Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 71 of 185
Found at i:22469162 original size:33 final size:33
Alignment explanation
Indices: 22469115--22469240 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 33
22469105 ATACGGTGGG
*
22469115 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
*
22469148 ATCAACACTTAGCAACC-CTCTTTATATTCAAAGATACGGTGGA
1 ATCAACACTTAGCAACCAC-C---A-A-T--GA-AT-CGG-GGA
* * *
22469191 ATCAGCACTTAGCAACCACCAATGAGTCGAGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
22469224 ATCAACACTTAGCAACC
1 ATCAACACTTAGCAACC
22469241 CCTTGGGGGA
Statistics
Matches: 74, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
32 1 0.01
33 36 0.49
34 2 0.03
35 1 0.01
36 2 0.03
37 1 0.01
38 2 0.03
39 1 0.01
40 2 0.03
41 2 0.03
42 3 0.04
43 20 0.27
44 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (33 bp):
ATCAACACTTAGCAACCACCAATGAATCGGGGA
Found at i:22469199 original size:76 final size:74
Alignment explanation
Indices: 22468963--22469244 Score: 360
Period size: 76 Copynumber: 3.8 Consensus size: 74
22468953 TAACCGTTAT
* * *
22468963 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGA-TCGGGGAATCAACACTTAGCAACCCCTTT-AC
22469028 ATTCAAAGATA
64 ATTCAAAGATA
* * * * *
22469039 TGGTGGAATCAGCAATTAGCAGCC-CC--T--TGGGGGAATCAACACTTAGCAACCCCCTTCACA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATCGGGGAATCAACACTTAGCAA-CCCCTTTACA
*
22469099 TTTAAA-ATA
65 TTCAAAGATA
* *
22469108 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCTCTTTAT
1 CGGTGGAATCAGCACTTAGCAACCACCAATG-ATCGGGGAATCAACACTTAGCAACCC-CTTTAC
22469173 ATTCAAAGATA
64 ATTCAAAGATA
*
22469184 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAACACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGA-TCGGGGAATCAACACTTAGCAACCCCTT
22469245 GGGGGAATCA
Statistics
Matches: 178, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
69 23 0.13
70 30 0.17
71 6 0.03
72 1 0.01
73 1 0.01
74 3 0.02
75 37 0.21
76 77 0.43
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (74 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATCGGGGAATCAACACTTAGCAACCCCTTTACAT
TCAAAGATA
Found at i:22469259 original size:27 final size:31
Alignment explanation
Indices: 22469188--22469269 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 31
22469178 AAGATACGGT
22469188 GGAATCAGCACTTAGCAACCACCAATGAGTCGA
1 GGAATCAGCACTTAGCAACC-CCAATGAG-CGA
* *
22469221 GGAATCAACACTTAGCAACCCC-TTG-G-G-
1 GGAATCAGCACTTAGCAACCCCAATGAGCGA
*
22469248 GGAATCAGCACTAAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
22469270 CTTTATATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 20 0.44
28 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 19 0.42
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.15
Consensus pattern (31 bp):
GGAATCAGCACTTAGCAACCCCAATGAGCGA
Found at i:22470483 original size:4 final size:4
Alignment explanation
Indices: 22470474--22470513 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
22470464 GGATATTAAA
22470474 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
22470514 TTGTGTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:22471003 original size:56 final size:56
Alignment explanation
Indices: 22470912--22471024 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
22470902 ACCAATATCG
22470912 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
1 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
*
22470968 TTCAATTATCAAATTAATTGTAAAAATACGTATGTAATTCAAAATGGAATAAAACA
1 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
22471024 T
1 T
22471025 ACATTTACGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.32
Consensus pattern (56 bp):
TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
Found at i:22481355 original size:43 final size:43
Alignment explanation
Indices: 22481294--22481431 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 43
22481284 AGTGATTAGG
*
22481294 GGAATCAGCGCTTAGCAACCCCTTTCACATTCAATGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
*
22481337 GGAATCGGCACTTAGCAA---C---CAC---CAATGA-ATCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATA-CGGT
* *
22481370 GGAATCAGCAGTTAGCAACCCCTTTCACATTTAA-GATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
*
22481412 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
22481432 ACCAATGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 25
0.70 0.06 0.23
Matches are distributed among these distances:
33 17 0.22
34 9 0.12
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
41 5 0.07
42 21 0.28
43 16 0.21
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
Found at i:22481375 original size:33 final size:33
Alignment explanation
Indices: 22481337--22481566 Score: 139
Period size: 33 Copynumber: 6.6 Consensus size: 33
22481327 ATGATACGGT
*
22481337 GGAATCGGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
22481370 GGAATCAGCAGTTAGCAACCCCTTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGA-AT-CGG
* **
22481411 TGGGATCAGCACTTAGCAACCACCAATGAATTAG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
*
22481445 GGAATCAGCACTTAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
22481472 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGAT
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CG-G
**
22481514 GGAATCAGCACTTAGCAACCACCAATGAATTAG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
22481547 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
22481567 CCTTGGGGGA
Statistics
Matches: 153, Mismatches: 20, Indels: 48
0.69 0.09 0.22
Matches are distributed among these distances:
27 20 0.13
28 2 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.01
33 58 0.38
34 1 0.01
35 5 0.03
36 6 0.04
37 1 0.01
38 2 0.01
39 6 0.04
40 3 0.02
41 7 0.05
42 37 0.24
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:22481385 original size:76 final size:75
Alignment explanation
Indices: 22481257--22481468 Score: 311
Period size: 76 Copynumber: 2.8 Consensus size: 75
22481247 TATCCGTTAT
* * *
22481257 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTAGGGGAATCAGC-GCTTAGCAACCCCTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCAG-TTAGCAACCCCTTTCA
22481321 CATTCAATGATA
65 CATTCAA-GATA
* *
22481333 CGGTGGAATCGGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCAGTTAGCAACCCCTTTCAC
*
22481398 ATTTAAGATA
66 ATTCAAGATA
* *
22481408 CGGTGGGATCAGCACTTAGCAACCACCAATGAATTA-GGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAA-TAGGGGAATCAGCAGTTAGCAACCCCTT
22481469 GGGGGAATCA
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
75 59 0.48
76 64 0.52
77 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCAGTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:22481489 original size:102 final size:102
Alignment explanation
Indices: 22481368--22481599 Score: 410
Period size: 102 Copynumber: 2.3 Consensus size: 102
22481358 CCAATGAATC
* * * *
22481368 GGGGAATCAGCAGTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
22481433 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
*
22481470 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
22481535 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
22481572 GGGGAATCAGCACTTAGCAAACCCCTTT
1 GGGGAATCAGCACTTAGC-AACCCCTTT
22481600 ATATTCATTG
Statistics
Matches: 123, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
102 115 0.93
103 8 0.07
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:22481576 original size:27 final size:28
Alignment explanation
Indices: 22481546--22481598 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
22481536 CAATGAATTA
22481546 GGGAATCAGCACTTAGC-AACCCCTTGG
1 GGGAATCAGCACTTAGCAAACCCCTTGG
22481573 GGGAATCAGCACTTAGCAAACCCCTT
1 GGGAATCAGCACTTAGCAAACCCCTT
22481599 TATATTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (28 bp):
GGGAATCAGCACTTAGCAAACCCCTTGG
Found at i:22490039 original size:412 final size:412
Alignment explanation
Indices: 22489270--22490093 Score: 1427
Period size: 412 Copynumber: 2.0 Consensus size: 412
22489260 CGTATTTAAC
22489270 CAAGTTATAAAATTTCATCTAAATAAAAACTTCCAAAATAATTAACATGCTTCTATAACTTTTCA
1 CAAGTTATAAAATTTCATCTAAATAAAAACTTCCAAAATAATTAACATGCTTCTATAACTTTTCA
22489335 CAATATATCCTCGAAATATTATAATCATAATAATTAGGGCCTACGAGACCCGTCACATACTCATG
66 CAATATATCCTCGAAATATTATAATCATAATAATTAGGGCCTACGAGACCCGTCACATACTCATG
*
22489400 CAATTCAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCACAATTTAGATCATA
131 CAATTCAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCACAATTTAAATCATA
* * * *
22489465 TCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGTCACTAAGTTTAACACTAATACGTAT
196 TCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACACTAAATTCAAAACTAATACGTAT
*
22489530 TTACCATTTAACTCAACGTTTATCGATTATACCATTCACTAACACATTTATGAAAGTCTCAATTT
261 TTACCATTTAACTCAACGTTTATCGATTATACCATTCAATAACACATTTATGAAAGTCTCAATTT
* * * *
22489595 TGCAATTAAGATATCACTTTAGCTTAAATAACAACATCATCCTGGTATAAATACACTACCACTTA
326 AGCAATGAAAATATCACTTTAGCTTAAATAACAACATCATCCTGATATAAATACACTACCACTTA
*
22489660 TCCAATTGCTTTAATTCTTTTG
391 TCCAATTACTTTAATTCTTTTG
22489682 CAAGTTATAAAATTTCATCTAAATAAAAACTTCCAAAATAATTAACATGCTTCTATAACTTTTCA
1 CAAGTTATAAAATTTCATCTAAATAAAAACTTCCAAAATAATTAACATGCTTCTATAACTTTTCA
*
22489747 CAATATATCCTCGAAATATTATAATCATAATAATTAGGGCCTGCGAGACCCGAT-ACATACTCAT
66 CAATATATCCTCGAAATATTATAATCATAATAATTAGGGCCTACGAGACCCG-TCACATACTCAT
* *
22489811 GCAATTTAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCATAATTTAAATCAT
130 GCAATTCAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCACAATTTAAATCAT
22489876 ATCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACA-TCAAATTCAAAACTAATACGT
195 ATCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACACT-AAATTCAAAACTAATACGT
* * *
22489940 ATTTACCATTTAACTCAATGTTTATTGATTATACCATTCAATAACACATTTATGAAATTCTCAAT
259 ATTTACCATTTAACTCAACGTTTATCGATTATACCATTCAATAACACATTTATGAAAGTCTCAAT
* * *
22490005 TTAGCAATGAAAATATCACTTTAGTTTGAATAACAACATCGTCCTGATATAAATACACTACCACT
324 TTAGCAATGAAAATATCACTTTAGCTTAAATAACAACATCATCCTGATATAAATACACTACCACT
*
22490070 TATCCATTTACTTTAATTCTTTTG
389 TATCCAATTACTTTAATTCTTTTG
22490094 GGCCCATTTG
Statistics
Matches: 389, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
411 1 0.00
412 387 0.99
413 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (412 bp):
CAAGTTATAAAATTTCATCTAAATAAAAACTTCCAAAATAATTAACATGCTTCTATAACTTTTCA
CAATATATCCTCGAAATATTATAATCATAATAATTAGGGCCTACGAGACCCGTCACATACTCATG
CAATTCAATGCTTCATTTCCATTTCATTCAATTCGCAATTTCTCATGCTCACAATTTAAATCATA
TCACTAGCAATTTCCATTTAATTCACGTACAATTCAATGACACTAAATTCAAAACTAATACGTAT
TTACCATTTAACTCAACGTTTATCGATTATACCATTCAATAACACATTTATGAAAGTCTCAATTT
AGCAATGAAAATATCACTTTAGCTTAAATAACAACATCATCCTGATATAAATACACTACCACTTA
TCCAATTACTTTAATTCTTTTG
Found at i:22490261 original size:37 final size:37
Alignment explanation
Indices: 22490200--22490345 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
22490190 TACGTATGAT
* *
22490200 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
22490235 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22490272 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
22490309 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22490346 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:22490362 original size:46 final size:46
Alignment explanation
Indices: 22490309--22490577 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
22490299 TAAGTGTAGC
* **
22490309 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
22490355 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
22490401 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
22490453 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
22490499 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
22490551 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
22490578 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:22490428 original size:52 final size:52
Alignment explanation
Indices: 22490352--22490571 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
22490342 TAGCTAAAGC
* *
22490352 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
22490405 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
22490457 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
22490503 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
22490555 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
22490572 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:22490474 original size:98 final size:98
Alignment explanation
Indices: 22490309--22490577 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
22490299 TAAGTGTAGC
* * *
22490309 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
22490374 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
22490408 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
22490473 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
22490506 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
22490571 GATCAGA
66 GATCAGA
22490578 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:22497022 original size:49 final size:49
Alignment explanation
Indices: 22496877--22497041 Score: 145
Period size: 49 Copynumber: 3.2 Consensus size: 49
22496867 GAGATCGCAT
** *
22496877 GTAAGACCATGTCTGGGACATGAAATTGGCATCATTGAGATTATGAGAGGTCCCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-C--T-A-A-TATGAGAGGTCCCA
* *
22496932 TGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGGTCTCCCA
1 -GTAAGACCATGTCTGGGACATGGCATGGGCACTAATATGAGAGG--TCCCA
* * **
22496984 -TAAGACCATGTC-GGGACATGGCATGGGTACTGATATGAGAACTCCCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCACTAATATGAGAGGTCCCA
22497031 TGTAAGACCAT
1 -GTAAGACCAT
22497042 ATCTTGTAAC
Statistics
Matches: 96, Mismatches: 9, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
47 5 0.05
49 33 0.34
50 20 0.21
51 1 0.01
52 6 0.06
53 1 0.01
55 1 0.01
56 29 0.30
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACTAATATGAGAGGTCCCA
Found at i:22498311 original size:46 final size:44
Alignment explanation
Indices: 22498252--22498366 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
22498242 ACAGGACAGA
* *
22498252 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
22498298 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
22498342 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
22498367 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:22498347 original size:44 final size:45
Alignment explanation
Indices: 22498252--22498385 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
22498242 ACAGGACAGA
* *
22498252 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
22498298 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
22498342 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
22498386 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:22505747 original size:44 final size:45
Alignment explanation
Indices: 22505657--22505785 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
22505647 ACAGAGCAGA
*
22505657 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
22505703 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
22505747 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
22505786 CAGGGGATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:22508661 original size:19 final size:20
Alignment explanation
Indices: 22508618--22508670 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
22508608 TGCCTCTTTT
22508618 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCA-TCATCA
*
22508638 -CCATTACATTTCATCAT-A
1 TGCATTACATTTCATCATCA
*
22508656 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
22508671 AAAAAGACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (20 bp):
TGCATTACATTTCATCATCA
Found at i:22515295 original size:9 final size:9
Alignment explanation
Indices: 22515281--22515311 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22515271 GTTAAACGAA
22515281 TCGAGTTAT
1 TCGAGTTAT
*
22515290 TCGAGTTAA
1 TCGAGTTAT
22515299 TCGAGTTAT
1 TCGAGTTAT
22515308 TCGA
1 TCGA
22515312 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22515381 original size:9 final size:9
Alignment explanation
Indices: 22515364--22515400 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22515354 TGAGTTTTCG
22515364 AATTCGAAT
1 AATTCGAAT
*
22515373 AACTCGAAT
1 AATTCGAAT
22515382 AATTCGAAT
1 AATTCGAAT
22515391 AATTCGAAT
1 AATTCGAAT
22515400 A
1 A
22515401 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22517972 original size:90 final size:89
Alignment explanation
Indices: 22517829--22518183 Score: 325
Period size: 90 Copynumber: 3.9 Consensus size: 89
22517819 AATTCCTATA
* * * *
22517829 CCCCTTAAGTTATAGTGGGTTGGGTTGAACTTACTATAGCGAATCTTATCTCCCTGATGTTGCAG
1 CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
22517894 TGGAGCAA-ATTGAAGCTATAAAATC
66 TAGAGCAAGA-TGAAGCTA-AAAATC
*
22517919 CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
22517984 TAGAGCAA-ATTGAAGCTACAAACCTTATT
66 TAGAGCAAGA-TGAAGCTA-AAA----ATC
* ** * *
22518013 TCCCTGAAGTTGTAGTGGAG-CAGATTGAAGC-TAC---A---AATCTTATTTCCCTAAAGTTGC
1 CCCCTGAAGTTGTAGTGG-GTTGGATTGAA-CTTACTATAGCGAATCTTATCTCCCTGAAGTTGC
* * *
22518070 AGTAAAGCAAGATAAAGCTACAAATC
64 AGTAGAGCAAGATGAAGCTAAAAATC
* * * *
22518096 CTATACTCCTAAAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCCCTGAAAT
1 C----C-CCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGT
*
22518161 TGCAGTGGAGCAAGATGAAGCTA
61 TGCAGTAGAGCAAGATGAAGCTA
22518184 CAACTCCTAT
Statistics
Matches: 216, Mismatches: 29, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
83 2 0.01
87 4 0.02
88 60 0.28
89 1 0.00
90 80 0.37
91 2 0.01
94 65 0.30
95 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGTTGCAG
TAGAGCAAGATGAAGCTAAAAATC
Found at i:22518176 original size:94 final size:94
Alignment explanation
Indices: 22517817--22518223 Score: 375
Period size: 94 Copynumber: 4.4 Consensus size: 94
22517807 TAGTAAAACC
* * * * *
22517817 ACAATTCCTATACCCCTTAAGTTATAGTGGGTTGGGTTGAACTTACTATAGCGAATCTTATCTCC
1 ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
** *
22517882 CTGATGTTGCAGTGGAGCAAATTGAAGCT
66 CTGAAATTGCAGTAGAGCAAATTGAAGCT
* *
22517911 ATAAAATCC----C-CCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGTGAATCTTATCTC
1 A-CAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTC
*
22517971 CCTGAAGTTGCAGTAGAGCAAATTGAAGCT
65 CCTGAAATTGCAGTAGAGCAAATTGAAGCT
* **
22518001 ACAAA-CCT-TATTTCCCTGAAGTTGTAGTGGAG-CAGATTGAAGC-TAC---A---AATCTTAT
1 ACAAATCCTATA-CT-CCTGAAGTTGTAGTGG-GTTGGATTGAA-CTTACTATAGCGAATCTTAT
* * *
22518056 TTCCCT-AAAGTTGCAGTAAAGCAAGA-TAAAGCT
62 CTCCCTGAAA-TTGCAGTAGAGCAA-ATTGAAGCT
* * *
22518089 ACAAATCCTATACTCCTAAAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCC
1 ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
*
22518154 CTGAAATTGCAGTGGAGCAAGA-TGAAGCT
66 CTGAAATTGCAGTAGAGCAA-ATTGAAGCT
* * * *
22518183 ACAACTCCTATA-TCCCTGAAGTTGCAGTGGATCGGATTGAA
1 ACAAATCCTATACT-CCTGAAGTTGTAGTGGGTTGGATTGAA
22518224 ACTACAATTC
Statistics
Matches: 260, Mismatches: 30, Indels: 46
0.77 0.09 0.14
Matches are distributed among these distances:
87 3 0.01
88 63 0.24
89 8 0.03
90 77 0.30
91 3 0.01
93 1 0.00
94 95 0.37
95 10 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (94 bp):
ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
CTGAAATTGCAGTAGAGCAAATTGAAGCT
Found at i:22518229 original size:44 final size:44
Alignment explanation
Indices: 22517960--22518256 Score: 203
Period size: 44 Copynumber: 6.6 Consensus size: 44
22517950 TACTATAGTG
* * * * *
22517960 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
* * *
22518004 AA-CCTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
1 AATCC-TATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
* * * **
22518048 AATCTTATTTCCCTAAAGTTGCAGTAAAGCAAGA-T-AAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGC-AGATTGAAA-CTACA
* ** *
22518092 AATCCTATA-CTCCTAAAGTTGCAGTGG-GTTGGATTGAATTTACTATAGCG
1 AATCCTATATC-CCTGAAGTTGCAGTGGAG-CAGATTGAA---AC--TA-CA
* * * *
22518142 AATCTTATCTCCCTGAAATTGCAGTGGAGCAAGA-TGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGC-AGATTGAAACTACA
* * *
22518186 ACTCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAAACTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
*
22518230 ATTCCTATA-CCTCTGAAGTTGCAGTGG
1 AATCCTATATCC-CTGAAGTTGCAGTGG
22518257 GTTAGAATGA
Statistics
Matches: 200, Mismatches: 34, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
43 11 0.05
44 146 0.73
45 8 0.04
47 2 0.01
48 1 0.00
49 2 0.01
50 26 0.13
51 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
Found at i:22518251 original size:182 final size:182
Alignment explanation
Indices: 22517925--22518254 Score: 477
Period size: 182 Copynumber: 1.8 Consensus size: 182
22517915 AATCCCCCTG
* * *
22517925 AAGTTGTAGTGGGTTGGATTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
1 AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTAGAGC
* * * * *
22517990 AAATTGAAGCTACAAACCTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTA
66 AAATTGAAGCTACAAACCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCCTA
*
22518055 TTTCCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
131 TTACCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
* *
22518107 AAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGC
1 AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTAGAGC
* * *
22518172 AAGA-TGAAGCTAC-AACTCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAAACTACAATTCC
66 AA-ATTGAAGCTACAAAC-CCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCC
*
22518235 TA-TACCTCTGAAGTTGCAGT
129 TATTACC-CTAAAGTTGCAGT
22518255 GGGTTAGAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
181 6 0.05
182 123 0.95
183 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (182 bp):
AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTAGAGC
AAATTGAAGCTACAAACCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCCTA
TTACCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
Found at i:22520430 original size:26 final size:26
Alignment explanation
Indices: 22520368--22520440 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
22520358 GGTCTCGACA
* * *
22520368 CAATTCACATAACCATTTCATGTAAT
1 CAATTCATATAACCATTTCATATAAC
* *
22520394 C-ATTCCCTATAACCATTTCGTATAAC
1 CAATT-CATATAACCATTTCATATAAC
* *
22520420 CAATTCATATAATCGTTTCAT
1 CAATTCATATAACCATTTCAT
22520441 CTAAACGTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
25 3 0.08
26 30 0.83
27 3 0.08
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (26 bp):
CAATTCATATAACCATTTCATATAAC
Found at i:22522297 original size:207 final size:207
Alignment explanation
Indices: 22521942--22522359 Score: 764
Period size: 207 Copynumber: 2.0 Consensus size: 207
22521932 TTTGGAAGAA
*
22521942 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACATAATTA
1 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
*
22522007 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGTCTAAAACCGTCCACTACTA
66 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
22522072 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
131 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
22522137 TTCAATCTTTAC
196 TTCAATCTTTAC
22522149 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
1 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
*
22522214 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAATCGTCCACTACTA
66 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
* * *
22522279 ACCATGATGGTTTAATTACCATTCTAGTCCTTAAATTTTCCTTTTTAACTAATAAAGCTATCTTT
131 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
**
22522344 TTTTATCTTTAC
196 TTCAATCTTTAC
22522356 GATT
1 GATT
22522360 AGTCCTTTTT
Statistics
Matches: 203, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 203 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (207 bp):
GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
TTCAATCTTTAC
Found at i:22523819 original size:19 final size:21
Alignment explanation
Indices: 22523795--22523844 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
22523785 CAGCATCTGT
22523795 ATGTATA-TC-ATTCCGAGAA
1 ATGTATATTCTATTCCGAGAA
22523814 ATGTATAAAATTCTATTCCGAGAA
1 ATGTAT---ATTCTATTCCGAGAA
22523838 ATGTATA
1 ATGTATA
22523845 AAATTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.23
21 1 0.04
22 1 0.04
23 2 0.08
24 16 0.62
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGTATATTCTATTCCGAGAA
Found at i:22523832 original size:24 final size:24
Alignment explanation
Indices: 22523804--22523849 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
22523794 TATGTATATC
22523804 ATTCCGAGAAATGTATAAAATTCT
1 ATTCCGAGAAATGTATAAAATTCT
22523828 ATTCCGAGAAATGTATAAAATT
1 ATTCCGAGAAATGTATAAAATT
22523850 TTATCTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (24 bp):
ATTCCGAGAAATGTATAAAATTCT
Found at i:22526236 original size:42 final size:42
Alignment explanation
Indices: 22526173--22526254 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
22526163 TGTTAAAAAA
*
22526173 ATTATGTATCAAAATAGTACATCCAAAGAGGT-AGAAGGTGAG
1 ATTATGTATCAAAATAATACATCCAAAGAGGTGA-AAGGTGAG
22526215 ATTATGTA-CTAAAATAATACATCCAAAGAGGTGAAAGGTG
1 ATTATGTATC-AAAATAATACATCCAAAGAGGTGAAAGGTG
22526255 GTACAAATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 1 0.03
42 35 0.95
43 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (42 bp):
ATTATGTATCAAAATAATACATCCAAAGAGGTGAAAGGTGAG
Found at i:22535112 original size:24 final size:24
Alignment explanation
Indices: 22535084--22535135 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
22535074 TTAGTAAGTC
*
22535084 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
22535108 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
22535132 AAAT
1 AAAT
22535136 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:22537081 original size:24 final size:24
Alignment explanation
Indices: 22537054--22537105 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
22537044 TTAGTAAGTC
*
22537054 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
22537078 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
22537102 AAAT
1 AAAT
22537106 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:22551783 original size:15 final size:15
Alignment explanation
Indices: 22551751--22551806 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
22551741 AATTCAGTAT
* **
22551751 TTAAGTTTTCAATGC
1 TTAATTTTTCAACAC
22551766 TTAATTTTTCAACAC
1 TTAATTTTTCAACAC
* * *
22551781 TTATTTTTTCAGCAT
1 TTAATTTTTCAACAC
22551796 TTAATTTTTCA
1 TTAATTTTTCA
22551807 GTTTATCAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (15 bp):
TTAATTTTTCAACAC
Found at i:22551807 original size:15 final size:15
Alignment explanation
Indices: 22551765--22551807 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
22551755 GTTTTCAATG
*
22551765 CTTAATTTTTCAACA
1 CTTAATTTTTCAGCA
*
22551780 CTTATTTTTTCAGCA
1 CTTAATTTTTCAGCA
*
22551795 TTTAATTTTTCAG
1 CTTAATTTTTCAG
22551808 TTTATCAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (15 bp):
CTTAATTTTTCAGCA
Found at i:22552477 original size:30 final size:30
Alignment explanation
Indices: 22552436--22552506 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
22552426 TTTTCAGGAT
*
22552436 CCACACAGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTGGACACATGCCCGTGTGAG
22552466 CCACACGGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTGGACACATGCCCGTGTGAG
22552496 CCACACGGGCT
1 CCACACGGGCT
22552507 AGCCAGATGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.21, C:0.35, G:0.31, T:0.13
Consensus pattern (30 bp):
CCACACGGGCTGGACACATGCCCGTGTGAG
Found at i:22552517 original size:30 final size:30
Alignment explanation
Indices: 22552436--22552523 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
22552426 TTTTCAGGAT
* *
22552436 CCACACAGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTAGACACATGCCCGTGTGAG
*
22552466 CCACACGGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTAGACACATGCCCGTGTGAG
* * *
22552496 CCACACGGGCTAGCCAGATGCCCATGTG
1 CCACACGGGCTAGACACATGCCCGTGTG
22552524 CTAGCCCGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.22, C:0.34, G:0.31, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTAGACACATGCCCGTGTGAG
Found at i:22554771 original size:23 final size:25
Alignment explanation
Indices: 22554743--22554801 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
22554733 TTTTCTTTAT
22554743 TTTATTTATTATTTGT--TATAT-TA
1 TTTATTTATTATTTGTACTA-ATCTA
22554766 TTTATTT-TTA-TTGTACTAATCTA
1 TTTATTTATTATTTGTACTAATCTA
22554789 TTT-TTTATTATTT
1 TTTATTTATTATTT
22554802 TATTACTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 17 0.55
24 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTATTTATTATTTGTACTAATCTA
Found at i:22554952 original size:12 final size:11
Alignment explanation
Indices: 22554921--22554951 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
22554911 ATTAAGTTTA
22554921 TTTCTTTTCTT
1 TTTCTTTTCTT
22554932 TTTCGTTTTCTT
1 TTTC-TTTTCTT
22554944 TTTCTTTT
1 TTTCTTTT
22554952 TATCTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:22575005 original size:44 final size:44
Alignment explanation
Indices: 22574951--22575046 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
22574941 TTGAAGTCAC
* * *
22574951 AGTGGGGCAGACTGAGGAAG-TATATCTTATCTCCCTGAGGTACT
1 AGTGGAGCAGACTGAAGAAGATA-ATCCTATCTCCCTGAGGTACT
* ** **
22574995 AGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAGGTTGT
1 AGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAGGTACT
22575039 AGTGGAGC
1 AGTGGAGC
22575047 GGGTTAACGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAGGTACT
Found at i:22590683 original size:48 final size:47
Alignment explanation
Indices: 22590626--22590720 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 47
22590616 AAGAATCATT
22590626 GACTACTCTTTCCCCTCCCTCAAGATTTAGGGTTTAATTATGTAGCC
1 GACTACTCTTTCCCCTCCCTCAAGATTTAGGGTTTAATTATGTAGCC
* *
22590673 NGACTTCTCTTTCCCCTCCCTCATGATTTAGGGTTTAATTATGTAGCC
1 -GACTACTCTTTCCCCTCCCTCAAGATTTAGGGTTTAATTATGTAGCC
22590721 TTTGAAAAGT
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:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (47 bp):
GACTACTCTTTCCCCTCCCTCAAGATTTAGGGTTTAATTATGTAGCC
Found at i:22594211 original size:18 final size:18
Alignment explanation
Indices: 22594188--22594236 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
22594178 TATACCTATA
22594188 TATATGTGTATGTATATG
1 TATATGTGTATGTATATG
*
22594206 TATATGTATATGTATATG
1 TATATGTGTATGTATATG
22594224 TATATGTGTATGT
1 TATATGTGTATGT
22594237 GTGTGCGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (18 bp):
TATATGTGTATGTATATG
Found at i:22594238 original size:6 final size:6
Alignment explanation
Indices: 22594188--22594236 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
22594178 TATACCTATA
* *
22594188 TATATG TGTATG TATATG TATATG TATATG TATATG TATATG TGTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
22594236 T
1 T
22594237 GTGTGCGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:22595709 original size:32 final size:31
Alignment explanation
Indices: 22595664--22595734 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
22595654 AGTTACAAAA
***
22595664 TGGTCACCCAATTATTTTAGTTTTTCTTTTT
1 TGGTCACCCAATTATACGAGTTTTTCTTTTT
* *
22595695 TGAGTCACCTAATTATACGATTTTTTCTTTTT
1 TG-GTCACCCAATTATACGAGTTTTTCTTTTT
22595727 TGGTCACC
1 TGGTCACC
22595735 AACTATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (31 bp):
TGGTCACCCAATTATACGAGTTTTTCTTTTT
Found at i:22601563 original size:23 final size:24
Alignment explanation
Indices: 22601515--22601563 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
22601505 TTTGGGTATG
*
22601515 GAACTATAGGCATGTGATGTATTC
1 GAACTATAGGCATGTGATATATTC
*
22601539 GAAC-ATAGGTATGT-ATATATGTC
1 GAACTATAGGCATGTGATATAT-TC
22601562 GA
1 GA
22601564 TAAAGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (24 bp):
GAACTATAGGCATGTGATATATTC
Found at i:22601639 original size:14 final size:14
Alignment explanation
Indices: 22601620--22601646 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22601610 ATGTTCGAAT
22601620 AGATATATATATAA
1 AGATATATATATAA
22601634 AGATATATATATA
1 AGATATATATATA
22601647 TTTATGTATC
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:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
AGATATATATATAA
Found at i:22602285 original size:41 final size:41
Alignment explanation
Indices: 22602222--22602371 Score: 228
Period size: 41 Copynumber: 3.6 Consensus size: 41
22602212 GACTATACGT
* *
22602222 CTAGCAGGCTAAGTACCTGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
22602263 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * *
22602304 CTAGCAGGCTAAGTGCCAGTGATCTGAATTAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
22602345 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
22602372 TTAAATTAAG
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 94 0.95
42 5 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:22608469 original size:19 final size:18
Alignment explanation
Indices: 22608439--22608492 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
22608429 TTGAATCAAA
*
22608439 TTTTAAAATTTTAATAAGT
1 TTTTAAATTTTTAATAA-T
*
22608458 TTTTAAATTTTTTATTAAT
1 TTTTAAA-TTTTTAATAAT
*
22608477 TTTACAAATTTTTAAT
1 TTT-TAAATTTTTAAT
22608493 TGTTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTAAATTTTTAATAAT
Found at i:22610493 original size:9 final size:9
Alignment explanation
Indices: 22610476--22610512 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22610466 TGAGTTTTCG
22610476 AATTCGAAT
1 AATTCGAAT
*
22610485 AACTCGAAT
1 AATTCGAAT
22610494 AATTCGAAT
1 AATTCGAAT
22610503 AATTCGAAT
1 AATTCGAAT
22610512 A
1 A
22610513 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22610931 original size:20 final size:20
Alignment explanation
Indices: 22610892--22610931 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22610882 TTATTCCCCA
* * *
22610892 AAACTTTTTCTTTTCCCCCT
1 AAACTTTTACTTCTCACCCT
22610912 AAACTTTTACTTCTCACCCT
1 AAACTTTTACTTCTCACCCT
22610932 TTACTCTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTACTTCTCACCCT
Found at i:22613538 original size:4 final size:4
Alignment explanation
Indices: 22613529--22613568 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
22613519 TGGCATGTCA
22613529 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
22613569 CCATATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:22625625 original size:133 final size:132
Alignment explanation
Indices: 22625384--22626209 Score: 1199
Period size: 133 Copynumber: 6.2 Consensus size: 132
22625374 CATGTTTCAC
* *
22625384 AGATAACAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
22625448 CATACTGGTGGCGAAGTATATCGAATAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAA-AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
22625513 CGA
130 CGA
* * * *
22625516 AGATAGCAGATCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATGTAGATCTTGCCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
*
22625581 CATACTGGTGGCGAAGTAGATCGGAAAAAACAGATCTTGGCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATC-GAAAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
22625646 CGA
130 CGA
* * **
22625649 AGATGGCAAATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * * *
22625714 CATATTGATGGAGAAGTAGATC-AAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGA
66 CATACTGGTGGCGAAGTAGATCGAAA-AAA-CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
22625778 TCGA
129 TCGA
*
22625782 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * * *
22625847 CATATTGATGGAGAAGTAGATC-AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGA
66 CATACTGGTGGCGAAGTAGATCGAAA-AAA-CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
22625911 TCGA
129 TCGA
* * * * *
22625915 AGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAAGTTGTAAATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
22625980 CATACTGGTGGCGAAGTAGATTGGAAAAAACAGATCTTGACTTCATGTATTGGCCTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGA-TCGAAAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
22626045 CGA
130 CGA
* *
22626048 AGATAGCAGATTCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* ** *
22626113 CATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTGGAT
66 CATACTGGTGGCGAAGTAGATCGAA-AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
22626178 CGA
130 CGA
* * *
22626181 AAATAACAGATCCTGTCTTCTTATATTGG
1 AGATAGCAGATCCTGTCTTCCTATATTGG
22626210 CAGTGAGGCA
Statistics
Matches: 626, Mismatches: 61, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.00
132 36 0.06
133 577 0.92
134 7 0.01
135 3 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (132 bp):
AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
GA
Found at i:22626154 original size:399 final size:398
Alignment explanation
Indices: 22625384--22626209 Score: 1375
Period size: 399 Copynumber: 2.1 Consensus size: 398
22625374 CATGTTTCAC
*
22625384 AGATAACAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
* * * * * *
22625449 ATACTGGTGGCGAAGTATATCGAATAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
66 ATACTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATC
* *
22625514 GAAGATAGCAGATCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATGTAGATCTTGCCTT
131 GAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAATATGTAAATCTTGCCTT
* *
22625579 CCCATACTGGTGGCGAAGTAGATCGGAAAAAACAGATCTTGGCTTCATGTATTGGCGTGAAGTAG
196 CCCATACTGGTGGCGAAGTAGATCGGAAAAAACAGATCTTGACTTCATGTATTGGCCTGAAGTAG
* *
22625644 ATCGAAGATGGCAAATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
261 ATCGAAGATAGCAAATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGT
22625709 CTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAG
326 CTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAG
22625774 TAGATCGA
391 TAGATCGA
22625782 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
22625847 CATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGAT
65 CATACTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGAT
*
22625912 CGAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAAGT-TGTAAATCTTGTC
130 CGAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAA-TATGTAAATCTTGCC
*
22625976 TTCCCATACTGGTGGCGAAGTAGATTGGAAAAAACAGATCTTGACTTCATGTATTGGCCTGAAGT
194 TTCCCATACTGGTGGCGAAGTAGATCGGAAAAAACAGATCTTGACTTCATGTATTGGCCTGAAGT
* **
22626041 AGATCGAAGATAGCAGATTCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTT
259 AGATCGAAGATAGCAAATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTT
* * * * *
22626106 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGA
324 GTCTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGA
*
22626171 AGTGGATCGA
389 AGTAGATCGA
* *
22626181 AAATAACAGATCCTGTCTTCTTATATTGG
1 AGATAACAGATCCTGTCTTCCTATATTGG
22626210 CAGTGAGGCA
Statistics
Matches: 398, Mismatches: 28, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
398 31 0.08
399 366 0.92
400 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (398 bp):
AGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
ATACTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATC
GAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAATATGTAAATCTTGCCTT
CCCATACTGGTGGCGAAGTAGATCGGAAAAAACAGATCTTGACTTCATGTATTGGCCTGAAGTAG
ATCGAAGATAGCAAATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGT
CTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAG
TAGATCGA
Found at i:22636852 original size:20 final size:18
Alignment explanation
Indices: 22636805--22636853 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
22636795 ACAAGATAAA
22636805 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
22636822 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
22636842 ATTAAATTAATA
1 ATTAAATTAATA
22636854 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:22636899 original size:37 final size:37
Alignment explanation
Indices: 22636803--22636908 Score: 96
Period size: 37 Copynumber: 2.9 Consensus size: 37
22636793 CAACAAGATA
*
22636803 AAATTAAATTAA-ATTTAA-TATTAAGATAATCACTTT
1 AAATTAAATTAATATTAAACTATTAAGATAATCAC-TT
*
22636839 AATATTAAATTAATA-AAATACTATTAAGATAAGT-A-TT
1 AA-ATTAAATTAATATTAA-ACTATTAAGATAA-TCACTT
* *
22636876 AAATTAAATTTAATATTAAACTATCAAAATAAT
1 AAATTAAA-TTAATATTAAACTATTAAGATAAT
22636909 AATATTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
36 9 0.16
37 32 0.55
38 4 0.07
39 12 0.21
40 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.39
Consensus pattern (37 bp):
AAATTAAATTAATATTAAACTATTAAGATAATCACTT
Found at i:22638511 original size:16 final size:16
Alignment explanation
Indices: 22638490--22638520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22638480 CTATACATGC
*
22638490 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
22638506 AAAATACAAAAGACA
1 AAAATACAAAAGACA
22638521 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:22641311 original size:20 final size:19
Alignment explanation
Indices: 22641271--22641325 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
22641261 TAAAAAATGC
*
22641271 ATAATAAAATAAAAGATATAA
1 ATAA-AAAATAAAA-AAATAA
*
22641292 ATCCAAAAATAAAAAAATAA
1 AT-AAAAAATAAAAAAATAA
22641312 ATAAAAAATAAAAA
1 ATAAAAAATAAAAA
22641326 TAGGGCTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 11 0.37
20 7 0.23
21 11 0.37
22 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (19 bp):
ATAAAAAATAAAAAAATAA
Found at i:22641551 original size:13 final size:14
Alignment explanation
Indices: 22641526--22641554 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22641516 TTTAAATAAC
22641526 AATAAAGTAAAATA
1 AATAAAGTAAAATA
22641540 AATAAA-TAAAATA
1 AATAAAGTAAAATA
22641553 AA
1 AA
22641555 AACACTCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAGTAAAATA
Found at i:22641968 original size:20 final size:21
Alignment explanation
Indices: 22641945--22641996 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
22641935 AAATGCAATA
22641945 ATTAAATTAAAA-ACAAAAA-T
1 ATTAAATTAAAATA-AAAAATT
22641965 ATTAAAATTAAAATAAAAAATT
1 ATT-AAATTAAAATAAAAAATT
*
22641987 GTTAAATTAA
1 ATTAAATTAA
22641997 TAGAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
ATTAAATTAAAATAAAAAATT
Found at i:22645152 original size:23 final size:23
Alignment explanation
Indices: 22645113--22645157 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22645103 AATTTAACTT
22645113 AAAAAATAAAAACT-AAATTAAC
1 AAAAAATAAAAACTAAAATTAAC
* *
22645135 AAAAATATAAATATTAAAATTAA
1 AAAAA-ATAAAAACTAAAATTAA
22645158 ATTTATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 7 0.37
24 7 0.37
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAAAATAAAAACTAAAATTAAC
Found at i:22646006 original size:26 final size:26
Alignment explanation
Indices: 22645946--22646006 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
22645936 GTTAAGTTAT
22645946 TATTATGACTATTCCTCTGTATGTCAA
1 TATT-TGACTATTCCTCTGTATGTCAA
*
22645973 -ATAATGACTATTCCTCTGTATGTCAA
1 TAT-TTGACTATTCCTCTGTATGTCAA
22645999 TATTTGAC
1 TATTTGAC
22646007 ATACATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (26 bp):
TATTTGACTATTCCTCTGTATGTCAA
Found at i:22649635 original size:18 final size:18
Alignment explanation
Indices: 22649612--22649663 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
22649602 ATTTTATATG
*
22649612 AAAATCCCAGAATGATTT
1 AAAATCCCAGAAGGATTT
22649630 AAAATCCCAGAAGGATTT
1 AAAATCCCAGAAGGATTT
*
22649648 AAAATCCCTGAAGGAT
1 AAAATCCCAGAAGGAT
22649664 ATAGAGCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (18 bp):
AAAATCCCAGAAGGATTT
Found at i:22670683 original size:11 final size:11
Alignment explanation
Indices: 22670667--22670765 Score: 60
Period size: 11 Copynumber: 9.9 Consensus size: 11
22670657 TAAAAATATT
22670667 TATTTTAAAAA
1 TATTTTAAAAA
22670678 TATTTT--AAA
1 TATTTTAAAAA
22670687 -A--TTAAAAA
1 TATTTTAAAAA
* *
22670695 -A-ATTAAAAG
1 TATTTTAAAAA
22670704 TATTTTAAAAA
1 TATTTTAAAAA
22670715 TATTTT--AAA
1 TATTTTAAAAA
22670724 -A-TTTAAAAA
1 TATTTTAAAAA
*
22670733 -ATTTAAAAAAA
1 TATTT-TAAAAA
*
22670744 TTATTTTAAAAG
1 -TATTTTAAAAA
22670756 TATTTTAAAA
1 TATTTTAAAA
22670766 TTTAAAAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 6 0.08
9 16 0.23
10 3 0.04
11 33 0.46
12 4 0.06
13 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:22670731 original size:29 final size:30
Alignment explanation
Indices: 22670692--22670781 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 30
22670682 TTAAAATTAA
* *
22670692 AAAAATTAAAAGTATTT-TAAAAA-TATTTT
1 AAAAATTAAAA-AATTTAAAAAAATTATTTT
*
22670721 AAAATTTAAAAAATTTAAAAAAATTATTTT
1 AAAAATTAAAAAATTTAAAAAAATTATTTT
**
22670751 AAAAGTATTTTAAAATTTAAAAAAAATTATT
1 AAAA--ATTAAAAAATTT-AAAAAAATTATT
22670782 GTATTCCGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
28 4 0.08
29 15 0.30
30 10 0.20
32 9 0.18
33 12 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (30 bp):
AAAAATTAAAAAATTTAAAAAAATTATTTT
Found at i:22670761 original size:41 final size:41
Alignment explanation
Indices: 22670634--22670775 Score: 175
Period size: 41 Copynumber: 3.5 Consensus size: 41
22670624 ACCAAAAATT
* * *
22670634 TATTTTAAAAATTAAAACAAAAATAAAAATATTTATTTTAAAAA
1 TATTTT-AAAATTTAAA-AAAATTAAAAA-AATTATTTTAAAAA
*
22670678 TATTTTAAAA-TTAAAAAAATT---AAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAATTATTTTAAAAA
* *
22670715 TATTTTAAAATTTAAAAAATTTAAAAAAATTATTTTAAAAG
1 TATTTTAAAATTTAAAAAAATTAAAAAAATTATTTTAAAAA
22670756 TATTTTAAAATTTAAAAAAA
1 TATTTTAAAATTTAAAAAAA
22670776 ATTATTGTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
37 22 0.26
38 12 0.14
41 38 0.44
42 4 0.05
43 4 0.05
44 6 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (41 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAATTATTTTAAAAA
Found at i:22676605 original size:18 final size:18
Alignment explanation
Indices: 22676582--22676622 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22676572 ATGTGTATCA
*
22676582 ATAAATA-ATTTAAAAATT
1 ATAAATATA-TTAAAAAAT
22676600 ATAAATATATTAAAAAAT
1 ATAAATATATTAAAAAAT
22676618 ATAAA
1 ATAAA
22676623 ATACTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAATATATTAAAAAAT
Found at i:22694507 original size:16 final size:16
Alignment explanation
Indices: 22694486--22694517 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22694476 GAGAAAAGGA
22694486 ACCTTAAGAAATTAGC
1 ACCTTAAGAAATTAGC
22694502 ACCTTAAGAAATTAGC
1 ACCTTAAGAAATTAGC
22694518 CTCGCGCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
ACCTTAAGAAATTAGC
Found at i:22699490 original size:21 final size:21
Alignment explanation
Indices: 22699451--22699491 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22699441 ATTCCTAAGA
**
22699451 TATGAATTGCATTGTATTGAG
1 TATGAATTGCATTAAATTGAG
*
22699472 TATGAATTGTATTAAATTGA
1 TATGAATTGCATTAAATTGA
22699492 TGTTAAATCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (21 bp):
TATGAATTGCATTAAATTGAG
Found at i:22700045 original size:25 final size:26
Alignment explanation
Indices: 22699938--22700040 Score: 106
Period size: 26 Copynumber: 4.0 Consensus size: 26
22699928 ACAGCTCTTA
*
22699938 TGAGCGTCTCGA-TATATGGCTCTTCG
1 TGAGCTTCTCGATTA-ATGGCTCTTCG
* * * *
22699964 TGAGTTTCTCGATTAAAGGTTCTTTG
1 TGAGCTTCTCGATTAATGGCTCTTCG
22699990 TGAGCTTC-CTGATTAATGGCTC-TC-
1 TGAGCTTCTC-GATTAATGGCTCTTCG
22700014 TGGAGCTTCTCGATTAATGGCTCTTCG
1 T-GAGCTTCTCGATTAATGGCTCTTCG
22700041 AAGCTACCCG
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
24 1 0.02
25 21 0.34
26 38 0.61
27 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (26 bp):
TGAGCTTCTCGATTAATGGCTCTTCG
Found at i:22705156 original size:16 final size:16
Alignment explanation
Indices: 22705122--22705171 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
22705112 ATGACATCAG
22705122 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
22705138 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
22705154 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
22705170 TC
1 TC
22705172 CTGAGTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:22705413 original size:40 final size:41
Alignment explanation
Indices: 22705364--22705467 Score: 138
Period size: 41 Copynumber: 2.6 Consensus size: 41
22705354 ACCAATTTGG
* * *
22705364 CACCTAGTGTCTCATCGGATAATTC-GAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGGATAAATCTGAAGCAGTAAATTGA
**
22705404 CACCCAGTGTCTCATCAAATAAATCTGAAGCAGTAAATTGA
1 CACCCAGTGTCTCATCGGATAAATCTGAAGCAGTAAATTGA
* *
22705445 CAGCCAGTGTCTCATCGGTTAAA
1 CACCCAGTGTCTCATCGGATAAA
22705468 CAGAAGTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 21 0.39
41 33 0.61
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (41 bp):
CACCCAGTGTCTCATCGGATAAATCTGAAGCAGTAAATTGA
Found at i:22706385 original size:4 final size:4
Alignment explanation
Indices: 22706368--22706453 Score: 70
Period size: 4 Copynumber: 20.8 Consensus size: 4
22706358 ACCCTAGCCT
* *
22706368 TTTC TTTC -TCC TTTC TTTC TTTC TTTTT TTTC TTTTC TTTC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC -TTTC TTTC -TTTC TTTC
*
22706418 TTTCC TTTC -TT- TTTC ATTTTG TTTC TTTC TTTC TTT
1 TTT-C TTTC TTTC TTTC --TTTC TTTC TTTC TTTC TTT
22706454 ATTCGTTTAC
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
3 6 0.09
4 43 0.64
5 15 0.22
6 3 0.04
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:22706401 original size:9 final size:9
Alignment explanation
Indices: 22706368--22706453 Score: 88
Period size: 9 Copynumber: 9.3 Consensus size: 9
22706358 ACCCTAGCCT
22706368 TTTCTTTCTCC
1 TTTCTTT-T-C
22706379 TTTC-TTTC
1 TTTCTTTTC
*
22706387 TTTCTTTTT
1 TTTCTTTTC
22706396 TTTCTTTTC
1 TTTCTTTTC
22706405 TTTCTTTTC
1 TTTCTTTTC
*
22706414 TTTCTTTCC
1 TTTCTTTTC
22706423 TTTCTTTTTC
1 TTTC-TTTTC
22706433 ATTT-TGTTTC
1 -TTTCT-TTTC
22706443 TTTC-TTTC
1 TTTCTTTTC
22706451 TTT
1 TTT
22706454 ATTCGTTTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
8 12 0.18
9 37 0.56
10 10 0.15
11 7 0.11
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:22706447 original size:42 final size:42
Alignment explanation
Indices: 22706366--22706453 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
22706356 AAACCCTAGC
*
22706366 CTTTTCTTTCTCCTTTCTTTCTTTCTTTTTTTTCTTTTCTTT
1 CTTTTCTTTCTCCTTTCTTTCTTTCTTTTGTTTCTTTTCTTT
22706408 CTTTTCTTTCTTTCCTTTC-TT-TTTCATTTTGTTTC-TTTCTTT
1 CTTTTCTTTC--TCCTTTCTTTCTTTC-TTTTGTTTCTTTTCTTT
22706450 CTTT
1 CTTT
22706454 ATTCGTTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
42 25 0.60
43 10 0.24
44 7 0.17
ACGTcount: A:0.01, C:0.23, G:0.01, T:0.75
Consensus pattern (42 bp):
CTTTTCTTTCTCCTTTCTTTCTTTCTTTTGTTTCTTTTCTTT
Found at i:22711177 original size:39 final size:40
Alignment explanation
Indices: 22711123--22711201 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
22711113 CACTAAAGAT
* * *
22711123 TGAGCATTAGTGGCGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
22711162 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
22711202 CCTTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
Found at i:22711302 original size:41 final size:40
Alignment explanation
Indices: 22711237--22711352 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
22711227 AACATTTCGT
*
22711237 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
22711278 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
22711319 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
22711353 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:22711594 original size:22 final size:22
Alignment explanation
Indices: 22711569--22711643 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
22711559 GAGTTACTGT
22711569 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
22711591 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
22711613 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
22711633 TTTAAGGTTTA
1 TTTAAGGTTTA
22711644 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:22711615 original size:14 final size:15
Alignment explanation
Indices: 22711585--22711625 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
22711575 GTTTATGGAG
22711585 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
22711600 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
22711614 TATGG-TTTAAGG
1 TATGGATTTAAGG
22711626 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:22711664 original size:22 final size:22
Alignment explanation
Indices: 22711638--22711700 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
22711628 TGAGATTTAA
*
22711638 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
22711660 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
22711682 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
22711701 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:22711752 original size:12 final size:12
Alignment explanation
Indices: 22711731--22711773 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
22711721 TGGGTTTAGA
22711731 TTAA-TTATTTT
1 TTAATTTATTTT
22711742 TTAATTTATTTT
1 TTAATTTATTTT
* *
22711754 TAAATAT-TTTT
1 TTAATTTATTTT
22711765 TTAATTTAT
1 TTAATTTAT
22711774 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:22711768 original size:23 final size:24
Alignment explanation
Indices: 22711730--22711783 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
22711720 TTGGGTTTAG
*
22711730 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
22711752 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
22711776 ATTAAATA
1 ATTAAATA
22711784 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:22712005 original size:21 final size:21
Alignment explanation
Indices: 22711981--22712021 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22711971 GATTTAAGGT
22711981 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
22712002 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
22712022 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:22712030 original size:21 final size:20
Alignment explanation
Indices: 22711978--22712031 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
22711968 TAGGATTTAA
22711978 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
22711999 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
22712020 GGATTTAGGGTT
1 GG-TTTAGGGTT
22712032 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:22716693 original size:42 final size:43
Alignment explanation
Indices: 22716575--22716819 Score: 314
Period size: 43 Copynumber: 5.7 Consensus size: 43
22716565 ATGGCACTTT
** * * * *
22716575 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* *** *
22716618 TAGCGGCGTTTATAAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
22716661 TAGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
22716703 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
*
22716746 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCT-
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
*
22716788 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
22716820 TTAGCGACGC
Statistics
Matches: 182, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
42 69 0.38
43 113 0.62
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:22716700 original size:85 final size:85
Alignment explanation
Indices: 22716575--22716819 Score: 314
Period size: 85 Copynumber: 2.9 Consensus size: 85
22716565 ATGGCACTTT
* * * * * ***
22716575 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
1 TAGCGGCGTTTGTG-AAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
22716640 GCCGCTAAAGG-TCTTGATCTA
65 GCCGCTAAAGGTTC-TGATCTA
* * *
22716661 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
*
22716726 TCGCTAAAGGTTCTGATCTA
66 CCGCTAAAGGTTCTGATCTA
* * *
22716746 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCT-TAGCGGCATTTGTGGGAAAAGC
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
22716810 GCCGCTAAAG
65 GCCGCTAAAG
22716820 TTAGCGACGC
Statistics
Matches: 139, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 98 0.71
86 41 0.29
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (85 bp):
TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
CCGCTAAAGGTTCTGATCTA
Found at i:22717769 original size:19 final size:19
Alignment explanation
Indices: 22717741--22717782 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
22717731 TAATGGACTT
22717741 TATAGGATAA-TTTATTGG
1 TATAGGATAATTTTATTGG
22717759 TATAGGGATAATTTTTATTGG
1 TATA-GGATAA-TTTTATTGG
22717780 TAT
1 TAT
22717783 TTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
21 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (19 bp):
TATAGGATAATTTTATTGG
Found at i:22718172 original size:5 final size:5
Alignment explanation
Indices: 22718162--22718187 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22718152 CTACATTGTA
22718162 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
22718188 AAGTCTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:22720339 original size:49 final size:49
Alignment explanation
Indices: 22720282--22720386 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 49
22720272 TCATGCGTTA
* * * *
22720282 TAATTTTATACAGTGTTGA-GTTTGTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTT-TGATTCATGATATTAAACTCAATTT
*
22720331 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
22720380 TAATTTT
1 TAATTTT
22720387 TTTTTTCTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 47 0.94
50 3 0.06
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:22726568 original size:110 final size:117
Alignment explanation
Indices: 22726449--22726714 Score: 336
Period size: 122 Copynumber: 2.3 Consensus size: 117
22726439 AATAAAGTAG
*
22726449 ATTA-TAAATTATAATTTAATAATAATTA-GTTAAATTATATTTTATATTATTATATATTATGA-
1 ATTATTAAATTATAATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
22726511 TT-TTAGTAAATTCATA-TAAGAATA-A-GA-ATTTTATTAAATTATATATT
66 TTATTAGTAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATT
* *
22726558 ATTATTAAATTAT-ATTTAATAATAATTATTTTAAATTATATTTTATAGTGTTATATATTATGAT
1 ATTATTAAATTATAATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA-
22726622 TTTATTAGTAAATTCATATTTAAGAATATTTATTAATCATTTTATTAAATTATATATT
65 TTTATTAGTAAATTCATA-TTAAGAATA--TA-TAA-CATTTTATTAAATTATATATT
* * * *
22726680 TTTATTAAATTAT-ATTTTAGAACAATTATGTTAAA
1 ATTATTAAATTATAATTTAATAATAATTATGTTAAA
22726715 ATATGATTAA
Statistics
Matches: 134, Mismatches: 9, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
109 19 0.14
110 39 0.29
112 2 0.01
113 14 0.10
115 8 0.06
118 1 0.01
120 1 0.01
122 50 0.37
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (117 bp):
ATTATTAAATTATAATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
TTATTAGTAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATT
Found at i:22726591 original size:26 final size:28
Alignment explanation
Indices: 22726537--22726600 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
22726527 TAAGAATAAG
* * *
22726537 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
22726565 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
22726591 AATTATATTT
1 AATTATATTT
22726601 TATAGTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:22726886 original size:39 final size:41
Alignment explanation
Indices: 22726841--22726946 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
22726831 TTTCCTTATG
* *
22726841 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
22726881 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
22726926 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
22726947 ACACCTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:22726921 original size:44 final size:46
Alignment explanation
Indices: 22726858--22726949 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
22726848 ACCTCTATTC
*
22726858 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
22726902 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
22726948 CA
1 CA
22726950 CCTCTATTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.42
45 4 0.09
46 22 0.49
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:22726953 original size:16 final size:16
Alignment explanation
Indices: 22726928--22726965 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
22726918 AGAATTACCT
*
22726928 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
22726944 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
22726960 ATTACA
1 ATTACA
22726966 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:22727910 original size:9 final size:9
Alignment explanation
Indices: 22727896--22727926 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22727886 GTTAAACGAA
22727896 TCGAGTTAT
1 TCGAGTTAT
*
22727905 TCGAGTTAA
1 TCGAGTTAT
22727914 TCGAGTTAT
1 TCGAGTTAT
22727923 TCGA
1 TCGA
22727927 ATCAACTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22728964 original size:10 final size:10
Alignment explanation
Indices: 22728929--22728996 Score: 50
Period size: 10 Copynumber: 7.0 Consensus size: 10
22728919 ATATATGTAA
*
22728929 GTATGTATAT
1 GTATATATAT
* *
22728939 ATATACATAT
1 GTATATATAT
*
22728949 ATATATATAT
1 GTATATATAT
*
22728959 GTATATAAAT
1 GTATATATAT
**
22728969 -TA-GCATAT
1 GTATATATAT
22728977 GTATATATAT
1 GTATATATAT
*
22728987 GTATGTATAT
1 GTATATATAT
22728997 AAAACTTATG
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
8 3 0.07
9 4 0.09
10 37 0.84
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (10 bp):
GTATATATAT
Found at i:22731381 original size:29 final size:29
Alignment explanation
Indices: 22731335--22731390 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
22731325 TGTGACTTGT
*
22731335 TTTAATAGTACAAGGACTAAATTGATTCA
1 TTTAATAGTACAAAGACTAAATTGATTCA
* * *
22731364 TTTAGTAGTAGAAAGACTAATTTGATT
1 TTTAATAGTACAAAGACTAAATTGATT
22731391 AGGTCCATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (29 bp):
TTTAATAGTACAAAGACTAAATTGATTCA
Found at i:22731557 original size:18 final size:18
Alignment explanation
Indices: 22731534--22731570 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22731524 GGGAGAAGTT
22731534 AGAAAAATTGTTTAGGAG
1 AGAAAAATTGTTTAGGAG
22731552 AGAAAAATTGTTTAGGAG
1 AGAAAAATTGTTTAGGAG
22731570 A
1 A
22731571 ATCGAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (18 bp):
AGAAAAATTGTTTAGGAG
Found at i:22733911 original size:208 final size:208
Alignment explanation
Indices: 22733553--22733969 Score: 834
Period size: 208 Copynumber: 2.0 Consensus size: 208
22733543 CGAAGTATCC
22733553 TTGAACACTTCCAATTCTATGGCATGCCAACTATATCCGACTCAACCTGACTAGTTAATAGGGTA
1 TTGAACACTTCCAATTCTATGGCATGCCAACTATATCCGACTCAACCTGACTAGTTAATAGGGTA
22733618 TTCAACTCATTTTTTTATTATTTCAAATTCACTTTCGATTCAATCACAATTCATTTCAAATTCAC
66 TTCAACTCATTTTTTTATTATTTCAAATTCACTTTCGATTCAATCACAATTCATTTCAAATTCAC
22733683 TTTTCATTTTTTAATCAATATATAATTCAATACCAATACATTTTTCCACTTTCCAATCAATGTAC
131 TTTTCATTTTTTAATCAATATATAATTCAATACCAATACATTTTTCCACTTTCCAATCAATGTAC
22733748 CATCAAATGCTCA
196 CATCAAATGCTCA
22733761 TTGAACACTTCCAATTCTATGGCATGCCAACTATATCCGACTCAACCTGACTAGTTAATAGGGTA
1 TTGAACACTTCCAATTCTATGGCATGCCAACTATATCCGACTCAACCTGACTAGTTAATAGGGTA
22733826 TTCAACTCATTTTTTTATTATTTCAAATTCACTTTCGATTCAATCACAATTCATTTCAAATTCAC
66 TTCAACTCATTTTTTTATTATTTCAAATTCACTTTCGATTCAATCACAATTCATTTCAAATTCAC
22733891 TTTTCATTTTTTAATCAATATATAATTCAATACCAATACATTTTTCCACTTTCCAATCAATGTAC
131 TTTTCATTTTTTAATCAATATATAATTCAATACCAATACATTTTTCCACTTTCCAATCAATGTAC
22733956 CATCAAATGCTCA
196 CATCAAATGCTCA
22733969 T
1 T
22733970 ATATATTCAT
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 209 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (208 bp):
TTGAACACTTCCAATTCTATGGCATGCCAACTATATCCGACTCAACCTGACTAGTTAATAGGGTA
TTCAACTCATTTTTTTATTATTTCAAATTCACTTTCGATTCAATCACAATTCATTTCAAATTCAC
TTTTCATTTTTTAATCAATATATAATTCAATACCAATACATTTTTCCACTTTCCAATCAATGTAC
CATCAAATGCTCA
Found at i:22734934 original size:8 final size:8
Alignment explanation
Indices: 22734921--22734951 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
22734911 GTTTTATTAT
22734921 TATAATAA
1 TATAATAA
*
22734929 TATAATAT
1 TATAATAA
22734937 TATAATAA
1 TATAATAA
22734945 TATAATA
1 TATAATA
22734952 TAACAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATAATAA
Found at i:22734939 original size:16 final size:16
Alignment explanation
Indices: 22734918--22734952 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22734908 CTTGTTTTAT
22734918 TATTATAATAATATAA
1 TATTATAATAATATAA
22734934 TATTATAATAATATAA
1 TATTATAATAATATAA
22734950 TAT
1 TAT
22734953 AACAATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATAATAATATAA
Found at i:22734953 original size:13 final size:15
Alignment explanation
Indices: 22734918--22734961 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
22734908 CTTGTTTTAT
22734918 TATTATAATAATATAA
1 TATTATAATAATAT-A
22734934 TATTATAATAATATA
1 TATTATAATAATATA
*
22734949 -A-TATAACAATATA
1 TATTATAATAATATA
22734962 CTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.41
14 1 0.04
15 1 0.04
16 14 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTATAATAATATA
Found at i:22742066 original size:21 final size:21
Alignment explanation
Indices: 22742033--22742072 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22742023 TTTGATTTTT
* *
22742033 TTCATGATGAAAATGCTGAAA
1 TTCAAGATCAAAATGCTGAAA
22742054 TTCAAGATCAAAATGCTGA
1 TTCAAGATCAAAATGCTGA
22742073 TGTGGCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
TTCAAGATCAAAATGCTGAAA
Found at i:22749495 original size:18 final size:18
Alignment explanation
Indices: 22749449--22749496 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
22749439 TATAAGAATA
*
22749449 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
22749465 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
22749482 TTAATTATAATATAT
1 TTAATTATAATATAT
22749497 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:22749501 original size:15 final size:15
Alignment explanation
Indices: 22749466--22749517 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22749456 TTAATAATTT
*
22749466 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22749480 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22749494 TATTTAATAATAAT-
1 TATTTAATTATAATA
22749508 TATGTTAATT
1 TAT-TTAATT
22749518 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22749615 original size:120 final size:120
Alignment explanation
Indices: 22749432--22749753 Score: 601
Period size: 120 Copynumber: 2.7 Consensus size: 120
22749422 ATTGTTTTAT
* *
22749432 TAAATT-ATATAAGAATATTAATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
22749496 TTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAG
*
22749551 TAAATTCATATAAGAATACTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
22749616 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAG
22749671 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
22749736 TTTAATAATAATTATGTT
66 TTTAATAATAATTATGTT
22749754 TAAATATGAT
Statistics
Matches: 197, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
119 6 0.03
120 191 0.97
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAG
Found at i:22749621 original size:15 final size:15
Alignment explanation
Indices: 22749586--22749637 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22749576 TTAAGAATTT
*
22749586 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22749600 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22749614 TATTTAATAATAAT-
1 TATTTAATTATAATA
22749628 TATGTTAATT
1 TAT-TTAATT
22749638 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22749719 original size:61 final size:61
Alignment explanation
Indices: 22749534--22749721 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
22749524 TTACAGTATC
*
22749534 ATATATTATGATTTGAGTAAATTCATATAAGAATACTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
22749595 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
22749654 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
22749715 ATATATT
1 ATATATT
22749722 TTAATTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 28 0.29
60 26 0.27
61 36 0.38
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:22749736 original size:16 final size:16
Alignment explanation
Indices: 22749715--22749756 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22749705 TTATTAAATT
*
22749715 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22749731 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22749746 AT-TATGTTTAA
1 ATATAT-TTTAA
22749757 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22749741 original size:15 final size:15
Alignment explanation
Indices: 22749706--22749747 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22749696 TTAAGAATTT
*
22749706 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22749720 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22749734 TATTTAATAATAAT
1 TATTTAATTATAAT
22749748 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22749983 original size:45 final size:43
Alignment explanation
Indices: 22749883--22749992 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
22749873 TTTTCCATTA
22749883 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
22749922 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
22749967 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
22749993 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:22749994 original size:16 final size:16
Alignment explanation
Indices: 22749973--22750040 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
22749963 GATTTGCTAT
*
22749973 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
22749989 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
22750005 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
22750021 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
22750037 TACA
1 TACA
22750041 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22752790 original size:32 final size:32
Alignment explanation
Indices: 22752751--22752815 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
22752741 TCGTGAAAAG
22752751 TATGTATGATTTTTATTTATTTGTTATTTAAC
1 TATGTATGATTTTTATTTATTTGTTATTTAAC
22752783 TATGTATGATTTTTATTTATTTGTTATTTAAC
1 TATGTATGATTTTTATTTATTTGTTATTTAAC
22752815 T
1 T
22752816 GTGAAAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (32 bp):
TATGTATGATTTTTATTTATTTGTTATTTAAC
Found at i:22755127 original size:30 final size:29
Alignment explanation
Indices: 22755091--22755156 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
22755081 GCCCAAATAT
22755091 TATGTTATAAAACAT-ATTATATTAATTATA
1 TATGTTATAAAA-ATAATTATATTAATT-TA
* *
22755121 TATGTTA-AATAATAATTATATTTATTTA
1 TATGTTATAAAAATAATTATATTAATTTA
22755149 TAT-TTATA
1 TATGTTATA
22755157 TTAAATCACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.09
28 8 0.25
29 14 0.44
30 7 0.22
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (29 bp):
TATGTTATAAAAATAATTATATTAATTTA
Found at i:22759360 original size:18 final size:18
Alignment explanation
Indices: 22759333--22759368 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22759323 TCCAAAAGAA
*
22759333 ATATAAATATAAACTTAT
1 ATATAAATATAAAATTAT
*
22759351 ATATATATATAAAATTAT
1 ATATAAATATAAAATTAT
22759369 TGGTTTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAATATAAAATTAT
Found at i:22770155 original size:19 final size:20
Alignment explanation
Indices: 22770127--22770166 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
22770117 TTCTAAATTA
*
22770127 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
22770146 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
22770166 T
1 T
22770167 CTTTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:22770480 original size:26 final size:27
Alignment explanation
Indices: 22770450--22770500 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
22770440 TAGAATTTGT
22770450 TTGTTATTC-ATCAT-TTGCTTTGTATA
1 TTGTTATTCAATCATATTG-TTTGTATA
22770476 TTGTTATTCAATCATATTGTTTGTA
1 TTGTTATTCAATCATATTGTTTGTA
22770501 GGAATTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.39
27 11 0.48
28 3 0.13
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.57
Consensus pattern (27 bp):
TTGTTATTCAATCATATTGTTTGTATA
Found at i:22773898 original size:19 final size:18
Alignment explanation
Indices: 22773874--22773919 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
22773864 ACGCTCTTTT
*
22773874 TGCATTCATTTCATGCATA
1 TGCATTCATGTCAT-CATA
22773893 TGCATTGCATGTCATCATA
1 TGCATT-CATGTCATCATA
22773912 TGCATTCA
1 TGCATTCA
22773920 AGATTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.64
20 7 0.28
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (18 bp):
TGCATTCATGTCATCATA
Found at i:22776441 original size:35 final size:35
Alignment explanation
Indices: 22776402--22776471 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
22776392 GCTCCATATA
*
22776402 TATAAATTTAACAACCGCATATCACC-ATGTACATT
1 TATAAATTCAACAACCGCATAT-ACCAATGTACATT
*
22776437 TATAAATTCAATAACCGCATATACCTAATGTACAT
1 TATAAATTCAACAACCGCATATACC-AATGTACAT
22776472 ATGCCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.65
36 8 0.26
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (35 bp):
TATAAATTCAACAACCGCATATACCAATGTACATT
Found at i:22776749 original size:41 final size:41
Alignment explanation
Indices: 22776693--22776795 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
22776683 TGATTCGATA
* * * *
22776693 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATTT
* * *
22776734 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATTT
22776775 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
22776796 GCACATAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATTT
Found at i:22776809 original size:41 final size:41
Alignment explanation
Indices: 22776731--22776810 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
22776721 GTCCGAAATG
** *
22776731 TTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TTTCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
22776772 TTTCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TTTCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAAT
22776811 AACTGAGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
TTTCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Done.