Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 86 of 199
Found at i:26174361 original size:13 final size:13
Alignment explanation
Indices: 26174328--26174401 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
26174318 ACTAGCTCTC
26174328 TTTTTTTTTCACAA
1 TTTTTTTTTCA-AA
26174342 TTATTTTTTTTCAAA
1 -T-TTTTTTTTCAAA
*
26174357 TTTTTTTTTCGAA
1 TTTTTTTTTCAAA
**
26174370 TTTTCTTTTT-TGA
1 TTTT-TTTTTCAAA
*
26174383 -TTTTTTTTCGAA
1 TTTTTTTTTCAAA
26174395 TTTTTTT
1 TTTTTTT
26174402 GATTTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.10
12 4 0.08
13 22 0.44
14 6 0.12
15 3 0.06
16 10 0.20
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:26174362 original size:14 final size:14
Alignment explanation
Indices: 26174328--26174380 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 14
26174318 ACTAGCTCTC
26174328 TTTTTTTTTCACAAT
1 TTTTTTTTTCA-AAT
26174343 TATTTTTTTTCAAA-
1 T-TTTTTTTTCAAAT
*
26174357 TTTTTTTTTCGAAT
1 TTTTTTTTTCAAAT
26174371 TTTCTTTTTT
1 TTT-TTTTTT
26174381 GATTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
13 11 0.32
14 4 0.12
15 9 0.26
16 10 0.29
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTTTTTTCAAAT
Found at i:26174372 original size:25 final size:24
Alignment explanation
Indices: 26174344--26174401 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
26174334 TTTCACAATT
26174344 ATTTTTTTTCAAATTTTTTTTTCGA
1 ATTTTTTTTCAAA-TTTTTTTTCGA
***
26174369 ATTTTCTTTTTTGATTTTTTTTCGA
1 ATTTT-TTTTCAAATTTTTTTTCGA
26174394 ATTTTTTT
1 ATTTTTTT
26174402 GATTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.10
25 21 0.72
26 5 0.17
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (24 bp):
ATTTTTTTTCAAATTTTTTTTCGA
Found at i:26174388 original size:10 final size:10
Alignment explanation
Indices: 26174375--26174411 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
26174365 TCGAATTTTC
26174375 TTTTTTGATT
1 TTTTTTGATT
*
26174385 TTTTTTCGAAT
1 TTTTTT-GATT
26174396 TTTTTTGATT
1 TTTTTTGATT
26174406 TTTTTT
1 TTTTTT
26174412 CGAGAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (10 bp):
TTTTTTGATT
Found at i:26174399 original size:21 final size:21
Alignment explanation
Indices: 26174375--26174414 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
26174365 TCGAATTTTC
26174375 TTTTTTGATTTTTTTTCGAAT
1 TTTTTTGATTTTTTTTCGAAT
26174396 TTTTTTGATTTTTTTTCGA
1 TTTTTTGATTTTTTTTCGA
26174415 GAAACTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.72
Consensus pattern (21 bp):
TTTTTTGATTTTTTTTCGAAT
Found at i:26174400 original size:14 final size:14
Alignment explanation
Indices: 26174328--26174401 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
26174318 ACTAGCTCTC
*
26174328 TTTTTTTTTCACAAT
1 TTTTTTTTTC-GAAT
*
26174343 TATTTTTTTTC-AAA
1 T-TTTTTTTTCGAAT
26174357 TTTTTTTTTCGAAT
1 TTTTTTTTTCGAAT
26174371 TTTCTTTTTT-G-A-
1 TTT-TTTTTTCGAAT
26174383 -TTTTTTTTCGAAT
1 TTTTTTTTTCGAAT
26174396 TTTTTT
1 TTTTTT
26174402 GATTTTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
10 6 0.12
11 3 0.06
12 1 0.02
13 10 0.20
14 14 0.28
15 7 0.14
16 9 0.18
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (14 bp):
TTTTTTTTTCGAAT
Found at i:26181106 original size:44 final size:44
Alignment explanation
Indices: 26181058--26181628 Score: 285
Period size: 44 Copynumber: 12.7 Consensus size: 44
26181048 CTAGTAATCC
*
26181058 TATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTAGAGCAGATTAAAATAAAGGATCT
* * * **
26181102 TATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAAATTGAAGCCAAAAATCT
1 TATCTCCCTGAGA-TTACAGTAGAGCAGAT----T-AAAAT--A---AAGGATCT
* ** ** * *
26181156 TATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGTAATCC
1 TATCTCCCTGAGATTACAGTAGAGCAGATT-AAAATAAAG-GATCT
* * *
26181200 TATCTCCCTGAGAATACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTAGAGCAGATTAAAATAAAGGATCT
* * *** *
26181244 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT-CAGG-TCT
1 TATCTCCCTGAGA-TTACAGTAGAGCAGATTAAAATAAAGGATCT
* * *** * *
26181285 TATCTCCCTGAGATTACAGTAGAGCTGA-TAGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGTAGAGCAGATTAAAATAAAG-GATCT
26181329 TATCTCCCTGAGATTACAGTAGAGC-GAATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTAGAGCAG-ATTAAAATAAAGGATCT
* * * *
26181373 TATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAAATCT
1 TATCTCCCTGAGA-TTACAGTAGAGCAGATTA-A--A-A-T-AA---AG-GATCT
* * * * * *
26181427 TATCTTCCTGAGATTACAGTAGAGCAGATTGAAGT-TAGTAATCC
1 TATCTCCCTGAGATTACAGTAGAGCAGATTAAAATAAAG-GATCT
*
26181471 TATCTCCCTGAGATTACAGT-GTAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTAG-AGCAGATTAAAATAAAGGATCT
* * *** *
26181515 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT-CAGG-TCT
1 TATCTCCCTGAGA-TTACAGTAGAGCAGATTAAAATAAAGGATCT
* * *
26181556 TATCTCCCTGAGACTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTAGAGCAGATTAAAATAAAGGATCT
* *
26181600 TATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TATCTCCCTGAGA-TTACAGTAGAGCAGAT
26181629 CGCATCAGGT
Statistics
Matches: 394, Mismatches: 89, Indels: 88
0.69 0.16 0.15
Matches are distributed among these distances:
41 53 0.13
42 13 0.03
43 20 0.05
44 217 0.55
45 13 0.03
47 1 0.00
48 2 0.01
49 6 0.02
50 6 0.02
51 2 0.01
53 3 0.01
54 56 0.14
55 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTAGAGCAGATTAAAATAAAGGATCT
Found at i:26181109 original size:142 final size:142
Alignment explanation
Indices: 26180866--26181551 Score: 1058
Period size: 142 Copynumber: 4.9 Consensus size: 142
26180856 TTTAAGTCAC
*
26180866 AAATCTTATCTCCCTGAGATTACAGCGGAGCATATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * * *
26180931 ATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTACAGTAGACCACATCA
66 ACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
26180996 GATTGAAGCCAG
131 GATTGAAGCCAG
* *
26181008 AAATCTTATCTCCCTAAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
26181073 ACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
66 ACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
* *
26181138 AATTGAAGCCAA
131 GATTGAAGCCAG
* *
26181150 AAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAAT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
26181215 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC-
66 ACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
26181279 ------AG---G
131 GATTGAAGCCAG
** * *
26181282 ---TCTTATCTCCCTGAGATTACAGTAGAGCTGATAGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
*
26181344 ACAGTAGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
66 ACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
26181409 GATTGAAGCCAG
131 GATTGAAGCCAG
* ** *
26181421 AAATCTTATCTTCCTGAGATTACAGTAGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
*
26181486 ACAGT-GTAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
66 ACAGTAG-AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATC
26181550 AG
130 AG
26181552 GTCTTATCTC
Statistics
Matches: 499, Mismatches: 31, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
129 117 0.23
135 2 0.00
136 2 0.00
139 1 0.00
141 1 0.00
142 376 0.75
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (142 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCA
GATTGAAGCCAG
Found at i:26181303 original size:85 final size:85
Alignment explanation
Indices: 26181200--26181648 Score: 397
Period size: 85 Copynumber: 5.1 Consensus size: 85
26181190 CTAGTAATCC
*
26181200 TATCTCCCTGAGAATACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
26181265 GAGTAGATCGCATCAGGTCT
66 GAGTAGATCGCATCAGGTCT
* * * *** * * *
26181285 TATCTCCCTGAGATTACAGTAGAGCTGA-TAGAAGCTAGTAATCCTATCTCCCTG-AGATTACAG
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TTACAG
* *** *
26181348 TAGAG-CGAATTAAAATAAAGGATCT
64 TAGAGTAG-A-TCGCAT-CAGG-TCT
* * ** * *
26181373 TATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAAATCTTATCT-TCCT
1 TATCTCCCTGAGA-TTACAGTGGAGCGGATTA-A--A-A-T-AA---AG-GATCTTATCTCT-CT
* * * * * *
26181436 G-AGATTACAGTAGAGCAGATTGAAGTTAGTAATCC
54 GAAG-TTACAGTAGAGTAGATCGCA-TCAG--GTCT
*
26181471 TATCTCCCTGAGATTACAGTGTAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
26181536 GAGTAGATCGCATCAGGTCT
66 GAGTAGATCGCATCAGGTCT
*
26181556 TATCTCCCTGAGACTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
26181621 GAGTAGATCGCATCAGGTCT
66 GAGTAGATCGCATCAGGTCT
26181641 TATCTCCC
1 TATCTCCC
26181649 CGATCTTGCG
Statistics
Matches: 292, Mismatches: 47, Indels: 50
0.75 0.12 0.13
Matches are distributed among these distances:
84 9 0.03
85 142 0.49
86 3 0.01
87 7 0.02
88 55 0.19
89 6 0.02
92 3 0.01
93 2 0.01
94 1 0.00
95 1 0.00
97 6 0.02
98 55 0.19
99 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCGCATCAGGTCT
Found at i:26181383 original size:129 final size:128
Alignment explanation
Indices: 26181153--26181585 Score: 605
Period size: 129 Copynumber: 3.3 Consensus size: 128
26181143 AAGCCAAAAA
* ** *
26181153 TCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAATACA
1 TCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
26181218 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 GT-GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
* *
26181282 TCTTATCTCCCTGAGATTACAGTAGAGCTGATAGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
26181347 GTAGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
66 GT-GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC----
26181412 TGAAGCCAG
126 ---AG---G
* *
26181421 AAATCTTATCTTCCTGAGATTACAGTAGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATT
1 ---TCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
26181486 ACAGTGTAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
63 ACAGTG-AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
26181551 GG
127 GG
* * *
26181553 TCTTATCTCCCTGAGACTACAGTGGAGCGGATT
1 TCTTATCTCCCTGAGATTACAGTAGAGCAGATT
26181586 AAAATAAAGG
Statistics
Matches: 271, Mismatches: 19, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
129 146 0.54
132 1 0.00
135 2 0.01
136 2 0.01
139 1 0.00
141 1 0.00
142 118 0.44
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:26181499 original size:271 final size:271
Alignment explanation
Indices: 26180866--26181580 Score: 1124
Period size: 271 Copynumber: 2.6 Consensus size: 271
26180856 TTTAAGTCAC
* *
26180866 AAATCTTATCTCCCTGAGATTACAGCGGAGCATATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * * *
26180931 ATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTACAGTAGACCACATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC-
* ** *
26180996 GATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTAT
130 ------AG---G---TCTTATCTCCCTGAGATTACAGTGGAGCAGATAGAAGCTAGTAATCCTAT
*
26181061 CTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
183 CTCCCTGAGATTACAGTAGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
26181126 TAGATCACATCAAATTGAAGCCAA
248 TAGATCACATCAAATTGAAGCCAA
*
26181150 AAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAAT
1 AAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
26181215 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
* *
26181280 GGTCTTATCTCCCTGAGATTACAGTAGAGCTGATAGAAGCTAGTAATCCTATCTCCCTGAGATTA
131 GGTCTTATCTCCCTGAGATTACAGTGGAGCAGATAGAAGCTAGTAATCCTATCTCCCTGAGATTA
*
26181345 CAGTAGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
196 CAGTAGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAA
*
26181410 ATTGAAGCCAG
261 ATTGAAGCCAA
** *
26181421 AAATCTTATCTTCCTGAGATTACAGTAGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
*
26181486 ACAGTGTAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
*
26181551 GGTCTTATCTCCCTGAGACTACAGTGGAGC
131 GGTCTTATCTCCCTGAGATTACAGTGGAGC
26181581 GGATTAAAAT
Statistics
Matches: 408, Mismatches: 23, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
271 283 0.69
274 1 0.00
277 2 0.00
284 122 0.30
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (271 bp):
AAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
GGTCTTATCTCCCTGAGATTACAGTGGAGCAGATAGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTAGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAA
ATTGAAGCCAA
Found at i:26181574 original size:41 final size:41
Alignment explanation
Indices: 26181512--26181648 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
26181502 AAATAAAGGA
*
26181512 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 TCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGG
* * ** *** *
26181553 TCTTATCTCCCTG-AGACTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAG-TTACAGTAGAGTAGA-TCGCAT-CAGG
*
26181596 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGG
26181638 TCTTATCTCCC
1 TCTTATCTCCC
26181649 CGATCTTGCG
Statistics
Matches: 72, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.03
41 33 0.46
42 6 0.08
43 6 0.08
44 23 0.32
45 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:26197261 original size:18 final size:17
Alignment explanation
Indices: 26197234--26197274 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
26197224 AATTTTTTTT
*
26197234 GAAAACAATAATAGAAAA
1 GAAAATAATAATA-AAAA
*
26197252 TAAAATAATAATAAAAA
1 GAAAATAATAATAAAAA
26197269 GAAAAT
1 GAAAAT
26197275 TATTATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (17 bp):
GAAAATAATAATAAAAA
Found at i:26199271 original size:26 final size:28
Alignment explanation
Indices: 26199228--26199282 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
26199218 TAGTTAAAAC
*
26199228 TCTTCTAAAAGAAAACTC-AAGAGAAAT
1 TCTTCTAAAAGAAAACTCAAAAAGAAAT
*
26199255 TCTTC-AAAAGAATACTCAAAAAGAAAT
1 TCTTCTAAAAGAAAACTCAAAAAGAAAT
26199282 T
1 T
26199283 TAATAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (28 bp):
TCTTCTAAAAGAAAACTCAAAAAGAAAT
Found at i:26201017 original size:17 final size:18
Alignment explanation
Indices: 26200974--26201015 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
26200964 ACATTACTTC
*
26200974 TAAAAAATACTTTTAGGA
1 TAAAAAATACTTTTAAGA
26200992 TAAAAAATACTTTTAAGA
1 TAAAAAATACTTTTAAGA
26201010 TAAAAA
1 TAAAAA
26201016 TATTACTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (18 bp):
TAAAAAATACTTTTAAGA
Found at i:26207863 original size:38 final size:38
Alignment explanation
Indices: 26207812--26207888 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
26207802 TTCTTGGAAG
26207812 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
1 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
26207850 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
1 TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
26207888 T
1 T
26207889 CTTTTCCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (38 bp):
TAAAACATTTAATTATCTTAGGGACCACTAATTTACAC
Found at i:26214639 original size:24 final size:24
Alignment explanation
Indices: 26214607--26214652 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
26214597 TTAACCAGTC
*
26214607 TATTGGTACCTAAATTTTTTTTTA
1 TATTGGTACCTAAATATTTTTTTA
*
26214631 TATTGGTACTTAAATATTTTTT
1 TATTGGTACCTAAATATTTTTT
26214653 GGTCACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (24 bp):
TATTGGTACCTAAATATTTTTTTA
Found at i:26220748 original size:9 final size:9
Alignment explanation
Indices: 26220730--26220805 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
26220720 TTTGGTTAAA
*
26220730 AATTAACCG
1 AATTACCCG
26220739 AATTACCCG
1 AATTACCCG
*
26220748 AATTAACCG
1 AATTACCCG
*
26220757 AGTTACCCG
1 AATTACCCG
*
26220766 AATTACCCA
1 AATTACCCG
*
26220775 AATTATCCG
1 AATTACCCG
*
26220784 AATTACTCG
1 AATTACCCG
26220793 AATTACCCG
1 AATTACCCG
26220802 AATT
1 AATT
26220806 GAATCACTAG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:26220850 original size:37 final size:37
Alignment explanation
Indices: 26220804--26220876 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
26220794 ATTACCCGAA
*
26220804 TTGAATCACTAGATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
26220841 TTGAATCACTACATAATTAAAAACATTACATAAGTC
1 TTGAATCACTACATAATTAAAAACATTACATAAGTC
26220877 ATGAAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:26220872 original size:17 final size:17
Alignment explanation
Indices: 26220816--26220873 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
26220806 GAATCACTAG
26220816 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
** * *
26220833 ATAAGTCTTTGAATCACTAC
1 ATAA---TTAAAAACATTAC
26220853 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
26220870 ATAA
1 ATAA
26220874 GTCATGAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
17 17 0.57
20 13 0.43
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAATTAAAAACATTAC
Found at i:26220892 original size:37 final size:37
Alignment explanation
Indices: 26220805--26220895 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
26220795 TTACCCGAAT
* * *
26220805 TGAATCACTAGATAATTAAAAACATTACATAAGTCTT
1 TGAATAACTACATAATTAAAAACATTACATAAGTCTA
*
26220842 TGAATCACTACATAATTAAAAACATTACATAAGTC-A
1 TGAATAACTACATAATTAAAAACATTACATAAGTCTA
26220878 TGAAATTAAC-ACATAATT
1 TG-AA-TAACTACATAATT
26220896 GAAATGTAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 2 0.04
37 44 0.90
38 3 0.06
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (37 bp):
TGAATAACTACATAATTAAAAACATTACATAAGTCTA
Found at i:26226949 original size:20 final size:21
Alignment explanation
Indices: 26226926--26226974 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
26226916 GAGCTCAAAC
* *
26226926 GAGCTGAGTTAA-GCTCATGT
1 GAGCTGAATTAACACTCATGT
*
26226946 GAGCTGAATTAACACTTATGT
1 GAGCTGAATTAACACTCATGT
26226967 GAGCTGAA
1 GAGCTGAA
26226975 CCAATCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (21 bp):
GAGCTGAATTAACACTCATGT
Found at i:26234180 original size:30 final size:29
Alignment explanation
Indices: 26234144--26234353 Score: 195
Period size: 29 Copynumber: 7.2 Consensus size: 29
26234134 GTATGCTAAA
* *
26234144 CGATGGTCGAAACCATCCATTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATAAT
*
26234174 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
26234203 CGAAGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * ** * *
26234232 CTATGGCCGTCACCATCCCTTTTTATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *** *
26234261 CAATGGCCTTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* *
26234290 CAATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* **
26234319 CGATGGTTGTCACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TAAT
26234349 CGATG
1 CGATG
26234354 CTCGTTGATA
Statistics
Matches: 155, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
29 124 0.80
30 31 0.20
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:26253376 original size:20 final size:20
Alignment explanation
Indices: 26253347--26253414 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
26253337 TTGTACGGGA
26253347 TTTACACTTCAGTGTCTCTG
1 TTTACACTTCAGTGTCTCTG
* * * *
26253367 TTTGCACTTCGGTGCCTCTA
1 TTTACACTTCAGTGTCTCTG
* * *
26253387 TATACACTTCAATGTCCCTG
1 TTTACACTTCAGTGTCTCTG
*
26253407 TTCACACT
1 TTTACACT
26253415 ACGGTGCCCC
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.40
Consensus pattern (20 bp):
TTTACACTTCAGTGTCTCTG
Found at i:26253461 original size:20 final size:21
Alignment explanation
Indices: 26253417--26253461 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
26253407 TTCACACTAC
**
26253417 GGTGCCCCTGTTTGCACATTT
1 GGTGCCCCTGTCAGCACATTT
26253438 -GTGCCCCTGTCAGCAC-TTT
1 GGTGCCCCTGTCAGCACATTT
26253457 GGTGC
1 GGTGC
26253462 TTCTGTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.09, C:0.31, G:0.27, T:0.33
Consensus pattern (21 bp):
GGTGCCCCTGTCAGCACATTT
Found at i:26255018 original size:38 final size:38
Alignment explanation
Indices: 26254967--26255042 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
26254957 ACACGGCCGT
*
26254967 GTGACCCTTGTTTTCTAATTTTTGCATGTTTTTCCTAA
1 GTGACCCTTGTTTTCCAATTTTTGCATGTTTTTCCTAA
*
26255005 GTGACCCTTGTTTTCCAATTTTTGTATGTTTTTCCTAA
1 GTGACCCTTGTTTTCCAATTTTTGCATGTTTTTCCTAA
26255043 ACTTTTTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (38 bp):
GTGACCCTTGTTTTCCAATTTTTGCATGTTTTTCCTAA
Found at i:26255833 original size:51 final size:50
Alignment explanation
Indices: 26255718--26255843 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
26255708 TTTTTCATTT
* * * *
26255718 AATGAAGTCATGAATTATGAAACTCTTATGGTAGTTAAGATTGCATCATA
1 AATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAGATTGCATCATA
* * * * *
26255768 AATTATGACATGCATTATGTAACTCTCATGATAGTTAATGTTTGCATCTTA
1 AATGAAGTCATGCATTATGTAACTCTCATGATAGTTAA-GATTGCATCATA
*
26255819 AATGAAGTCATGCATTAAGTAACTC
1 AATGAAGTCATGCATTATGTAACTC
26255844 ATTTGTTCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 31 0.50
51 31 0.50
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (50 bp):
AATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAGATTGCATCATA
Found at i:26257302 original size:25 final size:25
Alignment explanation
Indices: 26257274--26257324 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
26257264 TTGCTTCTAA
26257274 CTGACTGTTGGAAGTGTTCCTTATT
1 CTGACTGTTGGAAGTGTTCCTTATT
26257299 CTGACTGTTGGAAGTGTTCCTTATT
1 CTGACTGTTGGAAGTGTTCCTTATT
26257324 C
1 C
26257325 AGGTCCTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (25 bp):
CTGACTGTTGGAAGTGTTCCTTATT
Found at i:26258005 original size:21 final size:18
Alignment explanation
Indices: 26257977--26258029 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
26257967 AAGAGTTGAT
26257977 AATGAGAGAAAACTAAAAGA
1 AATGAGAGAAAA--AAAAGA
*
26257997 ATTTGAGAGAAGAAAAAAGA
1 A-ATGAGAGAA-AAAAAAGA
26258017 AATGAGAGAAAAA
1 AATGAGAGAAAAA
26258030 GAAATTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 8 0.28
21 8 0.28
22 2 0.07
ACGTcount: A:0.64, C:0.02, G:0.23, T:0.11
Consensus pattern (18 bp):
AATGAGAGAAAAAAAAGA
Found at i:26258056 original size:18 final size:18
Alignment explanation
Indices: 26258023--26258057 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26258013 AAGAAATGAG
*
26258023 AGAAAAAGAAATTGAAAA
1 AGAAAAAGAAAGTGAAAA
*
26258041 AGAAAAAGAGAGTGAAA
1 AGAAAAAGAAAGTGAAA
26258058 GAAAGGAAAG
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:0.69, C:0.00, G:0.23, T:0.09
Consensus pattern (18 bp):
AGAAAAAGAAAGTGAAAA
Found at i:26258061 original size:34 final size:35
Alignment explanation
Indices: 26257991--26258061 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 35
26257981 AGAGAAAACT
* * *
26257991 AAAAGAATTTGAGAGAAGAAAAAAGAAATGAGAGA
1 AAAAGAAATTGAGAAAAGAAAAAAGAAATGAAAGA
*
26258026 AAAAGAAATTGA-AAAAG-AAAAAGAGAGTGAAAGA
1 AAAAGAAATTGAGAAAAGAAAAAAGA-AATGAAAGA
26258060 AA
1 AA
26258062 GGAAAGAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 7 0.23
34 13 0.42
35 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (35 bp):
AAAAGAAATTGAGAAAAGAAAAAAGAAATGAAAGA
Found at i:26258066 original size:27 final size:27
Alignment explanation
Indices: 26258010--26258066 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
26258000 TGAGAGAAGA
* *
26258010 AAAAAGAAATGAGAGAAAAAGAAATTG
1 AAAAAGAAAAGAGAGAAAAAGAAATGG
**
26258037 AAAAAGAAAAAGAGAGTGAAAGAAA-GG
1 AAAAAG-AAAAGAGAGAAAAAGAAATGG
26258064 AAA
1 AAA
26258067 GAGAGATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (27 bp):
AAAAAGAAAAGAGAGAAAAAGAAATGG
Found at i:26260495 original size:22 final size:24
Alignment explanation
Indices: 26260470--26260514 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
26260460 CCATTAACCA
26260470 TTCAACTA-A-ATACCATTACAAG
1 TTCAACTATACATACCATTACAAG
* *
26260492 TTCACCTATACATGCCATTACAA
1 TTCAACTATACATACCATTACAA
26260515 CCTTGGGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (24 bp):
TTCAACTATACATACCATTACAAG
Found at i:26261542 original size:8 final size:8
Alignment explanation
Indices: 26261529--26261557 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
26261519 ATTTTATCTT
26261529 ATTTTACC
1 ATTTTACC
26261537 ATTTTACC
1 ATTTTACC
26261545 ATTTTACC
1 ATTTTACC
26261553 -TTTTA
1 ATTTTA
26261558 AAAACATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTACC
Found at i:26276793 original size:51 final size:50
Alignment explanation
Indices: 26276670--26276804 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 50
26276660 CATAATGTGT
* * *
26276670 TTTGCAT-TT-AATGAAGTCATGAATTATGAAACTCTCATGTTAGTTAAG
1 TTTGCATCTTAAATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAG
* * * *
26276718 TTTGCATCATAAATTATGACATGCATTATGTAACTCTCATGATAGTTAATG
1 TTTGCATCTTAAATGAAGTCATGCATTATGTAACTCTCATGATAGTTAA-G
*
26276769 TTTGCATCTTAAATGAAGTCATGCATTAAGTAACTC
1 TTTGCATCTTAAATGAAGTCATGCATTATGTAACTC
26276805 ATTTGTTCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 7 0.10
49 1 0.01
50 32 0.44
51 32 0.44
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (50 bp):
TTTGCATCTTAAATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAG
Found at i:26285381 original size:13 final size:13
Alignment explanation
Indices: 26285363--26285392 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26285353 TGATTTATTG
26285363 ATTTATTTATCTT
1 ATTTATTTATCTT
*
26285376 ATTTATTTATTTT
1 ATTTATTTATCTT
26285389 ATTT
1 ATTT
26285393 GACTTGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTATTTATCTT
Found at i:26287171 original size:9 final size:9
Alignment explanation
Indices: 26287157--26287186 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
26287147 CCAAGTTCTA
26287157 AAAGGTAAG
1 AAAGGTAAG
26287166 AAAGGTAAG
1 AAAGGTAAG
26287175 AAAGGTAAG
1 AAAGGTAAG
26287184 AAA
1 AAA
26287187 ACATTAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (9 bp):
AAAGGTAAG
Found at i:26300495 original size:15 final size:16
Alignment explanation
Indices: 26300470--26300517 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
26300460 CTAAGATAGT
26300470 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
26300485 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
*
26300501 TGTGATGAG-GGATGA
1 TGAGATGAGAGGATGA
26300516 TG
1 TG
26300518 GATAAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 6 0.21
17 7 0.24
ACGTcount: A:0.33, C:0.00, G:0.48, T:0.19
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:26311408 original size:19 final size:19
Alignment explanation
Indices: 26311380--26311421 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26311370 TGAGAGCTAA
*
26311380 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
* *
26311399 GAGAGATGAGAGGGATGAT
1 GAGAGATGAGAGAGAGGAT
26311418 GAGA
1 GAGA
26311422 TGAGGGATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:26311411 original size:15 final size:16
Alignment explanation
Indices: 26311386--26311438 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 16
26311376 CTAAGAGAGT
26311386 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
26311401 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
26311417 TGAGATGAG-GGATGA
1 TGAGATGAGAGGATGA
26311432 TG-GATGA
1 TGAGATGA
26311439 TGGATAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.26
15 12 0.34
16 6 0.17
17 8 0.23
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:26313089 original size:50 final size:50
Alignment explanation
Indices: 26313026--26313129 Score: 154
Period size: 50 Copynumber: 2.1 Consensus size: 50
26313016 TTATGATATC
* * *
26313026 GTGCGTTTCAAATTATGTGTTAAGTGTCTTGTTCCCAATCGTGAGTCTAT
1 GTGCGTTTAAAATTATGTGTTAAGTGTCGTGTTCCCAATCGTGAGTCTAA
* * *
26313076 GTGCGTTTAAAATTATGTGTTAGGTGTCGTGTTCTCAATTGTGAGTCTAA
1 GTGCGTTTAAAATTATGTGTTAAGTGTCGTGTTCCCAATCGTGAGTCTAA
26313126 GTGC
1 GTGC
26313130 TATCATTAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.41
Consensus pattern (50 bp):
GTGCGTTTAAAATTATGTGTTAAGTGTCGTGTTCCCAATCGTGAGTCTAA
Found at i:26318036 original size:25 final size:26
Alignment explanation
Indices: 26318007--26318068 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
26317997 TTTCAACTCT
26318007 TATGAGCTTACCGATACTCAGCTC-G
1 TATGAGCTTACCGATACTCAGCTCAG
* *
26318032 TATGAGCTTACCGTTATTCAGCTCAG
1 TATGAGCTTACCGATACTCAGCTCAG
*
26318058 -AGGAGCTTACC
1 TATGAGCTTACC
26318069 ATTAACAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (26 bp):
TATGAGCTTACCGATACTCAGCTCAG
Found at i:26325629 original size:16 final size:13
Alignment explanation
Indices: 26325598--26325638 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 13
26325588 AACTAGCTTC
26325598 TTTTTTTCACAAT
1 TTTTTTTCACAAT
26325611 TTTTTTTCACGAAATT
1 TTTTTTTCAC--AA-T
26325627 TTTTTTTCACAA
1 TTTTTTTCACAA
26325639 CTTGATGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 2 0.08
16 11 0.44
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTTTTCACAAT
Found at i:26327241 original size:15 final size:13
Alignment explanation
Indices: 26327209--26327234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26327199 CGTGTATGAC
26327209 ACATGGCCATGTG
1 ACATGGCCATGTG
26327222 ACATGGCCATGTG
1 ACATGGCCATGTG
26327235 TCCCATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGGCCATGTG
Found at i:26329568 original size:17 final size:17
Alignment explanation
Indices: 26329546--26329584 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
26329536 ATATTTTTCT
26329546 CACCACCGTCGGATCGC
1 CACCACCGTCGGATCGC
*
26329563 CACCACCGTCGGATTGC
1 CACCACCGTCGGATCGC
26329580 CACCA
1 CACCA
26329585 TCAGTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.46, G:0.21, T:0.13
Consensus pattern (17 bp):
CACCACCGTCGGATCGC
Found at i:26330717 original size:47 final size:49
Alignment explanation
Indices: 26330653--26330745 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
26330643 GCAGCTTATC
* *
26330653 TGTGATTATGTGGTCG-TTATCGATAATTATGTGGTGGCTTGTCCATAA
1 TGTGATTATGTGGTCGTTTATCGACAATTATGTGCTGGCTTGTCCATAA
* * *
26330701 TGTG-TTATTTGGTCGTTTATCGGCATTTATGTGCTGGCTTGTCCA
1 TGTGATTATGTGGTCGTTTATCGACAATTATGTGCTGGCTTGTCCA
26330746 CAGATGGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 10 0.26
48 29 0.74
ACGTcount: A:0.16, C:0.13, G:0.27, T:0.44
Consensus pattern (49 bp):
TGTGATTATGTGGTCGTTTATCGACAATTATGTGCTGGCTTGTCCATAA
Found at i:26332638 original size:23 final size:23
Alignment explanation
Indices: 26332611--26332703 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
26332601 CAAAAGAGGT
26332611 TAATCAAAATACACCA-AACAGGC
1 TAATCAAAATACACCACAA-AGGC
* * *
26332634 TAATCAGAGTACAGCACAAAGGC
1 TAATCAAAATACACCACAAAGGC
* *** *
26332657 TAATCAGAATGTGCCACAAAGTC
1 TAATCAAAATACACCACAAAGGC
*
26332680 TAATCAAAATACGCCACAAAGGC
1 TAATCAAAATACACCACAAAGGC
26332703 T
1 T
26332704 CTATTTCGAT
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 54 0.96
24 2 0.04
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (23 bp):
TAATCAAAATACACCACAAAGGC
Found at i:26335582 original size:39 final size:39
Alignment explanation
Indices: 26335539--26335876 Score: 430
Period size: 39 Copynumber: 8.6 Consensus size: 39
26335529 TCTATAAACA
* * *
26335539 TGATTATGTGTGTATTGTGATATATGCTTGAATTTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
*
26335578 TGATTATATGAGTATTATGATATATGCTTGAATGTTAT-
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
26335616 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* *
26335655 AGATTATATGAGCATTGTGATATATGCTTGAATGTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * *
26335694 TGATTATATGTGCATTGGTGATATATGCCT-ACATGTTATG
1 TGATTATATGAGTATT-GTGATATATGCTTGA-ATGTTATG
*
26335734 TTATTATATGAGTATTGTGATATATGCTTGAATGTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * *
26335773 TGATTATATGTGTATTAGTGATATATGCCTAAATGTTATG
1 TGATTATATGAGTATT-GTGATATATGCTTGAATGTTATG
* * * *
26335813 TGATTCTATGTA-TATTGTGATATATGCTTAAATGTTCTA
1 TGATTATATG-AGTATTGTGATATATGCTTGAATGTTATG
* * * *
26335852 CGATTATATGTGTAATGCGATATAT
1 TGATTATATGAGTATTGTGATATAT
26335877 ACTTAAAAGT
Statistics
Matches: 264, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
38 37 0.14
39 159 0.60
40 68 0.26
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (39 bp):
TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
Found at i:26335743 original size:79 final size:78
Alignment explanation
Indices: 26335539--26335876 Score: 457
Period size: 79 Copynumber: 4.3 Consensus size: 78
26335529 TCTATAAACA
* * * *
26335539 TGATTATGTGTGTATTGTGATATATGCTTGAATTTTATGTGATTATATGAGTATTATGATATATG
1 TGATTATATGTGTATTGTGATATATGCCTGAATGTTATGTGATTATATGAGTATTGTGATATATG
26335604 CTTGAATGTTAT-
66 CTTGAATGTTATG
* * * *
26335616 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATGAGATTATATGAGCATTGTGATATATG
1 TGATTATATGTGTATTGTGATATATGCCTGAATGTTATGTGATTATATGAGTATTGTGATATATG
26335681 CTTGAATGTTATG
66 CTTGAATGTTATG
* *
26335694 TGATTATATGTGCATTGGTGATATATGCCT-ACATGTTATGTTATTATATGAGTATTGTGATATA
1 TGATTATATGTGTATT-GTGATATATGCCTGA-ATGTTATGTGATTATATGAGTATTGTGATATA
26335758 TGCTTGAATGTTATG
64 TGCTTGAATGTTATG
* *
26335773 TGATTATATGTGTATTAGTGATATATGCCTAAATGTTATGTGATTCTATGTA-TATTGTGATATA
1 TGATTATATGTGTATT-GTGATATATGCCTGAATGTTATGTGATTATATG-AGTATTGTGATATA
* * *
26335837 TGCTTAAATGTTCTA
64 TGCTTGAATGTTATG
* * *
26335852 CGATTATATGTGTAATGCGATATAT
1 TGATTATATGTGTATTGTGATATAT
26335877 ACTTAAAAGT
Statistics
Matches: 234, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
77 71 0.30
78 23 0.10
79 138 0.59
80 2 0.01
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (78 bp):
TGATTATATGTGTATTGTGATATATGCCTGAATGTTATGTGATTATATGAGTATTGTGATATATG
CTTGAATGTTATG
Found at i:26335858 original size:118 final size:116
Alignment explanation
Indices: 26335539--26335876 Score: 444
Period size: 118 Copynumber: 2.9 Consensus size: 116
26335529 TCTATAAACA
* * *
26335539 TGATTATGTGTGTATTGTGATATATGCTTGAATTTTATGTGATTATATG-AGTATTATGATATAT
1 TGATTATATGTGTATTGTGATATATGCTTGAATGTTATGTGATTATATGTA-TATTGTGATATAT
*
26335603 GCTTGAATGTTATTGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
65 GCTTAAATGTTATTGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * * **
26335655 AGATTATATGAGCATTGTGATATATGCTTGAATGTTATGTGATTATATGTGCATTGGTGATATAT
1 TGATTATATGTGTATTGTGATATATGCTTGAATGTTATGTGATTATATGTATATT-GTGATATAT
* * *
26335720 GCCTACATGTTATGTTATTATATGAGTATTGTGATATATGCTTGAATGTTATG
65 GCTTAAATGTTAT-TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * *
26335773 TGATTATATGTGTATTAGTGATATATGCCTAAATGTTATGTGATTCTATGTATATTGTGATATAT
1 TGATTATATGTGTATT-GTGATATATGCTTGAATGTTATGTGATTATATGTATATTGTGATATAT
* * * * *
26335838 GCTTAAATGTTCTACGATTATATGTGTAATGCGATATAT
65 GCTTAAATGTTAT-TGATTATATGAGTATTGTGATATAT
26335877 ACTTAAAAGT
Statistics
Matches: 189, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
116 47 0.25
117 18 0.10
118 90 0.48
119 34 0.18
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (116 bp):
TGATTATATGTGTATTGTGATATATGCTTGAATGTTATGTGATTATATGTATATTGTGATATATG
CTTAAATGTTATTGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
Found at i:26337330 original size:54 final size:54
Alignment explanation
Indices: 26337210--26337358 Score: 230
Period size: 54 Copynumber: 2.8 Consensus size: 54
26337200 CCTTTTCTTT
* *
26337210 TGTTTCTTCCTTCTGTTTCAGTTTAGCTACTTCACAAC--TTAGCTGTTCCTTC
1 TGTTTCTTCCTTCTGTTTCAGTTTAGCTGCTTCACAACTTTTAGCTGTTCCATC
* * *
26337262 TATTTCTTCTTTCTGTTTCAGTTTAGCTGCTTCATAACTTTTAGCTGTTCCATC
1 TGTTTCTTCCTTCTGTTTCAGTTTAGCTGCTTCACAACTTTTAGCTGTTCCATC
26337316 TGTTTCTTCCTTCTGTTTCAGTTTAGCTGCTTCACAACCTTTT
1 TGTTTCTTCCTTCTGTTTCAGTTTAGCTGCTTCACAA-CTTTT
26337359 CTTTTCTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
52 34 0.40
54 47 0.55
55 5 0.06
ACGTcount: A:0.13, C:0.25, G:0.11, T:0.50
Consensus pattern (54 bp):
TGTTTCTTCCTTCTGTTTCAGTTTAGCTGCTTCACAACTTTTAGCTGTTCCATC
Found at i:26344664 original size:29 final size:28
Alignment explanation
Indices: 26344632--26344718 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
26344622 TCATAAGAAC
26344632 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
26344661 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
26344685 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
26344715 ATTT
1 ATTT
26344719 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:26344891 original size:67 final size:66
Alignment explanation
Indices: 26344816--26345028 Score: 150
Period size: 67 Copynumber: 3.2 Consensus size: 66
26344806 ATTATAATGT
26344816 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
26344880 AA
65 AA
* * ** * * * * * * *
26344882 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATGATTA-AATATTTATTATTGATATTAATA-ATCTT
26344942 AATTAAAA
61 -ATT-AAA
* * * *
26344950 TATATTTACTAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATGATT-AAATATTTATTATTGATATTAATAATCTTAT
26345015 TAAA
63 TAAA
26345019 ATTTAAATAA
1 ATTTAAATAA
26345029 CATTAACAAT
Statistics
Matches: 103, Mismatches: 28, Indels: 31
0.64 0.17 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.12
67 23 0.22
68 17 0.17
69 20 0.19
70 18 0.17
71 7 0.07
72 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:26344923 original size:137 final size:138
Alignment explanation
Indices: 26344772--26345193 Score: 436
Period size: 137 Copynumber: 2.9 Consensus size: 138
26344762 TAAGAATATG
* *
26344772 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * *
26344837 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
26344902 TTTCTGCT
131 TTTCTGCT
**** *
26344910 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTACTAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
*
26344974 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAAT
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAAC-A-
*
26345039 AATCATT-TACCAAAAT
129 AAT--TTCT-GC----T
** * ** * * ** * *
26345055 AATT-TTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTAT
1 AATTATTAAG--AATTTTATTAA-ATTA-TATACCA-A-A-ATTAA----AATATATTTAATAAT
26345119 AATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
55 AATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
26345184 ACAATAACAA
120 ACAATAACAA
26345194 TAATCATTTA
Statistics
Matches: 238, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
137 110 0.46
138 6 0.03
139 3 0.01
140 1 0.00
141 3 0.01
145 7 0.03
147 8 0.03
148 3 0.01
149 5 0.02
151 1 0.00
152 4 0.02
154 1 0.00
155 1 0.00
156 85 0.36
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:26344948 original size:18 final size:17
Alignment explanation
Indices: 26344920--26344954 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26344910 AATTATAAGA
*
26344920 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
26344937 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
26344955 TTACTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:26345025 original size:50 final size:51
Alignment explanation
Indices: 26344970--26345183 Score: 122
Period size: 50 Copynumber: 4.2 Consensus size: 51
26344960 AATAATTATG
26344970 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
** * * * * ** *
26345020 TTTAAATAACATTAACAATAATCATTTAC-CAAAATAATTTTCTGCTAATTATAA
1 TTTAAATATGATTAA-AATATTTA-TTACTGATAATAATAATCT--TAATTAAAA
* * * * * * *
26345074 ---GAATTTTATTAAATTATATATT-TTAATTAA-AATATAT-TTAATTATAATTA
1 TTTAAATATGATTAAAATATTTATTACTGA-TAATAATA-ATCTTAATTA-AA--A
26345124 TGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 --TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
26345176 TTTAAATA
1 TTTAAATA
26345184 ACAATAACAA
Statistics
Matches: 115, Mismatches: 30, Indels: 38
0.63 0.16 0.21
Matches are distributed among these distances:
47 6 0.05
48 1 0.01
49 7 0.06
50 29 0.25
51 24 0.21
52 5 0.04
53 1 0.01
54 8 0.07
55 26 0.23
56 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (51 bp):
TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
Found at i:26345078 original size:156 final size:156
Alignment explanation
Indices: 26344896--26345223 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
26344886 AAATAACAAT
* *
26344896 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTACTA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
26344961 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
26345026 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
* *
26345052 AATAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
26345117 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
26345182 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
26345208 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
26345224 GGGTATTCTA
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 165 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:26345104 original size:18 final size:18
Alignment explanation
Indices: 26345076--26345124 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
26345066 AATTATAAGA
26345076 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
26345093 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
26345109 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
26345125 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:26345110 original size:16 final size:16
Alignment explanation
Indices: 26345076--26345130 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
26345066 AATTATAAGA
26345076 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
26345093 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
26345109 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
26345123 ATGTTTAA
1 AT-TTTAA
26345131 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:26345340 original size:44 final size:45
Alignment explanation
Indices: 26345275--26345365 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26345265 ACCTCTATTC
* * *
26345275 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
26345319 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
26345364 CA
1 CA
26345366 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:26345380 original size:17 final size:16
Alignment explanation
Indices: 26345346--26345398 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
26345336 GATTAGCTAT
26345346 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26345362 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
26345379 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26345395 TACA
1 TACA
26345399 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26347760 original size:49 final size:49
Alignment explanation
Indices: 26347641--26347827 Score: 266
Period size: 49 Copynumber: 3.8 Consensus size: 49
26347631 CAAAACTCCA
* * *
26347641 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTGATAACAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGA-AACAC
* *
26347691 TTTGTGGACAAGCCACCACTGATATGCAAATATACTGCCACTGAAGCAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
** *
26347740 TTTAAGGACAAGCCACCACTGATATGCAGATCTACTGCCACTGAAACAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
** *
26347789 TTTGTGGGTAAGCCACCACTGATATGCAGATCTACTGCC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCC
26347828 CACTTACTTC
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 83 0.67
50 40 0.33
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
Found at i:26353383 original size:50 final size:50
Alignment explanation
Indices: 26353325--26353518 Score: 196
Period size: 50 Copynumber: 3.9 Consensus size: 50
26353315 TATTGAGGTT
* * *
26353325 ATGAGAGGTCCGATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
* * * *
26353375 ATGAGAGGTCCCCA-GTAAAACCATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGT-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * *
26353425 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** *
26353474 AGGAAATATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26353519 TGTTATTATA
Statistics
Matches: 118, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 42 0.36
50 72 0.61
51 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:26361728 original size:6 final size:6
Alignment explanation
Indices: 26361717--26361741 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26361707 GTCGAAACCA
26361717 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
26361742 CATAGATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:26367181 original size:19 final size:18
Alignment explanation
Indices: 26367146--26367182 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
26367136 TGATATATAT
26367146 GTTAAATTAAATAAAAAG
1 GTTAAATTAAATAAAAAG
26367164 GTTAATATTATAATAAAAA
1 GTTAA-ATTA-AATAAAAA
26367183 CAAAAGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
GTTAAATTAAATAAAAAG
Found at i:26371463 original size:20 final size:22
Alignment explanation
Indices: 26371425--26371464 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
26371415 AATACAAGTA
26371425 TTTTCATTATGTTTGAGTTAAG
1 TTTTCATTATGTTTGAGTTAAG
*
26371447 TTTTC-TTA-GTTTTAGTTA
1 TTTTCATTATGTTTGAGTTA
26371465 TATTCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 3 0.18
22 5 0.29
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (22 bp):
TTTTCATTATGTTTGAGTTAAG
Found at i:26375199 original size:75 final size:75
Alignment explanation
Indices: 26375076--26375287 Score: 336
Period size: 75 Copynumber: 2.8 Consensus size: 75
26375066 TATCCGTTAT
* *
26375076 CGGT-GGATTCAGCACTTAACAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTTCA
1 CGGTGGGA-TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCA
26375140 CATTTAAGATA
65 CATTTAAGATA
* * *
26375151 CGGTGGGATCAGCACTTAGCAACCACTAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
26375216 ATTTAAGATA
66 ATTTAAGATA
* * *
26375226 CGGTGGAATCAACACTTAGTAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTT
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTT
26375288 ATATTCAATG
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
75 122 0.98
76 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (75 bp):
CGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:26375200 original size:33 final size:33
Alignment explanation
Indices: 26375158--26375282 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
26375148 ATACGGTGGG
26375158 ATCAGCACTTAGCAACCACTAATGATTCGGGGA
1 ATCAGCACTTAGCAACCACTAATGATTCGGGGA
* *
26375191 ATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC-T-A-A--T--GATTCGG-GGA
* * * *
26375233 ATCAACACTTAGTAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACTAATGATTCGGGGA
26375266 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
26375283 CCTTTATATT
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
33 33 0.45
34 8 0.11
35 1 0.01
36 2 0.03
37 1 0.01
38 1 0.01
39 2 0.03
41 9 0.12
42 16 0.22
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACTAATGATTCGGGGA
Found at i:26382557 original size:33 final size:33
Alignment explanation
Indices: 26382500--26382735 Score: 169
Period size: 33 Copynumber: 6.8 Consensus size: 33
26382490 GTTATCCATT
*
26382500 GTCGGTGGATTCAGCACTTAGCAACCACCAATGA
1 GTCGG-GGAATCAGCACTTAGCAACCACCAATGA
* * *
26382534 GTCAGGGAATCAGTACTTAGCAACC-CC--T-C
1 GTCGGGGAATCAGCACTTAGCAACCACCAATGA
* *
26382563 G--GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAA
1 GTCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGA
26382600 GATACGGTGGAATCAGCACTTAGCAACCACCAATGA
1 G-T-CGG-GGAATCAGCACTTAGCAACCACCAATGA
* *
26382636 GTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAA
1 GTCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGA
*
26382675 GATACGGTGGAATCAGCACTTAGCAACCACTAATGA
1 G-T-CGG-GGAATCAGCACTTAGCAACCACCAATGA
*
26382711 ATCGGGGAATCAGCACTTAGCAACC
1 GTCGGGGAATCAGCACTTAGCAACC
26382736 CCCTTTATAT
Statistics
Matches: 163, Mismatches: 15, Indels: 49
0.72 0.07 0.22
Matches are distributed among these distances:
27 20 0.12
28 1 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.01
33 59 0.36
34 10 0.06
35 2 0.01
36 8 0.05
37 2 0.01
38 2 0.01
39 6 0.04
40 1 0.01
41 5 0.03
42 42 0.26
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (33 bp):
GTCGGGGAATCAGCACTTAGCAACCACCAATGA
Found at i:26382625 original size:42 final size:42
Alignment explanation
Indices: 26382566--26382702 Score: 193
Period size: 42 Copynumber: 3.5 Consensus size: 42
26382556 ACCCCTCGGG
26382566 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
* *
26382608 GGAATCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
26382641 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
26382683 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
26382703 ACTAATGAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
33 21 0.26
34 3 0.04
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 3 0.04
42 41 0.50
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
Found at i:26382657 original size:75 final size:75
Alignment explanation
Indices: 26382564--26382737 Score: 330
Period size: 75 Copynumber: 2.3 Consensus size: 75
26382554 CAACCCCTCG
26382564 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
26382629 CCAATGAGTC
66 CCAATGAATC
26382639 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
26382704 CTAATGAATC
66 CCAATGAATC
26382714 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
26382738 CTTTATATTC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 97 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:26383868 original size:3 final size:3
Alignment explanation
Indices: 26383860--26383886 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26383850 TCATAAAAAT
26383860 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
26383887 TTTCCCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:26389262 original size:23 final size:23
Alignment explanation
Indices: 26389233--26389284 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
26389223 AGTACAGTAG
*
26389233 TGCAGATAAACTGCTAATAAATA
1 TGCAGATAAACTGCCAATAAATA
26389256 TGCAGATAAACTGCCAATAAATA
1 TGCAGATAAACTGCCAATAAATA
26389279 TGCAGA
1 TGCAGA
26389285 CAAGCAGTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (23 bp):
TGCAGATAAACTGCCAATAAATA
Found at i:26389296 original size:23 final size:23
Alignment explanation
Indices: 26389233--26389296 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
26389223 AGTACAGTAG
* * *
26389233 TGCAGATAAACTGCTAATAAATA
1 TGCAGACAAACAGCCAATAAATA
* *
26389256 TGCAGATAAACTGCCAATAAATA
1 TGCAGACAAACAGCCAATAAATA
* *
26389279 TGCAGACAAGCAGTCAAT
1 TGCAGACAAACAGCCAAT
26389297 TTCGTGGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (23 bp):
TGCAGACAAACAGCCAATAAATA
Found at i:26389638 original size:41 final size:40
Alignment explanation
Indices: 26389593--26389669 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
26389583 CATGCTTACG
*
26389593 GTAACATATTCAATTCAATGGCATGCTTAAACATGCTCATA
1 GTAACATATTCAATTCAATGGCATACTT-AACATGCTCATA
* * *
26389634 GTAACATATTCAGTTTAATGGCGTACTTAACATGCT
1 GTAACATATTCAATTCAATGGCATACTTAACATGCT
26389670 TATGGTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 8 0.25
41 24 0.75
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (40 bp):
GTAACATATTCAATTCAATGGCATACTTAACATGCTCATA
Found at i:26392112 original size:25 final size:24
Alignment explanation
Indices: 26392055--26392127 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
26392045 CTCCATTCAA
* *
26392055 ACGTCCCATAAAGGACTTTC--AT
1 ACGTCCCATAAAGGGCTCTCATAT
* *
26392077 ACATCCTATAAAGGGGCTCTCATAT
1 ACGTCCCATAAA-GGGCTCTCATAT
*
26392102 ACGTCCCATAAAGGGCACTCATAT
1 ACGTCCCATAAAGGGCTCTCATAT
26392126 AC
1 AC
26392128 TGGCACCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 13 0.32
25 12 0.29
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (24 bp):
ACGTCCCATAAAGGGCTCTCATAT
Found at i:26404345 original size:19 final size:20
Alignment explanation
Indices: 26404298--26404358 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
26404288 GAAAATCATT
*
26404298 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
26404318 TTGAAATCATTTTGACTTG-
1 TTAAAATCATTTTAACTTGA
**
26404337 TTAAAATCATTTGCACTTGA
1 TTAAAATCATTTTAACTTGA
26404357 TT
1 TT
26404359 TTAAAATTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:26409181 original size:4 final size:4
Alignment explanation
Indices: 26409172--26409235 Score: 110
Period size: 4 Copynumber: 16.0 Consensus size: 4
26409162 GGATCCCTTA
* *
26409172 TATG TATG TAAG TAAG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
26409220 TATG TATG TATG TATG
1 TATG TATG TATG TATG
26409236 CATGCATGTC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:26414666 original size:36 final size:36
Alignment explanation
Indices: 26414626--26414699 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
26414616 ATAGAGTTAA
26414626 TATGAAAATATAATAAAGTTCGATTAAGAAATTGGT
1 TATGAAAATATAATAAAGTTCGATTAAGAAATTGGT
26414662 TATGAAAATATAATAAAGTTCGATTAAGAAATTGGT
1 TATGAAAATATAATAAAGTTCGATTAAGAAATTGGT
26414698 TA
1 TA
26414700 ATTAAAGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (36 bp):
TATGAAAATATAATAAAGTTCGATTAAGAAATTGGT
Found at i:26423100 original size:27 final size:27
Alignment explanation
Indices: 26423015--26423102 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
26423005 CATAGTTTCA
* * * *
26423015 ATGGACTATCCCATGTTTATTGTCCCA
1 ATGGACTACCCCGTGTTTACTGTCCCG
* ** **
26423042 ATAGACTACGTCGTGTTTACTGTCTTG
1 ATGGACTACCCCGTGTTTACTGTCCCG
*
26423069 GTGGACTACCCCGTGTTTACTGTCCCG
1 ATGGACTACCCCGTGTTTACTGTCCCG
26423096 ATGGACT
1 ATGGACT
26423103 TTATTGGTCG
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
ATGGACTACCCCGTGTTTACTGTCCCG
Found at i:26425024 original size:30 final size:30
Alignment explanation
Indices: 26424990--26425051 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
26424980 CTTAACAAGA
26424990 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
26425020 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
26425050 AA
1 AA
26425052 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:26425645 original size:50 final size:50
Alignment explanation
Indices: 26425566--26425704 Score: 251
Period size: 50 Copynumber: 2.8 Consensus size: 50
26425556 ACTTAACTTA
* *
26425566 ATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCTTGTCATAATTT
1 ATGATGCAAAC-TTAACTAACACGAGAGTTACATAATGCTTGTCATAATTT
26425617 ATGATGCAAACTTAACTAACACGAGAGTTACATAATGCTTGTCATAATTT
1 ATGATGCAAACTTAACTAACACGAGAGTTACATAATGCTTGTCATAATTT
26425667 ATGATGCAAACTTAACTAACACGAGAGTTACATAATGC
1 ATGATGCAAACTTAACTAACACGAGAGTTACATAATGC
26425705 ATGATTTTAT
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
50 75 0.87
51 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (50 bp):
ATGATGCAAACTTAACTAACACGAGAGTTACATAATGCTTGTCATAATTT
Found at i:26427338 original size:24 final size:25
Alignment explanation
Indices: 26427311--26427380 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
26427301 ATTTTAAAAT
*
26427311 TTTAAAATATAATAATA-AATGATA
1 TTTAAAATATAATAATATAATAATA
*
26427335 TTT-AAATA-ATTTAATATAATAATA
1 TTTAAAATATA-ATAATATAATAATA
* *
26427359 TCTAAAATATAAATAATCTAAT
1 TTTAAAATAT-AATAATATAAT
26427381 TTTTATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 1 0.03
23 10 0.28
24 11 0.31
25 5 0.14
26 8 0.22
27 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (25 bp):
TTTAAAATATAATAATATAATAATA
Found at i:26429694 original size:41 final size:41
Alignment explanation
Indices: 26429644--26429724 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
26429634 ATATTTTATT
*
26429644 TTATGTTTTAGTAGTTTATTAGAAT-AAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAAG-GAATTATTTTCC
26429685 TTATCTTTTAGTAGTTTATTAGAATAAAGGAATTATTTTC
1 TTATCTTTTAGTAGTTTATTAGAATAAAGGAATTATTTTC
26429725 TCAATTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 35 0.92
42 3 0.08
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAAGGAATTATTTTCC
Found at i:26430053 original size:25 final size:25
Alignment explanation
Indices: 26430021--26430077 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
26430011 TGAATTCTTA
26430021 TCTTCCTAACTCATCCAATAATCCT
1 TCTTCCTAACTCATCCAATAATCCT
26430046 TCTTCCTAACTCATCCAATAATCCT
1 TCTTCCTAACTCATCCAATAATCCT
26430071 TCTTCCT
1 TCTTCCT
26430078 CCTTTGCCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.39
Consensus pattern (25 bp):
TCTTCCTAACTCATCCAATAATCCT
Found at i:26433555 original size:41 final size:41
Alignment explanation
Indices: 26433508--26433589 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
26433498 ATATTTTATT
26433508 TTATCTTTTAGTAGTTTACTAGAAAAAGGAAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAGAAAAAGGAAATTATTTTCC
* * *
26433549 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAGAAAAAGGAAATTATTTTCC
26433590 CAATTAGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTACTAGAAAAAGGAAATTATTTTCC
Found at i:26449112 original size:33 final size:33
Alignment explanation
Indices: 26449070--26449135 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
26449060 AGGAGTTTGT
26449070 TTTCCTATTGGAATAGACTTCTACAATTTAACG
1 TTTCCTATTGGAATAGACTTCTACAATTTAACG
26449103 TTTCCTATTGGAATAGACTTCTACAATTTAACG
1 TTTCCTATTGGAATAGACTTCTACAATTTAACG
26449136 AGGGTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
TTTCCTATTGGAATAGACTTCTACAATTTAACG
Found at i:26452296 original size:20 final size:20
Alignment explanation
Indices: 26452271--26452311 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
26452261 TTACTATTAC
26452271 AATTTT-ATTTTAACAATAAT
1 AATTTTAATTTTAA-AATAAT
*
26452291 AATTTTAATTTTTAAATAAT
1 AATTTTAATTTTAAAATAAT
26452311 A
1 A
26452312 TTCTTAGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTAATTTTAAAATAAT
Found at i:26452559 original size:18 final size:17
Alignment explanation
Indices: 26452530--26452567 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
26452520 TTTATATATG
26452530 ATATTAATTATTATAAA
1 ATATTAATTATTATAAA
26452547 ATATTATATTATTATAAA
1 ATATTA-ATTATTATAAA
26452565 ATA
1 ATA
26452568 AATTTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAATTATTATAAA
Found at i:26456576 original size:50 final size:51
Alignment explanation
Indices: 26456499--26456620 Score: 151
Period size: 51 Copynumber: 2.4 Consensus size: 51
26456489 TCTCACATAT
* *
26456499 GAACAGAGTTTGCCTTAGGTCGCAAGACTAGTT-TGTTAAATAGAA-ACAAC
1 GAACAGAGTCTGCCTTAGGTCGCAAGACTAGTTCGGTTAAATAGAAGAC-AC
* * *
26456549 -AGACAGGGTCTGCCTTAGGTCGTAAGACTGGTTCGGTTAAATAGAAGACAC
1 GA-ACAGAGTCTGCCTTAGGTCGCAAGACTAGTTCGGTTAAATAGAAGACAC
*
26456600 GAACAGAGTCTACCTTAGGTC
1 GAACAGAGTCTGCCTTAGGTC
26456621 ACAAAACCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 27 0.44
51 30 0.49
52 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (51 bp):
GAACAGAGTCTGCCTTAGGTCGCAAGACTAGTTCGGTTAAATAGAAGACAC
Found at i:26456633 original size:51 final size:51
Alignment explanation
Indices: 26456533--26456640 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
26456523 AGACTAGTTT
* * ** * *
26456533 GTTAAATAGAAACAACAGACAGGGTCTGCCTTAGGTCGTAAGACTGGTTCG
1 GTTAAATAGAAACAACAGACAGAGTCTACCTTAGGTCACAAAACCGGTTCG
26456584 GTTAAATAGAAGAC-AC-GAACAGAGTCTACCTTAGGTCACAAAACCGGTTCG
1 GTTAAATAGAA-ACAACAG-ACAGAGTCTACCTTAGGTCACAAAACCGGTTCG
*
26456635 ATTAAA
1 GTTAAA
26456641 CAAGAGTCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.02
51 45 0.94
52 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (51 bp):
GTTAAATAGAAACAACAGACAGAGTCTACCTTAGGTCACAAAACCGGTTCG
Found at i:26457525 original size:26 final size:26
Alignment explanation
Indices: 26457474--26457545 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
26457464 GACTATATCA
*
26457474 TTGACTAGCGAACCC-AGTTTGCAAC
1 TTGACTGGCGAACCCTAGTTTGCAAC
26457499 TTGACTGGCGAACCCTAGTTCT-CAAC
1 TTGACTGGCGAACCCTAGTT-TGCAAC
*
26457525 TT-ACTTGGCGAACACTAGTTT
1 TTGAC-TGGCGAACCCTAGTTT
26457546 CCCAAACACA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 17 0.40
26 24 0.57
27 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (26 bp):
TTGACTGGCGAACCCTAGTTTGCAAC
Found at i:26459248 original size:23 final size:23
Alignment explanation
Indices: 26459222--26459265 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
26459212 TTTTTTTGTA
26459222 AAAAACTCGTTTATTAA-GTTTGG
1 AAAAACTC-TTTATTAATGTTTGG
26459245 AAAAACTCTTTATTAATGTTT
1 AAAAACTCTTTATTAATGTTT
26459266 AACAGAACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (23 bp):
AAAAACTCTTTATTAATGTTTGG
Found at i:26460182 original size:27 final size:27
Alignment explanation
Indices: 26460152--26460533 Score: 297
Period size: 27 Copynumber: 13.9 Consensus size: 27
26460142 TATAACAATT
*
26460152 ATTTTACCCTTCGGGGGTATTTCAGTC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
*
26460179 ATTTTACCCTAT-GAGGGTAGTTT-GGTC
1 ATTTTACCCT-TCGGGGGTA-TTTCGGTC
** * *
26460206 ATTTTA-CCTTATAGGGGTAATTCAGTC
1 ATTTTACCCTT-CGGGGGTATTTCGGTC
* * *
26460233 ATTTTAACCTAT-GGGAGTATTTCGATC
1 ATTTTACCCT-TCGGGGGTATTTCGGTC
* * * * * *
26460260 ATTCTACCCTACAGAGGTATTTTGATC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
** * *
26460287 ATTTTACCCTTCAAGGGTTTTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
*
26460314 ATTTTACTCTTC-GGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
* * * * * *
26460340 ATTTTAACCTTTGAGGGTATTTTGATT
1 ATTTTACCCTTCGGGGGTATTTCGGTC
** *
26460367 ATTTTACCCTTCGGAAGTATTTTGGTC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
* * *
26460394 ATTTTACCCTTTGAGGGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
*
26460421 ATTTTACCCTTCGAGGGTAATTCGGTATTTCGGTT
1 ATTTTACCCTTC--GGG------GGTATTTCGGTC
*
26460456 ATTTTACCCTTCGGGGGTATTTCAGTC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
26460483 ATTTTACCCTTCGGGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCGGTC
* *
26460510 ATTTTACCTTTCGAGGGTATTTCG
1 ATTTTACCCTTCGGGGGTATTTCG
26460534 AGAGCTCGTC
Statistics
Matches: 281, Mismatches: 57, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.00
26 25 0.09
27 220 0.78
28 7 0.02
29 3 0.01
33 3 0.01
35 22 0.08
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCGGTC
Found at i:26460210 original size:54 final size:53
Alignment explanation
Indices: 26460152--26460534 Score: 335
Period size: 54 Copynumber: 7.0 Consensus size: 53
26460142 TATAACAATT
* *
26460152 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTAGTTT-GGTC
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCT-TGAGGGTA-TTTCGATC
** * * *
26460206 ATTTTA-CCTTATAGGGGTAATTCAGTCATTTTAACCTATG-GGAGTATTTCGATC
1 ATTTTACCCTT-CGGGGGTATTTCGGTCATTTTACCCT-TGAGG-GTATTTCGATC
* * * * * * * *
26460260 ATTCTACCCTACAGAGGTATTTTGATCATTTTACCCTTCAAGGGTTTTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTT-GAGGGTATTTCGATC
* * * *
26460314 ATTTTACTCTTC-GGGGTATTTCGGTCATTTTAACCTTTGAGGGTATTTTGATT
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTT-ACCCTTGAGGGTATTTCGATC
** *
26460367 ATTTTACCCTTCGGAAGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCC-TTGAGGGTATTTCGATC
* *
26460421 ATTTTACCCTTCGAGGGTAATTCGGTATTTCGGTTATTTTACCCTTCGGGGGTATTTC-AGTC
1 ATTTTACCCTTC--GGG------GGTATTTCGGTCATTTTACCCTT-GAGGGTATTTCGA-TC
*
26460483 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTCGA
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTT-GAGGGTATTTCGA
26460535 GAGCTCGTCG
Statistics
Matches: 267, Mismatches: 42, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
53 51 0.19
54 160 0.60
55 6 0.02
56 2 0.01
60 3 0.01
61 3 0.01
62 42 0.16
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTGAGGGTATTTCGATC
Found at i:26460460 original size:62 final size:62
Alignment explanation
Indices: 26460383--26460532 Score: 183
Period size: 62 Copynumber: 2.5 Consensus size: 62
26460373 CCCTTCGGAA
* *
26460383 GTATTTTGGTCATTTTACCCTTTGAGGGTATTTC-GATCATTTTACCCTTCGAGGGTAATTCG
1 GTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTTCGAGGGTAATTCG
* *
26460445 GTATTTCGGTTATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTC--GGG------G
1 GTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTAATTCG
*
26460499 GTATTTCGGTCATTTTACCTTTCGAGGGTATTTC
1 GTATTTCGGTCATTTTACCCTTCGAGGGTATTTC
26460533 GAGAGCTCGT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
54 32 0.40
60 3 0.04
62 44 0.55
63 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (62 bp):
GTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTAATTCG
Found at i:26460506 original size:89 final size:89
Alignment explanation
Indices: 26460355--26460533 Score: 259
Period size: 89 Copynumber: 2.0 Consensus size: 89
26460345 AACCTTTGAG
* ** *
26460355 GGTATTTTGATTATTTTACCCTTCGGAAGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCGAT
1 GGTATTTCGATTATTTTACCCTTCGGAAGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGAT
26460420 CATTTTACCCTTCGAGGGTAATTC
66 CATTTTACCCTTCGAGGGTAATTC
* ** * *
26460444 GGTATTTCGGTTATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCGGT
1 GGTATTTCGATTATTTTACCCTTCGGAAGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGAT
* *
26460509 CATTTTACCTTTCGAGGGTATTTC
66 CATTTTACCCTTCGAGGGTAATTC
26460533 G
1 G
26460534 AGAGCTCGTC
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (89 bp):
GGTATTTCGATTATTTTACCCTTCGGAAGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGAT
CATTTTACCCTTCGAGGGTAATTC
Found at i:26481700 original size:4 final size:4
Alignment explanation
Indices: 26481686--26481742 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
26481676 ATTAAATCAA
*
26481686 TATG CATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
26481734 TATG TATG T
1 TATG TATG T
26481743 CTATTGTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:26482809 original size:42 final size:42
Alignment explanation
Indices: 26482756--26482932 Score: 214
Period size: 42 Copynumber: 4.2 Consensus size: 42
26482746 GGTTTAGCGC
* *
26482756 CTAGCAGGCTT-ATAGCCAGTGAAACAATATCAGATTTTACTT
1 CTAGCAGGCTTAAT-GCCAGTGAAACAATATCAGACTTTACAT
* * * *
26482798 CTAGTAGGCTTAATGCCAGTGAAATAATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACAT
* *
26482840 CTAGCAGGCTTAATGTCGGTGAAACAATATCAGACTTTACAT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACAT
* * * **
26482882 CTAGCAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACAT
26482923 CTAGCAGGCT
1 CTAGCAGGCT
26482933 AAGTGTCGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 22 0.19
42 94 0.80
43 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACAT
Found at i:26482885 original size:84 final size:83
Alignment explanation
Indices: 26482756--26482943 Score: 254
Period size: 84 Copynumber: 2.3 Consensus size: 83
26482746 GGTTTAGCGC
* * * * *
26482756 CTAGCAGGCTT-ATAGCCAGTGAAACAATATCAGATTTTACTTCTAGTAGGCTTAATGCCAGTGA
1 CTAGCAGGCTTAAT-GTCGGTGAAACAATATCAGACTTTACATCTAGCAGGCTTAATGCCAGTGA
*
26482820 AATAATTTCAGACTTTACGT
65 AA-AATTTCAGACTATACGT
*
26482840 CTAGCAGGCTTAATGTCGGTGAAACAATATCAGACTTTACATCTAGCAGGCTTAATGCCGGTGAA
1 CTAGCAGGCTTAATGTCGGTGAAACAATATCAGACTTTACATCTAGCAGGCTTAATGCCAGTGAA
* *
26482905 ACATTTCAGACTATATGT
66 AAATTTCAGACTATACGT
26482923 CTAGCAGGC-TAAGTGTCGGTG
1 CTAGCAGGCTTAA-TGTCGGTG
26482944 TACTGAATCA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
82 3 0.03
83 31 0.33
84 57 0.61
85 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (83 bp):
CTAGCAGGCTTAATGTCGGTGAAACAATATCAGACTTTACATCTAGCAGGCTTAATGCCAGTGAA
AAATTTCAGACTATACGT
Found at i:26489376 original size:4 final size:4
Alignment explanation
Indices: 26489362--26489423 Score: 106
Period size: 4 Copynumber: 15.5 Consensus size: 4
26489352 ATCAAAATCA
* *
26489362 GTAT TTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
26489410 GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GT
26489424 CTATTGTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:26490521 original size:84 final size:83
Alignment explanation
Indices: 26490380--26490549 Score: 250
Period size: 84 Copynumber: 2.0 Consensus size: 83
26490370 GAGATTTCAA
* * * *
26490380 GCTTATTGCTAGTGAAACAATATTAGGCTTTACGTCTAGCAGGGTTAATGCCGGTGAAATAATTT
1 GCTTAATGCTAGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA-AATTT
*
26490445 CAGACTTTACATCTAGCAG
65 CAGACTATACATCTAGCAG
* *
26490464 GCTTAATGCTGGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTC
1 GCTTAATGCTAGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAAAATTTC
**
26490529 AGACTATATGTCTAGCAG
66 AGACTATACATCTAGCAG
26490547 GCT
1 GCT
26490550 AAGTGCCGGT
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 23 0.30
84 54 0.70
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (83 bp):
GCTTAATGCTAGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAAAATTTC
AGACTATACATCTAGCAG
Found at i:26490543 original size:41 final size:41
Alignment explanation
Indices: 26490407--26490560 Score: 211
Period size: 42 Copynumber: 3.7 Consensus size: 41
26490397 CAATATTAGG
* *
26490407 CTTTACGTCTAGCAGGGTTAATGCCGGTGAAATAATTTCAGA
1 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAA-CATTTCAGA
* * *
26490449 CTTTACATCTAGCAGGCTTAATGCTGGTGAAACAATATCAGA
1 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAAC-ATTTCAGA
26490491 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGA
1 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGA
* *
26490532 CTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CTTTACGTCTAGCAGGCTTAA-TGCCGGTG
26490561 CACTGAATCA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.03
41 30 0.30
42 67 0.67
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
CTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGA
Found at i:26495377 original size:49 final size:49
Alignment explanation
Indices: 26495312--26495405 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
26495302 TACTATGCAA
** *
26495312 TGCTAAACTTGGTCTTCCACTGTCTATACTCTTATCACTATTTATACAT
1 TGCTAAACTTAATCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
26495361 TGCTAAACTTAATCTTCCACTGTTTACACTCTTATCACTATTTAT
1 TGCTAAACTTAATCTTCCACTGTCTACACTCTTATCACTATTTAT
26495406 CCCTTTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (49 bp):
TGCTAAACTTAATCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:26503373 original size:50 final size:50
Alignment explanation
Indices: 26503255--26503487 Score: 249
Period size: 50 Copynumber: 4.7 Consensus size: 50
26503245 TGCCAAAGAT
* * * * * **
26503255 ATGTCCCAGACATAGTCTTACATGGGA-TGTTTCTTGTA-CTGCCAATTCC
1 ATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCTAGGTGCCAACGCC
* * * * * * *
26503304 ATATCCCAGATATTGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGGTGCCAACGCC
** * *
26503354 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGGTGCCAACGCC
*
26503404 ATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGGTGCCAACGCC
*
26503454 ATGTCCCAGACATGGTCTTATATGGGA--TCTCATC
1 ATGTCCCAGACATGGTCTTACATGGGACTTCTCATC
26503488 CTCTTAATGT
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
48 7 0.04
49 30 0.19
50 121 0.77
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGGTGCCAACGCC
Found at i:26521794 original size:50 final size:50
Alignment explanation
Indices: 26521716--26521827 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 50
26521706 ACACACCACG
** * *
26521716 GCTCGTATGAGCTTACCGATTTGTAACTCGTGAAAGCTTATCGATTC-TCA
1 GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCAT-A
* *
26521766 GCTCGTATGAGCTTACTGATTTACAACTCGTGAGAGCATACCGATTCATA
1 GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCATA
26521816 GCTCGTATGAGC
1 GCTCGTATGAGC
26521828 ATACATGTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCATA
Found at i:26521831 original size:25 final size:25
Alignment explanation
Indices: 26521716--26521827 Score: 86
Period size: 25 Copynumber: 4.5 Consensus size: 25
26521706 ACACACCACG
**
26521716 GCTCGTATGAGCTTACCGATTTGTA
1 GCTCGTATGAGCTTACCGATTCATA
* * *
26521741 ACTCGTGA-AAGCTTATCGATTC-TCA
1 GCTCGT-ATGAGCTTACCGATTCAT-A
* * *
26521766 GCTCGTATGAGCTTACTGATTTACA
1 GCTCGTATGAGCTTACCGATTCATA
* *
26521791 ACTCGTGA-GAGCATACCGATTCATA
1 GCTCGT-ATGAGCTTACCGATTCATA
26521816 GCTCGTATGAGC
1 GCTCGTATGAGC
26521828 ATACATGTAC
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
24 3 0.05
25 60 0.92
26 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (25 bp):
GCTCGTATGAGCTTACCGATTCATA
Found at i:26523756 original size:37 final size:38
Alignment explanation
Indices: 26523687--26523759 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
26523677 ATGTGTGGTA
* **
26523687 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
26523725 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
26523760 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:26527166 original size:50 final size:50
Alignment explanation
Indices: 26527099--26527348 Score: 274
Period size: 50 Copynumber: 4.9 Consensus size: 50
26527089 TTTCTTGTAC
* * * ** * *
26527099 TGCCAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTGATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
*
26527149 TGCTC-ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCCCATCTCA-G
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGG
* * * *
26527199 TGCCAACGCCATGTCCCAAATATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
26527249 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCCCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT--C-TCATCT--A-GG
26527305 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTCATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
26527349 CTCTTAATGT
Statistics
Matches: 170, Mismatches: 20, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
49 1 0.01
50 117 0.69
51 6 0.04
52 2 0.01
53 5 0.03
54 1 0.01
56 38 0.22
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:26527216 original size:100 final size:104
Alignment explanation
Indices: 26527099--26527337 Score: 326
Period size: 100 Copynumber: 2.3 Consensus size: 104
26527089 TTTCTTGTAC
* ** *
26527099 TGCCAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTGATATAGGTGCTC-ATGCCATGT
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATAGGACCTCTCATATAGGTGC-CAATGCCATGT
26527163 CCCAGACATGGTCTTACATGGGACCTCCC-ATCTC-A-G-
65 CCCAGACATGGTCTTACATGGGACCTCCCAATCTCAATGA
* * * * *
26527199 TGCCAACGCCATGTCCCAAATATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATAGGACCTCTCATATAGGTGCCAATGCCATGTC
26527264 CCAGACATGGTCTTACATGGGACCTCCCATAATCTCAATGA
66 CCAGACATGGTCTTACATGGGACCTCCC--AATCTCAATGA
*
26527305 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCAGATATGGTCTTACAT
26527338 GGGATCTCAT
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
99 1 0.01
100 82 0.68
103 5 0.04
104 1 0.01
105 1 0.01
106 30 0.25
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (104 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATAGGACCTCTCATATAGGTGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCCCAATCTCAATGA
Found at i:26546850 original size:25 final size:25
Alignment explanation
Indices: 26546787--26546853 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
26546777 GGATACACCA
26546787 CAGCTCGTATGAGCTTACCGATTTG
1 CAGCTCGTATGAGCTTACCGATTTG
** * *
26546812 TGGCTCATGA-GAGCTTACTGATTCT-
1 CAGCTCGT-ATGAGCTTACCGATT-TG
26546837 CAGCTCGTATGAGCTTA
1 CAGCTCGTATGAGCTTA
26546854 TCAATTTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
24 1 0.03
25 29 0.91
26 2 0.06
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTTG
Found at i:26546866 original size:25 final size:25
Alignment explanation
Indices: 26546838--26546904 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
26546828 ACTGATTCTC
*
26546838 AGCTCGTATGAGCTTA-TCAATTTAT
1 AGCTCGTATGAGCATACT-AATTTAT
* * *
26546863 AGCTCATAAGAGCATACTGATTTAT
1 AGCTCGTATGAGCATACTAATTTAT
*
26546888 AGCTTGTATGAGCATAC
1 AGCTCGTATGAGCATAC
26546905 ATGTACAGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (25 bp):
AGCTCGTATGAGCATACTAATTTAT
Found at i:26546900 original size:50 final size:50
Alignment explanation
Indices: 26546787--26546884 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 50
26546777 GGATACACCA
* * * * *
26546787 CAGCTCGTATGAGCTTACCGATTTGTGGCTCATGAGAGCTTACTGATTCT
1 CAGCTCGTATGAGCTTACCAATTTATAGCTCATAAGAGCATACTGATTCT
*
26546837 CAGCTCGTATGAGCTTATCAATTTATAGCTCATAAGAGCATACTGATT
1 CAGCTCGTATGAGCTTACCAATTTATAGCTCATAAGAGCATACTGATT
26546885 TATAGCTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCAATTTATAGCTCATAAGAGCATACTGATTCT
Found at i:26563696 original size:3 final size:3
Alignment explanation
Indices: 26563688--26563718 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26563678 ACCTCTAGTC
26563688 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26563719 CAACAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:26563723 original size:3 final size:3
Alignment explanation
Indices: 26563717--26563747 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
26563707 TAATAATAAT
*
26563717 AAC AAC AAC AAC AAC AAC AAT AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
26563748 GATGGAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:26564825 original size:18 final size:18
Alignment explanation
Indices: 26564802--26564837 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26564792 AAACAAACCA
26564802 TTTGGTCATGGTGAACAT
1 TTTGGTCATGGTGAACAT
26564820 TTTGGTCATGGTGAACAT
1 TTTGGTCATGGTGAACAT
26564838 GTTGAGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (18 bp):
TTTGGTCATGGTGAACAT
Found at i:26568935 original size:20 final size:20
Alignment explanation
Indices: 26568902--26568955 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
26568892 ATACCAACTA
* **
26568902 AAAAATATAAATACTTTTGC
1 AAAAATATAGATACTCATGC
* *
26568922 AAAAATATCGATACTCATGT
1 AAAAATATAGATACTCATGC
*
26568942 AAAAATATTGATAC
1 AAAAATATAGATAC
26568956 CATTAGGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAAATATAGATACTCATGC
Found at i:26579491 original size:50 final size:50
Alignment explanation
Indices: 26579430--26579571 Score: 221
Period size: 50 Copynumber: 2.8 Consensus size: 50
26579420 GATAATAACA
*
26579430 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
26579480 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
26579530 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAACTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
26579572 TTACCCAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:26579943 original size:29 final size:30
Alignment explanation
Indices: 26579909--26579965 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
26579899 CCTTGACTCT
*
26579909 AACTTTTGCAAAATTACGATTTT-CCCCTA
1 AACTTTTACAAAATTACGATTTTGCCCCTA
* *
26579938 AACTTTTACATAATTACGCTTTTGCCCC
1 AACTTTTACAAAATTACGATTTTGCCCC
26579966 AAAGTTCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTTACAAAATTACGATTTTGCCCCTA
Found at i:26584026 original size:24 final size:24
Alignment explanation
Indices: 26583994--26584044 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
26583984 TTTTTCTTCA
*
26583994 GTTTCTCGATCTAAATCAACCTCG
1 GTTTCTCGAACTAAATCAACCTCG
26584018 GTTTCTCGAACTAAATCAACCTCG
1 GTTTCTCGAACTAAATCAACCTCG
26584042 GTT
1 GTT
26584045 AACTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.33
Consensus pattern (24 bp):
GTTTCTCGAACTAAATCAACCTCG
Done.