AATTAACTG
1 AATTAACTG
81313957 AATTA
1 AATTA
81313962 TTTGTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (9 bp):
AATTAACTG
Found at i:81316007 original size:19 final size:18
Alignment explanation
Indices: 81315979--81316014 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
81315969 TATATTAGTT
*
81315979 AAAAAGAACAAAAAGCTAA
1 AAAAAAAAC-AAAAGCTAA
81315998 AAAAAAAACAAAAGCTA
1 AAAAAAAACAAAAGCTA
81316015 GTAGATCGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.11, G:0.08, T:0.06
Consensus pattern (18 bp):
AAAAAAAACAAAAGCTAA
Found at i:81316276 original size:15 final size:16
Alignment explanation
Indices: 81316250--81316279 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
81316240 ATTGGTGAGG
81316250 GAAAAAGAAGAAGAAA
1 GAAAAAGAAGAAGAAA
81316266 GAAAAAG-AGAAGAA
1 GAAAAAGAAGAAGAA
81316280 GAGTTAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
GAAAAAGAAGAAGAAA
Found at i:81316315 original size:12 final size:11
Alignment explanation
Indices: 81316293--81316330 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
81316283 TTAGAGAGAA
81316293 AGAAG-GAAAG
1 AGAAGAGAAAG
81316303 AGAAGGAGAAAG
1 AGAA-GAGAAAG
81316315 AGAAGAGAATAG
1 AGAAGAGAA-AG
81316327 AGAA
1 AGAA
81316331 AATGTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.16
11 6 0.24
12 15 0.60
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.03
Consensus pattern (11 bp):
AGAAGAGAAAG
Found at i:81316583 original size:43 final size:44
Alignment explanation
Indices: 81316514--81316604 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
81316504 AAATAATTGT
* * *
81316514 TTTTATTAATTAATTTATTGTATAT-AAATTATTAAATTATTAA
1 TTTTATTAATTAATTTAATATATATAAAATAATTAAATTATTAA
*
81316557 TTTTATTAATT-ATTTACATATTTATAAAATAATTAAATTATTAA
1 TTTTATTAATTAATTTA-ATATATATAAAATAATTAAATTATTAA
81316601 TTTT
1 TTTT
81316605 TAGGAATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 16 0.38
44 21 0.50
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (44 bp):
TTTTATTAATTAATTTAATATATATAAAATAATTAAATTATTAA
Found at i:81316913 original size:32 final size:32
Alignment explanation
Indices: 81316855--81316962 Score: 148
Period size: 32 Copynumber: 3.4 Consensus size: 32
81316845 GGTTTTTTAC
*
81316855 TAATATA-TTATAAAAAATAATAAAATATCAAAA
1 TAATATATTTAT-GAAAA-AATAAAATATCAAAA
*
81316888 TAATATATTTATGAAAAAATAAAATACCAAAA
1 TAATATATTTATGAAAAAATAAAATATCAAAA
* *
81316920 TAGTATCTTTATGAAAAAATAAAATATCAAAA
1 TAATATATTTATGAAAAAATAAAATATCAAAA
81316952 TAATA-ATTTAT
1 TAATATATTTAT
81316963 TTTAGGGAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
31 5 0.07
32 47 0.70
33 11 0.16
34 4 0.06
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (32 bp):
TAATATATTTATGAAAAAATAAAATATCAAAA
Found at i:81322977 original size:16 final size:16
Alignment explanation
Indices: 81322956--81322995 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
81322946 TTTTACTAAC
81322956 AATAATAACCAACAAT
1 AATAATAACCAACAAT
*
81322972 AATAATAACTAACAAT
1 AATAATAACCAACAAT
81322988 AATAATAA
1 AATAATAA
81322996 GAGTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAATAACCAACAAT
Found at i:81322986 original size:52 final size:54
Alignment explanation
Indices: 81322917--81323034 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 54
81322907 ATAAATAAAA
*
81322917 AATAATAATAACTAACAATAAT-T-AGGGTTTTTTACTAACAATAATAACCAAC
1 AATAATAATAACTAACAATAATATAAGAGTTTTTTACTAACAATAATAACCAAC
* **
81322969 AATAATAATAACTAACAATAATAATAAGAGTTTTTTACTAATAATAATAATTAAC
1 AATAATAATAACTAACAATAAT-ATAAGAGTTTTTTACTAACAATAATAACCAAC
*
81323024 AATAACAATAA
1 AATAATAATAA
81323035 GGTTTTTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
52 22 0.38
54 1 0.02
55 35 0.60
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (54 bp):
AATAATAATAACTAACAATAATATAAGAGTTTTTTACTAACAATAATAACCAAC
Found at i:81322988 original size:13 final size:13
Alignment explanation
Indices: 81322950--81322992 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
81322940 AGGGTTTTTT
81322950 ACTAACAATAATA
1 ACTAACAATAATA
*
81322963 ACCAACAATAATAATA
1 ACTAAC---AATAATA
81322979 ACTAACAATAATA
1 ACTAACAATAATA
81322992 A
1 A
81322993 TAAGAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 13 0.52
16 12 0.48
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (13 bp):
ACTAACAATAATA
Found at i:81323012 original size:39 final size:37
Alignment explanation
Indices: 81322969--81323058 Score: 135
Period size: 39 Copynumber: 2.4 Consensus size: 37
81322959 AATAACCAAC
*
81322969 AATAATAATAACTAACAATAATAATAAGAGTTTTTTACT
1 AATAATAATAACTAACAATAACAATAAG-G-TTTTTACT
*
81323008 AATAATAATAATTAACAATAACAATAAGGTTTTTACT
1 AATAATAATAACTAACAATAACAATAAGGTTTTTACT
*
81323045 AACAATAATAACTA
1 AATAATAATAACTA
81323059 GCAACAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
37 20 0.43
38 1 0.02
39 26 0.55
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (37 bp):
AATAATAATAACTAACAATAACAATAAGGTTTTTACT
Found at i:81323082 original size:19 final size:21
Alignment explanation
Indices: 81323045--81323093 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
81323035 GGTTTTTACT
81323045 AACAATAATAACTAGCAACAAA
1 AACAATAATAACTA-CAACAAA
*
81323067 AACAATAATAA-T-CAACAAT
1 AACAATAATAACTACAACAAA
*
81323086 AATAATAA
1 AACAATAA
81323094 CAGGAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.52
21 1 0.04
22 11 0.44
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.18
Consensus pattern (21 bp):
AACAATAATAACTACAACAAA
Found at i:81323178 original size:27 final size:27
Alignment explanation
Indices: 81323146--81323227 Score: 83
Period size: 33 Copynumber: 2.8 Consensus size: 27
81323136 AGAAATTATA
*
81323146 CCTTCTCTTTTCTATTTTTTTCCTTCT
1 CCTTCTCTTTTCTTTTTTTTTCCTTCT
*
81323173 CTTTCTCCTTTCTCCTTTCTTTATTCTCCTTCT
1 CCTTCT-CTTT-T-CTTT-TTT-TT-TCCTTCT
81323206 CCTTCTCTTTTTCTTTTTTTTT
1 CCTTCTC-TTTTCTTTTTTTTT
81323228 TCCCTCATTG
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
27 5 0.11
28 5 0.11
29 3 0.07
30 6 0.13
31 7 0.16
32 4 0.09
33 15 0.33
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (27 bp):
CCTTCTCTTTTCTTTTTTTTTCCTTCT
Found at i:81323212 original size:33 final size:34
Alignment explanation
Indices: 81323148--81323212 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
81323138 AAATTATACC
* * * *
81323148 TTCTCTTTTCTATTTTTTTCCTTCTCTTTCTCCT
1 TTCTCCTTTCTATTATTCTCCTTCTCCTTCTCCT
81323182 TTCTCCTTTCT-TTATTCTCCTTCTCCTTCTC
1 TTCTCCTTTCTATTATTCTCCTTCTCCTTCTC
81323213 TTTTTCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (34 bp):
TTCTCCTTTCTATTATTCTCCTTCTCCTTCTCCT
Found at i:81323281 original size:26 final size:26
Alignment explanation
Indices: 81323249--81323317 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
81323239 TGTCGTGCCC
*
81323249 TCTCCTTCTCCTTCTTCTTCT-TCTCT
1 TCTCCTTCTCCTTCTTCTTCTCT-TAT
* * *
81323275 TCTCCTTTTCTTTCTTTTTCTCTTAT
1 TCTCCTTCTCCTTCTTCTTCTCTTAT
*
81323301 TCTCCTTGCTACTTCTT
1 TCTCCTT-CTCCTTCTT
81323318 GCTTTCGGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 27 0.79
27 7 0.21
ACGTcount: A:0.03, C:0.35, G:0.01, T:0.61
Consensus pattern (26 bp):
TCTCCTTCTCCTTCTTCTTCTCTTAT
Found at i:81323452 original size:17 final size:16
Alignment explanation
Indices: 81323430--81323477 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
81323420 CTTGATCTGT
81323430 CAGCTTTTTTTTTTTGC
1 CAGCTTTTTTTTTTT-C
*
81323447 CAGCTTTTGTTTTTTTT
1 CAGCTTTT-TTTTTTTC
*
81323464 TAGCTTTTTTTTTT
1 CAGCTTTTTTTTTT
81323478 AACTAGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 15 0.54
18 7 0.25
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.71
Consensus pattern (16 bp):
CAGCTTTTTTTTTTTC
Found at i:81324901 original size:15 final size:15
Alignment explanation
Indices: 81324883--81324921 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
81324873 ATTATAATTA
81324883 AAAAATAGTTTTTTT
1 AAAAATAGTTTTTTT
*
81324898 AAAAATA-TATTTTT
1 AAAAATAGTTTTTTT
*
81324912 AAAAAAAGTT
1 AAAAATAGTT
81324922 AAGATTAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
AAAAATAGTTTTTTT
Found at i:81329510 original size:8 final size:8
Alignment explanation
Indices: 81329497--81329542 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
81329487 ATTTCTTTTT
81329497 TTTTTTAC
1 TTTTTTAC
81329505 TTTTTTAC
1 TTTTTTAC
81329513 TTTTTTGAC
1 TTTTTT-AC
*
81329522 TTTTGTAC
1 TTTTTTAC
81329530 TTTTTTTAC
1 -TTTTTTAC
81329539 TTTT
1 TTTT
81329543 CTTTCTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 20 0.59
9 14 0.41
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (8 bp):
TTTTTTAC
Found at i:81329510 original size:9 final size:9
Alignment explanation
Indices: 81329496--81329582 Score: 67
Period size: 9 Copynumber: 9.9 Consensus size: 9
81329486 AATTTCTTTT
81329496 TTTTTTTAC
1 TTTTTTTAC
81329505 -TTTTTTAC
1 TTTTTTTAC
*
81329513 TTTTTTGAC
1 TTTTTTTAC
*
81329522 -TTTTGTAC
1 TTTTTTTAC
81329530 TTTTTTTAC
1 TTTTTTTAC
81329539 TTTTCTTT-C
1 TTTT-TTTAC
*
81329548 TTTCTTT-C
1 TTTTTTTAC
81329556 TTTTATTTA-
1 TTTT-TTTAC
* *
81329565 TTTATTTAA
1 TTTTTTTAC
81329574 TTTTATTTA
1 TTTT-TTTA
81329583 TTTATTATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
8 25 0.40
9 31 0.49
10 7 0.11
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:81329518 original size:17 final size:17
Alignment explanation
Indices: 81329496--81329542 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
81329486 AATTTCTTTT
*
81329496 TTTTTTTACTTTTTTAC
1 TTTTTTTACTTTTGTAC
*
81329513 TTTTTTGACTTTTGTAC
1 TTTTTTTACTTTTGTAC
81329530 TTTTTTTACTTTT
1 TTTTTTTACTTTT
81329543 CTTTCTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTTTACTTTTGTAC
Found at i:81329579 original size:18 final size:20
Alignment explanation
Indices: 81329556--81329598 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
81329546 TCTTTCTTTC
81329556 TTTTATTTATTTA-T-TTAA
1 TTTTATTTATTTATTATTAA
81329574 TTTTATTTATTTATTATTAA
1 TTTTATTTATTTATTATTAA
81329594 TTTTA
1 TTTTA
81329599 AAAATTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.57
19 1 0.04
20 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTATTTATTATTAA
Found at i:81329632 original size:14 final size:13
Alignment explanation
Indices: 81329604--81329628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81329594 TTTTAAAAAT
81329604 TTTGAAATATTTA
1 TTTGAAATATTTA
81329617 TTTGAAATATTT
1 TTTGAAATATTT
81329629 TATTAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTGAAATATTTA
Found at i:81329687 original size:32 final size:32
Alignment explanation
Indices: 81329642--81329703 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
81329632 TAATATATAT
*
81329642 TTTTTAAAATTTTAGATATATATTTTGAAATTA
1 TTTTTAAAATTTTAAATAT-TATTTTGAAATTA
*
81329675 TTTTT-AAATTTTAAATATTATTTTTAAAT
1 TTTTTAAAATTTTAAATATTATTTTGAAAT
81329704 ATTAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 10 0.37
32 12 0.44
33 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TTTTTAAAATTTTAAATATTATTTTGAAATTA
Found at i:81329696 original size:20 final size:20
Alignment explanation
Indices: 81329671--81329720 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
81329661 ATATTTTGAA
*
81329671 ATTATTTTTAAATTTTAAAT
1 ATTATTTTTAAATATTAAAT
81329691 ATTATTTTTAAATATTAAAT
1 ATTATTTTTAAATATTAAAT
81329711 ATTAATTTTT
1 ATT-ATTTTT
81329721 TTAATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTATTTTTAAATATTAAAT
Found at i:81329701 original size:13 final size:13
Alignment explanation
Indices: 81329683--81329707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81329673 TATTTTTAAA
81329683 TTTTAAATATTAT
1 TTTTAAATATTAT
81329696 TTTTAAATATTA
1 TTTTAAATATTA
81329708 AATATTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:81329726 original size:22 final size:22
Alignment explanation
Indices: 81329670--81329729 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
81329660 TATATTTTGA
*
81329670 AATTATTTTTAAATTTTAAATATT
1 AATT-TTTTT-AATATTAAATATT
*
81329694 -A-TTTTTAAATATTAAATATT
1 AATTTTTTTAATATTAAATATT
81329714 AATTTTTTTAATATTA
1 AATTTTTTTAATATTA
81329730 TAAAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 12 0.39
21 5 0.16
22 13 0.42
23 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTTTTTAATATTAAATATT
Found at i:81329792 original size:15 final size:15
Alignment explanation
Indices: 81329772--81329806 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
81329762 TTTTATTAGT
81329772 TTTATAATAATTTAA
1 TTTATAATAATTTAA
*
81329787 TTTATAATATTTTAA
1 TTTATAATAATTTAA
*
81329802 ATTAT
1 TTTAT
81329807 GAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATAATAATTTAA
Found at i:81330141 original size:39 final size:37
Alignment explanation
Indices: 81330086--81330220 Score: 109
Period size: 39 Copynumber: 3.6 Consensus size: 37
81330076 AAAATAATTT
* *
81330086 TTATAAAAAATTTATTTAAAAATTTTAAATGTTTAAATA
1 TTATAAAAAA-TAATTTAAAAATTTTAAATATTTAAA-A
* * *
81330125 TTATTAAAAATATATTT-AATATTTAAAAATAATTTAAAA
1 TTATAAAAAATA-ATTTAAAAATTT-TAAAT-ATTTAAAA
* *
81330164 TTA-AAAAAATAATTTCAAAATTTT--ATTTTTAAAA
1 TTATAAAAAATAATTTAAAAATTTTAAATATTTAAAA
81330198 TT-TATAAAAATAATTTCAAAAAT
1 TTATA-AAAAATAATTT-AAAAAT
81330221 ATATATTTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
34 10 0.13
35 13 0.16
36 5 0.06
37 4 0.05
38 20 0.25
39 21 0.27
40 6 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (37 bp):
TTATAAAAAATAATTTAAAAATTTTAAATATTTAAAA
Found at i:81330147 original size:18 final size:17
Alignment explanation
Indices: 81330126--81330170 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
81330116 GTTTAAATAT
81330126 TATTAAAAATATATTTAA
1 TATTAAAAATA-ATTTAA
81330144 TATTTAAAAATAATTTAA
1 TA-TTAAAAATAATTTAA
*
81330162 AATTAAAAA
1 TATTAAAAA
81330171 AATAATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATTAAAAATAATTTAA
Found at i:81330163 original size:29 final size:29
Alignment explanation
Indices: 81330099--81330164 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
81330089 TAAAAAATTT
* * *
81330099 ATTTAAAA-ATTTTAAATGTTTAAATATT
1 ATTTAAAATATTTTAAATATTTAAAAATA
*
81330127 ATTAAAAATATATTT-AATATTTAAAAATA
1 ATTTAAAATAT-TTTAAATATTTAAAAATA
81330156 ATTTAAAAT
1 ATTTAAAAT
81330165 TAAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.23
29 21 0.68
30 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTAAAATATTTTAAATATTTAAAAATA
Found at i:81330183 original size:20 final size:19
Alignment explanation
Indices: 81330130--81330185 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
81330120 AAATATTATT
* *
81330130 AAAAATATATTTAATATT-T
1 AAAAATA-ATTTAAAATTAA
81330149 AAAAATAATTTAAAATTAA
1 AAAAATAATTTAAAATTAA
81330168 AAAAATAATTTCAAAATT
1 AAAAATAATTT-AAAATT
81330186 TTATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 9 0.27
19 18 0.55
20 6 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATAATTTAAAATTAA
Found at i:81330211 original size:35 final size:35
Alignment explanation
Indices: 81330149--81330305 Score: 114
Period size: 35 Copynumber: 4.7 Consensus size: 35
81330139 TTTAATATTT
81330149 AAAA-ATA-ATTTAAAA-TTAAAAAAATAATTTCA
1 AAAATATATATTTAAAATTTAAAAAAATAATTTCA
* * * *
81330181 AAATTTTATTTTTAAAATTTATAAAAATAATTTCA
1 AAAATATATATTTAAAATTTAAAAAAATAATTTCA
* * **
81330216 AAAATATATATTT-AAATTTAAATATAT-ATTTTT
1 AAAATATATATTTAAAATTTAAAAAAATAATTTCA
* *** * *
81330249 GAAAT-TAT-TTTATTTTGTTTAAAAAAT-ATTTTA
1 AAAATATATATTTAAAAT-TTAAAAAAATAATTTCA
*
81330282 AAAAAATATATTTAAAATTTAAAA
1 AAAATATATATTTAAAATTTAAAA
81330306 TTTATAAAAA
Statistics
Matches: 92, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
31 3 0.03
32 7 0.08
33 25 0.27
34 26 0.28
35 31 0.34
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (35 bp):
AAAATATATATTTAAAATTTAAAAAAATAATTTCA
Found at i:81330242 original size:20 final size:22
Alignment explanation
Indices: 81330209--81330254 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
81330199 TTATAAAAAT
81330209 AATTTCAAAAATATATATTT-A
1 AATTTCAAAAATATATATTTGA
* *
81330230 AATTT-AAATATATATTTTTGA
1 AATTTCAAAAATATATATTTGA
81330251 AATT
1 AATT
81330255 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTGA
Found at i:81330283 original size:12 final size:13
Alignment explanation
Indices: 81330266--81330335 Score: 70
Period size: 13 Copynumber: 5.2 Consensus size: 13
81330256 TTTTATTTTG
81330266 TTTAAAAAATAT-
1 TTTAAAAAATATA
81330278 TTTAAAAAAATATA
1 TTT-AAAAAATATA
** *
81330292 TTTAAAATTTAAAA
1 TTTAAAAAAT-ATA
*
81330306 TTTATAAAAATAAA
1 TTTA-AAAAATATA
81330320 TTTAAAAAATATA
1 TTTAAAAAATATA
81330333 TTT
1 TTT
81330336 TTAAAATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
12 3 0.06
13 25 0.52
14 16 0.33
15 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTAAAAAATATA
Found at i:81330295 original size:14 final size:14
Alignment explanation
Indices: 81330269--81330341 Score: 62
Period size: 14 Copynumber: 5.2 Consensus size: 14
81330259 TATTTTGTTT
81330269 AAAAAATAT-TTTA
1 AAAAAATATATTTA
81330282 AAAAAATATATTTA
1 AAAAAATATATTTA
*
81330296 AAATTTAA-A-ATTTA
1 AAA--AAATATATTTA
* *
81330310 TAAAAATAAATTTA
1 AAAAAATATATTTA
*
81330324 AAAAATATATTTTTA
1 AAAAA-ATATATTTA
81330339 AAA
1 AAA
81330342 TTTATAAGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
12 2 0.04
13 10 0.21
14 23 0.48
15 11 0.23
16 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAAATATATTTA
Found at i:81330303 original size:21 final size:21
Alignment explanation
Indices: 81330278--81330362 Score: 57
Period size: 21 Copynumber: 4.0 Consensus size: 21
81330268 TAAAAAATAT
81330278 TTTAAAAAAATATATTTAAAA
1 TTTAAAAAAATATATTTAAAA
** ***
81330299 TTT-AAAATTTATAAAAATAAA
1 TTTAAAAAAATATATTTA-AAA
*
81330320 TTTAAAAAATATATTTTTAAAA
1 TTTAAAAAA-ATATATTTAAAA
* *
81330342 TTTATAAGACATA-ATTTAAAA
1 TTTA-AAAAAATATATTTAAAA
81330363 ATATAATACT
Statistics
Matches: 46, Mismatches: 14, Indels: 8
0.68 0.21 0.12
Matches are distributed among these distances:
20 9 0.20
21 16 0.35
22 14 0.30
23 7 0.15
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
TTTAAAAAAATATATTTAAAA
Found at i:81330342 original size:43 final size:40
Alignment explanation
Indices: 81330266--81330345 Score: 115
Period size: 43 Copynumber: 1.9 Consensus size: 40
81330256 TTTTATTTTG
*
81330266 TTTAAAAAATATTTTAAAAAAATATATTTAAAATTTAAAA
1 TTTAAAAAATAATTTAAAAAAATATATTTAAAATTTAAAA
*
81330306 TTTATAAAAATAAATTTAAAAAATATATTTTTAAAATTTA
1 TTTA-AAAAAT-AATTTAAAAAA-ATATATTTAAAATTTA
81330346 TAAGACATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 4 0.11
41 6 0.17
42 10 0.29
43 15 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (40 bp):
TTTAAAAAATAATTTAAAAAAATATATTTAAAATTTAAAA
Found at i:81330398 original size:11 final size:12
Alignment explanation
Indices: 81330266--81330401 Score: 61
Period size: 13 Copynumber: 11.1 Consensus size: 12
81330256 TTTTATTTTG
*
81330266 TTTAAAAAATAT
1 TTTAAAAAATAA
81330278 TTTAAAAAAATATA
1 TTT-AAAAAATA-A
81330292 TTTAAAATTTAA-AA
1 TTTAAAA---AATAA
81330306 TTTATAAAAATAAA
1 TTTA-AAAAAT-AA
81330320 TTTAAAAAATATA
1 TTTAAAAAATA-A
**
81330333 TTTTTAAAAT--
1 TTTAAAAAATAA
* *
81330343 TTATAAGACATAA
1 TT-TAAAAAATAA
81330356 TTTAAAAATATAA
1 TTTAAAAA-ATAA
***
81330369 --TACTCAA-AA
1 TTTAAAAAATAA
81330378 TTTAAAAAATAA
1 TTTAAAAAATAA
81330390 TTT-AAAAATAA
1 TTTAAAAAATAA
81330401 T
1 T
81330402 ATTTAAAGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 33
0.66 0.11 0.23
Matches are distributed among these distances:
9 2 0.02
10 3 0.03
11 20 0.22
12 15 0.16
13 33 0.35
14 14 0.15
15 4 0.04
16 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (12 bp):
TTTAAAAAATAA
Found at i:81330489 original size:9 final size:9
Alignment explanation
Indices: 81330475--81330508 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
81330465 TTAATAACAA
81330475 AAAATAAAT
1 AAAATAAAT
81330484 AAAATAAAT
1 AAAATAAAT
81330493 AAACA-AAAT
1 AAA-ATAAAT
81330502 AAAATAA
1 AAAATAA
81330509 GAAAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:81330494 original size:13 final size:13
Alignment explanation
Indices: 81330461--81330504 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
81330451 TTAAATTTTT
*
81330461 TAAATTAATAACAA
1 TAAATAAATAA-AA
*
81330475 AAAATAAATAAAA
1 TAAATAAATAAAA
*
81330488 TAAATAAACAAAA
1 TAAATAAATAAAA
81330501 TAAA
1 TAAA
81330505 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:81330559 original size:18 final size:17
Alignment explanation
Indices: 81330480--81330577 Score: 60
Period size: 18 Copynumber: 5.5 Consensus size: 17
81330470 AACAAAAAAT
81330480 AAATAAAA-TAAATAAACA
1 AAATAAAATTAAAT-AA-A
81330498 AAATAAAA-TAAGA-AAA
1 AAATAAAATTAA-ATAAA
* *
81330514 AATTTAAAATTTAAAAAAA
1 AA-ATAAAA-TTAAATAAA
*
81330533 GAAAAAAAATTAAAGTAAA
1 -AAATAAAATTAAA-TAAA
81330552 AAATAAAAGTT-AATAAA
1 AAATAAAA-TTAAATAAA
81330569 AAAGTAAAA
1 AAA-TAAAA
81330578 AAAGTGAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
16 3 0.05
17 14 0.21
18 31 0.47
19 16 0.24
20 2 0.03
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAAATTAAATAAA
Found at i:81330559 original size:19 final size:18
Alignment explanation
Indices: 81330537--81330578 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
81330527 AAAAAAGAAA
81330537 AAAAATTAAAGTAAAAAA-T
1 AAAAATT-AA-TAAAAAAGT
*
81330556 AAAAGTTAATAAAAAAGT
1 AAAAATTAATAAAAAAGT
81330574 AAAAA
1 AAAAA
81330579 AAGTGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.35
18 7 0.35
19 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (18 bp):
AAAAATTAATAAAAAAGT
Found at i:81331054 original size:25 final size:24
Alignment explanation
Indices: 81331019--81331078 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
81331009 TAATTTCAAA
81331019 ATATATTTAAAAT-TTTAAAAAAT
1 ATATATTTAAAATATTTAAAAAAT
*
81331042 ATATATTAATAAAATATTT--CAAAT
1 ATATATT--TAAAATATTTAAAAAAT
*
81331066 ATATATTTCAAAT
1 ATATATTTAAAAT
81331079 TTTTTAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 5 0.16
23 7 0.22
24 11 0.34
25 6 0.19
26 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATATTTAAAATATTTAAAAAAT
Found at i:81331059 original size:34 final size:33
Alignment explanation
Indices: 81330978--81331065 Score: 108
Period size: 32 Copynumber: 2.7 Consensus size: 33
81330968 ATATTTTTAT
*
81330978 TATATTAAAAAATATTTAATATTTAAAAAAATA
1 TATATTAAAAAATATTTAAAATTTAAAAAAATA
* *
81331011 -AT-TTCAAAATATATTTAAAATTTTAAAAAATA
1 TATATT-AAAAAATATTTAAAATTTAAAAAAATA
*
81331043 TATATTAATAAAATATTTCAAAT
1 TATATTAA-AAAATATTTAAAAT
81331066 ATATATTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 2 0.04
32 26 0.57
33 4 0.09
34 14 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (33 bp):
TATATTAAAAAATATTTAAAATTTAAAAAAATA
Found at i:81331073 original size:47 final size:50
Alignment explanation
Indices: 81330956--81331081 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 50
81330946 TTTGAAAGAT
** *
81330956 TAAAATATTT-AAATAT-T-TTTATTATATTAAAAAATATTTAATATTTAA
1 TAAAATATTTCAAATATATATTTAAAATTTTAAAAAATA-TTAATATTTAA
*
81331004 AAAAATAATTTCAAA-ATATATTTAAAATTTTAAAAAATA-T-ATA-TTAA
1 TAAAAT-ATTTCAAATATATATTTAAAATTTTAAAAAATATTAATATTTAA
*
81331051 TAAAATATTTCAAATATATATTTCAAATTTT
1 TAAAATATTTCAAATATATATTTAAAATTTT
81331082 TTAAAGTTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
46 8 0.12
47 24 0.36
48 8 0.12
49 7 0.10
50 4 0.06
51 16 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (50 bp):
TAAAATATTTCAAATATATATTTAAAATTTTAAAAAATATTAATATTTAA
Found at i:81331129 original size:9 final size:9
Alignment explanation
Indices: 81331110--81331144 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
81331100 AATAAATAAA
81331110 TAAATAAAAG
1 TAAA-AAAAG
81331120 TAAAAAAAG
1 TAAAAAAAG
81331129 T-AAAAAAG
1 TAAAAAAAG
81331137 TAAAAAAA
1 TAAAAAAA
81331145 AAAGAAACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 12 0.50
10 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (9 bp):
TAAAAAAAG
Found at i:81333754 original size:17 final size:16
Alignment explanation
Indices: 81333730--81333763 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
81333720 TAATACCTTT
*
81333730 TTAAGTTTTTAATTAA
1 TTAAGTTTATAATTAA
81333746 TTAATGTTTATAATTAA
1 TTAA-GTTTATAATTAA
81333763 T
1 T
81333764 GAATATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAAGTTTATAATTAA
Found at i:81339252 original size:40 final size:40
Alignment explanation
Indices: 81339144--81339313 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
81339134 CGGGATTTAA
* * * * *
81339144 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
81339184 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81339224 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81339264 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81339304 CCGGATATAT
1 CCGGATATAT
81339314 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:81347343 original size:40 final size:40
Alignment explanation
Indices: 81347235--81347444 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
81347225 CGGGATTTAA
* * * * *
81347235 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
81347275 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81347315 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81347355 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81347395 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81347435 CCGGATATAT
1 CCGGATATAT
81347445 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:81349906 original size:16 final size:13
Alignment explanation
Indices: 81349873--81349898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81349863 TAGTTTACCA
81349873 AAATTATTATAAT
1 AAATTATTATAAT
81349886 AAATTATTATAAT
1 AAATTATTATAAT
81349899 TATGAATTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:81350913 original size:57 final size:57
Alignment explanation
Indices: 81350824--81350969 Score: 177
Period size: 57 Copynumber: 2.5 Consensus size: 57
81350814 GAAATGATGA
* *
81350824 AAAATGGAGAAATGAGAAA-CATTTGGAAATGATTACAGTTTTCTCCAAGATAAAAATG
1 AAAATGGAGAAAT-A-AAATCATTTCGAAATGATTACAGTTTTCTCCAAAATAAAAATG
** * *
81350882 AAAATGGAGAAATAAAATCATTTCGAAATGATTATGGTTTTCTTCAAAATGAAAATG
1 AAAATGGAGAAATAAAATCATTTCGAAATGATTACAGTTTTCTCCAAAATAAAAATG
* * * *
81350939 AAAATGAAGAAATGAAATAATTTTGAAATGA
1 AAAATGGAGAAATAAAATCATTTCGAAATGA
81350970 ATGTGGTTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
56 3 0.04
57 61 0.79
58 13 0.17
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (57 bp):
AAAATGGAGAAATAAAATCATTTCGAAATGATTACAGTTTTCTCCAAAATAAAAATG
Found at i:81350977 original size:57 final size:57
Alignment explanation
Indices: 81350861--81351002 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 57
81350851 AATGATTACA
* * * * * *
81350861 GTTTTCTCCAAGATAAAAATGAAAATGGAGAAATAAAATCATTTCGAAATGATTATG
1 GTTTTCTTCAAAATGAAAATGAAAATGAAGAAATAAAATAATTTCGAAATGAATATG
* * *
81350918 GTTTTCTTCAAAATGAAAATGAAAATGAAGAAATGAAATAATTTTGAAATGAATGTG
1 GTTTTCTTCAAAATGAAAATGAAAATGAAGAAATAAAATAATTTCGAAATGAATATG
* *
81350975 GTTTGCTTCAAAATGTAAATGAAAATGA
1 GTTTTCTTCAAAATGAAAATGAAAATGA
81351003 CTTGAAAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (57 bp):
GTTTTCTTCAAAATGAAAATGAAAATGAAGAAATAAAATAATTTCGAAATGAATATG
Found at i:81353434 original size:13 final size:13
Alignment explanation
Indices: 81353413--81353445 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
81353403 TTGAAAACTT
81353413 ATCCATCTATC-C
1 ATCCATCTATCAC
81353425 ATCACATCTATCAC
1 ATC-CATCTATCAC
81353439 ATCCATC
1 ATCCATC
81353446 ACATCCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 12 0.63
14 4 0.21
ACGTcount: A:0.30, C:0.39, G:0.00, T:0.30
Consensus pattern (13 bp):
ATCCATCTATCAC
Found at i:81353439 original size:9 final size:9
Alignment explanation
Indices: 81353421--81353454 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
81353411 TTATCCATCT
81353421 ATCCATCAC
1 ATCCATCAC
*
81353430 ATCTATCAC
1 ATCCATCAC
81353439 ATCCATCAC
1 ATCCATCAC
81353448 ATCCATC
1 ATCCATC
81353455 TGTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (9 bp):
ATCCATCAC
Found at i:81360092 original size:21 final size:21
Alignment explanation
Indices: 81360054--81360095 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
81360044 GTTTACTTTC
*
81360054 AATTAAAATTATAAATTAAAA
1 AATTAAAAATATAAATTAAAA
**
81360075 AATTAAAAATATCTATTAAAA
1 AATTAAAAATATAAATTAAAA
81360096 TTTATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTAAAAATATAAATTAAAA
Found at i:81368478 original size:50 final size:50
Alignment explanation
Indices: 81368417--81368589 Score: 175
Period size: 51 Copynumber: 3.4 Consensus size: 50
81368407 TTAGGCCACG
* * *
81368417 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGATCACA
* * * *
81368467 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTTAGATCACA
* * * ** *
81368518 TATGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTTGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGG-TTAGATCACA
* * * *
81368569 AGTGTGGTACTATGTGAAGGC
1 TGTGTAGTACTAAGTGCAGGC
81368590 CACTTCGTGA
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
50 36 0.36
51 65 0.64
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGATCACA
Found at i:81368544 original size:51 final size:50
Alignment explanation
Indices: 81368419--81368545 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 50
81368409 AGGCCACGTG
* * * * * *
81368419 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGCTTAGATCACATA
* *
81368469 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATA
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-GCTTAGATCACATA
* *
81368520 TGTGGTACTAAGTGCAGGCCACTATG
1 TGTAGTACTAAGTGCAGGCTACTATG
81368546 TGTAAGAGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 33 0.50
51 33 0.50
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGCTTAGATCACATA
Found at i:81368614 original size:51 final size:51
Alignment explanation
Indices: 81368468--81368643 Score: 146
Period size: 51 Copynumber: 3.5 Consensus size: 51
81368458 TAGGTCGCAT
* * * * *** *
81368468 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATA
1 GTGTGGTACTATGTGCAGGCCACTATGTGTAAGAGATAGCTTTGATCACA-A
* * *
81368520 -TGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTTGATCACAA
1 GTGTGGTACTATGTGCAGGCCACTATGTGTAAGAGATAGCTTTGATCACAA
* *
81368570 GTGTGGTACTATGTGAAGGCCACT-TCGTG-AAGAAGGTAGCTTTGA-CAACAAA
1 GTGTGGTACTATGTGCAGGCCACTAT-GTGTAAG-AGATAGCTTTGATC-AC-AA
*
81368622 G-GTGATACTATGTGCAGGCCAC
1 GTGTGGTACTATGTGCAGGCCAC
81368644 CGGGCATCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
50 6 0.06
51 94 0.91
52 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (51 bp):
GTGTGGTACTATGTGCAGGCCACTATGTGTAAGAGATAGCTTTGATCACAA
Found at i:81371992 original size:20 final size:19
Alignment explanation
Indices: 81371951--81371993 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
81371941 ATTAATTAAT
* **
81371951 TTTATAATTTATAAATCTA
1 TTTATAATTAATAAATAGA
81371970 TTTATTAATTAATAAATAGA
1 TTTA-TAATTAATAAATAGA
81371990 TTTA
1 TTTA
81371994 ACGCTAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTATAATTAATAAATAGA
Found at i:81372096 original size:17 final size:17
Alignment explanation
Indices: 81372047--81372098 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
81372037 TTTAATGGAA
*
81372047 AAAATTTAAAAAA-ATT
1 AAAAGTTAAAAAAGATT
*
81372063 AAAATTTAAAGAAAGATT
1 AAAAGTTAAA-AAAGATT
*
81372081 GAAAGTTAAAAAAGATT
1 AAAAGTTAAAAAAGATT
81372098 A
1 A
81372099 TTTAAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 10 0.32
17 10 0.32
18 11 0.35
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (17 bp):
AAAAGTTAAAAAAGATT
Found at i:81372628 original size:31 final size:31
Alignment explanation
Indices: 81372590--81372654 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
81372580 ACTTATTTTA
81372590 TTGTTAATTTTTATTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
*
81372621 TTGTTAATTTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
81372652 TTG
1 TTG
81372655 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:81374138 original size:22 final size:22
Alignment explanation
Indices: 81374091--81374145 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
81374081 TAATAACAAC
* * *
81374091 AAAATAGTAACAACATAATTGT
1 AAAATAGTAACAAAATAAGTGA
81374113 AAAATAGTAACAAAAT-AGTGA
1 AAAATAGTAACAAAATAAGTGA
*
81374134 AAAA-AATAACAA
1 AAAATAGTAACAA
81374146 GAAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 7 0.24
21 7 0.24
22 15 0.52
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAGTAACAAAATAAGTGA
Found at i:81374143 original size:20 final size:19
Alignment explanation
Indices: 81374120--81374180 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 19
81374110 TGTAAAATAG
81374120 TAACAAAATAGTGAAAAAAA
1 TAACAAAATAGT-AAAAAAA
*
81374140 TAACAAGAA-AATAATAAAAAA
1 TAACAA-AATAGT-A-AAAAAA
81374161 TAACAAGAAATAGTAAAAAA
1 TAAC-A-AAATAGTAAAAAA
81374181 GACAACATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 9 0.27
21 17 0.52
22 4 0.12
23 3 0.09
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.15
Consensus pattern (19 bp):
TAACAAAATAGTAAAAAAA
Found at i:81374150 original size:11 final size:11
Alignment explanation
Indices: 81374136--81374170 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
81374126 AATAGTGAAA
81374136 AAAATAACAAG
1 AAAATAACAAG
*
81374147 AAAATAATAA-
1 AAAATAACAAG
81374157 AAAATAACAAG
1 AAAATAACAAG
81374168 AAA
1 AAA
81374171 TAGTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (11 bp):
AAAATAACAAG
Found at i:81374160 original size:21 final size:20
Alignment explanation
Indices: 81374134--81374180 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
81374124 AAAATAGTGA
81374134 AAAAAATAACAAGAAAATAAT
1 AAAAAATAACAAG-AAATAAT
*
81374155 AAAAAATAACAAGAAATAGT
1 AAAAAATAACAAGAAATAAT
81374175 AAAAAA
1 AAAAAA
81374181 GACAACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (20 bp):
AAAAAATAACAAGAAATAAT
Found at i:81374162 original size:10 final size:10
Alignment explanation
Indices: 81374134--81374172 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
81374124 AAAATAGTGA
81374134 AAAAAATAAC
1 AAAAAATAAC
*
81374144 AAGAAAATAAT
1 AA-AAAATAAC
81374155 AAAAAATAAC
1 AAAAAATAAC
*
81374165 AAGAAATA
1 AAAAAATA
81374173 GTAAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (10 bp):
AAAAAATAAC
Found at i:81376502 original size:29 final size:28
Alignment explanation
Indices: 81376469--81376523 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
81376459 GTTTTGCCAA
*
81376469 AATCGGTCC-TTTCCAGTAAATAATACTGT
1 AATCGGCCCATTTCCA-TAAAT-ATACTGT
81376498 AATCGGCCCATTTCCATAAATATACT
1 AATCGGCCCATTTCCATAAATATACT
81376524 TGGAAATGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (28 bp):
AATCGGCCCATTTCCATAAATATACTGT
Found at i:81376720 original size:20 final size:20
Alignment explanation
Indices: 81376678--81376719 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
81376668 CGGAAAATGC
81376678 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
81376698 TTTCT-GAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
81376717 TTT
1 TTT
81376720 TTGGTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:81378090 original size:32 final size:32
Alignment explanation
Indices: 81378044--81378123 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
81378034 TGTCAATCAT
*
81378044 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
81378076 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
81378108 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
81378124 GTAAATTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:81383344 original size:23 final size:23
Alignment explanation
Indices: 81383318--81383389 Score: 144
Period size: 23 Copynumber: 3.1 Consensus size: 23
81383308 TTTTTTAATA
81383318 AATATTTTGAAGTTTTTTATTTT
1 AATATTTTGAAGTTTTTTATTTT
81383341 AATATTTTGAAGTTTTTTATTTT
1 AATATTTTGAAGTTTTTTATTTT
81383364 AATATTTTGAAGTTTTTTATTTT
1 AATATTTTGAAGTTTTTTATTTT
81383387 AAT
1 AAT
81383390 TCCCCTTCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (23 bp):
AATATTTTGAAGTTTTTTATTTT
Found at i:81384806 original size:37 final size:37
Alignment explanation
Indices: 81384756--81384830 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
81384746 GCAAAGAAAG
*
81384756 AAGAATATATTATTACTATACTGTCAAATTCCAATGC
1 AAGAATATATTATTAATATACTGTCAAATTCCAATGC
81384793 AAGAATATATTATTAATATACTGTCAAATTCCAATGC
1 AAGAATATATTATTAATATACTGTCAAATTCCAATGC
81384830 A
1 A
81384831 CTAATAGTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AAGAATATATTATTAATATACTGTCAAATTCCAATGC
Found at i:81385329 original size:52 final size:52
Alignment explanation
Indices: 81385268--81385369 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
81385258 CAAAGAACAA
* *
81385268 AAGGGTATTCAACAGTATCTAGGGAATTGCCAAAATTACCTGTTAAAAAGTG
1 AAGGATATTCAACAATATCTAGGGAATTGCCAAAATTACCTGTTAAAAAGTG
* *
81385320 AAGGATATTCAACAATATCTATGGAATTTCCAAAATTACCTGTTAAAAAG
1 AAGGATATTCAACAATATCTAGGGAATTGCCAAAATTACCTGTTAAAAAG
81385370 CGGACAAGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (52 bp):
AAGGATATTCAACAATATCTAGGGAATTGCCAAAATTACCTGTTAAAAAGTG
Found at i:81388355 original size:26 final size:26
Alignment explanation
Indices: 81388319--81388428 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
81388309 CATGAAATTC
*
81388319 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
81388345 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
81388371 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
81388397 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
81388423 TTATCA
1 TTATCA
81388429 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:81390153 original size:25 final size:25
Alignment explanation
Indices: 81390120--81390178 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
81390110 TTTGTTTTAA
* *
81390120 TATTTATTT-TTATGTTTTTAAATG
1 TATTTATTTATTATATTTTAAAATG
81390144 TATTTGATTTATTATATTTTAAAAT-
1 TATTT-ATTTATTATATTTTAAAATG
*
81390169 TTTTTATTTA
1 TATTTATTTA
81390179 ATAAAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 8 0.27
26 12 0.40
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (25 bp):
TATTTATTTATTATATTTTAAAATG
Found at i:81395543 original size:15 final size:15
Alignment explanation
Indices: 81395523--81395571 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
81395513 TAAACGTAAC
81395523 ATATCACATATGAAT
1 ATATCACATATGAAT
* *
81395538 ATATCATA-AT-AAC
1 ATATCACATATGAAT
*
81395551 CTATCACATATGAAT
1 ATATCACATATGAAT
81395566 ATATCA
1 ATATCA
81395572 TAATAACCTA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 8 0.31
14 4 0.15
15 14 0.54
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATCACATATGAAT
Found at i:81395555 original size:28 final size:28
Alignment explanation
Indices: 81395519--81395581 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
81395509 TACATAAACG
*
81395519 TAACATATCACATATGAATATATCATAA
1 TAACCTATCACATATGAATATATCATAA
81395547 TAACCTATCACATATGAATATATCATAA
1 TAACCTATCACATATGAATATATCATAA
81395575 TAACCTA
1 TAACCTA
81395582 CTTAATTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (28 bp):
TAACCTATCACATATGAATATATCATAA
Found at i:81409781 original size:24 final size:24
Alignment explanation
Indices: 81409749--81409795 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
81409739 CTGTCAGGAG
*
81409749 AGGATTTAGGAGCTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
81409773 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
81409796 GGAAATCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.21
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:81411664 original size:40 final size:40
Alignment explanation
Indices: 81411605--81411773 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
81411595 CGGGACTTTA
* * *
81411605 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
81411645 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
81411685 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
81411725 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
81411765 CCCGGATAT
1 CCCGGATAT
81411774 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:81419687 original size:40 final size:40
Alignment explanation
Indices: 81419628--81419796 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
81419618 CGGGACTTTA
* * *
81419628 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
81419668 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
81419708 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
81419748 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
81419788 CCCGGATAT
1 CCCGGATAT
81419797 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:81422424 original size:28 final size:28
Alignment explanation
Indices: 81422384--81422476 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
81422374 ATGTACTAGA
81422384 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
81422412 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
81422440 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
81422468 ATACCCCTA
1 ATACCCCTA
81422477 GGGTTAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:81422640 original size:27 final size:27
Alignment explanation
Indices: 81422582--81422671 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
81422572 AGGAAGCGTC
81422582 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
81422610 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
81422637 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
81422666 CTGGTG
1 CTGGTG
81422672 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:81422690 original size:55 final size:56
Alignment explanation
Indices: 81422582--81422696 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
81422572 AGGAAGCGTC
* *
81422582 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
81422637 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
81422693 CTGG
1 CTGG
81422697 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:81430267 original size:16 final size:16
Alignment explanation
Indices: 81430246--81430277 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81430236 AGAAGGTACC
81430246 TGATGCTAGGCTTTAA
1 TGATGCTAGGCTTTAA
*
81430262 TGATGCTCGGCTTTAA
1 TGATGCTAGGCTTTAA
81430278 CTTGTTGACA
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:0.22, C:0.16, G:0.25, T:0.38
Consensus pattern (16 bp):
TGATGCTAGGCTTTAA
Found at i:81434191 original size:21 final size:21
Alignment explanation
Indices: 81434166--81434207 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
81434156 ACCAAATTGT
*
81434166 AAAATTGTAAAATTTATGAAA
1 AAAATTCTAAAATTTATGAAA
* *
81434187 AAAATTCTAAATTTTGTGAAA
1 AAAATTCTAAAATTTATGAAA
81434208 TATATGGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (21 bp):
AAAATTCTAAAATTTATGAAA
Found at i:81434768 original size:24 final size:25
Alignment explanation
Indices: 81434736--81434795 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
81434726 ATAGCTCGGA
81434736 CGAGCATCCTGTTAAAAGACTT-TT-
1 CGAGCATCCTGTT-AAAGACTTCTTG
* *
81434760 CGAGCATCCTGTTATAGAGTTCTTG
1 CGAGCATCCTGTTAAAGACTTCTTG
81434785 CGAGCATCCTG
1 CGAGCATCCTG
81434796 ATCAGTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 11 0.34
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (25 bp):
CGAGCATCCTGTTAAAGACTTCTTG
Found at i:81435168 original size:25 final size:26
Alignment explanation
Indices: 81435139--81435187 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
81435129 TTTAGCCCGG
*
81435139 ATAAGC-TTCCTGTTACATGGCTCAT
1 ATAAGCATTCCTGATACATGGCTCAT
*
81435164 ATAAGCATTCCTGATATATGGCTC
1 ATAAGCATTCCTGATACATGGCTC
81435188 GAGAGAGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (26 bp):
ATAAGCATTCCTGATACATGGCTCAT
Found at i:81451076 original size:34 final size:34
Alignment explanation
Indices: 81451033--81451101 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
81451023 TGAAAGTCTG
* *
81451033 GCCAGAGGTTCTTAATAATGTTTATTGGCCTGTT
1 GCCAGAGGTTCTCAATAATGTTTATTAGCCTGTT
81451067 GCCAGAGGTTCTCAATAATGTTTATTAGCCTGTT
1 GCCAGAGGTTCTCAATAATGTTTATTAGCCTGTT
81451101 G
1 G
81451102 GTGATGTCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (34 bp):
GCCAGAGGTTCTCAATAATGTTTATTAGCCTGTT
Found at i:81451656 original size:23 final size:23
Alignment explanation
Indices: 81451630--81451673 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
81451620 GGAATCCTAT
81451630 ATATGAT-ATGTAAATCTTAGAAG
1 ATATGATCATGT-AATCTTAGAAG
*
81451653 ATATGATCCTGTAATCTTAGA
1 ATATGATCATGTAATCTTAGA
81451674 CATTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (23 bp):
ATATGATCATGTAATCTTAGAAG
Found at i:81455890 original size:30 final size:30
Alignment explanation
Indices: 81455856--81455916 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
81455846 TTCCCGAGCC
81455856 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
81455886 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
81455916 T
1 T
81455917 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:81460001 original size:27 final size:28
Alignment explanation
Indices: 81459945--81460014 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
81459935 AAATTTGTAC
81459945 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
81459973 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
81460000 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
81460015 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:81460025 original size:27 final size:27
Alignment explanation
Indices: 81459945--81460026 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
81459935 AAATTTGTAC
* *
81459945 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
81459973 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
81460000 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
81460027 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:81467787 original size:27 final size:28
Alignment explanation
Indices: 81467731--81467800 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
81467721 AAATTTGTAC
81467731 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
81467759 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
81467786 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
81467801 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:81467811 original size:27 final size:27
Alignment explanation
Indices: 81467731--81467812 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
81467721 AAATTTGTAC
* *
81467731 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
81467759 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
81467786 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
81467813 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:81475016 original size:27 final size:28
Alignment explanation
Indices: 81474960--81475029 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
81474950 AAATTTGTAC
81474960 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
81474988 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
81475015 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
81475030 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:81475040 original size:27 final size:27
Alignment explanation
Indices: 81474960--81475041 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
81474950 AAATTTGTAC
* *
81474960 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
81474988 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
81475015 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
81475042 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:81482790 original size:27 final size:28
Alignment explanation
Indices: 81482743--81482811 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
81482733 AAATTTGTAC
81482743 AGCA-TAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
81482770 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
81482797 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
81482812 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 28 0.70
28 12 0.30
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:81482822 original size:27 final size:27
Alignment explanation
Indices: 81482766--81482823 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
81482756 GAGTTTGATC
* * *
81482766 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
81482793 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
81482820 ATAT
1 ATAT
81482824 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:81484538 original size:608 final size:607
Alignment explanation
Indices: 81483385--81484603 Score: 2339
Period size: 608 Copynumber: 2.0 Consensus size: 607
81483375 TGGTCTAGGA
*
81483385 GTACATTTCGGCATGTATAGGCTGTTATGCTTTGTTGAAATTTGGTATGTAAACTTTTAGCCATG
1 GTACATTTCGGCATGTATAGGCTGTTATGCTTTGTCGAAATTTGGTATGTAAACTTTTAGCCATG
*
81483450 CGAAAATGGCATAAATGTTCGGTTGGAATTGGTTTTGTGATGTTTGGACACAAATCATGGTTATA
66 CGAAAATGGCATAAATGTTCGGTTAGAATTGGTTTTGTGATGTTTGGACACAAATCATGGTTATA
*
81483515 ATTTGGGACATGCATGATGAATTATTAGTTAAATTAAGGAAAGTCATGAAATAGGCATGGTTTGT
131 ATTTGGGACATGCATGATGAATTATTAGTTAAATTAAGGAAAGTCATGAAACAGGCATGGTTTGT
81483580 TTTAGTAATAGATGCTGACAGCAGCAGTGGTGTGGATGTGAAAAATCACTAAAAATAGCAGGAGT
196 TTTAGTAATAGATGCTGACAGCAGCAGTGGTGTGGATGTGAAAAATCACTAAAAATAGCAGGAGT
81483645 GGAATTAAATAGTGAATAAATTATTTAAATGAGCCTTGATGAATCTACTTTCATATGGAAGAAAC
261 GGAATTAAATAGTGAATAAATTATTTAAATGAGCCTTGATGAATCTACTTTCATATGGAAGAAAC
81483710 GAAACGGTCATATGAGTTGTATATTGAGAGATATTTAAGTATTCGTGAAACAGGGCCAGAACGGT
326 GAAACGGTCATATGAGTTGTATATTGAGAGATATTTAAGTATTCGTGAAACAGGGCCAGAACGGT
81483775 TTCTGGATTCCCTGTTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGAGTCAT
391 TTCTGGATTCCCTGTTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGAGTCAT
*
81483840 ACCATATATGTATAGATTCCTCTTTGAGTCTAGTTTCTATAGAAATAAACTACATCAGTATTGAA
456 ACCATATATGTATAGATTCCTCTTTGAGTCTAGTTTCTATAGAAATAAACGACATCAGTATTGAA
81483905 GCCCTGCACAGGGAGATATTCAAGTTGTAACGCACGAAGGTCAGTGTAGTCGACCCCTGTAACAT
521 GCCCTGCACAGGGAGATATTCAAGTTGTAACGCACGAAGGTCAGTGTAGTCGACCCCTGTAACAT
81483970 GGGAGACTTTAACTAACAAACT
586 GGGAGACTTTAACTAACAAACT
81483992 GTACATTTCGGCATGTATAGGCTGTTATGCTTTGTCGAAATTTGGTATGTAAACTTTTAGCCATG
1 GTACATTTCGGCATGTATAGGCTGTTATGCTTTGTCGAAATTTGGTATGTAAACTTTTAGCCATG
*
81484057 CGAAAATGGCGTAAATGTTCGGTTAGAATTGGTTTTGTGATGTTTGGACACAAATCATGGTTATA
66 CGAAAATGGCATAAATGTTCGGTTAGAATTGGTTTTGTGATGTTTGGACACAAATCATGGTTATA
81484122 ATTTGGGACATGCATGATGAATTATTAGTTAAATTAAGGGAAAGTCATGAAACAGGCATGGTTTG
131 ATTTGGGACATGCATGATGAATTATTAGTTAAATTAA-GGAAAGTCATGAAACAGGCATGGTTTG
*
81484187 TTTTAGTAATAGATGCTGACAGCAGCAGTGGTGTGGATGTGAAAAATCACTAAAAATATCAGGAG
195 TTTTAGTAATAGATGCTGACAGCAGCAGTGGTGTGGATGTGAAAAATCACTAAAAATAGCAGGAG
*
81484252 TGGAGTTAAATAGTGAATAAATTATTTAAATGAGCCTTGATGAATCTACTTTCATATGGAAGAAA
260 TGGAATTAAATAGTGAATAAATTATTTAAATGAGCCTTGATGAATCTACTTTCATATGGAAGAAA
81484317 CGAAACGGTCATATGAGTTGTATATTGAGAGATATTTAAGTATTCGTGAAACAGGGCCAGAACGG
325 CGAAACGGTCATATGAGTTGTATATTGAGAGATATTTAAGTATTCGTGAAACAGGGCCAGAACGG
81484382 TTTCTGGATTCCCTGTTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGAGTCA
390 TTTCTGGATTCCCTGTTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGAGTCA
81484447 TACCATATATGTATAGATTCCTCTTTGAGTCTAGTTTCTATAGAAATAAACGACATCAGTATTGA
455 TACCATATATGTATAGATTCCTCTTTGAGTCTAGTTTCTATAGAAATAAACGACATCAGTATTGA
* *
81484512 AGCCCTTCACAGGGAGATATTCAAGTTGTAATGCACGAAGGTCAGTGTAGTCGACCCCTGTAACA
520 AGCCCTGCACAGGGAGATATTCAAGTTGTAACGCACGAAGGTCAGTGTAGTCGACCCCTGTAACA
*
81484577 TGGGAGACTTTAACTAATAAACT
585 TGGGAGACTTTAACTAACAAACT
81484600 GTAC
1 GTAC
81484604 TAATTGGCTT
Statistics
Matches: 601, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
607 164 0.27
608 437 0.73
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (607 bp):
GTACATTTCGGCATGTATAGGCTGTTATGCTTTGTCGAAATTTGGTATGTAAACTTTTAGCCATG
CGAAAATGGCATAAATGTTCGGTTAGAATTGGTTTTGTGATGTTTGGACACAAATCATGGTTATA
ATTTGGGACATGCATGATGAATTATTAGTTAAATTAAGGAAAGTCATGAAACAGGCATGGTTTGT
TTTAGTAATAGATGCTGACAGCAGCAGTGGTGTGGATGTGAAAAATCACTAAAAATAGCAGGAGT
GGAATTAAATAGTGAATAAATTATTTAAATGAGCCTTGATGAATCTACTTTCATATGGAAGAAAC
GAAACGGTCATATGAGTTGTATATTGAGAGATATTTAAGTATTCGTGAAACAGGGCCAGAACGGT
TTCTGGATTCCCTGTTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGAGTCAT
ACCATATATGTATAGATTCCTCTTTGAGTCTAGTTTCTATAGAAATAAACGACATCAGTATTGAA
GCCCTGCACAGGGAGATATTCAAGTTGTAACGCACGAAGGTCAGTGTAGTCGACCCCTGTAACAT
GGGAGACTTTAACTAACAAACT
Found at i:81485270 original size:43 final size:43
Alignment explanation
Indices: 81485205--81485567 Score: 394
Period size: 43 Copynumber: 8.5 Consensus size: 43
81485195 GTAAAAAAAT
* * **
81485205 GCCGTTATAGAACATGACCTTTAGCGGCACTTTTTTTACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
** ** **
81485248 GCCATTATAGAACATGACCTTTAGCGGTTCTTTTTTTACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* *
81485291 GCCGCTATAGAAAATGACCTTTAGCGGCACTTTTTCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
*
81485334 GCCGCTATAGAACATGACCTTTAGCGG-GC-TTTGCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* * ** * *
81485375 GCCGCTAAAGAACATGATCTTTAGTTGTGCTTTTCCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* * *
81485418 GTCGCTAAAGAACATGACCTTTAGCGGCACTTTTTCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* * *
81485461 GCCGCTATAGAACA-GACCTTTAGTGGCGCTTTTGCTACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
* * * * *
81485503 ACCACTATAGAGCA-GACCTTTAACGGTGCTTTTAT-CACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTT-TCCACAAAC
* *
81485545 GCCGCTAAAGAACCTGACCTTTA
1 GCCGCTATAGAACATGACCTTTA
81485568 AAAAAATATT
Statistics
Matches: 272, Mismatches: 44, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
41 34 0.12
42 69 0.25
43 169 0.62
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTTCCACAAAC
Done.