Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008887.1 Hibiscus syriacus cultivar Beakdansim tig00112152_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: 452931
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
File 1 of 2
Found at i:5912 original size:14 final size:15
Alignment explanation
Indices: 5883--5916 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
5873 AAAGTAGAAA
5883 GTTCAAGCCAAATCG
1 GTTCAAGCCAAATCG
5898 GTTCAAGCC-AATCG
1 GTTCAAGCCAAATCG
5912 GTTCA
1 GTTCA
5917 TCTTTGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (15 bp):
GTTCAAGCCAAATCG
Found at i:6974 original size:25 final size:24
Alignment explanation
Indices: 6940--7021 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 24
6930 AATTGATCAT
6940 AATGGCGAAGGATCATTATGAATTA
1 AATGGCGAAGGA-CATTATGAATTA
*
6965 AATGGTGAAGGACCATTATGAATTA
1 AATGGCGAAGGA-CATTATGAATTA
*
6990 AATGGTGAAGGAC--TATGAATTA
1 AATGGCGAAGGACATTATGAATTA
7012 AATGGCGAAG
1 AATGGCGAAG
7022 TTGATGTGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
22 18 0.33
24 1 0.02
25 35 0.65
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.26
Consensus pattern (24 bp):
AATGGCGAAGGACATTATGAATTA
Found at i:10200 original size:21 final size:21
Alignment explanation
Indices: 10174--10223 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
10164 TTGGTCCCAA
10174 TCAACATT-C-TAACTTAAAATT
1 TCAACATTCCATAA-TTAAAA-T
10195 TCAACATTCCATAATTAAAAT
1 TCAACATTCCATAATTAAAAT
10216 TCAACATT
1 TCAACATT
10224 GAATACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 17 0.63
22 7 0.26
23 3 0.11
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (21 bp):
TCAACATTCCATAATTAAAAT
Found at i:14138 original size:18 final size:18
Alignment explanation
Indices: 14103--14136 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14093 ATGTAAAGTA
14103 GTATCCGTACCCATTTTG
1 GTATCCGTACCCATTTTG
*
14121 GTATCGGTA-CCATTTT
1 GTATCCGTACCCATTTT
14137 TGCATTATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (18 bp):
GTATCCGTACCCATTTTG
Found at i:18353 original size:19 final size:20
Alignment explanation
Indices: 18329--18374 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18319 CAAAATGCCC
*
18329 CAATTTCAA-ATTCTAACAT
1 CAATTTCAACACTCTAACAT
18348 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
18368 TAATTTC
1 CAATTTC
18375 TAGCATAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:21276 original size:21 final size:21
Alignment explanation
Indices: 21239--21283 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21229 TCTAAATCTA
*
21239 TTTTCAAAATTACATTTTGAT
1 TTTTCAAAATCACATTTTGAT
*
21260 TTTTCAAAATC-CAATTTTGCT
1 TTTTCAAAATCAC-ATTTTGAT
21281 TTT
1 TTT
21284 AAAAGAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCAAAATCACATTTTGAT
Found at i:24988 original size:2 final size:2
Alignment explanation
Indices: 24981--25005 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24971 CTTTTAGTGT
24981 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 T
25006 GATTTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29970 original size:44 final size:45
Alignment explanation
Indices: 29930--30016 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
29920 GTTATGGAAT
* *
29930 AATGGCAAGTGTATTGGTAAAATAAGTTTACGAGCTTATGGTACA
1 AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTACA
* *
29975 AATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGT
1 AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGT
30017 TAATAAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.33
Consensus pattern (45 bp):
AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTACA
Found at i:34186 original size:13 final size:13
Alignment explanation
Indices: 34168--34209 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
34158 AACGGTCAAC
34168 GGTCAACGGGTCG
1 GGTCAACGGGTCG
34181 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
*
34193 GGTAAACGGGTCG
1 GGTCAACGGGTCG
34206 GGTC
1 GGTC
34210 GGGTAAACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:34191 original size:7 final size:7
Alignment explanation
Indices: 34139--34176 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
34129 AGAATAGCAC
34139 CGGTCAA
1 CGGTCAA
34146 CGGTCAA
1 CGGTCAA
34153 CGGTCAA
1 CGGTCAA
34160 CGGTCAA
1 CGGTCAA
34167 CGGTCAA
1 CGGTCAA
34174 CGG
1 CGG
34177 GTCGGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.32, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:34211 original size:18 final size:18
Alignment explanation
Indices: 34188--34241 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
34178 TCGGGTCAAC
34188 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
*
34206 GGTCGGGTAAACTGGTCG
1 GGTCGGGTAAACGGGTCG
34224 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
34242 TGACCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.19
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:34241 original size:13 final size:13
Alignment explanation
Indices: 34172--34208 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
34162 GTCAACGGTC
*
34172 AACGGGTCGGGTC
1 AACGGGTCGGGTA
34185 AAC-GGTCGGGTA
1 AACGGGTCGGGTA
34197 AACGGGTCGGGT
1 AACGGGTCGGGT
34209 CGGGTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:34265 original size:11 final size:11
Alignment explanation
Indices: 34244--34301 Score: 88
Period size: 11 Copynumber: 5.6 Consensus size: 11
34234 ACGGGTCGTG
34244 ACCGG-TCAAA
1 ACCGGTTCAAA
34254 ACCGGTTCAAA
1 ACCGGTTCAAA
34265 ACCGGTTCAAA
1 ACCGGTTCAAA
34276 ACCGGTT--AA
1 ACCGGTTCAAA
34285 ACCGG-TCAAA
1 ACCGGTTCAAA
34295 ACCGGTT
1 ACCGGTT
34302 TCCAGCGTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.02
9 7 0.16
10 12 0.27
11 24 0.55
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (11 bp):
ACCGGTTCAAA
Found at i:41317 original size:7 final size:7
Alignment explanation
Indices: 41265--41302 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
41255 AGAATAGCAC
41265 CGGTCAA
1 CGGTCAA
*
41272 CGGTCAT
1 CGGTCAA
41279 CGGTCAA
1 CGGTCAA
41286 CGGTCAA
1 CGGTCAA
*
41293 CGGCCAA
1 CGGTCAA
41300 CGG
1 CGG
41303 GTCGGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:41319 original size:12 final size:13
Alignment explanation
Indices: 41297--41335 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
41287 GGTCAACGGC
41297 CAACGGGTCGGGT
1 CAACGGGTCGGGT
41310 CAAC-GGTCGGGT
1 CAACGGGTCGGGT
*
41322 AAACGGGTCGGGT
1 CAACGGGTCGGGT
41335 C
1 C
41336 GGGTAAACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.18, C:0.23, G:0.44, T:0.15
Consensus pattern (13 bp):
CAACGGGTCGGGT
Found at i:41337 original size:18 final size:18
Alignment explanation
Indices: 41314--41367 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
41304 TCGGGTCAAC
41314 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
*
41332 GGTCGGGTAAACTGGTCG
1 GGTCGGGTAAACGGGTCG
41350 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
41368 TGACCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.19
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:41367 original size:13 final size:13
Alignment explanation
Indices: 41298--41334 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
41288 GTCAACGGCC
*
41298 AACGGGTCGGGTC
1 AACGGGTCGGGTA
41311 AAC-GGTCGGGTA
1 AACGGGTCGGGTA
41323 AACGGGTCGGGT
1 AACGGGTCGGGT
41335 CGGGTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:41383 original size:10 final size:10
Alignment explanation
Indices: 41370--41415 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
41360 ACGGGTCGTG
41370 ACCGGTCAAA
1 ACCGGTCAAA
41380 ACCGGTTCAAA
1 ACCGG-TCAAA
*
41391 ACCGGT-TAA
1 ACCGGTCAAA
41400 ACCGGTCAAA
1 ACCGGTCAAA
41410 ACCGGT
1 ACCGGT
41416 TTCCAGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 8 0.25
10 14 0.44
11 10 0.31
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:41391 original size:11 final size:11
Alignment explanation
Indices: 41370--41416 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
41360 ACGGGTCGTG
41370 ACCGG-TCAAA
1 ACCGGTTCAAA
41380 ACCGGTTCAAA
1 ACCGGTTCAAA
41391 ACCGGTT--AA
1 ACCGGTTCAAA
41400 ACCGG-TCAAA
1 ACCGGTTCAAA
41410 ACCGGTT
1 ACCGGTT
41417 TCCAGCGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 7 0.21
10 12 0.36
11 13 0.39
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (11 bp):
ACCGGTTCAAA
Found at i:41410 original size:19 final size:20
Alignment explanation
Indices: 41378--41416 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
41368 TGACCGGTCA
41378 AAACCGGTTCAAAACCGGTT
1 AAACCGGTTCAAAACCGGTT
41398 AAACCGG-TCAAAACCGGTT
1 AAACCGGTTCAAAACCGGTT
41417 TCCAGCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (20 bp):
AAACCGGTTCAAAACCGGTT
Found at i:55694 original size:20 final size:21
Alignment explanation
Indices: 55644--55695 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
55634 AAACTTCAGA
55644 TTTCAATATTAAAATTAATTAT
1 TTTCAA-ATTAAAATTAATTAT
**
55666 TTT-AGAATTAATTTTAA-TAT
1 TTTCA-AATTAAAATTAATTAT
55686 TTTCAAATTA
1 TTTCAAATTA
55696 TTCAACTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 11 0.42
21 11 0.42
22 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTCAAATTAAAATTAATTAT
Found at i:77310 original size:13 final size:14
Alignment explanation
Indices: 77285--77317 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
77275 GACCCGACCC
77285 GACCGTCGACCGTT
1 GACCGTCGACCGTT
77299 GACCGT-GACCGTT
1 GACCGTCGACCGTT
77312 GACCGT
1 GACCGT
77318 TGACTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.21
Consensus pattern (14 bp):
GACCGTCGACCGTT
Found at i:77318 original size:7 final size:7
Alignment explanation
Indices: 77285--77321 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
77275 GACCCGACCC
*
77285 GACCGTC
1 GACCGTT
77292 GACCGTT
1 GACCGTT
77299 GACCG-T
1 GACCGTT
77305 GACCGTT
1 GACCGTT
77312 GACCGTT
1 GACCGTT
77319 GAC
1 GAC
77322 TTCCTTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (7 bp):
GACCGTT
Found at i:80622 original size:85 final size:85
Alignment explanation
Indices: 80491--80656 Score: 278
Period size: 85 Copynumber: 2.0 Consensus size: 85
80481 AACTTGATTT
* * * * *
80491 AAGCATGGATTCAACATTTTAATATTAATTTTCAAGCTTCTCCAATCATTCGAATATCTAAATAA
1 AAGCATGAATTCAACATTTTAATATTAATTTCCAAGCTTCTACAATCATTCAAATATCAAAATAA
80556 ATCAAAATTCAATTTTTCTA
66 ATCAAAATTCAATTTTTCTA
*
80576 AAGCATGAATTCAACCTTTTAATATTAATTTCCAAGCTTCTACAATCATTCAAATATCAAAATAA
1 AAGCATGAATTCAACATTTTAATATTAATTTCCAAGCTTCTACAATCATTCAAATATCAAAATAA
80641 ATCAAAATTCAATTTT
66 ATCAAAATTCAATTTT
80657 ATACAAAAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (85 bp):
AAGCATGAATTCAACATTTTAATATTAATTTCCAAGCTTCTACAATCATTCAAATATCAAAATAA
ATCAAAATTCAATTTTTCTA
Found at i:103722 original size:13 final size:13
Alignment explanation
Indices: 103704--103730 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103694 CTCAAACCTT
103704 TCGTCGTGAATCG
1 TCGTCGTGAATCG
103717 TCGTCGTGAATCG
1 TCGTCGTGAATCG
103730 T
1 T
103731 TAATTTCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (13 bp):
TCGTCGTGAATCG
Found at i:127760 original size:39 final size:39
Alignment explanation
Indices: 127717--127796 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
127707 TTTACCCTTA
127717 AAATCTTATGACAATTTCCATCGACATGTCCATTATATT
1 AAATCTTATGACAATTTCCATCGACATGTCCATTATATT
127756 AAATCTTATGACAATTTCCATCGACATGTCCATTATATT
1 AAATCTTATGACAATTTCCATCGACATGTCCATTATATT
127795 AA
1 AA
127797 TACAAAAGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (39 bp):
AAATCTTATGACAATTTCCATCGACATGTCCATTATATT
Found at i:127808 original size:39 final size:39
Alignment explanation
Indices: 127726--127808 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
127716 AAAATCTTAT
** *
127726 GACAATTTCCATCGACATGTCCATTATATTAAATCTTAT
1 GACAATTTCCATCGACATGTCCATTATATTAAATCAAAA
127765 GACAATTTCCATCGACATGTCCATTATATT-AATACAAAA
1 GACAATTTCCATCGACATGTCCATTATATTAAAT-CAAAA
127804 GACAA
1 GACAA
127809 AGATGAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 3 0.08
39 37 0.93
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (39 bp):
GACAATTTCCATCGACATGTCCATTATATTAAATCAAAA
Found at i:131197 original size:924 final size:923
Alignment explanation
Indices: 129221--131889 Score: 4864
Period size: 924 Copynumber: 2.9 Consensus size: 923
129211 TGTGCTTATG
129221 GCTCACTATGATATTACTTCTTGACAAGATCAATGCAAGCATAATTTACAGAACACGTACATTTC
1 GCTCACTATGATATTACTTCTTGACAAGATCAATGCAAGCATAATTTACAGAACACGTACATTTC
129286 AAAGCATATGTTGGTATCATACTAACATAGACGCATATTAAAATTAAAATTCATAAAAATTCTTT
66 AAAGCATATGTTGGTATCATACTAACATAGACGCATATTAAAATTAAAATTCATAAAAATTCTTT
129351 TGATACTTGTTCAATACCAATTCCATTTCCCAACATCAATGTTGTCCTTCTTACTTCAAGATGAC
131 TGATACTTGTTCAATACCAATTCCATTTCCCAACATCAATGTTGTCCTTCTTACTTCAAGATGAC
129416 ACTTGAAGTCCCTCACTATTCGTAATCCTCAATAATTCACATGACATTTTTAAACTTCAGGTTTC
196 ACTTGAAGTCCCTCACTATTCGTAATCCTCAATAATTCACATGACATTTTTAAACTTCAGGTTTC
129481 AACTATTAAAATAATTATTTTAGAATTAATTTTAATATTTTCAAATTATTCAAAATGGTATATTT
261 AACTATTAAAATAATTATTTTAGAATTAATTTTAATATTTTCAAATTATTCAAAATGGTATATTT
129546 CCATTTAACTTCAAATTCAAGCACTTAAAATCATATTTAATCGTTCCAAAAATGTATTTAAGCTT
326 CCATTTAACTTCAAATTCAAGCACTTAAAATCATATTTAATCGTTCCAAAAATGTATTTAAGCTT
129611 ATTACATTAAATTTTGAACAATTCCCATTTCAATCCAAAAAATTACTTAATATTTGAATAGATCC
391 ATTACATTAAATTTTGAACAATTCCCATTTCAATCCAAAAAATTACTTAATATTTGAATAGATCC
129676 CTAAAATTGTACAATATTTCAATTTGGTCCAAAAGATTTTCTAAAGCTTACAGAATCTTTCATAC
456 CTAAAATTGTACAATATTTCAATTTGGTCCAAAAGATTTTCTAAAGCTTACAGAATCTTTCATAC
129741 ACTATTTGTAACCTTACGGAAATATTTTTATAATTTCCCTAACTTCTCTACTGTGGACGAATATC
521 ACTATTTGTAACCTTACGGAAATATTTTTATAATTTCCCTAACTTCTCTACTGTGGACGAATATC
129806 CTAGGTATCAAATTCCATTATTTTTCAACTTGAACCAAGCATGAATTC-ACCATTTAATGTTAAT
586 CTAGGTATCAAATTCCATTATTTTTCAACTTGAACCAAGCATGAATTCAACCATTTAATGTTAAT
129870 TTTCAAGCTTCTACAATCATTCGAATATCTAAATAAATCAAAATTCAATTTTATAAAAAAACCAT
651 TTTCAAGCTTCTACAATCATTCGAATATCTAAATAAATCAAAATTCAATTTTATAAAAAAACCAT
129935 AGCTTTGGTCCGACCTTATATACTCATTATACAAGCATGGAAATGATTCTACAATATCAACAACA
716 AGCTTTGGTCCGACCTTATATACTCATTATACAAGCATGGAAATGATTCTACAATATCAACAACA
130000 ACTAAATCTATCCGTAAAACATGAAAATCAAACTCCCTTTCAGAATGATGGAGAATTTCATGCAA
781 ACTAAATCTATCCGTAAAACATGAAAATCAAACTCCCTTTCAGAATGATGGAGAATTTCATGCAA
130065 ATTAATTTTCTGTTTCATGCTTTTATCCAAAATCCATGTAATTTTGATTGAAAATGAAAAATAGA
846 ATTAATTTTCTGTTTCATGCTTTTATCCAAAATCCATGTAATTTTGATTGAAAATGAAAAATAGA
130130 TTATTCTTACCTT
911 TTATTCTTACCTT
130143 GCTCACTATGATATTACTTCTTGACAAGATCAATGCAAGCATAATTTACAGAACACGTACATTTC
1 GCTCACTATGATATTACTTCTTGACAAGATCAATGCAAGCATAATTTACAGAACACGTACATTTC
*
130208 AAAGCATATGTTGGTATCATACTAACATAGACGCATATTAAAATTAAAATTCATAAAATTTCTTT
66 AAAGCATATGTTGGTATCATACTAACATAGACGCATATTAAAATTAAAATTCATAAAAATTCTTT
* *
130273 TGATACTTGTTCAATGCCAAATCCATTTCCCAACATCAATGTTGTCCTTCTTACTTCAAGATGAC
131 TGATACTTGTTCAATACCAATTCCATTTCCCAACATCAATGTTGTCCTTCTTACTTCAAGATGAC
130338 ACTTGAAGTCCCTCACTATTCGTAATCCTCAATAATTCACATGACATTTTTAAACTTCAGGTTTC
196 ACTTGAAGTCCCTCACTATTCGTAATCCTCAATAATTCACATGACATTTTTAAACTTCAGGTTTC
130403 AACTATTAAAATAATTATTTTAGAATTAATTTTAATATTTTCAAATTATTCAAAATGGTATATTT
261 AACTATTAAAATAATTATTTTAGAATTAATTTTAATATTTTCAAATTATTCAAAATGGTATATTT
130468 CCATTTAACTTCAAATTCAAGCACTTAAAATCATATTTAATCGTTCCAAAAATGTATTTAAGCTT
326 CCATTTAACTTCAAATTCAAGCACTTAAAATCATATTTAATCGTTCCAAAAATGTATTTAAGCTT
130533 ATTACATTAAATTTTGAACAATTCCCATTTCAATCCAAAAAATTACTTAATATTTGAATAGATCC
391 ATTACATTAAATTTTGAACAATTCCCATTTCAATCCAAAAAATTACTTAATATTTGAATAGATCC
130598 CTAAAATTGTACAATATTTCAATTTGGTCCAAAAGATTTTCTAAAGCTTACAGAATCTTTCATAC
456 CTAAAATTGTACAATATTTCAATTTGGTCCAAAAGATTTTCTAAAGCTTACAGAATCTTTCATAC
*
130663 ACTATTTGTAACCTTACGGAAAATATTTTTATAATTTCCCTAACTTCTCTACTATGGACGAATAT
521 ACTATTTGTAACCTTACGG-AAATATTTTTATAATTTCCCTAACTTCTCTACTGTGGACGAATAT
130728 CCTAGGTATCAAATTCCATTATTTTTCAACTTGAACCAAGCATGAATTCAACCATTTAATGTTAA
585 CCTAGGTATCAAATTCCATTATTTTTCAACTTGAACCAAGCATGAATTCAACCATTTAATGTTAA
130793 TTTTCAAGCTTCTACAATCATTCGAATATCTAAATAAATCAAAATTCAATTTTATAAAAAAACCA
650 TTTTCAAGCTTCTACAATCATTCGAATATCTAAATAAATCAAAATTCAATTTTATAAAAAAACCA
130858 TAGCTTTGGTCCGACCTTATATACTCATTATACAAGCATGGAAATGATTCTACAATATCAACAAC
715 TAGCTTTGGTCCGACCTTATATACTCATTATACAAGCATGGAAATGATTCTACAATATCAACAAC
130923 AACTAAATCTATCCGTAAAACATGAAAATCAAACTCCCTTTCAGAATGATGGAGAATTTCATGCA
780 AACTAAATCTATCCGTAAAACATGAAAATCAAACTCCCTTTCAGAATGATGGAGAATTTCATGCA
130988 AATTAATTTTCTGTTTCATGCTTTTATCCAAAATCCATGTAATTTTGATTGAAAATGAAAAATAG
845 AATTAATTTTCTGTTTCATGCTTTTATCCAAAATCCATGTAATTTTGATTGAAAATGAAAAATAG
131053 ATTATTCTTACCTT
910 ATTATTCTTACCTT
*
131067 GCTCACTATGATATCACTTCTTGACAAGATCAATGCAAGCATAATTTACAGAACACGTACATTTC
1 GCTCACTATGATATTACTTCTTGACAAGATCAATGCAAGCATAATTTACAGAACACGTACATTTC
131132 AAAGCATATGTTGGTATCATACTAACATAGACGCATATTAAAATTAAAATTCATAAAAATTCTTT
66 AAAGCATATGTTGGTATCATACTAACATAGACGCATATTAAAATTAAAATTCATAAAAATTCTTT
131197 TGATACTTGTTCAATACCAATTCCATTTCCCAACATCAATGTTGTCCTTCTTACTTCAAGATGAC
131 TGATACTTGTTCAATACCAATTCCATTTCCCAACATCAATGTTGTCCTTCTTACTTCAAGATGAC
* * *
131262 ACTTGAAGTCCCTTACTATTCGTAATCCTCAATAATTCACATGACATTTTAAAACTTCAGATTTC
196 ACTTGAAGTCCCTCACTATTCGTAATCCTCAATAATTCACATGACATTTTTAAACTTCAGGTTTC
* ** * *
131327 AACTATTAAACTTAATTATTTTAGAATTAATTTTAATATTTTCAAATTATTGGAACTTG-ACTAT
261 AACTATTAAA-ATAATTATTTTAGAATTAATTTTAATATTTTCAAATTATTCAAAATGGTA-TAT
* * * *
131391 TTCCATGTAACTTCAAATTCAAACACTT-AAATCATATTTAATCCTTCCAACAATGTATTTAAGC
324 TTCCATTTAACTTCAAATTCAAGCACTTAAAATCATATTTAATCGTTCCAAAAATGTATTTAAGC
* * * *
131455 TTATTACATTAACTTTTGAACAATTCCCATTTCAATCCAAAAAATTCCATAATATTTTAATAGAT
389 TTATTACATTAAATTTTGAACAATTCCCATTTCAATCCAAAAAATTACTTAATATTTGAATAGAT
* * *
131520 CCCTTAAATTGTACAA-ATTTTCAACTTGGT-CAAAACGATTTTCTAAATCTTACAGAATCTTTC
454 CCCTAAAATTGTACAATA-TTTCAATTTGGTCCAAAA-GATTTTCTAAAGCTTACAGAATCTTTC
* * * *
131583 ACACATTATTTGTAACCTTAAGGAAAT-TTCTCTATAATTTCCCTAACTTCTCTACTGTGGACGA
517 ATACACTATTTGTAACCTTACGGAAATATT-TTTATAATTTCCCTAACTTCTCTACTGTGGACGA
* * ** ** * * *
131647 ATATCCTAGGTATGAAATTCCATTATCTTTCAGTTTGATTCAAGCATGGATTCAACCTTTTAATA
581 ATATCCTAGGTATCAAATTCCATTATTTTTCAACTTGAACCAAGCATGAATTCAACCATTTAATG
131712 TTAATTTTCAAGCTTCTACAATCATTCGAATATCTAAATAAATCAAAATTCAATTTTATAAAAAA
646 TTAATTTTCAAGCTTCTACAATCATTCGAATATCTAAATAAATCAAAATTCAATTTTAT-AAAAA
* * *
131777 AACCATAGCTTTGGTCCGACCTTATATACTCATTATTCAAGCATAGAAATGATTCTACCATATCA
710 AACCATAGCTTTGGTCCGACCTTATATACTCATTATACAAGCATGGAAATGATTCTACAATATCA
*
131842 ACAACAACTAAATCTATCCATAAAACATGAAAATCAAACTCCCTTTCA
775 ACAACAACTAAATCTATCCGTAAAACATGAAAATCAAACTCCCTTTCA
131890 TCCACCCTAT
Statistics
Matches: 1694, Mismatches: 45, Indels: 14
0.97 0.03 0.01
Matches are distributed among these distances:
922 538 0.32
923 250 0.15
924 834 0.49
925 72 0.04
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.36
Consensus pattern (923 bp):
GCTCACTATGATATTACTTCTTGACAAGATCAATGCAAGCATAATTTACAGAACACGTACATTTC
AAAGCATATGTTGGTATCATACTAACATAGACGCATATTAAAATTAAAATTCATAAAAATTCTTT
TGATACTTGTTCAATACCAATTCCATTTCCCAACATCAATGTTGTCCTTCTTACTTCAAGATGAC
ACTTGAAGTCCCTCACTATTCGTAATCCTCAATAATTCACATGACATTTTTAAACTTCAGGTTTC
AACTATTAAAATAATTATTTTAGAATTAATTTTAATATTTTCAAATTATTCAAAATGGTATATTT
CCATTTAACTTCAAATTCAAGCACTTAAAATCATATTTAATCGTTCCAAAAATGTATTTAAGCTT
ATTACATTAAATTTTGAACAATTCCCATTTCAATCCAAAAAATTACTTAATATTTGAATAGATCC
CTAAAATTGTACAATATTTCAATTTGGTCCAAAAGATTTTCTAAAGCTTACAGAATCTTTCATAC
ACTATTTGTAACCTTACGGAAATATTTTTATAATTTCCCTAACTTCTCTACTGTGGACGAATATC
CTAGGTATCAAATTCCATTATTTTTCAACTTGAACCAAGCATGAATTCAACCATTTAATGTTAAT
TTTCAAGCTTCTACAATCATTCGAATATCTAAATAAATCAAAATTCAATTTTATAAAAAAACCAT
AGCTTTGGTCCGACCTTATATACTCATTATACAAGCATGGAAATGATTCTACAATATCAACAACA
ACTAAATCTATCCGTAAAACATGAAAATCAAACTCCCTTTCAGAATGATGGAGAATTTCATGCAA
ATTAATTTTCTGTTTCATGCTTTTATCCAAAATCCATGTAATTTTGATTGAAAATGAAAAATAGA
TTATTCTTACCTT
Found at i:152987 original size:188 final size:188
Alignment explanation
Indices: 152670--153045 Score: 752
Period size: 188 Copynumber: 2.0 Consensus size: 188
152660 TTTCCCTTAA
152670 GTTTTCCCGAAATTACAGTCTTACTAGCTAAATTTTACATAAATACTTTTTTATTCTTGCACTTT
1 GTTTTCCCGAAATTACAGTCTTACTAGCTAAATTTTACATAAATACTTTTTTATTCTTGCACTTT
152735 TACATGTGCTTCTTGCTCGATATGATATTACTTCTTGACAAGATCAATGCAAGTATAATTTACAG
66 TACATGTGCTTCTTGCTCGATATGATATTACTTCTTGACAAGATCAATGCAAGTATAATTTACAG
152800 AACACGTACATTTCAAAGCATATGCTGGTATCATACTAACATAGATACATATTAACAT
131 AACACGTACATTTCAAAGCATATGCTGGTATCATACTAACATAGATACATATTAACAT
152858 GTTTTCCCGAAATTACAGTCTTACTAGCTAAATTTTACATAAATACTTTTTTATTCTTGCACTTT
1 GTTTTCCCGAAATTACAGTCTTACTAGCTAAATTTTACATAAATACTTTTTTATTCTTGCACTTT
152923 TACATGTGCTTCTTGCTCGATATGATATTACTTCTTGACAAGATCAATGCAAGTATAATTTACAG
66 TACATGTGCTTCTTGCTCGATATGATATTACTTCTTGACAAGATCAATGCAAGTATAATTTACAG
152988 AACACGTACATTTCAAAGCATATGCTGGTATCATACTAACATAGATACATATTAACAT
131 AACACGTACATTTCAAAGCATATGCTGGTATCATACTAACATAGATACATATTAACAT
153046 TAAAATTCAT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 188 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (188 bp):
GTTTTCCCGAAATTACAGTCTTACTAGCTAAATTTTACATAAATACTTTTTTATTCTTGCACTTT
TACATGTGCTTCTTGCTCGATATGATATTACTTCTTGACAAGATCAATGCAAGTATAATTTACAG
AACACGTACATTTCAAAGCATATGCTGGTATCATACTAACATAGATACATATTAACAT
Found at i:153236 original size:70 final size:70
Alignment explanation
Indices: 153154--153295 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
153144 TTACTATTCA
153154 TATTCCTCAATAATTCACATGACATTTTAAAAATTTAGATTTCAACTATTAAAATTAATTATTTT
1 TATTCCTCAATAATTCACATGACATTTTAAAAATTTAGATTTCAACTATTAAAATTAATTATTTT
153219 GGAAT
66 GGAAT
153224 TATTCCTCAATAATTCACATGACATTTTAAAAATTTAGATTTCAACTATTAAAATTAATTATTTT
1 TATTCCTCAATAATTCACATGACATTTTAAAAATTTAGATTTCAACTATTAAAATTAATTATTTT
153289 GGAAT
66 GGAAT
153294 TA
1 TA
153296 ATTTTAATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (70 bp):
TATTCCTCAATAATTCACATGACATTTTAAAAATTTAGATTTCAACTATTAAAATTAATTATTTT
GGAAT
Found at i:160559 original size:24 final size:24
Alignment explanation
Indices: 160527--160616 Score: 126
Period size: 24 Copynumber: 3.8 Consensus size: 24
160517 ATCTAAACAT
*
160527 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
* *
160551 AATCTAGGTCAAGTATCAAATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
160575 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
* *
160599 AATCCAGATCATGTATCA
1 AATCCAGGTCAAGTATCA
160617 TAACAGAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:160591 original size:48 final size:48
Alignment explanation
Indices: 160522--160624 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 48
160512 TAAAAATCTA
* * *
160522 AACATAATCCAGGTCAAGTATCAGATCAAAATCTAGGTCAAGTATCA-
1 AACAGAATCCAGGTCAAGTATCAGATCAAAATCCAGATCAAGTATCAT
* * *
160569 AATCAGAATCCAGGTCAAGTATCCGATCAGAATCCAGATCATGTATCAT
1 AA-CAGAATCCAGGTCAAGTATCAGATCAAAATCCAGATCAAGTATCAT
160618 AACAGAA
1 AACAGAA
160625 ATCAAATAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 2 0.04
48 44 0.92
49 2 0.04
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (48 bp):
AACAGAATCCAGGTCAAGTATCAGATCAAAATCCAGATCAAGTATCAT
Found at i:160623 original size:24 final size:24
Alignment explanation
Indices: 160522--160624 Score: 109
Period size: 24 Copynumber: 4.3 Consensus size: 24
160512 TAAAAATCTA
*
160522 AACATAATCCAGGTCAAGTATCAG
1 AACAGAATCCAGGTCAAGTATCAG
* * *
160546 ATCAAAATCTAGGTCAAGTATCA-
1 AACAGAATCCAGGTCAAGTATCAG
*
160569 AATCAGAATCCAGGTCAAGTATCCG
1 AA-CAGAATCCAGGTCAAGTATCAG
* * * *
160594 ATCAGAATCCAGATCATGTATCAT
1 AACAGAATCCAGGTCAAGTATCAG
160618 AACAGAA
1 AACAGAA
160625 ATCAAATAGG
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.02
24 62 0.97
25 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
AACAGAATCCAGGTCAAGTATCAG
Found at i:165561 original size:24 final size:24
Alignment explanation
Indices: 165530--165607 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
165520 ATCTTAACAT
165530 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
* *
165554 AATTCAGGTCAAGTATCTA-ATCAG
1 AATCCAGGTCAAGTATC-AGATCAA
* * *
165578 AATCCATGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
165602 AATCCA
1 AATCCA
165608 AATCAGGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 46 0.98
25 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAA
Found at i:165617 original size:24 final size:24
Alignment explanation
Indices: 165538--165618 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
165528 ATAATCCAGG
* * * **
165538 TCAAGTATCAGATCAAAATTCAGG
1 TCAAGTATCCGATCAGAATCCAAA
** **
165562 TCAAGTATCTAATCAGAATCCATG
1 TCAAGTATCCGATCAGAATCCAAA
165586 TCAAGTATCCGATCAGAATCCAAA
1 TCAAGTATCCGATCAGAATCCAAA
*
165610 TCAGGTATC
1 TCAAGTATC
165619 ATAACATAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
TCAAGTATCCGATCAGAATCCAAA
Found at i:172165 original size:7 final size:7
Alignment explanation
Indices: 172155--172206 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
172145 CAAATTTAAC
172155 GGTCAAT
1 GGTCAAT
172162 GGTCAAT
1 GGTCAAT
172169 GGTCAAT
1 GGTCAAT
172176 GGTC-A-
1 GGTCAAT
*
172181 -GTCAAC
1 GGTCAAT
*
172187 GATCAAT
1 GGTCAAT
*
172194 GATCAAT
1 GGTCAAT
172201 GGTCAA
1 GGTCAA
172207 CGGGCCGGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
4 3 0.08
5 1 0.03
6 1 0.03
7 34 0.87
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (7 bp):
GGTCAAT
Found at i:175078 original size:27 final size:27
Alignment explanation
Indices: 175017--175080 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
175007 CCTACTCTGA
* *
175017 GATGCTCGGCATCTACTAGTCGATCCT
1 GATGCTCTGCATCTACTAGTCGATCCC
*
175044 GATACTCTGCATCTACTAGTCGATCCC
1 GATGCTCTGCATCTACTAGTCGATCCC
*
175071 GGTGCTCTGC
1 GATGCTCTGC
175081 CCTGACTACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.30
Consensus pattern (27 bp):
GATGCTCTGCATCTACTAGTCGATCCC
Found at i:175088 original size:27 final size:27
Alignment explanation
Indices: 175029--175088 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
175019 TGCTCGGCAT
* *
175029 CTACTAGTCGATCCTGATACTCTGCAT
1 CTACTAGTCGATCCCGATACTCTGCAC
* *
175056 CTACTAGTCGATCCCGGTGCTCTGC-C
1 CTACTAGTCGATCCCGATACTCTGCAC
175082 CTGACTA
1 CT-ACTA
175089 CGACTCCCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.30
Consensus pattern (27 bp):
CTACTAGTCGATCCCGATACTCTGCAC
Found at i:177984 original size:24 final size:24
Alignment explanation
Indices: 177952--177998 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
177942 GTCGGACTGG
177952 GTCGGGTCAATTCAGGTAAAACAT
1 GTCGGGTCAATTCAGGTAAAACAT
*
177976 GTCGGGTCAATTCGGGTAAAACA
1 GTCGGGTCAATTCAGGTAAAACA
177999 GGTCAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (24 bp):
GTCGGGTCAATTCAGGTAAAACAT
Found at i:182512 original size:20 final size:21
Alignment explanation
Indices: 182459--182513 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
182449 TTCATATTCC
182459 TCAATAATTCACATCACATTT
1 TCAATAATTCACATCACATTT
182480 TCAATAATTCACATCACATTT
1 TCAATAATTCACATCACATTT
182501 T-AA-AACTTCACAT
1 TCAATAA-TTCACAT
182514 TTCATCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.06
20 9 0.27
21 22 0.67
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (21 bp):
TCAATAATTCACATCACATTT
Found at i:190589 original size:68 final size:68
Alignment explanation
Indices: 190494--190804 Score: 507
Period size: 68 Copynumber: 4.6 Consensus size: 68
190484 ACGGCATAAT
* * *
190494 TGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCTCAAAGTCACTTAGCCTTTCATCT
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
190559 AAC
66 AAC
* * *
190562 CGGCATAATTGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
190627 AAC
66 AAC
*
190630 TGGCATAATTGACACC-TTCTGTCAAATGCACAGTTAGGCCTTAAAGGCACTTAGCCTTTCATCT
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
190694 AAC
66 AAC
* *
190697 TGGCATAATTGGCACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
*
190762 AGC
66 AAC
* *
190765 TGCCATAATTGACACCTTTCTGTCAAATGCATAGTTAGGC
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGC
190805 TATTTATCTT
Statistics
Matches: 224, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
67 64 0.29
68 160 0.71
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (68 bp):
TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
AAC
Found at i:190650 original size:135 final size:136
Alignment explanation
Indices: 190494--190804 Score: 525
Period size: 135 Copynumber: 2.3 Consensus size: 136
190484 ACGGCATAAT
* * *
190494 TGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCTCAAAGTCACTTAGCCTTTCATCT
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
190559 AACCGGCATAATTGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCA
66 AACCGGCATAATTGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCA
190624 TCTAAC
131 TCTAAC
*
190630 TGGCATAATTGACACC-TTCTGTCAAATGCACAGTTAGGCCTTAAAGGCACTTAGCCTTTCATCT
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
* * *
190694 AACTGGCATAATTGGCACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCA
66 AACCGGCATAATTGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCA
*
190759 TCTAGC
131 TCTAAC
* *
190765 TGCCATAATTGACACCTTTCTGTCAAATGCATAGTTAGGC
1 TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGC
190805 TATTTATCTT
Statistics
Matches: 164, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
135 126 0.77
136 38 0.23
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (136 bp):
TGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCT
AACCGGCATAATTGACACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCA
TCTAAC
Found at i:191087 original size:54 final size:55
Alignment explanation
Indices: 191026--191161 Score: 177
Period size: 55 Copynumber: 2.5 Consensus size: 55
191016 CCAAACGAAG
* ** * * *
191026 ATTCATACACTTATTAT-AGATTTCTTAG-TTGGTTCACATAGTGTCCATACGGAA
1 ATTCATACACTTAGTATGA-ATTTCTTAGTTTGGCACACAAAGTGCCCATACAGAA
* *
191080 ATTCATACACTTAGTATGAATTTTTTAGTTTTGCACACAAAGTGCCCATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAGTTTGGCACACAAAGTGCCCATACAGAA
191135 ATTCATACACTTAGTATGAATTTCTTA
1 ATTCATACACTTAGTATGAATTTCTTA
191162 ACTTTTTGCA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
54 24 0.34
55 47 0.66
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (55 bp):
ATTCATACACTTAGTATGAATTTCTTAGTTTGGCACACAAAGTGCCCATACAGAA
Found at i:196250 original size:679 final size:677
Alignment explanation
Indices: 194918--196238 Score: 1814
Period size: 679 Copynumber: 1.9 Consensus size: 677
194908 CCTTATATAC
*
194918 TCATCATACAAGCATGGAAATGATTCTACATCATCAAAATCTATCAATAAAACATGAAAATCAAA
1 TCATCATACAAGCATGGAAATGATTCTACAACATCAAAATCTATCAATAAAACATGAAAATCAAA
* * * * * *
194983 CCTCTCTTTCATCCACCCTATTTATGAAACTAAGTTTCCAAGCAATGAAATCATGAATAAATTGT
66 CCTCCCTTTCATCCACCCTATTTATGAAAATAAGATTCCAAGCAAGGAAAGCATGAATAAATGGT
* *
195048 ACCAAATGATGGAGAATTTAATGTAGATTAATTTTCTATTTCATGCTTTTATCCAAAATCCAATA
131 ACCAAATGATGGACAATTTAATGTAGATTAATTTTCTATTTCATGCTTTTATCAAAAATCCAATA
* * * * *
195113 ATTTGGCTTGAAATGAAAAATATATTATTCTTACCTTGCTTAAGGAGTTCAAGGCTTAAGCCTAA
196 ATATAGCTTGAAATGAAAAATAAATTATTCTTACCTTGCTTAAGGAGGTCAAGACTTAAGCCTAA
** * * * **
195178 AGATGAGAGAAAGTATCATGAAATTTCTAAACAAATATCTTAATACACTTGGCTTATTACTAGTT
261 AGACAAGAGAAAGTATCATGAAATTTATAAACAAATATATTAATACACTTGGCTTATAACTAAAT
*
195243 AAAATGAATACAAAATTCCTTTTAACGTATAAAGACCCTTCCACCCTTAAAAGCACATGATAATT
326 AAAATGAATACAAAATTCATTTTAACGTATAAAGACCCTTCCACCCTTAAAAGCACATGATAATT
* * * *
195308 ATCGTCCACATGTCCATTTTATTCAACCAAAAGACAAAGATGAAGAATAAATTCATGACTTCCTA
391 ACCATCCACATGTCCATTTTATTCAACCAAAAGACAAAAATGAACAATAAATTCATGACTTCCTA
* * * * * *
195373 CTTTACCCTTGAAGTTTTCCCGAAATTACATTCATGCTATCTAACTTTTACTACCGATACCTTTT
456 CTTTACCCTTGAAGGTTTCCCGAAATTACAATCATACTAGCTAACGTTTACTACCGATACCATTT
* * * *
195438 TATTCTTAGACAATTTTCATGTGCTTCTTGCACACTTTGATCTTAATTTTTGTCACGATTTATAC
521 TATTCTTAGACAATTTTCATCTGCTTATGGCACACTTTGATCTTAATTTTTGTCACGATCTATAC
* ** * * *
195503 TAGTGTCATTTATACAACATGAACATTTCAAATCATTTGTTAGTATATACTAACATAGACGTATA
586 AAGCATCATTTACACAACATGAACATTTCAAAGCATATGTTAGTATATACTAACATAGACGTATA
195568 CTAACAATAAAATTCATTAAAATTAAA
651 CTAACAATAAAATTCATTAAAATTAAA
* * * *
195595 TCATCATACAAGCATTGAAATGATTTTACAACATCAAAATCTATCCATGAAACATGAAAATCAAA
1 TCATCATACAAGCATGGAAATGATTCTACAACATCAAAATCTATCAATAAAACATGAAAATCAAA
*
195660 CCTCCCTTTCATCCACCCTATTTTTGAAAATAAGATTCCAAGCAAGGAAAGCATGAATAAATGGT
66 CCTCCCTTTCATCCACCCTATTTATGAAAATAAGATTCCAAGCAAGGAAAGCATGAATAAATGGT
* *
195725 ACCAAATGATGGACAATTTCATGTAGATTAATATTT-TGTTT-ATTGCTTTTATCAAAAATCCAA
131 ACCAAATGATGGACAATTTAATGTAGATTAAT-TTTCTATTTCA-TGCTTTTATCAAAAATCCAA
* * *
195788 GTAATATAGCTTGAAAATGAAAAATAAAATT-TTCTTACTTTGCTTGAGGAGGTCACGACTTAAG
194 -TAATATAGCTTG-AAATGAAAAAT-AAATTATTCTTACCTTGCTTAAGGAGGTCAAGACTTAAG
* * * *
195852 CTTGAAGACAAGAGAAAGTATCATGAAATTTATAAACAAATATATTGATACACTTGTCTTATAAC
256 CCTAAAGACAAGAGAAAGTATCATGAAATTTATAAACAAATATATTAATACACTTGGCTTATAAC
****
195917 TAAATAAAATGAAT-CAAAAATTCATTTTAACGTATAAAGA-CCTGT-CACCCTTAAATTTTCAT
321 TAAATAAAATGAATAC-AAAATTCATTTTAACGTATAAAGACCCT-TCCACCCTTAAAAGCACAT
* *
195979 GATAATTACCATCCACATGTCCATTTTATTCATCTAAAAGACAAAAATGAATCAATAAATTCATG
384 GATAATTACCATCCACATGTCCATTTTATTCAACCAAAAGACAAAAATGAA-CAATAAATTCATG
* * * *
196044 ACTTCCTACTTTGCCCTTTAAGGTTTCCCGAAATTACAATCTTACTAGCTAACGTTTACTATCGA
448 ACTTCCTACTTTACCCTTGAAGGTTTCCCGAAATTACAATCATACTAGCTAACGTTTACTACCGA
* * * * *
196109 TACCATTTTATTCTT-G-CACTTTTTCCTCTGCTTATGGCTCGCTTTGATCTTACTTTTTGTCAC
513 TACCATTTTATTCTTAGACA-ATTTTCATCTGCTTATGGCACACTTTGATCTTAATTTTTGTCAC
* * *
196172 GATCTATGA-AAGCATTATTTACACAACATGTACATTTCCAAGCATATGTTAGTATTATACTAAC
577 GATCTAT-ACAAGCATCATTTACACAACATGAACATTTCAAAGCATATGTTAGTA-TATACTAAC
196236 ATA
640 ATA
196239 ATCTCATACT
Statistics
Matches: 559, Mismatches: 74, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
676 1 0.00
677 173 0.31
678 155 0.28
679 226 0.40
680 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (677 bp):
TCATCATACAAGCATGGAAATGATTCTACAACATCAAAATCTATCAATAAAACATGAAAATCAAA
CCTCCCTTTCATCCACCCTATTTATGAAAATAAGATTCCAAGCAAGGAAAGCATGAATAAATGGT
ACCAAATGATGGACAATTTAATGTAGATTAATTTTCTATTTCATGCTTTTATCAAAAATCCAATA
ATATAGCTTGAAATGAAAAATAAATTATTCTTACCTTGCTTAAGGAGGTCAAGACTTAAGCCTAA
AGACAAGAGAAAGTATCATGAAATTTATAAACAAATATATTAATACACTTGGCTTATAACTAAAT
AAAATGAATACAAAATTCATTTTAACGTATAAAGACCCTTCCACCCTTAAAAGCACATGATAATT
ACCATCCACATGTCCATTTTATTCAACCAAAAGACAAAAATGAACAATAAATTCATGACTTCCTA
CTTTACCCTTGAAGGTTTCCCGAAATTACAATCATACTAGCTAACGTTTACTACCGATACCATTT
TATTCTTAGACAATTTTCATCTGCTTATGGCACACTTTGATCTTAATTTTTGTCACGATCTATAC
AAGCATCATTTACACAACATGAACATTTCAAAGCATATGTTAGTATATACTAACATAGACGTATA
CTAACAATAAAATTCATTAAAATTAAA
Found at i:200451 original size:2 final size:2
Alignment explanation
Indices: 200444--200468 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
200434 TATTGTACAT
200444 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 T
200469 CATCCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:201161 original size:59 final size:59
Alignment explanation
Indices: 200703--201134 Score: 627
Period size: 59 Copynumber: 7.4 Consensus size: 59
200693 TTAATATTAG
* * * * *
200703 TTTCTTATC-TTTTTGCACATAAAGTGTCCAATACGGAAATTCATACACTCAGTATGAA
1 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
* * *
200761 TTTCTTAACATTTTTGCACACCAAGTGCCCAATAC-GAAATTCATACAC-TACGTGTGAA
1 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTA-GTATGAA
* * * *
200819 TTTCTTAACATTTCAGCAGACATAGTGCCCAATACGGAAATTTATACACTTAGTATGAA
1 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
* * **
200878 TTTTTTAACATTTTAGCACACATAGTGCCCAATACATAAATTCATACACTTAGTATGAA
1 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
* * * *
200937 TTTCTTAACATATTACCACACAAAGTGCCCAATACGGAAATTTATACACTTAGTATAAA
1 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
200996 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
1 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
* *
201055 TTTCTTAACATTTTAGCACCCAAAGTGCCCAATATGGAAATTCATACACTTAGTATGAA
1 TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
*
201114 TTTCTTCACATTTTAGCACAC
1 TTTCTTAACATTTTAGCACAC
201135 TTAGTGCCAT
Statistics
Matches: 335, Mismatches: 35, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
57 1 0.00
58 57 0.17
59 275 0.82
60 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (59 bp):
TTTCTTAACATTTTAGCACACAAAGTGCCCAATACGGAAATTCATACACTTAGTATGAA
Found at i:201625 original size:95 final size:95
Alignment explanation
Indices: 201496--201685 Score: 290
Period size: 95 Copynumber: 2.0 Consensus size: 95
201486 CGATGCTTCT
* * * *
201496 ATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGGTTCGATGTTACCTGGTAT
1 ATACTATGGTACCAATACCCCCTTCCGGTATCGATACCAATTTTAGCTTCAATGATACCTGGTAT
201561 CGATACCCTTACCATGGTATCAATACTACC
66 CGATACCCTTACCATGGTATCAATACTACC
* ***
201591 ATACTATGGTACCAATACTCCCTTCCGGTATCGATACCAATTTTAGCTTCAATGATGTTTGGTAT
1 ATACTATGGTACCAATACCCCCTTCCGGTATCGATACCAATTTTAGCTTCAATGATACCTGGTAT
* *
201656 CGATACCCTTATCATGGTATCGATACTACC
66 CGATACCCTTACCATGGTATCAATACTACC
201686 TCATCGATAT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (95 bp):
ATACTATGGTACCAATACCCCCTTCCGGTATCGATACCAATTTTAGCTTCAATGATACCTGGTAT
CGATACCCTTACCATGGTATCAATACTACC
Found at i:210908 original size:30 final size:30
Alignment explanation
Indices: 210838--210911 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
210828 TCCTGGAGCG
* *
210838 GACCACG-CACTACTGCAGCTGATTCTGCTA
1 GACCACGAC-CTACTGCAGATGATTCTACTA
* ** *
210868 GATCGTGACCTACTGCAGATGATTCTACTT
1 GACCACGACCTACTGCAGATGATTCTACTA
210898 GACCACGACCTACT
1 GACCACGACCTACT
210912 ATAGCCTGAT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (30 bp):
GACCACGACCTACTGCAGATGATTCTACTA
Found at i:218322 original size:28 final size:28
Alignment explanation
Indices: 218273--218327 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
218263 ACCCCCATCA
* *
218273 TTTTTACTTTTTTATCTTGTTTTTATCC
1 TTTTTACTTTTTCATCTTGTTTGTATCC
218301 TTTTTACTTTTTCA-CTTAGTTTGTATC
1 TTTTTACTTTTTCATCTT-GTTTGTATC
218328 TCTTCTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.13, C:0.15, G:0.05, T:0.67
Consensus pattern (28 bp):
TTTTTACTTTTTCATCTTGTTTGTATCC
Found at i:221110 original size:23 final size:23
Alignment explanation
Indices: 221084--221139 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
221074 CTCCCAGAAT
221084 GGACCACTGCTAACTGTCCAGGG
1 GGACCACTGCTAACTGTCCAGGG
*
221107 GGACCACTGCTAGCTGTCCAGGG
1 GGACCACTGCTAACTGTCCAGGG
221130 GGACCACTGC
1 GGACCACTGC
221140 CACCTCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (23 bp):
GGACCACTGCTAACTGTCCAGGG
Found at i:226550 original size:24 final size:22
Alignment explanation
Indices: 226522--226586 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
226512 GCACATTATT
226522 TCAGTGCTAAGGCACTTCAGTGAA
1 TCAGTGCTAAGGCACTTCAGT--A
*
226546 TCAGTGTTAAGGCACTTTC-GTA
1 TCAGTGCTAAGGCAC-TTCAGTA
*
226568 -CAATGCTAAGGCACTTCAG
1 TCAGTGCTAAGGCACTTCAG
226587 ATACTAGTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 1 0.03
24 16 0.44
25 3 0.08
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (22 bp):
TCAGTGCTAAGGCACTTCAGTA
Found at i:227893 original size:464 final size:450
Alignment explanation
Indices: 227006--227920 Score: 1083
Period size: 464 Copynumber: 2.0 Consensus size: 450
226996 TAATTAATAT
*
227006 TTGTAAACACAAGTTGTATTACTTTATTTAAACTATGTATCATGGAGCTCTGATTTTTTAAATAG
1 TTGTAAACACAAGTTGTATTACTTTATTTAAACTATGTATCATGGAGCTCCGATTTTTTAAATAG
*
227071 TATTTTATTATTGTATTTGAATTGTTGGTTTTAAATGATGTACGTGGCTATTGAATTAAAAAATG
66 TATTTTATTATTGTATTTAAATTGTTGGTTTTAAATGATGTACGTGGCTATTGAATTAAAAAATG
* * *
227136 GTTAGCCACTTTAGTGGTTCTATGTAACATCCAAACTTCAAGTTAGGTCAAATTAGGGTGTTATA
131 ATTAGCCAATTTAGTGGTTCTATGTAACATCCAAACTTCAAGTCAGGTCAAATTAGGGTGTTATA
* * *
227201 TTTAGTGGTATCAGAGAGTTTTGAGTCGATTCTAGGGACCTAGTTGTTAGTTATAGTAAGGTGTC
196 TTTAATGGTATCAGAGAGTTTTAAGTCGATTCTAGAGACCTAGTTGTTAGTTATAGTAAGGTGTC
* *
227266 AATGAATACAAACCTCTAGGTACTGAAAGTACTCTTATAAGACTAGAATCCTGATGGCCCTTCCT
261 AATGAATACAAACCTCTAGGTACTGAAAATACTCTTATAAGACTAGAATACTGATGGCCCTTCCT
* * *
227331 CTTTGTATCTGTGTTTACTAATAGTATCTACATTAGAACCGACAATTATGTCTCTCATCTTAATA
326 CTTTGTATCTGTGTTTACTAATAGTATATACACTAGAACCGACAATTATGTCTCTCATCTAAATA
* * * *
227396 TTTCTAGCAACGAGGTCCTACCTAGGTTAGAGAATTGCAAGGTTCTGATGTTTGTGAGAG
391 TTTCTAACAACGAGGTCCTACCTAGGTTAGAGAATCGCAAGGTTATAATGTTTGTGAGAG
* * *
227456 TTGTAAACTCAAGTTGTATTATATTTTATTTAAACTATGTCTCATGGAGCTCCGATTTTTTAAAT
1 TTGTAAACACAAGTTGTA-T-TACTTTATTTAAACTATGTATCATGGAGCTCCGATTTTTTAAAT
* * * * *
227521 TGTATTTTATTTTTGTATTTTAAATT-TTGGTTTTAAATGATGTATGTGGCTATTGATTTAAAAT
64 AGTATTTTATTATTGTA-TTTAAATTGTTGGTTTTAAATGATGTACGTGGCTATTGAATTAAAAA
* *** * *
227585 ATGATTAGCTAA-TTATGTGGTTCCGTGTAACAT-TATATTCATCCAAACTTTGGGTCGGGTCAG
128 ATGATTAGCCAATTTA-GTGGTT-C---T---ATGTA-A--CATCCAAACTTCAAGTCAGGTCAA
* * * * *
227648 ATTATGGTTTTATATTTAATGGTATCAG-GTCGTTAGGTTAAGTCGCTTTTAGAGACAC-AGTTG
182 ATTAGGGTGTTATATTTAATGGTATCAGAG-AGTT---TTAAGTCGATTCTAGAGAC-CTAGTTG
* ** * *
227711 TTAGTTATAGTATGGTGTCAATGAATACATGCCTCTAGGTACTGAAAATTCTCTTATAAGA-TTG
242 TTAGTTATAGTAAGGTGTCAATGAATACAAACCTCTAGGTACTGAAAATACTCTTATAAGACTAG
* *** *** *
227775 TAATATTGATGGTGTTTCCTCTTTGTATCTGTGTTTACTGAA-AGTATATGTGCTAGAACCGAGA
307 -AATACTGATGGCCCTTCCTCTTTGTATCTGTGTTTACT-AATAGTATATACACTAGAACCGACA
* * * *
227839 GTTGTGT-TGCTCATCTAAATATTTCTAACAATGAGTTCCTACCTAAGG-TAGAGAATCGCAAGG
370 ATTATGTCT-CTCATCTAAATATTTCTAACAACGAGGTCCTACCT-AGGTTAGAGAATCGCAAGG
227902 TTATAATGTTTGTGAGAG
433 TTATAATGTTTGTGAGAG
227920 T
1 T
227921 CGTTAAAAAG
Statistics
Matches: 389, Mismatches: 53, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
450 17 0.04
451 4 0.01
452 106 0.27
453 8 0.02
456 1 0.00
458 2 0.01
459 3 0.01
460 1 0.00
461 46 0.12
463 3 0.01
464 192 0.49
465 6 0.02
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (450 bp):
TTGTAAACACAAGTTGTATTACTTTATTTAAACTATGTATCATGGAGCTCCGATTTTTTAAATAG
TATTTTATTATTGTATTTAAATTGTTGGTTTTAAATGATGTACGTGGCTATTGAATTAAAAAATG
ATTAGCCAATTTAGTGGTTCTATGTAACATCCAAACTTCAAGTCAGGTCAAATTAGGGTGTTATA
TTTAATGGTATCAGAGAGTTTTAAGTCGATTCTAGAGACCTAGTTGTTAGTTATAGTAAGGTGTC
AATGAATACAAACCTCTAGGTACTGAAAATACTCTTATAAGACTAGAATACTGATGGCCCTTCCT
CTTTGTATCTGTGTTTACTAATAGTATATACACTAGAACCGACAATTATGTCTCTCATCTAAATA
TTTCTAACAACGAGGTCCTACCTAGGTTAGAGAATCGCAAGGTTATAATGTTTGTGAGAG
Found at i:231710 original size:22 final size:21
Alignment explanation
Indices: 231661--231725 Score: 112
Period size: 21 Copynumber: 3.0 Consensus size: 21
231651 AATTTTTATT
231661 ATGGTTTGGAAACCACCCTAA
1 ATGGTTTGGAAACCACCCTAA
231682 ATGGTTTGGAAACCACCCTAA
1 ATGGTTTGGAAACCACCCTAA
*
231703 GATGGTTTGGAAACCCCCCTAA
1 -ATGGTTTGGAAACCACCCTAA
231725 A
1 A
231726 ATGGCCATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
21 22 0.52
22 20 0.48
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (21 bp):
ATGGTTTGGAAACCACCCTAA
Found at i:231729 original size:22 final size:22
Alignment explanation
Indices: 231661--231729 Score: 113
Period size: 22 Copynumber: 3.2 Consensus size: 22
231651 AATTTTTATT
231661 ATGGTTTGGAAACCACCCT-AA
1 ATGGTTTGGAAACCACCCTAAA
*
231682 ATGGTTTGGAAACCACCCTAAG
1 ATGGTTTGGAAACCACCCTAAA
*
231704 ATGGTTTGGAAACCCCCCTAAA
1 ATGGTTTGGAAACCACCCTAAA
231726 ATGG
1 ATGG
231730 CCATTTTGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 19 0.43
22 25 0.57
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (22 bp):
ATGGTTTGGAAACCACCCTAAA
Found at i:232516 original size:24 final size:21
Alignment explanation
Indices: 232463--232524 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
232453 TGCGTCGTAT
*
232463 AGTGCTAAATGCAATTTAGTTC
1 AGTGCTAAA-GCACTTTAGTTC
*
232485 ATTGCTAAAGCACTTTAGTGAATC
1 AGTGCTAAAGCACTTTAGT---TC
*
232509 AGTGCTAAGGCACTTT
1 AGTGCTAAAGCACTTT
232525 CGTACGGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.27
22 8 0.24
24 16 0.48
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (21 bp):
AGTGCTAAAGCACTTTAGTTC
Found at i:235078 original size:50 final size:50
Alignment explanation
Indices: 235024--235346 Score: 337
Period size: 50 Copynumber: 6.5 Consensus size: 50
235014 CGTTAACTTA
* * * * *
235024 ACTTTCTCGTGTATATGAGTCAATATTTCAGTAATATTATCCTCAACTTG
1 ACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATGTTATCCTCAACCTG
* * * * * * *
235074 ACTTTCTCATTTAGAGGTGTCAATCTTTCAATATTGTTTTTCTCAACCTG
1 ACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATGTTATCCTCAACCTG
* * *
235124 ATTTTCTCGTGTAGAGGAGTTAAT-TTT-AGTAATGTTATCCTCAACTTG
1 ACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATGTTATCCTCAACCTG
* * ** *
235172 ACTTTCACGTGTAGAGGAGCCAATCTTTTGGTAATGTTATCCTCAACCTA
1 ACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATGTTATCCTCAACCTG
* * * *
235222 ACTCTCCCATGTAGAGGAGTCAATCTTCCAGTAATGTTATCCTCAACCTG
1 ACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATGTTATCCTCAACCTG
* * * * **
235272 ATCTTT-TTGTGTAGATGAGTCAATCTTTTAGTAATGTTGTCCTCAACCCA
1 A-CTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATGTTATCCTCAACCTG
*
235322 ACTTTCTCATGTAGAGGAGTCAATC
1 ACTTTCTCGTGTAGAGGAGTCAATC
235347 AATCATATCT
Statistics
Matches: 219, Mismatches: 50, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
48 36 0.16
49 10 0.05
50 170 0.78
51 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (50 bp):
ACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATGTTATCCTCAACCTG
Found at i:235271 original size:148 final size:149
Alignment explanation
Indices: 235018--235346 Score: 383
Period size: 148 Copynumber: 2.2 Consensus size: 149
235008 TATTGTCGTT
* * * * * * *
235018 AACTTAACTTTCTCGTGTATATGAGTCAATATTTCAGTAATATTATCCTCAACTTGACTTTCTCA
1 AACTTAACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATATTATCCTCAACCTAACTCTCCCA
* * * * * * *
235083 TTTAGAGGTGTCAATCTTTCAATATTGTTTTTCTCAACCTGAT-TTTCTCGTGTAGAGGAGTTAA
66 TGTAGAGGAGTCAATCTTCCAATAATGTTATCCTCAACCTGATCTTT-TCGTGTAGAGGAGTCAA
235147 -TTTTAGTAATGTTATCCTC
130 CTTTTAGTAATGTTATCCTC
* * * ** *
235166 AACTTGACTTTCACGTGTAGAGGAGCCAATCTTTTGGTAATGTTATCCTCAACCTAACTCTCCCA
1 AACTTAACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATATTATCCTCAACCTAACTCTCCCA
* * *
235231 TGTAGAGGAGTCAATCTTCCAGTAATGTTATCCTCAACCTGATCTTTTTGTGTAGATGAGTCAAT
66 TGTAGAGGAGTCAATCTTCCAATAATGTTATCCTCAACCTGATCTTTTCGTGTAGAGGAGTCAA-
*
235296 CTTTTAGTAATGTTGTCCTC
130 CTTTTAGTAATGTTATCCTC
** *
235316 AACCCAACTTTCTCATGTAGAGGAGTCAATC
1 AACTTAACTTTCTCGTGTAGAGGAGTCAATC
235347 AATCATATCT
Statistics
Matches: 148, Mismatches: 30, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
148 102 0.69
149 3 0.02
150 43 0.29
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (149 bp):
AACTTAACTTTCTCGTGTAGAGGAGTCAATCTTTCAGTAATATTATCCTCAACCTAACTCTCCCA
TGTAGAGGAGTCAATCTTCCAATAATGTTATCCTCAACCTGATCTTTTCGTGTAGAGGAGTCAAC
TTTTAGTAATGTTATCCTC
Found at i:235913 original size:2 final size:2
Alignment explanation
Indices: 235894--235954 Score: 69
Period size: 2 Copynumber: 33.0 Consensus size: 2
235884 GTTTTCAAAA
* *
235894 AT AT AA AT AT -T A- AT AT AT AT AT AT AT AT AT AT -T AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
235933 A- AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
235955 TCATTATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
1 5 0.10
2 45 0.90
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:237046 original size:16 final size:18
Alignment explanation
Indices: 237025--237062 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
237015 CAAACAAAAT
237025 AAAAAG-AAAAATCGA-G
1 AAAAAGAAAAAATCGAGG
237041 AAAAAGAAAAAATCGAGG
1 AAAAAGAAAAAATCGAGG
237059 AAAA
1 AAAA
237063 TGGTATAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAAAGAAAAAATCGAGG
Found at i:238262 original size:3 final size:3
Alignment explanation
Indices: 238254--238284 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
238244 ATATTGGTAG
238254 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
238285 GAATGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:240795 original size:32 final size:32
Alignment explanation
Indices: 240739--240804 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
240729 ATATTAACTC
* * *
240739 GACCCGACCCGAAATCTAACCGATCTGATATT
1 GACCCGAACCAAAAACTAACCGATCTGATATT
*
240771 GACCCGAACCAAAAACTAATCGATCTGATATT
1 GACCCGAACCAAAAACTAACCGATCTGATATT
240803 GA
1 GA
240805 TCTCACCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.21
Consensus pattern (32 bp):
GACCCGAACCAAAAACTAACCGATCTGATATT
Found at i:240817 original size:32 final size:31
Alignment explanation
Indices: 240754--240831 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
240744 GACCCGAAAT
240754 CTAACCGATCTGATATTGACCCGAACCAAAAA
1 CTAACCGATCTGATATTGACCC-AACCAAAAA
* *
240786 CTAATCGATCTGATATTGATCTC-ACCGAAAAA
1 CTAACCGATCTGATATTGA-CCCAACC-AAAAA
*
240818 C-AACCGATCCGATA
1 CTAACCGATCTGATA
240832 ATCATCTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 14 0.35
32 24 0.60
33 2 0.05
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (31 bp):
CTAACCGATCTGATATTGACCCAACCAAAAA
Found at i:242440 original size:20 final size:20
Alignment explanation
Indices: 242415--242452 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
242405 TTTGGTTCAT
242415 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
242435 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
242453 GGAATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:242462 original size:16 final size:18
Alignment explanation
Indices: 242415--242465 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
242405 TTTGGTTCAT
242415 GGAATGTAAGATTACCAGTG
1 GGAA-GTAAGATTACCAG-G
242435 GGAATGTAAGATTACCA-G
1 GGAA-GTAAGATTACCAGG
242453 GGAA-TAAGATTAC
1 GGAAGTAAGATTAC
242466 TGGAAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.29
18 5 0.16
20 17 0.55
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (18 bp):
GGAAGTAAGATTACCAGG
Found at i:242679 original size:36 final size:36
Alignment explanation
Indices: 242608--242680 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
242598 GTTGAAAAAT
*
242608 ATTTATATATTTTCTTTAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
*
242644 ATTTATATAATTTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATT-AAAATCATAAA
242680 A
1 A
242681 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 24 0.73
37 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
Found at i:243382 original size:87 final size:87
Alignment explanation
Indices: 243236--243395 Score: 275
Period size: 87 Copynumber: 1.8 Consensus size: 87
243226 TATGTTATCT
* ***
243236 CATTTAACCGGAAATATTATCAAGAACAATAACATATTAGGTAGTTCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGAACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
243301 AGCGCTTACATAATAAAATAGG
66 AGCGCTTACATAATAAAATAGG
*
243323 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGAACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
243388 AGCGCTTA
66 AGCGCTTA
243396 TATTGACCTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGAACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
AGCGCTTACATAATAAAATAGG
Found at i:247744 original size:200 final size:195
Alignment explanation
Indices: 247359--248770 Score: 897
Period size: 200 Copynumber: 7.1 Consensus size: 195
247349 TTAAAAATTG
* * * * * * **
247359 TCGACACGAATTTAAAAAGTGTCGACATATTATGTTGACCTATTTTCT-ATTTACTCCGGTAAAT
1 TCGACACAAATGT-AAAAGTATCGATACATTATGTAGACCTATTTTCTCA--TAAACCGGTAAAT
* *
247423 TTCAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTGGTCTCGATGTATTTGGTG-
63 TTAAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTGGTTTCGATGT-TTTGG-GA
* * * * *
247487 TCGATAATTTTTATAAATGTATCGAAACTTTATGCGTGGACATAAG-TTGGCATTCATTATGGAC
126 TCGA-CACTTTTATAAATGTATCGACACTTT-TGCGTGCACAT-AGTTTGGAATTCATTATGGAC
*
247551 ATAAAGTA
188 AAAAAGTA
**
247559 TCGACACAAATGTACAAAGTATCGATACATTATGTAGACCTATTTGGTCATAAAACCGGTAAATT
1 TCGACACAAATGTA-AAAGTATCGATACATTATGTAGACCTATTTTCTCAT-AAACCGGTAAATT
* * *
247624 TAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTTGGTCTCGATGTTTTGGGGTCG
64 TAAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTGGTTTCGATGTTTTGGGATCG
* * * *
247689 ATACTTTTAATAAATCTATCGACACTTTAAGCGTGCACATAGTTTAGGAATTCATTATGGATAAA
129 ACACTTTT-ATAAATGTATCGACACTTT-TGCGTGCACATAGTTT-GGAATTCATTATGGACAAA
247754 AAGTA
191 AAGTA
** * *
247759 TCGACACAAATAAATAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATT
1 TCGACACAAATGTA-AAAGTATCGATACATTATGTAGACCTATTTTCTCAT-AAACCGGTAAATT
* * * *
247824 TAAACCGGTTACATTATAAAGTGACCTATTACATTATAATTATAGGTTTCGATGTATTTGGGATC
64 TAAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTGGTTTCGATGT-TTTGGGATC
* ** * * *
247889 GACACATGTTATAAATGTATCGACACTTTTTTGTGCACTTGGTTTGGAAAATAT-ATTCTGGACA
128 GACAC-TTTTATAAATGTATCGACACTTTTGCGTGCACATAGTTTGG--AAT-TCATTATGGACA
247953 AAAAGTA
189 AAAAGTA
* ** ** * * * *
247960 TCGACAC--TTGTTGGATTTATGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTATAT
1 TCGACACAAATG-TAAAAGTA--TCGATACATTATGTAGACCTATTTTCTCATAAACCGGTAAAT
* * * * * * *
248023 TTAGACTGGTTACATTGTTATTTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGAT
63 TTAAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTGGTTTCGATG-TTTTGGGAT
* * * ** * * *
248088 CGACACTTGTTATAAATGTATCGACAC-TTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGAC
127 CGACACTT-TTATAAATGTATCGACACTTTTG-CGTGCACATAG--TTTGGAATTCATTATGGAC
248152 -AAAAGTA
188 AAAAAGTA
*** *** * * * * * *
248159 TCGACACTTGTTGTATTTGTATCGATACTTTATGTATATCTGTTTTCTCATAAACCGATATATTT
1 TCGACAC-AAATGTAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAACCGGTAAATTT
* * * * *
248224 AGACCGGTTACATTGTTATTTTACCTATTACATTATAA-TTATGGTTTTCGATGTTTTTGGGATC
65 AAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTGG-TTTCGATG-TTTTGGGATC
* * * ** * * *
248288 GACACTTGTTATAAATGTATCGACAC-TTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACA
128 GACACTT-TTATAAATGTATCGACACTTTTG-CGTGCACATAG--TTTGGAATTCATTATGGACA
248352 AAAAGTA
189 AAAAGTA
* *** * **** * * * * * * * * * *
248359 TCGATACTTGTTGGATTTTTGTCGATACTTTATGTATACATGTTTTCTAAAAAATCAGTATATTT
1 TCGACAC-AAATGTAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAACCGGTAAATTT
** * * * * * * *
248424 AGGCCGGTTACATTGTTATTTTACCTATTACATTAT-ATCTATGTGTTTCGATGTTTTTAGTATC
65 AAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTG-GTTTCGATG-TTTTGGGATC
* * ** * * *
248488 GTCACTTGTTATAAATGAATCGACAC-TTTGTCGTGCAGTTGGTTTGGAAAATACATTCTGGACA
128 GACACTT-TTATAAATGTATCGACACTTTTG-CGTGCACATAGTTTGG--AATTCATTATGGACA
248552 AAAAGTA
189 AAAAGTA
*** * *** * * * * * * * * *
248559 TCGACACTTGTTGGATTTGTGTCTATACTTTATGTATACATCTTTTCTCAAAAACTGGTATATTT
1 TCGACAC-AAATGTAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAACCGGTAAATTT
** * * * * * * *
248624 AGGCCGGTTACATTGTTATTTTACCTATTACATTAT-ATCTATGTGTTTCGATGTTTTTAGTATC
65 AAACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTG-GTTTCGATG-TTTTGGGATC
* * * * *
248688 GACACTTGTTATAAATGTATCGACACTTTTTTCGTACACTTGGTTTGGAAATACATTATGGACAA
128 GACACTT-TTATAAATGTATCGACAC-TTTTGCGTGCACATAGTTTGG-AATTCATTATGGACAA
* *
248753 CATGTA
190 AAAGTA
*
248759 TCGACACGAATG
1 TCGACACAAATG
248771 AATAAAACAA
Statistics
Matches: 1059, Mismatches: 121, Indels: 65
0.85 0.10 0.05
Matches are distributed among these distances:
198 14 0.01
199 227 0.21
200 703 0.66
201 102 0.10
202 13 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (195 bp):
TCGACACAAATGTAAAAGTATCGATACATTATGTAGACCTATTTTCTCATAAACCGGTAAATTTA
AACCGGTTACATTGTAAATTGACCTATTACATTATAATTTTTGGTTTCGATGTTTTGGGATCGAC
ACTTTTATAAATGTATCGACACTTTTGCGTGCACATAGTTTGGAATTCATTATGGACAAAAAGTA
Found at i:248158 original size:400 final size:397
Alignment explanation
Indices: 247374--248765 Score: 1324
Period size: 400 Copynumber: 3.5 Consensus size: 397
247364 ACGAATTTAA
* * * * ** *
247374 AAAGTGTCGACATATTATGTTGACCTATTTTCT-ATTTACTCCGGTAAATTTCAACCGGTTACAT
1 AAAGTGTCGATACATTATGTAGACCTATTTTCTCA-TAAAACCGGTAAATTTAAACCGGTTACAT
* * * *
247438 TGTAAATTGACCTATTACATTATAATTTTTGGTCTCGATGTATTTGGTG-TCGATA-ATTTTTAT
65 TGTAAATTGACCTATTACATTATAA-TTATGGTTTCGATGTATTTGG-GATCGACACA-TGTTAT
* ** * ** * * *
247501 AAATGTATCGAAACTTTATGCGTGGACATAAG-TTGG-CATTCATTATGGACATAAAGTATCGAC
127 AAATGTATCGACACTTT-TTTGTGCAC-TTGGTTTGGAAATACATTATGGACAAAAAGTATCGAC
* *** ** * * * ** * *
247564 ACAAATGTACAAAGTA--TCGATACATTATGTAGACCTATTTGGTCATAAAACCGGTAAATTTAA
190 AC--TTGTTGGATTTATGTCGATACTTTATGTATACCTGTTTTCTCAT-AAACCGGTATATTTAG
* ** * * * * * *
247627 ACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTTGGTCTCGATG-TTTTGGGGTCGAT
252 ACCGGTTACATTGTTATTTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * * * * * *
247691 ACTT-TTAATAAATCTATCGACACTTTAAG-CGTGCACATAG--TTTAGGAATTCATTATGGATA
317 ACTTGTT-ATAAATGTATCGACACTTT--GTCGTGCACTTGGTTTTTA-AAATACATTCTGGA-C
*
247752 AAAAGTATCGACACAAATAAAT
377 AAAAGTATCGACACTAAT-AAT
*
247774 AAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATT
1 AAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATT
* *
247839 ATAAAGTGACCTATTACATTATAATTATAGGTTTCGATGTATTTGGGATCGACACATGTTATAAA
66 GTAAATTGACCTATTACATTATAATTAT-GGTTTCGATGTATTTGGGATCGACACATGTTATAAA
* *
247904 TGTATCGACACTTTTTTGTGCACTTGGTTTGGAAAATATATTCTGGACAAAAAGTATCGACACTT
130 TGTATCGACACTTTTTTGTGCACTTGGTTTGG-AAATACATTATGGACAAAAAGTATCGACACTT
*
247969 GTTGGATTTATGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACTGGTT
194 GTTGGATTTATGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGTT
248034 ACATTGTTATTTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTT
259 ACATTGTTATTTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTT
* *
248099 ATAAATGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAGTATCGAC
324 ATAAATGTATCGACACTTTGTCGTGCACTTGGTTTTTAAAATACATTCTGGACAAAAGTATCGAC
** **
248164 ACTTGTTGT
389 ACTAATAAT
** * * * * * * * *
248173 ATTTGTATCGATACTTTATGTATATCTGTTTTCTCAT-AAACCGATATATTTAGACCGGTTACAT
1 A-AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACAT
* * * * *
248237 TGTTATTTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAA
65 TGTAAATTGACCTATTACATTATAATTATGG-TTTCGATGTATTTGGGATCGACACATGTTATAA
* ** * * *
248302 ATGTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAAAGTATCGATACT
129 ATGTATCGACACTTTTTTGTGCACTTGG-TTTGGAAATACATTATGGACAAAAAGTATCGACACT
* * * * * * *
248367 TGTTGGATTTTTGTCGATACTTTATGTATACATGTTTTCTAAAAAATCAGTATATTTAGGCCGGT
193 TGTTGGATTTATGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGT
* * * *
248432 TACATTGTTATTTTACCTATTACATTAT-ATCTATGTGTTTCGATGTTTTTAGTATCGTCACTTG
258 TACATTGTTATTTTACCTATTACATTATAAT-TATGGGTTTCGATGTTTTTGGGATCGACACTTG
* * **
248496 TTATAAATGAATCGACACTTTGTCGTGCAGTTGGTTTGGAAAATACATTCTGGACAAAAAGTATC
322 TTATAAATGTATCGACACTTTGTCGTGCACTTGGTTTTTAAAATACATTCTGGAC-AAAAGTATC
** *
248561 GACACTTGTTGGAT
386 GACAC-TAAT-AAT
** * * * * * * * **
248575 -TTGTGTCTATACTTTATGTATACATCTTTTCTCA-AAAACTGGTATATTTAGGCCGGTTACATT
1 AAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATT
* * * * * * *
248638 GTTATTTTACCTATTACATTAT-ATCTATGTGTTTCGATGTTTTTAGTATCGACACTTGTTATAA
66 GTAAATTGACCTATTACATTATAAT-TATG-GTTTCGATGTATTTGGGATCGACACATGTTATAA
* * *
248702 ATGTATCGACACTTTTTTCGTACACTTGGTTTGGAAATACATTATGGACAACATGTATCGACAC
129 ATGTATCGACACTTTTTT-GTGCACTTGGTTTGGAAATACATTATGGACAAAAAGTATCGACAC
248766 GAATGAATAA
Statistics
Matches: 840, Mismatches: 127, Indels: 50
0.83 0.12 0.05
Matches are distributed among these distances:
398 6 0.01
399 322 0.38
400 399 0.47
401 106 0.13
402 7 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (397 bp):
AAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATT
GTAAATTGACCTATTACATTATAATTATGGTTTCGATGTATTTGGGATCGACACATGTTATAAAT
GTATCGACACTTTTTTGTGCACTTGGTTTGGAAATACATTATGGACAAAAAGTATCGACACTTGT
TGGATTTATGTCGATACTTTATGTATACCTGTTTTCTCATAAACCGGTATATTTAGACCGGTTAC
ATTGTTATTTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTAT
AAATGTATCGACACTTTGTCGTGCACTTGGTTTTTAAAATACATTCTGGACAAAAGTATCGACAC
TAATAAT
Found at i:248324 original size:399 final size:400
Alignment explanation
Indices: 247801--248765 Score: 1395
Period size: 399 Copynumber: 2.4 Consensus size: 400
247791 TTTAGACCTA
* * * * ** *
247801 TTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTATAAAGTGACCTATTACATTATAATTA
1 TTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTA
* *
247866 TAGG-TTTCGATGTATTTGGGATCGACACATGTTATAAATGTATCGACACTTTTTTGTGCACTTG
65 T-GGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTTGTGCACTTG
*
247930 GTTTGGAAAATATATTCTGGACAAAAAGTATCGACACTTGTTGGATTTATGTCGATACTTTATGT
129 GTTTGGAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGATTTATGTCGATACTTTATGT
* * * * *
247995 ATACCTGTTTTCTCATAAACCGGTATATTTAGACTGGTTACATTGTTATTTTACCTATTACATTA
194 ATACATGTTTTCTAAAAAACCAGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTA
* * *
248060 TAAT-TATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTG
259 T-ATCTATGGGTTTCGATGTTTTTAGGATCGACACTTGTTATAAATGAATCGACACTTTGTCGTG
** *
248124 CACTTGGTTTTTAAAATACACTCTGGAC-AAAAGTATCGACACTTGTTGTATTTGTATCGATACT
323 CACTTGGTTTGGAAAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTATCGATACT
*
248188 TTATGTATATC-TG
388 TTATGTATA-CATC
*
248201 TTTTCTCATAAACCGATATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTAT
1 TTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTAT
*
248266 GGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGT
66 GGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTTGTGCACTTGGT
** * * *
248331 TTTTAAAATACACTCTGGACAAAAAGTATCGATACTTGTTGGATTTTTGTCGATACTTTATGTAT
131 TTGGAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGATTTATGTCGATACTTTATGTAT
* *
248396 ACATGTTTTCTAAAAAATCAGTATATTTAGGCCGGTTACATTGTTATTTTACCTATTACATTATA
196 ACATGTTTTCTAAAAAACCAGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATA
* * * *
248461 TCTATGTGTTTCGATGTTTTTAGTATCGTCACTTGTTATAAATGAATCGACACTTTGTCGTGCAG
261 TCTATGGGTTTCGATGTTTTTAGGATCGACACTTGTTATAAATGAATCGACACTTTGTCGTGCAC
* * *
248526 TTGGTTTGGAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCTATACTTTA
326 TTGGTTTGGAAAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTATCGATACTTTA
248591 TGTATACATC
391 TGTATACATC
* * *
248601 TTTTCTCAAAAACTGGTATATTTAGGCCGGTTACATTGTTATTTTACCTATTACATTAT-ATCTA
1 TTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAAT-TA
* * *
248665 T-GTGTTTCGATGTTTTTAGTATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTACACTT
65 TGGT-TTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTT-GTGCACTT
* * *
248729 GGTTTGG-AAATACATTATGGACAACATGTATCGACAC
128 GGTTTGGAAAATACATTCTGGACAAAAAGTATCGACAC
248766 GAATGAATAA
Statistics
Matches: 505, Mismatches: 53, Indels: 14
0.88 0.09 0.02
Matches are distributed among these distances:
398 4 0.01
399 306 0.61
400 183 0.36
401 12 0.02
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (400 bp):
TTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTAT
GGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTTGTGCACTTGGT
TTGGAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGGATTTATGTCGATACTTTATGTAT
ACATGTTTTCTAAAAAACCAGTATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATA
TCTATGGGTTTCGATGTTTTTAGGATCGACACTTGTTATAAATGAATCGACACTTTGTCGTGCAC
TTGGTTTGGAAAATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTATCGATACTTTA
TGTATACATC
Found at i:248961 original size:12 final size:12
Alignment explanation
Indices: 248946--249008 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
248936 ATTTACATTT
*
248946 AAATTCAAACTC
1 AAATTCAAATTC
* *
248958 AAATTGAAATTG
1 AAATTCAAATTC
*
248970 AAATTTAAATTC
1 AAATTCAAATTC
* *
248982 AAACTCAAATTG
1 AAATTCAAATTC
*
248994 AAATTTAAATTC
1 AAATTCAAATTC
249006 AAA
1 AAA
249009 CTCTAATTAT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:248961 original size:24 final size:24
Alignment explanation
Indices: 248942--249022 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
248932 CGAAATTTAC
* * * *
248942 ATTTAAATTCAAACTCAAATTGAA
1 ATTTAAATTTAAATTCAAACTCAA
*
248966 ATTGAAATTTAAATTCAAACTCAA
1 ATTTAAATTTAAATTCAAACTCAA
* *
248990 ATTGAAATTTAAATTCAAACTCTA
1 ATTTAAATTTAAATTCAAACTCAA
249014 ATTATAAAT
1 ATT-TAAAT
249023 GAAATGAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 45 0.92
25 4 0.08
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (24 bp):
ATTTAAATTTAAATTCAAACTCAA
Found at i:248976 original size:30 final size:30
Alignment explanation
Indices: 248933--249004 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
248923 TAGTAGAGCC
*
248933 GAAATTTACATTTAAATTCAAACTCAAATT
1 GAAATTTAAATTTAAATTCAAACTCAAATT
*
248963 GAAATTGAAATTTAAATTCAAACTCAAATT
1 GAAATTTAAATTTAAATTCAAACTCAAATT
248993 GAAATTTAAATT
1 GAAATTTAAATT
249005 CAAACTCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (30 bp):
GAAATTTAAATTTAAATTCAAACTCAAATT
Found at i:250375 original size:12 final size:12
Alignment explanation
Indices: 250358--250392 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
250348 ACTTGTTTGG
*
250358 ATCATCATCATC
1 ATCATCTTCATC
250370 ATCATCTTCATC
1 ATCATCTTCATC
*
250382 GTCATCTTCAT
1 ATCATCTTCAT
250393 TGACCGCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.03, T:0.40
Consensus pattern (12 bp):
ATCATCTTCATC
Found at i:251568 original size:15 final size:15
Alignment explanation
Indices: 251528--251582 Score: 74
Period size: 15 Copynumber: 3.5 Consensus size: 15
251518 GGGCGATTGT
251528 TTGAGAATGAGGTTGCGG
1 TTGAGAA-GAGG-TG-GG
251546 TTGAGAAGAGGTGGG
1 TTGAGAAGAGGTGGG
*
251561 TTGGGAAGAGGTGGG
1 TTGAGAAGAGGTGGG
251576 TTGAGAA
1 TTGAGAA
251583 TAGATTTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
15 22 0.63
16 2 0.06
17 4 0.11
18 7 0.20
ACGTcount: A:0.25, C:0.02, G:0.49, T:0.24
Consensus pattern (15 bp):
TTGAGAAGAGGTGGG
Found at i:252700 original size:198 final size:199
Alignment explanation
Indices: 251939--253223 Score: 1911
Period size: 198 Copynumber: 6.5 Consensus size: 199
251929 TTAAATCGGA
* ** * * * * * *
251939 ATATTTATACCGGTTACATTGCAAAATGACCTATTACATTAAAATTTTGGGTTTCGATGTTCTTA
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* ** ** *
252004 GGATCTATACTTGTTATAAATGTATTAACACTTTTTCCTGCACTTGATTTTTA-AAATACACTT-
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTG--GTTTAGAAATACA-TTC
* * ** * * *
252067 TGGACAAAAAGTATCGACACTTATTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATA
128 TGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAA
**
252132 AACCATT
193 AACCGGT
*
252139 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCAATGTTTTTG
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * **
252204 GGATCGACACTTGTTATAAATGTATCGGCACTTTTCCGTGCACTTGGTTTAGAAATACATTCTGG
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTCTGG
* * *
252269 ACCAAAAGTATTGACACTTGTTTTATTTGTGTCGATACATTTTGTAGACCTGTTTTCTCAAAAAC
131 ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
*
252334 CGTT
196 CGGT
* * *
252338 ATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATAGGTTTCAATGTTTTT-
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* *
252402 GGATCGATACTTGTTATAAATCTATCGACACTTTTT-GTGCACTTAGTTTAGAAATACATTCTGG
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTCTGG
* *
252466 ACCAAAAGTATTGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
131 ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
252531 CGGT
196 CGGT
* *
252535 ATATTTAGACCGGTTACATTGTTAATTTACCTATTATATTATAATTATGGGTTCCGATGTTTTTG
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* *
252600 GGATCGATACTTGTTATAAATGTATCGACA-TTTTTTGTGCACTTGGTTTAGAAATACATTTTGG
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTCTGG
252664 ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
131 ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
*
252729 CAGT
196 CGGT
* *
252733 ATATTTAGACCAGTTACATTGTTAATTTACATATTACATTATAATTATGGGTTTCGATGTTTTTG
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* *
252798 GGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT-TGG
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTCTGG
* * * * *
252862 ACCAAAAGTATCGATACTTGTTTTATTTGTGTCAATATTTTTTGCACACATGTTTTCTCAAAAAC
131 ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
252927 CGGT
196 CGGT
* * * *
252931 ATATTTAGACCAGTTACATTGTTAATTTA-ATATTACATAATAATTATGGGTTTCGATATTTTTG
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* *
252995 GGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCT-G
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTCTGG
* * *
253059 ACCAAAAGTATCGACACTTTTTTTATTTGTGTCGATATTTTTTGTACAACTGTTTTCTCAAAAAC
131 ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
253124 CGGT
196 CGGT
*
253128 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTTGATGTTTTTG
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
253193 GGATCGATACTTGTTATAAATGTATCGACAC
66 GGATCGATACTTGTTATAAATGTATCGACAC
253224 ATAAGTTTAT
Statistics
Matches: 1001, Mismatches: 77, Indels: 16
0.91 0.07 0.01
Matches are distributed among these distances:
197 342 0.34
198 406 0.41
199 159 0.16
200 94 0.09
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (199 bp):
ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTCTGG
ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
CGGT
Found at i:252795 original size:395 final size:396
Alignment explanation
Indices: 251939--253223 Score: 1925
Period size: 395 Copynumber: 3.2 Consensus size: 396
251929 TTAAATCGGA
* ** * * * * * *
251939 ATATTTATACCGGTTACATTGCAAAATGACCTATTACATTAAAATTTTGGGTTTCGATGTTCTTA
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* ** ** *
252004 GGATCTATACTTGTTATAAATGTATTAACACTTTTTCCTGCACTTGATTTTTA-AAATACACTTT
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTT-A-GTTTAGAAATACA-TTT
* ** * * *
252068 GGACAAAAAGTATCGACACTTATTGGATTTGTGTCGATACTTTATGTATACCTGTTTTCTCATAA
128 GGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAA
** *
252133 ACCATTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCAATG
193 ACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATG
* **
252198 TTTTTGGGATCGACACTTGTTATAAATGTATCGGCACTTTTCCGTGCACTTGGTTTAGAAATACA
258 TTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACA
* * *
252263 TTCTGGACCAAAAGTATTGACACTTGTTTTATTTGTGTCGATACATTTTGTAGACCTGTTTTCTC
323 TTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTC
252328 AAAAACCGTT
388 AAAAACCG-T
* * *
252338 ATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATAGGTTTCAATGTTTTT-
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
*
252402 GGATCGATACTTGTTATAAATCTATCGACACTTTTT-GTGCACTTAGTTTAGAAATACATTCTGG
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTAGTTTAGAAATACATT-TGG
*
252466 ACCAAAAGTATTGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
130 ACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAC
* *
252531 CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTATATTATAATTATGGGTTCCGATGTT
195 CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
* *
252596 TTTGGGATCGATACTTGTTATAAATGTATCGACA-TTTTTTGTGCACTTGGTTTAGAAATACATT
260 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATT
*
252660 TTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
325 CTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
252725 AAACCAGT
390 AAACC-GT
* *
252733 ATATTTAGACCAGTTACATTGTTAATTTACATATTACATTATAATTATGGGTTTCGATGTTTTTG
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * *
252798 GGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTTGGA
66 GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTAGTTTAGAAATACATTTGGA
* * * * * *
252863 CCAAAAGTATCGATACTTGTTTTATTTGTGTCAATATTTTTTGCACACATGTTTTCTCAAAAACC
131 CCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACC
* * * *
252928 GGTATATTTAGACCAGTTACATTGTTAATTTA-ATATTACATAATAATTATGGGTTTCGATATTT
196 GGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
*
252992 TTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTC
261 TTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTC
* * *
253057 T-GACCAAAAGTATCGACACTTTTTTTATTTGTGTCGATATTTTTTGTACAACTGTTTTCTCAAA
326 TGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAA
253121 AACCGGT
391 AACC-GT
*
253128 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTTGATGTTTTTG
1 ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
253193 GGATCGATACTTGTTATAAATGTATCGACAC
66 GGATCGATACTTGTTATAAATGTATCGACAC
253224 ATAAGTTTAT
Statistics
Matches: 811, Mismatches: 69, Indels: 16
0.91 0.08 0.02
Matches are distributed among these distances:
395 377 0.46
396 318 0.39
397 29 0.04
398 32 0.04
399 55 0.07
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (396 bp):
ATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
GGATCGATACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTAGTTTAGAAATACATTTGGA
CCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACC
GGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
TTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTAGAAATACATTC
TGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAA
AACCGT
Found at i:254961 original size:18 final size:18
Alignment explanation
Indices: 254925--254963 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
254915 TTCTCCTCAT
* *
254925 TTCCTCAATCTTTTCTTC
1 TTCCTCAATCTTCTATTC
*
254943 TTCCTCCATCTTCTATTC
1 TTCCTCAATCTTCTATTC
254961 TTC
1 TTC
254964 AAATTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCAATCTTCTATTC
Found at i:256998 original size:18 final size:18
Alignment explanation
Indices: 256942--257008 Score: 107
Period size: 19 Copynumber: 3.6 Consensus size: 18
256932 CATTTATACA
*
256942 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTT-T
256961 ACCTATAATATCATTTTTT
1 ACCTATAATATCA-TTTTT
256980 ACCTATAATATCATTTTT
1 ACCTATAATATCATTTTT
256998 ACCTATAATAT
1 ACCTATAATAT
257009 TAAATAAAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
18 16 0.35
19 26 0.57
20 4 0.09
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (18 bp):
ACCTATAATATCATTTTT
Found at i:257751 original size:182 final size:181
Alignment explanation
Indices: 257439--259007 Score: 2125
Period size: 182 Copynumber: 8.6 Consensus size: 181
257429 TACGCGTACT
* * * ** *
257439 TATTAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCAGTTTTGT-ATTTTGAGACTG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGACT-
* *
257503 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCAACACT
65 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACT
* *
257568 TTATAGGCGTTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
257620 TATTAAATTATCGACACTTTCAACATAT-CGGTATCTTTTTACCGGTTTTGTCATTTTTGAGACA
1 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCA-TTTTGAGAC-
** * * * *
257684 TGTTTTGTCATATTTTTATATGTTATATTATTATGTATCGATATATTTTTTAAAAGTATTGACAC
64 TGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
** * *
257749 TTTATAGAAGCTATAACTTCTTCTCTTTTAAACTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * ** * * *
257802 TATTAAAGTATCGACACTTTCAACATATCCGATAGCGCTTTACCGATTTTGTTATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGA-CT
* * * ** *
257867 GTTTTGTCATATTTTTAGCTGTTATATTGTTATGGAGCGATACA-TTTTCATAAAGTGCCGATAC
65 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTA-AAAGTATCGACAC
* * *
257931 TTTTTAGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
257984 TATTAAATTATCGACACTTTCAACATAT-CGATATCTTTTTACCGGTTTTATCATTTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCA-TTTTGAGA-C
* *
258048 T-TTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
64 TGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
* *
258112 TTTATAGGCTCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCAATACTTA
129 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * *
258165 TATAAAAGTATCGACACTTTCAACATATCTGGTAGT-TATTTACCTGTTTTGTCATTTTGAGACT
1 TATTAAAGTATCGACACTTTCAACATATCCGGTA-TCTTTTTACCGGTTTTGTCATTTTGAGACT
** * *
258229 GATTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAA-TGTCGACA
65 G-TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAAGTATCGACA
* * *
258293 CTTTTTAGGCACTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATATTTA
128 CTTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* ** *
258347 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGACTG
* * * * *
258412 ATTTTGTAATATTTTTAGCTGTTATATTGTTATGGAGCGATACA-TTTTCATAAAGTGTCGACAC
66 -TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTA-AAAGTATCGACAC
* *
258476 TTTTTAGGCGTTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
258529 TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTGAGACA
1 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCA-TTTTGAGAC-
*
258594 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
64 TGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
258659 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* **
258712 TATTAAAGTATCGACACTTTCAACATATCCGGTAAT-TATTTACATGTTTTGTCATTTTGAGACT
1 TATTAAAGTATCGACACTTTCAACATATCCGGT-ATCTTTTTACCGGTTTTGTCATTTTGAGACT
* * *
258776 GGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACA-TTTTCATAAAGTGTCGACA
65 -GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTA-AAAGTATCGACA
* * *
258840 CTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
128 CTTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * *
258894 TATTAAA-TCATCGACACTTTTAACATATCCGGTAACTTTTTACCGGTTTTGTCATTTCGAGACC
1 TATTAAAGT-ATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGACT
* * *
258958 GATTTTGTCATATTTTTACCTGTAATATTGCTATGGAGCGATACATTTTT
65 G-TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
259008 CATTTGTATC
Statistics
Matches: 1232, Mismatches: 130, Indels: 50
0.87 0.09 0.04
Matches are distributed among these distances:
180 21 0.02
181 197 0.16
182 818 0.66
183 188 0.15
184 8 0.01
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (181 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGACTG
TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACTT
TATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:259022 original size:547 final size:546
Alignment explanation
Indices: 257439--259006 Score: 2470
Period size: 545 Copynumber: 2.9 Consensus size: 546
257429 TACGCGTACT
* * * * * ** *
257439 TATTAAAGTATCGACACTTTCAACATAACTGGTAGCGCTTTACCAGTTTTGT-A-TTTTGAGACT
1 TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTGAGACT
*
257502 GGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCAACAC
66 -GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
* * *
257567 TTTATAGGCGTTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATC
130 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
* *
257632 GACACTTTCAACATAT-CGGT-ATCTTTTTACCGGTTTTGTCATTTTTGAGACAT-GTTTTGTCA
195 GACACTTTCAACATATCCGGTAAT-TATTTACCTGTTTTGTCA-TTTTGAGAC-TGGTTTTGTCA
* * * * * * * * **
257694 TATTTTTATATGTTATATTATTATGTATCGATATATTTT-TTAAAAGTATTGACACTTTATAGAA
257 TATTTTTAGATGTTATATTGTTATGGATCGATACATTTTCAT-AAAGTGTCGACACTTTTTAGGC
*
257758 GCTATAACTTCTTCTCTTTTAAACTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTC
321 GCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTC
* * * *
257823 AACATATCCGATAGCGCTTTACCGATTTTGTTATTTTGAGACCGGTTTTGTCATATTTTTAGCTG
386 AACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCATATTTTTAGCTG
* * *
257888 TTATATTGTTATGGAGCGATACATTTTCATAAAGTGCCGATACTTTTTAGACGCTATAACTTCTT
451 TTATATTGTTATGGAGCGATACATTTTCATAAAGTGTCGACACTTTTTAGACGCTATAACTTATT
257953 CTCTTTTAAATTCCAAAAGTGTCGATACTTA
516 CTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
257984 TATTAAATTATCGACACTTTCAACATAT-CGATATCTTTTTACCGGTTTTATCATTTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTGAGA-C
*
258048 T-TTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
65 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
* * *
258112 TTTATAGGCTCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCAATACTTATATAAAAGTATC
130 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
* * *
258177 GACACTTTCAACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAGACTGATTTTGTCATAT
195 GACACTTTCAACATATCCGGTAATTATTTACCTGTTTTGTCATTTTGAGACTGGTTTTGTCATAT
* * *
258242 TTTTAGTTGTTATATTGTTATGGATCGATACATTTTCATAAAATGTCGACACTTTTTAGGCACTA
260 TTTTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTA
* *
258307 TAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATATTTATATTAAAGTATCGACACTTTCAACA
325 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACA
*
258372 TATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTAATATTTTTAGCTGTTAT
390 TATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCATATTTTTAGCTGTTAT
* *
258437 ATTGTTATGGAGCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGTTATAACTTATTCTCT
455 ATTGTTATGGAGCGATACATTTTCATAAAGTGTCGACACTTTTTAGACGCTATAACTTATTCTCT
258502 TTTAAATTCCAAAAGTGTCGATACTTA
520 TTTAAATTCCAAAAGTGTCGATACTTA
258529 TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTGAGACA
1 TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTGAGAC-
258594 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
65 TGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
258659 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
130 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
*
258724 GACACTTTCAACATATCCGGTAATTATTTACATGTTTTGTCATTTTGAGACTGGTTTTGTCATAT
195 GACACTTTCAACATATCCGGTAATTATTTACCTGTTTTGTCATTTTGAGACTGGTTTTGTCATAT
*
258789 TTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTA
260 TTTTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTA
* *
258854 TAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAAA-TCATCGACACTTTTAAC
325 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGT-ATCGACACTTTCAAC
* ** * * *
258918 ATATCCGGTAACTTTTTACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTAA
389 ATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCATATTTTTAGCTGTTA
*
258983 TATTGCTATGGAGCGATACATTTT
454 TATTGTTATGGAGCGATACATTTT
259007 TCATTTGTAT
Statistics
Matches: 940, Mismatches: 72, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
544 17 0.02
545 471 0.50
546 63 0.07
547 389 0.41
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (546 bp):
TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTGAGACT
GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACT
TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGGTAATTATTTACCTGTTTTGTCATTTTGAGACTGGTTTTGTCATATT
TTTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTAT
AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAACAT
ATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCATATTTTTAGCTGTTATA
TTGTTATGGAGCGATACATTTTCATAAAGTGTCGACACTTTTTAGACGCTATAACTTATTCTCTT
TTAAATTCCAAAAGTGTCGATACTTA
Found at i:269361 original size:19 final size:19
Alignment explanation
Indices: 269337--269373 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
269327 TTAACCTATA
269337 TGTAGAAAACAGACTGTAT
1 TGTAGAAAACAGACTGTAT
*
269356 TGTAGAAAACAGGCTGTA
1 TGTAGAAAACAGACTGTA
269374 GGAAACAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
TGTAGAAAACAGACTGTAT
Found at i:271339 original size:36 final size:36
Alignment explanation
Indices: 271291--271362 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
271281 TACCTTCTGT
*
271291 TTTCAGATGCAACAGGATCCAAATCTGGTTATTGGC
1 TTTCAGAGGCAACAGGATCCAAATCTGGTTATTGGC
* *
271327 TTTCAGAGGCAACAGGATCCGAATCTGGTTCTTGGC
1 TTTCAGAGGCAACAGGATCCAAATCTGGTTATTGGC
271363 GAATGCTAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (36 bp):
TTTCAGAGGCAACAGGATCCAAATCTGGTTATTGGC
Found at i:273445 original size:18 final size:19
Alignment explanation
Indices: 273422--273474 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
273412 GATACCATGT
273422 AGAAAACATACTGTAGA-A
1 AGAAAACATACTGTAGATA
* *
273440 AGAAAACATACTGTATATT
1 AGAAAACATACTGTAGATA
*
273459 AGAAAACAGACTGTAG
1 AGAAAACATACTGTAG
273475 GAAACAGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (19 bp):
AGAAAACATACTGTAGATA
Found at i:274522 original size:103 final size:103
Alignment explanation
Indices: 274339--274550 Score: 370
Period size: 103 Copynumber: 2.1 Consensus size: 103
274329 ATTTAACGAA
* *
274339 AATAGGTGTTATCTATAATTTACTCTAAGGTGATATGAATATATGTTACATAGACCAAAGAGTAA
1 AATAGGTGTTATCTACAATTTACTCTAAGGTGACATGAATATATGTTACATAGACCAAAGAGTAA
*
274404 GTTTCAGGTACAACCATGCGTCGACATGGGTTGTAGAT
66 GTTTCAGGTAAAACCATGCGTCGACATGGGTTGTAGAT
* * *
274442 AATAGGTGTTCTCTACAATTTACTCTAAGGTGACATGAATCTATGTTACATAGACCCAAGAGTAA
1 AATAGGTGTTATCTACAATTTACTCTAAGGTGACATGAATATATGTTACATAGACCAAAGAGTAA
274507 GTTTCAGGTAAAACCATGCGTCGACATGGGTTGTAGAT
66 GTTTCAGGTAAAACCATGCGTCGACATGGGTTGTAGAT
274545 AATAGG
1 AATAGG
274551 AATATTGACA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (103 bp):
AATAGGTGTTATCTACAATTTACTCTAAGGTGACATGAATATATGTTACATAGACCAAAGAGTAA
GTTTCAGGTAAAACCATGCGTCGACATGGGTTGTAGAT
Found at i:282347 original size:12 final size:12
Alignment explanation
Indices: 282330--282359 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
282320 CTCGATTCTT
*
282330 TTTTTTTTCTGG
1 TTTTTTTTATGG
282342 TTTTTTTTATGG
1 TTTTTTTTATGG
282354 TTTTTT
1 TTTTTT
282360 CTTTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.80
Consensus pattern (12 bp):
TTTTTTTTATGG
Found at i:283302 original size:136 final size:137
Alignment explanation
Indices: 282981--283523 Score: 648
Period size: 136 Copynumber: 4.0 Consensus size: 137
282971 GTAAATTTGA
* * * *
282981 AGATAACATGGTTCCTACGTGATGAGGAAATCTGGTTATGTAAGGGTGACGCTGCTCCTACGTGA
1 AGATAACACGGTTCCTACGTGATGAGGAAATCTGGCTATCTAAGGGTGACGCGGCTCCTACGTGA
* * * * * *
283046 TGA-AGAGATCTGGTCGGTGGATGACACGGTTTCTACGTGATGAGGAAAGTTGTCCATCTTTAGG
66 TGAGGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGACGAGG-ATGCTGACCATCTTTAGG
283110 GATAATTG
130 GATAATTG
* * * ** * *
283118 AGATAACACAGTTCCTACGTGATGAGGAAGTTTGGCTATCTAAGGGTGACGTAGATCGTACGTGA
1 AGATAACACGGTTCCTACGTGATGAGGAAATCTGGCTATCTAAGGGTGACGCGGCTCCTACGTGA
283183 TG-GGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGACGAGGATGCT-AGCCATCTTTAGG
66 TGAGGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGACGAGGATGCTGA-CCATCTTTAGG
283246 GATAATTG
130 GATAATTG
* * * * *
283254 AGATAACACGGTTCGTACGTGACGAGGAAGTATGGCTATCTAAGGGTGAGGCGGCTCCTACGTGA
1 AGATAACACGGTTCCTACGTGATGAGGAAATCTGGCTATCTAAGGGTGACGCGGCTCCTACGTGA
** * * * *
283319 TGAGGGAGATCTGGTCGGTGGATGACACAATTCCTATGTTATGAGGATGGCTGGCCATCTTTAGG
66 TGAGGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGACGAGGAT-GCTGACCATCTTTAGG
*
283384 G--AATAG
130 GATAATTG
* * * * * *
283390 AGATAACATGGTTCTTACGCGATGAGGAAATCTTGCTATCTAAGAGTGATGCGGCTCCTACGTGA
1 AGATAACACGGTTCCTACGTGATGAGGAAATCTGGCTATCTAAGGGTGACGCGGCTCCTACGTGA
* ** * *
283455 TGAGGG-GATCCGGTCGGTAAATGACACGTTTCCTACGTGACGAGGACGGCTGACCATCTTTAGG
66 TGAGGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGACGAGGA-TGCTGACCATCTTTAGG
283519 GATAA
130 GATAA
283524 ATTTGTTTCA
Statistics
Matches: 347, Mismatches: 51, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
135 48 0.14
136 146 0.42
137 138 0.40
138 15 0.04
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (137 bp):
AGATAACACGGTTCCTACGTGATGAGGAAATCTGGCTATCTAAGGGTGACGCGGCTCCTACGTGA
TGAGGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGACGAGGATGCTGACCATCTTTAGGG
ATAATTG
Found at i:283585 original size:36 final size:34
Alignment explanation
Indices: 283545--283650 Score: 78
Period size: 36 Copynumber: 3.1 Consensus size: 34
283535 GCAAAACTGC
283545 CTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAT
1 CTCAAGAGAGAC-AAA-TTGTTTCAAGGGAAACAAT
** * * **
283581 CTCAA-AG-G--TTA-GGTTTCAAGAGAAACTGT
1 CTCAAGAGAGACAAATTGTTTCAAGGGAAACAAT
*
283610 CTCAAGAGAGACGAAATTTGTTTCAAGGGAAATAAT
1 CTCAAGAGAGAC-AAA-TTGTTTCAAGGGAAACAAT
283646 CTCAA
1 CTCAA
283651 AGGTTTTATG
Statistics
Matches: 50, Mismatches: 13, Indels: 14
0.65 0.17 0.18
Matches are distributed among these distances:
29 19 0.38
30 2 0.04
31 2 0.04
34 2 0.04
35 2 0.04
36 23 0.46
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (34 bp):
CTCAAGAGAGACAAATTGTTTCAAGGGAAACAAT
Found at i:283726 original size:67 final size:67
Alignment explanation
Indices: 283527--283726 Score: 268
Period size: 65 Copynumber: 3.0 Consensus size: 67
283517 GGGATAAATT
* *
283527 TGTTTCAAGCA-AAACTGCCTCAAGAGAGACAAAAC-TTGTTTCAAGGGAAACAATCTCAAAGG-
1 TGTTTCAAG-AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAATAATCTCAAAGGT
283589 TTA
65 TTA
* *
283592 GGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTTGTTTCAAGGGAAATAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAATAATCTCAAAGG-T
283656 TTA
65 TTA
* *
283659 TGTTTCAAGAGAAACTGTCTCAA-ACGAGACAAAACTTTGTTTCGAGAGAAATAATCT-AAACGG
1 TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAACTTTGTTTCAAGGGAAATAATCTCAAA-GG
283722 TTTA
64 TTTA
283726 T
1 T
283727 CAATTTTGTT
Statistics
Matches: 120, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
64 1 0.01
65 55 0.46
66 1 0.01
67 41 0.34
68 22 0.18
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAATAATCTCAAAGGTT
TA
Found at i:288454 original size:16 final size:15
Alignment explanation
Indices: 288427--288458 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
288417 TTAGATAAAG
288427 AAATACAATGGAAAT
1 AAATACAATGGAAAT
288442 AAATACGAATGGAAAT
1 AAATAC-AATGGAAAT
288458 A
1 A
288459 TGTGAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (15 bp):
AAATACAATGGAAAT
Found at i:290477 original size:18 final size:18
Alignment explanation
Indices: 290451--290488 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
290441 ATTAATGAAG
290451 TAACGTTATTCAATAAAC
1 TAACGTTATTCAATAAAC
* *
290469 TAACTTTATTCAATGAAC
1 TAACGTTATTCAATAAAC
290487 TA
1 TA
290489 GATACATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (18 bp):
TAACGTTATTCAATAAAC
Found at i:291820 original size:12 final size:12
Alignment explanation
Indices: 291803--291830 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
291793 CCTTTTCTAG
291803 TTGTCCTTGCAA
1 TTGTCCTTGCAA
291815 TTGTCCTTGCAA
1 TTGTCCTTGCAA
291827 TTGT
1 TTGT
291831 GTTTCTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (12 bp):
TTGTCCTTGCAA
Found at i:294204 original size:18 final size:18
Alignment explanation
Indices: 294181--294225 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
294171 TAGTTTGATT
294181 AATGAACTAACATTATTA
1 AATGAACTAACATTATTA
* *
294199 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTA
294217 AATGAACTA
1 AATGAACTA
294226 GATACATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTA
Found at i:295190 original size:17 final size:17
Alignment explanation
Indices: 295149--295202 Score: 72
Period size: 17 Copynumber: 3.0 Consensus size: 17
295139 CTCTCTCTTT
*
295149 TCCCAAATCTCTCTCTACC
1 TCCCAAATC-CTCT-TCCC
295168 TCCCCAAATCCTCTTCCC
1 T-CCCAAATCCTCTTCCC
295186 TCCCAAATCCTCTTCCC
1 TCCCAAATCCTCTTCCC
295203 CTTTTCCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.30
Consensus pattern (17 bp):
TCCCAAATCCTCTTCCC
Found at i:295721 original size:3 final size:3
Alignment explanation
Indices: 295708--295759 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
295698 CTGTAAAATT
*
295708 TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
295756 TAA T
1 TAA T
295760 TGAGAACTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:296344 original size:19 final size:20
Alignment explanation
Indices: 296308--296356 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
296298 TTACATAAAA
*
296308 TAAATAAATATTTTATTTAT
1 TAAATAAATATATTATTTAT
296328 TAAATAAA-ATATTATTTAT
1 TAAATAAATATATTATTTAT
*
296347 T-GATAAATAT
1 TAAATAAATAT
296357 TGGGTTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 13 0.50
20 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAATAAATATATTATTTAT
Found at i:296456 original size:30 final size:31
Alignment explanation
Indices: 296408--296485 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
296398 ACTTTTCCTC
**
296408 AATTAAGAAATTGATCAC-TTTCTTTTTATTT
1 AATTAAGATGTTG-TCACTTTTCTTTTTATTT
*
296439 AATTAAGATGTTGTCACTTTTGTTTTTATTT
1 AATTAAGATGTTGTCACTTTTCTTTTTATTT
* *
296470 AGTTAAGATGTGGTCA
1 AATTAAGATGTTGTCA
296486 TTGAAGGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 4 0.10
31 37 0.90
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (31 bp):
AATTAAGATGTTGTCACTTTTCTTTTTATTT
Found at i:297508 original size:37 final size:37
Alignment explanation
Indices: 297412--297508 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 37
297402 AACCCGATCC
* * * *
297412 AAAAAATATGTATCCTCCATTCGAATCTGATTTGACCT
1 AAAAAATATATATCCTCCA-CCCAATCTGATCTGACCT
* * * *
297450 AGAAATTATATATCTTTCACCCAA-CATGATCTGACCT
1 AAAAAATATATATCCTCCACCCAATC-TGATCTGACCT
297487 AAAAAATATATATCCTCCACCC
1 AAAAAATATATATCCTCCACCC
297509 GACTCCGACT
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
36 1 0.02
37 31 0.67
38 14 0.30
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (37 bp):
AAAAAATATATATCCTCCACCCAATCTGATCTGACCT
Found at i:300221 original size:30 final size:32
Alignment explanation
Indices: 300187--300249 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
300177 ACAAGTAAAT
*
300187 GAAAGGTTAGAAGTTAG-TAA-TTAGCGGTTA
1 GAAAGGTTAGAAGTTAGAAAAGTTAGCGGTTA
**
300217 GAAAGGTTAGCTGTTAGAAAAGTTAGCGGTTA
1 GAAAGGTTAGAAGTTAGAAAAGTTAGCGGTTA
300249 G
1 G
300250 CTGTTAGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.54
31 2 0.07
32 11 0.39
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.29
Consensus pattern (32 bp):
GAAAGGTTAGAAGTTAGAAAAGTTAGCGGTTA
Found at i:300232 original size:16 final size:16
Alignment explanation
Indices: 300207--300249 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
300197 AAGTTAGTAA
*
300207 TTAGCGGTTAGAAAGG
1 TTAGCGGTTAGAAAAG
*
300223 TTAGCTGTTAGAAAAG
1 TTAGCGGTTAGAAAAG
300239 TTAGCGGTTAG
1 TTAGCGGTTAG
300250 CTGTTAGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (16 bp):
TTAGCGGTTAGAAAAG
Found at i:300510 original size:28 final size:28
Alignment explanation
Indices: 300479--300533 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
300469 ATTGTTAGAG
*
300479 TGCAATAAAATCAAAGTTAATGGTTAAA
1 TGCAATAAAATCAAAGTTAATAGTTAAA
*
300507 TGCAATAAAATGAAAGTTAATAGTTAA
1 TGCAATAAAATCAAAGTTAATAGTTAA
300534 CTTGAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (28 bp):
TGCAATAAAATCAAAGTTAATAGTTAAA
Found at i:300545 original size:28 final size:28
Alignment explanation
Indices: 300482--300544 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
300472 GTTAGAGTGC
* *
300482 AATAAAATCAAAGTTAATGGTTAAATGC
1 AATAAAATCAAAGTTAATAGTTAAATGA
* *
300510 AATAAAATGAAAGTTAATAGTTAACTTGA
1 AATAAAATCAAAGTTAATAGTTAA-ATGA
300539 AATAAA
1 AATAAA
300545 TAACATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.29
Consensus pattern (28 bp):
AATAAAATCAAAGTTAATAGTTAAATGA
Found at i:302604 original size:101 final size:102
Alignment explanation
Indices: 302346--302620 Score: 272
Period size: 101 Copynumber: 2.7 Consensus size: 102
302336 CCAAATGTTT
* * * * * *
302346 CAAATTTTGCGTTTTAAGGGAAAAATATCTCAAGCAAGATGAAATATGTTTTTAAGAAAAACAAT
1 CAAATTTTCCATTTTAAGGGAAAAATATCTCAAGCGAGAT-AAATTTG-TTTTGAGGAAAACAAT
* ** * *
302411 CTCAAATGTTATCAATATTGTTTTAAGTGAAACAATTTC
64 CTCAAGTGAGATAAATATTGTTTCAAGTGAAACAATTTC
*** * * ** *
302450 CAAATTTTTTGTTTTGAGGGAAAATTGCCTCAAGCGAGATAAAATTTGCTTTGAGGAAAACAATC
1 CAAATTTTCCATTTTAAGGGAAAAATATCTCAAGCGAGAT-AAATTTGTTTTGAGGAAAACAATC
302515 TCAAGTGAGATAAACT-TTGTTTCAAGTG-AACAATTT-
65 TCAAGTGAGATAAA-TATTGTTTCAAGTGAAACAATTTC
*
302551 CACAA-TTTCCATTTTAAGGGAAAACTATCTCAAGCGAGATAAATTTTGTTTTGA-GAGAAACAA
1 CA-AATTTTCCATTTTAAGGGAAAAATATCTCAAGCGAGATAAA-TTTGTTTTGAGGA-AAACAA
302614 TCTCAAG
63 TCTCAAG
302621 GATTTATGTT
Statistics
Matches: 142, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
100 5 0.04
101 52 0.37
102 10 0.07
103 35 0.25
104 40 0.28
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (102 bp):
CAAATTTTCCATTTTAAGGGAAAAATATCTCAAGCGAGATAAATTTGTTTTGAGGAAAACAATCT
CAAGTGAGATAAATATTGTTTCAAGTGAAACAATTTC
Found at i:302617 original size:36 final size:35
Alignment explanation
Indices: 302572--302703 Score: 87
Period size: 36 Copynumber: 3.9 Consensus size: 35
302562 TTTTAAGGGA
*
302572 AAACTATCTCAAGCGAGATAAATTTTGTTTTGAGAG
1 AAACAATCTCAAGCGAGATAAATTTTGTTTT-AGAG
* *
302608 AAACAATCTCAA--G-GAT---TTATGTTTCAAGAG
1 AAACAATCTCAAGCGAGATAAATTTTGTTT-TAGAG
*** * * *
302638 AAATTGTCTCAAGCGAGACAAAATTTATTTTAGAG
1 AAACAATCTCAAGCGAGATAAATTTTGTTTTAGAG
* * *
302673 AAAACAATTTCAAGTGAGATCAATTTTGTTT
1 -AAACAATCTCAAGCGAGATAAATTTTGTTT
302704 CAAGAAAAAT
Statistics
Matches: 68, Mismatches: 20, Indels: 16
0.65 0.19 0.15
Matches are distributed among these distances:
30 20 0.29
32 1 0.01
33 5 0.07
34 1 0.01
35 4 0.06
36 37 0.54
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (35 bp):
AAACAATCTCAAGCGAGATAAATTTTGTTTTAGAG
Found at i:306936 original size:6 final size:6
Alignment explanation
Indices: 306927--306965 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
306917 TTTTTCCGGT
306927 TCTGTC TCTGTC TCTGTC TCTGTC TCTGTC TCTGTC TCT
1 TCTGTC TCTGTC TCTGTC TCTGTC TCTGTC TCTGTC TCT
306966 TTTCTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.51
Consensus pattern (6 bp):
TCTGTC
Found at i:307438 original size:3 final size:3
Alignment explanation
Indices: 307430--307511 Score: 103
Period size: 3 Copynumber: 27.7 Consensus size: 3
307420 TTAATATATT
* * *
307430 TAA TAA TAA -AA TAA TAA TAA TAA TAA AAA TAA AAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
307477 TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
307512 TGGATAAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:307512 original size:9 final size:9
Alignment explanation
Indices: 307420--307512 Score: 64
Period size: 9 Copynumber: 10.1 Consensus size: 9
307410 TTATATGTGT
307420 TTAAT-ATA
1 TTAATAATA
307428 TTTAATAATA
1 -TTAATAATA
*
307438 -AAATAATA
1 TTAATAATA
*
307446 ATAATAATA
1 TTAATAATA
** *
307455 AAAATAAAA
1 TTAATAATA
* *
307464 ATAAAAATA
1 TTAATAATA
*
307473 ATAATAATA
1 TTAATAATA
307482 TTAATAATGA
1 TTAATAAT-A
307492 TAATAATAATA
1 T--TAATAATA
307503 TTAATAATA
1 TTAATAATA
307512 T
1 T
307513 GGATAAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
8 7 0.10
9 49 0.70
10 5 0.07
11 2 0.03
12 7 0.10
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (9 bp):
TTAATAATA
Found at i:307842 original size:118 final size:116
Alignment explanation
Indices: 307666--308531 Score: 1372
Period size: 114 Copynumber: 7.4 Consensus size: 116
307656 TTCTCCAGAT
* ** * * * *
307666 GAGTTCTTCTCATTACGAACTTTCTGCTGGGGATGATGTTCCATCAAATGATAAATTCAAGCAAA
1 GAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCAAA
307731 AGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
307783 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAA--CTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCAA
*
307848 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
64 AAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
307901 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAAAATGATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACT-TT-CTCTGG-AAAAGATGATCCATCAAGTGATGAATTCAAGCA
* *
307966 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---
63 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
308017 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAA
1 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG-ATGATCCATCAAGTGATGAATTCAAGCAAA
*
308082 AGATTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGAT---
65 AGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
308131 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGCGATGAATTCAAGCAAA
1 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG-ATGATCCATCAAGTGATGAATTCAAGCAAA
*
308196 AGATTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGAT---
65 AGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
308245 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAA
1 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG-ATGATCCATCAAGTGATGAATTCAAGCAAA
308310 AGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
308362 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAA--CTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCAA
* *
308427 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
64 AAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
308480 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAAAATGATCCATCAAGTG
1 GAGTTCTTCTCATTATGAACT-TT-CTCTGG-AAAAGATGATCCATCAAGTG
308532 GATTTGAAAT
Statistics
Matches: 713, Mismatches: 22, Indels: 26
0.94 0.03 0.03
Matches are distributed among these distances:
113 4 0.01
114 307 0.43
115 2 0.00
116 25 0.04
117 41 0.06
118 215 0.30
119 119 0.17
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (116 bp):
GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAAGCAAAA
GATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:309246 original size:52 final size:52
Alignment explanation
Indices: 309168--309422 Score: 458
Period size: 52 Copynumber: 4.9 Consensus size: 52
309158 CAATACTTGA
*
309168 TTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
309220 TTCTGTCCAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
309272 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
309324 TTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
309376 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
1 TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
309423 TTATAAGCAC
Statistics
Matches: 194, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
51 1 0.01
52 192 0.99
53 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
Found at i:310579 original size:6 final size:6
Alignment explanation
Indices: 310568--310659 Score: 61
Period size: 6 Copynumber: 15.5 Consensus size: 6
310558 ACCTTGACCC
* * *
310568 TTTTCT TTTTCT ATTATTAT TTTT-T TTCTTCT TCTTT-T TTTTCT TTTCCC
1 TTTTCT TTTTCT -TT-TTCT TTTTCT TT-TTCT T-TTTCT TTTTCT TTTTCT
*
310618 TTTT-T TTTTC- -TTTCT TTTTCT TTTTC- TCTTCT TCTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTT
310660 CTTCAAGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
4 4 0.06
5 14 0.21
6 33 0.49
7 13 0.19
8 4 0.06
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:310607 original size:17 final size:17
Alignment explanation
Indices: 310587--310663 Score: 67
Period size: 17 Copynumber: 4.7 Consensus size: 17
310577 TCTATTATTA
310587 TTTTTTTTCTTCTTC--
1 TTTTTTTTCTTCTTCTT
*
310602 TTTTTTTTCTT-TTCCCT
1 TTTTTTTTCTTCTT-CTT
310619 TTTTTTTTC-T-TTCTT
1 TTTTTTTTCTTCTTCTT
310634 TTTCTTTTTC-TCTTCTT
1 TTT-TTTTTCTTCTTCTT
*
310651 CTTTCTTTTCTTC
1 -TTTTTTTTCTTC
310664 AAGCATAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.04
15 17 0.32
16 10 0.19
17 19 0.36
18 5 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTTTCTTCTTCTT
Found at i:322048 original size:24 final size:22
Alignment explanation
Indices: 322016--322064 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
322006 TTACTATTAT
* *
322016 ATATATATTTATGAATATATAAAA
1 ATATATATTCAT-AA-AAATAAAA
*
322040 ATATTTATTCATAAAAATAAAA
1 ATATATATTCATAAAAATAAAA
322062 ATA
1 ATA
322065 CTATTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATATATTCATAAAAATAAAA
Found at i:322912 original size:6 final size:6
Alignment explanation
Indices: 322903--322935 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
322893 TTTTTCCGGT
322903 TCTGTC TCTGTC TCTGTC TCTGTC TCTGTC TCT
1 TCTGTC TCTGTC TCTGTC TCTGTC TCTGTC TCT
322936 TTTCTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.52
Consensus pattern (6 bp):
TCTGTC
Found at i:323408 original size:3 final size:3
Alignment explanation
Indices: 323400--323495 Score: 122
Period size: 3 Copynumber: 31.7 Consensus size: 3
323390 TTAATATATT
* *
323400 TAA TAA TAA -AA TAA TAA TAA TAA TAAA TAA AAA TAA AAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA T-AA TAA
* * *
323446 TAA TAA TAA TAA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
323494 TA
1 TA
323496 TGGATAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
2 2 0.03
3 72 0.90
4 6 0.08
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:323496 original size:9 final size:9
Alignment explanation
Indices: 323390--323496 Score: 73
Period size: 9 Copynumber: 12.1 Consensus size: 9
323380 TTATATGTGT
323390 TTAAT-ATA
1 TTAATAATA
323398 TTTAATAATA
1 -TTAATAATA
*
323408 -AAATAATA
1 TTAATAATA
*
323416 ATAATAATA
1 TTAATAATA
*
323425 --AATAAAA
1 TTAATAATA
*
323432 ATAA-AA-A
1 TTAATAATA
*
323439 TAAATAATA
1 TTAATAATA
*
323448 ATAATAATA
1 TTAATAATA
*
323457 ATAATAATA
1 TTAATAATA
323466 TTAATAATGA
1 TTAATAAT-A
323476 TAATAATAATA
1 T--TAATAATA
323487 TTAATAATA
1 TTAATAATA
323496 T
1 T
323497 GGATAAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
7 9 0.11
8 11 0.14
9 47 0.58
10 5 0.06
11 2 0.02
12 7 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.36
Consensus pattern (9 bp):
TTAATAATA
Found at i:327339 original size:24 final size:26
Alignment explanation
Indices: 327279--327340 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 26
327269 TTCCAAAAAA
*
327279 TTGAAAAATA-TAAATTAAAAGAATT
1 TTGAAAAATATTAAATTAAAAGAAGT
* *
327304 TTAAAAAATATTTAA-TAAAA-AAGT
1 TTGAAAAATATTAAATTAAAAGAAGT
327328 TTGAAAAATATTA
1 TTGAAAAATATTA
327341 CCCCCTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 14 0.45
25 14 0.45
26 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (26 bp):
TTGAAAAATATTAAATTAAAAGAAGT
Found at i:332312 original size:15 final size:16
Alignment explanation
Indices: 332288--332327 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
332278 TTAAATAAAG
*
332288 AAATTAAAAATGCATA
1 AAATTAAAAGTGCATA
332304 AAATTAAAAGTGCATA
1 AAATTAAAAGTGCATA
332320 AAATTAAA
1 AAATTAAA
332328 TAACAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (16 bp):
AAATTAAAAGTGCATA
Found at i:341830 original size:21 final size:23
Alignment explanation
Indices: 341774--341853 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
341764 GACAGCAGAG
*
341774 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGGGA
* * *
341797 TGCATCTATGCACCTT-AATGG-
1 TGCATCGATGCACATTCAAGGGA
*
341818 TGTATCGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAAGGGA
341841 TGCATCGATGCAC
1 TGCATCGATGCAC
341854 TATCTAGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.28
22 7 0.15
23 26 0.57
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:347654 original size:65 final size:64
Alignment explanation
Indices: 347580--347712 Score: 189
Period size: 64 Copynumber: 2.1 Consensus size: 64
347570 GCACTAATTA
** *
347580 CATTTGATGTTTC-AAATCAGTCTGGAGTACATCGATGCATGG-TCTGTGCATCGGTACCCAAAA
1 CATTTGATG-TTCAAAAT-AGTCAAGAGTACATCGATGCATGGCT-TGTGCATCGGTACACAAAA
347643 TG
63 TG
*
347645 CATTTGATGTTCAAAATATTCAAGAGTACATCGATGCATGGCTTGTGCATCGGTACACAAAATG
1 CATTTGATGTTCAAAATAGTCAAGAGTACATCGATGCATGGCTTGTGCATCGGTACACAAAATG
347709 CATT
1 CATT
347713 CAAAATGGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
64 48 0.77
65 14 0.23
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (64 bp):
CATTTGATGTTCAAAATAGTCAAGAGTACATCGATGCATGGCTTGTGCATCGGTACACAAAATG
Found at i:353111 original size:174 final size:171
Alignment explanation
Indices: 352824--353168 Score: 647
Period size: 174 Copynumber: 2.0 Consensus size: 171
352814 GTGACCTTCA
352824 CTCGAGAAACAAAGGAGTGAGTGAAGAAGCTCGAGTAAGATGCATAATAATTCGAGTATGTGAGA
1 CTCGAGAAACAAAGGAGTGAGTGAAGAAGCTCGAGTAAGATGCATAATAATTCGAGTATGTGAGA
352889 CAAAGAGATACAACTATGTCATCGTTCTTAAAGGAAATGCTTCAATTGACCACTGGTTATTTCCC
66 CAAAGAGATACAACTATGTCATCGTTCTTAAAGGAAATGCTTCAATTGACCACTGGTTATTTCCC
352954 CCCTTTTCTTGAGAAAATTCTGGAAATAAATAAGTGT-GTAG
131 CCCTTTTCTTGAGAAAATTCTGG-AATAAATAAGTGTAGTAG
352995 CTCGAGAAACAAAGGAGTGAGTGAAGAAGCTCGAGTGTAAGATGCATACATAATTCGAGTATGTG
1 CTCGAGAAACAAAGGAGTGAGTGAAGAAGCTCGA--GTAAGATGCATA-ATAATTCGAGTATGTG
353060 AGACAAAGAGATACAACTATGTCATCGTTCTTAAAGGAAATGCTTCAATTGACCACTGGTTATTT
63 AGACAAAGAGATACAACTATGTCATCGTTCTTAAAGGAAATGCTTCAATTGACCACTGGTTATTT
353125 CCCCCCTTTTCTTGAGAAAATTCTGGAATAAATAAGTGTAGTAG
128 CCCCCCTTTTCTTGAGAAAATTCTGGAATAAATAAGTGTAGTAG
353169 AAATATTTGG
Statistics
Matches: 170, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
171 34 0.20
173 25 0.15
174 111 0.65
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (171 bp):
CTCGAGAAACAAAGGAGTGAGTGAAGAAGCTCGAGTAAGATGCATAATAATTCGAGTATGTGAGA
CAAAGAGATACAACTATGTCATCGTTCTTAAAGGAAATGCTTCAATTGACCACTGGTTATTTCCC
CCCTTTTCTTGAGAAAATTCTGGAATAAATAAGTGTAGTAG
Found at i:368848 original size:20 final size:20
Alignment explanation
Indices: 368823--368860 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
368813 GATCCTTGAG
368823 AAAGTGCTCAACCCAAGCCA
1 AAAGTGCTCAACCCAAGCCA
*
368843 AAAGTGGTCAACCCAAGC
1 AAAGTGCTCAACCCAAGC
368861 TGAAAGGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.32, G:0.18, T:0.11
Consensus pattern (20 bp):
AAAGTGCTCAACCCAAGCCA
Done.