Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_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: 2457414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 11
Found at i:2285474 original size:15 final size:13
Alignment explanation
Indices: 2285441--2285466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2285431 GGAAAAAACA
2285441 AAAGAACAAAAAT
1 AAAGAACAAAAAT
2285454 AAAGAACAAAAAT
1 AAAGAACAAAAAT
2285467 TGAAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAGAACAAAAAT
Found at i:2286107 original size:22 final size:22
Alignment explanation
Indices: 2286079--2286133 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
2286069 ACTACCCCAT
2286079 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
2286101 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
2286123 CAAACCTTTGA
1 CAAACCTTTGA
2286134 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:2287167 original size:106 final size:106
Alignment explanation
Indices: 2286966--2288438 Score: 2167
Period size: 106 Copynumber: 14.0 Consensus size: 106
2286956 CCACTCAAGG
* * * * * *
2286966 CAACACAAGTTCAACTTCAC-AGCGAAGGGACGGCTGGTTGTCAA-AAATAATTTTCCAATTTCG
1 CAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
* *
2287029 GAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGA
65 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * * *
2287071 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAATAAACAATTTCCCAATTTTAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
2287136 ATCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * *
2287177 CAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
2287242 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* *
2287283 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
2287348 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * *
2287389 TAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
2287454 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* *
2287495 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* *
2287560 AGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
*
2287601 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* * * *
2287666 AGCTAATTTCAACTTCACAACGAAAGATATTAGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * *
2287707 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTTCCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* *
2287772 AGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
*
2287813 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
2287878 AGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * *
2287919 CAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
2287984 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * *
2288025 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAT
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* *
2288090 AGCCAATTTCAACTTCACAGCGTAGGATATTGGACTCAAGA
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * *
2288131 CAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
* * * * * *
2288196 AGCCAATTTTAACTTCTCAGTGAAGGATCTTGAAC-CCAAGG
66 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGA
* * * * ** *
2288237 CAACACAAGTTCAACTTCACGACGAAGAGG-CGGTTGATTGTCAAC-AA-AA-TT--TTA-TTAA
1 CAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCA
* **
2288295 GAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTTGAGA
65 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
* * * * * * *
2288337 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCTCAGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
*
2288402 AGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
66 AGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
2288439 AGAACAATGC
Statistics
Matches: 1247, Mismatches: 108, Indels: 25
0.90 0.08 0.02
Matches are distributed among these distances:
99 2 0.00
100 73 0.06
101 3 0.00
102 2 0.00
103 4 0.00
104 2 0.00
105 43 0.03
106 1116 0.89
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG
AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
Found at i:2289222 original size:37 final size:37
Alignment explanation
Indices: 2289169--2289273 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
2289159 CCTTTTCGTC
* *
2289169 CTACTAGGATTCAAACTCCTAAAAATATGATATAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
* * * *
2289206 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
* *
2289243 CTACTATGATTTAAACTCCTAAAGATATGAT
1 CTACTAGGATTTAAACTCCTAAAAATATGAT
2289274 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
Found at i:2289522 original size:8 final size:8
Alignment explanation
Indices: 2289509--2289533 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2289499 AAATAGGTGG
2289509 AGTTTCGA
1 AGTTTCGA
2289517 AGTTTCGA
1 AGTTTCGA
2289525 AGTTTCGA
1 AGTTTCGA
2289533 A
1 A
2289534 CCTAGATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (8 bp):
AGTTTCGA
Found at i:2290174 original size:19 final size:19
Alignment explanation
Indices: 2290143--2290192 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
2290133 TATATATTTC
2290143 ATTTATTTATTTATTTTTCTT
1 ATTTATTT-TTTATTTTT-TT
2290164 -TTTATTTTTTATTTTTTT
1 ATTTATTTTTTATTTTTTT
*
2290182 ACTTATTTTTT
1 ATTTATTTTTT
2290193 TTCTTCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 18 0.67
20 7 0.26
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
ATTTATTTTTTATTTTTTT
Found at i:2290194 original size:16 final size:15
Alignment explanation
Indices: 2290156--2290207 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
2290146 TATTTATTTA
*
2290156 TTTTTCTTTTTA-TT
1 TTTTTTTTTTTACTT
2290170 TTTTATTTTTTTACTT
1 TTTT-TTTTTTTACTT
* *
2290186 ATTTTTTTTCTTCCTT
1 -TTTTTTTTTTTACTT
2290202 TTTTTT
1 TTTTTT
2290208 CATTTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.12
15 13 0.41
16 11 0.34
17 4 0.12
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTTACTT
Found at i:2290207 original size:35 final size:35
Alignment explanation
Indices: 2290144--2290212 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
2290134 ATATATTTCA
* *
2290144 TTTATTTATTTATTTTTCTTTTTATTTTTTATTTT
1 TTTACTTATTTATTTTTCTTTTTATTTTTCATTTT
2290179 TTTACTTATTT-TTTTTCTTCCTTT-TTTTTCATTT
1 TTTACTTATTTATTTTTCTT--TTTATTTTTCATTT
2290213 ATATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.27
35 19 0.63
36 3 0.10
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.80
Consensus pattern (35 bp):
TTTACTTATTTATTTTTCTTTTTATTTTTCATTTT
Found at i:2291979 original size:19 final size:19
Alignment explanation
Indices: 2291955--2292008 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2291945 AAATTTTCAG
*
2291955 AATCAATGTCAATAGATCC
1 AATCAATGTCAATAGATCA
*
2291974 AATCAAGGTCAAT-GATCA
1 AATCAATGTCAATAGATCA
2291992 ACATCAATAGTCAATAG
1 A-ATCAAT-GTCAATAG
2292009 TTCGTGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 17 0.59
20 6 0.21
21 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (19 bp):
AATCAATGTCAATAGATCA
Found at i:2292785 original size:118 final size:119
Alignment explanation
Indices: 2292561--2292792 Score: 328
Period size: 118 Copynumber: 2.0 Consensus size: 119
2292551 AAATGATTAG
* * * *
2292561 ATTTAATTCAAAATTGAATGAATAAATAAGAGAGATGGAAAAAGAGGATAAAAAACTAAACATTT
1 ATTTAATTCAAAATTAAATGAATAAATAAGAGAGATAGAAAAAGAGGATAAAAAACTAAAAAATT
* * * *
2292626 TATGAAATTATAAAAATTAGGATTCTTAATTATAAATATAAAAAATTGGTTAAA
66 TATCAAATTATAAAAATTAGAACTCTTAATTATAAAAATAAAAAATTGGTTAAA
*
2292680 ATTTAATTCAAAATTAAATGAATTAATAAGAGA-ATTAGAAAAAGATGG-T-AAAAACTAAAAAA
1 ATTTAATTCAAAATTAAATGAATAAATAAGAGAGA-TAGAAAAAGA-GGATAAAAAACTAAAAAA
2292742 TTTATCAAATTATAAAAATTAAGAACTC-TAATTATAAAAATAAAAAATTGG
64 TTTATCAAATTATAAAAATT-AGAACTCTTAATTATAAAAATAAAAAATTGG
2292793 AGACCCTAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
118 53 0.52
119 46 0.46
120 2 0.02
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.30
Consensus pattern (119 bp):
ATTTAATTCAAAATTAAATGAATAAATAAGAGAGATAGAAAAAGAGGATAAAAAACTAAAAAATT
TATCAAATTATAAAAATTAGAACTCTTAATTATAAAAATAAAAAATTGGTTAAA
Found at i:2296532 original size:60 final size:58
Alignment explanation
Indices: 2296464--2296577 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 58
2296454 CACAAACGAT
* ** *
2296464 CCTCACTATATG-TTGTTATTTTGTTAATTCCTTTGACTATTAAAGGTTACAAAATGGTC
1 CCTCACTATA-GATT-TTATTTTGTTAACTCCTTCAACTATTAAAAGTTACAAAATGGTC
*
2296523 CCTCAACTATAGATTTTATTTTGTTGACTCCTTCAACTATTAAAAGTTACAAAAT
1 CCTC-ACTATAGATTTTATTTTGTTAACTCCTTCAACTATTAAAAGTTACAAAAT
2296578 AATAGTCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 40 0.83
60 8 0.17
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (58 bp):
CCTCACTATAGATTTTATTTTGTTAACTCCTTCAACTATTAAAAGTTACAAAATGGTC
Found at i:2297166 original size:27 final size:25
Alignment explanation
Indices: 2297120--2297181 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
2297110 AAAAATAAAA
2297120 ATAAAATATTTTAAAATTAAGT-TAAT
1 ATAAAATATTTTAAAATTAA-TAT-AT
* **
2297146 ATAAAAATATTTTTACGTTAATATAT
1 AT-AAAATATTTTAAAATTAATATAT
2297172 ATAAAATATT
1 ATAAAATATT
2297182 ATGAATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 8 0.26
26 7 0.23
27 16 0.52
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (25 bp):
ATAAAATATTTTAAAATTAATATAT
Found at i:2297878 original size:32 final size:31
Alignment explanation
Indices: 2297824--2297932 Score: 157
Period size: 31 Copynumber: 3.5 Consensus size: 31
2297814 TAGATTCATT
*
2297824 GGTCAAATTGATATTTTATCTAAAGTTTAAG
1 GGTCAAATTAATATTTTATCTAAAGTTTAAG
*
2297855 GGTTAAATTAATATTTTTATCTAAAGTTTAA-
1 GGTCAAATTAATA-TTTTATCTAAAGTTTAAG
* *
2297886 GGTCAAATTAGTATTTTATCTAAAATTTAAG
1 GGTCAAATTAATATTTTATCTAAAGTTTAAG
*
2297917 GGTCAAATTAAAATTT
1 GGTCAAATTAATATTT
2297933 AAACACTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 16 0.23
31 36 0.52
32 17 0.25
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.43
Consensus pattern (31 bp):
GGTCAAATTAATATTTTATCTAAAGTTTAAG
Found at i:2301648 original size:21 final size:19
Alignment explanation
Indices: 2301600--2301661 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
2301590 AATTAAAAAA
*
2301600 TAAAAATAATAAAGAAA--
1 TAAAAATAATAAAAAAAGT
* *
2301617 TATCAAATAA-AAAAAAGGT
1 TA-AAAATAATAAAAAAAGT
*
2301636 TAAAAATAATAAAATAAGT
1 TAAAAATAATAAAAAAAGT
2301655 TAAAAAT
1 TAAAAAT
2301662 TAAAAAGGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 7 0.20
18 12 0.34
19 16 0.46
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (19 bp):
TAAAAATAATAAAAAAAGT
Found at i:2301656 original size:19 final size:18
Alignment explanation
Indices: 2301621--2301667 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
2301611 AAGAAATATC
2301621 AAATAAAAAAAAGGTTAA
1 AAATAAAAAAAAGGTTAA
2301639 AAATAATAAAATAA-GTTAA
1 AAATAA-AAAA-AAGGTTAA
2301658 AAATTAAAAA
1 AAA-TAAAAA
2301668 GGGATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.23
19 15 0.58
20 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AAATAAAAAAAAGGTTAA
Found at i:2301763 original size:28 final size:27
Alignment explanation
Indices: 2301715--2301768 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
2301705 AAGAAAAGAA
2301715 AAAATAATAAAATAATAATAAAATAAAT
1 AAAATAATAAAATAATAAT-AAATAAAT
2301743 AAAATAGAT-AAATAA-AGATAAATAAA
1 AAAATA-ATAAAATAATA-ATAAATAAA
2301769 ATTAAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 8 0.33
28 14 0.58
29 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (27 bp):
AAAATAATAAAATAATAATAAATAAAT
Found at i:2301786 original size:32 final size:30
Alignment explanation
Indices: 2301731--2301811 Score: 74
Period size: 32 Copynumber: 2.5 Consensus size: 30
2301721 ATAAAATAAT
* *
2301731 AATAAAATAAATAAAATAGATAAATAA-AGATA
1 AATAAAAT-AATAAAA-ACATAAA-AACAGAAA
*
2301763 AATAAAATTAAGTAAAAACATAAAAACATAAA
1 AATAAAA-TAA-TAAAAACATAAAAACAGAAA
2301795 AATAAAAGTAATAAAAA
1 AATAAAA-TAATAAAAA
2301812 ACGTAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
31 8 0.19
32 28 0.67
33 6 0.14
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (30 bp):
AATAAAATAATAAAAACATAAAAACAGAAA
Found at i:2303283 original size:37 final size:36
Alignment explanation
Indices: 2303197--2303473 Score: 208
Period size: 39 Copynumber: 7.4 Consensus size: 36
2303187 ATATCATATG
*
2303197 TTTTCAAAAACTATAT-TATATATACTTTTTTTAAAAATA
1 TTTT-AAAAACTATATAT-TATATA--TTTTTCAAAAATA
2303236 TTTTAAAAAACTATATATTATATATTTTTCAAAAAATA
1 TTTT-AAAAACTATATATTATATATTTTTC-AAAAATA
* * *
2303274 TTTTGAAAACTATATATTATATATATTTT-TAAAATG
1 TTTTAAAAACTATATATTATATAT-TTTTCAAAAATA
* *
2303310 TTTTCAAAATTATATATTATATA-TTTTC-AAAATA
1 TTTTAAAAACTATATATTATATATTTTTCAAAAATA
*
2303344 TTTTCAAAACTATATATTATATATATTTTTTCAAAAATCA
1 TTTTAAAAACTATATA-T-TATATA-TTTTTCAAAAAT-A
* ** * *
2303384 -TATGCAAACTATATAATAAATATATATTTTCAAAAACCA
1 TTTTAAAAACTATAT-AT-TATATAT-TTTTCAAAAA-TA
* *
2303423 TTTTTAAAAAAT-TATA-TATTATATTTTTCAAAAGTA
1 -TTTTAAAAACTATATATTA-TATATTTTTCAAAAATA
*
2303459 TTTTCAAAAATTATA
1 TTTT-AAAAACTATA
2303474 CTATATTAAT
Statistics
Matches: 198, Mismatches: 22, Indels: 38
0.77 0.09 0.15
Matches are distributed among these distances:
34 24 0.12
35 5 0.03
36 39 0.20
37 36 0.18
38 26 0.13
39 56 0.28
40 6 0.03
41 6 0.03
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATATTTTTCAAAAATA
Found at i:2304108 original size:21 final size:21
Alignment explanation
Indices: 2304078--2304118 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2304068 AAAATATTAA
* *
2304078 AAATATTAATTTTTTAAGTAG
1 AAATAATAATATTTTAAGTAG
2304099 AAATAATAATATTTTAAGTA
1 AAATAATAATATTTTAAGTA
2304119 ATTTTTTTAC
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:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
AAATAATAATATTTTAAGTAG
Found at i:2318111 original size:37 final size:36
Alignment explanation
Indices: 2318036--2318111 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
2318026 TTTTTATATT
*
2318036 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
2318072 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
2318109 TTT
1 TTT
2318112 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:2320233 original size:17 final size:18
Alignment explanation
Indices: 2320191--2320242 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
2320181 GTTCTTAAGG
* *
2320191 AGTGGTCCTTCGGGATAT
1 AGTGGTCATTCGGGACAT
2320209 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
2320227 A-TGGTCATACGGGACA
1 AGTGGTCATTCGGGACA
2320243 AATTCTACGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:2324320 original size:18 final size:18
Alignment explanation
Indices: 2324297--2324349 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
2324287 GTTCTTAAGG
2324297 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
2324315 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
2324333 AGTGGTCCTACGGGACA
1 AGTGGTCCTTCGGGACA
2324350 AATTCTACGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2326086 original size:18 final size:17
Alignment explanation
Indices: 2326063--2326096 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
2326053 ACATGGGCAT
2326063 TATCATTTGTTCATTTCA
1 TATCATTTGTTC-TTTCA
2326081 TATCATTTGTTCTTTC
1 TATCATTTGTTCTTTC
2326097 TCTTCTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (17 bp):
TATCATTTGTTCTTTCA
Found at i:2326863 original size:12 final size:12
Alignment explanation
Indices: 2326846--2326870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2326836 ATTTTGTTCA
2326846 AGCCCAGAAATC
1 AGCCCAGAAATC
2326858 AGCCCAGAAATC
1 AGCCCAGAAATC
2326870 A
1 A
2326871 CTGTTCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (12 bp):
AGCCCAGAAATC
Found at i:2331900 original size:21 final size:21
Alignment explanation
Indices: 2331876--2331932 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2331866 CATATGAAAT
*
2331876 TTGTCCTGAATGACCACTGTA
1 TTGTCCTGAAGGACCACTGTA
2331897 TTGTCCTGAAGGACCACTGTA
1 TTGTCCTGAAGGACCACTGTA
2331918 TTGTCCTGAAGGACC
1 TTGTCCTGAAGGACC
2331933 TATGAAACCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (21 bp):
TTGTCCTGAAGGACCACTGTA
Found at i:2335404 original size:23 final size:23
Alignment explanation
Indices: 2335368--2335442 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
2335358 CACCAAAGTG
2335368 CCACATA--TTTGTCCCGAATGA
1 CCACATAGTTTTGTCCCGAATGA
2335389 CCACATAGTTTTGTCCCGAATGA
1 CCACATAGTTTTGTCCCGAATGA
* *
2335412 CCACATAGTTTTATCCCGAAGGA
1 CCACATAGTTTTGTCCCGAATGA
2335435 CCACATAG
1 CCACATAG
2335443 AACCCTCGAC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.14
23 43 0.86
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (23 bp):
CCACATAGTTTTGTCCCGAATGA
Found at i:2340400 original size:23 final size:24
Alignment explanation
Indices: 2340363--2340425 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 24
2340353 TTCTATTATA
*
2340363 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
* *
2340387 ATACTT-ACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
2340410 ATACTTGACCTGGATT
1 ATACTTGACCTGGATT
2340426 ATGTTTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 21 0.60
24 14 0.40
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:2342075 original size:24 final size:24
Alignment explanation
Indices: 2342048--2342106 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
2342038 CGTTATAATC
* * *
2342048 TGACATGGATTCTGGTCGGATACT
1 TGACCTGGATTCTGATAGGATACT
* *
2342072 TGACCTGGATTTTGATATGATACT
1 TGACCTGGATTCTGATAGGATACT
2342096 TGACCTGGATT
1 TGACCTGGATT
2342107 ATGTTTTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.37
Consensus pattern (24 bp):
TGACCTGGATTCTGATAGGATACT
Found at i:2344006 original size:25 final size:26
Alignment explanation
Indices: 2343956--2344005 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2343946 CTGGACACAT
2343956 TTTATTGAAAATATTTTTTATTTTTA
1 TTTATTGAAAATATTTTTTATTTTTA
*
2343982 TTTATT-AAACATGTTTTTTATTTT
1 TTTATTGAAA-ATATTTTTTATTTT
2344006 AAAAATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTATTGAAAATATTTTTTATTTTTA
Found at i:2347988 original size:41 final size:43
Alignment explanation
Indices: 2347917--2348009 Score: 97
Period size: 41 Copynumber: 2.3 Consensus size: 43
2347907 TTATATTGTC
* ** *
2347917 AAAATATATT-CTTTAATTATTAAAATTATAA-AAA-ATATTTT
1 AAAATATATTAATTTAACAATTAAAATTATAATAAACA-ATTAT
*
2347958 AAAATATATTAATTTAACAATTTAAA-TATAATAAACAATTAT
1 AAAATATATTAATTTAACAATTAAAATTATAATAAACAATTAT
2348000 -AAATATATTA
1 AAAATATATTA
2348010 TTATAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 25 0.57
42 18 0.41
43 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (43 bp):
AAAATATATTAATTTAACAATTAAAATTATAATAAACAATTAT
Found at i:2348012 original size:14 final size:15
Alignment explanation
Indices: 2347995--2348026 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2347985 ATAATAAACA
2347995 ATTAT-AAATATATT
1 ATTATAAAATATATT
2348009 ATTATAAAATATATT
1 ATTATAAAATATATT
2348024 ATT
1 ATT
2348027 TTAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:2360428 original size:20 final size:20
Alignment explanation
Indices: 2360403--2360450 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2360393 TCCTAATTCA
2360403 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
* **
2360423 CAATGCGAATATGTCTATCG
1 CAATGCGAATACGTAAATCG
2360443 CAATGCGA
1 CAATGCGA
2360451 TTTACATAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
CAATGCGAATACGTAAATCG
Found at i:2360655 original size:22 final size:22
Alignment explanation
Indices: 2360630--2360695 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
2360620 GGCGACATCC
2360630 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
2360652 GTCCCCATCTCCGACGATATTA
1 GTCCCCATCTCCGACGAAATCA
* *
2360674 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
2360696 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:2361159 original size:73 final size:74
Alignment explanation
Indices: 2361082--2361221 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 74
2361072 AGTCAAATTC
* ** *
2361082 GCGTTGCGATTGTCATTTTCGTGTTGCGATTGTCATTTTCGTGTTGCGATTTTCA-TTTCGCGTT
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTT
2361146 GCGATTCTT
66 GCGATTCTT
*
2361155 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTT
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTT
2361220 GC
66 GC
2361222 AATTTTAAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
73 51 0.84
74 10 0.16
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (74 bp):
GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTT
GCGATTCTT
Found at i:2361180 original size:53 final size:54
Alignment explanation
Indices: 2361104--2361205 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 54
2361094 TCATTTTCGT
* ** **
2361104 GTTGCGATTGTCATTTTCGTGTTGCGATTTTCA-TTTCGCGTTGCGATTCTTGC
1 GTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCGTTGCGATTCTTGC
*
2361157 GTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGTGTTGCGATT
1 GTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCGTTGCGATT
2361206 TTCATTTTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 28 0.67
54 14 0.33
ACGTcount: A:0.14, C:0.17, G:0.25, T:0.44
Consensus pattern (54 bp):
GTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCGTTGCGATTCTTGC
Found at i:2361190 original size:93 final size:93
Alignment explanation
Indices: 2361031--2361227 Score: 349
Period size: 93 Copynumber: 2.1 Consensus size: 93
2361021 CAATTCTGTC
* *
2361031 GTTGCGATTTTCATTTCGCGTTGTGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATTGTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
2361096 ATTTTCGTGTTGCGATTGTCATTTTCGT
66 ATTTTCGTGTTGCGATTGTCATTTTCGT
*
2361124 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGTGTTGCGATAGTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
*
2361189 ATTTTCGTGTTGCGATTTTCATTTTCGT
66 ATTTTCGTGTTGCGATTGTCATTTTCGT
*
2361217 GTTGCAATTTT
1 GTTGCGATTTT
2361228 AAGTTTCAGA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 99 1.00
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.46
Consensus pattern (93 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
ATTTTCGTGTTGCGATTGTCATTTTCGT
Found at i:2361227 original size:20 final size:20
Alignment explanation
Indices: 2361064--2361221 Score: 159
Period size: 20 Copynumber: 8.2 Consensus size: 20
2361054 TGATTCTTGC
* ** *
2361064 GTTGCGATAGTCAAATTCGC
1 GTTGCGATTGTCATTTTCGT
2361084 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
2361104 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
* *
2361124 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTGTCATTTTCGT
*
2361143 GTTGCGA-T-TC---TT-GC
1 GTTGCGATTGTCATTTTCGT
* **
2361157 GTTGCGATAGTCAAATTCGT
1 GTTGCGATTGTCATTTTCGT
*
2361177 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
*
2361197 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
2361217 GTTGC
1 GTTGC
2361222 AATTTTAAGT
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
14 9 0.08
15 2 0.02
16 2 0.02
17 2 0.02
18 1 0.01
19 14 0.12
20 90 0.75
ACGTcount: A:0.14, C:0.17, G:0.25, T:0.44
Consensus pattern (20 bp):
GTTGCGATTGTCATTTTCGT
Found at i:2361234 original size:20 final size:20
Alignment explanation
Indices: 2361191--2361234 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2361181 CGATAGTCAT
* * *
2361191 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCAATTTTAAG
2361211 TTTCGTGTTGCAATTTTAAG
1 TTTCGTGTTGCAATTTTAAG
2361231 TTTC
1 TTTC
2361235 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTTAAG
Found at i:2361246 original size:93 final size:93
Alignment explanation
Indices: 2361055--2361247 Score: 280
Period size: 93 Copynumber: 2.1 Consensus size: 93
2361045 TTCGCGTTGT
*
2361055 GATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATTGTCATTTTCGTGTTGCGATTGTCATTT
1 GATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTGTCATTT
* * * ***
2361120 TCGTGTTGCGATTTTCATTTCGCGTTGC
66 TCGTGTTGCAATTTTAATTTCGAGAAAC
* *
2361148 GATTCTTGCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTT
1 GATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTGTCATTT
2361213 TCGTGTTGCAATTTTAAGTTTC-AGAAAC
66 TCGTGTTGCAATTTTAA-TTTCGAGAAAC
*
2361241 TATTCTT
1 GATTCTT
2361248 CTTCTGCAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 85 0.96
94 4 0.04
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.45
Consensus pattern (93 bp):
GATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTGTCATTT
TCGTGTTGCAATTTTAATTTCGAGAAAC
Found at i:2361569 original size:33 final size:33
Alignment explanation
Indices: 2361527--2361607 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
2361517 AGAAAAATAT
* **
2361527 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCATTGCGATAGTCA
2361560 TTTCGCATTGCGATTCTCTCATTGCGATAGTCA
1 TTTCGCATTGCGATTCTCTCATTGCGATAGTCA
*
2361593 TTTCCGCGTTGCGAT
1 TTT-CGCATTGCGAT
2361608 AGTCATTTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 33 0.77
34 10 0.23
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.42
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCATTGCGATAGTCA
Found at i:2361606 original size:20 final size:20
Alignment explanation
Indices: 2361581--2361663 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
2361571 GATTCTCTCA
2361581 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
2361601 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
** *
2361621 TTGCGATAGTCATTTATGTG
1 TTGCGATAGTCATTTCCGCG
2361641 TTGCGATAGTCATATT-CGCG
1 TTGCGATAGTCAT-TTCCGCG
2361661 TTG
1 TTG
2361664 TGATTTCCGC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:2364140 original size:24 final size:24
Alignment explanation
Indices: 2364113--2364167 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
2364103 AAAATCTGAG
*
2364113 TATTGACCAAGATCAAAGTCCGGA
1 TATTGACCAAGATCAAAGTCCGAA
* *
2364137 TATTGACCAAGATCAAATTTCGAA
1 TATTGACCAAGATCAAAGTCCGAA
2364161 TATTGAC
1 TATTGAC
2364168 TAGTACTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (24 bp):
TATTGACCAAGATCAAAGTCCGAA
Found at i:2365020 original size:20 final size:20
Alignment explanation
Indices: 2364995--2365062 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
2364985 AAATTCAGTA
2364995 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
2365015 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
2365035 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
2365055 TTGCGATA
1 TTGCGATA
2365063 ATCGCATTGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:2365091 original size:20 final size:20
Alignment explanation
Indices: 2365064--2365214 Score: 257
Period size: 20 Copynumber: 7.5 Consensus size: 20
2365054 GTTGCGATAA
*
2365064 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACGTAT
*
2365084 TTGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
2365104 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
2365124 TCACATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
2365144 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
2365164 TTGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
2365184 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
2365204 TCGCACTGCGA
1 TCGCATTGCGA
2365215 ATTAGGAAAA
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 123 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:2365229 original size:21 final size:20
Alignment explanation
Indices: 2365204--2365250 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
2365194 ATTTACGTAT
2365204 TCGCACTGCGAATTAGGAAAA
1 TCGCAC-GCGAATTAGGAAAA
*
2365225 TCGCAACGCGAATTTGGAAAA
1 TCGC-ACGCGAATTAGGAAAA
2365246 TCGCA
1 TCGCA
2365251 ATACGATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCACGCGAATTAGGAAAA
Found at i:2365251 original size:21 final size:21
Alignment explanation
Indices: 2365211--2365251 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2365201 TATTCGCACT
2365211 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
*
2365232 GCGAATTTGGAAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
2365252 TACGATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2367015 original size:26 final size:26
Alignment explanation
Indices: 2366979--2367034 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
2366969 AATAATAAAA
2366979 AATTAGTCAAACATGTTGGAAACAAC
1 AATTAGTCAAACATGTTGGAAACAAC
2367005 AATTAGTCAAACATGTTGGAAACAAC
1 AATTAGTCAAACATGTTGGAAACAAC
2367031 AATT
1 AATT
2367035 TTTTTGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (26 bp):
AATTAGTCAAACATGTTGGAAACAAC
Found at i:2367607 original size:15 final size:15
Alignment explanation
Indices: 2367587--2367637 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
2367577 AGGGTCTGAT
*
2367587 TTTTATTTTATTTTA
1 TTTTATTCTATTTTA
* * *
2367602 TTTTATACAATTGTA
1 TTTTATTCTATTTTA
*
2367617 TTTTATTCTATCTT-
1 TTTTATTCTATTTTA
2367631 TTTTATT
1 TTTTATT
2367638 TTGTTGCAGA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTATTCTATTTTA
Found at i:2368763 original size:31 final size:30
Alignment explanation
Indices: 2368716--2368778 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
2368706 TGAAGAAATA
*
2368716 AATGAAAAAACTTTAATAGAAAACTTTAAT
1 AATGAAAAAACATTAATAGAAAACTTTAAT
*
2368746 AATGAAAAAGACATTAATATAAAACTTTAAT
1 AATGAAAAA-ACATTAATAGAAAACTTTAAT
2368777 AA
1 AA
2368779 AAAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (30 bp):
AATGAAAAAACATTAATAGAAAACTTTAAT
Found at i:2368782 original size:13 final size:13
Alignment explanation
Indices: 2368720--2368782 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
2368710 GAAATAAATG
2368720 AAAAAACTTTAAT
1 AAAAAACTTTAAT
*
2368733 AGAAAACTTTAATAAT
1 AAAAAAC-TT--TAAT
*
2368749 GAAAAAGACATTAAT
1 -AAAAA-ACTTTAAT
*
2368764 ATAAAACTTTAAT
1 AAAAAACTTTAAT
2368777 AAAAAA
1 AAAAAA
2368783 TAAAAAGACA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 18 0.46
14 6 0.15
15 4 0.10
16 4 0.10
17 5 0.13
18 2 0.05
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (13 bp):
AAAAAACTTTAAT
Found at i:2369291 original size:60 final size:60
Alignment explanation
Indices: 2369114--2369296 Score: 165
Period size: 60 Copynumber: 3.0 Consensus size: 60
2369104 AATCCTTTGA
* * * *
2369114 GAATGAAATTAGAACATCTAAAAGTTTGAGG-ACTAATATAGAATGAGAGTCATAGTTTAG
1 GAATGAAATTAGAATATTTAAAAGTTTGAGGAAC-AATTTAGAATAAGAGTCATAGTTTAG
* * * ** * * **
2369174 GGATGAATTTAGAATATTCAAAAGTTTGATTAATAATTTA-ACA-AGTGAGTCGGAGTTTAG
1 GAATGAAATTAGAATATTTAAAAGTTTGAGGAACAATTTAGA-ATA-AGAGTCATAGTTTAG
* * *
2369234 GAATGAAATCAAAATATTTAAAAGTTTAAGGAACAATTTAGAATAAGAGTCATAGTTTGAG
1 GAATGAAATTAGAATATTTAAAAGTTTGAGGAACAATTTAGAATAAGAGTCATAGTTT-AG
2369295 GA
1 GA
2369297 TGTACAATAC
Statistics
Matches: 92, Mismatches: 25, Indels: 11
0.72 0.20 0.09
Matches are distributed among these distances:
59 1 0.01
60 84 0.91
61 7 0.08
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (60 bp):
GAATGAAATTAGAATATTTAAAAGTTTGAGGAACAATTTAGAATAAGAGTCATAGTTTAG
Found at i:2371223 original size:33 final size:33
Alignment explanation
Indices: 2371181--2371263 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
2371171 TAGCAGGATC
2371181 TCTCGGCGTCTTCTTCAACCTTGGAGGTGGAAT
1 TCTCGGCGTCTTCTTCAACCTTGGAGGTGGAAT
* * *
2371214 TCTCGGCGTCTTCATCAGCCTTGGAGGTGGAGT
1 TCTCGGCGTCTTCTTCAACCTTGGAGGTGGAAT
2371247 TCTCGGCGTCTTCTTCA
1 TCTCGGCGTCTTCTTCA
2371264 TCGTGCTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.12, C:0.27, G:0.28, T:0.34
Consensus pattern (33 bp):
TCTCGGCGTCTTCTTCAACCTTGGAGGTGGAAT
Found at i:2371637 original size:174 final size:174
Alignment explanation
Indices: 2371346--2371695 Score: 621
Period size: 174 Copynumber: 2.0 Consensus size: 174
2371336 TAATGCCAAA
* * * *
2371346 GAAAATTTTATATAAAAACATATACTTTATAAAATTTTGCAAAAGCATTGGGGCCTACATTAAAT
1 GAAAATTTTATATAAAAACACACACTTTATAAAATTTTGCAAAAACATTGGGGCCTACATTAAAC
2371411 AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
66 AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
2371476 TATAAACTAACACTACTAAACAAAAACATTAAAAAAAGGTAACAG
131 TATAAACTAACACTACTAAACAAAAACATTAAAAAAA-GTAACAG
*
2371521 GAAAATTTTATAT-AAAACGCACACTTTATAAAATTTTGCAAAAACATTGGGGCCTACATTAAAC
1 GAAAATTTTATATAAAAACACACACTTTATAAAATTTTGCAAAAACATTGGGGCCTACATTAAAC
2371585 AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
66 AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
* *
2371650 TATAAAGTAACACTACTAAACAAAAACATTAAAAAAAGTAATAG
131 TATAAACTAACACTACTAAACAAAAACATTAAAAAAAGTAACAG
2371694 GA
1 GA
2371696 TCAACATAAA
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
173 8 0.05
174 147 0.88
175 13 0.08
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.30
Consensus pattern (174 bp):
GAAAATTTTATATAAAAACACACACTTTATAAAATTTTGCAAAAACATTGGGGCCTACATTAAAC
AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
TATAAACTAACACTACTAAACAAAAACATTAAAAAAAGTAACAG
Found at i:2374723 original size:13 final size:13
Alignment explanation
Indices: 2374705--2374730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2374695 GTAATGTAAT
2374705 AACATATAATCAC
1 AACATATAATCAC
2374718 AACATATAATCAC
1 AACATATAATCAC
2374731 TAAACCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
AACATATAATCAC
Found at i:2375097 original size:20 final size:20
Alignment explanation
Indices: 2375072--2375110 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2375062 TCTTTATCAT
*
2375072 CTCACCCCGTGAATTCCCTG
1 CTCACCACGTGAATTCCCTG
2375092 CTCACCACGTGAATTCCCT
1 CTCACCACGTGAATTCCCT
2375111 TTTGCGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.44, G:0.13, T:0.26
Consensus pattern (20 bp):
CTCACCACGTGAATTCCCTG
Found at i:2391072 original size:2 final size:2
Alignment explanation
Indices: 2391065--2391105 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2391055 AAATGTAACT
2391065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2391106 CCCTAAACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2391957 original size:23 final size:23
Alignment explanation
Indices: 2391927--2391985 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
2391917 TCCCACACAG
*
2391927 CACCGTTGACCGTTGCTGACCAC
1 CACCGTTGACCGTTGCCGACCAC
* *
2391950 CACTGTTGACTGTTGCCGACCAC
1 CACCGTTGACCGTTGCCGACCAC
2391973 CACCGTTGACCGT
1 CACCGTTGACCGT
2391986 CATCGTTTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.17, C:0.37, G:0.22, T:0.24
Consensus pattern (23 bp):
CACCGTTGACCGTTGCCGACCAC
Found at i:2395989 original size:24 final size:23
Alignment explanation
Indices: 2395962--2396042 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
2395952 CACCACAGCT
2395962 CGTATAAATTGCACCGAAGTGCCA
1 CGTA-AAATTGCACCGAAGTGCCA
* *
2395986 CGTAGAATTTGCACCGAAGTGCCG
1 CGTA-AAATTGCACCGAAGTGCCA
* * *
2396010 CGTAGAATTGCACTGTAGTGCCA
1 CGTAAAATTGCACCGAAGTGCCA
**
2396033 TATAAAATTG
1 CGTAAAATTG
2396043 TCCATAAGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (23 bp):
CGTAAAATTGCACCGAAGTGCCA
Found at i:2395994 original size:23 final size:23
Alignment explanation
Indices: 2395968--2396032 Score: 94
Period size: 24 Copynumber: 2.8 Consensus size: 23
2395958 AGCTCGTATA
2395968 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
2395991 AATTTGCACCGAAGTGCCGCGTAG
1 AA-TTGCACCGAAGTGCCACGTAG
* *
2396015 AATTGCACTGTAGTGCCA
1 AATTGCACCGAAGTGCCA
2396033 TATAAAATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.41
24 22 0.59
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:2396180 original size:23 final size:23
Alignment explanation
Indices: 2396144--2396187 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2396134 AATACATATA
*
2396144 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCAGAAGGACCACGTAGAAT
* *
2396167 TGTCCAGAATGACCGCGTAGA
1 TGTCCAGAAGGACCACGTAGA
2396188 CCCTCTACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
TGTCCAGAAGGACCACGTAGAAT
Found at i:2400756 original size:13 final size:13
Alignment explanation
Indices: 2400738--2400808 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 13
2400728 TGCATGGGCA
2400738 AATTATTACTAAT
1 AATTATTACTAAT
2400751 AATTATT--TAAT
1 AATTATTACTAAT
* * *
2400762 -ATGATTGATTACT
1 AATTATT-ACTAAT
2400775 AA-TATTACTAAT
1 AATTATTACTAAT
* *
2400787 AATGATTTAATAAT
1 AATTA-TTACTAAT
2400801 AATTATTA
1 AATTATTA
2400809 ATCTAATGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
10 5 0.11
11 4 0.09
12 6 0.14
13 17 0.39
14 12 0.27
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (13 bp):
AATTATTACTAAT
Found at i:2400803 original size:26 final size:26
Alignment explanation
Indices: 2400774--2400876 Score: 61
Period size: 26 Copynumber: 3.8 Consensus size: 26
2400764 GATTGATTAC
2400774 TAATATTACTAATAATGATTTAATAA
1 TAATATTACTAATAATGATTTAATAA
* * *
2400800 TAATTATTAAT-CTAATGGTTTGATATTTAA
1 TAA-TATTACTAATAATGATTT-A-A--TAA
*
2400830 TAAT-TTACTAATGATATGATTTAGTAA
1 TAATATTACTAAT-A-ATGATTTAATAA
* *
2400857 T--GATTACTAATAATTATTTA
1 TAATATTACTAATAATGATTTA
2400877 TTATAAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
24 7 0.12
25 1 0.02
26 19 0.32
27 11 0.19
28 5 0.08
29 2 0.03
30 8 0.14
31 6 0.10
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.47
Consensus pattern (26 bp):
TAATATTACTAATAATGATTTAATAA
Found at i:2400925 original size:20 final size:20
Alignment explanation
Indices: 2400887--2400925 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2400877 TTATAAATAT
*
2400887 TTAATGATTTGAATTTGATA
1 TTAATGATTTGAATATGATA
2400907 TTAATGATTT-AATAATGAT
1 TTAATGATTTGAAT-ATGAT
2400926 TACTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (20 bp):
TTAATGATTTGAATATGATA
Found at i:2401250 original size:15 final size:15
Alignment explanation
Indices: 2401230--2401258 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2401220 ATTATTGTTA
2401230 ATATTTAATGATTTG
1 ATATTTAATGATTTG
2401245 ATATTTAATGATTT
1 ATATTTAATGATTT
2401259 AGTAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATATTTAATGATTTG
Found at i:2401272 original size:26 final size:25
Alignment explanation
Indices: 2401250--2401300 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
2401240 ATTTGATATT
*
2401250 TAATGATTTAGTAATAATATGATTTA
1 TAATGA-TTACTAATAATATGATTTA
2401276 GTAATGATTACTAAT-A-ATGATTTA
1 -TAATGATTACTAATAATATGATTTA
2401300 T
1 T
2401301 TATTAACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.04
24 8 0.35
25 1 0.04
26 7 0.30
27 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (25 bp):
TAATGATTACTAATAATATGATTTA
Found at i:2401349 original size:24 final size:24
Alignment explanation
Indices: 2401322--2401415 Score: 120
Period size: 24 Copynumber: 4.0 Consensus size: 24
2401312 AATGATTTGA
*
2401322 TAATAATGATTTAGTAATTATTAC
1 TAATAATGATTTAATAATTATTAC
* *
2401346 TAATAATGAAATT-ATAATAATTAC
1 TAATAATG-ATTTAATAATTATTAC
2401370 TAATAATGATTTAATAATTATTAC
1 TAATAATGATTTAATAATTATTAC
* *
2401394 TAAT-ATTATTTAATAATGATTA
1 TAATAATGATTTAATAATTATTA
2401416 AATATTTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
23 19 0.31
24 39 0.64
25 3 0.05
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (24 bp):
TAATAATGATTTAATAATTATTAC
Found at i:2401478 original size:22 final size:22
Alignment explanation
Indices: 2401450--2401493 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2401440 TTTAAATCGA
2401450 ATTTATAAATAGTCGAATTTAT
1 ATTTATAAATAGTCGAATTTAT
2401472 ATTTATAAATAGTCGAATTTAT
1 ATTTATAAATAGTCGAATTTAT
2401494 TCTTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTTATAAATAGTCGAATTTAT
Found at i:2402894 original size:19 final size:19
Alignment explanation
Indices: 2402872--2402910 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2402862 ATTTTTAATC
*
2402872 AAAATAAATAATTAATATT
1 AAAATAAAGAATTAATATT
* *
2402891 AAAATAGAGAATTTATATT
1 AAAATAAAGAATTAATATT
2402910 A
1 A
2402911 CCTTCCGACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATAAAGAATTAATATT
Found at i:2404047 original size:12 final size:13
Alignment explanation
Indices: 2404029--2404058 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
2404019 TATATTGTAA
2404029 ATTAGTTAGTTAG
1 ATTAGTTAGTTAG
2404042 -TTAGTTAGTTAG
1 ATTAGTTAGTTAG
2404054 ATTAG
1 ATTAG
2404059 ATTATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (13 bp):
ATTAGTTAGTTAG
Found at i:2406458 original size:16 final size:16
Alignment explanation
Indices: 2406458--2406536 Score: 86
Period size: 16 Copynumber: 4.6 Consensus size: 16
2406448 TATTTATAAA
*
2406458 TATAAATTCGACTATT
1 TATAAATTCAACTATT
2406474 TATAAATTCAACTATTTAT
1 TATAAATTCAACTA--T-T
*
2406493 AAATATAAATTCGACTATT
1 ---TATAAATTCAACTATT
2406512 TATAAATTCAACTATT
1 TATAAATTCAACTATT
2406528 TATAAATTC
1 TATAAATTC
2406537 TATTTAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
16 37 0.69
18 1 0.02
19 2 0.04
20 1 0.02
22 13 0.24
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (16 bp):
TATAAATTCAACTATT
Found at i:2406462 original size:22 final size:22
Alignment explanation
Indices: 2406437--2406518 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 22
2406427 TGTAAAAAGA
2406437 ATAAATTCAACTATTTATAAAT
1 ATAAATTCAACTATTTATAAAT
*
2406459 ATAAATTCGACTA--T-T---T
1 ATAAATTCAACTATTTATAAAT
2406475 ATAAATTCAACTATTTATAAAT
1 ATAAATTCAACTATTTATAAAT
*
2406497 ATAAATTCGACTATTTATAAAT
1 ATAAATTCAACTATTTATAAAT
2406519 TCAACTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
16 13 0.25
18 1 0.02
19 2 0.04
20 1 0.02
22 34 0.67
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAATTCAACTATTTATAAAT
Found at i:2406488 original size:38 final size:38
Alignment explanation
Indices: 2406437--2406534 Score: 196
Period size: 38 Copynumber: 2.6 Consensus size: 38
2406427 TGTAAAAAGA
2406437 ATAAATTCAACTATTTATAAATATAAATTCGACTATTT
1 ATAAATTCAACTATTTATAAATATAAATTCGACTATTT
2406475 ATAAATTCAACTATTTATAAATATAAATTCGACTATTT
1 ATAAATTCAACTATTTATAAATATAAATTCGACTATTT
2406513 ATAAATTCAACTATTTATAAAT
1 ATAAATTCAACTATTTATAAAT
2406535 TCTATTTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (38 bp):
ATAAATTCAACTATTTATAAATATAAATTCGACTATTT
Found at i:2406624 original size:13 final size:13
Alignment explanation
Indices: 2406598--2406648 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
2406588 ATTAATAATG
2406598 ATTAGTAATCATT
1 ATTAGTAATCATT
*
2406611 ATTAGTAATTATT
1 ATTAGTAATCATT
* *
2406624 A-TAAT-TTCATT
1 ATTAGTAATCATT
*
2406635 ATTAGTAATAATT
1 ATTAGTAATCATT
2406648 A
1 A
2406649 CTAAATCATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
11 5 0.17
12 6 0.21
13 18 0.62
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (13 bp):
ATTAGTAATCATT
Found at i:2406680 original size:21 final size:22
Alignment explanation
Indices: 2406650--2406694 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2406640 TAATAATTAC
*
2406650 TAAATCATTAGT-ATCAAATCAT
1 TAAATCATTAATAAT-AAATCAT
2406672 TAAAT-ATTAATAATAAATCAT
1 TAAATCATTAATAATAAATCAT
2406693 TA
1 TA
2406695 TTAGTAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATAATAAATCAT
Found at i:2407151 original size:16 final size:16
Alignment explanation
Indices: 2407132--2407162 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2407122 TTAATAGTAT
*
2407132 TCATTATTAAATCATA
1 TCATTACTAAATCATA
2407148 TCATTACTAAATCAT
1 TCATTACTAAATCAT
2407163 TAAATATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
TCATTACTAAATCATA
Found at i:2407176 original size:26 final size:25
Alignment explanation
Indices: 2407163--2407214 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
2407153 ACTAAATCAT
2407163 TAAATATCAAATCATTATATTAATAA
1 TAAATATCAAATCATTATA-TAATAA
* *
2407189 TAAATATTAAATCATTAT-TAGTAA
1 TAAATATCAAATCATTATATAATAA
2407213 TA
1 TA
2407215 TTAGTAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.29
26 17 0.71
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATATCAAATCATTATATAATAA
Found at i:2407216 original size:20 final size:20
Alignment explanation
Indices: 2407191--2407254 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
2407181 ATTAATAATA
2407191 AATATTAAATCATTATTAGT
1 AATATTAAATCATTATTAGT
* *
2407211 AATATTAGTAATCA--ATCAAT
1 AATATTA--AATCATTATTAGT
* *
2407231 CATATTAAATAATTATTAGT
1 AATATTAAATCATTATTAGT
2407251 AATA
1 AATA
2407255 ATTCCCCCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
18 4 0.12
20 24 0.73
22 5 0.15
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (20 bp):
AATATTAAATCATTATTAGT
Found at i:2407388 original size:16 final size:17
Alignment explanation
Indices: 2407366--2407408 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
2407356 TTCGACTATT
*
2407366 TATAAATAATAATAAGA
1 TATAAATAATAATAAAA
*
2407383 TA-AAATAAAAATAAAA
1 TATAAATAATAATAAAA
2407399 TATAAATAAT
1 TATAAATAAT
2407409 TCAATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
TATAAATAATAATAAAA
Found at i:2410432 original size:16 final size:16
Alignment explanation
Indices: 2410411--2410441 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2410401 AACATAACTT
2410411 AAATTAATAAACTAAC
1 AAATTAATAAACTAAC
*
2410427 AAATTAATTAACTAA
1 AAATTAATAAACTAA
2410442 TTTTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTAATAAACTAAC
Found at i:2410488 original size:33 final size:33
Alignment explanation
Indices: 2410451--2410541 Score: 173
Period size: 33 Copynumber: 2.7 Consensus size: 33
2410441 ATTTTTTATT
2410451 TATAATATAACTTAAACTAGAAACAAATTATAA
1 TATAATATAACTTAAACTAGAAACAAATTATAA
2410484 TATAATATAACTTAAACTAGAAACAAATTATAA
1 TATAATATAACTTAAACTAGAAACAAATTATAA
2410517 TATAATATAACTTAAACTAAGAAAC
1 TATAATATAACTTAAACT-AGAAAC
2410542 TAATAATTAC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 51 0.89
34 6 0.11
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (33 bp):
TATAATATAACTTAAACTAGAAACAAATTATAA
Found at i:2410593 original size:4 final size:4
Alignment explanation
Indices: 2410565--2410647 Score: 59
Period size: 4 Copynumber: 21.8 Consensus size: 4
2410555 TTACCCGATC
* **
2410565 CTTT C-TT C-TT CTTC CTTT CCTTT CTTT C-TT CTCC CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT
** **
2410611 C-TT CTCC CTTT CTTT CTTT C-TT CTAC CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
2410648 CATTCCTGTT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
3 15 0.25
4 41 0.68
5 4 0.07
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (4 bp):
CTTT
Found at i:2410595 original size:23 final size:19
Alignment explanation
Indices: 2410565--2410647 Score: 132
Period size: 19 Copynumber: 4.4 Consensus size: 19
2410555 TTACCCGATC
*
2410565 CTTTC-TTCTTCTTCCTTT
1 CTTTCTTTCTTCTCCCTTT
2410583 CCTTTCTTTCTTCTCCCTTT
1 -CTTTCTTTCTTCTCCCTTT
2410603 CTTTCTTTCTTCTCCCTTT
1 CTTTCTTTCTTCTCCCTTT
*
2410622 CTTTCTTTCTTCTACCTTT
1 CTTTCTTTCTTCTCCCTTT
2410641 CTTTCTT
1 CTTTCTT
2410648 CATTCCTGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 49 0.80
20 12 0.20
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (19 bp):
CTTTCTTTCTTCTCCCTTT
Found at i:2412148 original size:25 final size:24
Alignment explanation
Indices: 2412120--2412190 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
2412110 AACTCAAAAA
* *
2412120 AAAATTAGAAGTTCGATTGAAGCCT
1 AAAATTAG-AGCTCAATTGAAGCCT
*
2412145 AAAATTTGAGCTCAATTGAAGCCT
1 AAAATTAGAGCTCAATTGAAGCCT
*
2412169 AAAATTTGAGCTCAATTGAAGC
1 AAAATTAGAGCTCAATTGAAGC
2412191 GAAAGAATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 36 0.84
25 7 0.16
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (24 bp):
AAAATTAGAGCTCAATTGAAGCCT
Found at i:2412164 original size:24 final size:24
Alignment explanation
Indices: 2412135--2412190 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
2412125 TAGAAGTTCG
2412135 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
2412159 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
2412183 ATTGAAGC
1 ATTGAAGC
2412191 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:2413694 original size:7 final size:8
Alignment explanation
Indices: 2413681--2413706 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2413671 AATAATTATG
2413681 TTTTTTTA
1 TTTTTTTA
2413689 TTTTTTTA
1 TTTTTTTA
2413697 TTTTTTTA
1 TTTTTTTA
2413705 TT
1 TT
2413707 AAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:2413727 original size:56 final size:57
Alignment explanation
Indices: 2413667--2413782 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 57
2413657 CAAAATATTA
* * * *
2413667 ATGTAATAATTATGTTTTTTTATTTTT-TT-ATTTTTTTATTAAAATATTTTATCATT
1 ATGTAATAATGATGTCTTTTTATTTTTATTAAATTTTCTATTAAAATATTTT-TCATT
*
2413723 ATGTAATAATGATGTCTTTTTATTTTTATTAAAATTTTCTATTAAGATATTTTTCATT
1 ATGTAATAATGATGTCTTTTTATTTTTATT-AAATTTTCTATTAAAATATTTTTCATT
2413781 AT
1 AT
2413783 TAAAGTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
56 25 0.48
57 2 0.04
58 7 0.13
59 18 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.61
Consensus pattern (57 bp):
ATGTAATAATGATGTCTTTTTATTTTTATTAAATTTTCTATTAAAATATTTTTCATT
Found at i:2413786 original size:31 final size:31
Alignment explanation
Indices: 2413748--2413807 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
2413738 CTTTTTATTT
*
2413748 TTATTAAAATTTTCTATTAAGATATTTTTCA
1 TTATTAAAATTTTCTATTAAAATATTTTTCA
* *
2413779 TTATTAAAGTTTTTTATTAAAATATTTTT
1 TTATTAAAATTTTCTATTAAAATATTTTT
2413808 TATTTATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (31 bp):
TTATTAAAATTTTCTATTAAAATATTTTTCA
Found at i:2413806 original size:15 final size:14
Alignment explanation
Indices: 2413745--2413811 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
2413735 TGTCTTTTTA
2413745 TTTTTATT-AAAAT
1 TTTTTATTAAAAAT
* *
2413758 TTTCTATTAAGATAT
1 TTTTTATTAA-AAAT
* *
2413773 TTTTCATTATTAAAGT
1 TTTTTATTA--AAAAT
2413789 TTTTTATTAAAATAT
1 TTTTTATTAAAA-AT
2413804 TTTTTATT
1 TTTTTATT
2413812 TATTTCTTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
13 7 0.17
14 4 0.10
15 19 0.46
16 10 0.24
17 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTTATTAAAAAT
Found at i:2414082 original size:16 final size:16
Alignment explanation
Indices: 2414061--2414091 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2414051 ATGCAATGTC
2414061 ACTTTTATATGTGATA
1 ACTTTTATATGTGATA
2414077 ACTTTTATATGTGAT
1 ACTTTTATATGTGAT
2414092 CCAAAGTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (16 bp):
ACTTTTATATGTGATA
Found at i:2417012 original size:5 final size:5
Alignment explanation
Indices: 2416994--2417060 Score: 57
Period size: 5 Copynumber: 13.8 Consensus size: 5
2416984 TTCCTGCAAC
* * * *
2416994 AAAAT -AAA- AAAAT AGAAT AAAAT ACAAT TATAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* * *
2417042 TATAT TAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
2417061 AATCAGACCC
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
4 6 0.12
5 42 0.88
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (5 bp):
AAAAT
Found at i:2417034 original size:20 final size:20
Alignment explanation
Indices: 2417009--2417060 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2416999 AAAAAAATAG
*
2417009 AATAAAATACAATTATATAA
1 AATAAAATAAAATTATATAA
*
2417029 AATAAAATAAAATTATATTA
1 AATAAAATAAAATTATATAA
2417049 AATAAAATAAAA
1 AATAAAATAAAA
2417061 AATCAGACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAATAAAATTATATAA
Found at i:2417048 original size:25 final size:25
Alignment explanation
Indices: 2416998--2417060 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
2416988 TGCAACAAAA
*
2416998 TAAA-AAAATAGAATAAAATACAAT
1 TAAATAAAATAAAATAAAATACAAT
* *
2417022 TATATAAAATAAAATAAAATTA-TAT
1 TAAATAAAATAAAATAAAA-TACAAT
2417047 TAAATAAAATAAAA
1 TAAATAAAATAAAA
2417061 AATCAGACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 3 0.09
25 28 0.85
26 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
TAAATAAAATAAAATAAAATACAAT
Found at i:2417375 original size:26 final size:26
Alignment explanation
Indices: 2417339--2417391 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
2417329 ACACCAAAAA
2417339 AATTGTTGTTTCCAACATGTTTGACT
1 AATTGTTGTTTCCAACATGTTTGACT
*
2417365 AATTGTTGTTTTCAACATGTTTGACT
1 AATTGTTGTTTCCAACATGTTTGACT
2417391 A
1 A
2417392 TTTTATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (26 bp):
AATTGTTGTTTCCAACATGTTTGACT
Found at i:2418092 original size:22 final size:22
Alignment explanation
Indices: 2418064--2418106 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2418054 TTGGGAAAAC
2418064 GACAGTATCCCCACATTTAAAT
1 GACAGTATCCCCACATTTAAAT
*
2418086 GACAGTATCCCCATATTTAAA
1 GACAGTATCCCCACATTTAAA
2418107 CGACCAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (22 bp):
GACAGTATCCCCACATTTAAAT
Found at i:2421183 original size:70 final size:70
Alignment explanation
Indices: 2421066--2421206 Score: 174
Period size: 70 Copynumber: 2.0 Consensus size: 70
2421056 AAAAAAATTT
* *
2421066 AGCAACTTGTAATGCCAGGGTATGTACTACACAGGGATATAGCTGTACCTAAAGACTAAGGCATA
1 AGCAACTTGTAATGCCAAGGTATGGACTACACAGGGATATAGCTGTACCTAAAGACTAAGGCATA
2421131 GTTCG
66 GTTCG
* * * * * * * * * *
2421136 AGCAACTTGTAGTGTCAAGGTATGGATTATATAGGGATATAGTTGTACCTAATGAGTAGGGCATG
1 AGCAACTTGTAATGCCAAGGTATGGACTACACAGGGATATAGCTGTACCTAAAGACTAAGGCATA
2421201 GTTCG
66 GTTCG
2421206 A
1 A
2421207 TATAGCTAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (70 bp):
AGCAACTTGTAATGCCAAGGTATGGACTACACAGGGATATAGCTGTACCTAAAGACTAAGGCATA
GTTCG
Found at i:2434079 original size:30 final size:30
Alignment explanation
Indices: 2434045--2434121 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 30
2434035 TCTGAATTCC
* *
2434045 TAAAATTTTGTGGGGCCAAATTAAATTTTT
1 TAAAATTTTGAGGGGCCAAATTAAAGTTTT
* * * * *
2434075 TAAAAATTTAAGGGTCAAAATTATAGTTTT
1 TAAAATTTTGAGGGGCCAAATTAAAGTTTT
* *
2434105 TCAAATTTTGGGGGGCC
1 TAAAATTTTGAGGGGCC
2434122 CATGGCCCCA
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (30 bp):
TAAAATTTTGAGGGGCCAAATTAAAGTTTT
Found at i:2437423 original size:8 final size:8
Alignment explanation
Indices: 2437410--2437441 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
2437400 AACTATTTTT
2437410 AAAAAATA
1 AAAAAATA
2437418 AAAAAATA
1 AAAAAATA
*
2437426 AAAAAAAA
1 AAAAAATA
2437434 AAAAAATA
1 AAAAAATA
2437442 TTTTTTAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (8 bp):
AAAAAATA
Found at i:2437438 original size:15 final size:15
Alignment explanation
Indices: 2437409--2437438 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2437399 AAACTATTTT
*
2437409 TAAAAAATAAAAAAA
1 TAAAAAAAAAAAAAA
2437424 TAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAA
2437439 ATATTTTTTA
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:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
TAAAAAAAAAAAAAA
Found at i:2441820 original size:23 final size:23
Alignment explanation
Indices: 2441794--2441856 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2441784 ATATAACCAC
2441794 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2441817 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2441840 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2441857 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2442242 original size:432 final size:432
Alignment explanation
Indices: 2441443--2442499 Score: 2018
Period size: 432 Copynumber: 2.5 Consensus size: 432
2441433 TTATAATATG
2441443 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
*
2441508 TCAATTTTTTGAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
2441573 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA-TA-A-T
131 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAACATT
2441635 -AATATATATCGTAACGTAAAAAATAAATCATTAGACGCTATAATTACTAAATTAAAATCTTAAA
196 AAATATATATCGTAACGTAAAAAATAAATCATTAGACGCTATAATTACTAAATTAAAATCTTAAA
2441699 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTATA
261 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTATA
2441764 AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
326 AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
2441829 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
391 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
2441871 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
2441936 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2442001 -AAAAAATTATTTGATT-TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAACAT
130 CAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAACAT
2442064 TAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTA
195 TAAATATATATCGTAACGTAAAAAATAAATCATTAGACG-CTATAATTACTAAATTAAAATCTTA
*
2442129 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTA
259 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTA
2442194 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
324 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
2442259 ATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
389 ATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
2442303 TTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
2442368 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
2442433 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAACATT
131 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAACATT
2442498 AA
196 AA
2442500 CCAAAGATAA
Statistics
Matches: 617, Mismatches: 4, Indels: 11
0.98 0.01 0.02
Matches are distributed among these distances:
427 41 0.07
428 86 0.14
429 60 0.10
430 1 0.00
431 97 0.16
432 282 0.46
433 50 0.08
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (432 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAACATT
AAATATATATCGTAACGTAAAAAATAAATCATTAGACGCTATAATTACTAAATTAAAATCTTAAA
ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTATA
AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:2442252 original size:23 final size:23
Alignment explanation
Indices: 2442226--2442288 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2442216 ATATAACCAC
2442226 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2442249 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2442272 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2442289 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2442761 original size:38 final size:39
Alignment explanation
Indices: 2442710--2442794 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
2442700 CAAGTTGTAG
*
2442710 ATTTTGATTTCCTTTTG-TTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
2442748 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
2442787 ATTTTGAT
1 ATTTTGAT
2442795 GAGCATCGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
38 17 0.40
39 26 0.60
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:2443079 original size:24 final size:25
Alignment explanation
Indices: 2443042--2443090 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
2443032 TAGTGGAGCC
2443042 GAAATATATAATTCAAACTCAAATT
1 GAAATATATAATTCAAACTCAAATT
* *
2443067 GAAATTTA-AATTCAAACTCCAATT
1 GAAATATATAATTCAAACTCAAATT
2443091 ACATATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (25 bp):
GAAATATATAATTCAAACTCAAATT
Found at i:2443537 original size:28 final size:26
Alignment explanation
Indices: 2443505--2443566 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
2443495 GATAGATACT
*
2443505 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
2443533 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
2443556 TTACATTATAT
1 TTACAATATAT
2443567 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:2443544 original size:23 final size:23
Alignment explanation
Indices: 2443514--2443567 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
2443504 TTTACAATAT
* *
2443514 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
2443537 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
2443560 ATTATATA
1 ATTATATA
2443568 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:2446422 original size:181 final size:183
Alignment explanation
Indices: 2446013--2446637 Score: 1110
Period size: 183 Copynumber: 3.4 Consensus size: 183
2446003 CGACACATTT
*
2446013 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
2446078 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
2446143 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * *
2446196 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
2446261 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACA-
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
*
2446325 TTTT-TTCCAATATGGATATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * *
2446377 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
2446442 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
2446507 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * *
2446560 TAGGTTGTAGACCTATTTGCGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
**
2446625 ATTTTATTATAAT
66 ATTACATTATAAT
2446638 ATGTTGAAAG
Statistics
Matches: 425, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
181 176 0.41
182 8 0.02
183 241 0.57
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:2448106 original size:3 final size:3
Alignment explanation
Indices: 2448098--2448176 Score: 68
Period size: 3 Copynumber: 26.3 Consensus size: 3
2448088 ACTTGTTTGG
* * * ** * *
2448098 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
2448146 ATC GTC ATC ATC ATC GTC ATC TTC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
2448177 GCTTCATTTT
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:2448115 original size:12 final size:12
Alignment explanation
Indices: 2448098--2448183 Score: 91
Period size: 12 Copynumber: 7.2 Consensus size: 12
2448088 ACTTGTTTGG
2448098 ATCATCATCTTC
1 ATCATCATCTTC
*
2448110 ATCATCATCATC
1 ATCATCATCTTC
*
2448122 GTCATCATCTTC
1 ATCATCATCTTC
** *
2448134 ATCGCCAGCTTC
1 ATCATCATCTTC
* *
2448146 ATCGTCATCATC
1 ATCATCATCTTC
*
2448158 ATCGTCATCTTC
1 ATCATCATCTTC
*
2448170 ATCATCAGCTTC
1 ATCATCATCTTC
2448182 AT
1 AT
2448184 TTTCTGCGAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 61 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:2448146 original size:36 final size:36
Alignment explanation
Indices: 2448106--2448183 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
2448096 GGATCATCAT
* *
2448106 CTTCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCTTCATCACCAG
* * *
2448142 CTTCATCGTCATCATCATCGTCATCTTCATCATCAG
1 CTTCATCATCATCATCATCATCATCTTCATCACCAG
2448178 CTTCAT
1 CTTCAT
2448184 TTTCTGCGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.36
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTCATCACCAG
Found at i:2449982 original size:197 final size:197
Alignment explanation
Indices: 2449647--2451117 Score: 2826
Period size: 197 Copynumber: 7.5 Consensus size: 197
2449637 TTTAAATTAG
*
2449647 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
2449712 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGCTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2449777 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
2449842 AA
196 AA
2449844 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2449909 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2449974 CGACACTTTTTATATATGGATCGACACTTTATGGTGTACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
2450039 AA
196 AA
2450041 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
2450106 ATTGTACCGGTTGGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450171 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
2450236 AA
196 AA
2450238 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450303 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450367 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
2450432 AA
196 AA
2450434 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450499 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2450564 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
2450629 AAA
195 AAA
2450632 TATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450696 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450761 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
2450824 AAA
195 AAA
2450827 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450892 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2450957 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
2451022 AAA
195 AAA
2451025 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2451090 ATTGTACC-GTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
2451118 CCTTTTGGCC
Statistics
Matches: 1258, Mismatches: 9, Indels: 14
0.98 0.01 0.01
Matches are distributed among these distances:
195 43 0.03
196 346 0.28
197 747 0.59
198 122 0.10
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AA
Found at i:2450546 original size:393 final size:395
Alignment explanation
Indices: 2449647--2451117 Score: 2830
Period size: 393 Copynumber: 3.7 Consensus size: 395
2449637 TTTAAATTAG
*
2449647 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
2449712 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGCTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2449777 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2449841 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
2449906 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
*
2449971 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGTACCCTGTTTTCCATTCATTCTGGAA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAA
2450036 ATAAA
391 ATAAA
2450041 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
2450106 ATTGTACCGGTTGGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2450171 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2450235 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
2450300 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
2450364 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAA
2450429 ATAAA
391 ATAAA
2450434 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450499 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450564 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2450629 AAATATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
2450693 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
2450758 GATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
326 GATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGA
2450821 AATAAA
390 AATAAA
2450827 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450892 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450957 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
2451022 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
2451087 ATAATTGTACC-GTTAGATTGAAAAATTACAT
261 ATAATTGTACCGGTTAGATTGAAAAATTACAT
2451118 CCTTTTGGCC
Statistics
Matches: 1067, Mismatches: 6, Indels: 9
0.99 0.01 0.01
Matches are distributed among these distances:
392 20 0.02
393 640 0.60
394 407 0.38
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (395 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAA
ATAAA
Found at i:2450766 original size:590 final size:590
Alignment explanation
Indices: 2449647--2451117 Score: 2824
Period size: 590 Copynumber: 2.5 Consensus size: 590
2449637 TTTAAATTAG
*
2449647 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
2449712 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGCTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2449777 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
2449842 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
2449907 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
2449972 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGTACCCTGTTTTCCATTCATTCTGGAAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
*
2450037 TAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
391 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
*
2450102 TATAATTGTACCGGTTGGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
456 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
2450167 GGATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGG
521 GGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
2450231 AAATAAA
584 AAATAAA
2450238 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450303 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450367 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
2450432 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
2450497 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
2450562 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AA
2450627 AAAAATATCGACACAAACTATA-TAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCG
390 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCG
2450691 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
455 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
2450756 GGGATCGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
520 GGGATCGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
2450821 AATAAA
585 AATAAA
2450827 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
2450892 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2450957 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
2451022 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
2451087 ATAATTGTACC-GTTAGATTGAAAAATTACAT
260 ATAATTGTACCGGTTAGATTGAAAAATTACAT
2451118 CCTTTTGGCC
Statistics
Matches: 870, Mismatches: 6, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
588 20 0.02
589 145 0.17
590 498 0.57
591 207 0.24
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (590 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
ATAAA
Found at i:2451273 original size:19 final size:19
Alignment explanation
Indices: 2451242--2451290 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
2451232 TTATATTCAC
2451242 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
2451261 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2451280 ATACAAAATTA
1 ATACAAAATTA
2451291 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2453114 original size:33 final size:33
Alignment explanation
Indices: 2453077--2453142 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2453067 CATCTTAATA
*
2453077 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2453110 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2453143 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2455485 original size:17 final size:18
Alignment explanation
Indices: 2455463--2455505 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2455453 ATATATCCGG
2455463 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
2455480 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
2455500 TATCAT
1 TATCAT
2455506 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2455523 original size:20 final size:19
Alignment explanation
Indices: 2455468--2455514 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2455458 TCCGGTATCA
2455468 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2455487 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2455508 TTTTACC
1 TTTTACC
2455515 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2455660 original size:20 final size:20
Alignment explanation
Indices: 2455635--2455679 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
2455625 ACACTTTAAA
2455635 TTACCGGTTTTATCAT-TTT
1 TTACCGGTTTTATCATATTT
2455654 GTTACCGGTTTTATCATATTT
1 -TTACCGGTTTTATCATATTT
2455675 TTACC
1 TTACC
2455680 TGGTATATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (20 bp):
TTACCGGTTTTATCATATTT
Done.