Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 53 of 310
Found at i:16201321 original size:13 final size:14
Alignment explanation
Indices: 16201303--16201336 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
16201293 GCCACATCTC
16201303 ATATAATAACA-AA
1 ATATAATAACATAA
16201316 ATATAATAACATAA
1 ATATAATAACATAA
*
16201330 AAATAAT
1 ATATAAT
16201337 CGATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
ATATAATAACATAA
Found at i:16209184 original size:168 final size:166
Alignment explanation
Indices: 16208893--16209198 Score: 436
Period size: 168 Copynumber: 1.8 Consensus size: 166
16208883 GCACATTGTC
* * *
16208893 TAGTTCACTGATGCATAAAATTATACGGCGTCACTCTATTTTGTTTTTGGTGGATTAAAATATTG
1 TAGTTCACTGAT-CATAAAATTATAAGGCGTCACTCTATTTTGTTTTTAGTGGATTAAAATATTA
* * * *
16208958 AAAACTTCACCTCCAAGAAAGCACTAATGTTGGAGAATCTTAAGCGACCTAATCAAAGTTGAGAC
65 AAAACTTCACCTCCAAAAAAACACTAATGTTAGAGAATCTTAAGCCACCTAATCAAAGTTGAGAC
16209023 CCAAAACCATTTTTGATTTCTCTGATGGTAAATTATT
130 CCAAAACCATTTTTGATTTCTCTGATGGTAAATTATT
* *
16209060 TAGTTCACTG-T-ATAAAATTATAAGGTGTCACTCTATTTTGCTTGTTTTTATTGGATTAAAATA
1 TAGTTCACTGATCATAAAATTATAAGGCGTCACTCTA--TT--TTGTTTTTAGTGGATTAAAATA
* * *
16209123 TTAAAAACTTCACCTCCAAAAAAACACTAATGTTAGAGAATTTTAGGCCACCTAGTCAAAGTTGA
62 TTAAAAACTTCACCTCCAAAAAAACACTAATGTTAGAGAATCTTAAGCCACCTAATCAAAGTTGA
*
16209188 GGCCCAAAACC
127 GACCCAAAACC
16209199 CTATCTGGTT
Statistics
Matches: 122, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
164 22 0.18
166 3 0.02
167 10 0.08
168 87 0.71
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (166 bp):
TAGTTCACTGATCATAAAATTATAAGGCGTCACTCTATTTTGTTTTTAGTGGATTAAAATATTAA
AAACTTCACCTCCAAAAAAACACTAATGTTAGAGAATCTTAAGCCACCTAATCAAAGTTGAGACC
CAAAACCATTTTTGATTTCTCTGATGGTAAATTATT
Found at i:16215128 original size:41 final size:41
Alignment explanation
Indices: 16215083--16215163 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
16215073 TATTTTAAGA
16215083 TAATTTTATTAAACTATTTTTATTTAAAAATAAATAGATTT
1 TAATTTTATTAAACTATTTTTATTTAAAAATAAATAGATTT
16215124 TAATTTTATTAAACTATTTTTATTTAAAAATAAATAGATT
1 TAATTTTATTAAACTATTTTTATTTAAAAATAAATAGATT
16215164 AACTTACATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (41 bp):
TAATTTTATTAAACTATTTTTATTTAAAAATAAATAGATTT
Found at i:16215218 original size:21 final size:21
Alignment explanation
Indices: 16215175--16215223 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
16215165 ACTTACATGG
*
16215175 TTATTAATAATAAAATACTTT
1 TTATTAATAATAAAATACATT
16215196 TTATTAATAAT-AAATATCATT
1 TTATTAATAATAAAATA-CATT
*
16215217 TTGTTAA
1 TTATTAA
16215224 ATTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
TTATTAATAATAAAATACATT
Found at i:16218555 original size:19 final size:18
Alignment explanation
Indices: 16218517--16218559 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16218507 TAACTTTTTT
16218517 AAATT-TTAAAAAAATAA
1 AAATTATTAAAAAAATAA
*
16218534 AAATTATTAAAAAATTATA
1 AAATTATTAAAAAAATA-A
16218553 AAATTAT
1 AAATTAT
16218560 ACTTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTATTAAAAAAATAA
Found at i:16224719 original size:21 final size:21
Alignment explanation
Indices: 16224693--16224733 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16224683 ATCTGCTCAA
* *
16224693 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16224714 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16224734 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16232021 original size:18 final size:18
Alignment explanation
Indices: 16231998--16232051 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
16231988 CTACCACCAA
16231998 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
16232016 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
16232028 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
16232046 CTCCAC
1 CTCCAC
16232052 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:16232246 original size:23 final size:23
Alignment explanation
Indices: 16232209--16232338 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
16232199 CTTTTTTTGT
*
16232209 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
16232232 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
16232254 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
16232277 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
16232302 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
16232327 TATTATTTATAT
1 TATTATATATAT
16232339 ATATATATAT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:16232302 original size:25 final size:25
Alignment explanation
Indices: 16232274--16232349 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 25
16232264 ATTCTAAATT
*
16232274 CTATATTACGTATATATATATTATA
1 CTATATTATGTATATATATATTATA
* *
16232299 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATT-ATA
*
16232324 CTATATTATTTATATATATATATATA
1 CTATATTATGTATATATATAT-TATA
16232350 TTTTTTACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
24 2 0.05
25 35 0.83
26 4 0.10
27 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (25 bp):
CTATATTATGTATATATATATTATA
Found at i:16232391 original size:22 final size:22
Alignment explanation
Indices: 16232361--16232468 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
16232351 TTTTTACATG
*
16232361 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
16232383 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
16232408 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
16232431 -TATTATGACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
16232451 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
16232469 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:16232417 original size:25 final size:24
Alignment explanation
Indices: 16232367--16232453 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
16232357 CATGTTATCT
*
16232367 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
16232393 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
16232418 TACATA-TTTTTAA-TATTATGACG
1 TATGTATTTTTTAACTA-TATTATG
*
16232441 TATTTATTTTTTA
1 TATGTATTTTTTA
16232454 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:16232426 original size:47 final size:49
Alignment explanation
Indices: 16232333--16232453 Score: 122
Period size: 48 Copynumber: 2.5 Consensus size: 49
16232323 ACTATATTAT
* * * *
16232333 TTATATATATATATATATTTTTTACATGTTATCTTATGTATATA-TTTTAA
1 TTATAT-TATGTATATATTTTTTACA-GCTATATTATGTACATATTTTTAA
*
16232383 TTATATTATGTATGTATTTTTTACA-CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATATTTTTTACAGCTATATTATGTACATATTTTTAA
* * *
16232431 -TATTATGACGTATTTATTTTTTA
1 TTA-TATTATGTATATATTTTTTA
16232454 TATATGTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
47 15 0.25
48 23 0.38
49 17 0.28
50 6 0.10
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.58
Consensus pattern (49 bp):
TTATATTATGTATATATTTTTTACAGCTATATTATGTACATATTTTTAA
Found at i:16232435 original size:20 final size:20
Alignment explanation
Indices: 16232410--16232468 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
16232400 TTTTTACACT
16232410 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
*
16232430 ATATTATG-ACGTATTTATTTTTT
1 ATATTATGTAC--A--TATTTTTA
16232453 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
16232469 ATGTAGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
19 7 0.21
20 8 0.24
21 2 0.06
22 4 0.12
23 12 0.36
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:16232448 original size:23 final size:23
Alignment explanation
Indices: 16232422--16232470 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
16232412 ATTATGTACA
*
16232422 TATTTTTAATATTATG-ACGTATT
1 TATTTTTAATA-TATGTACATATT
*
16232445 TATTTTTTATATATGTACATATT
1 TATTTTTAATATATGTACATATT
16232468 TAT
1 TAT
16232471 GTAGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (23 bp):
TATTTTTAATATATGTACATATT
Found at i:16236383 original size:14 final size:14
Alignment explanation
Indices: 16236364--16236391 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16236354 CGGGAAGACA
16236364 ATTGATATTGTATT
1 ATTGATATTGTATT
16236378 ATTGATATTGTATT
1 ATTGATATTGTATT
16236392 TGACTGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (14 bp):
ATTGATATTGTATT
Found at i:16240345 original size:158 final size:155
Alignment explanation
Indices: 16239873--16240692 Score: 838
Period size: 158 Copynumber: 5.4 Consensus size: 155
16239863 TATGTGGATG
* *
16239873 TTTC-ATTTCTG--TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTCAATTTCTGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
* * * ** * *
16239935 CGTGTTGA-ATCACTTTCAATTTCTGTTTTTATGTCTGTTT-TTTAAATCAACTCATATTGTGGG
66 CGTGCTGAGGT-AATTTCAATTTCTG------T-TCTGTTTGTCAAAATCAACTCATATTGCGAG
*
16239998 AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
123 AGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
* * * * * *
16240031 TTTCAATTCCTGT-TTGT--CAAAAATCAACTCATGTTGCAAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTCAATTTCTGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
* * * ***
16240093 CATGTTGAGGTATTTTCAATTTCTG--CT-TTTCAAAAGAATCAACTCATATTGCGAGAGGTGAG
66 CGTGCTGAGGTAATTTCAATTTCTGTTCTGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGAG
16240155 TTGAGCCTCAGGGCACGCTGAGGTAT
130 TTGAGCCTCAGGGCACGCTGAGGTAT
**** *
16240181 TTTCAATTTCTGTCTCTGTTTGTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCT
1 TTTCAATTTCTGTCT-T-TTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
* * *
16240246 CATGTGCTGAGGTATTTTCAATTTCTGTCTCTGTTTGTCAAAATCAACTCATATTGTGAGAGGTG
64 CACGTGCTGAGGTAATTTCAATTTCTGT-TCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTG
16240311 AGTTGAGCCTCAGGGCACGCTGAGGTAT
128 AGTTGAGCCTCAGGGCACGCTGAGGTAT
* * *
16240339 TTTCAATTTCTGT-TTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--
1 TTTCAATTTCTGTCTTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCT
*
16240401 -AC--GCTGAGGTAATTTCAA--T-T-TT-TGTTTGTCAAAACTCAACTCATATTGCAAGAGGTG
64 CACGTGCTGAGGTAATTTCAATTTCTGTTCTGTTTGTCAAAA-TCAACTCATATTGCGAGAGGTG
* * * *
16240458 AGTTGAGCCTCAAGACATGTTGAGGTAT
128 AGTTGAGCCTCAGGGCACGCTGAGGTAT
* *
16240486 TTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGG---
1 TTTCAATTTCTGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC
* *
16240547 ACATGCTGAGGTAATTTCAA--T-T-TT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGTTGA
65 ACGTGCTGAGGTAATTTCAATTTCTGTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGA
* * *
16240607 GTTGAGCCTCAAGACACGTTGAGGTAT
129 GTTGAGCCTCAGGGCACGCTGAGGTAT
* * *
16240634 TTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGATGTGAGTTGAGCCTC
1 TTTCAATTTCTGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
16240693 AAGACGCTGA
Statistics
Matches: 585, Mismatches: 56, Indels: 51
0.85 0.08 0.07
Matches are distributed among these distances:
146 55 0.09
147 62 0.11
148 92 0.16
149 48 0.08
150 62 0.11
151 1 0.00
152 16 0.03
153 1 0.00
154 1 0.00
155 65 0.11
156 35 0.06
157 2 0.00
158 130 0.22
159 12 0.02
160 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (155 bp):
TTTCAATTTCTGTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
CGTGCTGAGGTAATTTCAATTTCTGTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGGCACGCTGAGGTAT
Found at i:16240608 original size:73 final size:73
Alignment explanation
Indices: 16239978--16240721 Score: 804
Period size: 73 Copynumber: 9.9 Consensus size: 73
16239968 TCTGTTTTTT
* * * * *
16239978 AAATCAACTCATATTGTGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTCCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
16240043 TTTGTCAA
66 TTTGTCAA
* * * * *
16240051 AAATCAACTCATGTTGCAAGAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTTC
16240116 TGCTTT-TCAAA
64 TG-TTTGTC-AA
*
16240127 AGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCT
1 A-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA----T
16240192 GTCTCTGTTTGTC-A
61 -T-TCTGTTTGTCAA
* * *
16240206 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCATGTGCTGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA--CGCTGAGGTATTTTCAA---
16240270 CTGTCTCTGTTTGTC-A
60 -T-T-TCTGTTTGTCAA
* *
16240286 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
*
16240351 TTTTTCAAAAA
66 TTTGTC---AA
* * * * *
16240362 AAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA--AGACGCTGAGGTAATTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
16240425 TTTGTCAA
66 TTTGTCAA
* * * * *
16240433 AACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
*
16240498 TTTTTCAAAA
66 TTTGTC--AA
* * * *
16240508 AAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
16240573 TTTGTCAA
66 TTTGTCAA
* * *
16240581 AAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
16240646 TCTT-TCAAAAA
66 T-TTGTC---AA
* * * * *
16240657 AAATCAGCTCATATTGCGAGATGTGAGTTGAGCCTCA--AGACGCTGAGGTGTTTTCCATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
16240720 TT
66 TT
16240722 CTTCAATTTC
Statistics
Matches: 581, Mismatches: 62, Indels: 56
0.83 0.09 0.08
Matches are distributed among these distances:
71 35 0.06
72 9 0.02
73 126 0.22
74 53 0.09
75 106 0.18
76 77 0.13
77 37 0.06
78 52 0.09
79 3 0.01
80 75 0.13
81 8 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (73 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG
TTTGTCAA
Found at i:16240671 original size:295 final size:304
Alignment explanation
Indices: 16239886--16240727 Score: 948
Period size: 295 Copynumber: 2.8 Consensus size: 304
16239876 CATTTCTGTT
* * * * * *
16239886 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGA-ATCACTT
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCACA-GTGCTGAGGT-AATT
* ** *
16239950 TCAATTTCTGTTTTTATGTCTGTTT-TTTAAATCAACTCATATTGTGGGAGGTGAGTTGAGCCTC
64 TCAA-TTCTG------TCTCTGTTTGTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC
* * * *
16240014 GGGGCACGCTGAGGTATTTTCAATTCCTGTTTGTC---AAAAATCAACTCATGTTGCAAGAGGTG
122 AGGGCACGCTGAGGTATTTTCAATTTCTGTTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTG
** * *
16240076 AGTTGAGCCTCGGGTCACATGTTGAGGTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATA
186 AGTTGAGCCTCAAG--AC--GCTGAGGTAATTTCAATTTCTGCTTTTCAAAAGAATCAACTCATA
* * *
16240141 TTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTCTCTG
247 TTGCAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTCTCTG
**** * *
16240199 TTTGTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCATGTGCTGAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCACA-GTGCTGAGGTAATTT
16240264 CAATTTCTGTCTCTGTTTGTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCAC
65 CAA-TTCTGTCTCTGTTTGTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCAC
* *
16240329 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAA
129 GCTGAGGTATTTTCAATTTCTG-TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
16240394 CCTCAAGACGCTGAGGTAATTTCAATTTTTG-TTTGTC-AAA-ACTCAACTCATATTGCAAGAGG
193 CCTCAAGACGCTGAGGTAATTTCAATTTCTGCTTT-TCAAAAGAATCAACTCATATTGCAAGAGG
* *
16240456 TGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTCTGT-T-T-
257 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTCTCTG
* *
16240501 TTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGG-ACA-TGCTGAGGTAATTT
1 TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCACAGTGCTGAGGTAATTT
* * * *
16240564 CAA-T-T-T-T-TGTTTGTCAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAAGACAC
65 CAATTCTGTCTCTGTTTGTC-AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCAC
* * *
16240624 GTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGATGTGAGTTGAG
129 GCTGAGGTATTTTCAATTTCTGT-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
** *
16240689 CCTCAAGACGCTGAGGTGTTTTCCATTTCTG-TTCTTCAA
193 CCTCAAGACGCTGAGGTAATTTCAATTTCTGCTT-TTCAA
16240728 TTTCTGTGTT
Statistics
Matches: 465, Mismatches: 52, Indels: 41
0.83 0.09 0.07
Matches are distributed among these distances:
294 9 0.02
295 130 0.28
296 3 0.01
297 1 0.00
298 1 0.00
300 16 0.03
302 39 0.08
303 3 0.01
304 1 0.00
305 59 0.13
306 6 0.01
307 29 0.06
308 65 0.14
309 5 0.01
311 35 0.08
313 62 0.13
314 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (304 bp):
TTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCACAGTGCTGAGGTAATTTC
AATTCTGTCTCTGTTTGTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACGCTGAGGTAATTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCAAGAGGTGAG
TTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTCTCTG
Found at i:16240835 original size:15 final size:14
Alignment explanation
Indices: 16240799--16240831 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16240789 CGCTGAGGTA
16240799 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
16240813 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
16240827 TTTTC
1 TTTTC
16240832 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:16240870 original size:91 final size:91
Alignment explanation
Indices: 16240696--16241177 Score: 491
Period size: 91 Copynumber: 5.3 Consensus size: 91
16240686 GAGCCTCAAG
* * * * * * *
16240696 ACGCTGAGGTGTTTTCCATTTCTGTTCTTC-AATTTCTGTGTTTCAAAAAAAATCAGCTCATATT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTC-CAAAAAATCAACTCATATT
*
16240760 GCGAGTGGTGAGTTGAGCCTTGACTCAC
64 GCGAGAGGTGAGTTGAGCCTTGACTCAC
16240788 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGC
* * * *
16240853 GATAGGTGAGTTCAGCC-TCA-TGAC
66 GAGAGGTGAGTTGAGCCTTGACTCAC
* * * * * *
16240877 ACGCTGAGATATTTTCAATTTCTTTTTTTTTTTC-AATTTATGTTTGT-CAAAAAAACAACACAT
1 ACGCTGAGGTATTTTCAAATTC----TGTTTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCAT
* * *
16240940 ATGGCAAGAGG-GAAGTTGAGCCTCAGA-TCAC
61 ATTGCGAGAGGTG-AGTTGAGCCT-TGACTCAC
*
16240971 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTAC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGC
*
16241036 GAGAGGTGAGTTGAGCCTTGGCTCAC
66 GAGAGGTGAGTTGAGCCTTGACTCAC
** * * * *
16241062 GTGCCGAGGTATTTTCAAAATCTATTTTACAAATTTTG-TTTT---AAAAATCAACTCATATTGC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGC
* *
16241123 GAGAAGTGAGTTGAGCCTTGGCTCAC
66 GAGAGGTGAGTTGAGCCTTGACTCAC
** * *
16241149 GTGCTGAGCTATTTTCAATTTCTGTTTTT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTT
16241178 AATGTTTAGT
Statistics
Matches: 327, Mismatches: 50, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
87 66 0.20
89 23 0.07
90 20 0.06
91 107 0.33
92 69 0.21
93 18 0.06
94 24 0.07
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (91 bp):
ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTTGACTCAC
Found at i:16241018 original size:15 final size:14
Alignment explanation
Indices: 16240982--16241014 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16240972 CGCTGAGGTA
16240982 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
16240996 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
16241010 TTTTC
1 TTTTC
16241015 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:16241190 original size:87 final size:86
Alignment explanation
Indices: 16240655--16241222 Score: 400
Period size: 91 Copynumber: 6.4 Consensus size: 86
16240645 GTCTTTCAAA
* * * * * * *
16240655 AAAAATCAGCTCATATTGCGAGATGTGAGTTGAGCC-T--C-AAGACGCTGAGGTGTTTTCCATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAAT
*
16240716 TCTGTTCTTCAATTTCTGTGTTTC
66 TCTGTT-TTTAATTT-TGT-TTTC
* ** *
16240740 AAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCA
16240805 AATTCTGTTTTTCAAATTTTGTTTTTCC
63 AATTCTGTTTTT--AATTTTG-TTTT-C
* * * * *
16240833 AAAAAATCAACTCATATTGCGATAGGTGAGTTCAGCC-T--CATGACACGCTGAGATATTTTCAA
1 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATTTTCAA
* *
16240895 TTTCTTTTTTTTTTTCAATTTATGTTTGTC
64 ATTC----TGTTTTT-AATTT-TGTTT-TC
* * * * * ** *
16240925 AAAAAAACAACACATATGGCAAG-AGGGAAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
1 -AAAAATCAACTCATATTGCGAGAAGTG-AGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
16240989 ATTCTGTTTTTCAAATTTTGTTTTTCC
64 ATTCTGTTTTT--AATTTTG-TTTT-C
* * ** *
16241016 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGTGCCGAGGTATTTTCAAA
1 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAA
* * *
16241081 ATCTATTTTACAAATTTTGTTTT-
65 TTCTGTTTT--TAATTTTGTTTTC
** * *
16241104 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAAT
16241169 TCTGTTTTTAATGTTTAGTTTT-
66 TCTGTTTTTAAT-TTT-GTTTTC
* * * *
16241191 AAAGAGTCAATTCATATCGCGAGAAATGAGTT
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTT
16241223 AAGCTCAGGA
Statistics
Matches: 392, Mismatches: 60, Indels: 56
0.77 0.12 0.11
Matches are distributed among these distances:
85 3 0.01
86 3 0.01
87 74 0.19
88 59 0.15
89 24 0.06
90 14 0.04
91 110 0.28
92 66 0.17
93 16 0.04
94 23 0.06
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAAT
TCTGTTTTTAATTTTGTTTTC
Found at i:16241894 original size:30 final size:30
Alignment explanation
Indices: 16241858--16241956 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
16241848 CTAGCCTTTG
*
16241858 CCACCACCAACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
16241888 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
16241918 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
16241948 CCACCACCA
1 CCACCACCA
16241957 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.26, C:0.49, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:16241921 original size:18 final size:18
Alignment explanation
Indices: 16241898--16241951 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
16241888 CCACCACCAA
16241898 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
16241916 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
16241928 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
16241946 CTCCAC
1 CTCCAC
16241952 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:16242555 original size:16 final size:15
Alignment explanation
Indices: 16242531--16242565 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16242521 TAATTATTAT
16242531 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
16242547 TATTTTAATATTTTA
1 TATTCTAATATTTTA
16242562 TATT
1 TATT
16242566 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:16248986 original size:43 final size:43
Alignment explanation
Indices: 16248937--16249064 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
16248927 GGTTACAAAG
*
16248937 ATGTGATTTCATGTAAGACCATGTCTGGGGCATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGG-ATTGGCATTGTAT
*
16248981 -TGTGATTACATGTAAGACCATGTCT-GGGATAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGGAT--TGGCATTGTAT
* *
16249023 ATGTGATAACATGTAAGACCATATCT-GGGATATGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGGAT-TGGCATTGTA
16249065 CGAGCTTATG
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.03
42 12 0.16
43 60 0.81
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGGATTGGCATTGTAT
Found at i:16263868 original size:18 final size:18
Alignment explanation
Indices: 16263845--16263880 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16263835 TAGTAAGTCA
16263845 TAAGCAAATAAATCATTT
1 TAAGCAAATAAATCATTT
16263863 TAAGCAAATAAATCATTT
1 TAAGCAAATAAATCATTT
16263881 CAATGAAATT
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:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
TAAGCAAATAAATCATTT
Found at i:16264320 original size:44 final size:43
Alignment explanation
Indices: 16264222--16264346 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 43
16264212 CTCATACAAC
* * *
16264222 GCCAACGTCCCAGACGTGGTCTTCCATGTAATCACATAACGAT
1 GCCAATGTCCCAGACGTGGTCTTACACGTAATCACATAACGAT
* * *
16264265 ACCACTGTCCCAGACAG-GGTCTTACACGTAAATCATA-AATCGAT
1 GCCAATGTCCCAGAC-GTGGTCTTACACGT-AATCACATAA-CGAT
*
16264309 GCCAATGTCCCAGATGTGGTCTTACACG-AAGTCACATA
1 GCCAATGTCCCAGACGTGGTCTTACACGTAA-TCACATA
16264347 TCAAAATCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.03
43 29 0.44
44 35 0.53
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAGACGTGGTCTTACACGTAATCACATAACGAT
Found at i:16274682 original size:14 final size:14
Alignment explanation
Indices: 16274660--16274690 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16274650 AAAAAATGGT
*
16274660 CCGATTGAACCGAA
1 CCGAGTGAACCGAA
16274674 CCGAGTGAACCGAA
1 CCGAGTGAACCGAA
16274688 CCG
1 CCG
16274691 GGCAAGGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.10
Consensus pattern (14 bp):
CCGAGTGAACCGAA
Found at i:16274800 original size:13 final size:13
Alignment explanation
Indices: 16274782--16274807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16274772 CTTGAAGACT
16274782 TGTTCAAATTGCA
1 TGTTCAAATTGCA
16274795 TGTTCAAATTGCA
1 TGTTCAAATTGCA
16274808 AATTAGCCCC
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTTCAAATTGCA
Found at i:16282385 original size:17 final size:18
Alignment explanation
Indices: 16282359--16282392 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16282349 TTTTTGTTTA
16282359 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
16282376 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
16282393 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:16286803 original size:27 final size:27
Alignment explanation
Indices: 16286773--16286950 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16286763 ATATTGAGTC
* * * *
16286773 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16286800 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16286827 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16286855 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16286882 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16286909 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16286936 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16286951 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16286912 original size:82 final size:81
Alignment explanation
Indices: 16286794--16286949 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16286784 TGCTATATAA
* *
16286794 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16286859 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16286876 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16286940 CACTTAGTGC
65 CACTTAGTGC
16286950 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16306783 original size:40 final size:40
Alignment explanation
Indices: 16306739--16306823 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
16306729 TATTATTATT
16306739 TAGTCCCTAATGA-ACAATTTCATGAATTGACTTTGCAAAG
1 TAGTCCC-AATGATACAATTTCATGAATTGACTTTGCAAAG
* * *
16306779 TAGTCTCATTTATACAATTTCATGAATTGACTTTGCAAAG
1 TAGTCCCAATGATACAATTTCATGAATTGACTTTGCAAAG
16306819 TAGTC
1 TAGTC
16306824 TCATTTAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.07
40 38 0.93
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (40 bp):
TAGTCCCAATGATACAATTTCATGAATTGACTTTGCAAAG
Found at i:16306824 original size:40 final size:40
Alignment explanation
Indices: 16306752--16306830 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
16306742 TCCCTAATGA
16306752 ACAATTTCATGAATTGACTTTGCAAAGTAGTCTCATTTAT
1 ACAATTTCATGAATTGACTTTGCAAAGTAGTCTCATTTAT
16306792 ACAATTTCATGAATTGACTTTGCAAAGTAGTCTCATTTA
1 ACAATTTCATGAATTGACTTTGCAAAGTAGTCTCATTTA
16306831 ACTTCCAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (40 bp):
ACAATTTCATGAATTGACTTTGCAAAGTAGTCTCATTTAT
Found at i:16316905 original size:134 final size:134
Alignment explanation
Indices: 16316663--16316932 Score: 477
Period size: 134 Copynumber: 2.0 Consensus size: 134
16316653 CTATAACTTA
*
16316663 CTTGTTTATAACATTACCACCTCCTGGTCACTTAATGAACACATCATTCACATAACCAAGTTCCT
1 CTTGTTTATAACATTACCACATCCTGGTCACTTAATGAACACATCATTCACATAACCAAGTTCCT
16316728 GCACTTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCGTTGAACACTTCAGATC
66 GCACTTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCGTTGAACACTTCAGATC
16316793 AATC
131 AATC
* * *
16316797 CTTGTTTATAACCTTACCACATCCTGGTCACTTAATGAATACATCATTCACATAACCAAGTTCTT
1 CTTGTTTATAACATTACCACATCCTGGTCACTTAATGAACACATCATTCACATAACCAAGTTCCT
* * *
16316862 GCACTTATTCATCACAAAACTCACAAAGCAATGCATAGTGAGTCTCCCGTTGAACACTTCGGATC
66 GCACTTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCGTTGAACACTTCAGATC
16316927 AATC
131 AATC
16316931 CT
1 CT
16316933 CGATACTTGG
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 129 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (134 bp):
CTTGTTTATAACATTACCACATCCTGGTCACTTAATGAACACATCATTCACATAACCAAGTTCCT
GCACTTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCGTTGAACACTTCAGATC
AATC
Found at i:16317865 original size:30 final size:30
Alignment explanation
Indices: 16317831--16317891 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
16317821 TCTCTAACTC
16317831 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
16317861 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
16317891 A
1 A
16317892 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:16318918 original size:27 final size:27
Alignment explanation
Indices: 16318888--16318951 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
16318878 TCAGAGAAAT
16318888 GGAAGCCTTTGTGGCAATCTCTACAAA
1 GGAAGCCTTTGTGGCAATCTCTACAAA
** *
16318915 GGAAGCCTTTGTGGTTATCTCTGCAAA
1 GGAAGCCTTTGTGGCAATCTCTACAAA
*
16318942 AGAACGCCTT
1 GGAA-GCCTT
16318952 CATGGAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (27 bp):
GGAAGCCTTTGTGGCAATCTCTACAAA
Found at i:16334915 original size:43 final size:42
Alignment explanation
Indices: 16334854--16334963 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
16334844 CAATGACAAC
*
16334854 ATCCCAGAC-GTGATCTTACATGTAATCAAATATCGGTGCC-ACT
1 ATCCCAGACAG-GATCTTACATGTAATCAAATAT-GATGCCGA-T
*
16334897 ATCCCAGACAGGATCTTACATGGAATCAAATATGATGCCGAT
1 ATCCCAGACAGGATCTTACATGTAATCAAATATGATGCCGAT
* *
16334939 GTCCCAGACATGG-TCTTACACGTAA
1 ATCCCAGACA-GGATCTTACATGTAA
16334964 ATCTCAAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 25 0.42
43 33 0.56
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATCCCAGACAGGATCTTACATGTAATCAAATATGATGCCGAT
Found at i:16337229 original size:43 final size:42
Alignment explanation
Indices: 16337168--16337277 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
16337158 CAATGACAAC
*
16337168 ATCCCAGAC-GTGATCTTACATGTAATCAAATATCGGTGCC-ACT
1 ATCCCAGACAG-GATCTTACATGTAATCAAATAT-GATGCCGA-T
*
16337211 ATCCCAGACAGGATCTTACATGGAATCAAATATGATGCCGAT
1 ATCCCAGACAGGATCTTACATGTAATCAAATATGATGCCGAT
* *
16337253 GTCCCAGACATGG-TCTTACACGTAA
1 ATCCCAGACA-GGATCTTACATGTAA
16337278 ATCTCAAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 25 0.42
43 33 0.56
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATCCCAGACAGGATCTTACATGTAATCAAATATGATGCCGAT
Found at i:16343897 original size:26 final size:26
Alignment explanation
Indices: 16343853--16343904 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16343843 ATATTGGTTT
* *
16343853 TTATTTTCATATTCAGATTTTTATAA
1 TTATTTTCATAATCAGATTTTAATAA
16343879 TTATTATTCATAATC-GATTTTAATAA
1 TTATT-TTCATAATCAGATTTTAATAA
16343905 AAGCTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
TTATTTTCATAATCAGATTTTAATAA
Found at i:16354622 original size:15 final size:15
Alignment explanation
Indices: 16354602--16354632 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16354592 AAGGAAAGCT
16354602 ACACATGAAGATTCA
1 ACACATGAAGATTCA
16354617 ACACATGAAGATTCA
1 ACACATGAAGATTCA
16354632 A
1 A
16354633 TTGGAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (15 bp):
ACACATGAAGATTCA
Found at i:16356238 original size:13 final size:14
Alignment explanation
Indices: 16356205--16356236 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16356195 GATAAATTAA
*
16356205 AAAAATTAAATGTT
1 AAAAATTAAATATT
16356219 AAAAATTAAATATT
1 AAAAATTAAATATT
16356233 AAAA
1 AAAA
16356237 TTTTCAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
AAAAATTAAATATT
Found at i:16366448 original size:42 final size:42
Alignment explanation
Indices: 16366401--16366511 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
16366391 TATAGAGGTT
16366401 TTCACATGGCCTGGAACACACCCGTGTCACAAGCACGTGTCC
1 TTCACATGGCCTGGAACACACCCGTGTCACAAGCACGTGTCC
** * *
16366443 TTCACATGGCCTGGAACACGTCCGTGTCACAGGCCCGTGTCC
1 TTCACATGGCCTGGAACACACCCGTGTCACAAGCACGTGTCC
16366485 TTCACATGG-CTAGG-ACACACCCGTGTC
1 TTCACATGGCCT-GGAACACACCCGTGTC
16366512 TTAGACCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
41 13 0.21
42 49 0.79
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (42 bp):
TTCACATGGCCTGGAACACACCCGTGTCACAAGCACGTGTCC
Found at i:16371600 original size:31 final size:31
Alignment explanation
Indices: 16371560--16371628 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
16371550 AGTATACAAG
*
16371560 TAAGCATAATCTGTTAATGGGTAATAGAGCA
1 TAAGTATAATCTGTTAATGGGTAATAGAGCA
16371591 TAAGTATAATCTGTTAATGGGTAATAGAGCA
1 TAAGTATAATCTGTTAATGGGTAATAGAGCA
16371622 TAAGTAT
1 TAAGTAT
16371629 TAGTGTCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (31 bp):
TAAGTATAATCTGTTAATGGGTAATAGAGCA
Found at i:16378389 original size:15 final size:15
Alignment explanation
Indices: 16378369--16378400 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16378359 CATTTCACTA
*
16378369 TTATGTCTTTTATAT
1 TTATGTATTTTATAT
16378384 TTATGTATTTTATAT
1 TTATGTATTTTATAT
16378399 TT
1 TT
16378401 TGCATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTATTTTATAT
Found at i:16384271 original size:39 final size:39
Alignment explanation
Indices: 16384217--16384378 Score: 159
Period size: 40 Copynumber: 4.1 Consensus size: 39
16384207 AAATCACGTA
* * **
16384217 CCTTTGGAATTTAACCGGATATAGCT-ACTCGTTCAAATG
1 CCTTTGGGACTTAACCGGATATAG-TAACTCGCACAAATG
*
16384256 CCTTTGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTTGGGACTTAA-CCGGATATAGTAACTCGCACAAATG
* * *
16384296 CCTTCGGGACTTAACCTGGATTTAGTAACTCGCACCAATG
1 CCTTTGGGACTTAACC-GGATATAGTAACTCGCACAAATG
* * *
16384336 CCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATG
1 CCTTTGGGACTTA-ACCGGATA-TAGTAACTCGCACAAATG
16384375 CCTT
1 CCTT
16384379 CGGATCTTAG
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
39 42 0.39
40 65 0.61
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (39 bp):
CCTTTGGGACTTAACCGGATATAGTAACTCGCACAAATG
Found at i:16384379 original size:39 final size:40
Alignment explanation
Indices: 16384250--16384434 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 40
16384240 GCTACTCGTT
*
16384250 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16384290 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
16384330 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
16384369 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
16384410 CAAA-ACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16384435 CATCATTCGA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 80 0.65
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16384419 original size:79 final size:80
Alignment explanation
Indices: 16384256--16384434 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
16384246 CGTTCAAATG
* * * *
16384256 CCTTTGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATTTAG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATATAG
* **
16384321 TAACTCGCACCAATG
66 TAACTAGCACCAAAA
* *
16384336 CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC-GGATAT
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCTGGATAT
* *
16384398 GGTCACTTAGCA-CAAAA
64 AGTAAC-TAGCACCAAAA
16384415 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
16384435 CATCATTCGA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 57 0.68
80 24 0.29
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATATAG
TAACTAGCACCAAAA
Found at i:16386809 original size:40 final size:40
Alignment explanation
Indices: 16386718--16387007 Score: 402
Period size: 40 Copynumber: 7.3 Consensus size: 40
16386708 TCCTCGTTCA
* * * * *
16386718 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16386757 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16386797 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16386837 AATGCCCTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16386877 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16386917 AATGCCCTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
16386957 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16386997 AAGGCCTTCGG
1 AATGCCTTCGG
16387008 ATCTTAGTCC
Statistics
Matches: 223, Mismatches: 27, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 0.14
40 191 0.86
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16387021 original size:80 final size:80
Alignment explanation
Indices: 16386718--16386995 Score: 459
Period size: 80 Copynumber: 3.5 Consensus size: 80
16386708 TCCTCGTTCA
* * * * * * * *
16386718 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-CATGCCTTCGGGACGTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
16386782 TTAACAACTCGCACG
66 TTAACAACTCGCACG
16386797 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
16386862 TTAACAACTCGCACG
66 TTAACAACTCGCACG
16386877 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
16386942 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* *
16386957 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCAC
1 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCAC
16386996 AAAGGCCTTC
Statistics
Matches: 188, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 34 0.18
80 154 0.82
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCCTCGGGACTTAACCCGGAT
TTAACAACTCGCACG
Found at i:16394208 original size:40 final size:39
Alignment explanation
Indices: 16394110--16394372 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
16394100 TCCTCGTTCA
* * * *
16394110 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
16394149 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
16394188 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
16394228 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
16394268 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
16394308 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
16394349 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16394373 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:16394332 original size:120 final size:119
Alignment explanation
Indices: 16394110--16394372 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
16394100 TCCTCGTTCA
* * *
16394110 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
16394175 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
16394228 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
16394293 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
16394349 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
16394373 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:16394381 original size:41 final size:41
Alignment explanation
Indices: 16394304--16394381 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
16394294 TTTGTATCTC
* * *
16394304 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
16394345 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
16394382 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16402143 original size:40 final size:40
Alignment explanation
Indices: 16402099--16402442 Score: 530
Period size: 40 Copynumber: 8.6 Consensus size: 40
16402089 TCCTCGTTCA
* * *
16402099 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
16402139 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
16402179 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
16402219 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
16402259 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
16402299 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
* * * *
16402339 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
* * * * *
16402379 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATATAATAAC-TCGCACG
* *
16402419 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16402443 CAGCATTCAA
Statistics
Matches: 284, Mismatches: 17, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
39 3 0.01
40 273 0.96
41 8 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATAATAACTCGCACG
Found at i:16405829 original size:663 final size:666
Alignment explanation
Indices: 16403949--16406670 Score: 4073
Period size: 663 Copynumber: 4.1 Consensus size: 666
16403939 TGTCACATAC
* *
16403949 AATACCTTAATTCAGGGAAACAACCTAAAAAATTTTAATTCTAAAAATAACTTATCATGCTTGAC
1 AATACCTCAATTCAAGGAAACAACCTAAAAAATTTTAATTCTAAAAATAACTTATCATGCTTGAC
* *
16404014 TAGAAATTACCAAACTAG-AAAATTAAACAAATGCTTAATTAAAAACAAGCGCATCAATAACTAT
66 TAGAAATTACCAAACTAGCAAAATTAAACAAATGCTAAATTAAAAACAAGCACATCAATAACTAT
* * *
16404078 TCAAGAACAAAAATGAACTTCTTCTCAAAATATGAAATTGACTGTTCAAGCTCAATCAACAAATA
131 TCAAGAACAAAAACGAGCTTCTTCTCAAAATATGAAATTGACTGTTCAAGCTCAATCAAAAAATA
*
16404143 ACTAATTAATAATCAATATTTTTTTGCTTTTTTCTTATCTAGAACAATAAGAAATAATTTAGCAA
196 ACTAATTAATAATCAATATTTTTTT-CTTTTTTCTTATCTAGAACAATAAGAAATAATTCAGCAA
* * *
16404208 ATCAAACAGAATAGTATAGTTAGGCAACTAACCAAATCAAATATCGACAAAAAGGGAGTCAATAA
260 ATCAAACAGAAGAGCATAGCTAGGCAACTAACCAAATCAAATATCGACAAAAAGGGAGTCAATAA
* * * *
16404273 AACGATAAGAGTCAC-AGCGAAAAAATGGATTATGGTTAACATTAATGGGCTAATCAAGAAACGA
325 AACGAGAAGAGTCACAAGCGAAAAAATGGGTTATGGTTAACATTAATGGGTTAATCAAGAAACGG
16404337 GATGTTAGGTTT-ACTGGGGTTCACTAAGGGTTAATTAAAAAGGGAGGCTTTTT-TGGGGATAAG
390 GATGTTAGGTTTAAC-GGGGTTCACTAAGGGTTAATTAAAAAGGGAGGCTTTTTAT-GGGATAAG
* * * * * *
16404400 TGGGTTAAAACCTAAATTCCTTTATCATCTTAGTATATCAAATCAAATGTGTGGTCTTGACTTGC
453 TGGGTTAAAACCTAAGTGCATTTATCATCTTAG-ATATCAAATCAAAGGTGCGGTCTTGACATGC
** ** * *
16404465 ATAATTAAAGTTAGTTCTAGAATAACAAATCACGTTGACACACTCATAACCAACAATAAAATGAG
517 ATAATCGAAGCAAGTTCTAGAATAACAAATCAAGTTGACACACTCATAACCAACAATAGAATGAG
* *
16404530 CATGAAAATGTATGCTGTAAAGGCTTAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTTG
582 CATGAAAATGTATGCTCTAAAGGCTCAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTTG
16404595 CAAATTTAAAACTTCAAGAT
647 CAAATTTAAAACTTCAAGAT
* * * * *
16404615 AATATCTCAATTCATGGAAACAACCTAAAAAAATTTAATTCTAAAAATAACTTATCACGTTTGAC
1 AATACCTCAATTCAAGGAAACAACCTAAAAAATTTTAATTCTAAAAATAACTTATCATGCTTGAC
* * *
16404680 TAGAAATTACCAAACAAGCAAAATTAAACAAATGTTGAATTAAAAACAAGCACATCAATAACTAT
66 TAGAAATTACCAAACTAGCAAAATTAAACAAATGCTAAATTAAAAACAAGCACATCAATAACTAT
* *
16404745 TCAAGAACAAAAACGAGCTTCTTCTCAAAATATGAAATTGAATGTTCAAGCTCGATCAAAAAATA
131 TCAAGAACAAAAACGAGCTTCTTCTCAAAATATGAAATTGACTGTTCAAGCTCAATCAAAAAATA
* * * * *
16404810 AGTAACTAATAATCAATATTTTTTCCTTTTTTTCTTATTTAGAACAATAAGAAATAATTCAACAA
196 ACTAATTAATAATCAATATTTTTTTC-TTTTTTCTTATCTAGAACAATAAGAAATAATTCAGCAA
* * *
16404875 ATCAAACAGAATAGCATAGCTAGGCAACTAACAAAATCAAATATAGACAAAAAGGGAGT-ATATA
260 ATCAAACAGAAGAGCATAGCTAGGCAACTAACCAAATCAAATATCGACAAAAAGGGAGTCA-ATA
* *
16404939 AAACGAGAAGAGTCACAA-CGAAAAAATGGGTTATGGTT-ACATTAACGGGTTAATCAAGAAATG
324 AAACGAGAAGAGTCACAAGCGAAAAAATGGGTTATGGTTAACATTAATGGGTTAATCAAGAAACG
* *
16405002 GGATGTTAGGTTTAACGGGGTTCATTAAGAGTTAATTAAAAAGGGAGGCTTTTTATGGGATAAGT
389 GGATGTTAGGTTTAACGGGGTTCACTAAGGGTTAATTAAAAAGGGAGGCTTTTTATGGGATAAGT
*
16405067 GGGTTAAAACCTAAGTACATTTATCATCTTAG-TATCAAATCAAAGGTGCGGTCTTGACATGCAT
454 GGGTTAAAACCTAAGTGCATTTATCATCTTAGATATCAAATCAAAGGTGCGGTCTTGACATGCAT
* * *
16405131 AATCGAAGCAAGTTCTAGAATAACAAATCAAGTTGACACATTCATAATCAATAATAGAATGAGCA
519 AATCGAAGCAAGTTCTAGAATAACAAATCAAGTTGACACACTCATAACCAACAATAGAATGAGCA
*
16405196 TGAAAATGTATGCTCTAAAGGCTTAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTTGCA
584 TGAAAATGTATGCTCTAAAGGCTCAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTTGCA
16405261 AATTTAAAACCTT-AAGAT
649 AATTTAAAA-CTTCAAGAT
* * *
16405279 AATACCTCAATTCAAGGAAACAACTTAAAAAATTTTAATTCTGAAAATAACTTGTCATGCTTGAC
1 AATACCTCAATTCAAGGAAACAACCTAAAAAATTTTAATTCTAAAAATAACTTATCATGCTTGAC
*
16405344 TAGGAATTACCAAACTAGCAAAATTAAACAAATGCTAAATTAAAAACAAGCACATCAATAACTAT
66 TAGAAATTACCAAACTAGCAAAATTAAACAAATGCTAAATTAAAAACAAGCACATCAATAACTAT
* * * * * *
16405409 TCCAGAAGAAGAATGAGCTTCTTCTCAAAATATGAAATTGACTGTTAAAGCCCAAT-AAAAAATA
131 TCAAGAACAAAAACGAGCTTCTTCTCAAAATATGAAATTGACTGTTCAAGCTCAATCAAAAAATA
*
16405473 ACTAATTAATAATCAATATTTTTTTCTTTTTTCTTATTTAGAACAATAAGAAATAATTCAGCAAA
196 ACTAATTAATAATCAATATTTTTTTCTTTTTTCTTATCTAGAACAATAAGAAATAATTCAGCAAA
* *
16405538 TCAAACAGAAGAGCATAGCTAGGCAACTAACGAAATCAAATATCGACAAAAAAGGAGTCAATAAA
261 TCAAACAGAAGAGCATAGCTAGGCAACTAACCAAATCAAATATCGACAAAAAGGGAGTCAATAAA
* * *
16405603 ATGAGAAGAGTCACCA-CAAAAAAAATGGGTTATGGTT-ACATTAATGGGTTAATCAAGAAACGG
326 ACGAGAAGAGTCACAAGC-GAAAAAATGGGTTATGGTTAACATTAATGGGTTAATCAAGAAACGG
** *
16405666 GATGTTAGGTTTAACAAGGTTCATTAAGGGTTAATTAAAAAGGGAGGCTTTTTATGGGATAAGTG
390 GATGTTAGGTTTAACGGGGTTCACTAAGGGTTAATTAAAAAGGGAGGCTTTTTATGGGATAAGTG
* * *
16405731 GGTTAAAACCTATGTGCATTTATAATCTTAG-TATCAAATCAAAGGTGCGGTTTTGACATGCATA
455 GGTTAAAACCTAAGTGCATTTATCATCTTAGATATCAAATCAAAGGTGCGGTCTTGACATGCATA
* * *
16405795 ATCGAAGCAAGTTCTAGAATAACAAATTAAGTTGACACATTCATAACCAACAATGGAATGAGCAT
520 ATCGAAGCAAGTTCTAGAATAACAAATCAAGTTGACACACTCATAACCAACAATAGAATGAGCAT
* * *
16405860 GAAAGTGTATGCTCTTAAGGCTCAAAATCTCACAAAAAATCATAGTTTTGATGTCAAACTTGCAA
585 GAAAATGTATGCTCTAAAGGCTCAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTTGCAA
*
16405925 ATTTAAAACTTCAAGAC
650 ATTTAAAACTTCAAGAT
* * * *
16405942 AATACCTCAATTCAGGGAAACAACCTAAAAAAATTTAATTCTGAAAATAACTTATCATACTTGAC
1 AATACCTCAATTCAAGGAAACAACCTAAAAAATTTTAATTCTAAAAATAACTTATCATGCTTGAC
** * * * *
16406007 TAGAAATTACCAAACTATAAAAATTAAAAAAAAATTCTAAATTAAAAACAAGCGCATCAATATCT
66 TAGAAATTACCAAACTAGCAAAATT--AAACAAATGCTAAATTAAAAACAAGCACATCAATAACT
*
16406072 ATTCAAGAACAAAAACGAGCTTCTTCTCAAAATATGAAATTGATTGTTCAAGCTCAATCAAAAAA
129 ATTCAAGAACAAAAACGAGCTTCTTCTCAAAATATGAAATTGACTGTTCAAGCTCAATCAAAAAA
*
16406137 TAACTAATTAATAATCAATA------T-TTTTTTCTTATCTAGAACAATAAGAAATAACTCAGCA
194 TAACTAATTAATAATCAATATTTTTTTCTTTTTTCTTATCTAGAACAATAAGAAATAATTCAGCA
* * *
16406195 AATCAAATAGAAGAGCATAGCTAGGTAACTAACCAAATCAAATATCAACAAAAAGGGAGTCAATA
259 AATCAAACAGAAGAGCATAGCTAGGCAACTAACCAAATCAAATATCGACAAAAAGGGAGTCAATA
* * ** *
16406260 AAATGAGAAGAGTCACAATGAGAAAAAATGGGTTATGGTTAACATTAAAAGGTTAATCAAGAAAT
324 AAACGAGAAGAGTCACAA-GCGAAAAAATGGGTTATGGTTAACATTAATGGGTTAATCAAGAAAC
* * * * *
16406325 AGGATGCTA-TTCTTAACGGGGTTCACTAAGGGTTAACTAAAAATGGAGGCTTTTTATGGGATAA
388 GGGATGTTAGGT-TTAACGGGGTTCACTAAGGGTTAATTAAAAAGGGAGGCTTTTTATGGGATAA
* * *
16406389 GTGGGTTAAAACCTAAGTGCCTTTATCATCTTAGTATATCAAATCAAAGGTGTGGTCTCGACATG
452 GTGGGTTAAAACCTAAGTGCATTTATCATCTTAG-ATATCAAATCAAAGGTGCGGTCTTGACATG
* *
16406454 AATAATCGAAGCAAGTTCTAGAATAACAAATCAAGTTGACACACTCATAACCAATAATAGAATGA
516 CATAATCGAAGCAAGTTCTAGAATAACAAATCAAGTTGACACACTCATAACCAACAATAGAATGA
* * **
16406519 TCATGAAAGTGTATGCTCTTGAGGCTCAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTT
581 GCATGAAAATGTATGCTCTAAAGGCTCAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTT
*
16406584 ACAAATTTAAAACTTCAAGAT
646 GCAAATTTAAAACTTCAAGAT
* * *
16406605 AATACCTCAATTAAAGGAAACAACTTAAAATATTTTAATTCTAAAAATAACTTATCATGCTTGAC
1 AATACCTCAATTCAAGGAAACAACCTAAAAAATTTTAATTCTAAAAATAACTTATCATGCTTGAC
16406670 T
66 T
16406671 CTCTCATGAC
Statistics
Matches: 1876, Mismatches: 161, Indels: 41
0.90 0.08 0.02
Matches are distributed among these distances:
659 112 0.06
660 20 0.01
661 106 0.06
662 115 0.06
663 638 0.34
664 329 0.18
665 88 0.05
666 212 0.11
667 255 0.14
668 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (666 bp):
AATACCTCAATTCAAGGAAACAACCTAAAAAATTTTAATTCTAAAAATAACTTATCATGCTTGAC
TAGAAATTACCAAACTAGCAAAATTAAACAAATGCTAAATTAAAAACAAGCACATCAATAACTAT
TCAAGAACAAAAACGAGCTTCTTCTCAAAATATGAAATTGACTGTTCAAGCTCAATCAAAAAATA
ACTAATTAATAATCAATATTTTTTTCTTTTTTCTTATCTAGAACAATAAGAAATAATTCAGCAAA
TCAAACAGAAGAGCATAGCTAGGCAACTAACCAAATCAAATATCGACAAAAAGGGAGTCAATAAA
ACGAGAAGAGTCACAAGCGAAAAAATGGGTTATGGTTAACATTAATGGGTTAATCAAGAAACGGG
ATGTTAGGTTTAACGGGGTTCACTAAGGGTTAATTAAAAAGGGAGGCTTTTTATGGGATAAGTGG
GTTAAAACCTAAGTGCATTTATCATCTTAGATATCAAATCAAAGGTGCGGTCTTGACATGCATAA
TCGAAGCAAGTTCTAGAATAACAAATCAAGTTGACACACTCATAACCAACAATAGAATGAGCATG
AAAATGTATGCTCTAAAGGCTCAAAATCTCACAAAAAATCATGGTTTTGATGTCAAACTTGCAAA
TTTAAAACTTCAAGAT
Found at i:16408396 original size:43 final size:43
Alignment explanation
Indices: 16408335--16408420 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
16408325 TCCTCCGTTC
16408335 ATGTAAAACCCGACCCATGCATATGTGAATATATCATGGCATA
1 ATGTAAAACCCGACCCATGCATATGTGAATATATCATGGCATA
16408378 ATGTAAAACCCGACCCATGCATATGTGAATATATCATGGCATA
1 ATGTAAAACCCGACCCATGCATATGTGAATATATCATGGCATA
16408421 TCATGTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGTAAAACCCGACCCATGCATATGTGAATATATCATGGCATA
Found at i:16408494 original size:25 final size:25
Alignment explanation
Indices: 16408466--16408516 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
16408456 ATAACATAAC
* * *
16408466 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
16408491 CCTAGGGGCAAAAAGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
16408516 C
1 C
16408517 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:16416316 original size:25 final size:25
Alignment explanation
Indices: 16416288--16416338 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
16416278 ATAACATAAC
* * *
16416288 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
16416313 CCTAGGGGCAAAAAGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
16416338 C
1 C
16416339 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:16419265 original size:16 final size:16
Alignment explanation
Indices: 16419240--16419272 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16419230 TAATAAGAAG
*
16419240 AAAAATTAAAATAATA
1 AAAAAGTAAAATAATA
16419256 AAAAAGTAAAATAATA
1 AAAAAGTAAAATAATA
16419272 A
1 A
16419273 TAATAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAAGTAAAATAATA
Found at i:16419360 original size:17 final size:17
Alignment explanation
Indices: 16419338--16419370 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16419328 ATAAAAGAAG
16419338 TAAATAAAATAAATAAA
1 TAAATAAAATAAATAAA
*
16419355 TAAATAAAATTAATAA
1 TAAATAAAATAAATAA
16419371 GGGAGGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATAAAATAAATAAA
Found at i:16422077 original size:12 final size:12
Alignment explanation
Indices: 16422060--16422092 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
16422050 ACCGAGAAGT
16422060 CATCCATAAATA
1 CATCCATAAATA
16422072 CATCCATAAATA
1 CATCCATAAATA
16422084 CATCCATAA
1 CATCCATAA
16422093 TGTCTTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (12 bp):
CATCCATAAATA
Found at i:16426655 original size:16 final size:16
Alignment explanation
Indices: 16426634--16426664 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16426624 CTAATTTAAC
*
16426634 ATAAAATCAAAATAAT
1 ATAAAATAAAAATAAT
16426650 ATAAAATAAAAATAA
1 ATAAAATAAAAATAA
16426665 AAATAAGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAATAAAAATAAT
Found at i:16431866 original size:118 final size:118
Alignment explanation
Indices: 16431658--16431891 Score: 402
Period size: 118 Copynumber: 2.0 Consensus size: 118
16431648 AGATGTTTTC
16431658 TTTTTTAGTTAATAACTAAATCCCCTAAATACCTAAGGGGAATGAAACCTAAGACATATCTTGTT
1 TTTTTTAGTTAATAACTAAATCCCCTAAATACCTAAGGGGAATGAAACCTAAGACATATCTTGTT
*
16431723 ATTATTTTCTACATTGTATGATAAATATTTAACTTGCTCTTAATTATGTGTCT
66 ATTATTTTCTACATCGTATGATAAATATTTAACTTGCTCTTAATTATGTGTCT
16431776 TTTTTTAGTT-ATGAACTAAATCCCCTAAATACCTAAGGGGAATGAAACCTAAGACGA-ATCTTG
1 TTTTTTAGTTAAT-AACTAAATCCCCTAAATACCTAAGGGGAATGAAACCTAAGAC-ATATCTTG
*
16431839 TTATTATTTTCTGA-ATCGTATGATAAATATTTAACTTGTTCTTAATTATGTGT
64 TTATTATTTTCT-ACATCGTATGATAAATATTTAACTTGCTCTTAATTATGTGT
16431892 TCTTAATTCT
Statistics
Matches: 111, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
117 2 0.02
118 107 0.96
119 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (118 bp):
TTTTTTAGTTAATAACTAAATCCCCTAAATACCTAAGGGGAATGAAACCTAAGACATATCTTGTT
ATTATTTTCTACATCGTATGATAAATATTTAACTTGCTCTTAATTATGTGTCT
Found at i:16444354 original size:39 final size:40
Alignment explanation
Indices: 16444217--16444354 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
16444207 CGGATGATAA
*
16444217 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16444257 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
16444297 CCGGGCTAAGTCCCGAAGGCATTTCAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
16444337 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16444355 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.19
40 74 0.81
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16458716 original size:16 final size:16
Alignment explanation
Indices: 16458695--16458732 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16458685 TAACTAATTT
*
16458695 AAATAAAATCAA-AATG
1 AAATAAAAT-AAGAATA
16458711 AAATAAAATAAGAATA
1 AAATAAAATAAGAATA
16458727 AAATAA
1 AAATAA
16458733 GATTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (16 bp):
AAATAAAATAAGAATA
Found at i:16477894 original size:6 final size:6
Alignment explanation
Indices: 16477883--16477915 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
16477873 AGGTTTATAA
*
16477883 AAATGG AAATGG AAATGG AAATGA AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAA
16477916 ATTGCTATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:16486212 original size:69 final size:69
Alignment explanation
Indices: 16486090--16486687 Score: 860
Period size: 69 Copynumber: 8.7 Consensus size: 69
16486080 ATTTTTGAAA
* * *
16486090 AGCACATTAAGCATTTAAAAT-GAACGTTAATGAACACAGTTTT-AAGACAACAAATCAGCCCTA
1 AGCACATTAAGCATTT-AAATCGAACGTAAATGAACACA-TTTTAAAGACTACAAATCAGCCCTT
*
16486153 TACAAC
64 TACAGC
* * * * * * *
16486159 AACTCATTAAGAACTTAAATCGAATGTAAATGAACACATTTTAAAGAATACAAATTAGCCCTTTA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
16486224 CAGC
66 CAGC
* *
16486228 AGCACATTAAGCATTTAAATCGAATGTAAATTAACACATTTTAAAGACTACAAATCAGCCCTTTA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
*
16486293 CAGT
66 CAGC
*
16486297 AGCACATTAAACATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
16486362 CAGC
66 CAGC
* * * * *
16486366 AGCACATTAAGCACTTGAATCGACCGTAAACGAACTCATTTTAAAGACTACAAATCAGCCCTTTA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
*
16486431 CAGT
66 CAGC
* * *
16486435 AGCACATTAAGCATTTAAATCGAATGTAGATTAACACATTTTAAAGACTAC-AATCAGCCCTTTA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
* *
16486499 TAGT
66 CAGC
* * * *
16486503 AGCACCTTAAGCATTTAAAACGAATGTAAATGAACACATTTTAAAGACTACATATCAGCCCTTTA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
*
16486568 CAAC
66 CAGC
*
16486572 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTGTAAAGACTACAAATCAGCCCTTTA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
16486637 CAGC
66 CAGC
*
16486641 AGCACATTAAGCATTTAAATAGAACGTAAATGAACACATTTTAAAGA
1 AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGA
16486688 TGTTGAATCT
Statistics
Matches: 471, Mismatches: 55, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
68 71 0.15
69 400 0.85
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (69 bp):
AGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTTTAAAGACTACAAATCAGCCCTTTA
CAGC
Found at i:16486307 original size:35 final size:35
Alignment explanation
Indices: 16486268--16486444 Score: 84
Period size: 35 Copynumber: 5.1 Consensus size: 35
16486258 TTAACACATT
16486268 TTAAAGACTACAAATCAGCCCTTTACAGTAGCACA
1 TTAAAGACTACAAATCAGCCCTTTACAGTAGCACA
* ** ** * * *
16486303 TTAAACA-TTTAAATC-GAAC-GTA-AATGAACACA
1 TTAAAGACTACAAATCAGCCCTTTACAGT-AGCACA
*
16486335 TTTTAAAGACTACAAATCAGCCCTTTACAGCAGCACA
1 --TTAAAGACTACAAATCAGCCCTTTACAGTAGCACA
** * * * * *
16486372 TT-AAGCACT-TGAATC-GACC-GTAAACG-AACTCA
1 TTAAAG-ACTACAAATCAGCCCTTTACA-GTAGCACA
16486404 TTTTAAAGACTACAAATCAGCCCTTTACAGTAGCACA
1 --TTAAAGACTACAAATCAGCCCTTTACAGTAGCACA
16486441 TTAA
1 TTAA
16486445 GCATTTAAAT
Statistics
Matches: 95, Mismatches: 31, Indels: 32
0.60 0.20 0.20
Matches are distributed among these distances:
31 2 0.02
32 14 0.15
33 6 0.06
34 24 0.25
35 28 0.29
36 6 0.06
37 14 0.15
38 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (35 bp):
TTAAAGACTACAAATCAGCCCTTTACAGTAGCACA
Found at i:16486589 original size:275 final size:276
Alignment explanation
Indices: 16486090--16486687 Score: 878
Period size: 275 Copynumber: 2.2 Consensus size: 276
16486080 ATTTTTGAAA
* * *
16486090 AGCACATTAAGCATTTAAA-ATGAACGTTAATGAACACAGTTTT-AAGACAACAAATCAGCCCTA
1 AGCACATTAAGCACTTAAATA-GAACGTAAACGAACACA-TTTTAAAGACAACAAATCAGCCCTA
* *
16486153 TACAACAACTCATTAAGAACTTAAATCGAATGTAAATGAACACATTTTAAAGAATACAAATTAGC
64 TACAACAACACATTAAGAACTTAAATCGAATGTAAATGAACACATTTTAAAGAATACAAATCAGC
* *
16486218 CCTTTACAGCAGCACATTAAGCATTTAAATCGAATGTAAATTAACACATTTTAAAGACTACAAAT
129 CCTTTACAGCAGCACATTAAGCATTTAAAACGAATGTAAATGAACACATTTTAAAGACTACAAAT
** *
16486283 CAGCCCTTTACAGTAGCACATTAAACATTTAAATCGAACGTAAATGAACACATTTTAAAGACTAC
194 CAGCCCTTTACAACAGCACATTAAACATTTAAATCGAACGTAAATGAACACATTGTAAAGACTAC
16486348 AAATCAGCCCTTTACAGC
259 AAATCAGCCCTTTACAGC
* * * * * *
16486366 AGCACATTAAGCACTTGAATCGACCGTAAACGAACTCATTTTAAAGACTACAAATCAGCCCTTTA
1 AGCACATTAAGCACTTAAATAGAACGTAAACGAACACATTTTAAAGACAACAAATCAGCCCTATA
** * * * * * *
16486431 CAGTAGCACATTAAGCATTTAAATCGAATGTAGATTAACACATTTTAAAGACTAC-AATCAGCCC
66 CAACAACACATTAAGAACTTAAATCGAATGTAAATGAACACATTTTAAAGAATACAAATCAGCCC
* * * *
16486495 TTTATAGTAGCACCTTAAGCATTTAAAACGAATGTAAATGAACACATTTTAAAGACTACATATCA
131 TTTACAGCAGCACATTAAGCATTTAAAACGAATGTAAATGAACACATTTTAAAGACTACAAATCA
*
16486560 GCCCTTTACAACAGCACATTAAGCATTTAAATCGAACGTAAATGAACACATTGTAAAGACTACAA
196 GCCCTTTACAACAGCACATTAAACATTTAAATCGAACGTAAATGAACACATTGTAAAGACTACAA
16486625 ATCAGCCCTTTACAGC
261 ATCAGCCCTTTACAGC
* *
16486641 AGCACATTAAGCATTTAAATAGAACGTAAATGAACACATTTTAAAGA
1 AGCACATTAAGCACTTAAATAGAACGTAAACGAACACATTTTAAAGA
16486688 TGTTGAATCT
Statistics
Matches: 285, Mismatches: 35, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
275 189 0.66
276 96 0.34
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (276 bp):
AGCACATTAAGCACTTAAATAGAACGTAAACGAACACATTTTAAAGACAACAAATCAGCCCTATA
CAACAACACATTAAGAACTTAAATCGAATGTAAATGAACACATTTTAAAGAATACAAATCAGCCC
TTTACAGCAGCACATTAAGCATTTAAAACGAATGTAAATGAACACATTTTAAAGACTACAAATCA
GCCCTTTACAACAGCACATTAAACATTTAAATCGAACGTAAATGAACACATTGTAAAGACTACAA
ATCAGCCCTTTACAGC
Found at i:16486728 original size:32 final size:32
Alignment explanation
Indices: 16486683--16486745 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
16486673 AACACATTTT
* *
16486683 AAAGATGTTGAATCTTCCTTGTCAAATTTGTC
1 AAAGATGTCGAATCTTCCTCGTCAAATTTGTC
*
16486715 AAAGTTGTCGAATCTTCCTCGTCAAATTTGT
1 AAAGATGTCGAATCTTCCTCGTCAAATTTGT
16486746 TCATTTAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (32 bp):
AAAGATGTCGAATCTTCCTCGTCAAATTTGTC
Found at i:16487262 original size:18 final size:19
Alignment explanation
Indices: 16487239--16487275 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16487229 TTTACTTAAC
16487239 ATGTAACT-ATCCATTCAT
1 ATGTAACTAATCCATTCAT
16487257 ATGTAACTAATCCATTCAT
1 ATGTAACTAATCCATTCAT
16487276 GTGCAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (19 bp):
ATGTAACTAATCCATTCAT
Found at i:16496549 original size:24 final size:24
Alignment explanation
Indices: 16496522--16496570 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
16496512 ATTAATTTTT
16496522 ATAACAATCA-CTGGAAATAAATTC
1 ATAACAATCATC-GGAAATAAATTC
16496546 ATAACAATCATCGGAAATAAATTC
1 ATAACAATCATCGGAAATAAATTC
16496570 A
1 A
16496571 CTGGCAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (24 bp):
ATAACAATCATCGGAAATAAATTC
Found at i:16500363 original size:17 final size:17
Alignment explanation
Indices: 16500325--16500361 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
16500315 GTTGTTTGTC
16500325 AAAAAGGAGAGAAAATG
1 AAAAAGGAGAGAAAATG
16500342 AAAAAGGA-AG-AAATG
1 AAAAAGGAGAGAAAATG
16500357 AAAAA
1 AAAAA
16500362 AATGAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.05
Consensus pattern (17 bp):
AAAAAGGAGAGAAAATG
Found at i:16509739 original size:16 final size:16
Alignment explanation
Indices: 16509718--16509756 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16509708 CCAAACTTTC
*
16509718 AGCTTTTTGGCATTTT
1 AGCTTTTCGGCATTTT
*
16509734 AGCTTTTCGGTATTTT
1 AGCTTTTCGGCATTTT
*
16509750 GGCTTTT
1 AGCTTTT
16509757 GCCGATCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.56
Consensus pattern (16 bp):
AGCTTTTCGGCATTTT
Found at i:16513315 original size:28 final size:28
Alignment explanation
Indices: 16513194--16513336 Score: 103
Period size: 28 Copynumber: 5.0 Consensus size: 28
16513184 ACAAACATGC
* ** *
16513194 ATATGGTCCATTAGGCCCGGTCTCATTT
1 ATATGGCCCATTAGGCCCAATCTCATTA
** *
16513222 ATATGGCCCATCCGGCCAAAT-TCATGTTCA
1 ATATGGCCCATTAGGCCCAATCTCA--TT-A
* *
16513252 A-ATGGCCC-TTGAGGCCCAATTCACATTC
1 ATATGGCCCATT-AGGCCCAA-TCTCATTA
16513280 ATATGGCCCATTAGGCCCAATCTCATTA
1 ATATGGCCCATTAGGCCCAATCTCATTA
** *
16513308 ATATGGCCCATCCGGCCCAAGTCACATTA
1 ATATGGCCCATTAGGCCCAA-TCTCATTA
16513337 TATTCAGGCC
Statistics
Matches: 89, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
27 3 0.03
28 41 0.46
29 39 0.44
30 4 0.04
31 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCATTA
Found at i:16513339 original size:28 final size:29
Alignment explanation
Indices: 16513217--16513339 Score: 115
Period size: 29 Copynumber: 4.3 Consensus size: 29
16513207 GGCCCGGTCT
* * *
16513217 CATTTATATGGCCCATCCGGCCAAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
** * * *
16513246 TGTTCAAATGGCCCTTGAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
16513275 CATTCATATGGCCCATTAGGCCCAA-TCT
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * *
16513303 CATTAATATGGCCCATCCGGCCCAAGTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
16513332 CATT-ATAT
1 CATTCATAT
16513340 TCAGGCCTCA
Statistics
Matches: 75, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
28 28 0.37
29 47 0.63
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:16513594 original size:16 final size:16
Alignment explanation
Indices: 16513552--16513594 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
16513542 GTAGCCAAAC
16513552 TTTCAGCTTTTCGGTA
1 TTTCAGCTTTTCGGTA
* *
16513568 TTTTAGTTTTTCGGTA
1 TTTCAGCTTTTCGGTA
16513584 TTTCAGCTTTT
1 TTTCAGCTTTT
16513595 GTCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (16 bp):
TTTCAGCTTTTCGGTA
Found at i:16521045 original size:94 final size:92
Alignment explanation
Indices: 16520880--16521052 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 92
16520870 AGACCATGTA
*
16520880 CACAAGAGAGTGTTCTACAGTGAGTTACACAGTGTGAAGACATGTCTGTGTAGGTCACATGACCT
1 CACAAGAGAGTGTTCTACAGTGAGTTACACAGTGTGAAGACATGTCTGTGTAGGTCACACGACCT
16520945 GAACACAGCGGAGCGTCCCAGGTCGTGTG
66 GAACACA-CGG-GCGTCCCAGGTCGTGTG
* * *
16520974 CACAAGGGAGTGTTCTATAGTGAGTTACAC-GATGTGAAGACATAG-CTGTGTAGGTCACACG-G
1 CACAAGAGAGTGTTCTACAGTGAGTTACACAG-TGTGAAGACAT-GTCTGTGTAGGTCACACGAC
*
16521036 CTTAGACACACGGGCGT
64 CTGA-ACACACGGGCGT
16521053 GTCCTTGGCC
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
92 4 0.06
93 7 0.10
94 59 0.83
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (92 bp):
CACAAGAGAGTGTTCTACAGTGAGTTACACAGTGTGAAGACATGTCTGTGTAGGTCACACGACCT
GAACACACGGGCGTCCCAGGTCGTGTG
Found at i:16523436 original size:28 final size:26
Alignment explanation
Indices: 16523377--16523454 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
16523367 ATATGATTGG
*
16523377 CTCTGCCACATATATCTGTTCTGGTGG
1 CTCTGCCACAT-TATCTGTTCTGGTGA
* *
16523404 TTCTGCCACGATTATTTGTATCTGGTGA
1 CTCTGCCAC-ATTATCTGT-TCTGGTGA
*
16523432 CTCTGTCACATTATCTGTTCTGG
1 CTCTGCCACATTATCTGTTCTGG
16523455 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.12
27 22 0.51
28 16 0.37
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (26 bp):
CTCTGCCACATTATCTGTTCTGGTGA
Found at i:16532500 original size:27 final size:26
Alignment explanation
Indices: 16532470--16532544 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
16532460 ATGATGGCTT
**
16532470 TGCCACATATATCTGTTCTGGTGGTTC
1 TGCCACAT-TATCTGTTCTGGTGACTC
16532497 TGCCACGATTATCTGTATCTGGTGACTC
1 TGCCAC-ATTATCTGT-TCTGGTGACTC
**
16532525 TTTCACATTATCTGTTCTGG
1 TGCCACATTATCTGTTCTGG
16532545 CAACCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.12
27 22 0.52
28 15 0.36
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGACTC
Found at i:16538504 original size:24 final size:24
Alignment explanation
Indices: 16538477--16538545 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
16538467 GTCAGGAGAG
16538477 GATTTAGGAGTTGATAAGGGATAA
1 GATTTAGGAGTTGATAAGGGATAA
*
16538501 GATTTAGGAGTTGATAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAA
**
16538525 GATTTAGGAGCAGATAAGGGA
1 GATTTAGGAGTTGATAAGGGA
16538546 GGAAATCTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.36, C:0.01, G:0.36, T:0.26
Consensus pattern (24 bp):
GATTTAGGAGTTGATAAGGGATAA
Found at i:16540018 original size:27 final size:26
Alignment explanation
Indices: 16539961--16540072 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 26
16539951 GGAAGCGTCT
* *
16539961 TGGTGGCTATGCCACAAATTATCTGATC
1 TGGTGGCTCTGCCAC--ATTATCTGTTC
16539989 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
*
16540016 TGGTGGTTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TC
* *
16540044 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
16540070 TGG
1 TGG
16540073 CAGCCATGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.51
28 30 0.40
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:16541161 original size:16 final size:15
Alignment explanation
Indices: 16541140--16541185 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
16541130 TTTTATTCCT
16541140 TATTTTATTTTCCTAC
1 TATTTTATTTT-CTAC
* *
16541156 TATTTTATTTTTTAT
1 TATTTTATTTTCTAC
16541171 TATTTTATTTT-TAC
1 TATTTTATTTTCTAC
16541185 T
1 T
16541186 TTTATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 3 0.11
15 13 0.48
16 11 0.41
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTATTTTCTAC
Found at i:16541207 original size:16 final size:16
Alignment explanation
Indices: 16541139--16541228 Score: 85
Period size: 16 Copynumber: 5.4 Consensus size: 16
16541129 TTTTTATTCC
*
16541139 TTATTTTATTTTCCTA
1 TTATTTTATTTTCTTA
*
16541155 CTATTTTATTTT-TTA
1 TTATTTTATTTTCTTA
16541170 TTATTTTATTTTTACTT-
1 TTATTTTA-TTTT-CTTA
*
16541187 TTATTATATTTTCTTAATA
1 TTATTTTATTTTC-T--TA
*
16541206 TTATTATATTTTCTTA
1 TTATTTTATTTTCTTA
16541222 TTATTTT
1 TTATTTT
16541229 TCCTATTATT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
15 10 0.16
16 28 0.45
17 7 0.11
18 4 0.06
19 13 0.21
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTATTTTCTTA
Found at i:16541211 original size:19 final size:19
Alignment explanation
Indices: 16541187--16541226 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16541177 ATTTTTACTT
16541187 TTATTATATTTTCTTAATA
1 TTATTATATTTTCTTAATA
*
16541206 TTATTATATTTTCTTATTA
1 TTATTATATTTTCTTAATA
16541225 TT
1 TT
16541227 TTTCCTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATATTTTCTTAATA
Found at i:16541230 original size:31 final size:32
Alignment explanation
Indices: 16541187--16541248 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
16541177 ATTTTTACTT
*
16541187 TTATTATATTTTCTTAATATTATTATATTTTC
1 TTATTATATTTTCCTAATATTATTATATTTTC
* *
16541219 TTATTAT-TTTTCCTATTATTATTATTTTTT
1 TTATTATATTTTCCTAATATTATTATATTTT
16541249 GCACTAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (32 bp):
TTATTATATTTTCCTAATATTATTATATTTTC
Found at i:16544819 original size:23 final size:21
Alignment explanation
Indices: 16544793--16544837 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 21
16544783 CTTTATGAAT
16544793 TGTATTATTAGTTTTTAATATTA
1 TGTATTATTA-TTTTT-ATATTA
16544816 TGTATTATTATTTTTATATTA
1 TGTATTATTATTTTTATATTA
16544837 T
1 T
16544838 TTTTAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TGTATTATTATTTTTATATTA
Found at i:16544854 original size:34 final size:34
Alignment explanation
Indices: 16544798--16544862 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
16544788 TGAATTGTAT
* * *
16544798 TATTAGTTTTTAATATTATGTATTATTATTTTTA
1 TATTAGTTTTTAACATAATGTATTATAATTTTTA
16544832 TATTA-TTTTTAACATAACTGTATTATAATTT
1 TATTAGTTTTTAACATAA-TGTATTATAATTT
16544863 CTAGTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (34 bp):
TATTAGTTTTTAACATAATGTATTATAATTTTTA
Found at i:16547578 original size:23 final size:23
Alignment explanation
Indices: 16547545--16547601 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
16547535 TTTTAATTTG
*
16547545 TAATTTCATGTTTAAATTATAAT
1 TAATTTGATGTTTAAATTATAAT
16547568 TAATTTGATGTTTAAATTATAAT
1 TAATTTGATGTTTAAATTATAAT
16547591 TAATTTGATGT
1 TAATTTGATGT
16547602 AATATATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.53
Consensus pattern (23 bp):
TAATTTGATGTTTAAATTATAAT
Found at i:16551283 original size:21 final size:20
Alignment explanation
Indices: 16551252--16551291 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
16551242 CACTTGAAGC
16551252 AAGGCACACG-TCTGTGTGGA
1 AAGGCACACGTTCT-TGTGGA
16551272 AAGGCAACACGTTCTTGTGG
1 AAGGC-ACACGTTCTTGTGG
16551292 CCATTATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 10 0.56
22 3 0.17
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (20 bp):
AAGGCACACGTTCTTGTGGA
Found at i:16552626 original size:49 final size:49
Alignment explanation
Indices: 16552516--16552648 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 49
16552506 GCACATTAAA
* * * *
16552516 GTCGATGCCATGTTCCAAACAGGTCTTAC-TCTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACAT-TGACTCTCATATAACGAG
* ** * *
16552565 GCCGATTTCATGTCCCAGACAGGTCTTACATTGGCTCTCATCTAAC-AG
1 GTCGATGCCATGTCCCAGACAGGTCTTACATTGACTCTCATATAACGAG
16552613 TGTCGATGCCATGTCCCAGACAGGTCTTACATTGAC
1 -GTCGATGCCATGTCCCAGACAGGTCTTACATTGAC
16552649 ACACAACAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 2 0.03
49 66 0.96
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACATTGACTCTCATATAACGAG
Found at i:16552741 original size:48 final size:46
Alignment explanation
Indices: 16552573--16552783 Score: 124
Period size: 46 Copynumber: 4.5 Consensus size: 46
16552563 AGGCCGATTT
* * * **
16552573 CATGTCCCAGACAGGTCTTACATTGGCTCTCATCTAACAGTGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCA-AG-GTCGATG
* * * * * * *
16552621 CCATGTCCCAGACAGGTCTTACA-TTG-ACACA-CAACAA-GTTGACG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATC-CCAAGGTCGATG
* * * * *
16552665 CCATGTCCCATACAGGTCTTATACTAGCTTGTATATCCCAAGGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCCCAAGGTCGATG
* * * * *
16552714 CATGTCCTAGACATGTCTTACATTAGCTCTCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAAGGTCGATG
*
16552760 CATGTCCCAGACATGTATTACACT
1 CATGTCCCAGACATGTCTTACACT
16552784 GACACTTATG
Statistics
Matches: 125, Mismatches: 30, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
44 26 0.21
45 2 0.02
46 35 0.28
47 6 0.05
48 28 0.22
49 28 0.22
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCCCAAGGTCGATG
Found at i:16557933 original size:24 final size:23
Alignment explanation
Indices: 16557906--16557961 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
16557896 AACGTAAAAC
*
16557906 TTTTATTTTGAAAATTATGTATTT
1 TTTTATTTTAAAAATTAT-TATTT
* *
16557930 TTTTATTTAAAAAATTCTTATTT
1 TTTTATTTTAAAAATTATTATTT
*
16557953 TCTTATTTT
1 TTTTATTTT
16557962 TTTATATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTATTTTAAAAATTATTATTT
Found at i:16570143 original size:22 final size:22
Alignment explanation
Indices: 16570115--16570156 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
16570105 GTATATATAT
16570115 ACTTAACCAATATTAGCCAACA
1 ACTTAACCAATATTAGCCAACA
16570137 ACTTAACCAATATTAGCCAA
1 ACTTAACCAATATTAGCCAA
16570157 TACCATATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (22 bp):
ACTTAACCAATATTAGCCAACA
Found at i:16585956 original size:17 final size:19
Alignment explanation
Indices: 16585924--16585961 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
16585914 AAACCTTCAA
16585924 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
16585943 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
16585960 TT
1 TT
16585962 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:16597705 original size:26 final size:27
Alignment explanation
Indices: 16597668--16597721 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
16597658 TGCTTCAATT
*
16597668 GAAGACTCTAGAAGACAATCGACAACA
1 GAAGACTCTAGAAGACAATCAACAACA
*
16597695 GAAG-CTCTAGAAGGCAATCAACAACA
1 GAAGACTCTAGAAGACAATCAACAACA
16597721 G
1 G
16597722 CTTGAGTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.11
Consensus pattern (27 bp):
GAAGACTCTAGAAGACAATCAACAACA
Found at i:16598421 original size:17 final size:17
Alignment explanation
Indices: 16598401--16598436 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16598391 TATAAAGAAT
16598401 ATAATAAATAATAAATA
1 ATAATAAATAATAAATA
**
16598418 ATAATATCTAATAAATA
1 ATAATAAATAATAAATA
16598435 AT
1 AT
16598437 TAAATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATAAATAATAAATA
Found at i:16599981 original size:26 final size:26
Alignment explanation
Indices: 16599945--16599996 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16599935 TTTTAATTCG
16599945 GAAGTATGATTACATTAAAGTTATAA
1 GAAGTATGATTACATTAAAGTTATAA
16599971 GAAGTATGATTACATTAAAGTTATAA
1 GAAGTATGATTACATTAAAGTTATAA
16599997 AAACTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (26 bp):
GAAGTATGATTACATTAAAGTTATAA
Found at i:16600972 original size:15 final size:16
Alignment explanation
Indices: 16600954--16600987 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16600944 ATGCAAAAAT
*
16600954 AAAAAATAAAAAA-GA
1 AAAAAAGAAAAAAGGA
16600969 AAAAAAGAAAAAAGGA
1 AAAAAAGAAAAAAGGA
16600985 AAA
1 AAA
16600988 TCGAAGCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAGGA
Found at i:16601658 original size:74 final size:73
Alignment explanation
Indices: 16601536--16601754 Score: 327
Period size: 74 Copynumber: 3.0 Consensus size: 73
16601526 TCTTAGCCTT
*
16601536 AAGA-AAGACAAGATGATTTAAA-T-AATAATTGTAACACAACTATGTGATAAAGGACCAATAAA
1 AAGACAAGACAAGATGATTTAAATTAAATAATTGTAACACAACTATATGATAAAGGACCAATAAA
16601598 GGCATCTC
66 GGCATCTC
* *
16601606 AAGACAAGACAAGATGATTTAAATTACAATAACTGTAACACAACTACATGATAAAGGACCAATAA
1 AAGACAAGACAAGATGATTTAAATTA-AATAATTGTAACACAACTATATGATAAAGGACCAATAA
*
16601671 AGACATCTC
65 AGGCATCTC
* * * *
16601680 AAGACAAGACAAGATGATTTAAATAATAATAATTGTTACACAACTTTATGACAAAGGACCAATAA
1 AAGACAAGACAAGATGATTTAAATTA-AATAATTGTAACACAACTATATGATAAAGGACCAATAA
16601745 AGGCATCTC
65 AGGCATCTC
16601754 A
1 A
16601755 GTATTACTTT
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
70 4 0.03
71 18 0.14
72 1 0.01
74 110 0.83
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (73 bp):
AAGACAAGACAAGATGATTTAAATTAAATAATTGTAACACAACTATATGATAAAGGACCAATAAA
GGCATCTC
Found at i:16603784 original size:11 final size:11
Alignment explanation
Indices: 16603768--16603843 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
16603758 GATAATCACT
16603768 TTAATATTAAA
1 TTAATATTAAA
16603779 TTAATA--AAA
1 TTAATATTAAA
*
16603788 -TACTATTAAA
1 TTAATATTAAA
*
16603798 ATAAGTATTAAA
1 TTAA-TATTAAA
16603810 TTAA-ATGTAATA
1 TTAATAT-TAA-A
16603822 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
16603835 ATAATATTA
1 TTAATATTA
16603844 TTTTTGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 5 0.10
11 16 0.31
12 15 0.29
13 4 0.08
14 3 0.06
15 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:16607908 original size:11 final size:11
Alignment explanation
Indices: 16607892--16607966 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 11
16607882 CTTAATCATT
16607892 TTAATATTAAA
1 TTAATATTAAA
16607903 TTAATA--AAA
1 TTAATATTAAA
*
16607912 -TACTATTAAGA
1 TTAATATTAA-A
*
16607923 TAAATATTAAA
1 TTAATATTAAA
16607934 TTTAAT-TTAATA
1 -TTAATATTAA-A
16607946 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
16607959 ATAATATT
1 TTAATATT
16607967 TTTTTGAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 18 0.36
12 16 0.32
13 3 0.06
14 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:16611654 original size:25 final size:24
Alignment explanation
Indices: 16611626--16611672 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16611616 GTTTATTTTC
*
16611626 ATAAGAGAATTGTTATAAAATTTAG
1 ATAAAAGAA-TGTTATAAAATTTAG
*
16611651 ATAAAATAATGTTATAAAATTT
1 ATAAAAGAATGTTATAAAATTT
16611673 TGCTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (24 bp):
ATAAAAGAATGTTATAAAATTTAG
Found at i:16617600 original size:36 final size:36
Alignment explanation
Indices: 16617558--16617626 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
16617548 ATCTTATTAC
*
16617558 TATGTTTTCTTGTAGTAATGGATCCTGATCGAATAT
1 TATGTTTTCTTATAGTAATGGATCCTGATCGAATAT
*
16617594 TATGTTTTCTTATAGTAATGGATCTTGATCGAA
1 TATGTTTTCTTATAGTAATGGATCCTGATCGAA
16617627 CTATGGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (36 bp):
TATGTTTTCTTATAGTAATGGATCCTGATCGAATAT
Found at i:16624788 original size:29 final size:28
Alignment explanation
Indices: 16624735--16624790 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
16624725 CACGTGCTAA
16624735 GACACGAGCGTGTCATGGCCGTGTGAAG
1 GACACGAGCGTGTCATGGCCGTGTGAAG
16624763 GACACGAGCATGTGTCA-GGCCGTGTGAA
1 GACACGAGC--GTGTCATGGCCGTGTGAA
16624791 AACCCCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.35
29 11 0.42
30 6 0.23
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.18
Consensus pattern (28 bp):
GACACGAGCGTGTCATGGCCGTGTGAAG
Found at i:16630784 original size:40 final size:40
Alignment explanation
Indices: 16630729--16630910 Score: 314
Period size: 40 Copynumber: 4.6 Consensus size: 40
16630719 TATTCGAATG
16630729 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
16630769 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
16630809 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
16630849 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
16630889 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
16630911 TACTTGGGTT
Statistics
Matches: 137, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.10
40 121 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:16632571 original size:49 final size:51
Alignment explanation
Indices: 16632451--16632582 Score: 178
Period size: 49 Copynumber: 2.6 Consensus size: 51
16632441 AACCATTTGA
* * *
16632451 TACACGTAGTAGCCTGTACTTAGTACTACACATGTGATCGAAGTTATCAGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGTTATCAGG
* * *
16632502 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCG-A-TTATCCGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGTTATCAGG
* *
16632551 TACACGTAGTAGCGTACACTTAGTACTACACA
1 TACACGTAGTAGCCTGCACTTAGTACTACACA
16632583 CGTGACCTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 35 0.49
50 1 0.01
51 35 0.49
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGTTATCAGG
Found at i:16632940 original size:30 final size:30
Alignment explanation
Indices: 16632906--16632965 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16632896 CTTTAATACG
16632906 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
16632936 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
16632966 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:16642301 original size:272 final size:272
Alignment explanation
Indices: 16641804--16642355 Score: 827
Period size: 272 Copynumber: 2.0 Consensus size: 272
16641794 AGCAGAGTAA
16641804 CAATATTTTAAAGTTGTGTAAATAGCCCTACTGGTGCCATCTATTTATAAGGAGAGAATGTAGAA
1 CAATATTTTAAAGTTGTGTAAATAGCCCTACTGGTGCCATCTATTTATAAGGAGAGAATGTAGAA
* **
16641869 CCCTTATTTAATTATAAAAAGTTTATTTTAACTAGAAAAACAAAATGTTAGTTCAACTAGGATGT
66 CCCTTATTTAATTATAAAAAGTTCATTTTAACTAGAAAAACAAAACCTTAGTTCAACTAGGATGT
* * *
16641934 AGGAGCGACAACCTTAGTTAATGATACTATGATTTGTTGTCCCACCTTATAACATAAGGGGCTTT
131 AGGAGCAACAACCTTAGTTAATGATACTATGATTTGTTATCCCACCTTATAACATAAGGGACTTT
*
16641999 TAGGCTTATTCCCTATCAAGTCTAATTACAAGTACTTCTCGGGCTTTCAATCCAATACTTTATAA
196 TAGGCTTATTCCCTATCAAGTCTAATTACAAGTAATTCTCGGGCTTTCAATCCAATACTTTATAA
16642064 TTTGATCCAACC
261 TTTGATCCAACC
* * *
16642076 CAATATTTTAAAGTTGTGTAAATAGCCTTTCTGGTGCCATCTATTTTTAAGGAGAGAATGTAGAA
1 CAATATTTTAAAGTTGTGTAAATAGCCCTACTGGTGCCATCTATTTATAAGGAGAGAATGTAGAA
** * ** * ***
16642141 CTTTTGTTTAATTAT-AGGAGTTCATTTTAACTAGAATAGTGAAACCTTAGTTCAACTAGGATGT
66 CCCTTATTTAATTATAAAAAGTTCATTTTAACTAGAAAAACAAAACCTTAGTTCAACTAGGATGT
* * *
16642205 AGGCGGCAACAACTTTAGTTAATGATACTATGATTTGTTATCCCACCTTATAACATAATGGACTT
131 AGG-AGCAACAACCTTAGTTAATGATACTATGATTTGTTATCCCACCTTATAACATAAGGGACTT
* ** * ** *
16642270 TTAGGCTTCTTCCCTATCGGGTCTGATTACAAGTAATTCTTTGGCTTTTAATCCAATACTTTATA
195 TTAGGCTTATTCCCTATCAAGTCTAATTACAAGTAATTCTCGGGCTTTCAATCCAATACTTTATA
16642335 ATTTGATCCAACC
260 ATTTGATCCAACC
16642348 CAATATTT
1 CAATATTT
16642356 ATTTTTCTAT
Statistics
Matches: 250, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
271 43 0.17
272 207 0.83
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (272 bp):
CAATATTTTAAAGTTGTGTAAATAGCCCTACTGGTGCCATCTATTTATAAGGAGAGAATGTAGAA
CCCTTATTTAATTATAAAAAGTTCATTTTAACTAGAAAAACAAAACCTTAGTTCAACTAGGATGT
AGGAGCAACAACCTTAGTTAATGATACTATGATTTGTTATCCCACCTTATAACATAAGGGACTTT
TAGGCTTATTCCCTATCAAGTCTAATTACAAGTAATTCTCGGGCTTTCAATCCAATACTTTATAA
TTTGATCCAACC
Found at i:16642584 original size:18 final size:19
Alignment explanation
Indices: 16642561--16642606 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
16642551 AAAACATAAA
*
16642561 TTCATTTTTCAA-ATCATT
1 TTCATTTTACAATATCATT
*
16642579 TTCATTTTACAATTGTCATT
1 TTCATTTTACAA-TATCATT
16642599 TTCATTTT
1 TTCATTTT
16642607 GGAGAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.46
20 13 0.54
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (19 bp):
TTCATTTTACAATATCATT
Found at i:16642704 original size:51 final size:51
Alignment explanation
Indices: 16642595--16642702 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
16642585 TTACAATTGT
* *
16642595 CATTTTCATTTTGGAGAAAACCACATTTATATCCAAATGATTTCAGTTCTC
1 CATTTTCATTTTGGAGAAAACCACAATCATATCCAAATGATTTCAGTTCTC
* ** * *
16642646 TATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATG-TTTCCTATTTCTC
1 CATTTTCATTTTGGAGAAAACCACAATCATATCCAAATGATTT-C-AGTTCTC
16642698 CATTT
1 CATTT
16642703 CACCATTTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 3 0.06
51 34 0.72
52 10 0.21
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (51 bp):
CATTTTCATTTTGGAGAAAACCACAATCATATCCAAATGATTTCAGTTCTC
Found at i:16646205 original size:92 final size:93
Alignment explanation
Indices: 16646032--16646230 Score: 346
Period size: 92 Copynumber: 2.2 Consensus size: 93
16646022 GCTTTGTCGA
* *
16646032 ATTACTAGTCCAGGCTAAATCCTTTATAAGACAAAGAATTACCTATAGCGTCATATATGGATTAC
1 ATTACCAGTCCAGGCTAAATCCTTTATAAGACAAAGAATTACCTATAGAGTCATATATGGATTAC
*
16646097 CAATCCAGGCTAAATCCAGTCAATTAGG
66 CAATCCAAGCTAAATCCAGTCAATTAGG
* *
16646125 ATTACCAGTCCAGGCTAAATCCTTTATAAGACAAAGAA-TCCCTATAGAGTCATATCTGGATTAC
1 ATTACCAGTCCAGGCTAAATCCTTTATAAGACAAAGAATTACCTATAGAGTCATATATGGATTAC
16646189 CAATCCAAGCTAAATCCAGTCAATTAGG
66 CAATCCAAGCTAAATCCAGTCAATTAGG
16646217 ATTACCAGTCCAGG
1 ATTACCAGTCCAGG
16646231 GTAAGTCTCA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 64 0.63
93 37 0.37
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (93 bp):
ATTACCAGTCCAGGCTAAATCCTTTATAAGACAAAGAATTACCTATAGAGTCATATATGGATTAC
CAATCCAAGCTAAATCCAGTCAATTAGG
Found at i:16649077 original size:46 final size:48
Alignment explanation
Indices: 16648981--16649143 Score: 142
Period size: 46 Copynumber: 3.5 Consensus size: 48
16648971 TATGTGTACC
* * * *
16648981 AGTGTAAGACATGTCTAGGACATGCATCGAC--C-AGATTATGA-GATCC
1 AGTGTAAGACATGTCCAGGACATACATCGACATCGAGA-TAT-ACGAGCT
* * * *
16649027 AGTGTAAGACATGTCCGGGACATGCATCGACATTGAGA-CTA-GAGCT
1 AGTGTAAGACATGTCCAGGACATACATCGACATCGAGATATACGAGCT
* * *
16649073 AGTGTAAGACATGTCTAGGACATACATCGGCCTCGAGATATACGAGCT
1 AGTGTAAGACATGTCCAGGACATACATCGACATCGAGATATACGAGCT
*
16649121 AGTGTAAGACCTGTCTCA-GACAT
1 AGTGTAAGACATGTC-CAGGACAT
16649144 GGCGTCAGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
46 65 0.68
47 3 0.03
48 24 0.25
49 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCCAGGACATACATCGACATCGAGATATACGAGCT
Found at i:16661978 original size:5 final size:5
Alignment explanation
Indices: 16661968--16662126 Score: 318
Period size: 5 Copynumber: 31.8 Consensus size: 5
16661958 TTTAAGTAAA
16661968 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
16662018 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
16662068 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
16662118 TATAT TATA
1 TATAT TATA
16662127 ATAATACAAA
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 154 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:16662213 original size:20 final size:19
Alignment explanation
Indices: 16662156--16662211 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
16662146 AAATGGAAAT
*
16662156 AGAAAAAGAGAAAGATAGAA
1 AGAAAAAG-GAAAGAAAGAA
* * *
16662176 TGAAACAGGGAAGGAAAGAA
1 AGAAA-AAGGAAAGAAAGAA
16662196 AGAAAAAGGAAAGAAA
1 AGAAAAAGGAAAGAAA
16662212 AGGAGAAAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 9 0.32
20 17 0.61
21 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.29, T:0.04
Consensus pattern (19 bp):
AGAAAAAGGAAAGAAAGAA
Found at i:16662561 original size:78 final size:78
Alignment explanation
Indices: 16662384--16662554 Score: 342
Period size: 78 Copynumber: 2.2 Consensus size: 78
16662374 TATTGAATGA
16662384 TTTGAGTATTAGGGATTAAATTGATAGATTTTTAAGTTAGAAATGAAAAAGGATTTAATTGTAGA
1 TTTGAGTATTAGGGATTAAATTGATAGATTTTTAAGTTAGAAATGAAAAAGGATTTAATTGTAGA
16662449 ATAAATTATAAAT
66 ATAAATTATAAAT
16662462 TTTGAGTATTAGGGATTAAATTGATAGATTTTTAAGTTAGAAATGAAAAAGGATTTAATTGTAGA
1 TTTGAGTATTAGGGATTAAATTGATAGATTTTTAAGTTAGAAATGAAAAAGGATTTAATTGTAGA
16662527 ATAAATTATAAAT
66 ATAAATTATAAAT
16662540 TTTGAGTATTAGGGA
1 TTTGAGTATTAGGGA
16662555 CAAAATTTTG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 93 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (78 bp):
TTTGAGTATTAGGGATTAAATTGATAGATTTTTAAGTTAGAAATGAAAAAGGATTTAATTGTAGA
ATAAATTATAAAT
Found at i:16668865 original size:27 final size:26
Alignment explanation
Indices: 16668802--16668898 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
16668792 AGCATGGCTG
* *
16668802 CCAGAACAGATAA-TGTGACAG-TCA
1 CCAGAACAGATAATTGTGGCAGACCA
16668826 CCAGATACAGATAATTGTGGCAGAACCA
1 CCAGA-ACAGATAATTGTGGCAG-ACCA
16668854 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGA-CCA
*
16668881 CCA-ATCAGATAATTGTGG
1 CCAGAACAGATAATTGTGG
16668899 AATAGCCGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
24 5 0.08
25 8 0.13
26 21 0.33
27 22 0.35
28 7 0.11
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATTGTGGCAGACCA
Found at i:16670355 original size:24 final size:24
Alignment explanation
Indices: 16670328--16670378 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
16670318 CTAGATTTCC
**
16670328 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
16670352 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
16670376 TCC
1 TCC
16670379 TGACAGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.39, G:0.02, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:16674061 original size:6 final size:6
Alignment explanation
Indices: 16674050--16674075 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16674040 GCCAGGCGCC
16674050 CCTCGA CCTCGA CCTCGA CCTCGA CC
1 CCTCGA CCTCGA CCTCGA CCTCGA CC
16674076 ATTTCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.15
Consensus pattern (6 bp):
CCTCGA
Done.