Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008415.1 Hibiscus syriacus cultivar Beakdansim tig00111193_pilon, whole genome shotgun sequence
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: 525802
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:2074 original size:18 final size:18
Alignment explanation
Indices: 2051--2085 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2041 TTCCATCCGG
*
2051 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2069 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2086 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:5832 original size:38 final size:38
Alignment explanation
Indices: 5775--5852 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
5765 TGGTATAAAA
* * * *
5775 GAGAACAATATTTTCTTTAACTATTTATATCACTTTAC
1 GAGAACAATATTTTATTTAACCATTAATATCACTTGAC
* *
5813 GAGAATAATGTTTTATTTAACCATTAATATCACTTGAC
1 GAGAACAATATTTTATTTAACCATTAATATCACTTGAC
5851 GA
1 GA
5853 ATTTAATATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (38 bp):
GAGAACAATATTTTATTTAACCATTAATATCACTTGAC
Found at i:6020 original size:16 final size:15
Alignment explanation
Indices: 5987--6016 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5977 CATTATTAAT
5987 TATTTCTTAAAATAA
1 TATTTCTTAAAATAA
*
6002 TATTTTTTAAAATAA
1 TATTTCTTAAAATAA
6017 ATATAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTCTTAAAATAA
Found at i:6479 original size:19 final size:19
Alignment explanation
Indices: 6457--6500 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6447 TATTAAAAAA
*
6457 TAAATATTAAA-TTATATTT
1 TAAA-ATTAAACTTATATAT
6476 TAAAATTAAACTTATATAT
1 TAAAATTAAACTTATATAT
6495 TAAAAT
1 TAAAAT
6501 AATTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATTAAACTTATATAT
Found at i:6909 original size:17 final size:18
Alignment explanation
Indices: 6887--6932 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
6877 AAATTCCAAA
6887 AATAAAAATTAAAT-TAC
1 AATAAAAATTAAATATAC
*
6904 AATAAAAATTTAATATAC
1 AATAAAAATTAAATATAC
6922 ATATTAAAAAT
1 A-A-TAAAAAT
6933 ATTAAAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 13 0.52
18 4 0.16
19 1 0.04
20 7 0.28
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAAAATTAAATATAC
Found at i:6916 original size:18 final size:19
Alignment explanation
Indices: 6887--6938 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 19
6877 AAATTCCAAA
6887 AATAAAAA-TTAAAT-TAC
1 AATAAAAATTTAAATATAC
6904 AATAAAAATTT-AATATAC
1 AATAAAAATTTAAATATAC
6922 ATATTAAAAATATTAAA
1 A-A-TAAAAAT-TTAAA
6939 ACTATTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 11 0.38
18 6 0.21
19 1 0.03
20 7 0.24
21 2 0.07
22 2 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAAAATTTAAATATAC
Found at i:7303 original size:25 final size:25
Alignment explanation
Indices: 7275--7325 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
7265 AAGTTTTGAC
*
7275 TAATCTAAAATTTGTAAGTCTCGAT
1 TAATCTAAAATTTATAAGTCTCGAT
* *
7300 TAATTTAAATTTTATAAGTCTCGAT
1 TAATCTAAAATTTATAAGTCTCGAT
7325 T
1 T
7326 TGTCTAGTAA
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:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (25 bp):
TAATCTAAAATTTATAAGTCTCGAT
Found at i:8525 original size:25 final size:25
Alignment explanation
Indices: 8497--8551 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
8487 ATAGCTTAAG
*
8497 ATAAAATCCTAAAAATATACAAATA
1 ATAAAATCCTAAAAATAAACAAATA
* *
8522 ATAAAATCCTAAAGATAAACAAATG
1 ATAAAATCCTAAAAATAAACAAATA
8547 ATAAA
1 ATAAA
8552 TCCCAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.64, C:0.11, G:0.04, T:0.22
Consensus pattern (25 bp):
ATAAAATCCTAAAAATAAACAAATA
Found at i:9030 original size:20 final size:21
Alignment explanation
Indices: 8988--9034 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8978 TGTATATTCA
*
8988 ATTTTTAGTAATTTAATTTTT
1 ATTTTTAGTAATTTAATTATT
* *
9009 ATTTTTAGTATTTTTA-TATT
1 ATTTTTAGTAATTTAATTATT
9029 ATTTTT
1 ATTTTT
9035 TTAAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
ATTTTTAGTAATTTAATTATT
Found at i:9121 original size:23 final size:24
Alignment explanation
Indices: 9034--9111 Score: 133
Period size: 24 Copynumber: 3.3 Consensus size: 24
9024 ATATTATTTT
9034 TTTAAATATTT-AAATAATTTTATA
1 TTTAAA-ATTTAAAATAATTTTATA
9058 TTTAAAATTTAAAATAATTTTATA
1 TTTAAAATTTAAAATAATTTTATA
9082 TTTAAAATTTAAAATAATTTT-TA
1 TTTAAAATTTAAAATAATTTTATA
9105 TTTAAAA
1 TTTAAAA
9112 AATTAAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
23 13 0.25
24 40 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTAAAATTTAAAATAATTTTATA
Found at i:10878 original size:23 final size:23
Alignment explanation
Indices: 10833--10879 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
10823 GATTAACTTA
*
10833 ATTTATTTATTTTATATACTTTT
1 ATTTATTTATTTTAAATACTTTT
*
10856 ATTTTTTTATTTTTAAATA-TTTT
1 ATTTATTTA-TTTTAAATACTTTT
10879 A
1 A
10880 GATGACCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTATTTATTTTAAATACTTTT
Found at i:12007 original size:16 final size:15
Alignment explanation
Indices: 11975--12004 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11965 TATTAATAAA
*
11975 AATTATTAATTTTTT
1 AATTAATAATTTTTT
11990 AATTAATAATTTTTT
1 AATTAATAATTTTTT
12005 TAAATTTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AATTAATAATTTTTT
Found at i:12956 original size:25 final size:23
Alignment explanation
Indices: 12898--12948 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
12888 AATAACATAT
* * **
12898 TAGGTACCGCTTATATAATGTAA
1 TAGGTAGCACTTATATAATAAAA
12921 TAGGTAGCACTTATATAATAAAA
1 TAGGTAGCACTTATATAATAAAA
12944 TAGGT
1 TAGGT
12949 TAATCACTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (23 bp):
TAGGTAGCACTTATATAATAAAA
Found at i:13002 original size:23 final size:23
Alignment explanation
Indices: 12976--13035 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
12966 ATCAAACACA
* *
12976 ATAATATATTAGGTACCGCTTAT
1 ATAATATAATAGGTACCACTTAT
* * *
12999 ATAATGTAATATGTATCACTTAT
1 ATAATATAATAGGTACCACTTAT
*
13022 ATAATAAAATAGGT
1 ATAATATAATAGGT
13036 TAATTACTGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTACCACTTAT
Found at i:13019 original size:87 final size:87
Alignment explanation
Indices: 12886--13122 Score: 420
Period size: 87 Copynumber: 2.7 Consensus size: 87
12876 ATTAACAAGT
12886 ACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTA
1 ACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTA
12951 ATCACTGGAAACATTATCAAAC
66 ATCACTGGAAACATTATCAAAC
* * *
12973 ACAATAATATATTAGGTACCGCTTATATAATGTAATATGTATCACTTATATAATAAAATAGGTTA
1 ACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTA
*
13038 ATTACTGGAAACATTATCAAAC
66 ATCACTGGAAACATTATCAAAC
* *
13060 ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGT
1 ACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGT
13123 AGCGCTTATA
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 141 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (87 bp):
ACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTA
ATCACTGGAAACATTATCAAAC
Found at i:13089 original size:23 final size:23
Alignment explanation
Indices: 13063--13145 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
13053 ATCAAACACA
* *
13063 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
13086 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
13109 ATAATAAAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
13132 ATAATAAAATAGGT
1 ATAATATAATAGGT
13146 TAATTACTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:13100 original size:110 final size:110
Alignment explanation
Indices: 12976--13229 Score: 373
Period size: 110 Copynumber: 2.3 Consensus size: 110
12966 ATCAAACACA
* * * ** * *
12976 ATAATATATTAGGTACCGCTTATATAATGTAATATGTATCACTTATATAATAAAATAGGTTAATT
1 ATAATGTAATAGGTAACGCTTATATAATAAAATAGGTAGCACTTATATAATAAAATAGGTTAATT
* * *
13041 ACTGGAAACATTATCAAACACAATAACATATTAGGTAGCGCTTAT
66 ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTAT
* *
13086 ATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
1 ATAATGTAATAGGTAACGCTTATATAATAAAATAGGTAGCACTTATATAATAAAATAGGTTAATT
* *
13151 ACTAGAAATATTATCAAGCACAATAACATATTAGGTACCACTTAT
66 ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTAT
*
13196 ATAATGTAATAGGTAACACTTATATAATAAAATA
1 ATAATGTAATAGGTAACGCTTATATAATAAAATA
13230 AGTTAATTAT
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 129 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (110 bp):
ATAATGTAATAGGTAACGCTTATATAATAAAATAGGTAGCACTTATATAATAAAATAGGTTAATT
ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTAT
Found at i:13195 original size:87 final size:87
Alignment explanation
Indices: 13095--13327 Score: 358
Period size: 87 Copynumber: 2.7 Consensus size: 87
13085 TATAATGTAA
* ** *
13095 TAGGTAGCGCTTATATAATAAAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTAGAAAT
1 TAGGTAGCACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTAGAAAC
13160 ATTATCAAGCACAATAACATAT
66 ATTATCAAGCACAATAACATAT
* * * * * *
13182 TAGGTACCACTTATATAATGTAATAGGTAACACTTATATAATAAAATAAGTTAATTATTGGAAAC
1 TAGGTAGCACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTAGAAAC
13247 ATTATCAAGCACAATAACATAT
66 ATTATCAAGCACAATAACATAT
* *
13269 TAAGTAGCACTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACT
1 TAGGTAGCACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACT
13328 TAATTTGTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 129 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (87 bp):
TAGGTAGCACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTAGAAAC
ATTATCAAGCACAATAACATAT
Found at i:13229 original size:23 final size:23
Alignment explanation
Indices: 13182--13229 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13172 AATAACATAT
* **
13182 TAGGTACCACTTATATAATGTAA
1 TAGGTAACACTTATATAATAAAA
13205 TAGGTAACACTTATATAATAAAA
1 TAGGTAACACTTATATAATAAAA
13228 TA
1 TA
13230 AGTTAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (23 bp):
TAGGTAACACTTATATAATAAAA
Found at i:13246 original size:197 final size:197
Alignment explanation
Indices: 12889--13319 Score: 682
Period size: 197 Copynumber: 2.2 Consensus size: 197
12879 AACAAGTACA
* * * **
12889 ATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTAATC
1 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTAGCACTTATATAATAAAATAGGTTAATC
* * * * *
12954 ACTGGAAACATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATATGTATCACT
66 ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAACACT
* * *
13019 TATATAATAAAATAGGTTAATTACTGGAAACATTATCAAACACAATAACATATTAGGTAGCGCTT
131 TATATAATAAAATAAGTTAATTACTGGAAACATTATCAAACACAATAACATATTAAGTAGCACTT
13084 AT
196 AT
* * *
13086 ATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
1 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTAGCACTTATATAATAAAATAGGTTAATC
* *
13151 ACTAGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAACACT
66 ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAACACT
* *
13216 TATATAATAAAATAAGTTAATTATTGGAAACATTATCAAGCACAATAACATATTAAGTAGCACTT
131 TATATAATAAAATAAGTTAATTACTGGAAACATTATCAAACACAATAACATATTAAGTAGCACTT
13281 AT
196 AT
13283 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGT
1 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGT
13320 TAATTACTTA
Statistics
Matches: 213, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
197 213 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (197 bp):
ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTAGCACTTATATAATAAAATAGGTTAATC
ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAACACT
TATATAATAAAATAAGTTAATTACTGGAAACATTATCAAACACAATAACATATTAAGTAGCACTT
AT
Found at i:13316 original size:23 final size:23
Alignment explanation
Indices: 13272--13319 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
13262 AACATATTAA
**
13272 GTAGCACTTATATAACGTAATAG
1 GTAGCACTTATATAACAAAATAG
* *
13295 GTAGCGCTTATATAATAAAATAG
1 GTAGCACTTATATAACAAAATAG
13318 GT
1 GT
13320 TAATTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (23 bp):
GTAGCACTTATATAACAAAATAG
Found at i:14293 original size:200 final size:198
Alignment explanation
Indices: 13890--14332 Score: 656
Period size: 200 Copynumber: 2.2 Consensus size: 198
13880 TTTAAAATAA
*
13890 ACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
*
13955 TAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAATATCGACAC
66 TAAATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCTGGAAAAAAATATCGACAC
* *
14020 AAACTTAAAATGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATATTTATACCG
131 AAACTTAAAATGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGTATATTTATACAG
14085 AGT
196 AGT
* *
14088 ACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
* * * * **
14152 AATAAATGTATCGACATTTTATGTGTGCACCTCATTTGGCATTCATTTTGGGCAAAATGTATCGA
66 --TAAATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCT-GGAAAAAAATATCGA
*** * * * *
14217 CAC-TTTTTAAATTTGTGTCGATACATTATGTTGACCTATTCTCTCATAAAATCGGTATATTTAT
128 CACAAACTTAAA-ATGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGTATATTTAT
*
14281 ACAGATT
192 ACAGAGT
14288 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
14333 AACATATGTG
Statistics
Matches: 220, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
197 3 0.01
198 58 0.26
199 48 0.22
200 111 0.50
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
TAAATGTATCGACACTTTATGTGTGCACCTCATTGGGCATTCATTCTGGAAAAAAATATCGACAC
AAACTTAAAATGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGTATATTTATACAG
AGT
Found at i:14474 original size:31 final size:30
Alignment explanation
Indices: 14433--14518 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
14423 TTATAATAAA
*
14433 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
14463 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
*
14493 TTATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
14519 AATAGTAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.04
30 28 0.58
31 16 0.33
32 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Found at i:14564 original size:23 final size:23
Alignment explanation
Indices: 14537--14580 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14527 TATTGACATA
14537 AATAATATT-AAATAAATTATTCT
1 AATAAT-TTAAAATAAATTATTCT
*
14560 AATAATTTAAAATATATTATT
1 AATAATTTAAAATAAATTATT
14581 ATTTTGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AATAATTTAAAATAAATTATTCT
Found at i:14773 original size:21 final size:21
Alignment explanation
Indices: 14734--14774 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14724 CGGTAAAAAT
* *
14734 TACCTAAAACATTATTATTTA
1 TACCTAAAACATCAATATTTA
14755 TACCTAAAACATCAATATTT
1 TACCTAAAACATCAATATTT
14775 TTTAACATTT
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:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTA
Found at i:19888 original size:15 final size:14
Alignment explanation
Indices: 19851--19921 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 14
19841 GTTATTAAAA
19851 TATCTCAACATCTC
1 TATCTCAACATCTC
* *
19865 TACCATCAACCTCCTC
1 TATC-TCAACAT-CTC
19881 TATCTCAACATCTC
1 TATCTCAACATCTC
19895 TATCATCATCATCATCTTC
1 TATC-TCA--A-CATC-TC
19914 TATCTCAA
1 TATCTCAA
19922 TCTTCTCGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
14 10 0.22
15 15 0.33
16 7 0.15
17 1 0.02
18 7 0.15
19 6 0.13
ACGTcount: A:0.28, C:0.37, G:0.00, T:0.35
Consensus pattern (14 bp):
TATCTCAACATCTC
Found at i:19916 original size:33 final size:30
Alignment explanation
Indices: 19851--19921 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 30
19841 GTTATTAAAA
*
19851 TATCTCAACATCTCTACCATCAACCTCCTC
1 TATCTCAACATCTCTACCATCAACATCCTC
* *
19881 TATCTCAACATCTCTATCATCATCATCATCTTC
1 TATCTCAACATCTCTA-C--CATCAACATCCTC
19914 TATCTCAA
1 TATCTCAA
19922 TCTTCTCGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 16 0.46
31 1 0.03
33 18 0.51
ACGTcount: A:0.28, C:0.37, G:0.00, T:0.35
Consensus pattern (30 bp):
TATCTCAACATCTCTACCATCAACATCCTC
Found at i:22579 original size:32 final size:32
Alignment explanation
Indices: 22543--22616 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
22533 CTGTTAACTG
*
22543 GGATATGCATATAGTTTCCATTACTTTAACCC
1 GGATATCCATATAGTTTCCATTACTTTAACCC
**
22575 GGATATCCATATAGTTTCCATTACTTTAACTG
1 GGATATCCATATAGTTTCCATTACTTTAACCC
22607 GGATATCCAT
1 GGATATCCAT
22617 TTGACTGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (32 bp):
GGATATCCATATAGTTTCCATTACTTTAACCC
Found at i:22879 original size:24 final size:24
Alignment explanation
Indices: 22841--22930 Score: 99
Period size: 24 Copynumber: 3.8 Consensus size: 24
22831 TTTAAAATGA
* *
22841 TAAACGAACACAAATGAACGAACG
1 TAAACAAACATAAATGAACGAACG
* *
22865 TAAACAAAAATAAATGAATGAACG
1 TAAACAAACATAAATGAACGAACG
* * * *
22889 TAAACGAACACAAACGAACGAACA
1 TAAACAAACATAAATGAACGAACG
*
22913 TAAACAAACGTAAATGAA
1 TAAACAAACATAAATGAA
22931 ACATATAAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.59, C:0.17, G:0.13, T:0.11
Consensus pattern (24 bp):
TAAACAAACATAAATGAACGAACG
Found at i:23095 original size:23 final size:23
Alignment explanation
Indices: 23052--23095 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
23042 TACTTGGGTT
*
23052 TTAAAATATTAATGGGTTTAAGG
1 TTAAAATATTAATAGGTTTAAGG
*
23075 TTAAAAT-TTATTAGGTATTAA
1 TTAAAATATTAATAGGT-TTAA
23096 TATTTCAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (23 bp):
TTAAAATATTAATAGGTTTAAGG
Found at i:30192 original size:4 final size:4
Alignment explanation
Indices: 30183--30209 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
30173 TTTATTCATG
30183 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
30210 AGAAATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:31698 original size:44 final size:45
Alignment explanation
Indices: 31650--31759 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 45
31640 ATATATTATC
* * **
31650 TTATAATTAATATATAAAAATTCAA-AACTATTTGTTCTATTAAA
1 TTATAATTAATATATAAAAATTCAATAAATATATGTAATATTAAA
**
31694 TTATAATTAATATATAACTA-TCAATAAATATATGTAATATTAAA
1 TTATAATTAATATATAAAAATTCAATAAATATATGTAATATTAAA
31738 TTATAATTAATA-AGTAAAAATT
1 TTATAATTAATATA-TAAAAATT
31760 AAGAATTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 5 0.09
44 49 0.89
45 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (45 bp):
TTATAATTAATATATAAAAATTCAATAAATATATGTAATATTAAA
Found at i:32373 original size:184 final size:184
Alignment explanation
Indices: 32064--32419 Score: 520
Period size: 184 Copynumber: 1.9 Consensus size: 184
32054 GTCACCACTT
* * * * *
32064 TATTGAATGAAAAATTTATTAGATTAAATAAAATAAAATTAGAAAAATATCTTCTAATCTCGTAA
1 TATTGAACGAAAAAATTATTAGATTAAATAAAACAAAATTAGAAAAATATCCTCTAATCTAGTAA
* *
32129 TGACACGTGTCACCATCTAATTGGAGATTAAATTCATTTTAATTGAACTAATGTATGATCAAATC
66 CGACACGTGTCACCATCTAATTGGAGACTAAATTCATTTTAATTGAACTAATGTATGATCAAATC
* * * *
32194 AATAGAATGTATAAATATTGAGGATCAAATATGCACTTATATTTGCCACCATCC
131 AATAGAATCTATAAATATCGAGGACCAAATATACACTTATATTTGCCACCATCC
*
32248 TATTGAACGAAAAAATTATT-GAATTAAATAAAACATAATTA-AGAAAATATCCTCTAATC-AGT
1 TATTGAACGAAAAAATTATTAG-ATTAAATAAAACAAAATTAGA-AAAATATCCTCTAATCTAG-
* *
32310 TAACGACACGTGTCACCATCTAATTGGAGGCTAAATTTATTTTAATTGAACTAATGTATGATCAA
63 TAACGACACGTGTCACCATCTAATTGGAGACTAAATTCATTTTAATTGAACTAATGTATGATCAA
* *
32375 ATCGATAGAATCTATAAATATCGAGGACCAAATATACAGTTATAT
128 ATCAATAGAATCTATAAATATCGAGGACCAAATATACACTTATAT
32420 CAAACTTTTA
Statistics
Matches: 153, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
183 3 0.02
184 150 0.98
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (184 bp):
TATTGAACGAAAAAATTATTAGATTAAATAAAACAAAATTAGAAAAATATCCTCTAATCTAGTAA
CGACACGTGTCACCATCTAATTGGAGACTAAATTCATTTTAATTGAACTAATGTATGATCAAATC
AATAGAATCTATAAATATCGAGGACCAAATATACACTTATATTTGCCACCATCC
Found at i:36449 original size:2 final size:2
Alignment explanation
Indices: 36442--36483 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
36432 ATAATTCTTA
36442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36484 CGATTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36680 original size:23 final size:23
Alignment explanation
Indices: 36653--36717 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
36643 TCTGTTTTAA
36653 AGAATTTCAATCAATTGACTTTT
1 AGAATTTCAATCAATTGACTTTT
36676 AGAATTTCAATCAATTGACTTTT
1 AGAATTTCAATCAATTGACTTTT
*
36699 AGAATTTCAATCATTTGAC
1 AGAATTTCAATCAATTGAC
36718 GATAAATGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (23 bp):
AGAATTTCAATCAATTGACTTTT
Found at i:40651 original size:3 final size:3
Alignment explanation
Indices: 40643--40669 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
40633 TGTCTGACCT
40643 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
40670 AAATATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:41787 original size:2 final size:2
Alignment explanation
Indices: 41780--41815 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
41770 CATACGTATG
41780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41816 AGGTAGTACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46753 original size:24 final size:24
Alignment explanation
Indices: 46727--47085 Score: 209
Period size: 24 Copynumber: 15.0 Consensus size: 24
46717 TAATAAGGGT
*
46727 GGCAACGGTAATGGAAATGGCAAT
1 GGCAACGGTAATGGAAATGGCAAC
* *
46751 GGCAACGGTAATGGAAACGGCAAT
1 GGCAACGGTAATGGAAATGGCAAC
* * * * *
46775 GGCAACAGAAATGGTAATGGAAAT
1 GGCAACGGTAATGGAAATGGCAAC
* ** *
46799 GGCAACGGAAACAGCAATGGCAAC
1 GGCAACGGTAATGGAAATGGCAAC
*
46823 GGCAATGGTAATGGAAATGGCAAC
1 GGCAACGGTAATGGAAATGGCAAC
* * * * * *
46847 GGAAATGGAAACGGTAATGGAAAC
1 GGCAACGGTAATGGAAATGGCAAC
* * * * * *
46871 GGAAATGGCAACGGTAATGGAAAC
1 GGCAACGGTAATGGAAATGGCAAC
* * * *
46895 GGCAATGGTAATGTAAACGGAAAC
1 GGCAACGGTAATGGAAATGGCAAC
* * * *
46919 GGCAACGGAAATGGAAACGGTAAT
1 GGCAACGGTAATGGAAATGGCAAC
* * * * *
46943 GGAAACGGCAATGGCAACGGAAAC
1 GGCAACGGTAATGGAAATGGCAAC
* * *
46967 GGAAATGGTAATGGCAATGGCAAC
1 GGCAACGGTAATGGAAATGGCAAC
* * * *
46991 GGCAACAGCAATGGTAATGGAAAC
1 GGCAACGGTAATGGAAATGGCAAC
* *
47015 GG-AACCGGTAATGGTAATGGCAAT
1 GGCAA-CGGTAATGGAAATGGCAAC
* ** *
47039 GGTAACGG-AAACGACAATGGTAAC
1 GGCAACGGTAATGGA-AATGGCAAC
* *
47063 GGAAACGGTAATGGCAATGGCAA
1 GGCAACGGTAATGGAAATGGCAA
47086 TGGGAATGGC
Statistics
Matches: 268, Mismatches: 63, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
23 5 0.02
24 258 0.96
25 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.32, T:0.13
Consensus pattern (24 bp):
GGCAACGGTAATGGAAATGGCAAC
Found at i:46787 original size:42 final size:42
Alignment explanation
Indices: 46739--46992 Score: 193
Period size: 42 Copynumber: 6.0 Consensus size: 42
46729 CAACGGTAAT
* * *
46739 GGAAATGGCAATGGCAACGGTAATGGAAACGGCAATGGCAAC
1 GGAAATGGAAATGGAAACGGAAATGGAAACGGCAATGGCAAC
* * * * * *
46781 AGAAATGGTAATGGAAATGGCAACGGAAACAGCAATGGCAAC
1 GGAAATGGAAATGGAAACGGAAATGGAAACGGCAATGGCAAC
* * * * * * * * * *
46823 GGCAATGGTAATGGAAATGGCAACGGAAATGGAAACGGTAAT
1 GGAAATGGAAATGGAAACGGAAATGGAAACGGCAATGGCAAC
* * * * *
46865 GGAAACGGAAATGGCAACGGTAATGGAAACGGCAATGGTAAT
1 GGAAATGGAAATGGAAACGGAAATGGAAACGGCAATGGCAAC
* * * * * *
46907 GTAAACGGAAACGGCAACGGAAATGGAAACGGTAATGGAAAC
1 GGAAATGGAAATGGAAACGGAAATGGAAACGGCAATGGCAAC
* * * * *
46949 GGCAATGGCAACGGAAACGGAAATGGTAATGGCAATGGCAAC
1 GGAAATGGAAATGGAAACGGAAATGGAAACGGCAATGGCAAC
46991 GG
1 GG
46993 CAACAGCAAT
Statistics
Matches: 172, Mismatches: 40, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 172 1.00
ACGTcount: A:0.41, C:0.14, G:0.33, T:0.13
Consensus pattern (42 bp):
GGAAATGGAAATGGAAACGGAAATGGAAACGGCAATGGCAAC
Found at i:47004 original size:30 final size:30
Alignment explanation
Indices: 46931--47061 Score: 105
Period size: 30 Copynumber: 4.6 Consensus size: 30
46921 CAACGGAAAT
* * * *
46931 GGAAACGGTAATGGAAACGGCAATGGCAAC
1 GGAAACAGAAATGGTAATGGCAATGGCAAC
*
46961 GGAAACGGAAATGGTAATGGCAATGGCAAC
1 GGAAACAGAAATGGTAATGGCAATGGCAAC
* *
46991 GGCAACAGCAATGGTAATGG--A----AAC
1 GGAAACAGAAATGGTAATGGCAATGGCAAC
* * * *
47015 GGAACCGGTAATGGTAATGGCAATGGTAAC
1 GGAAACAGAAATGGTAATGGCAATGGCAAC
47045 GGAAAC-GACAATGGTAA
1 GGAAACAGA-AATGGTAA
47062 CGGAAACGGT
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
24 19 0.23
26 1 0.01
28 1 0.01
29 1 0.01
30 60 0.73
ACGTcount: A:0.40, C:0.15, G:0.32, T:0.14
Consensus pattern (30 bp):
GGAAACAGAAATGGTAATGGCAATGGCAAC
Found at i:47010 original size:54 final size:54
Alignment explanation
Indices: 46730--47100 Score: 277
Period size: 54 Copynumber: 7.0 Consensus size: 54
46720 TAAGGGTGGC
* * * * * * * *
46730 AACGGTAATGGAAATGGCAATGGCAACGGTAATGGAAACGGCAATGGCAACAGA
1 AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGGA
* * * * * * *
46784 AATGGTAATGGAAATGGCAACGGAAACAGCAATGGCAACGGCAATGGTAATGGA
1 AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGGA
* * * * * * * *
46838 AATGGCAACGGAAATGGAAACGGTAATGGAAACGGAAATGGCAACGGTAATGGA
1 AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGGA
* * * * * *
46892 AACGGCAATGGTAATGTAAACGGAAACGGCAACGGAAATGGAAACGGTAATGGA
1 AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGGA
* * * * *
46946 AACGGC------AATGGCAACGGAAACGGAAATGGTAATGGCAATGGCAACGGC
1 AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGGA
* * * * *
46994 AACAGCAATGGTAATGGAAACGGAACCGGTAATGGTAATGGCAATGGTAACGGA
1 AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGGA
* * * * * * * *
47048 AACGACAATGGTAACGGAAACGGTAATGGCAATGGCAATGGGAATGGCAACGG
1 AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGG
47101 CACCAACAAT
Statistics
Matches: 257, Mismatches: 54, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
48 37 0.14
54 220 0.86
ACGTcount: A:0.40, C:0.14, G:0.32, T:0.13
Consensus pattern (54 bp):
AACGGCAATGGAAATGGAAACGGAAACGGCAATGGAAATGGCAATGGTAACGGA
Found at i:47076 original size:36 final size:36
Alignment explanation
Indices: 46751--47082 Score: 196
Period size: 36 Copynumber: 9.4 Consensus size: 36
46741 AAATGGCAAT
* * * * *
46751 GGCAACGGTAATGGAAACGGCAATGGCAACAGAAAT
1 GGCAATGGTAATGGAAACGACAACGGCAACGGAAAC
* * * * * *
46787 GGTAATGGAAATGGCAACGGA-AACAGCAATGGCAAC
1 GGCAATGGTAATGGAAAC-GACAACGGCAACGGAAAC
* * * *
46823 GGCAATGGTAATGGAAATGGCAACGGAAATGGAAAC
1 GGCAATGGTAATGGAAACGACAACGGCAACGGAAAC
* * * * * * *
46859 GGTAATGGAAACGGAAATGGCAACGGTAATGGAAAC
1 GGCAATGGTAATGGAAACGACAACGGCAACGGAAAC
* *
46895 GGCAATGGTAATGTAAACGGA-AACGGCAACGGAAAT
1 GGCAATGGTAATGGAAAC-GACAACGGCAACGGAAAC
* * * *
46931 GGAAACGGTAATGGAAACGGCAATGGCAACGGAAAC
1 GGCAATGGTAATGGAAACGACAACGGCAACGGAAAC
* * *
46967 GGAAATGGTAAT-G----G-CAATGGCAACGGCAAC
1 GGCAATGGTAATGGAAACGACAACGGCAACGGAAAC
* * * * * *
46997 AGCAATGGTAATGGAAACGGA-ACCGGTAATGGTAAT
1 GGCAATGGTAATGGAAAC-GACAACGGCAACGGAAAC
* * *
47033 GGCAATGGTAACGGAAACGACAATGGTAACGGAAAC
1 GGCAATGGTAATGGAAACGACAACGGCAACGGAAAC
* *
47069 GGTAATGGCAATGG
1 GGCAATGGTAATGG
47083 CAATGGGAAT
Statistics
Matches: 226, Mismatches: 58, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
30 25 0.11
31 2 0.01
35 5 0.02
36 192 0.85
37 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.32, T:0.13
Consensus pattern (36 bp):
GGCAATGGTAATGGAAACGACAACGGCAACGGAAAC
Found at i:52771 original size:21 final size:21
Alignment explanation
Indices: 52715--52764 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
52705 TTTACCCGAA
* *
52715 CTTCTTGGCTTTAAATCATCC
1 CTTCTCGGCTTTAAAGCATCC
*
52736 TTTCTCGGCTTTAAAGCATCC
1 CTTCTCGGCTTTAAAGCATCC
52757 CTTCTCGG
1 CTTCTCGG
52765 TTATAAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.40
Consensus pattern (21 bp):
CTTCTCGGCTTTAAAGCATCC
Found at i:66921 original size:23 final size:23
Alignment explanation
Indices: 66882--66937 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
66872 CATAGAGAAT
* *
66882 CGATACCCCC-TTAAAGGTGAAC
1 CGATTCCCCCTTTAAAGGGGAAC
*
66904 CGATTCCCCCTTTGAAGGGGAAC
1 CGATTCCCCCTTTAAAGGGGAAC
66927 CGATTCCCCCT
1 CGATTCCCCCT
66938 AGGGGAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (23 bp):
CGATTCCCCCTTTAAAGGGGAAC
Found at i:66943 original size:19 final size:19
Alignment explanation
Indices: 66900--66960 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
66890 CCTTAAAGGT
66900 GAACCGATTCCCCCTTTGAAGGG
1 GAACCGATTCCCCC--T--AGGG
66923 GAACCGATTCCCCCTAGGG
1 GAACCGATTCCCCCTAGGG
* *
66942 GAATCGATACCCCCT-GGG
1 GAACCGATTCCCCCTAGGG
66960 G
1 G
66961 TTCTGGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 4 0.11
19 17 0.47
21 1 0.03
23 14 0.39
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (19 bp):
GAACCGATTCCCCCTAGGG
Found at i:71097 original size:17 final size:17
Alignment explanation
Indices: 71072--71105 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71062 CTTTATCCCA
*
71072 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
71089 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
71106 TTATTTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:71201 original size:20 final size:20
Alignment explanation
Indices: 71159--71204 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
71149 TCTATATTAC
*
71159 TATTTTAATTCATTATTTAT
1 TATTTTAATTCATAATTTAT
*
71179 TATTTTAATTTATAA-TTATT
1 TATTTTAATTCATAATTTA-T
71199 TATTTT
1 TATTTT
71205 TTTATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTAATTCATAATTTAT
Found at i:71212 original size:20 final size:22
Alignment explanation
Indices: 71170--71213 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
71160 ATTTTAATTC
*
71170 ATTATTTATTATTTTAATTTATA
1 ATTATTTATTATTTT-ATATATA
*
71193 ATTATTTATTTTTTTATATAT
1 ATTATTTATTATTTTATATAT
71214 TTTCAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTATTTATTATTTTATATATA
Found at i:72563 original size:42 final size:41
Alignment explanation
Indices: 72536--72882 Score: 543
Period size: 42 Copynumber: 8.3 Consensus size: 41
72526 TCCAAGTTCG
72536 CGTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
* *
72576 CGTTGCGATAGTCAAAGTTCGCGTTACGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
72618 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
72660 CGTTGCGATAGTAGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
72702 CGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
72744 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
72786 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* * *
72828 CGTTGCGATAGTCAAAGTTCGCGTTACGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
72870 CGTTGCGATAGTC
1 CGTTGCGATAGTC
72883 CAAAATCGTA
Statistics
Matches: 290, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 27 0.09
41 2 0.01
42 261 0.90
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:72678 original size:84 final size:84
Alignment explanation
Indices: 72526--72882 Score: 621
Period size: 84 Copynumber: 4.2 Consensus size: 84
72516 ATTGCGATAG
72526 TCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTC
1 TCCAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
72589 AAAGTTCGCGTTACGATTTAT
64 AAAGTTCGCGTTACGATTTAT
*
72610 TCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGT-AG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCA-
*
72674 AAGTTCGCGTTGCGATTTAT
65 AAGTTCGCGTTACGATTTAT
* *
72694 TCCAAGTTCGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGA
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAA
*
72759 AGTTCGCGTTGCGATTTAT
66 AGTTCGCGTTACGATTTAT
72778 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAA
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAA
72843 AGTTCGCGTTACGATTTAT
66 AGTTCGCGTTACGATTTAT
72862 TCCAAGTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTC
72883 CAAAATCGTA
Statistics
Matches: 261, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
82 29 0.11
83 3 0.01
84 229 0.88
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (84 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAA
AGTTCGCGTTACGATTTAT
Found at i:72738 original size:126 final size:126
Alignment explanation
Indices: 72536--72882 Score: 617
Period size: 126 Copynumber: 2.8 Consensus size: 126
72526 TCCAAGTTCG
72536 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCAAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCG
72599 TTACGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
66 TTACGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
* * * *
72660 CGTTGCGATAGTAGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCACG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCG
* *
72725 TTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
66 TTACGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
72786 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCG
*
72851 TTACGATTTATTCCAAGTTCGTTGCGATAGTC
66 TTACGATTTATTCCAAATTCGTTGCGATAGTC
72883 CAAAATCGTA
Statistics
Matches: 209, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
124 28 0.13
125 2 0.01
126 179 0.86
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (126 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCG
TTACGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:73556 original size:21 final size:21
Alignment explanation
Indices: 73532--73643 Score: 83
Period size: 21 Copynumber: 5.4 Consensus size: 21
73522 CGTTTGGACT
*
73532 ATCGCAACGAATTTTGAATAA
1 ATCGCAACGAATTTCGAATAA
* *
73553 ATCGCAACGCGAACTTCG-AT-T
1 ATCGCAA--CGAATTTCGAATAA
*
73574 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTCGAATAA
* *
73595 ATCGCAACGCAAACTTCGACT--
1 ATCGCAACG--AATTTCGAATAA
*
73616 ATCGCAACGAATTT-GGA-AA
1 ATCGCAACGAATTTCGAATAA
73635 ATCGCAACG
1 ATCGCAACG
73644 CGAACTTCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
18 1 0.01
19 20 0.28
20 2 0.03
21 32 0.45
22 2 0.03
23 14 0.20
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTCGAATAA
Found at i:73593 original size:42 final size:42
Alignment explanation
Indices: 73528--73664 Score: 233
Period size: 42 Copynumber: 3.3 Consensus size: 42
73518 CAGTCGTTTG
*
73528 GACTATCGCAACGAATTTTGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
73570 GATTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
73612 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
73652 GACTATCGCAACG
1 GACTATCGCAACG
73665 CGAACTTCGA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 31 0.34
41 1 0.01
42 58 0.64
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:73659 original size:21 final size:21
Alignment explanation
Indices: 73553--73729 Score: 159
Period size: 21 Copynumber: 8.6 Consensus size: 21
73543 TTTTGAATAA
*
73553 ATCGCAACGCGAACTTCGATT
1 ATCGCAACGCGAACTTCGACT
* * *
73574 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
*
73593 AAATCGCAACGCAAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
73616 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
73635 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
73656 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
73677 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
73696 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
73717 ATCGCAATGCGAA
1 ATCGCAACGCGAA
73730 TATGTAAATC
Statistics
Matches: 124, Mismatches: 24, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
19 38 0.31
21 78 0.63
23 8 0.06
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:73729 original size:61 final size:61
Alignment explanation
Indices: 73595--73729 Score: 243
Period size: 61 Copynumber: 2.2 Consensus size: 61
73585 TTTGGAATAA
*
73595 ATCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
*
73656 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
*
73717 ATCGCAATGCGAA
1 ATCGCAACGCGAA
73730 TATGTAAATC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (61 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:73767 original size:21 final size:21
Alignment explanation
Indices: 73738--73790 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
73728 AATATGTAAA
73738 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
73759 TCGCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
73780 TTGCATTGCGA
1 TCGCATTGCGA
73791 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:73956 original size:15 final size:15
Alignment explanation
Indices: 73936--73973 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
73926 TTATTTTCTC
73936 TTAAATAAATAATAA
1 TTAAATAAATAATAA
73951 TTAAATAAATAATAA
1 TTAAATAAATAATAA
73966 TTAAATAA
1 TTAAATAA
73974 TAAACTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAATAAATAATAA
Found at i:73957 original size:11 final size:11
Alignment explanation
Indices: 73939--73977 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
73929 TTTTCTCTTA
73939 AATAAAT-AAT
1 AATAAATAAAT
73949 AATTAAATAAAT
1 AA-TAAATAAAT
*
73961 AATAATTAAAT
1 AATAAATAAAT
73972 AATAAA
1 AATAAA
73978 CTATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.08
11 18 0.72
12 5 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:74135 original size:6 final size:6
Alignment explanation
Indices: 74124--74158 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
74114 ATTTATAGGA
74124 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAG
1 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAG
74159 TTGGGCGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.83, T:0.00
Consensus pattern (6 bp):
GGGAGG
Found at i:75542 original size:2 final size:2
Alignment explanation
Indices: 75535--75593 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
75525 TTGATTTTGA
75535 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75577 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
75594 GTATCTTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:75684 original size:2 final size:2
Alignment explanation
Indices: 75677--75742 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
75667 TTTGATTTTG
75677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75719 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
75743 TAGTATCTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82483 original size:15 final size:16
Alignment explanation
Indices: 82447--82486 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 16
82437 TCTATTATTA
82447 TATATTATTATATGCCTT
1 TATA-TATTATATG-CTT
82465 TATATATTATATG-TT
1 TATATATTATATGCTT
82480 TATATAT
1 TATATAT
82487 GTTATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
17 9 0.41
18 4 0.18
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (16 bp):
TATATATTATATGCTT
Found at i:82491 original size:17 final size:17
Alignment explanation
Indices: 82444--82493 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
82434 GCATCTATTA
82444 TTATATATTATTATATGCCT
1 TTATATA-T-TTATATG-CT
82464 TTATATA-TTATATG-T
1 TTATATATTTATATGCT
82479 TTATATATGTTATAT
1 TTATATAT-TTATAT
82494 ATATAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
17 13 0.46
20 7 0.25
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (17 bp):
TTATATATTTATATGCT
Found at i:83031 original size:14 final size:14
Alignment explanation
Indices: 83009--83040 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
82999 CGTTCGTGAA
*
83009 CGTTTGGTTATGTT
1 CGTTCGGTTATGTT
83023 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
83037 CGTT
1 CGTT
83041 TATGTTTATT
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:0.06, C:0.12, G:0.28, T:0.53
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:83775 original size:16 final size:16
Alignment explanation
Indices: 83752--83812 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
83742 GAGTCTCCAA
*
83752 CGTTTATGTTTGTGTT
1 CGTTTATGTTCGTGTT
*
83768 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
83784 CGTTTATGTTCATGTT
1 CGTTTATGTTCGTGTT
83800 CGTTTATGTTCGT
1 CGTTTATGTTCGT
83813 TTATTTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.10, C:0.11, G:0.21, T:0.57
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:86132 original size:766 final size:761
Alignment explanation
Indices: 84642--86149 Score: 2112
Period size: 766 Copynumber: 2.0 Consensus size: 761
84632 CCACAAGGGT
* * * *
84642 TTTTCTACTGCTTTGAATTCATGCGTATGGGTCACAGGGGGTCATTAACTCTTTTTGGTCATTTG
1 TTTTCTACAGCTTTGAATTCATGCGCATGGGTCACAGGGGGTCATTAACTCTTGTTGGTCATTTA
* * * * * *
84707 TTTCACAAATAAGAATCGTCTCAAGGTCATAATTCTTCCACATATACAACGATCAGTGGTCTCTT
66 TTTCACAAATAAGAATCGTCTCAAGGCCATAATGCTCCCACATATACAACAATAAGTGGTCCCTT
* *
84772 GACAACCCATGCTCTCTACCAACACTCCCAAAATGACCAAATAATGAAAGGCTCTTGGAAGAATC
131 GACAACCCATGCTCTCTACCAACACTCCCAAAATAACCAAAGAATGAAAGGCTCTTGGAAGAATC
* * *
84837 CTTTTTGACATCTCGTATGGGGAGGAAAAAAGTGAAAAGAGACATCTTTGTGATCAAAACCTCCC
196 CTTTTTGACATCTCGTATGAGGAGCAAAAAAATGAAAAGAGACATCTTTGTGATCAAAACCTCCC
* * *
84902 TCAGCCATCAGATCAGGCCACATATCAGAATCAATGGTAAAGGAGGATCATTTCCCTCAAAGTCT
261 TCAGCCATCAGATCAGACCACAGATCAGAATCAATGGTAAAGAAGGATCATTTCCCTCAAAGTCT
* * * *
84967 CACATGCAAAGCAAAAAAAAAAAAAAATTAGAATGAGTTCTTTTCTTCAAAGTGGGATATAAAAC
326 CACATACAAAGCAAAAAAAAAAAAAAACTAAAAAGAGTTCTTTTCTTCAAAGTGGGATATAAAAC
* * ** * * *
85032 GAAAACAGAAAGAAAGAGAGGGACTTTTCTGAATCAACCAAAAAATAGTTTTTTTCGAAATAGGA
391 GAAAACAGAAAGAAAGAAAGAGACTTTTCCAAATCAACCAAAAAATAGGTTTTTT--AAACAGAA
* * *
85097 AACCCAAAGAGAAAAAGAAATAGAGCGAAAAACTCTCACCTCGTGAAAAATAATTCATCGTTTTC
454 AACCCAAAGAGAAAAAGAAATAGAGAGAAAAACTCTCACCTCATGAAAAACAATTCATCGTTTTC
*
85162 TTTGCTAAAAGTTATGAGAATCTTCGATGATCGAAGGCCTAGTACAAAACTCAAACAGTAGAAGT
519 TTTGCTAAAAGCTATGAGAATCTTCGATGATCGAAGGCCTAGTACAAAACTCAAACAGTAGAAGT
* *
85227 GACTCAATACACAAAATGACTCAAGTTAAAGAAAAACAATAGAAACCCTAGGAGCATAAGCCATC
584 GACTAAATACACAAAATGACTCAAGTTAAAGAAAAACAACAGAAACCCTAGGAGCATAAGCCATC
* * * * *
85292 CATGCGCCGCCAAGATCATCCACCGTTAGATTTGAGAAGTGATTAATGAACTAGATTGAACCAGT
649 CATGCACCGCCAAGATCATCCACCGCTAGATTTGAGAAGTGACTAATAAACCAGATTGAACCAGT
*
85357 GTTAAAACTAGGATTTTTAACCCTAATAGATATCTAACGGCCTAGATA
714 GTTAAAACTAGGATTTTAAACCCTAATAGATATCTAACGGCCTAGATA
* * *
85405 TTTTCTACAGGTTTGAATTCGTGCGCATGGGTCACAGGGGGTCATTAACTGTTGTTGGTCATTTA
1 TTTTCTACAGCTTTGAATTCATGCGCATGGGTCACAGGGGGTCATTAACTCTTGTTGGTCATTTA
* * *
85470 TTTCACAAATTAA-AATCGTCTCAAGGCCATGATGCTCCCACGTCTACAACAATAAGTGGTCCCT
66 TTTCACAAA-TAAGAATCGTCTCAAGGCCATAATGCTCCCACATATACAACAATAAGTGGTCCCT
* ** * *
85534 TGACCACCCATGCTCTCTACCAACA-TTTCAAAATAAGCAAAGAATGAAAGGCTCTTGGCAGAAT
130 TGACAACCCATGCTCTCTACCAACACTCCCAAAATAACCAAAGAATGAAAGGCTCTTGGAAGAAT
* * *
85598 TCTTTTTGACATCTCGTATGAGGAGCAAACAAAATGAAAGGAGACATCTTTGTGATGAAAACCTC
195 CCTTTTTGACATCTCGTATGAGGAGCAAA-AAAATGAAAAGAGACATCTTTGTGATCAAAACCTC
* *
85663 CCTCAGCCATCAGATC-GAACCACAGATCAGAATCAATGGTGAAAGAAGGGTCATTTCCCTCCAA
259 CCTCAGCCATCAGATCAG-ACCACAGATCAGAATCAATGGT-AAAGAAGGATCATTTCCCTCAAA
** * * *
85727 GTCTCACATACAAAGCTAAAAAAGTAGAAAAACTAAAAAGAGTGTCTTTTATTTTCTAAG-GGGA
322 GTCTCACATACAAAGC-AAAAAAAAAAAAAAACTAAAAAGAGT-TC-TTT-TCTTCAAAGTGGGA
85791 TATAAAACGAAAACAGAAAGAAAGAAAGAGACTTTTCCAAATCAACCAAAAAATACGGTTTTTT-
383 TATAAAACGAAAACAGAAAGAAAGAAAGAGACTTTTCCAAATCAACCAAAAAATA-GGTTTTTTA
* * * *
85855 AACAGAAAACCCAAAGAGAAAAAAGAAATAGAGAGAAAAACTCTTACCTCATTAAAGACGATTCA
447 AACAGAAAACCCAAAGAG-AAAAAGAAATAGAGAGAAAAACTCTCACCTCATGAAAAACAATTCA
* * * *
85920 TCGTTTTCTTTGCTAAAAGCTA-GAAGAATTTTTGATGATTGAAGGCCTAGTACAAAACTCAAAT
511 TCGTTTTCTTTGCTAAAAGCTATG-AGAATCTTCGATGATCGAAGGCCTAGTACAAAACTCAAAC
* ** * *
85984 AGTAGAAGTGAAC-AAATACACGAAATGACTCAAGTTAAAGGGAAACAACAGAAACCCTGGGAGT
575 AGTAGAAGTG-ACTAAATACACAAAATGACTCAAGTTAAAGAAAAACAACAGAAACCCTAGGAGC
* * *
86048 ATAAGCTATCCATGCATCGCCAAGATCATTCACCGCTAGATTTGAGAAGTGACTAATAAACCAGA
639 ATAAGCCATCCATGCACCGCCAAGATCATCCACCGCTAGATTTGAGAAGTGACTAATAAACCAGA
* * *
86113 TTGTACCATTGTTAAAACTAGGGTTTTAAACCCTAAT
704 TTGAACCAGTGTTAAAACTAGGATTTTAAACCCTAAT
86150 GGATCTGCGC
Statistics
Matches: 652, Mismatches: 81, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
762 60 0.09
763 201 0.31
764 38 0.06
765 37 0.06
766 242 0.37
767 60 0.09
768 14 0.02
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (761 bp):
TTTTCTACAGCTTTGAATTCATGCGCATGGGTCACAGGGGGTCATTAACTCTTGTTGGTCATTTA
TTTCACAAATAAGAATCGTCTCAAGGCCATAATGCTCCCACATATACAACAATAAGTGGTCCCTT
GACAACCCATGCTCTCTACCAACACTCCCAAAATAACCAAAGAATGAAAGGCTCTTGGAAGAATC
CTTTTTGACATCTCGTATGAGGAGCAAAAAAATGAAAAGAGACATCTTTGTGATCAAAACCTCCC
TCAGCCATCAGATCAGACCACAGATCAGAATCAATGGTAAAGAAGGATCATTTCCCTCAAAGTCT
CACATACAAAGCAAAAAAAAAAAAAAACTAAAAAGAGTTCTTTTCTTCAAAGTGGGATATAAAAC
GAAAACAGAAAGAAAGAAAGAGACTTTTCCAAATCAACCAAAAAATAGGTTTTTTAAACAGAAAA
CCCAAAGAGAAAAAGAAATAGAGAGAAAAACTCTCACCTCATGAAAAACAATTCATCGTTTTCTT
TGCTAAAAGCTATGAGAATCTTCGATGATCGAAGGCCTAGTACAAAACTCAAACAGTAGAAGTGA
CTAAATACACAAAATGACTCAAGTTAAAGAAAAACAACAGAAACCCTAGGAGCATAAGCCATCCA
TGCACCGCCAAGATCATCCACCGCTAGATTTGAGAAGTGACTAATAAACCAGATTGAACCAGTGT
TAAAACTAGGATTTTAAACCCTAATAGATATCTAACGGCCTAGATA
Found at i:87738 original size:21 final size:22
Alignment explanation
Indices: 87698--87740 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
87688 ATTTAAATAT
87698 ATTAAAGCATGTACTGATACTC
1 ATTAAAGCATGTACTGATACTC
* *
87720 ATTAAAGGA-GTATTGATACTC
1 ATTAAAGCATGTACTGATACTC
87741 TCTGTACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
ATTAAAGCATGTACTGATACTC
Found at i:90544 original size:21 final size:22
Alignment explanation
Indices: 90509--90551 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
90499 ATTTAAATAT
90509 ATTAAAGGAAGTATCGATACTC
1 ATTAAAGGAAGTATCGATACTC
90531 ATTAAAGG-AGTATCGATACTC
1 ATTAAAGGAAGTATCGATACTC
90552 CCTGTACTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (22 bp):
ATTAAAGGAAGTATCGATACTC
Found at i:94347 original size:111 final size:112
Alignment explanation
Indices: 94104--94565 Score: 721
Period size: 112 Copynumber: 4.1 Consensus size: 112
94094 TTGTCGGTTT
* * *
94104 GTGTCGATACTTTATAAAAATATATTGATCCATAATAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* * *
94169 TGTTTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
94216 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAATATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
94281 GATCTATAAATGAC-AAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
94327 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
94392 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * * * *
94439 GTGTCGACACTTTATAAAATTGTATCGATCCATAATAATATAAC-AGATAAAAATATGATAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAG-TAAAAAAATGACAAAAC
** * *
94503 CGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
94551 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
94566 TATAAGTATC
Statistics
Matches: 322, Mismatches: 26, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
111 108 0.34
112 214 0.66
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:94492 original size:223 final size:224
Alignment explanation
Indices: 94104--94565 Score: 755
Period size: 223 Copynumber: 2.1 Consensus size: 224
94094 TTGTCGGTTT
* *
94104 GTGTCGATACTTTATAAAAATATATTGATCCATAATAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* * ** *
94169 TGTTTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGACACTTTATAAA
* * *
94234 AATGTATCTATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTATAAATGAC-AAA
131 AATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGATCTAGAAATGACAAAA
94298 CAGGTAAAGCGCTACCGGATATATTGAAA
196 CAGGTAAAGCGCTACCGGATATATTGAAA
*
94327 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
94392 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGACACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGACACTTTATAAA
* * * * *
94457 ATTGTATCGATCCATAATAATATAACAGATAAAAATATGATAAAACCGGTCTCGAAATGACAAAA
131 AATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGATCTAGAAATGACAAAA
* *
94522 CCGGTAAAGCGCTACCGGATATGTTGAAA
196 CAGGTAAAGCGCTACCGGATATATTGAAA
94551 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
94566 TATAAGTATC
Statistics
Matches: 220, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
223 175 0.80
224 45 0.20
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (224 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGACACTTTATAAA
AATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGATCTAGAAATGACAAAA
CAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:94743 original size:182 final size:182
Alignment explanation
Indices: 94436--95250 Score: 1382
Period size: 182 Copynumber: 4.5 Consensus size: 182
94426 AGATATATTG
* * * *
94436 AAAGTGTCGACACTTTATAAAATTGTATCGATCCATAATAATATAACAGATAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * *
94501 ACCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
94566 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
*
94618 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAATATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
94683 ACCGATCTCGAAATGACAAAACCAGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
94748 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
94800 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
94864 ACCGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
94929 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
*
94981 AAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * *
95046 ATCGGTCTCAAAATGACAAAACCAATAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
* *
95111 TATAAGTATCGACAATTTTGGAATTTAAAAGA-ATAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGA-AGAAGTTATAGCGCTAAT
* * *
95163 AAAGTGTCGATACTTTATAAAAATGTATCGATGCATAACAATATAACATGTAAAAATATGAAAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * *
95228 ATCGATCTCGAAATTACAAAACC
66 ACCGGTCTCGAAATGACAAAACC
95251 GGTAGTAAAA
Statistics
Matches: 602, Mismatches: 29, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
181 176 0.29
182 426 0.71
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACCGGTCTCGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
Found at i:95102 original size:363 final size:364
Alignment explanation
Indices: 94436--95254 Score: 1410
Period size: 363 Copynumber: 2.3 Consensus size: 364
94426 AGATATATTG
* * * *
94436 AAAGTGTCGACACTTTATAAAATTGTATCGATCCATAATAATATAACAGATAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
*
94501 ACCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
94566 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
* * *
94631 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAATATATGATAAAACCGATCTCGAAA
196 TTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGATCTCAAAA
*
94696 TGACAAAACCAGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATAAGTATCGAC
261 TGACAAAACCAATAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATAAGTATCGAC
* *
94761 ACTTTTGGAATTTAAAAGAGA-AGAAGTTATAGCGCTAAT
326 AATTTTGGAATTTAAAAGA-ATAGAAGTTATAGCGCCAAT
94800 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
94864 ACCGGTCTCAAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
94929 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
* *
94994 TTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAA
196 TTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGATCTCAAAA
95059 TGACAAAACCAATAAAGAGCTACC-GAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGA
261 TGACAAAACCAATAAAGAGCTACCAG-ATATGTTGATAGTGTCGATACTTTATTATAAGTATCGA
95123 CAATTTTGGAATTTAAAAGAATAGAAGTTATAGCGCCAAT
325 CAATTTTGGAATTTAAAAGAATAGAAGTTATAGCGCCAAT
* * *
95163 AAAGTGTCGATACTTTATAAAAATGTATCGATGCATAACAATATAACATGTAAAAATATGAAAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * *
95228 ATCGATCTCGAAATTACAAAACCGGTA
66 ACCGGTCTCGAAATGACAAAACCGGTA
95255 GTAAAAAAGT
Statistics
Matches: 430, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
362 2 0.00
363 346 0.80
364 82 0.19
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (364 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
TTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGATCTCAAAA
TGACAAAACCAATAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATAAGTATCGAC
AATTTTGGAATTTAAAAGAATAGAAGTTATAGCGCCAAT
Found at i:95667 original size:23 final size:23
Alignment explanation
Indices: 95638--95685 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
95628 AAATATGTCA
*
95638 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
95661 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
95684 AT
1 AT
95686 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:96874 original size:4 final size:4
Alignment explanation
Indices: 96865--97676 Score: 1617
Period size: 4 Copynumber: 203.2 Consensus size: 4
96855 GTTTTTTTAC
96865 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
96913 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
96961 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97009 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97057 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97105 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCA- TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97152 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97200 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97248 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97296 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97344 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97392 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97440 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97488 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97536 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97584 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
97632 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
97677 TCGTACACAA
Statistics
Matches: 807, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
3 3 0.00
4 804 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TCAT
Found at i:99315 original size:12 final size:12
Alignment explanation
Indices: 99300--99354 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
99290 GTTATTTAAA
99300 CGGGTATTGGGT
1 CGGGTATTGGGT
99312 CGGGTATTGGGT
1 CGGGTATTGGGT
*
99324 CGGGTATTGGGC
1 CGGGTATTGGGT
* * *
99336 CGAGAATCGGGT
1 CGGGTATTGGGT
99348 CGGGTAT
1 CGGGTAT
99355 ATATATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.13, C:0.13, G:0.47, T:0.27
Consensus pattern (12 bp):
CGGGTATTGGGT
Found at i:99514 original size:13 final size:13
Alignment explanation
Indices: 99458--99501 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
99448 TTTAATATTT
*
99458 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
99470 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
*
99483 ATCGGGGCTGGTA
1 ATCGGGGCGGGTA
99496 ATCGGG
1 ATCGGG
99502 TAATCGGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.14, C:0.16, G:0.50, T:0.20
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:100025 original size:27 final size:24
Alignment explanation
Indices: 99994--100057 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 24
99984 GAAAATAAAA
99994 ATAAAATATTTTTGAATTAAGTTAAT
1 ATAAAATATTTTT-AA-TAAGTTAAT
*
100020 AGTAAAATATATTTAATAAGTTAAT
1 A-TAAAATATTTTTAATAAGTTAAT
100045 ATAAAAATATTTT
1 AT-AAAATATTTT
100058 AAGCTAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 1 0.03
25 19 0.56
26 3 0.09
27 11 0.32
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
ATAAAATATTTTTAATAAGTTAAT
Found at i:100043 original size:25 final size:26
Alignment explanation
Indices: 99994--100056 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
99984 GAAAATAAAA
*
99994 ATAAAATATTTTTGAATTAAGTTAAT
1 ATAAAATATATTTGAATTAAGTTAAT
100020 AGTAAAATATATTT-AA-TAAGTTAAT
1 A-TAAAATATATTTGAATTAAGTTAAT
100045 ATAAAA-ATATTT
1 ATAAAATATATTT
100057 TAAGCTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 10 0.29
26 3 0.09
27 11 0.31
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (26 bp):
ATAAAATATATTTGAATTAAGTTAAT
Found at i:102228 original size:24 final size:24
Alignment explanation
Indices: 102191--102278 Score: 169
Period size: 24 Copynumber: 3.7 Consensus size: 24
102181 GTTCAATTTA
102191 AATCGGT-AGAACCGTTACTAGTG
1 AATCGGTCAGAACCGTTACTAGTG
102214 AATCGGTCAGAACCGTTACTAGTG
1 AATCGGTCAGAACCGTTACTAGTG
102238 AATCGGTCAGAACCGTTACTAGTG
1 AATCGGTCAGAACCGTTACTAGTG
102262 AATCGGTCAGAACCGTT
1 AATCGGTCAGAACCGTT
102279 GAACCGTTCG
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 7 0.11
24 57 0.89
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (24 bp):
AATCGGTCAGAACCGTTACTAGTG
Found at i:103025 original size:22 final size:22
Alignment explanation
Indices: 102982--103022 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
102972 AAAAAATTAT
102982 TTTTTATTAAATATTTTTAATA
1 TTTTTATTAAATATTTTTAATA
*
103004 TTTTTATTTAAT-TTTTTAA
1 TTTTTATTAAATATTTTTAA
103023 ATAATTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTAAATATTTTTAATA
Found at i:108484 original size:22 final size:22
Alignment explanation
Indices: 108453--108524 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
108443 AATTTGGAAA
*
108453 ATCGTAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* ** **
108475 ATTGCAACGA-ATTTG-A-AAA
1 ATCGCAACGACAACTGTAGACT
108494 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
108516 ATCGCAACG
1 ATCGCAACG
108525 CGAAATAGAA
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 10 0.28
20 4 0.11
21 4 0.11
22 18 0.50
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:108488 original size:41 final size:41
Alignment explanation
Indices: 108431--108524 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
108421 TTTTTTTTTA
* * *
108431 ACTATCACAACGAATTTGGAAAATCGTAACGACAACTGTAG
1 ACTATCGCAACGAATTTGAAAAATCGCAACGACAACTGTAG
*
108472 ACTATTGCAACGAATTTGAAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGAAAAATCGCAACGACAACTGTAG
108513 ACTATCGCAACG
1 ACTATCGCAACG
108525 CGAAATAGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGAAAAATCGCAACGACAACTGTAG
Found at i:110473 original size:152 final size:146
Alignment explanation
Indices: 110203--110500 Score: 533
Period size: 152 Copynumber: 2.0 Consensus size: 146
110193 ACCAGGTTGA
*
110203 GAAATGTTCATACAAGAAGCAAAACTTCTGTTTTTTATGAAAAAAGAAAGAAAAAATATCAAGAA
1 GAAATGTTCATACAAGAAGCAAAACATCTGTTTTTTATGAAAAAAGAAAGAAAAAATATCAAGAA
110268 ATCTTTTCAGGTCAGGAACAGGAGGGAAAATAAAAGGAATCTTCGGGTCAACTCTCCCGTTGTCG
66 ATCTTTTCAGGTCAGGAACAGGAGGGAAAATAAAAGGAATCTTCGGGTCAACTCTCCCGTTGTCG
110333 CAGTCCCTTGCAACGG
131 CAGTCCCTTGCAACGG
110349 GAAATGTTCATACAAGAATAAGCAAAACATCTGTTTTTTTTTATGAAAAAAGAAAGAAAAAATAT
1 GAAATGTTCATACAAG---AAGCAAAACATCTG---TTTTTTATGAAAAAAGAAAGAAAAAATAT
110414 CAAGAAATCTTTTCAGGTCAGGAACAGGAGGGAAAATAAAAGGAATCTTCGGGTCAACTCTCCCG
60 CAAGAAATCTTTTCAGGTCAGGAACAGGAGGGAAAATAAAAGGAATCTTCGGGTCAACTCTCCCG
110479 TTGTCGCAGTCCCTTGCAACGG
125 TTGTCGCAGTCCCTTGCAACGG
110501 AATAGCCGTA
Statistics
Matches: 145, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
146 16 0.11
149 13 0.09
152 116 0.80
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (146 bp):
GAAATGTTCATACAAGAAGCAAAACATCTGTTTTTTATGAAAAAAGAAAGAAAAAATATCAAGAA
ATCTTTTCAGGTCAGGAACAGGAGGGAAAATAAAAGGAATCTTCGGGTCAACTCTCCCGTTGTCG
CAGTCCCTTGCAACGG
Found at i:115604 original size:23 final size:23
Alignment explanation
Indices: 115578--115626 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
115568 ATAAAGAACC
115578 AAAATAAACT-TAAACATACCATT
1 AAAATAAACTCTAAACAT-CCATT
*
115601 AAAATAAAGTCTAAACATCCATT
1 AAAATAAACTCTAAACATCCATT
115624 AAA
1 AAA
115627 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCCATT
Found at i:125857 original size:24 final size:23
Alignment explanation
Indices: 125830--125879 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
125820 ATAAAGAACC
125830 AAAATAAACT-TAAAACATACCATT
1 AAAATAAACTCT-AAACAT-CCATT
*
125854 AAAATAAAGTCTAAACATCCATT
1 AAAATAAACTCTAAACATCCATT
125877 AAA
1 AAA
125880 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 15 0.62
25 1 0.04
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCCATT
Found at i:130033 original size:19 final size:19
Alignment explanation
Indices: 130001--130074 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
129991 TGCTGTCCAA
*
130001 GGGATCGATCCCTTTTAAAG
1 GGGATCAAT-CCTTTTAAAG
*
130021 GGGATTAATCCTTTCATCAAA-
1 GGGATCAATCCTTT--T-AAAG
* **
130042 AGGATCAATCCTTTTTTAG
1 GGGATCAATCCTTTTAAAG
130061 GGGATCAATCCTTT
1 GGGATCAATCCTTT
130075 GAGACAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.02
19 19 0.44
20 7 0.16
21 13 0.30
22 3 0.07
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (19 bp):
GGGATCAATCCTTTTAAAG
Found at i:134400 original size:22 final size:21
Alignment explanation
Indices: 134374--134429 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
134364 GGGTTTCATA
*
134374 AGTCCTTCGGGACATATACAT
1 AGTCCTTCGGGACATACACAT
*
134395 AGGTCCTTCGAGACATACACAT
1 A-GTCCTTCGGGACATACACAT
*
134417 -GTCATTCGGGACA
1 AGTCCTTCGGGACA
134430 AATTTCACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 11 0.37
21 1 0.03
22 18 0.60
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (21 bp):
AGTCCTTCGGGACATACACAT
Found at i:136552 original size:64 final size:66
Alignment explanation
Indices: 136463--136608 Score: 199
Period size: 64 Copynumber: 2.2 Consensus size: 66
136453 TGCACTAAGA
* *
136463 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGG-C
1 GTGCATCGATGCATCAAATGAATTCGATGTTTTCATAAA-AGCCAGAGTGCATCGATGCATGGAC
136525 TG
65 TG
* ** *
136527 GTGCATCGATGCATCAAATGAATTCGATGTTTTCATAAAATCCTTAGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGAATTCGATGTTTTCATAAAAGCCAGAGTGCATCGATGCATGGACT
136592 G
66 G
*
136593 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
136609 CTCTGAAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
64 27 0.38
65 25 0.35
66 20 0.28
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (66 bp):
GTGCATCGATGCATCAAATGAATTCGATGTTTTCATAAAAGCCAGAGTGCATCGATGCATGGACT
G
Found at i:138341 original size:23 final size:23
Alignment explanation
Indices: 138310--138369 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
138300 AGAATAATTA
* *
138310 TGTCTTTGTGACATATTTATCTC
1 TGTCATTGTGACACATTTATCTC
138333 TGTCATTGTGACACATTTATCTC
1 TGTCATTGTGACACATTTATCTC
138356 T-TCTATTGTGACAC
1 TGTC-ATTGTGACAC
138370 GTTTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 2 0.06
23 32 0.94
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (23 bp):
TGTCATTGTGACACATTTATCTC
Found at i:144801 original size:56 final size:56
Alignment explanation
Indices: 144722--145205 Score: 617
Period size: 56 Copynumber: 8.6 Consensus size: 56
144712 AATCCCATAT
** * * *
144722 ATACGATAAAAGGCAATGCAACAAGTGATATGTCAAAGCTATACTGTATCAGGATCC
1 ATACGATAAAA-GCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
* * * * *
144779 ATACTATAAAAGCAATGGAACAAGTGATATACCAAAGCTAAACCATATCAGGACCC
1 ATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
* *
144835 ATTCGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATTAAGACCC
1 ATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
* * * * * * *
144891 ATAAGATAAAAGCAGTTCAACAAGTGATATACCAATGCTGTACCATATTAAGACCC
1 ATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
* *
144947 ATACGATAAAAGCAGTGCAACAAGTGATATACCAAAGCTATACCGTATTAAGACCC
1 ATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
* * * * *
145003 ATACGATCAAAGCAGTGCAACAAGTGATATGCCAAAGCTGTACCGTATTAAGACCC
1 ATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
* **
145059 ATACGATAAAAGCATTGCAACAAGTGATATACCAAAGCTGCACCGTATCAAGACCC
1 ATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
* * * * * **
145115 ATACAATAAAAGCAATGGAACAAGTGAATATACCAAACCTATACCATATCAGGACAT
1 ATACGATAAAAGCAATGCAACAAGTG-ATATACCAAAGCTATACCGTATCAAGACCC
*
145172 ATACGATAAAAGCAATGTAACAAGTGATATACCA
1 ATACGATAAAAGCAATGCAACAAGTGATATACCA
145206 TATCAGGACG
Statistics
Matches: 379, Mismatches: 47, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
56 322 0.85
57 57 0.15
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (56 bp):
ATACGATAAAAGCAATGCAACAAGTGATATACCAAAGCTATACCGTATCAAGACCC
Found at i:145205 original size:45 final size:45
Alignment explanation
Indices: 145154--145250 Score: 176
Period size: 45 Copynumber: 2.2 Consensus size: 45
145144 ATACCAAACC
*
145154 TATACCATATCAGGACATATACGATAAAAGCAATGTAACAAGTGA
1 TATACCATATCAGGACATATACAATAAAAGCAATGTAACAAGTGA
*
145199 TATACCATATCAGGACGTATACAATAAAAGCAATGTAACAAGTGA
1 TATACCATATCAGGACATATACAATAAAAGCAATGTAACAAGTGA
145244 TATACCA
1 TATACCA
145251 AAGTTATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.23
Consensus pattern (45 bp):
TATACCATATCAGGACATATACAATAAAAGCAATGTAACAAGTGA
Found at i:145973 original size:18 final size:18
Alignment explanation
Indices: 145950--145985 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
145940 CGTTTGATTT
145950 TGCTGCATTATCTGCTTC
1 TGCTGCATTATCTGCTTC
145968 TGCTGCATTATCTGCTTC
1 TGCTGCATTATCTGCTTC
145986 ATAGCTTCAA
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:0.11, C:0.28, G:0.17, T:0.44
Consensus pattern (18 bp):
TGCTGCATTATCTGCTTC
Found at i:150653 original size:29 final size:29
Alignment explanation
Indices: 150604--150667 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
150594 GAGTACCCTA
*
150604 ACTATTAAAAGTTATAAAATGACTCA-TTG
1 ACTATTAAAAGTTACAAAATGA-TCACTTG
* *
150633 ATTATTAAAAGTTACACAATGATCACTTG
1 ACTATTAAAAGTTACAAAATGATCACTTG
150662 ACTATT
1 ACTATT
150668 CATATGTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (29 bp):
ACTATTAAAAGTTACAAAATGATCACTTG
Found at i:151888 original size:31 final size:32
Alignment explanation
Indices: 151847--151911 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
151837 TATCAATTCA
* *
151847 AGAGGATAAAGTATAATTAACCATAGAAAATG
1 AGAGGATAAAGTACAAATAACCATAGAAAATG
*
151879 AGAGG-TAAAGTACAAATAACCATAGGAAATG
1 AGAGGATAAAGTACAAATAACCATAGAAAATG
151910 AG
1 AG
151912 GAACAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.52, C:0.08, G:0.22, T:0.18
Consensus pattern (32 bp):
AGAGGATAAAGTACAAATAACCATAGAAAATG
Found at i:153939 original size:44 final size:45
Alignment explanation
Indices: 153858--153943 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
153848 ATGAATATTT
*
153858 CCGATATTAACATTTTCAGTAGAAAAAATAACATTTTAGGTAGCG
1 CCGATATTAACATTTCCAGTAGAAAAAATAACATTTTAGGTAGCG
* * *
153903 CCGATATTAATATTTCCGGTA-AAAAAATAATATTTTAGGTA
1 CCGATATTAACATTTCCAGTAGAAAAAATAACATTTTAGGTA
153944 ACGCTATACC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 19 0.51
45 18 0.49
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (45 bp):
CCGATATTAACATTTCCAGTAGAAAAAATAACATTTTAGGTAGCG
Found at i:154681 original size:302 final size:302
Alignment explanation
Indices: 154135--154739 Score: 1194
Period size: 302 Copynumber: 2.0 Consensus size: 302
154125 ATTAAAATAT
154135 TTGGGGGGAAAAAGGTGTTTAGAAATACGATATCTTGACCACGACAATTCCTTTCTTTAGTCTTA
1 TTGGGGGGAAAAAGGTGTTTAGAAATACGATATCTTGACCACGACAATTCCTTTCTTTAGTCTTA
154200 AAATAGTATCGAAAAGGCCAAGATGATATTAGAATATTACTAATATGCTCCTAATTGAACGTTAA
66 AAATAGTATCGAAAAGGCCAAGATGATATTAGAATATTACTAATATGCTCCTAATTGAACGTTAA
154265 TCAATCAATTTTAATTCGCGCATTTTCTATCCCTGCTTTTACTCATTCAAAATATATACTGAAAA
131 TCAATCAATTTTAATTCGCGCATTTTCTATCCCTGCTTTTACTCATTCAAAATATATACTGAAAA
154330 TTAATCAAAAGAAAGAAATGGATTAATATTTGCCCCAATTAAATGTTAAATCAATCGATTTAATT
196 TTAATCAAAAGAAAGAAATGGATTAATATTTGCCCCAATTAAATGTTAAATCAATCGATTTAATT
154395 CGTACATTTCTATTCTTGTTTTCAGTCATTTAAAACATATAC
261 CGTACATTTCTATTCTTGTTTTCAGTCATTTAAAACATATAC
154437 TTGGGGGGAAAAAGGTGTTTAGAAATACGATATCTTGACCACGACAATTCCTTTCTTTAGTCTTA
1 TTGGGGGGAAAAAGGTGTTTAGAAATACGATATCTTGACCACGACAATTCCTTTCTTTAGTCTTA
154502 AAATAGTATCGAAAAGGCCAAGATGATATTAGAATATTACTAATATTGCTCCTAATTGAACGTTA
66 AAATAGTATCGAAAAGGCCAAGATGATATTAGAATATTACTAATA-TGCTCCTAATTGAACGTTA
154567 ATCAATCAA-TTTAATTCGCGCATTTTCTATCCCTGCTTTTACTCATTCAAAATATATACTGAAA
130 ATCAATCAATTTTAATTCGCGCATTTTCTATCCCTGCTTTTACTCATTCAAAATATATACTGAAA
154631 ATTAATCAAAAGAAAGAAATGGATTAATATTTGCCCCAATTAAATGTTAAATCAATCGATTTAAT
195 ATTAATCAAAAGAAAGAAATGGATTAATATTTGCCCCAATTAAATGTTAAATCAATCGATTTAAT
154696 TCGTACATTTCTATTCTTGTTTTCAGTCATTTAAAACATATAC
260 TCGTACATTTCTATTCTTGTTTTCAGTCATTTAAAACATATAC
154739 T
1 T
154740 AAAAATTAAC
Statistics
Matches: 302, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
302 274 0.91
303 28 0.09
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (302 bp):
TTGGGGGGAAAAAGGTGTTTAGAAATACGATATCTTGACCACGACAATTCCTTTCTTTAGTCTTA
AAATAGTATCGAAAAGGCCAAGATGATATTAGAATATTACTAATATGCTCCTAATTGAACGTTAA
TCAATCAATTTTAATTCGCGCATTTTCTATCCCTGCTTTTACTCATTCAAAATATATACTGAAAA
TTAATCAAAAGAAAGAAATGGATTAATATTTGCCCCAATTAAATGTTAAATCAATCGATTTAATT
CGTACATTTCTATTCTTGTTTTCAGTCATTTAAAACATATAC
Found at i:160007 original size:42 final size:41
Alignment explanation
Indices: 159954--160316 Score: 227
Period size: 42 Copynumber: 8.9 Consensus size: 41
159944 GGAAAATAAT
* *
159954 GTACTTTAGTGGCATTTTAAGCACTAACGCCGCTAATTAAAC
1 GTACTTTAGTGGCATTTTAA-CACAAACGCCGCTAATTACAC
* * * **
159996 GTACTTTAGTGGCTTTTTACGCATAAACGTTGCTAATTACAC
1 GTACTTTAGTGGCATTTTA-ACACAAACGCCGCTAATTACAC
* * * * * * *** * *
160038 GCACTATAGTGGCGTTTTTATATAAACGCCAAGAAATAC-T
1 GTACTTTAGTGGCATTTTAACACAAACGCCGCTAATTACAC
* * **
160078 GTACTTTAGTGGCATTTTTATACAAACGCCGCTAA--AGGTC
1 GTACTTTAGTGGCATTTTAACACAAACGCCGCTAATTA-CAC
* * * *
160118 GTACTTTAGTGGCGTTTTAAGCACAAACACTGCTAATTACAT
1 GTACTTTAGTGGCATTTTAA-CACAAACGCCGCTAATTACAC
* * *
160160 GTTCTTTAGTGGCGTTTTATACACAAACACCGCTAATTACAC
1 GTACTTTAGTGGCATTTTA-ACACAAACGCCGCTAATTACAC
* * * * ** * *
160202 GTACTCTAGTTGCATTTT-ATATAAACGCCGAGAAATAC-T
1 GTACTTTAGTGGCATTTTAACACAAACGCCGCTAATTACAC
** ** *
160241 GTACTTTAGTGGTGTTGCAAGCACAAACGCCACTAATTACAC
1 GTACTTTAGTGGCATTTTAA-CACAAACGCCGCTAATTACAC
*
160283 GTACTTTTGTGGCATTTTTAA-A-AAACGCCGCTAA
1 GTACTTTAGTGGCA-TTTTAACACAAACGCCGCTAA
160317 AGGTCGTCTT
Statistics
Matches: 240, Mismatches: 70, Indels: 24
0.72 0.21 0.07
Matches are distributed among these distances:
38 1 0.00
39 12 0.05
40 72 0.30
41 38 0.16
42 111 0.46
43 6 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (41 bp):
GTACTTTAGTGGCATTTTAACACAAACGCCGCTAATTACAC
Found at i:160170 original size:122 final size:123
Alignment explanation
Indices: 159947--160177 Score: 295
Period size: 122 Copynumber: 1.9 Consensus size: 123
159937 AAACGCCGGA
* *
159947 AAATAATGTACTTTAGTGGCATTTTAAGCACTAACGCCGCTAATTAAACGTACTTTAGTGGCTTT
1 AAATAATGTACTTTAGTGGCATTTTAAGCACAAACGCCGCTAA-TAAACGTACTTTAGTGGCGTT
* * **
160012 TTACGCATAAACGTTGCTAATTACACGCACTATAGTGGCGTTTTTATATAAACGCCAAG
65 TTAAGCACAAACACTGCTAATTACACGCACTATAGTGGCGTTTTTATATAAACGCCAAG
* * * **
160071 AAATACTGTACTTTAGTGGCATTTTTA-TACAAACGCCGCTAA-AGGTCGTACTTTAGTGGCGTT
1 AAATAATGTACTTTAGTGGCATTTTAAGCACAAACGCCGCTAATA-AACGTACTTTAGTGGCGTT
* ** *
160134 TTAAGCACAAACACTGCTAATTACATGTTCTTTAGTGGCGTTTT
65 TTAAGCACAAACACTGCTAATTACACGCACTATAGTGGCGTTTT
160178 ATACACAAAC
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
121 1 0.01
122 52 0.57
123 13 0.14
124 25 0.27
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (123 bp):
AAATAATGTACTTTAGTGGCATTTTAAGCACAAACGCCGCTAATAAACGTACTTTAGTGGCGTTT
TAAGCACAAACACTGCTAATTACACGCACTATAGTGGCGTTTTTATATAAACGCCAAG
Found at i:160248 original size:81 final size:81
Alignment explanation
Indices: 159996--160300 Score: 240
Period size: 81 Copynumber: 3.7 Consensus size: 81
159986 CTAATTAAAC
* ** * ** * *
159996 GTACTTTAGTGGCTTTTTACGCATAAACGTTGCTAATTACACGCACTATAGTGGCGTTTTTATAT
1 GTACTTTAGTGGCGTTTTATACACAAACGCCGCTAATTACACGTACTATAGTGGC-ATTTTATAT
*
160061 AAACGCCAAGAAATACT
65 AAACGCCGAGAAATACT
* * ** * * *
160078 GTACTTTAGTGGCATTTT-TATACAAACGCCGCTAA--AGGTCGTACTTTAGTGGCGTTTTAAGC
1 GTACTTTAGTGGCGTTTTATACACAAACGCCGCTAATTA-CACGTACTATAGTGGCATTTT-A-T
* * * ** *
160140 ACAAACACTGCTAATTACAT
63 ATAAACGCCGAGAAATAC-T
* * * *
160160 GTTCTTTAGTGGCGTTTTATACACAAACACCGCTAATTACACGTACTCTAGTTGCATTTTATATA
1 GTACTTTAGTGGCGTTTTATACACAAACGCCGCTAATTACACGTACTATAGTGGCATTTTATATA
160225 AACGCCGAGAAATACT
66 AACGCCGAGAAATACT
* ** * * *
160241 GTACTTTAGTGGTGTTGCA-AGCACAAACGCCACTAATTACACGTACTTTTGTGGCATTTT
1 GTACTTTAGTGGCGTTTTATA-CACAAACGCCGCTAATTACACGTACTATAGTGGCATTTT
160301 TAAAAAACGC
Statistics
Matches: 170, Mismatches: 45, Indels: 17
0.73 0.19 0.07
Matches are distributed among these distances:
79 5 0.03
80 14 0.08
81 72 0.42
82 46 0.27
83 16 0.09
84 16 0.09
85 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (81 bp):
GTACTTTAGTGGCGTTTTATACACAAACGCCGCTAATTACACGTACTATAGTGGCATTTTATATA
AACGCCGAGAAATACT
Found at i:160269 original size:164 final size:164
Alignment explanation
Indices: 159954--160276 Score: 396
Period size: 164 Copynumber: 2.0 Consensus size: 164
159944 GGAAAATAAT
* * * *
159954 GTACTTTAGTGGCATTTTAAGCACTAACGCCGCTAATTAAACGTACTTTAGTGGCTTTTTACGCA
1 GTACTTTAGTGGCATTTTAAGCACAAACACCGCTAATTAAACGTACTTTAGTGGCGTTTTACACA
* *** *
160019 TAAACGTTGCTAATTACACGCACTATAGTGGCGTTTTTATATAAACGCCAAGAAATACTGTACTT
66 CAAACACCGCTAATTACACGCACTATAGTGGCGATTTTATATAAACGCCAAGAAATACTGTACTT
*** * *
160084 TAGTGGCATTTTTATACAAACGCCGCTAAAGGTC
131 TAGTGGCATTGCAACACAAACGCCACTAAAGGTC
* * * * * *
160118 GTACTTTAGTGGCGTTTTAAGCACAAACACTGCTAATTACATGTTCTTTAGTGGCGTTTTATACA
1 GTACTTTAGTGGCATTTTAAGCACAAACACCGCTAATTAAACGTACTTTAGTGGCGTTTTACACA
* * * *
160183 CAAACACCGCTAATTACACGTACTCTAGTTGC-ATTTTATATAAACGCCGAGAAATACTGTACTT
66 CAAACACCGCTAATTACACGCACTATAGTGGCGATTTTATATAAACGCCAAGAAATACTGTACTT
**
160247 TAGTGGTGTTGCAAGCACAAACGCCACTAA
131 TAGTGGCATTGCAA-CACAAACGCCACTAA
160277 TTACACGTAC
Statistics
Matches: 132, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
163 39 0.30
164 93 0.70
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (164 bp):
GTACTTTAGTGGCATTTTAAGCACAAACACCGCTAATTAAACGTACTTTAGTGGCGTTTTACACA
CAAACACCGCTAATTACACGCACTATAGTGGCGATTTTATATAAACGCCAAGAAATACTGTACTT
TAGTGGCATTGCAACACAAACGCCACTAAAGGTC
Found at i:162037 original size:27 final size:29
Alignment explanation
Indices: 161971--162040 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 29
161961 TAACACTAGT
*
161971 TATAAAGGAGTTAACACTGGTACTTTCAAAA
1 TATAAAGGAGTTAACACTGGTA-TAT-AAAA
162002 TATAAAGGAGTTAACACTGGT-TAT-AAA
1 TATAAAGGAGTTAACACTGGTATATAAAA
162029 TATAAAGGAGTT
1 TATAAAGGAGTT
162041 CCATTTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
27 15 0.39
29 2 0.05
31 21 0.55
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (29 bp):
TATAAAGGAGTTAACACTGGTATATAAAA
Found at i:163396 original size:84 final size:84
Alignment explanation
Indices: 163238--163599 Score: 347
Period size: 84 Copynumber: 4.3 Consensus size: 84
163228 TTTGTGAGCT
* * *
163238 ATATGA-CTTTTAGCGGCATTTGTATCTAAAAAATGCT-GCTAT--ATATCTGACTTTTTGCGAC
1 ATATGACCTTTT-GCGGCGTTTGT-TCT-AAAAA-GCTCGCTATAGATAGC-GACCTTTTGCGAC
163299 GTTTGTTCCAAAAGCGCCGCTATAG
61 GTTTGTTCCAAAAG-GCCGCTATAG
* * *
163324 ATATGACCTTTTGCGGCGTTTGTTCT-AAAAGCGTCGCTAAATATA-TGACCTTTTGCGACGTTT
1 ATATGACCTTTTGCGGCGTTTGTTCTAAAAAGC-TCGCTATAGATAGCGACCTTTTGCGACGTTT
163387 GTTCCAAAAGTGCCGCTATAG
65 GTTCCAAAAG-GCCGCTATAG
* * *
163408 ATATCAACCTTTTGCGGCGTTTGTTCTAAAAATGCT-GATATAGATAGCGACCTTTTGC-AGTGT
1 ATAT-GACCTTTTGCGGCGTTTGTTCTAAAAA-GCTCGCTATAGATAGCGACCTTTTGCGA-CGT
*
163471 TTGTTCCAAAAAGGTCGCTATAG
63 TTGTTCC-AAAAGGCCGCTATAG
* * *
163494 ATAGCGACC-TTTGCGACGTTTGTTCTAAAAAGC-CGCTATAGATAGCGACCTTTTGCGGCGTTT
1 ATA-TGACCTTTTGCGGCGTTTGTTCTAAAAAGCTCGCTATAGATAGCGACCTTTTGCGACGTTT
*
163557 ATTCC-AAA--CCGCTATAG
65 GTTCCAAAAGGCCGCTATAG
* * *
163574 ATCTTGACCTATTGCGACGTTT-TTCT
1 AT-ATGACCTTTTGCGGCGTTTGTTCT
163600 CATGCTAACT
Statistics
Matches: 237, Mismatches: 23, Indels: 38
0.80 0.08 0.13
Matches are distributed among these distances:
80 18 0.08
81 11 0.05
82 5 0.02
83 5 0.02
84 75 0.32
85 53 0.22
86 58 0.24
87 12 0.05
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (84 bp):
ATATGACCTTTTGCGGCGTTTGTTCTAAAAAGCTCGCTATAGATAGCGACCTTTTGCGACGTTTG
TTCCAAAAGGCCGCTATAG
Found at i:163432 original size:43 final size:43
Alignment explanation
Indices: 163290--163564 Score: 299
Period size: 42 Copynumber: 6.5 Consensus size: 43
163280 ATATCTGACT
* *
163290 TTTTGCGACGTTTGTTCCAAAAGCGCCGCTATAGATA-TGACC
1 TTTTGCGGCGTTTGTTCCAAAAGCGCCGCTATAGATAGCGACC
* * * * *
163332 TTTTGCGGCGTTTGTTCTAAAAGCGTCGCTAAATATA-TGACC
1 TTTTGCGGCGTTTGTTCCAAAAGCGCCGCTATAGATAGCGACC
* * * *
163374 TTTTGCGACGTTTGTTCCAAAAGTGCCGCTATAGATATCAACC
1 TTTTGCGGCGTTTGTTCCAAAAGCGCCGCTATAGATAGCGACC
* ** * *
163417 TTTTGCGGCGTTTGTTCTAAAAATGCTGATATAGATAGCGACC
1 TTTTGCGGCGTTTGTTCCAAAAGCGCCGCTATAGATAGCGACC
* * *
163460 TTTTGCAGTGTTTGTTCCAAAAAG-GTCGCTATAGATAGCGACC
1 TTTTGCGGCGTTTGTTCC-AAAAGCGCCGCTATAGATAGCGACC
* * *
163503 -TTTGCGACGTTTGTTCTAAAA-AGCCGCTATAGATAGCGACC
1 TTTTGCGGCGTTTGTTCCAAAAGCGCCGCTATAGATAGCGACC
*
163544 TTTTGCGGCGTTTATTCCAAA
1 TTTTGCGGCGTTTGTTCCAAA
163565 CCGCTATAGA
Statistics
Matches: 194, Mismatches: 35, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
41 22 0.11
42 98 0.51
43 70 0.36
44 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (43 bp):
TTTTGCGGCGTTTGTTCCAAAAGCGCCGCTATAGATAGCGACC
Found at i:170872 original size:83 final size:83
Alignment explanation
Indices: 170761--171088 Score: 384
Period size: 83 Copynumber: 4.0 Consensus size: 83
170751 GAGGAAATAT
*
170761 ATGTTTAATATT-TAAATTTAAACA-ATATTATTATATATTTAGATTTAGATATTAAAAGAGTTT
1 ATGTTTAATATTATAAATTTAAA-AGATATTATTATATATTTAAATTTAGATATTAAAAGAGTTT
*
170824 TGGTTGGAGTAAAACTTTC
65 TGGTTGGAGTAAAACTCTC
* * * *
170843 ATGTTTAATATTATAAATTTAAAAGATATTATAATCTGTTTAAATTTAGATATTAAAATAGTTTT
1 ATGTTTAATATTATAAATTTAAAAGATATTATTATATATTTAAATTTAGATATTAAAAGAGTTTT
*
170908 GGTTGGAGAAAAACTCTC
66 GGTTGGAGTAAAACTCTC
* * * * *
170926 AGGTTTAATATTATAATTTTAAAAGATATTA-TATTATGTTTAAATTTAGATATTAAAATATTTT
1 ATGTTTAATATTATAAATTTAAAAGATATTATTA-TATATTTAAATTTAGATATTAAAAGAGTTT
** *
170990 TTATTAGAGTAAAACTCTC
65 TGGTTGGAGTAAAACTCTC
* * * *
171009 A-GATTTAATATTTTAATTTTAAAAGATATTATTATCTA-TT---TTTAGATATTAAAGGAGTTT
1 ATG-TTTAATATTATAAATTTAAAAGATATTATTATATATTTAAATTTAGATATTAAAAGAGTTT
* *
171069 TAGTTGAAGTAAAACTCTC
65 TGGTTGGAGTAAAACTCTC
171088 A
1 A
171089 AAATTCTCCT
Statistics
Matches: 215, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
79 33 0.15
82 17 0.08
83 163 0.76
84 2 0.01
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (83 bp):
ATGTTTAATATTATAAATTTAAAAGATATTATTATATATTTAAATTTAGATATTAAAAGAGTTTT
GGTTGGAGTAAAACTCTC
Found at i:172759 original size:57 final size:59
Alignment explanation
Indices: 172518--172753 Score: 207
Period size: 58 Copynumber: 4.0 Consensus size: 59
172508 ATAAAAAGAG
* * * * *
172518 AAATAAATTGTAAAAATTTATTTCATCTTAGAATCTTGCATTGATTCTAACTT-TAAAAATG
1 AAATAAATTGT-TAAATTTATTT--TCTTAGAATCTTGTATTGATTCTATCTTGTAAAAGTA
* * * * * * *
172579 AAATAAATTGTTGAATTTATTTTCCTATGAAACTTATA-TGATTATGTTTTGTAAAA-TA
1 AAATAAATTGTTAAATTTATTTTCTTA-GAATCTTGTATTGATTCTATCTTGTAAAAGTA
* * * *
172637 AAATAAAATGTCAAATTTATTTTCTTAGAAATCTAG-ATTGATT-TCATCTTGTAGAAG-A
1 AAATAAATTGTTAAATTTATTTTCTTAG-AATCTTGTATTGATTCT-ATCTTGTAAAAGTA
* *
172695 AAATAAATTGTTAAATTTATTTTCATAGAATCTTGTA-TGATTCTATTTTGTAAAAGTA
1 AAATAAATTGTTAAATTTATTTTCTTAGAATCTTGTATTGATTCTATCTTGTAAAAGTA
172753 A
1 A
172754 TTAAATCATT
Statistics
Matches: 139, Mismatches: 27, Indels: 21
0.74 0.14 0.11
Matches are distributed among these distances:
57 24 0.17
58 83 0.60
59 12 0.09
60 9 0.06
61 11 0.08
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.43
Consensus pattern (59 bp):
AAATAAATTGTTAAATTTATTTTCTTAGAATCTTGTATTGATTCTATCTTGTAAAAGTA
Found at i:172774 original size:34 final size:34
Alignment explanation
Indices: 172723--172800 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
172713 ATTTTCATAG
* *
172723 AATC-TTGTATGATTCTATTTTGT-AAAAGTAATTA
1 AATCATTG-ATGATTCTATCTTGTAAAAAG-AAATA
172757 AATCATTGATGATTCTATCTTGTAAAAAGAAATA
1 AATCATTGATGATTCTATCTTGTAAAAAGAAATA
*
172791 AATTATTGAT
1 AATCATTGAT
172801 TTTATTTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 31 0.79
35 8 0.21
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (34 bp):
AATCATTGATGATTCTATCTTGTAAAAAGAAATA
Found at i:174661 original size:83 final size:83
Alignment explanation
Indices: 174522--174851 Score: 465
Period size: 83 Copynumber: 4.0 Consensus size: 83
174512 GAGGAAATAT
*
174522 ATGTTTAATATTATAAATTTAAAAGATATTATAATATGTTTAAATTTAGTTATTAAAAGAGTTTT
1 ATGTTTAATATTATAAATTTAAAAGATATTATAATATGTTTAAATTTAGATATTAAAAGAGTTTT
174587 GGTTGGAGTAAAACTCTC
66 GGTTGGAGTAAAACTCTC
* * *
174605 ATGTTTAATATTATAAATTTAAAATATATTATAATTTGTTTAAATTTAGTTATTAAAAGAGTTTT
1 ATGTTTAATATTATAAATTTAAAAGATATTATAATATGTTTAAATTTAGATATTAAAAGAGTTTT
174670 GGTTGGAGTAAAACTCTC
66 GGTTGGAGTAAAACTCTC
*
174688 AAGTTTAATATTATAAATTTAAAAGATATTATAATATGTTTAAATTTAGATATTAAAAGAGTTTT
1 ATGTTTAATATTATAAATTTAAAAGATATTATAATATGTTTAAATTTAGATATTAAAAGAGTTTT
* * * * *
174753 -GATAGAGTAAAATTTTG
66 GGTTGGAGTAAAACTCTC
* *
174770 A-GATTTAATATTTTAAATTTTTTAAAAGATATTATAATAT-ATT---TTTAGATATTAAAAGAG
1 ATG-TTTAATATTATAAA---TTTAAAAGATATTATAATATGTTTAAATTTAGATATTAAAAGAG
*
174830 TTTTAGTTGGAGTAAAACTCTC
62 TTTTGGTTGGAGTAAAACTCTC
174852 TCGAAATTCT
Statistics
Matches: 224, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
81 22 0.10
82 38 0.17
83 142 0.63
84 2 0.01
85 20 0.09
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (83 bp):
ATGTTTAATATTATAAATTTAAAAGATATTATAATATGTTTAAATTTAGATATTAAAAGAGTTTT
GGTTGGAGTAAAACTCTC
Found at i:174964 original size:23 final size:21
Alignment explanation
Indices: 174929--174972 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
174919 CTTCTCTTGA
174929 AAAATA-TTTTTTTCTCCTTAG
1 AAAATATTTTTTTTC-CCTTAG
174950 AAAATATTCTGTTTTTCCCTTAG
1 AAAATATT-T-TTTTTCCCTTAG
174973 TTTTTGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 7 0.35
24 6 0.30
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (21 bp):
AAAATATTTTTTTTCCCTTAG
Found at i:181390 original size:217 final size:217
Alignment explanation
Indices: 180991--181408 Score: 527
Period size: 217 Copynumber: 1.9 Consensus size: 217
180981 AGATGATGCA
* * * * *
180991 TTTTTATAAACAATAAGTTTCTCAAGAATGTCAAGTCACTCGTGTTGAAGAAGGTTTATGAGACT
1 TTTTTAGAAACAATAAGTTTCTCAAGAATGCCAAGTCACTCGTGTTGAAAAAGGTTGATGAGACC
* * * * *
181056 AGCGAGTTTGATGGAGAGTGAATTGGGCATAAAAATGGAATTCAGAAACCACGCCCACGACTGGA
66 AGCGAGTTTGATGGAGAGTGAATCGGGCATAAAAATGAAATACAAAAACCACGCCCACGACTGCA
* * **
181121 ATAGCAACAAACACCCTTCAATGACTGGTTTTTTGGGATTAACATTCGGTTTGAT-GTAAGAAGA
131 ACAACAACAAACACCCTTCAATGACTGGTTTTTTGGGATTAACAGCCGGTTTGATAG-AAGAAGA
181185 GGATGCCACCGGAAGAGGTTGTT
195 GGATGCCACCGGAAGAGGTTGTT
* * ** * *
181208 TTTTTAGAAACGATTAGTTTCTTGAGAATGCCAAGTTACTGGTGTTGAAAAAGGTTGATGAGACC
1 TTTTTAGAAACAATAAGTTTCTCAAGAATGCCAAGTCACTCGTGTTGAAAAAGGTTGATGAGACC
** * * *
181273 AGTTAGTTTGATGGAGAGTGAATCGGGCATAAAAATGAAATACAAAAATCATGCCCACGATTGCA
66 AGCGAGTTTGATGGAGAGTGAATCGGGCATAAAAATGAAATACAAAAACCACGCCCACGACTGCA
* * *
181338 ACAACAACAAACA-CCTTCAAATTACTTGTTTATTT-GGATTAATAGCCGGTTTGATAGAAGAAG
131 ACAACAACAAACACCCTTC-AATGACTGGTTT-TTTGGGATTAACAGCCGGTTTGATAGAAGAAG
*
181401 ATGATGCC
194 AGGATGCC
181409 TTTTTAAAAA
Statistics
Matches: 169, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
216 5 0.03
217 160 0.95
218 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (217 bp):
TTTTTAGAAACAATAAGTTTCTCAAGAATGCCAAGTCACTCGTGTTGAAAAAGGTTGATGAGACC
AGCGAGTTTGATGGAGAGTGAATCGGGCATAAAAATGAAATACAAAAACCACGCCCACGACTGCA
ACAACAACAAACACCCTTCAATGACTGGTTTTTTGGGATTAACAGCCGGTTTGATAGAAGAAGAG
GATGCCACCGGAAGAGGTTGTT
Found at i:182844 original size:30 final size:30
Alignment explanation
Indices: 182792--182850 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
182782 ACAACCCCCC
*
182792 AACATTTAGTCCTTTTACAATATTGTCCCT
1 AACATTTAGTCCTTTTACAATATAGTCCCT
**
182822 AACATTTAGT-CTATTTGTAATATAGTCCC
1 AACATTTAGTCCT-TTTACAATATAGTCCC
182851 CGATCATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.42
Consensus pattern (30 bp):
AACATTTAGTCCTTTTACAATATAGTCCCT
Found at i:183466 original size:41 final size:41
Alignment explanation
Indices: 183421--183549 Score: 122
Period size: 41 Copynumber: 3.1 Consensus size: 41
183411 AATTTTAACT
*
183421 ATCGCATTGCGAATTTGGAAAATCGCAATACGGATATGTAA
1 ATCGCATTGCGAATTTAGAAAATCGCAATACGGATATGTAA
** * * *
183462 ATCGCAACGCG-ATAATACAAAATCGC-A-ACGCGAT-TTTAA
1 ATCGCATTGCGAAT-TTAGAAAATCGCAATACG-GATATGTAA
* *
183501 CTATCGCATTGCGATTTTAGAAAATCGCAATACGAATATGTAA
1 --ATCGCATTGCGAATTTAGAAAATCGCAATACGGATATGTAA
183544 ATCGCA
1 ATCGCA
183550 ACGCAATTCT
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
39 7 0.10
40 6 0.09
41 43 0.64
42 4 0.06
43 7 0.10
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (41 bp):
ATCGCATTGCGAATTTAGAAAATCGCAATACGGATATGTAA
Found at i:183502 original size:82 final size:82
Alignment explanation
Indices: 183402--183553 Score: 268
Period size: 82 Copynumber: 1.9 Consensus size: 82
183392 GTTTCCAGAT
* *
183402 TCGCAACGCAATTTTAACTATCGCATTGCGAATTTGGAAAATCGCAATACGGATATGTAAATCGC
1 TCGCAACGCAATTTTAACTATCGCATTGCGAATTTAGAAAATCGCAATACGAATATGTAAATCGC
183467 AACGCGATAATACAAAA
66 AACGCGATAATACAAAA
* *
183484 TCGCAACGCGATTTTAACTATCGCATTGCGATTTTAGAAAATCGCAATACGAATATGTAAATCGC
1 TCGCAACGCAATTTTAACTATCGCATTGCGAATTTAGAAAATCGCAATACGAATATGTAAATCGC
183549 AACGC
66 AACGC
183554 AATTCTGACT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (82 bp):
TCGCAACGCAATTTTAACTATCGCATTGCGAATTTAGAAAATCGCAATACGAATATGTAAATCGC
AACGCGATAATACAAAA
Found at i:183567 original size:20 final size:20
Alignment explanation
Indices: 183544--183617 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
183534 GAATATGTAA
*
183544 ATCGCAACGCAATTCTGACT
1 ATCGCAACGCGATTCTGACT
* ** *
183564 ATCGCGACGCGATAAT-ACAAA
1 ATCGCAACGCGATTCTGAC--T
183585 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
183605 ATCGCAACGCGAT
1 ATCGCAACGCGAT
183618 AATACAGAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.05
20 25 0.60
21 13 0.31
22 2 0.05
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:183589 original size:82 final size:81
Alignment explanation
Indices: 183421--183590 Score: 198
Period size: 82 Copynumber: 2.1 Consensus size: 81
183411 AATTTTAACT
* * *
183421 ATCGCATTGCGAATTTGGAAAATCGCAATACGGATATGTAAATCGCAACGCGATAATACAAAATC
1 ATCGCATTGCGAATTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATAATAC-AAATC
** **
183486 GCAACGCGATTTTAACT
65 GCAACGCGATAATAAAA
* ** *
183503 ATCGCATTGCGATTTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATTCTGAC-TATC
1 ATCGCATTGCGAATTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATAAT-ACAAATC
*
183567 GCGACGCGATAATACAAA
65 GCAACGCGATAATA-AAA
183585 ATCGCA
1 ATCGCA
183591 ACGCGATTCT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
81 14 0.19
82 58 0.78
83 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (81 bp):
ATCGCATTGCGAATTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATAATACAAATCG
CAACGCGATAATAAAA
Found at i:183597 original size:82 final size:81
Alignment explanation
Indices: 183429--183659 Score: 180
Period size: 82 Copynumber: 2.8 Consensus size: 81
183419 CTATCGCATT
* * * *
183429 GCGAATTTGGAAAATCGCAATACGGATATGTAAATCGCAACGCGATAATACAAAATCGCAACGCG
1 GCGATTTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATAATAC-AAATCGCAACGCG
** ** **
183494 ATTTTAACTATCGCATT
65 ATAATAAAAATCGCAAC
** * *
183511 GCGATTTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATTCTGAC-TATCGCGACGCG
1 GCGATTTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATAAT-ACAAATCGCAACGCG
183575 ATAATACAAAATCGCAAC
65 ATAATA-AAAATCGCAAC
* ** ** ** * *
183593 GCGATTCT-GACTATCGCAACGCG-ATAATACAGAATCGCAACGCGATAATACAAAATCGCAATG
1 GCGATTTTAGAAAATCGCAATACGAAT-ATGTA-AATCGCAACGCAATAATAC-AAATCGCAACG
183656 CGAT
63 CGAT
183660 TTTCCAAATT
Statistics
Matches: 116, Mismatches: 27, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
80 2 0.02
81 30 0.26
82 71 0.61
83 13 0.11
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (81 bp):
GCGATTTTAGAAAATCGCAATACGAATATGTAAATCGCAACGCAATAATACAAATCGCAACGCGA
TAATAAAAATCGCAAC
Found at i:183636 original size:41 final size:41
Alignment explanation
Indices: 183542--183638 Score: 167
Period size: 41 Copynumber: 2.4 Consensus size: 41
183532 ACGAATATGT
* *
183542 AAATCGCAACGCAATTCTGACTATCGCGACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
183583 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
*
183624 GAATCGCAACGCGAT
1 AAATCGCAACGCGAT
183639 AATACAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
Found at i:183667 original size:21 final size:21
Alignment explanation
Indices: 183460--183659 Score: 117
Period size: 21 Copynumber: 9.7 Consensus size: 21
183450 ACGGATATGT
183460 AAATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
**
183481 AAATCGCAACGCGATTTTA-A
1 AAATCGCAACGCGATAATACA
** ** ** *
183501 CTATCGCATTGCGATTTTAGA
1 AAATCGCAACGCGATAATACA
** **
183522 AAATCGCAATACG--AATATGT
1 AAATCGCAACGCGATAATA-CA
* **
183542 AAATCGCAACGCAATTCTGAC-
1 AAATCGCAACGCGATAAT-ACA
* *
183563 -TATCGCGACGCGATAATACA
1 AAATCGCAACGCGATAATACA
**
183583 AAATCGCAACGCGATTCTGAC-
1 AAATCGCAACGCGATAAT-ACA
*
183604 -TATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
*
183624 GAATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
*
183645 AAATCGCAATGCGAT
1 AAATCGCAACGCGAT
183660 TTTCCAAATT
Statistics
Matches: 135, Mismatches: 34, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
19 6 0.04
20 53 0.39
21 72 0.53
22 3 0.02
23 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (21 bp):
AAATCGCAACGCGATAATACA
Found at i:184153 original size:19 final size:20
Alignment explanation
Indices: 184128--184218 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 20
184118 CTTATTTTGG
184128 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
*
184148 -TTTTTCACTATCGTAATAACAC
1 ATTTTTCACTATCG---CAACAC
* *
184170 GTTTTTCAAACTCTCGCAACAC
1 ATTTTTC--ACTATCGCAACAC
*
184192 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
184211 ATTTTTCA
1 ATTTTTCA
184219 AAATCGCGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
19 26 0.46
20 5 0.09
21 4 0.07
22 10 0.18
23 6 0.11
25 6 0.11
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.37
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:185513 original size:31 final size:31
Alignment explanation
Indices: 185475--185551 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
185465 TCAACGATCA
185475 GGGACCATATTACAAATAGACTAAATGTTAG
1 GGGACCATATTACAAATAGACTAAATGTTAG
185506 GGGACCATATTACAAATAGACTAAATGTTAG
1 GGGACCATATTACAAATAGACTAAATGTTAG
**
185537 GGGACTGTATTACAA
1 GGGACCATATTACAA
185552 GTTTTAAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (31 bp):
GGGACCATATTACAAATAGACTAAATGTTAG
Found at i:187815 original size:21 final size:23
Alignment explanation
Indices: 187789--187836 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
187779 AAAAAATCGT
187789 AAAAATTACAATA-CAT-AATAA
1 AAAAATTACAATATCATAAATAA
* *
187810 AAAAATTTCAATATTATAAATAA
1 AAAAATTACAATATCATAAATAA
187833 AAAA
1 AAAA
187837 TCAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 2 0.09
23 9 0.39
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAATTACAATATCATAAATAA
Done.