Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 140 of 143
Found at i:41664346 original size:27 final size:27
Alignment explanation
Indices: 41664277--41664394 Score: 106
Period size: 27 Copynumber: 4.6 Consensus size: 27
41664267 GATGAGGGAG
*
41664277 ATGGTGGAGG-CGATGACTTGTAGACAT
1 ATGGTGGAGGAAG-TGACTTGTAGACAT
**
41664304 ATGGTGGAGGTGGTGACTTGTAGACAT
1 ATGGTGGAGGAAGTGACTTGTAGACAT
* *
41664331 ATGGTGGAGGAAGTGA---G--G-GAG
1 ATGGTGGAGGAAGTGACTTGTAGACAT
* *
41664352 ATGGTGGAGGCAGTGACTTGTAAACAT
1 ATGGTGGAGGAAGTGACTTGTAGACAT
*
41664379 ATGGTGGAGGAGGTGA
1 ATGGTGGAGGAAGTGA
41664395 AGGAGATGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
21 16 0.22
22 1 0.01
24 2 0.03
27 53 0.73
28 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.43, T:0.24
Consensus pattern (27 bp):
ATGGTGGAGGAAGTGACTTGTAGACAT
Found at i:41664394 original size:75 final size:77
Alignment explanation
Indices: 41664240--41664394 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 77
41664230 TGGTGGTGAG
*
41664240 GACTTGTAGACATAAGGTGAAGGAGGAGATGAGGGAGATGGTGGAGGCGATGACTTGTAGACATA
1 GACTTGTAGACATAAGGTGAAGGA-GAGATGAGGGAGATGGTGGAGGCGATGACTTGTAAACATA
*
41664305 TGGTGGAGGTGGT
65 TGGTGGAGGAGGT
* *
41664318 GACTTGTAGACATATGGTGGAGGA-AG-TGAGGGAGATGGTGGAGGC-AGTGACTTGTAAACATA
1 GACTTGTAGACATAAGGTGAAGGAGAGATGAGGGAGATGGTGGAGGCGA-TGACTTGTAAACATA
41664380 TGGTGGAGGAGGT
65 TGGTGGAGGAGGT
41664393 GA
1 GA
41664395 AGGAGATGGT
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
74 1 0.01
75 47 0.65
76 2 0.03
78 22 0.31
ACGTcount: A:0.28, C:0.06, G:0.43, T:0.22
Consensus pattern (77 bp):
GACTTGTAGACATAAGGTGAAGGAGAGATGAGGGAGATGGTGGAGGCGATGACTTGTAAACATAT
GGTGGAGGAGGT
Found at i:41664459 original size:75 final size:76
Alignment explanation
Indices: 41664380--41664537 Score: 167
Period size: 75 Copynumber: 2.1 Consensus size: 76
41664370 TGTAAACATA
* ** * * * *
41664380 TGGTGGAGGAGGTG-AAGGAGATGGTGGAGGTGGTGACTTATAAACATAAGGTGGAGGTGGCGAG
1 TGGTGGAGGACGTGTAAACAGAGGGTGGAGGTGGGGACTTATAAACATAAGGTGGAGGAGGCGAA
41664444 GGAGATGGTGG
66 GGAGATGGTGG
* * * * * * *
41664455 TGGTGG-GGACTTGTAAACATAGGGTGGAGGTGGGGATTTGTAGACATAAGGTGGGGGAGGTGAA
1 TGGTGGAGGACGTGTAAACAGAGGGTGGAGGTGGGGACTTATAAACATAAGGTGGAGGAGGCGAA
41664519 GGAGATGGTGG
66 GGAGATGGTGG
*
41664530 AGGTGGAG
1 TGGTGGAG
41664538 ACTTGTAGAT
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
74 5 0.08
75 60 0.91
76 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.51, T:0.21
Consensus pattern (76 bp):
TGGTGGAGGACGTGTAAACAGAGGGTGGAGGTGGGGACTTATAAACATAAGGTGGAGGAGGCGAA
GGAGATGGTGG
Found at i:41664480 original size:27 final size:27
Alignment explanation
Indices: 41664450--41664508 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
41664440 CGAGGGAGAT
* *
41664450 GGTGGTGGTGGGGACTTGTAAACATAG
1 GGTGGAGGTGGGGACTTGTAAACATAA
* *
41664477 GGTGGAGGTGGGGATTTGTAGACATAA
1 GGTGGAGGTGGGGACTTGTAAACATAA
41664504 GGTGG
1 GGTGG
41664509 GGGAGGTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.05, G:0.47, T:0.25
Consensus pattern (27 bp):
GGTGGAGGTGGGGACTTGTAAACATAA
Found at i:41664487 original size:48 final size:48
Alignment explanation
Indices: 41664304--41664484 Score: 254
Period size: 48 Copynumber: 3.8 Consensus size: 48
41664294 TTGTAGACAT
* *
41664304 ATGGTGGAGGTGGTGACTTGTAGACATATGGTGGAGGAAGTGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAAACATATGGTGGAGGAGGTGAGGGAG
** *
41664352 ATGGTGGAGGCAGTGACTTGTAAACATATGGTGGAGGAGGTGAAGGAG
1 ATGGTGGAGGTGGTGACTTGTAAACATATGGTGGAGGAGGTGAGGGAG
* * * *
41664400 ATGGTGGAGGTGGTGACTTATAAACATAAGGTGGAGGTGGCGAGGGAG
1 ATGGTGGAGGTGGTGACTTGTAAACATATGGTGGAGGAGGTGAGGGAG
* * *
41664448 ATGGTGGTGGTGGGGACTTGTAAACATAGGGTGGAGG
1 ATGGTGGAGGTGGTGACTTGTAAACATATGGTGGAGG
41664485 TGGGGATTTG
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.26, C:0.06, G:0.46, T:0.22
Consensus pattern (48 bp):
ATGGTGGAGGTGGTGACTTGTAAACATATGGTGGAGGAGGTGAGGGAG
Found at i:41664514 original size:30 final size:27
Alignment explanation
Indices: 41664456--41664516 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
41664446 AGATGGTGGT
*
41664456 GGTGGGGACTTGTAAACATAGGGTGGA
1 GGTGGGGACTTGTAAACATAGGGGGGA
* *
41664483 GGTGGGGATTTGTAGACATAAGGTGGGGGA
1 GGTGGGGACTTGTAAACAT-A-G-GGGGGA
41664513 GGTG
1 GGTG
41664517 AAGGAGATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 17 0.61
28 1 0.04
29 1 0.04
30 9 0.32
ACGTcount: A:0.23, C:0.05, G:0.49, T:0.23
Consensus pattern (27 bp):
GGTGGGGACTTGTAAACATAGGGGGGA
Found at i:41664527 original size:171 final size:171
Alignment explanation
Indices: 41664132--41665180 Score: 992
Period size: 171 Copynumber: 6.1 Consensus size: 171
41664122 TGAGGGAGAT
* * * * *
41664132 GGTGGAGGTGGTGACTTGTAAACATAAGGTGGAGGTGGTGAGGGAGATGGTGGTGATGGGGACTT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTT
* * * *
41664197 GTACACATAAGGTGGAGGTGGTGAGGGAGATGGTGGTGGTGAG-GACTTGTAGACATAAGGTGAA
66 GTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTG-GTGACTTGTAGACATAAGGT---
* * * * *
41664261 GGAGGAGATGAGGGAGATGGTGGAGGCGATGACTTGTAGACATAT
127 GGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAG
* * ** *
41664306 GGTGGAGGTGGTGACTTGTAGACATATGGTGGAGGAAGTGAGGGAGATGGTGGAGGCAGTGACTT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTT
* * *
41664371 GTAAACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTATAAACATAAGGTGGAG
66 GTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGTGGAG
* * * * * *
41664436 GTGGCGAGGGAGATGGTGGTGGTGGGGACTTGTAAACATAG
131 GAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAG
* * * *
41664477 GGTGGAGGTGGGGATTTGTAGACATAAGGTGGGGGAGGTGAAGGAGATGGTGGAGGTGGAGACTT
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTT
* * * * * ** * ** *
41664542 GTAGATATAAGGAGGAGGTGGTGAGGGAGACAGTGGAGGTGAG-GATTTGTAGATGTAAGGAGGA
66 GTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTG-GTGACTTGTAGACATAAGGTGGA
* * * * *
41664606 GGTGGTGAGGGAGATGGTGGAGGTGGAGACTTATAGACATAT
130 GGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAG
* * * * *** *
41664648 GGTGGAGGAGGTGA--AG--GAGAT--GGTGGAGGCGGTGATTTATGAATGTGAGGAGGAGGTGG
1 GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGAGGTGAGGGA-G-A--T--GGTGGAGGTGG
* * * * * * *
41664707 GGACTTGTAGACATATGGTGAAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATG
60 AGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAAG
* * *
41664772 GTGGAGGAGGTGAAGGAGATGGTGAAGGCGGTGA-TT-TATGA-ATGTG
125 GTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTA-GACAT-AG
* * * * *
41664818 AGGAGGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGTAGAGGTGGCGACT
1 -GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACT
* *
41664883 TATAAACATAAGGTGGAGGAGGTGAAGGAGACGGTGGAGGTGGAGGTGGTGATTTGTAGACATAA
65 TGTAAACATAAGGTGGAGGAGGTGAAGGAGA---T---GGTGGAGGTGGTGACTTGTAGACATAA
* * * *
41664948 GGTGGGGGTGGTGAAGGAGATGGTGGAGGTGGGGGCTTGTAGACATATGG
124 GGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATA--G
* * * *
41664998 TGGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACT
1 -GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACT
* ** *
41665063 TGTAGATGTAA---GGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGTGGG
65 TGTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGTGGA
* *
41665125 GGAGGTGAAGGAGACGGTGGAGGTGGTGACTTGTAGACATAA
130 GGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAG
* *
41665167 GGTGGGGGAGGTGA
1 GGTGGAGGTGGTGA
41665181 AGGAGATGGT
Statistics
Matches: 713, Mismatches: 133, Indels: 64
0.78 0.15 0.07
Matches are distributed among these distances:
165 13 0.02
166 1 0.00
167 5 0.01
168 11 0.02
169 6 0.01
170 5 0.01
171 396 0.56
172 1 0.00
173 3 0.00
174 110 0.15
175 5 0.01
176 1 0.00
177 84 0.12
178 4 0.01
179 4 0.01
180 64 0.09
ACGTcount: A:0.26, C:0.04, G:0.48, T:0.22
Consensus pattern (171 bp):
GGTGGAGGTGGTGACTTGTAGACATAAGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTT
GTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAAGGTGGAG
GAGGTGAAGGAGATGGTGGAGGTGGTGACTTGTAGACATAG
Found at i:41664529 original size:48 final size:48
Alignment explanation
Indices: 41664477--41664685 Score: 231
Period size: 48 Copynumber: 4.4 Consensus size: 48
41664467 GTAAACATAG
* * *
41664477 GGTGGAGGTGGGGATTTGTAGACATAAGGTGGGGGAGGTGAAGGAGAT
1 GGTGGAGGTGGAGATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGAT
* * * * *
41664525 GGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGGTGAGGGAGAC
1 GGTGGAGGTGGAGATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGAT
* ** * *
41664573 AGTGGAGGT-GAGGATTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGA-GATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGAT
* * * *
41664621 GGTGGAGGTGGAGACTTATAGACATATGGTGGAGGAGGTGAAGGAGAT
1 GGTGGAGGTGGAGATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGAT
* *
41664669 GGTGGAGGCGGTGATTT
1 GGTGGAGGTGGAGATTT
41664686 ATGAATGTGA
Statistics
Matches: 135, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 2 0.01
48 131 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.03, G:0.50, T:0.22
Consensus pattern (48 bp):
GGTGGAGGTGGAGATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGAT
Found at i:41664541 original size:75 final size:75
Alignment explanation
Indices: 41664402--41664778 Score: 267
Period size: 75 Copynumber: 5.1 Consensus size: 75
41664392 TGAAGGAGAT
* * * * * * * *
41664402 GGTGGAGGTGGTGACTTATAAACATAAGGTGGAGGTGGCGAGGGAGATGGTGGTGGTGGGGACTT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTT
*
41664467 GTAAACATAG
66 GTAGACATAG
* *
41664477 GGTGGAGGTGGGGATTTGTAGACATAAGGTGGGGGAGGTGAAGGAGATGGTGGAGGTGGAGACTT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTT
* *
41664542 GTAGATATAA
66 GTAGACATAG
* * * * * ** * * * *
41664552 GGAGGAGGTGGTGA--GGGAGACAGTGGAGGT-GAGGATTTGTA-GATGTAAGGAGGAGGTGGTG
1 GGTGGAGGTGGGGACTTGTAGACA-T-AAGGTGGAGGAGGTGAAGGA-G-ATGGTGGAGGTGGAG
* *
41664613 A---G-GGAGAT--
62 ACTTGTAGACATAG
* * * * *
41664621 GGTGGAGGTGGAGACTTATAGACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGCGGTGA-TT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTT
*
41664685 -TATGA-ATGTG
66 GTA-GACAT-AG
* * * *
41664695 AGGAGGAGGTGGGGACTTGTAGACATATGGTGAAGGAGGTGAGGGAGATGGTGGAGGTGGAGACT
1 -GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACT
*
41664760 TGTAGACATAT
65 TGTAGACATAG
41664771 GGTGGAGG
1 GGTGGAGG
41664779 AGGTGAAGGA
Statistics
Matches: 232, Mismatches: 51, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
69 28 0.12
70 10 0.04
71 13 0.06
72 3 0.01
73 8 0.03
74 9 0.04
75 153 0.66
76 4 0.02
77 4 0.02
ACGTcount: A:0.26, C:0.04, G:0.48, T:0.22
Consensus pattern (75 bp):
GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTT
GTAGACATAG
Found at i:41664578 original size:96 final size:96
Alignment explanation
Indices: 41664478--41664685 Score: 263
Period size: 96 Copynumber: 2.2 Consensus size: 96
41664468 TAAACATAGG
* * *
41664478 GTGGAGGTGGGGATTTGTAGACATAAGGTGGGGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTG
1 GTGGAGGTGGGGATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTA
* * *
41664543 TAGATATAAGGAGGAGGTGGTGAGGGAGACA
66 TAGACATAAGGAGGAGGAGGTGAAGGAGACA
* ** * *
41664574 GTGGAGGTGAGGATTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTA
1 GTGGAGGTGGGGATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTA
* * **
41664639 TAGACATATGGTGGAGGAGGTGAAGGAGATG
66 TAGACATAAGGAGGAGGAGGTGAAGGAGACA
* *
41664670 GTGGAGGCGGTGATTT
1 GTGGAGGTGGGGATTT
41664686 ATGAATGTGA
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.26, C:0.03, G:0.50, T:0.22
Consensus pattern (96 bp):
GTGGAGGTGGGGATTTGTAGACATAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTA
TAGACATAAGGAGGAGGAGGTGAAGGAGACA
Found at i:41664592 original size:123 final size:123
Alignment explanation
Indices: 41664369--41664592 Score: 322
Period size: 123 Copynumber: 1.8 Consensus size: 123
41664359 AGGCAGTGAC
* * *
41664369 TTGTAAACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTATAAACATAAGGTGG
1 TTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGG
** * *
41664434 AGGTGGCGAGGGAGATGGTGGTGGTGGGGACTTGTAAACATAGGGTGGAGGTGGGGAT
66 AGGTGGCGAGGGAGACAGTGGAGGTGAGGACTTGTAAACATAGGGTGGAGGTGGGGAT
* * * * *
41664492 TTGTAGACATAAGGTGGGGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAGATATAAGGAGG
1 TTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGG
* *
41664557 AGGTGGTGAGGGAGACAGTGGAGGTGAGGATTTGTA
66 AGGTGGCGAGGGAGACAGTGGAGGTGAGGACTTGTA
41664593 GATGTAAGGA
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
123 87 1.00
ACGTcount: A:0.27, C:0.04, G:0.47, T:0.22
Consensus pattern (123 bp):
TTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGG
AGGTGGCGAGGGAGACAGTGGAGGTGAGGACTTGTAAACATAGGGTGGAGGTGGGGAT
Found at i:41664631 original size:123 final size:122
Alignment explanation
Indices: 41664375--41664619 Score: 285
Period size: 123 Copynumber: 2.0 Consensus size: 122
41664365 TGACTTGTAA
* * *
41664375 ACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGACTTATAAACATAAGGTGGAGGTGG
1 ACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGTGG
** * * * * * *
41664440 CGAGGGAGATGGTGGTGGTGGGGACTTGTAAACATAGGGTGGAGGTGGGGATTTGTAG
66 CGAGGGAGACAGTGGAGGTGAGGACTTGTAAACATAAGGAGGAGGTGGGGA-TGGGAG
* * * *
41664498 ACATAAGGTGGGGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGG
1 ACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGTGG
* * * ** *
41664563 TGAGGGAGACAGTGGAGGTGAGGATTTGTAGATGTAAGGAGGAGGTGGTGA-GGGAG
66 CGAGGGAGACAGTGGAGGTGAGGACTTGTAAACATAAGGAGGAGGTGGGGATGGGAG
41664619 A
1 A
41664620 TGGTGGAGGT
Statistics
Matches: 101, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
121 4 0.04
123 97 0.96
ACGTcount: A:0.27, C:0.04, G:0.49, T:0.21
Consensus pattern (122 bp):
ACATAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATAAGGAGGAGGTGG
CGAGGGAGACAGTGGAGGTGAGGACTTGTAAACATAAGGAGGAGGTGGGGATGGGAG
Found at i:41664699 original size:96 final size:96
Alignment explanation
Indices: 41664513--41664706 Score: 248
Period size: 96 Copynumber: 2.0 Consensus size: 96
41664503 AGGTGGGGGA
* * * *
41664513 GGTGAAGGAGATGGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGGTGAGGGAGACAGTGG
1 GGTGAAGGAGATGGTGGAGGTGGAGACTTATAGACATAAGGAGGAGGAGGTGAAGGAGACAGTGG
* *
41664578 AGGTGAGGATTTGTAGATGTAAGGAGGAGGT
66 AGGCGAGGATTTATAGATGTAAGGAGGAGGT
* * * **
41664609 GGTGAGGGAGATGGTGGAGGTGGAGACTTATAGACATATGGTGGAGGAGGTGAAGGAGATGGTGG
1 GGTGAAGGAGATGGTGGAGGTGGAGACTTATAGACATAAGGAGGAGGAGGTGAAGGAGACAGTGG
*
41664674 AGGCG-GTGATTTAT-GAATGTGAGGAGGAGGT
66 AGGCGAG-GATTTATAG-ATGTAAGGAGGAGGT
41664705 GG
1 GG
41664707 GGACTTGTAG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
95 2 0.02
96 82 0.98
ACGTcount: A:0.27, C:0.03, G:0.49, T:0.21
Consensus pattern (96 bp):
GGTGAAGGAGATGGTGGAGGTGGAGACTTATAGACATAAGGAGGAGGAGGTGAAGGAGACAGTGG
AGGCGAGGATTTATAGATGTAAGGAGGAGGT
Found at i:41664760 original size:48 final size:48
Alignment explanation
Indices: 41664699--41664795 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
41664689 AATGTGAGGA
* *
41664699 GGAGGTGGGGACTTGTAGACATATGGTGAAGGAGGTGAGGGAGATGGT
1 GGAGGTGGAGACTTGTAGACATATGGTGAAGGAGGTGAAGGAGATGGT
*
41664747 GGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGATGGT
1 GGAGGTGGAGACTTGTAGACATATGGTGAAGGAGGTGAAGGAGATGGT
41664795 G
1 G
41664796 AAGGCGGTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.26, C:0.04, G:0.49, T:0.21
Consensus pattern (48 bp):
GGAGGTGGAGACTTGTAGACATATGGTGAAGGAGGTGAAGGAGATGGT
Found at i:41664901 original size:75 final size:75
Alignment explanation
Indices: 41664744--41664901 Score: 210
Period size: 75 Copynumber: 2.1 Consensus size: 75
41664734 TGAGGGAGAT
* *
41664744 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGATGGTGAAGGCGGTGATTT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGATGGTGAAGGCGGCGACTT
* ** *
41664809 ATGAATGTGA
66 ATAAACATAA
* * * *
41664819 GGAGGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGT-AGAGGTGGCGACT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGATGGTGA-AGGCGGCGACT
41664883 TATAAACATAA
65 TATAAACATAA
41664894 GGTGGAGG
1 GGTGGAGG
41664902 AGGTGAAGGA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
74 1 0.01
75 70 0.99
ACGTcount: A:0.27, C:0.05, G:0.46, T:0.22
Consensus pattern (75 bp):
GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGATGGTGAAGGCGGCGACTT
ATAAACATAA
Found at i:41664928 original size:102 final size:102
Alignment explanation
Indices: 41664817--41665008 Score: 258
Period size: 102 Copynumber: 1.9 Consensus size: 102
41664807 TTATGAATGT
* *
41664817 GAGGAGGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGTAGAGGTGGCGAC
1 GAGGAGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTAGAGGTGGCGAC
41664882 TTATAAACATAAGGTGGAGGAGGTGAAGGAGACGGTG
66 TTATAAACATAAGGTGGAGGAGGTGAAGGAGACGGTG
* * * * * * * *
41664919 GAGGTGGAGGTGGTGATTTGTAGACATAAGGTGGGGGTGGTGAAGGAGATGGTGGAGGTGGGGGC
1 GAGGAGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTAGAGGTGGCGAC
* * * *
41664984 TTGTAGACATATGGTGGTGGAGGTG
66 TTATAAACATAAGGTGGAGGAGGTG
41665009 GAGACTTGTA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
102 76 1.00
ACGTcount: A:0.24, C:0.05, G:0.50, T:0.21
Consensus pattern (102 bp):
GAGGAGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGGTAGAGGTGGCGAC
TTATAAACATAAGGTGGAGGAGGTGAAGGAGACGGTG
Found at i:41664946 original size:54 final size:53
Alignment explanation
Indices: 41664817--41665866 Score: 303
Period size: 48 Copynumber: 21.2 Consensus size: 53
41664807 TTATGAATGT
* * * *
41664817 GAGGAGGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTG-AGG-GAGAT-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * *
41664867 --GGTAGAGGTGGCGACTTATAAACATAAGGTGGAGGAGGTGAAGGAGACGGTG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA-GGTG
* * * *
41664919 GAGGTGGAGGTGGTGATTTGTAGACATAAGGTGGGGGTGGTGAAGGAGATGGTG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA-GGTG
* * * * *
41664973 GAGGT---GG-GG-G-CTTGTAGACATATGGTGGTGGAGGTGGA-GACTTGTAGATAT
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGA---G-AGGT-G
* * * * * ** * *
41665024 AAGGAGGAGGTGGTGA--GGGAGATGGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGTG
1 GAGGTGGAGGTGGCGACTTGTAGA-CAT-AAGGTGGAG----G-AGGTG-AAGGA-GAGGTG
* * * *
41665084 AAGG-AGATGGTGGAGGTGGTGACTTGTAGACATAAGGTGGGGGAGGTGAAGGAGACGGTG
1 GAGGTGGA-GGTG------GCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA-GGTG
*
41665144 GAGGT---GGT---GACTTGTAGACATAAGGTGGGGGAGGTGAAGGAGA--T-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * * * *
41665188 --GGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGGTG-A-GAGAGAT-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* *
41665236 --GGTGGAGGTGGAGACTTGTAGACAT-A--TGGTGGAGGTGAAGGAGA--TG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * * ** * *
41665282 GTGG-CGACGGT---GA-TT-TATGA-AT-GGAAGGAGGTGGTGAGGGAGA--T-
1 GAGGTGGA-GGTGGCGACTTGTA-GACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * *
41665326 --GGTGGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTG-AGG-GAGAT-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * *
41665374 GA--TGGAGGTGGCGACTTATAAACATAAGGTAGAGGAGGTGAAGGAGACGGTG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA-GGTG
*
41665426 GAGGT---GGT---GACTTGTAGACATAAGGTGGGGGAGGTGAAGGAGACGGTG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA-GGTG
* * * *
41665474 GAGGT--A---GG-GACTTGTAGACATATGGTGGTGGAGGTGAATGA-A-AT-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * * * *
41665518 --GGTGGAGGTGGAGACTTGTAGATATAA-TTAGGAGGTGGTG-AGG-GAGAT-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGT-GGAGGAGGTGAAGGAGAGGTG
* * * ** * * *
41665566 --TGTGGAGGTGGGGATTTGTAGATGTAAGGAGGAGGTGGTG-AGG-GAGAT-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * *
41665614 --GGTGAAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGA--T-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* * * ** *
41665662 --GGTGGAGGTGGAGACTTATAAATGTAAGGTGGGGGAGGTGAAGGAGACGGTG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA-GGTG
41665714 GAGGT----G-GG-GACTTGTAGACATAAGGTGG-GAGAGGTGAAGGAGA--TG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAG-GAGGTGAAGGAGAGGTG
* ** * * *
41665759 GA---GGAGGTGGGGACTTGTAGATGTAAGGAGGAGGTGGTG-AGG-GAGAT-
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
* *
41665806 --GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTG-AGAGAGATGGTG
1 GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAG-GAGA-GGTG
41665858 GAGGTGGAG
1 GAGGTGGAG
41665867 ACTTATAAAT
Statistics
Matches: 766, Mismatches: 122, Indels: 220
0.69 0.11 0.20
Matches are distributed among these distances:
42 11 0.01
43 6 0.01
44 5 0.01
45 37 0.05
46 14 0.02
47 29 0.04
48 482 0.63
49 14 0.02
50 14 0.02
51 16 0.02
52 2 0.00
54 62 0.08
55 6 0.01
56 2 0.00
57 9 0.01
59 4 0.01
60 20 0.03
61 8 0.01
62 6 0.01
63 1 0.00
64 2 0.00
66 11 0.01
67 1 0.00
68 4 0.01
ACGTcount: A:0.26, C:0.04, G:0.49, T:0.21
Consensus pattern (53 bp):
GAGGTGGAGGTGGCGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAGGTG
Found at i:41664954 original size:123 final size:123
Alignment explanation
Indices: 41664576--41664922 Score: 559
Period size: 123 Copynumber: 2.8 Consensus size: 123
41664566 GGGAGACAGT
* * ** * * *
41664576 GGAGGTGAGGATTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTATA
1 GGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTTATA
41664641 GACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGCGGTGATTTATGAATGTGAGGA
66 GACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGCGGTGATTTATGAATGTGAGGA
* *
41664699 GGAGGTGGGGACTTGTAGACATATGGTGAAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTTGTA
1 GGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTTATA
*
41664764 GACATATGGTGGAGGAGGTGAAGGAGATGGTGAAGGCGGTGATTTATGAATGTGAGGA
66 GACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGCGGTGATTTATGAATGTGAGGA
* *
41664822 GGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGTAGAGGTGGCGACTTATA
1 GGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTTATA
* * *
41664887 AACATAAGGTGGAGGAGGTGAAGGAGACGGTGGAGG
66 GACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGG
41664923 TGGAGGTGGT
Statistics
Matches: 206, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 206 1.00
ACGTcount: A:0.27, C:0.04, G:0.48, T:0.21
Consensus pattern (123 bp):
GGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGAGACTTATA
GACATATGGTGGAGGAGGTGAAGGAGATGGTGGAGGCGGTGATTTATGAATGTGAGGA
Found at i:41664997 original size:27 final size:27
Alignment explanation
Indices: 41664967--41665036 Score: 68
Period size: 30 Copynumber: 2.5 Consensus size: 27
41664957 GGTGAAGGAG
* *
41664967 ATGGTGGAGGTGGGGGCTTGTAGACAT
1 ATGGTGGAGGTGGAGACTTGTAGACAT
*
41664994 ATGGTGGTGGAGGTGGAGACTTGTAGATAT
1 A---TGGTGGAGGTGGAGACTTGTAGACAT
* *
41665024 AAGGAGGAGGTGG
1 ATGGTGGAGGTGG
41665037 TGAGGGAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 11 0.31
30 24 0.69
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (27 bp):
ATGGTGGAGGTGGAGACTTGTAGACAT
Found at i:41665026 original size:78 final size:78
Alignment explanation
Indices: 41664921--41665068 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 78
41664911 AGACGGTGGA
* * * * * *
41664921 GGTGGAGGTGGTGATTTGTAGACATAAGGTGGGGGTGGTGAAGGAGATGGTGGAGGTGGGGGCTT
1 GGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTT
41664986 GTAGACATATGGT
66 GTAGACATATGGT
* *
41664999 GGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
1 GGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTT
41665064 GTAGA
66 GTAGA
41665069 TGTAAGGAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.23, C:0.03, G:0.50, T:0.24
Consensus pattern (78 bp):
GGTGGAGGTGGAGACTTGTAGACATAAGGAGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTT
GTAGACATATGGT
Found at i:41665055 original size:21 final size:21
Alignment explanation
Indices: 41665029--41665105 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
41665019 GATATAAGGA
*
41665029 GGAGGTGGTGAGGGAGATGGT
1 GGAGGTGGTGAAGGAGATGGT
* * *
41665050 GGAGGTGGAGACTTGTAGAT-GT
1 GGAGGTGGTGA--AGGAGATGGT
*
41665072 AAGGAGGAGGTGAAGGAGATGGT
1 --GGAGGTGGTGAAGGAGATGGT
41665095 GGAGGTGGTGA
1 GGAGGTGGTGA
41665106 CTTGTAGACA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
21 20 0.47
22 7 0.16
23 7 0.16
24 9 0.21
ACGTcount: A:0.25, C:0.01, G:0.55, T:0.19
Consensus pattern (21 bp):
GGAGGTGGTGAAGGAGATGGT
Found at i:41665080 original size:27 final size:27
Alignment explanation
Indices: 41665002--41665083 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 27
41664992 ATATGGTGGT
*
41665002 GGAGGTGGAGACTTGTAGATATAAGGA
1 GGAGGTGGAGACTTGTAGATGTAAGGA
* * * *
41665029 GGAGGTGGTGA---G-GGA-G-ATGGT
1 GGAGGTGGAGACTTGTAGATGTAAGGA
41665050 GGAGGTGGAGACTTGTAGATGTAAGGA
1 GGAGGTGGAGACTTGTAGATGTAAGGA
41665077 GGAGGTG
1 GGAGGTG
41665084 AAGGAGATGG
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
21 13 0.32
23 2 0.05
24 2 0.05
25 2 0.05
26 1 0.03
27 20 0.50
ACGTcount: A:0.27, C:0.02, G:0.50, T:0.21
Consensus pattern (27 bp):
GGAGGTGGAGACTTGTAGATGTAAGGA
Found at i:41665090 original size:78 final size:78
Alignment explanation
Indices: 41664936--41665090 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
41664926 AGGTGGTGAT
* * * * * *
41664936 TTGTAGACATAAGGTGGGGGTGGTGAAGGAGATGGTGGAGGTGGGGGCTTGTAGACATATGGTGG
1 TTGTAGACATAAGGAGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGG
* **
41665001 TGGAGGTGGAGAC
66 AGGAGAAGGAGAC
* * **
41665014 TTGTAGATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGATGTAAGGAGG
1 TTGTAGACATAAGGAGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGG
*
41665079 AGGTGAAGGAGA
66 AGGAGAAGGAGA
41665091 TGGTGGAGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.26, C:0.03, G:0.49, T:0.22
Consensus pattern (78 bp):
TTGTAGACATAAGGAGGAGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGG
AGGAGAAGGAGAC
Found at i:41665131 original size:27 final size:27
Alignment explanation
Indices: 41665092--41665180 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
41665082 TGAAGGAGAT
*
41665092 GGTGGAGGTGGTGACTTGTAGACATAA
1 GGTGGAGGAGGTGACTTGTAGACATAA
* * *
41665119 GGTGGGGGAGGTGA--AGGAGAC----
1 GGTGGAGGAGGTGACTTGTAGACATAA
*
41665140 GGTGGAGGTGGTGACTTGTAGACATAA
1 GGTGGAGGAGGTGACTTGTAGACATAA
*
41665167 GGTGGGGGAGGTGA
1 GGTGGAGGAGGTGA
41665181 AGGAGATGGT
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
21 12 0.26
23 5 0.11
25 5 0.11
27 24 0.52
ACGTcount: A:0.24, C:0.06, G:0.51, T:0.20
Consensus pattern (27 bp):
GGTGGAGGAGGTGACTTGTAGACATAA
Found at i:41665264 original size:27 final size:27
Alignment explanation
Indices: 41665186--41665272 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
41665176 GGTGAAGGAG
*
41665186 ATGGTGGAGGTGGAGACTTGTAGATAT
1 ATGGTGGAGGTGGAGACTTGTAGACAT
* * * *
41665213 AAGGAGGAGGT-G-G---TG-AGAGAG
1 ATGGTGGAGGTGGAGACTTGTAGACAT
41665234 ATGGTGGAGGTGGAGACTTGTAGACAT
1 ATGGTGGAGGTGGAGACTTGTAGACAT
41665261 ATGGTGGAGGTG
1 ATGGTGGAGGTG
41665273 AAGGAGATGG
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
21 13 0.28
22 3 0.07
23 1 0.02
25 1 0.02
26 3 0.07
27 25 0.54
ACGTcount: A:0.26, C:0.03, G:0.47, T:0.23
Consensus pattern (27 bp):
ATGGTGGAGGTGGAGACTTGTAGACAT
Found at i:41665930 original size:48 final size:48
Alignment explanation
Indices: 41664998--41665923 Score: 984
Period size: 48 Copynumber: 19.5 Consensus size: 48
41664988 AGACATATGG
* * * *
41664998 TGGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGGTGAGGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
**
41665046 TGGTGGAGGTGGAGACTTGTAGATGTAA---GGAGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* *
41665091 TGGTGGAGGTGGTGACTTGTAGACATAAGGTGGGGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* * *
41665139 CGGTGGAGGTGGTGACTTGTAGACATAAGGTGGGGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* * *
41665187 TGGTGGAGGTGGAGACTTGTAGATATAAGGAGGAGGTGGTG-AGAGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAG-GAGA
*
41665235 TGGTGGAGGTGGAGACTTGTAGACAT-A--TGGTGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* ** * * * *
41665280 TGGTGGCGACGGTGA-TT-TATGA-AT--GGAAGGAGGTGGTGAGGGAGA
1 TGGTGGAGGTGGAGACTTGTA-GACATAAGG-TGGAGGAGGTGAAGGAGA
* * *
41665325 TGGTGGAGGTGGGGACTTGTAGACATATGGTGGAGGAGGTGAGGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* * * * *
41665373 TGATGGAGGTGGCGACTTATAAACATAAGGTAGAGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* * *
41665421 CGGTGGAGGTGGTGACTTGTAGACATAAGGTGGGGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* * * * *
41665469 CGGTGGAGGTAGG-GACTTGTAGACATATGGTGGTGGAGGTGAATGAAA
1 TGGTGGAGGT-GGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* * * *
41665517 TGGTGGAGGTGGAGACTTGTAGATATAA-TTAGGAGGTGGTGAGGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGT-GGAGGAGGTGAAGGAGA
* * * ** * * *
41665565 TTGTGGAGGTGGGGATTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* *
41665613 TGGTGAAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* * ** *
41665661 TGGTGGAGGTGGAGACTTATAAATGTAAGGTGGGGGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* *
41665709 CGGTGGAGGTGGGGACTTGTAGACATAAGGTGG-GAGAGGTGAAGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAG-GAGGTGAAGGAGA
* * ** * * *
41665757 TGGAGGAGGTGGGGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
*
41665805 TGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTG-AGAGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAG-GAGA
* * ** * * * *
41665853 TGGTGGAGGTGGAGACTTATAAATGTAAGGCGGGGGAAGTGAAGGAGT
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
* *
41665901 TGGTGGAGGAGGCGACTTGTAGA
1 TGGTGGAGGTGGAGACTTGTAGA
41665924 TGTAAGGAGT
Statistics
Matches: 740, Mismatches: 116, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
43 4 0.01
44 4 0.01
45 88 0.12
46 6 0.01
47 12 0.02
48 619 0.84
49 7 0.01
ACGTcount: A:0.27, C:0.04, G:0.48, T:0.21
Consensus pattern (48 bp):
TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGA
Found at i:41665931 original size:33 final size:33
Alignment explanation
Indices: 41665894--41665972 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
41665884 GGGGGAAGTG
* *
41665894 AAGGAGTTGGTGGAGGAGGCGACTTGTAGATGT
1 AAGGAGTTGGTGGAGGAGGCGACTTATAAATGT
* * *
41665927 AAGGAGTTGGTGGAGGTGGGGATTTATAAATGT
1 AAGGAGTTGGTGGAGGAGGCGACTTATAAATGT
*
41665960 AAGGAGGTGGTGG
1 AAGGAGTTGGTGG
41665973 GGATTTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.25, C:0.03, G:0.47, T:0.25
Consensus pattern (33 bp):
AAGGAGTTGGTGGAGGAGGCGACTTATAAATGT
Found at i:41665969 original size:30 final size:30
Alignment explanation
Indices: 41665935--41666018 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 30
41665925 GTAAGGAGTT
41665935 GGTGGAGGTGGGGATTTATAAATGTAAGGA
1 GGTGGAGGTGGGGATTTATAAATGTAAGGA
* * **
41665965 GGT---GGTGGGGATTTGTATACATAAGGA
1 GGTGGAGGTGGGGATTTATAAATGTAAGGA
* * *
41665992 GGTGGAGGGGGGGACTTATAAGTGTAA
1 GGTGGAGGTGGGGATTTATAAATGTAA
41666019 CCAGGTGATG
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
27 23 0.57
30 17 0.43
ACGTcount: A:0.27, C:0.02, G:0.44, T:0.26
Consensus pattern (30 bp):
GGTGGAGGTGGGGATTTATAAATGTAAGGA
Found at i:41669508 original size:48 final size:48
Alignment explanation
Indices: 41669426--41669934 Score: 640
Period size: 48 Copynumber: 10.6 Consensus size: 48
41669416 GTAATATGGA
* *
41669426 GGTGGAGGTGGGGACTTGTAGATATAGGGTGGAGGAGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* * * ** * * *
41669474 GGTGGTGGTGGGGACTTATAAATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* * *
41669522 GGGGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGACGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* * *
41669570 GGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* *
41669618 GGTGGAGGTGGGGACTTGTAGACATAGGGTGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* *
41669666 GGCGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* *
41669714 GGTGGAGGTGGGGACTTGTACACATATGGTGGAGGAGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* * ** * * *
41669762 GGTGGAGGTGGTGACTTATAGATGTAAGGAGGAGGTGGTGAAGGAGGT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* * * *
41669810 GGTGGAGGTGGAGACTTGTAGACATAGGGTGGAGGGGGTGAAGGAGAC
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* * * * ** *
41669858 GGTGGAGGTGGTGACTTGTAGGCATAGGGCGGAGTTGGTGAAGGTGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
* *
41669906 GGTGGTGGTGGGGACTTGTACACATAAGG
1 GGTGGAGGTGGGGACTTGTAGACATAAGG
41669935 CAGTGGTGGA
Statistics
Matches: 398, Mismatches: 63, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 398 1.00
ACGTcount: A:0.25, C:0.05, G:0.50, T:0.20
Consensus pattern (48 bp):
GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGAT
Found at i:41679125 original size:2 final size:2
Alignment explanation
Indices: 41679118--41679152 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
41679108 TCGGTGTGAA
41679118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41679153 GGGAAAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:41681932 original size:29 final size:29
Alignment explanation
Indices: 41681859--41681937 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 29
41681849 ATTGAAATGA
*
41681859 AAATTAAAATTTTATGTATACATATGAACC
1 AAATTAAAA-TTCATGTATACATATGAACC
* * *
41681889 ACAATTTAAATTTCATGTATATA-ATTACACC
1 A-AA-TTAAAATTCATGTATACATATGA-ACC
41681920 AAATTAAAATTCATGTAT
1 AAATTAAAATTCATGTAT
41681938 CAAACTATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
29 14 0.34
30 6 0.15
31 16 0.39
32 5 0.12
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (29 bp):
AAATTAAAATTCATGTATACATATGAACC
Found at i:41684814 original size:24 final size:25
Alignment explanation
Indices: 41684781--41684851 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 25
41684771 ATAAATAATC
*
41684781 TTTCAGTTAAACTCTGTTTTA-TTA
1 TTTCAATTAAACTCTGTTTTATTTA
*
41684805 TTTCAATTAAACTCT-TTTTATTTG
1 TTTCAATTAAACTCTGTTTTATTTA
41684829 TTTCAATTAAACTCTG-TTTATTT
1 TTTCAATTAAACTCTGTTTTATTT
41684852 TTTGAGTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.12
24 38 0.88
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTCAATTAAACTCTGTTTTATTTA
Found at i:41689220 original size:24 final size:24
Alignment explanation
Indices: 41689192--41689265 Score: 130
Period size: 24 Copynumber: 3.1 Consensus size: 24
41689182 AGAAATAATC
* *
41689192 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
41689216 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
41689240 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
41689264 TT
1 TT
41689266 GAATAGTCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.54
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:41692913 original size:9 final size:9
Alignment explanation
Indices: 41692899--41692946 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
41692889 ATTAAAATTA
41692899 TTTAATAAT
1 TTTAATAAT
41692908 TTTAATAAT
1 TTTAATAAT
41692917 TTT-AT-AT
1 TTTAATAAT
41692924 TTTAAAAATAAT
1 TTT---AATAAT
41692936 TTTAATAAT
1 TTTAATAAT
41692945 TT
1 TT
41692947 AAAAATCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
7 5 0.15
8 2 0.06
9 20 0.59
11 2 0.06
12 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAATAAT
Found at i:41692935 original size:19 final size:20
Alignment explanation
Indices: 41692899--41692957 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
41692889 ATTAAAATTA
*
41692899 TTTAATAATTT--TAATAAT
1 TTTAATAATTTAAAAATAAT
*
41692917 TTT-ATATTTTAAAAATAAT
1 TTTAATAATTTAAAAATAAT
*
41692936 TTTAATAATTTAAAAATCAT
1 TTTAATAATTTAAAAATAAT
41692956 TT
1 TT
41692958 GCTGACGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 3 0.09
19 9 0.26
20 16 0.47
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATAATTTAAAAATAAT
Found at i:41693075 original size:77 final size:77
Alignment explanation
Indices: 41692986--41693151 Score: 296
Period size: 77 Copynumber: 2.2 Consensus size: 77
41692976 ATAAAATAGT
*
41692986 GCCACGTCAGCATCTGCATATGTGAACTTGCTTAGGTGGAAAAAAATTACCACGTTAGCACTGTT
1 GCCACGTCAGCATCTGCATATGTGAACTTGCTTAGGTGGAAAAAAATTACCACGTTAGCACCGTT
41693051 AGTCAACTAATG
66 AGTCAACTAATG
* * *
41693063 GCCACGTCAGCATTTGCATATGTGGACTTGCTTAGGTGGAAAAAAATTACCATGTTAGCACCGTT
1 GCCACGTCAGCATCTGCATATGTGAACTTGCTTAGGTGGAAAAAAATTACCACGTTAGCACCGTT
41693128 AGTCAACTAATG
66 AGTCAACTAATG
41693140 GCCACGTCAGCA
1 GCCACGTCAGCA
41693152 AGACAGTTAA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 85 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (77 bp):
GCCACGTCAGCATCTGCATATGTGAACTTGCTTAGGTGGAAAAAAATTACCACGTTAGCACCGTT
AGTCAACTAATG
Found at i:41700964 original size:47 final size:47
Alignment explanation
Indices: 41700913--41701034 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 47
41700903 ATCAATATAA
* * *
41700913 TACAAAAATAATAATTAAATATTAAAATGAATTATTTATCAAAATGG
1 TACAAAAATAATATTTATATATCAAAATGAATTATTTATCAAAATGG
* * **
41700960 TACAAAAA-ATTATTTATATACCAAAATGTGTTATTTATCAAAATGG
1 TACAAAAATAATATTTATATATCAAAATGAATTATTTATCAAAATGG
41701006 TAC-AAAATAAATATTTATATATCAAAATG
1 TACAAAAAT-AATATTTATATATCAAAATG
41701035 GTATCTACAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 4 0.06
46 34 0.53
47 26 0.41
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (47 bp):
TACAAAAATAATATTTATATATCAAAATGAATTATTTATCAAAATGG
Found at i:41701200 original size:31 final size:31
Alignment explanation
Indices: 41701163--41701230 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
41701153 TTTATATTAC
* *
41701163 TTACTTATTTACTACTACTAACAAAATAAAA
1 TTACTTACTAACTACTACTAACAAAATAAAA
41701194 TTACTTACTAACTACTACTAACAAAATAAAA
1 TTACTTACTAACTACTACTAACAAAATAAAA
41701225 TTACTT
1 TTACTT
41701231 TAATAACCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (31 bp):
TTACTTACTAACTACTACTAACAAAATAAAA
Found at i:41701369 original size:27 final size:27
Alignment explanation
Indices: 41701337--41701407 Score: 133
Period size: 27 Copynumber: 2.6 Consensus size: 27
41701327 TTGGTACTGC
41701337 CACTTGATATCCCTCCAAAGATGCCAT
1 CACTTGATATCCCTCCAAAGATGCCAT
*
41701364 CACTTGATATCCCTCCAAAGATGCCGT
1 CACTTGATATCCCTCCAAAGATGCCAT
41701391 CACTTGATATCCCTCCA
1 CACTTGATATCCCTCCA
41701408 CCTGTGTCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (27 bp):
CACTTGATATCCCTCCAAAGATGCCAT
Found at i:41704873 original size:271 final size:266
Alignment explanation
Indices: 41704388--41704898 Score: 708
Period size: 271 Copynumber: 1.9 Consensus size: 266
41704378 ATCTTGTGAC
41704388 TTTTTGGCAAATTGCATTGCTTTTCACTCTCTTTCCTCAGCCTGTCCCTTACAAAAAAAAAGAAG
1 TTTTTGGCAAATTGCATT-CTTTTCACTCTCTTTCCTCAGCCTGTCCCTTAC---AAAAAAGAAG
* * *
41704453 AAGAAAATTACATTTCATTCTTTATTACTTTCTGAGAAATTGCTAATGTCAAATGATCAATTGAT
62 AAGAAAATTACATTTCATTCTTTATTACTTTCTGAGAAATTGCTAATGTCAAATGATCAACTAAG
* * * *
41704518 ACTGTTTTCCCTTTACTCTTTTTTTTTACATGTTTTGGAACTAATATTGATTTGTTTCATTTTAA
127 ACTCTTTTCCCTTTACTCTTTTTTTTTACATATTTTGGAAATAATATTGATTTGTTTAATTTTAA
41704583 ATGTTAATTGTTGTTTGGACTCTAAGAAAGCGTGGGAAAATCTTGAGAAAGTGCGGGAAAATATT
192 ATGTTAATTGTTGTTTGGACTCTAAGAAAGCGTGGGAAAATCTTGAGAAAGTGCGGGAAAATATT
41704648 TTAACTTTTT
257 TTAACTTTTT
* * * *
41704658 TTTTTTGCAAATTGTATT-TTTTCACTCTCTTTTCTCAGCTTGTCCCTTAC-AAAAA-AA-AA-A
1 TTTTTGGCAAATTGCATTCTTTTCACTCTCTTTCCTCAGCCTGTCCCTTACAAAAAAGAAGAAGA
**
41704718 ATCTTACATTTCATTCTTTATTACTTTCTGAGAAATTGCTAATGTCAAATGATCAACTAAGACTT
66 AAATTACATTTCATTCTTTATTACTTTCTGAGAAATTGCTAATGTCAAATGATCAACTAAGAC--
* * *
41704783 TACTTTTCCCTTAAATTCTTTTTTATTGTTTTTGCATATTTTGGAAATAATATTGATTTGTTTAA
129 T-CTTTTCCCTT---TAC--TCTT-TT-TTTTTACATATTTTGGAAATAATATTGATTTGTTTAA
*
41704848 TTTTGAATGTTAATTGTTGTTTGGACTCTAAGAAAGCGTGGGAAAATCTTG
186 TTTTAAATGTTAATTGTTGTTTGGACTCTAAGAAAGCGTGGGAAAATCTTG
41704899 TAACTTCTTT
Statistics
Matches: 214, Mismatches: 17, Indels: 19
0.86 0.07 0.08
Matches are distributed among these distances:
261 59 0.28
262 2 0.01
263 3 0.01
264 14 0.07
267 2 0.01
268 30 0.14
269 3 0.01
270 18 0.08
271 83 0.39
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (266 bp):
TTTTTGGCAAATTGCATTCTTTTCACTCTCTTTCCTCAGCCTGTCCCTTACAAAAAAGAAGAAGA
AAATTACATTTCATTCTTTATTACTTTCTGAGAAATTGCTAATGTCAAATGATCAACTAAGACTC
TTTTCCCTTTACTCTTTTTTTTTACATATTTTGGAAATAATATTGATTTGTTTAATTTTAAATGT
TAATTGTTGTTTGGACTCTAAGAAAGCGTGGGAAAATCTTGAGAAAGTGCGGGAAAATATTTTAA
CTTTTT
Found at i:41707665 original size:38 final size:38
Alignment explanation
Indices: 41707614--41707764 Score: 266
Period size: 38 Copynumber: 4.0 Consensus size: 38
41707604 GTCAACTCCT
41707614 TGACCCTTTTAAAGAATCCTATCAATTATCCGTATTCA
1 TGACCCTTTTAAAGAATCCTATCAATTATCCGTATTCA
*
41707652 TGACCCTTTTAAAGAATCCTATCAATTATCAGTATTCA
1 TGACCCTTTTAAAGAATCCTATCAATTATCCGTATTCA
* *
41707690 TGACCCTTTTAAAGAATCCTGTCAATTATCCATATTCA
1 TGACCCTTTTAAAGAATCCTATCAATTATCCGTATTCA
*
41707728 TGACCCTTTTAAAGAATCCTATCAATTATCTGTATTC
1 TGACCCTTTTAAAGAATCCTATCAATTATCCGTATTC
41707765 GTGATCGGGT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 106 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (38 bp):
TGACCCTTTTAAAGAATCCTATCAATTATCCGTATTCA
Found at i:41715918 original size:3 final size:3
Alignment explanation
Indices: 41715910--41715949 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
41715900 GATATAGTAT
41715910 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
41715950 CGTGAGTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:41716986 original size:74 final size:74
Alignment explanation
Indices: 41716865--41717012 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
41716855 TCATATAACT
* *
41716865 GATGAAATAATCATTGAGTGACAAGTAAAGTTGATGTTGATGTATAGTGATCAATTTTTAACTAT
1 GATGAAATAATCATTGAGTGACAAGTAAAGCTGATGTTGATGTATAGTAATCAATTTTTAACTAT
41716930 AGAACAGAA
66 AGAACAGAA
41716939 GATGAAATAATCATTGAGTGACAAGTAAAGCTGATGTTGATGTATAGTAATCAATTTTTAACTAT
1 GATGAAATAATCATTGAGTGACAAGTAAAGCTGATGTTGATGTATAGTAATCAATTTTTAACTAT
41717004 AGAACAGAA
66 AGAACAGAA
41717013 AAATCAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (74 bp):
GATGAAATAATCATTGAGTGACAAGTAAAGCTGATGTTGATGTATAGTAATCAATTTTTAACTAT
AGAACAGAA
Found at i:41723028 original size:19 final size:19
Alignment explanation
Indices: 41723013--41723060 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
41723003 TAAATAAATT
41723013 ATTAAAAATTTCATAAAAA
1 ATTAAAAATTTCATAAAAA
*
41723032 ATTAAAAATTTCATTATAAA
1 ATTAAAAATTTCA-TAAAAA
41723052 ATATAAAAA
1 AT-TAAAAA
41723061 ATAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 13 0.50
20 7 0.27
21 6 0.23
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAATTTCATAAAAA
Found at i:41732219 original size:7 final size:7
Alignment explanation
Indices: 41732207--41732233 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
41732197 GGACCCTGAG
41732207 CATGGTC
1 CATGGTC
41732214 CATGGTC
1 CATGGTC
41732221 CATGGTC
1 CATGGTC
41732228 CATGGT
1 CATGGT
41732234 GCAGGATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.30
Consensus pattern (7 bp):
CATGGTC
Found at i:41746207 original size:15 final size:16
Alignment explanation
Indices: 41746172--41746210 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
41746162 AAAATTAAAA
41746172 TATAATTTATCATTTT
1 TATAATTTATCATTTT
*
41746188 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
41746203 TATAATTT
1 TATAATTT
41746211 TTTAAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:41747560 original size:106 final size:106
Alignment explanation
Indices: 41747370--41747561 Score: 244
Period size: 106 Copynumber: 1.8 Consensus size: 106
41747360 ATTGTTTTAT
** *
41747370 AACTCTTTTGGATGAGCGTTTACATCCAGTGTAGTATGTTTAACTTTTTTTTTGTCTCATGCTAC
1 AACTCTTTTGGATGAGCGTTTACATCCAGTGTAGTACATTTAACTTTTTTTTTGTCTCACGCTAC
*
41747435 AATATTTAATCTCATTGTCACCGCTGTTTTTATACTAATCC
66 AATATTTAATCTCACTGTCACCGCTGTTTTTATACTAATCC
* * * * * *
41747476 AACTCTTTTGGATGAGTGTTTACCTCTAGTGCT-GTGCATTTAGCTTTGTTTTTT-TCTCACGTT
1 AACTCTTTTGGATGAGCGTTTACATCCAGTG-TAGTACATTTAACTTT-TTTTTTGTCTCACGCT
* *
41747539 ACAGTATTTAATCTTACTGTCAC
64 ACAATATTTAATCTCACTGTCAC
41747562 TATTTTTTAC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
106 65 0.90
107 7 0.10
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.46
Consensus pattern (106 bp):
AACTCTTTTGGATGAGCGTTTACATCCAGTGTAGTACATTTAACTTTTTTTTTGTCTCACGCTAC
AATATTTAATCTCACTGTCACCGCTGTTTTTATACTAATCC
Found at i:41748603 original size:30 final size:28
Alignment explanation
Indices: 41748563--41748635 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
41748553 TTTTATTTAT
* *
41748563 TTTATTTTAAAAAATGGGTAAATTAGTCA
1 TTTATGTTAAAAAAT-GGCAAATTAGTCA
*
41748592 TTATATGTTAAATTAAATGGCAAATTAGTTA
1 TT-TATGTTAAA--AAATGGCAAATTAGTCA
41748623 TTTATGTTAAAAA
1 TTTATGTTAAAAA
41748636 TTTCATTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.05
29 2 0.05
30 17 0.45
31 13 0.34
32 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (28 bp):
TTTATGTTAAAAAATGGCAAATTAGTCA
Found at i:41750221 original size:12 final size:12
Alignment explanation
Indices: 41750204--41750231 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
41750194 ATTTATGGGT
41750204 TGGATAGGGCTA
1 TGGATAGGGCTA
41750216 TGGATAGGGCTA
1 TGGATAGGGCTA
41750228 TGGA
1 TGGA
41750232 CAGTTCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.43, T:0.25
Consensus pattern (12 bp):
TGGATAGGGCTA
Found at i:41752071 original size:30 final size:29
Alignment explanation
Indices: 41752035--41752091 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
41752025 CTAAAACCTG
*
41752035 AAAAAATAAAAAGATTAAATTCTTAAAAAT
1 AAAAAATAAAAAGACTAAATT-TTAAAAAT
**
41752065 AAAAAATACGAAGACTAAATTTTAAAA
1 AAAAAATAAAAAGACTAAATTTTAAAA
41752092 TTATGAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (29 bp):
AAAAAATAAAAAGACTAAATTTTAAAAAT
Found at i:41754757 original size:2 final size:2
Alignment explanation
Indices: 41754750--41754795 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
41754740 TGCATTGTTC
41754750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41754792 AT AT
1 AT AT
41754796 TTGAGATTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41755171 original size:2 final size:2
Alignment explanation
Indices: 41755164--41755189 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41755154 TGCATTGTTC
41755164 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
41755190 GAGATTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41769359 original size:2 final size:2
Alignment explanation
Indices: 41769352--41769386 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
41769342 AAAACTTTAA
41769352 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
41769387 TTACAGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41771780 original size:26 final size:27
Alignment explanation
Indices: 41771714--41771780 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
41771704 AAAAGCCAAG
**
41771714 TTTAGGTACCTAATTAGGTAAAAAAAA
1 TTTAGGTACCTAATTAGACAAAAAAAA
41771741 -TTAGGTACCTAATTAGACAAAAAAAA
1 TTTAGGTACCTAATTAGACAAAAAAAA
*
41771767 TTTAAGTACC-AATT
1 TTTAGGTACCTAATT
41771781 TAAACATTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 28 0.78
27 8 0.22
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (27 bp):
TTTAGGTACCTAATTAGACAAAAAAAA
Found at i:41772496 original size:32 final size:33
Alignment explanation
Indices: 41772460--41772540 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
41772450 TAATCAGACA
*
41772460 TCTCAAAAATTTTAAAAATTCTC-ATTAAAGCC
1 TCTCAAAAATTTTAAAAATTCTCAATTAAACCC
* * *
41772492 TCTCAAAATTTTTGAAAATTTTCAATTAAACCC
1 TCTCAAAAATTTTAAAAATTCTCAATTAAACCC
* *
41772525 AC-CAAAAATTTGAAAA
1 TCTCAAAAATTTTAAAA
41772541 CTCTTATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 31 0.77
33 9 0.22
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (33 bp):
TCTCAAAAATTTTAAAAATTCTCAATTAAACCC
Found at i:41772568 original size:28 final size:29
Alignment explanation
Indices: 41772502--41772588 Score: 97
Period size: 28 Copynumber: 3.0 Consensus size: 29
41772492 TCTCAAAATT
*
41772502 TTTGAAAATTTTCAATTAAACCCACCAAAAA
1 TTTGAAAACTTT-AATTAAACCC-CCAAAAA
* *
41772533 TTTGAAAACTCTT-ATT-AACCCCTAAAAG
1 TTTGAAAACT-TTAATTAAACCCCCAAAAA
*
41772561 TTTTAAAACTTTAATTAAACCCCCAAAA
1 TTTGAAAACTTTAATTAAACCCCCAAAA
41772589 TTTAATACCG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.04
28 17 0.35
29 15 0.31
30 3 0.06
31 9 0.19
32 2 0.04
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (29 bp):
TTTGAAAACTTTAATTAAACCCCCAAAAA
Found at i:41774472 original size:15 final size:16
Alignment explanation
Indices: 41774441--41774475 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
41774431 TTATTTAATA
*
41774441 TATATTATAATATTTT
1 TATATTATAATAATTT
41774457 TATATT-TAATAATTT
1 TATATTATAATAATTT
41774472 TATA
1 TATA
41774476 CATTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTATAATAATTT
Found at i:41774497 original size:24 final size:23
Alignment explanation
Indices: 41774452--41774509 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
41774442 ATATTATAAT
* *
41774452 ATTTTTATATTTAATAATTTTATAC
1 ATTTTT-TATATAATAACTTTA-AC
*
41774477 ATTTTTTATATAGTAACTTTAAC
1 ATTTTTTATATAATAACTTTAAC
41774500 ATTATTTTAT
1 ATT-TTTTAT
41774510 TATTTTAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.17
24 18 0.62
25 6 0.21
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTTATATAATAACTTTAAC
Found at i:41796816 original size:23 final size:23
Alignment explanation
Indices: 41796786--41796861 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
41796776 ACGCTAGCGC
*
41796786 GCTTACTGTTTCGCACTTTATAT
1 GCTTACTGTTTCGCACTTCATAT
* *
41796809 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTGTTTCGCACTTCATAT
* *
41796832 GCTTACTGTTTCGCACCTCATGT
1 GCTTACTGTTTCGCACTTCATAT
*
41796855 GCCTACT
1 GCTTACT
41796862 AATTTGCGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.42
Consensus pattern (23 bp):
GCTTACTGTTTCGCACTTCATAT
Found at i:41796915 original size:23 final size:23
Alignment explanation
Indices: 41796878--41796930 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
41796868 CGCTATGTGC
41796878 GCCTACT-GATTGCACTGTGCGT
1 GCCTACTGGATTGCACTGTGCGT
*
41796900 GCCTACTGGATTGCACTGTGTGT
1 GCCTACTGGATTGCACTGTGCGT
*
41796923 GCTTACTG
1 GCCTACTG
41796931 TTTCCCCAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (23 bp):
GCCTACTGGATTGCACTGTGCGT
Found at i:41800338 original size:18 final size:17
Alignment explanation
Indices: 41800317--41800375 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
41800307 TTTTCAAAAG
41800317 ATATATTAGTTAATAATA
1 ATATATTA-TTAATAATA
* *
41800335 ATATTATAATAAATAATA
1 ATA-TATTATTAATAATA
*
41800353 ATATTTTATTATATAATA
1 ATATATTATTA-ATAATA
*
41800371 TTATA
1 ATATA
41800376 AAATATAAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 5 0.16
18 23 0.72
19 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATATTATTAATAATA
Found at i:41800381 original size:15 final size:15
Alignment explanation
Indices: 41800332--41800383 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
41800322 TTAGTTAATA
41800332 ATAATATTATAATAAAT
1 ATAATATTAT-A-AAAT
* **
41800349 AATAATATTTTATTAT
1 -ATAATATTATAAAAT
41800365 ATAATATTATAAAAT
1 ATAATATTATAAAAT
41800380 ATAA
1 ATAA
41800384 GAAAAGAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 16 0.57
16 2 0.07
17 1 0.04
18 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATATTATAAAAT
Found at i:41809841 original size:27 final size:28
Alignment explanation
Indices: 41809811--41809865 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
41809801 ATAAAATTGA
*
41809811 ATAATT-AA-ATTATTTTGTAAATTTTTT
1 ATAATTGAAGATTATTTTAT-AATTTTTT
41809838 ATAATTGAATGATTATTTTATAATTTTT
1 ATAATTGAA-GATTATTTTATAATTTTT
41809866 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
29 7 0.29
30 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
ATAATTGAAGATTATTTTATAATTTTTT
Found at i:41812968 original size:78 final size:79
Alignment explanation
Indices: 41812728--41812962 Score: 436
Period size: 79 Copynumber: 3.0 Consensus size: 79
41812718 AAAATCTTTT
*
41812728 GAAATCCCATTAATATATGGTCTAAGAGTCTATTTGGAATTTCTTTTCTATGATGATTTCATTGA
1 GAAATCCCATTAATATATGGTCTAAGAGTCTATTTGGAATTGCTTTTCTATGATGATTTCATTGA
41812793 TATATACTTTTTAG
66 TATATACTTTTTAG
41812807 GAAATCCCATTAATATATGGTCTAAGAGTCTATTTGGAATTGCTTTTCTATGATGATTTCATTGA
1 GAAATCCCATTAATATATGGTCTAAGAGTCTATTTGGAATTGCTTTTCTATGATGATTTCATTGA
41812872 TATATACTTTTTAG
66 TATATACTTTTTAG
*
41812886 GAATTCCCATTAATATATGGTCTAAGAGTCTA-TTGGAATTGCTTTTCTATGATGATTTCATTGA
1 GAAATCCCATTAATATATGGTCTAAGAGTCTATTTGGAATTGCTTTTCTATGATGATTTCATTGA
*
41812950 CATATACTTTTTA
66 TATATACTTTTTA
41812963 TGAATTACTT
Statistics
Matches: 153, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
78 44 0.29
79 109 0.71
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (79 bp):
GAAATCCCATTAATATATGGTCTAAGAGTCTATTTGGAATTGCTTTTCTATGATGATTTCATTGA
TATATACTTTTTAG
Found at i:41815884 original size:2 final size:2
Alignment explanation
Indices: 41815877--41815930 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
41815867 TATGTAAGCA
41815877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41815919 AT AT AT AT AT AT
1 AT AT AT AT AT AT
41815931 TGAATTTCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41819582 original size:20 final size:20
Alignment explanation
Indices: 41819544--41819583 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41819534 CTCATATTAT
*
41819544 TTTAATATATATTACTTTAA
1 TTTAATATATAATACTTTAA
* *
41819564 TTTAATATTTAATATTTTAA
1 TTTAATATATAATACTTTAA
41819584 ATAATTTTAT
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAATATATAATACTTTAA
Found at i:41825733 original size:29 final size:30
Alignment explanation
Indices: 41825679--41825738 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
41825669 AGAATTAGAT
*
41825679 AAAATCAAAATTTCATGTATAAAATTACAC
1 AAAATCAAAAGTTCATGTATAAAATTACAC
* *
41825709 AAAATC-AAAGTTCATGTATACAATTGCAC
1 AAAATCAAAAGTTCATGTATAAAATTACAC
41825738 A
1 A
41825739 TTGAACCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (30 bp):
AAAATCAAAAGTTCATGTATAAAATTACAC
Found at i:41826605 original size:20 final size:20
Alignment explanation
Indices: 41826572--41826620 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
41826562 TTTCCCCTTT
41826572 TTTTTATTTCATTTTGTTGGA
1 TTTTTATTTCATTTT-TTGGA
* *
41826593 TTTTTCTTT-ATTTTTTGGG
1 TTTTTATTTCATTTTTTGGA
41826612 TTTTGTATT
1 TTTT-TATT
41826621 AATTTTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.33
20 8 0.33
21 8 0.33
ACGTcount: A:0.10, C:0.04, G:0.14, T:0.71
Consensus pattern (20 bp):
TTTTTATTTCATTTTTTGGA
Found at i:41826697 original size:31 final size:31
Alignment explanation
Indices: 41826603--41826698 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 31
41826593 TTTTTCTTTA
* *
41826603 TTTTTTGGGTTTTGTATTAATTTTCTATATG
1 TTTTGTGGGTTTTGTATTAATTTTCGATATG
*
41826634 -TCTGATGGGTTTTGTATTAATTTTCGATATG
1 TTTTG-TGGGTTTTGTATTAATTTTCGATATG
*
41826665 TTTTGTGGGTTTTGCATTAATTTTCGATATG
1 TTTTGTGGGTTTTGTATTAATTTTCGATATG
41826696 TTT
1 TTT
41826699 GGTGTTTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
30 2 0.03
31 53 0.91
32 3 0.05
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.58
Consensus pattern (31 bp):
TTTTGTGGGTTTTGTATTAATTTTCGATATG
Found at i:41827335 original size:76 final size:76
Alignment explanation
Indices: 41827209--41827367 Score: 264
Period size: 76 Copynumber: 2.1 Consensus size: 76
41827199 AGTATTGTAA
* **
41827209 AATTGGAACCCCTTTTTGGCCTTAACTTTTGGTTGTAATCTAACTGGTTTTGTCTCAAAACCTTT
1 AATTGGAACCCCATTTTGGCCTTAACTTTTGGTTGTAATCTAACCAGTTTTGTCTCAAAACCTTT
41827274 GTATTATGTGG
66 GTATTATGTGG
*
41827285 AATTGGAACCCCATTTTGGCCTTAACTTTTGGTTGTAATCTAACCAGTTTTGTTTCAAAACCTTT
1 AATTGGAACCCCATTTTGGCCTTAACTTTTGGTTGTAATCTAACCAGTTTTGTCTCAAAACCTTT
* *
41827350 TTGTTATGTGG
66 GTATTATGTGG
41827361 AATTGGA
1 AATTGGA
41827368 TTTCGGAACG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (76 bp):
AATTGGAACCCCATTTTGGCCTTAACTTTTGGTTGTAATCTAACCAGTTTTGTCTCAAAACCTTT
GTATTATGTGG
Found at i:41840883 original size:22 final size:22
Alignment explanation
Indices: 41840837--41840883 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
41840827 ATAAAATTAT
*
41840837 TAAATATTAAAATAATATAATA
1 TAAATATTAAAATAATATAAAA
41840859 TAAATATTTAAAAATAA-A-AAAA
1 TAAATA-TT-AAAATAATATAAAA
41840881 TAA
1 TAA
41840884 TATAAGCGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 12 0.55
23 3 0.14
24 7 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAATATTAAAATAATATAAAA
Found at i:41847112 original size:2 final size:2
Alignment explanation
Indices: 41847107--41847140 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
41847097 TGTGTGTGTG
41847107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41847141 GGCTGATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41849083 original size:34 final size:35
Alignment explanation
Indices: 41849028--41849096 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
41849018 GCAATTTAAT
*
41849028 AATTTATTATTCATCAAATTAACAAAAATCAACAC
1 AATTTATTATGCATCAAATTAACAAAAATCAACAC
*
41849063 AATTTATTGTGCA-CAAATTAACAAAAATCAACAC
1 AATTTATTATGCATCAAATTAACAAAAATCAACAC
41849097 TTCAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 21 0.66
35 11 0.34
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (35 bp):
AATTTATTATGCATCAAATTAACAAAAATCAACAC
Found at i:41858535 original size:31 final size:29
Alignment explanation
Indices: 41858462--41858523 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
41858452 ATTACTAAAT
* *
41858462 TTATATTTTAGTCATTCAACTTTAAAAAA
1 TTATAATTTAGTCATTAAACTTTAAAAAA
*
41858491 TTATAAATTAGTCATTAAACTATTCAAAAAA
1 TTATAATTTAGTCATTAAACT-TT-AAAAAA
41858522 TT
1 TT
41858524 TCATTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 18 0.64
30 2 0.07
31 8 0.29
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (29 bp):
TTATAATTTAGTCATTAAACTTTAAAAAA
Found at i:41865458 original size:15 final size:15
Alignment explanation
Indices: 41865438--41865467 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41865428 GGTGTGTCAC
41865438 GTGCACCTCATTATA
1 GTGCACCTCATTATA
*
41865453 GTGCACTTCATTATA
1 GTGCACCTCATTATA
41865468 ATGTACAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (15 bp):
GTGCACCTCATTATA
Found at i:41874130 original size:6 final size:6
Alignment explanation
Indices: 41874113--41874160 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
41874103 AAACCTTTGT
* *
41874113 ACATGC AAATGC ACATGC AAATGC ACATGC ACATGC ACATGC ACATGC
1 ACATGC ACATGC ACATGC ACATGC ACATGC ACATGC ACATGC ACATGC
41874161 GTGTTCACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (6 bp):
ACATGC
Found at i:41879751 original size:2 final size:2
Alignment explanation
Indices: 41879744--41879768 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41879734 TGCACTGCTA
41879744 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
41879769 AATTTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41881744 original size:16 final size:18
Alignment explanation
Indices: 41881723--41881760 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
41881713 GGATTCACAA
*
41881723 AATTTAAAGTTA-ATTT-
1 AATTTAAAATTATATTTC
41881739 AATTTAAAATTATATTTC
1 AATTTAAAATTATATTTC
41881757 AATT
1 AATT
41881761 CCCTTCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTTAAAATTATATTTC
Found at i:41882864 original size:19 final size:20
Alignment explanation
Indices: 41882821--41882874 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
41882811 AAGCGGTTAA
*
41882821 TAAAAATAATTAAAATTATC
1 TAAAAATAATTAAAATAATC
41882841 T-AAAATAA-TAATAATAAT-
1 TAAAAATAATTAA-AATAATC
*
41882859 TAAAAAACAATTAAAA
1 T-AAAAATAATTAAAA
41882875 CGGTGCCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 9 0.32
21 3 0.11
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATAATTAAAATAATC
Found at i:41897369 original size:21 final size:20
Alignment explanation
Indices: 41897338--41897379 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
41897328 ACACATGAAA
41897338 TTAAAAAAATAACTCTTAAT
1 TTAAAAAAATAACTCTTAAT
41897358 TTAAAGAAAATAACTCTTAAT
1 TTAAA-AAAATAACTCTTAAT
41897379 T
1 T
41897380 ACCTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (20 bp):
TTAAAAAAATAACTCTTAAT
Found at i:41899460 original size:3 final size:3
Alignment explanation
Indices: 41899452--41899498 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
41899442 TTAGTTGCCA
41899452 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
41899499 GATGATGCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:41905735 original size:157 final size:157
Alignment explanation
Indices: 41905449--41905866 Score: 543
Period size: 157 Copynumber: 2.7 Consensus size: 157
41905439 AAGGCAGGAC
* * * *
41905449 GAGTAGCACAATTAGGAAGGACCGGCTTTGATGAGTGAGGGAAGAGTACTTTTATGCTGTTACAT
1 GAGTAGCATAATTAGGAAGGACCGACTTTGATGAGTAAAGGAAGAGTACTTTTATGCTGTTACAT
* *
41905514 AAAAAACAAAGGCAACACGTGGGATTGCTCAAATTATAGAGAAAAACAACTTGTCATCTATGAAA
66 AAAAAACAAAGGCAACATGTGGGATTGCTCAAATTATAGAGAAAAACAACCTGTCATCTATGAAA
*
41905579 A-CTCAGATCTCATTCACAAAGTTGTAT
131 ACCT-AGATCTCATTCACAAAGTTGGAT
*
41905606 GAGTAGCATAATTAGGAAGGACCGCCTTTGATGAGTAAAGGAAGAGTACTTTTATGCTGTTACAT
1 GAGTAGCATAATTAGGAAGGACCGACTTTGATGAGTAAAGGAAGAGTACTTTTATGCTGTTACAT
* * *
41905671 AATAAACAAAGGCAACATGTGGGATTGCTCAAATTATAGGGGAAAACAACCTGTCATCTATGAAA
66 AAAAAACAAAGGCAACATGTGGGATTGCTCAAATTATAGAGAAAAACAACCTGTCATCTATGAAA
*
41905736 GCCTAGATCTCATTCACAAAGTTGGAT
131 ACCTAGATCTCATTCACAAAGTTGGAT
* ** * * * * ** * * *
41905763 GAGTAGCATGATTATCAAAGATCGAGTTCGATGAGTCGATGAAGAGTACTTTTATGC-CTTAGTA
1 GAGTAGCATAATTAGGAAGGACCGACTTTGATGAGTAAAGGAAGAGTACTTTTATGCTGTTA-CA
* * * *
41905827 TAAGAAAACAAAAGCAACATTTAGGATTGCTGAAATTATA
65 TAA-AAAACAAAGGCAACATGTGGGATTGCTCAAATTATA
41905867 AAAGAAAATG
Statistics
Matches: 229, Mismatches: 29, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
156 3 0.01
157 193 0.84
158 33 0.14
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (157 bp):
GAGTAGCATAATTAGGAAGGACCGACTTTGATGAGTAAAGGAAGAGTACTTTTATGCTGTTACAT
AAAAAACAAAGGCAACATGTGGGATTGCTCAAATTATAGAGAAAAACAACCTGTCATCTATGAAA
ACCTAGATCTCATTCACAAAGTTGGAT
Found at i:41907882 original size:31 final size:31
Alignment explanation
Indices: 41907823--41907890 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
41907813 CTTAACAGTC
* * ** *
41907823 CAATGACTTAAATAAAAATTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTGTCAAATAGGT
*
41907854 CAATGACTTAAATGAAAACTGTCAAATAGGT
1 CAATGACTTAAATAAAAACTGTCAAATAGGT
41907885 CAATGA
1 CAATGA
41907891 TCATTTTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTGTCAAATAGGT
Found at i:41908380 original size:9 final size:9
Alignment explanation
Indices: 41908358--41908392 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
41908348 AAAGAAATCC
*
41908358 TAAAACTTT
1 TAAAAATTT
41908367 T-AAAATTT
1 TAAAAATTT
41908375 TAAAAATTT
1 TAAAAATTT
41908384 TAAAAATTT
1 TAAAAATTT
41908393 CAAGTGGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
TAAAAATTT
Found at i:41909018 original size:22 final size:21
Alignment explanation
Indices: 41908992--41909037 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
41908982 GCTATTTTTA
* *
41908992 ATTTTTTATGATTTTTAATTT
1 ATTTTTTATAATTTTAAATTT
*
41909013 ATTTTTTATAATTTTAAAATT
1 ATTTTTTATAATTTTAAATTT
41909034 ATTT
1 ATTT
41909038 ATTGACATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTTTATAATTTTAAATTT
Found at i:41911192 original size:29 final size:31
Alignment explanation
Indices: 41911129--41911194 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
41911119 AGTCCTTATT
*
41911129 TGAATATTTTTATAAAGTTTAAGCCCTTATA
1 TGAATATTTTTATAAAGTTTAAGCCCTTACA
* *
41911160 TGAATA-TTTTA-AAAGGTTT-GGCCCTTACG
1 TGAATATTTTTATAAA-GTTTAAGCCCTTACA
41911189 TGAATA
1 TGAATA
41911195 ATCCCTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 16 0.52
30 9 0.29
31 6 0.19
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (31 bp):
TGAATATTTTTATAAAGTTTAAGCCCTTACA
Found at i:41924248 original size:26 final size:27
Alignment explanation
Indices: 41924211--41924261 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
41924201 TAAAATTTCA
41924211 AATTTCGAAAAGTACAGAGACTAAACC
1 AATTTCGAAAAGTACAGAGACTAAACC
*
41924238 AATTT-GAAAAGTACAGAGCCTAAA
1 AATTTCGAAAAGTACAGAGACTAAA
41924262 ATCGATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (27 bp):
AATTTCGAAAAGTACAGAGACTAAACC
Found at i:41928201 original size:18 final size:18
Alignment explanation
Indices: 41928167--41928201 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41928157 TCACTATCAT
**
41928167 TTTTTTTTATAGTTCAAA
1 TTTTTTTTATAAATCAAA
41928185 TTTTTTTTATAAATCAA
1 TTTTTTTTATAAATCAA
41928202 CTTTGAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTTTTATAAATCAAA
Found at i:41945985 original size:30 final size:32
Alignment explanation
Indices: 41945931--41946001 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 32
41945921 ATTTATAAAA
* *
41945931 TTTTAAATTAATAATGATAAAATTACATTTTAT-
1 TTTTAAA-TAATAATGAAAAAATTA-ATTTAATC
41945964 TTTTAAA-AATAAT-AAAAAATTAATTTAATC
1 TTTTAAATAATAATGAAAAAATTAATTTAATC
41945994 TTTTAAAT
1 TTTTAAAT
41946002 TTTATCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 6 0.18
30 15 0.44
31 6 0.18
33 7 0.21
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (32 bp):
TTTTAAATAATAATGAAAAAATTAATTTAATC
Found at i:41948249 original size:19 final size:21
Alignment explanation
Indices: 41948203--41948254 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
41948193 ACATTTTTTA
41948203 ATATTTATATTATAATATTAT
1 ATATTTATATTATAATATTAT
41948224 ATCTATTT-TATTATAA-ATTAT
1 A--TATTTATATTATAATATTAT
41948245 ATATTATATA
1 ATATT-TATA
41948255 AAATACTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 4 0.15
20 1 0.04
21 9 0.33
22 8 0.30
23 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTATATTATAATATTAT
Found at i:41950929 original size:2 final size:2
Alignment explanation
Indices: 41950884--41950911 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
41950874 TTTATTATTG
41950884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41950912 GTGTGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41954058 original size:19 final size:18
Alignment explanation
Indices: 41954030--41954070 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
41954020 ATTCTATTAA
41954030 CAAAATAATAAAAAAAAT
1 CAAAATAATAAAAAAAAT
* *
41954048 CAAACATAATAAATAAACT
1 CAAA-ATAATAAAAAAAAT
41954067 CAAA
1 CAAA
41954071 TGAAACACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (18 bp):
CAAAATAATAAAAAAAAT
Found at i:41954084 original size:19 final size:19
Alignment explanation
Indices: 41954062--41954102 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
41954052 CATAATAAAT
41954062 AAACTCAAATGAAACACTA
1 AAACTCAAATGAAACACTA
* *
41954081 AAACTCAAATTAAACATTA
1 AAACTCAAATGAAACACTA
41954100 AAA
1 AAA
41954103 AATTAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.20
Consensus pattern (19 bp):
AAACTCAAATGAAACACTA
Found at i:41957109 original size:23 final size:23
Alignment explanation
Indices: 41957064--41957110 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
41957054 GAATATGTTC
* *
41957064 ATGAACATGTTCGATTAAGTTAA
1 ATGAACATGTTCGATGAAATTAA
41957087 ATGAACATGTTC-ATGAACATTAA
1 ATGAACATGTTCGATGAA-ATTAA
41957110 A
1 A
41957111 CAAACGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (23 bp):
ATGAACATGTTCGATGAAATTAA
Found at i:41957521 original size:43 final size:43
Alignment explanation
Indices: 41957469--41957554 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
41957459 ATCATAGAAA
* *
41957469 ATGTTTGATGAAATTAACCCATTATATGTGAACACATGAATAG
1 ATGTTTGATGAAATTAACCCATTATATATGAACACATAAATAG
41957512 ATGTTTGATGAAATTAACCCATTATATATGAACACATAAATAG
1 ATGTTTGATGAAATTAACCCATTATATATGAACACATAAATAG
41957555 TGGTGGGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (43 bp):
ATGTTTGATGAAATTAACCCATTATATATGAACACATAAATAG
Found at i:41958080 original size:24 final size:25
Alignment explanation
Indices: 41958048--41958099 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
41958038 TGAACTTGAT
41958048 ACTTTTTTT-TAATTTGATACCTAA
1 ACTTTTTTTCTAATTTGATACCTAA
*
41958072 ACTTTTTTTACCTAATTTGGTACCTAA
1 ACTTTTTTT--CTAATTTGATACCTAA
41958099 A
1 A
41958100 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 9 0.38
27 15 0.62
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (25 bp):
ACTTTTTTTCTAATTTGATACCTAA
Found at i:41958277 original size:31 final size:30
Alignment explanation
Indices: 41958242--41958433 Score: 130
Period size: 31 Copynumber: 6.4 Consensus size: 30
41958232 TTAAAAAAGA
41958242 TTAGGTACCAAATTAGAAAAAAGACTCAAGT
1 TTAGGTACCAAATTAGAAAAAAGA-TCAAGT
* ***
41958273 TTAGGTACCAAATTGGACCCCAA-A--AAGT
1 TTAGGTACCAAATTAGA-AAAAAGATCAAGT
* * * *
41958301 ATAGGTACCAACTTAAAAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGAAAAAAG-ATCAAGT
*
41958332 TTAGGTACCAAATTA-AGAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGA-AAAAAG-ATCAAGT
* * **
41958363 TT-GAGTATCAAATTGGACCAAA-A--AAGT
1 TTAG-GTACCAAATTAGAAAAAAGATCAAGT
*
41958390 TTAAGTACCAAATTAGAAAAAAGTATCAAGT
1 TTAGGTACCAAATTAGAAAAAAG-ATCAAGT
*
41958421 GTAGGTACCAAAT
1 TTAGGTACCAAAT
41958434 GTTAGGTTAA
Statistics
Matches: 122, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
27 22 0.18
28 17 0.14
29 1 0.01
30 2 0.02
31 77 0.63
32 3 0.02
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (30 bp):
TTAGGTACCAAATTAGAAAAAAGATCAAGT
Found at i:41958341 original size:90 final size:89
Alignment explanation
Indices: 41958242--41958433 Score: 253
Period size: 89 Copynumber: 2.1 Consensus size: 89
41958232 TTAAAAAAGA
* *
41958242 TTAGGTACCAAATT-AGAAAAAAGACTCAAGTTT-AGGTACCAAATTGGACCCCAAAAAGTATAG
1 TTAGGTACCAAATTAAG-AAAAAGACTCAAGTTTGA-GTACCAAATTGGA-CCAAAAAAGTATAA
* *
41958305 GTACCAACTTAAAAAAAAGTGTCAAGT
63 GTACCAAATTAAAAAAAAGTATCAAGT
** * *
41958332 TTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTGAGTATCAAATTGGACCAAAAAAGTTTAAGTA
1 TTAGGTACCAAATTAAGAAAAAGACTCAAGTTTGAGTACCAAATTGGACCAAAAAAGTATAAGTA
*
41958397 CCAAATTAGAAAAAAGTATCAAGT
66 CCAAATTAAAAAAAAGTATCAAGT
*
41958421 GTAGGTACCAAAT
1 TTAGGTACCAAAT
41958434 GTTAGGTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
89 47 0.52
90 40 0.44
91 3 0.03
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (89 bp):
TTAGGTACCAAATTAAGAAAAAGACTCAAGTTTGAGTACCAAATTGGACCAAAAAAGTATAAGTA
CCAAATTAAAAAAAAGTATCAAGT
Found at i:41958525 original size:17 final size:17
Alignment explanation
Indices: 41958477--41958525 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
41958467 GCTCATGAAC
*
41958477 CATAGTTAATTATTTTAT
1 CATA-TTAATTATATTAT
**
41958495 CATAGAAATTATATTAT
1 CATATTAATTATATTAT
*
41958512 CATATTAATAATAT
1 CATATTAATTATAT
41958526 ATTCAATCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (17 bp):
CATATTAATTATATTAT
Found at i:41964791 original size:15 final size:17
Alignment explanation
Indices: 41964766--41964797 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
41964756 TAGGATAAGG
41964766 AAAGCAGAAAG-TTAAA
1 AAAGCAGAAAGATTAAA
41964782 AAAG-AGAAAGATTAAA
1 AAAGCAGAAAGATTAAA
41964798 GAAAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.66, C:0.03, G:0.19, T:0.12
Consensus pattern (17 bp):
AAAGCAGAAAGATTAAA
Found at i:41969395 original size:19 final size:19
Alignment explanation
Indices: 41969363--41969400 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41969353 TTAAAATGCA
*
41969363 ATTTTGAATATTAACAAAT
1 ATTTTGAATATTAAAAAAT
41969382 ATTTTAGAAT-TTAAAAAAT
1 ATTTT-GAATATTAAAAAAT
41969401 GTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTTTGAATATTAAAAAAT
Found at i:41969713 original size:22 final size:22
Alignment explanation
Indices: 41969688--41969733 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
41969678 CTAATTGAAA
41969688 ATATAAAAAAATAAACATAAAT
1 ATATAAAAAAATAAACATAAAT
* *
41969710 ATATAATAATATAAACATAAAT
1 ATATAAAAAAATAAACATAAAT
41969732 AT
1 AT
41969734 CCTTTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (22 bp):
ATATAAAAAAATAAACATAAAT
Found at i:41974543 original size:36 final size:36
Alignment explanation
Indices: 41974496--41974565 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
41974486 ACATTAATAT
41974496 TTGAACCAAATACGGGCACGGAGATATGCCCCTTAC
1 TTGAACCAAATACGGGCACGGAGATATGCCCCTTAC
41974532 TTGAACCAAATACGGGCACGGAGATATGCCCCTT
1 TTGAACCAAATACGGGCACGGAGATATGCCCCTT
41974566 TCTAAATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (36 bp):
TTGAACCAAATACGGGCACGGAGATATGCCCCTTAC
Found at i:41982301 original size:15 final size:14
Alignment explanation
Indices: 41982273--41982323 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
41982263 TTAGGAATTT
41982273 TAAATTTGAAAAATA
1 TAAATTT-AAAAATA
*
41982288 TAAGTATTAAAAATGA
1 TAAAT-TTAAAAAT-A
41982304 TAAATTTAAAGAATA
1 TAAATTTAAA-AATA
41982319 TAAAT
1 TAAAT
41982324 CAAATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 21 0.68
16 10 0.32
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (14 bp):
TAAATTTAAAAATA
Found at i:41985484 original size:15 final size:16
Alignment explanation
Indices: 41985459--41985493 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
41985449 ATTGTATTTG
*
41985459 ACAATTAAACAAATTC
1 ACAATTAAACAAAATC
41985475 ACAA-TAAACAAAATC
1 ACAATTAAACAAAATC
41985490 ACAA
1 ACAA
41985494 AACTAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (16 bp):
ACAATTAAACAAAATC
Found at i:41987327 original size:2 final size:2
Alignment explanation
Indices: 41987320--41987366 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
41987310 ACAAAGGAAA
41987320 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
41987362 AG AG A
1 AG AG A
41987367 CCTTAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41992412 original size:2 final size:2
Alignment explanation
Indices: 41992405--41992429 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41992395 AATAAATTGC
41992405 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
41992430 CAAACACGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42001581 original size:24 final size:24
Alignment explanation
Indices: 42001548--42001608 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
42001538 AGAAATAATC
* * *
42001548 TTTCAGTTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
42001572 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
* *
42001596 TTTGAATCAAACT
1 TTTCAATTAAACT
42001609 ATTATTACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.52
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:42003566 original size:24 final size:24
Alignment explanation
Indices: 42003538--42003600 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
42003528 AGAAATAATT
42003538 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
42003562 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
*
42003586 TTTGAGTTAAACTCT
1 TTTCAGTTAAACTCT
42003601 TATTACTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:42004713 original size:31 final size:31
Alignment explanation
Indices: 42004677--42004761 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
42004667 TGATCATTAT
* * *
42004677 ACTATTTGAAGGTTTTCATTTAAATCATTGA
1 ACTATTTGAAGGTTTTTATTTAAATCACTAA
* * *
42004708 GCTATTT-CAGAGTTTTTATTTAAGTCACTAA
1 ACTATTTGAAG-GTTTTTATTTAAATCACTAA
*
42004739 ACTATTTGAATGTTTTTATTTAA
1 ACTATTTGAAGGTTTTTATTTAA
42004762 TACATTGTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 2 0.05
31 40 0.93
32 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (31 bp):
ACTATTTGAAGGTTTTTATTTAAATCACTAA
Found at i:42020719 original size:2 final size:2
Alignment explanation
Indices: 42020712--42020767 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
42020702 TACCACAAAT
42020712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
42020754 TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA
42020768 ACATTTAACA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:42022978 original size:41 final size:42
Alignment explanation
Indices: 42022927--42023018 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
42022917 AATACAGTAA
42022927 TAAAGTATATTTCAATTTTAAGAAAAAATGTAAATTTAAATAT
1 TAAAG-ATATTTCAATTTTAAGAAAAAATGTAAATTTAAATAT
* * * *
42022970 T-AAGATATTTCACTTTTAAGAGAAAATTTAAATTTAAATTT
1 TAAAGATATTTCAATTTTAAGAAAAAATGTAAATTTAAATAT
42023011 TAAAGATA
1 TAAAGATA
42023019 ATATTATAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 34 0.77
42 9 0.20
43 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (42 bp):
TAAAGATATTTCAATTTTAAGAAAAAATGTAAATTTAAATAT
Found at i:42024526 original size:12 final size:12
Alignment explanation
Indices: 42024509--42024536 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
42024499 ATTTTTTTGT
42024509 TAATCCCAATTA
1 TAATCCCAATTA
42024521 TAATCCCAATTA
1 TAATCCCAATTA
42024533 TAAT
1 TAAT
42024537 TTAGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATCCCAATTA
Found at i:42026898 original size:23 final size:24
Alignment explanation
Indices: 42026859--42026918 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 24
42026849 AAATTTGTGT
**
42026859 ATAAATATATC-GGTTTTTATATA
1 ATAAATATATCAATTTTTTATATA
42026882 ATAAATATATCAATTTTTTTATATA
1 ATAAATATATCAA-TTTTTTATATA
42026907 ACTATAATATAT
1 A-TA-AATATAT
42026919 TCAACAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 11 0.35
25 11 0.35
26 2 0.06
27 7 0.23
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (24 bp):
ATAAATATATCAATTTTTTATATA
Found at i:42027645 original size:61 final size:60
Alignment explanation
Indices: 42027533--42027720 Score: 220
Period size: 60 Copynumber: 3.1 Consensus size: 60
42027523 TAAATTTAGG
* * * * **
42027533 TACCAAATTGAATC-TAAAAAAGGCTTAGGTACCAAATT-AGAAAAAATGTCAAGTTCAGG
1 TACCAAATTGAGTCAAAAAAAAAG-TTAGGTACCAATTTAAGAAAAAATGTCAAGTTCAAA
* * *
42027592 TACCAAATTGGGTCAAAAAAAAAGTTTAGGTACCAATTTAAGAAAAAGTGTCAAGTTGAAA
1 TACCAAATTGAGTCAAAAAAAAAG-TTAGGTACCAATTTAAGAAAAAATGTCAAGTTCAAA
* * *
42027653 TATCAAATTGAGTCAAAAAAAAA-TTAGGTACCAAATTAAAAAAAAATTGTCAAGTTCAAA
1 TACCAAATTGAGTCAAAAAAAAAGTTAGGTACCAATTTAAGAAAAAA-TGTCAAGTTCAAA
42027713 TACCAAAT
1 TACCAAAT
42027721 ATTATGTTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
59 32 0.29
60 39 0.36
61 38 0.35
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.24
Consensus pattern (60 bp):
TACCAAATTGAGTCAAAAAAAAAGTTAGGTACCAATTTAAGAAAAAATGTCAAGTTCAAA
Found at i:42027908 original size:28 final size:28
Alignment explanation
Indices: 42027876--42027938 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
42027866 TTTAAATGGA
* *
42027876 AAAATTTATCTTTTAAAT-TAATAATAGT
1 AAAATTTATATTTTAAATCTAA-AATAAT
42027904 AAAA-TTATATTTTAAATCCTAAAATAAT
1 AAAATTTATATTTTAAAT-CTAAAATAAT
42027932 AAAATTT
1 AAAATTT
42027939 GATTTAACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 12 0.40
28 13 0.43
29 5 0.17
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (28 bp):
AAAATTTATATTTTAAATCTAAAATAAT
Found at i:42029717 original size:62 final size:60
Alignment explanation
Indices: 42029654--42029774 Score: 136
Period size: 62 Copynumber: 1.9 Consensus size: 60
42029644 TTTTTTATAA
*
42029654 TTTTAAATTAATAATAGTAAAATTAAATTTTAATCT-TTTTAAAATATAAAAATTTAATTTAATT
1 TTTTAAA--AATAATAGTAAAATTAAATTTTAA-CTATTATAAAA-ATAAAAATTTAATTTAA-T
* * * * *
42029718 TTTTAAAAATTATAGTGAAATTATATTTTTACTATTATAAAAATTAAAATTTAATTT
1 TTTTAAAAATAATAGTAAAATTAAATTTTAACTATTATAAAAATAAAAATTTAATTT
42029775 TGTCTCCCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
61 16 0.32
62 27 0.54
64 7 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (60 bp):
TTTTAAAAATAATAGTAAAATTAAATTTTAACTATTATAAAAATAAAAATTTAATTTAAT
Found at i:42070610 original size:58 final size:58
Alignment explanation
Indices: 42070502--42070611 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
42070492 ATTTGAATTC
* * *
42070502 TGAATTTGATATTTTTTTTATTTAGGTACTTAAATATTTTGAGGTCCAATTTGGTATA
1 TGAATTTAACATTTTTTTTATTTAGGTACTTAAATATTTTGAAGTCCAATTTGGTATA
* * * *
42070560 TGAATTTAACATTTTTTTTAATTT-GGTACTTAAGTTTTTTTAAGTTCAATTT
1 TGAATTTAACATTTTTTTT-ATTTAGGTACTTAAATATTTTGAAGTCCAATTT
42070612 ATTACTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 40 0.91
59 4 0.09
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (58 bp):
TGAATTTAACATTTTTTTTATTTAGGTACTTAAATATTTTGAAGTCCAATTTGGTATA
Found at i:42070914 original size:35 final size:37
Alignment explanation
Indices: 42070875--42070945 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 37
42070865 ATCATACAAT
* *
42070875 TATTTTTGTTGCCTCGT-AAAAA-ATAACATTGTTAG
1 TATTTTTGCTACCTCGTAAAAAAGATAACATTGTTAG
42070910 TATTTTTGCTACCTCGTAAAAAAGATAACATTGTTA
1 TATTTTTGCTACCTCGTAAAAAAGATAACATTGTTA
42070946 ATATATTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 15 0.47
36 5 0.16
37 12 0.38
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (37 bp):
TATTTTTGCTACCTCGTAAAAAAGATAACATTGTTAG
Found at i:42076050 original size:24 final size:23
Alignment explanation
Indices: 42076022--42076070 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
42076012 TTTATCCGAA
*
42076022 TTTTAT-ATATTTTAATATTTTTAT
1 TTTTATAAT-TTTTAATA-ATTTAT
42076046 TTTTATAATTTTTAATAATTTAT
1 TTTTATAATTTTTAATAATTTAT
42076069 TT
1 TT
42076071 AATTTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 14 0.61
25 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATAATTTTTAATAATTTAT
Done.