Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 67 of 186
Found at i:21219392 original size:82 final size:81
Alignment explanation
Indices: 21219274--21219429 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21219264 TGCTATATAA
* *
21219274 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21219339 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21219356 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21219420 CACTTAGTGC
65 CACTTAGTGC
21219430 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21243635 original size:16 final size:16
Alignment explanation
Indices: 21243614--21243650 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
21243604 CCATTTCGAT
21243614 AGCATAAATATTCATA
1 AGCATAAATATTCATA
21243630 AGCATAAATATTCATA
1 AGCATAAATATTCATA
21243646 AGCAT
1 AGCAT
21243651 GTTCATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (16 bp):
AGCATAAATATTCATA
Found at i:21245909 original size:47 final size:46
Alignment explanation
Indices: 21245838--21246192 Score: 310
Period size: 47 Copynumber: 7.5 Consensus size: 46
21245828 TGTGTTGTGT
* *
21245838 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGA
* *
21245884 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TGATGAGA
* ** * *
21245932 GCTAAAGTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACATG-ATGAGA
* *
21245980 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TGATGAGA
* ** * *
21246028 GCTAAAGTAAGACATGTCTGGGACATGCATCAGCCTCGACA-G-TGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGC-C-ACATGATGAGA
* * * * *
21246075 GCCAGTGTAAGACATGTCTAGGACACGCATCGGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AGA
* * *
21246119 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACATG-ATGAGA
21246167 GCCAGTGTAAGACCATGTCTGGGACA
1 GCCAGTGTAAGA-CATGTCTGGGACA
21246193 CGGCATCCTC
Statistics
Matches: 245, Mismatches: 43, Indels: 39
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.01
44 31 0.13
46 26 0.11
47 78 0.32
48 68 0.28
49 30 0.12
50 9 0.04
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.21
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGA
Found at i:21246006 original size:96 final size:96
Alignment explanation
Indices: 21245844--21246199 Score: 516
Period size: 96 Copynumber: 3.8 Consensus size: 96
21245834 GTGTGCCAGT
* * *
21245844 GTAAGACATGTCTGGGACATGCTTCGGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCTGGG
1 GTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGTCTGGG
21245907 ACATGGCATCGGCACAGAGATGAGTGCTAAA
66 ACATGGCATCGGCACAGAGATGAGTGCTAAA
21245938 GTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGTCTGGG
1 GTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGTCTGGG
21246003 ACATGGCATCGGCACAGAGATGAGTGCTAAA
66 ACATGGCATCGGCACAGAGATGAGTGCTAAA
* * *
21246034 GTAAGACATGTCTGGGACATGCATCAGCCTCGACA-G--TGATAGCCAGTGTAAGA-CATGTCTA
1 GTAAGACATGTCTGGGACATGCATCAG-CACG-CATGTATGAGAGCCAGTGTAAGACCATGTCTG
* * **
21246095 GGACA-CGCATCGGCTA-AGAG-T-TGTGCTAGT
64 GGACATGGCATCGGC-ACAGAGATGAGTGCTAAA
21246125 GTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGTCTGGG
1 GTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGTCTGGG
*
21246190 ACACGGCATC
66 ACATGGCATC
21246200 CTCAATTTAT
Statistics
Matches: 238, Mismatches: 14, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
89 2 0.01
90 4 0.02
91 33 0.14
92 17 0.07
93 24 0.10
94 44 0.18
95 20 0.08
96 88 0.37
97 4 0.02
98 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (96 bp):
GTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCACAGAGATGAGTGCTAAA
Found at i:21246162 original size:187 final size:190
Alignment explanation
Indices: 21245844--21246199 Score: 544
Period size: 187 Copynumber: 1.9 Consensus size: 190
21245834 GTGTGCCAGT
* * * *
21245844 GTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCAGCCACATCATGAGAGCCAGTGTAAGACCATGTCTAGGAC
*
21245909 ATGGCATCGGCACAGAGATGAGTGCTAAAGTAAGACATGTCTGGGACATGCATCAGCACGCATGT
66 ATCGCATCGGCACAGAGATGAGTGCTAAAGTAAGACATGTCTGGGACATGCATCAGCACGCATGT
*
21245974 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCTAAA
131 ATGAGAGCCAGTGTAAGACCATGTCTGGGACACGGCATCGGCACAGAGATGAGTGCTAAA
* *
21246034 GTAAGACATGTCTGGGACATGCATCAGCCTCGA-CAGTGATAGCCAGTGTAAGA-CATGTCTAGG
1 GTAAGACATGTCTGGGACATGCATCAGCCAC-ATCA-TGAGAGCCAGTGTAAGACCATGTCTAGG
* **
21246097 ACA-CGCATCGGCTA-AGAG-T-TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCA
64 ACATCGCATCGGC-ACAGAGATGAGTGCTAAAGTAAGACATGTCTGGGACATGCATCAGCACGCA
21246158 TGTATGAGAGCCAGTGTAAGACCATGTCTGGGACACGGCATC
128 TGTATGAGAGCCAGTGTAAGACCATGTCTGGGACACGGCATC
21246200 CTCAATTTAT
Statistics
Matches: 152, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
187 80 0.53
188 1 0.01
189 12 0.08
190 42 0.28
191 17 0.11
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (190 bp):
GTAAGACATGTCTGGGACATGCATCAGCCACATCATGAGAGCCAGTGTAAGACCATGTCTAGGAC
ATCGCATCGGCACAGAGATGAGTGCTAAAGTAAGACATGTCTGGGACATGCATCAGCACGCATGT
ATGAGAGCCAGTGTAAGACCATGTCTGGGACACGGCATCGGCACAGAGATGAGTGCTAAA
Found at i:21250391 original size:22 final size:24
Alignment explanation
Indices: 21250357--21250402 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
21250347 ATTCTATGCT
21250357 AATTGATAAAGAT-TAA-TATATA
1 AATTGATAAAGATATAATTATATA
21250379 AATT-ATAATAGATATAATTATATA
1 AATTGATAA-AGATATAATTATATA
21250403 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 3 0.14
24 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTGATAAAGATATAATTATATA
Found at i:21255676 original size:21 final size:21
Alignment explanation
Indices: 21255650--21255691 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21255640 CCATGGTGAA
21255650 GGCATTTCTGTAATAATTCTT
1 GGCATTTCTGTAATAATTCTT
21255671 GGCATTTCTGTAATAATTCTT
1 GGCATTTCTGTAATAATTCTT
21255692 TGTATCGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (21 bp):
GGCATTTCTGTAATAATTCTT
Found at i:21256279 original size:35 final size:35
Alignment explanation
Indices: 21256233--21256299 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
21256223 CTCTGGTTCG
21256233 CTTATCTTCTTCACTATCGAAAGGTTCGTTCTTCA
1 CTTATCTTCTTCACTATCGAAAGGTTCGTTCTTCA
21256268 CTTATCTTCTTCACTATCGAAAGGTTCGTTCT
1 CTTATCTTCTTCACTATCGAAAGGTTCGTTCT
21256300 ATCTCAAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.43
Consensus pattern (35 bp):
CTTATCTTCTTCACTATCGAAAGGTTCGTTCTTCA
Found at i:21263305 original size:26 final size:26
Alignment explanation
Indices: 21263271--21263364 Score: 111
Period size: 26 Copynumber: 3.6 Consensus size: 26
21263261 TCGTTAAGAC
*
21263271 CCCAG-TTTGTAAAATTACCCAAATA
1 CCCAGATTTGTAAAATTACCAAAATA
21263296 CCCAGATTTGTAAAATTACCAAAATA
1 CCCAGATTTGTAAAATTACCAAAATA
* *
21263322 TCCC-GATTTGCAAAATTACTAAAATA
1 -CCCAGATTTGTAAAATTACCAAAATA
* *
21263348 CCCTCGGTTTGTAAAAT
1 CCC-AGATTTGTAAAAT
21263365 GATCGTAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 8 0.13
26 39 0.65
27 13 0.22
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (26 bp):
CCCAGATTTGTAAAATTACCAAAATA
Found at i:21263452 original size:80 final size:80
Alignment explanation
Indices: 21263359--21263510 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 80
21263349 CCTCGGTTTG
21263359 TAAAATGATCGTAATACCC-TGTAAGGTAAAATAATCA-TAATGCCCCAGTAGGGTAAAAAGACC
1 TAAAATGATCGTAATACCCTTGTAAGGTAAAATAA-CAGTAATGCCCCAGTAGGGTAAAAAGACC
21263422 ATAATGCCCCTGTAGGT
65 A-AATGCCCCTGTAGGT
* * * ** * *
21263439 TAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACAGTAATGCCCTTGTAGGGTAAAATGACGA
1 TAAAATGATCGTAATACCCTTGTAAGGTAAAATAACAGTAATGCCCCAGTAGGGTAAAAAGACCA
21263504 AATGCCC
66 AATGCCC
21263511 TTATGTTATG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 27 0.43
81 36 0.57
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (80 bp):
TAAAATGATCGTAATACCCTTGTAAGGTAAAATAACAGTAATGCCCCAGTAGGGTAAAAAGACCA
AATGCCCCTGTAGGT
Found at i:21263499 original size:27 final size:27
Alignment explanation
Indices: 21263358--21263512 Score: 172
Period size: 27 Copynumber: 5.8 Consensus size: 27
21263348 CCCTCGGTTT
* *
21263358 GTAAAATGATCGTAATACCC-TGTAAG
1 GTAAAATGATCGTAATGCCCTTGTAGG
* * **
21263384 GTAAAATAATCATAATGCCCCAGTAGG
1 GTAAAATGATCGTAATGCCCTTGTAGG
* * * *
21263411 GTAAAAAGACCATAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCTTGTAGG
*
21263438 TTAAAATGATCGTAATGCCCTTGTAGG
1 GTAAAATGATCGTAATGCCCTTGTAGG
21263465 GTAAAATGA-CAGTAATGCCCTTGTAGG
1 GTAAAATGATC-GTAATGCCCTTGTAGG
*
21263492 GTAAAATGA-CGAAATGCCCTT
1 GTAAAATGATCGTAATGCCCTT
21263513 ATGTTATGTA
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 28 0.25
27 83 0.75
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAAAATGATCGTAATGCCCTTGTAGG
Found at i:21263804 original size:34 final size:34
Alignment explanation
Indices: 21263761--21263828 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
21263751 TGTAGCTTTG
21263761 CTGCGATATTCGTGTGTTGGCTGGGTGGGACGAT
1 CTGCGATATTCGTGTGTTGGCTGGGTGGGACGAT
21263795 CTGCGATATTCGTGTGTTGGCTGGGTGGGACGAT
1 CTGCGATATTCGTGTGTTGGCTGGGTGGGACGAT
21263829 TTATATCCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.12, C:0.15, G:0.41, T:0.32
Consensus pattern (34 bp):
CTGCGATATTCGTGTGTTGGCTGGGTGGGACGAT
Found at i:21268161 original size:27 final size:27
Alignment explanation
Indices: 21268123--21268219 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
21268113 GTCGTTAAGA
* *
21268123 CCCTCATTTGTAAAATTACCGAAATAT
1 CCCTAATTTGTAAAATTACCGAAATAC
**
21268150 CCCTAATTTGTAAAATTACTAAAATAC
1 CCCTAATTTGTAAAATTACCGAAATAC
* * **
21268177 CCCTGATTTGCAAAATTATTGAAATAC
1 CCCTAATTTGTAAAATTACCGAAATAC
**
21268204 CCCCGATTTGTAAAAT
1 CCCTAATTTGTAAAAT
21268220 GACCATAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
CCCTAATTTGTAAAATTACCGAAATAC
Found at i:21268229 original size:27 final size:26
Alignment explanation
Indices: 21268123--21268234 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
21268113 GTCGTTAAGA
* *
21268123 CCCTCATTTGTAAAATTACCGAAATAT
1 CCCTGATTTGTAAAATTACC-AAATAC
* *
21268150 CCCTAATTTGTAAAATTACTAAAATAC
1 CCCTGATTTGTAAAATTAC-CAAATAC
* **
21268177 CCCTGATTTGCAAAATTATTGAAATAC
1 CCCTGATTTGTAAAATTA-CCAAATAC
* * *
21268204 CCCCGATTTGTAAAATGACCATAATAT
1 CCCTGATTTGTAAAATTACCA-AATAC
21268231 CCCT
1 CCCT
21268235 ATAGGGTAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.01
27 67 0.99
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (26 bp):
CCCTGATTTGTAAAATTACCAAATAC
Found at i:21268243 original size:27 final size:27
Alignment explanation
Indices: 21268213--21268366 Score: 202
Period size: 27 Copynumber: 5.7 Consensus size: 27
21268203 CCCCCGATTT
* ** *
21268213 GTAAAATGACCATAATATCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
21268240 GTAAAATGACCGTAATGCCCCTGTAAG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
21268267 GTAAAATGACCGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* **
21268294 TTAAAATGATTGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
21268321 GTAAAATGACCGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
21268348 GTAAAATGA-CGAAATGCCC
1 GTAAAATGACCGTAATGCCC
21268367 TTATGTTTCG
Statistics
Matches: 111, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 9 0.08
27 102 0.92
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGG
Found at i:21268576 original size:27 final size:26
Alignment explanation
Indices: 21268496--21268576 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
21268486 AGGAAGTTCT
* *
21268496 ATACTGGTGACTATGTCACATTCACT-
1 ATACTGGTGGCTATGCCACA-TCACTG
* *
21268522 ATTACTTGTGGCTATGCCACAATTACTG
1 A-TACTGGTGGCTATGCCAC-ATCACTG
*
21268550 ATACTGGTGGCTTTGCCACATGCACTG
1 ATACTGGTGGCTATGCCACAT-CACTG
21268577 TTTCTAGCAG
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.07
27 39 0.89
28 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (26 bp):
ATACTGGTGGCTATGCCACATCACTG
Found at i:21276921 original size:60 final size:60
Alignment explanation
Indices: 21276848--21276966 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
21276838 GAGGGAATAC
21276848 GCATAAAGCTTAGTAATCTTGTATATAATTAATAAAAAATAAGAGTATGCACTTTCATAA
1 GCATAAAGCTTAGTAATCTTGTATATAATTAATAAAAAATAAGAGTATGCACTTTCATAA
* *
21276908 GCATAAAGCTTAGTAATCTTGTATGTAATTAATAAACAATAAGAGTATGCACTTTCATA
1 GCATAAAGCTTAGTAATCTTGTATATAATTAATAAAAAATAAGAGTATGCACTTTCATA
21276967 CACATACATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (60 bp):
GCATAAAGCTTAGTAATCTTGTATATAATTAATAAAAAATAAGAGTATGCACTTTCATAA
Found at i:21281198 original size:172 final size:172
Alignment explanation
Indices: 21280912--21281255 Score: 688
Period size: 172 Copynumber: 2.0 Consensus size: 172
21280902 AAATCCCTAG
21280912 CTTTTCAATCATATTGCAAATTAGTCCCCTATTTAGCTAGCTTAAGCTTCAAGGTCCCAAAAACA
1 CTTTTCAATCATATTGCAAATTAGTCCCCTATTTAGCTAGCTTAAGCTTCAAGGTCCCAAAAACA
21280977 TAAAAATCCATAAAAACTAACACCAAAATGACTTACATGTAGAGGGTTTATTGTGCTGAAAATTT
66 TAAAAATCCATAAAAACTAACACCAAAATGACTTACATGTAGAGGGTTTATTGTGCTGAAAATTT
21281042 CAAGCTTCCATGGAGGTTTTTCTCCTTAAATTTTCTGTGGGA
131 CAAGCTTCCATGGAGGTTTTTCTCCTTAAATTTTCTGTGGGA
21281084 CTTTTCAATCATATTGCAAATTAGTCCCCTATTTAGCTAGCTTAAGCTTCAAGGTCCCAAAAACA
1 CTTTTCAATCATATTGCAAATTAGTCCCCTATTTAGCTAGCTTAAGCTTCAAGGTCCCAAAAACA
21281149 TAAAAATCCATAAAAACTAACACCAAAATGACTTACATGTAGAGGGTTTATTGTGCTGAAAATTT
66 TAAAAATCCATAAAAACTAACACCAAAATGACTTACATGTAGAGGGTTTATTGTGCTGAAAATTT
21281214 CAAGCTTCCATGGAGGTTTTTCTCCTTAAATTTTCTGTGGGA
131 CAAGCTTCCATGGAGGTTTTTCTCCTTAAATTTTCTGTGGGA
21281256 AAAGATGTAG
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (172 bp):
CTTTTCAATCATATTGCAAATTAGTCCCCTATTTAGCTAGCTTAAGCTTCAAGGTCCCAAAAACA
TAAAAATCCATAAAAACTAACACCAAAATGACTTACATGTAGAGGGTTTATTGTGCTGAAAATTT
CAAGCTTCCATGGAGGTTTTTCTCCTTAAATTTTCTGTGGGA
Found at i:21287030 original size:25 final size:25
Alignment explanation
Indices: 21287001--21287054 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
21286991 AGTTTAAAAA
21287001 ATGTCATTTATTATTTAATAGTGTT
1 ATGTCATTTATTATTTAATAGTGTT
21287026 ATGTCATTTATTATTTAATAGTGTT
1 ATGTCATTTATTATTTAATAGTGTT
21287051 ATGT
1 ATGT
21287055 TTTGAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (25 bp):
ATGTCATTTATTATTTAATAGTGTT
Found at i:21287234 original size:29 final size:30
Alignment explanation
Indices: 21287178--21287240 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
21287168 ATTTGATCTT
* * *
21287178 ATTTGATTCTTTTTAATAGTACATGGATTA
1 ATTTGATTCTATTTAATAATACAGGGATTA
*
21287208 ATTTGATTC-ATTTAATAATAGAGGGATTA
1 ATTTGATTCTATTTAATAATACAGGGATTA
21287237 ATTT
1 ATTT
21287241 AATCTAATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTTGATTCTATTTAATAATACAGGGATTA
Found at i:21287996 original size:30 final size:29
Alignment explanation
Indices: 21287955--21288018 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21287945 AATTTTTATA
*
21287955 TTTTTATA-TTTTTAAATTATTAAAAAATAT
1 TTTTTAAATTTTTTAAATT-TTAAAAAAT-T
* *
21287985 TTTTTAAATTTTTTGAATTTTAAGAAATT
1 TTTTTAAATTTTTTAAATTTTAAAAAATT
21288014 TTTTT
1 TTTTT
21288019 CATATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 6 0.20
30 15 0.50
31 9 0.30
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTTTAAATTTTTTAAATTTTAAAAAATT
Found at i:21288270 original size:26 final size:26
Alignment explanation
Indices: 21288234--21288287 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
21288224 GTCATTGAGG
21288234 TTAAAACATAGAGGTTAAATTTAAAA
1 TTAAAACATAGAGGTTAAATTTAAAA
*
21288260 TTAAAGCATAGAGGTTAAATTTAAAA
1 TTAAAACATAGAGGTTAAATTTAAAA
21288286 TT
1 TT
21288288 TAACAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (26 bp):
TTAAAACATAGAGGTTAAATTTAAAA
Found at i:21288382 original size:26 final size:27
Alignment explanation
Indices: 21288342--21288413 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
21288332 TTTTTCTCGC
*
21288342 TCAATTAGTAATTGTACTTTAATTTTA
1 TCAATTAGTCATTGTACTTTAATTTTA
* * *
21288369 -GATTTAGTCATTGTATTTTAATTTTA
1 TCAATTAGTCATTGTACTTTAATTTTA
21288395 TCAATTAGTC-TTGTACTTT
1 TCAATTAGTCATTGTACTTT
21288414 TTGAAATGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 30 0.81
27 7 0.19
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (27 bp):
TCAATTAGTCATTGTACTTTAATTTTA
Found at i:21291132 original size:17 final size:17
Alignment explanation
Indices: 21291092--21291141 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
21291082 GTATTATTTT
21291092 TATAT-TATTATAATTGTG
1 TATATATATTAT-A-TGTG
*
21291110 TGTATATATTATATGTG
1 TATATATATTATATGTG
*
21291127 TATATATTTTATATG
1 TATATATATTATATG
21291142 CATATCAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 17 0.61
18 5 0.18
19 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
TATATATATTATATGTG
Found at i:21297732 original size:57 final size:58
Alignment explanation
Indices: 21297661--21297781 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 58
21297651 GTGGTAAATA
* * * * *
21297661 TGGTGA-AGGTTTTGAAAGG-TTAAATGGAGAGGGTGTTGAGGTTGTTGGCACTAAAGG
1 TGGTGAGAGGTTTTG-AAGGTTTAAATGGAGAGGGCGTTAAGGTTGCTAGCAATAAAGG
*
21297718 TGGTGAGA-GTTTTGAAGGTTTAAATGGGGAGGGCGTTAAGGTTGCTAGCAATAAAGG
1 TGGTGAGAGGTTTTGAAGGTTTAAATGGAGAGGGCGTTAAGGTTGCTAGCAATAAAGG
21297775 TGGTGAG
1 TGGTGAG
21297782 GGTGGTGAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
56 4 0.07
57 51 0.91
58 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.40, T:0.29
Consensus pattern (58 bp):
TGGTGAGAGGTTTTGAAGGTTTAAATGGAGAGGGCGTTAAGGTTGCTAGCAATAAAGG
Found at i:21297787 original size:9 final size:9
Alignment explanation
Indices: 21297773--21297815 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
21297763 TAGCAATAAA
21297773 GGTGGTGAG
1 GGTGGTGAG
21297782 GGTGGTGA-
1 GGTGGTGAG
21297790 GGT--TGAG
1 GGTGGTGAG
*
21297797 GGTGGTGAA
1 GGTGGTGAG
21297806 GGTGGTGAG
1 GGTGGTGAG
21297815 G
1 G
21297816 ATTTTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 3 0.10
7 3 0.10
8 3 0.10
9 20 0.69
ACGTcount: A:0.14, C:0.00, G:0.63, T:0.23
Consensus pattern (9 bp):
GGTGGTGAG
Found at i:21301759 original size:158 final size:158
Alignment explanation
Indices: 21301447--21301763 Score: 526
Period size: 158 Copynumber: 2.0 Consensus size: 158
21301437 GGTAAATGTC
* * * *
21301447 ACAACAGAGGATCATGCAATCAACCTAACACAATTGGATCATAGGTATATCGTAAACACTTTTTC
1 ACAACAGAAGATCATGCAATCAACCTAACACAACTAGATCATAGCTATATCGTAAACACTTTTTC
* *
21301512 ACTGTTAAGTTTCAAAATATTTAAATCTAATTTGGGGCTGTGCATTTTTTTCTCAGTCTGGTACG
66 ACTGTCAAGTTTCAAAATATTTAAATCTAATTTGGGGCTGGGCATTTTTTTCTCAGTCTGGTACG
21301577 AGTACAAGAACTAGAAGCCAAAAAAGGA
131 AGTACAAGAACTAGAAGCCAAAAAAGGA
* *
21301605 ACAACAGAAGATCATGCAATCAACCTAACACAACTAGATCATAGCTATATTGTAAACACTTTTTT
1 ACAACAGAAGATCATGCAATCAACCTAACACAACTAGATCATAGCTATATCGTAAACACTTTTTC
* *
21301670 AGTGTCAAGTTTCAAAATATTTAAATCTAATTTGGGGTTGGGCATTTTTTTCCTCAGTCTGGTAC
66 ACTGTCAAGTTTCAAAATATTTAAATCTAATTTGGGGCTGGGCATTTTTTT-CTCAGTCTGGTAC
*
21301735 GAGTACAATAACTAGAAGCCAAAAAAGGA
130 GAGTACAAGAACTAGAAGCCAAAAAAGGA
21301764 TAGCATATCA
Statistics
Matches: 147, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
158 106 0.72
159 41 0.28
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (158 bp):
ACAACAGAAGATCATGCAATCAACCTAACACAACTAGATCATAGCTATATCGTAAACACTTTTTC
ACTGTCAAGTTTCAAAATATTTAAATCTAATTTGGGGCTGGGCATTTTTTTCTCAGTCTGGTACG
AGTACAAGAACTAGAAGCCAAAAAAGGA
Found at i:21305676 original size:21 final size:22
Alignment explanation
Indices: 21305650--21305696 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
21305640 CTCTGCTCAA
*
21305650 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
21305671 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
21305693 ACTC
1 ACTC
21305697 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:21323081 original size:40 final size:39
Alignment explanation
Indices: 21323044--21323135 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
21323034 GCTACTCGTT
*
21323044 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
21323084 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
21323123 CAAATGCCTTCGG
1 CAAATGCCTTCGG
21323136 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:21323115 original size:39 final size:40
Alignment explanation
Indices: 21323025--21323188 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
21323015 CGGAATTTAA
** *
21323025 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
21323065 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21323104 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21323144 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21323184 CCGGA
1 CCGGA
21323189 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21324983 original size:43 final size:42
Alignment explanation
Indices: 21324867--21324986 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
21324857 ATAGGATTTA
* *
21324867 CGATATGTGATTGCGTGTAAGACCATGTCTAGGACATCGGCAT
1 CGATATGTGATT-CATGTAAGACCATGTCTGGGACATCGGCAT
* * *
21324910 CGTATATGTAATTCACGTAAGACCTTGTCTGGGACAGT-GGCAT
1 CG-ATATGTGATTCATGTAAGACCATGTCTGGGACA-TCGGCAT
* *
21324953 CGATCTGTGATTACATGTAAGACCACGTCTGGGA
1 CGATATGTGATT-CATGTAAGACCATGTCTGGGA
21324987 TGTTGGCATT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 8 0.12
43 46 0.72
44 10 0.16
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
CGATATGTGATTCATGTAAGACCATGTCTGGGACATCGGCAT
Found at i:21326836 original size:25 final size:26
Alignment explanation
Indices: 21326808--21326869 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
21326798 TTAATATTGT
*
21326808 ATAAAT-TGTGAAAAC-GAGATTATAG
1 ATAAATGTATGAAAACAG-GATTATAG
*
21326833 AT-AATGTATTAAAACAGGATTATAG
1 ATAAATGTATGAAAACAGGATTATAG
21326858 AT-AATGTATGAA
1 ATAAATGTATGAA
21326870 GTGTGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 3 0.09
25 28 0.88
26 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (26 bp):
ATAAATGTATGAAAACAGGATTATAG
Found at i:21329480 original size:22 final size:22
Alignment explanation
Indices: 21329409--21329513 Score: 88
Period size: 23 Copynumber: 4.6 Consensus size: 22
21329399 ACAGCTTATA
* * *
21329409 AGAGCTTATTGTTTCAGCTTATT
1 AGAGCTTACTG-TTCAGCTCAAT
*
21329432 GGAGCTTACTGATTCAGCTCGAA-
1 AGAGCTTACTG-TTCAGCTC-AAT
*
21329455 AGAGCTTACTGTTCATCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
21329477 AGAGCTTATCAT-TTCTAGCTCAAT
1 AGAGCTTA-C-TGTTC-AGCTCAAT
*
21329501 AGAGCTTATTGTT
1 AGAGCTTACTGTT
21329514 TATCAGCTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.03
22 16 0.24
23 32 0.48
24 17 0.25
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:21336124 original size:22 final size:20
Alignment explanation
Indices: 21336085--21336125 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
21336075 AAAGATGTGA
*
21336085 AGTTTGAATGGTTAAAGCAG
1 AGTTTGAATAGTTAAAGCAG
21336105 AGTTTCGAATAGTTGAAAGCA
1 AGTTT-GAATAGTT-AAAGCA
21336126 CATTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (20 bp):
AGTTTGAATAGTTAAAGCAG
Found at i:21337981 original size:19 final size:21
Alignment explanation
Indices: 21337957--21337997 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21337947 TTTGGCATAA
21337957 ACATGGG-ACC-GAGGAAGCT
1 ACATGGGAACCTGAGGAAGCT
21337976 ACATGGGAACCTGAGGAAGCT
1 ACATGGGAACCTGAGGAAGCT
21337997 A
1 A
21337998 TGTGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.34, C:0.20, G:0.34, T:0.12
Consensus pattern (21 bp):
ACATGGGAACCTGAGGAAGCT
Found at i:21339357 original size:23 final size:23
Alignment explanation
Indices: 21339327--21339403 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
21339317 TTACTGTTTC
*
21339327 AGAGCTTACCGATTCAGCTGGAA-
1 AGAGCTTACCGATTCAGCT-CAAT
**
21339350 AGAGCTTA-TTATTCAGCTCAAT
1 AGAGCTTACCGATTCAGCTCAAT
*
21339372 AGAGCTTACCGTTTCCAGCTCAAT
1 AGAGCTTACCGATT-CAGCTCAAT
21339396 AGAGCTTA
1 AGAGCTTA
21339404 TTGTTTATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.04
22 16 0.36
23 10 0.22
24 17 0.38
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (23 bp):
AGAGCTTACCGATTCAGCTCAAT
Found at i:21339409 original size:24 final size:23
Alignment explanation
Indices: 21339350--21339418 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
21339340 TCAGCTGGAA
*
21339350 AGAGCTTATT-ATTCAGCTCAAT
1 AGAGCTTATTGTTTCAGCTCAAT
**
21339372 AGAGCTTACCGTTTCCAGCTCAAT
1 AGAGCTTATTGTTT-CAGCTCAAT
21339396 AGAGCTTATTGTTTATCAGCTCA
1 AGAGCTTATTG-TT-TCAGCTCA
21339419 GGAGAAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 8 0.21
23 2 0.05
24 18 0.47
25 9 0.24
26 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (23 bp):
AGAGCTTATTGTTTCAGCTCAAT
Found at i:21344254 original size:40 final size:40
Alignment explanation
Indices: 21344149--21344405 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
21344139 CGGATGATAA
* *
21344149 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
21344189 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21344228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21344268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21344308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21344348 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21344388 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21344406 TACTTGGTTT
Statistics
Matches: 206, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
39 51 0.25
40 155 0.75
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21355391 original size:27 final size:27
Alignment explanation
Indices: 21355334--21355490 Score: 161
Period size: 27 Copynumber: 5.8 Consensus size: 27
21355324 ATTATTGAAA
* * * ***
21355334 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTACAGAATTACCATTT
* *
21355361 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
21355388 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
21355415 TACCATCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* ***
21355442 TACCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
21355469 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
21355491 TAAAATACCC
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:21355469 original size:54 final size:54
Alignment explanation
Indices: 21355367--21355518 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 54
21355357 AAAGTACCCC
* * *
21355367 CGATTTACATAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCAT
1 CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCGTTTTACCAT
* * ** *
21355421 CGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTATTGTTTTACCCT
1 CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCGTTTTACCAT
*** * *
21355475 CGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACC
21355519 AAAATACCCT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (54 bp):
CGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCGTTTTACCAT
Found at i:21355499 original size:27 final size:27
Alignment explanation
Indices: 21355469--21355689 Score: 166
Period size: 27 Copynumber: 8.2 Consensus size: 27
21355459 ATTATTGTTT
*
21355469 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
21355496 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
21355523 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * * ** * *
21355550 TA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
21355576 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* **
21355603 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* **
21355630 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
21355657 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
21355684 TACCCT
1 TACCCT
21355690 TGACTTTCTA
Statistics
Matches: 161, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
26 23 0.14
27 136 0.84
28 2 0.01
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:21355527 original size:54 final size:54
Alignment explanation
Indices: 21355469--21355774 Score: 253
Period size: 54 Copynumber: 5.6 Consensus size: 54
21355459 ATTATTGTTT
* *
21355469 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * ** * *
21355523 TACCCTCGA-TCAGTAAAATTACCAAAATA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * * **
21355576 TACCC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * *
21355630 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAA
* * * * **
21355684 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAT-AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAA
* * * * * *
21355740 TACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTG
21355775 TATAAATACG
Statistics
Matches: 203, Mismatches: 38, Indels: 22
0.77 0.14 0.08
Matches are distributed among these distances:
52 1 0.00
53 45 0.22
54 107 0.53
55 11 0.05
56 39 0.19
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:21355580 original size:80 final size:82
Alignment explanation
Indices: 21355483--21355689 Score: 260
Period size: 80 Copynumber: 2.6 Consensus size: 82
21355473 CTCGATTTAC
*
21355483 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGAGTCAGTAAAATTACCA
***
21355547 AAATA-CCTTGGTCTGT
66 AAATACCCTCAATCTGT
* ** * **
21355563 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGAGTCAGTAAAATTACCA
*
21355627 AAATACCCTCAATTTGT
66 AAATACCCTCAATCTGT
* *
21355644 AAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAATACCCT
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCA-AAATACCCT
21355690 TGACTTTCTA
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 61 0.57
81 44 0.41
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (82 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGAGTCAGTAAAATTACCA
AAATACCCTCAATCTGT
Found at i:21355739 original size:27 final size:27
Alignment explanation
Indices: 21355442--21355751 Score: 142
Period size: 27 Copynumber: 11.4 Consensus size: 27
21355432 ATTACTATTT
* * * ***
21355442 TACCCTTGATTTACAGAATTATTGTTT
1 TACCCTTGGTTTACAAAATTACTGAAA
* * *
21355469 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
**
21355496 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * * * **
21355523 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACTGAAA
* ** * *
21355550 TA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* ** **
21355576 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * ** **
21355603 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
*** ** **
21355630 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
* * *
21355657 TACCCCTGATTTACAAAATTACAGAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
*
21355684 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACT-GAAA
*
21355713 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTGAAA
21355740 TACCCTTGGTTT
1 TACCCTTGGTTT
21355752 GTAGATTTAC
Statistics
Matches: 232, Mismatches: 42, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
26 20 0.09
27 186 0.80
28 7 0.03
29 19 0.08
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTGAAA
Found at i:21356346 original size:25 final size:25
Alignment explanation
Indices: 21356306--21356400 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
21356296 AGGAAGTGCT
*
21356306 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
21356331 AAAAGGGCTTTTCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
21356356 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
21356381 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
21356401 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:21356605 original size:42 final size:42
Alignment explanation
Indices: 21356546--21356637 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
21356536 TAGTCTCCCC
* ** *
21356546 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21356588 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21356630 AAATGGGC
1 AAATGGGC
21356638 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:21356696 original size:31 final size:31
Alignment explanation
Indices: 21356661--21356801 Score: 282
Period size: 31 Copynumber: 4.5 Consensus size: 31
21356651 CGTTTACAGT
21356661 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21356692 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21356723 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21356754 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21356785 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
21356802 AACCGTTAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21356862 original size:93 final size:93
Alignment explanation
Indices: 21356661--21356835 Score: 259
Period size: 93 Copynumber: 1.9 Consensus size: 93
21356651 CGTTTACAGT
* * **
21356661 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATACGATTAAACAAAA
**
21356726 GGCTTCGGCCCAGTGATATGATTTATGA
66 GGCTTCGGCCCAGTGATATGATAGATGA
21356754 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGT-A-ACCG-TTAAACAAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATA-CGATTAAACAAA
21356816 AGGCTTCGGCCCAGT-ATATG
65 AGGCTTCGGCCCAGTGATATG
21356836 CCAAGACTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
90 5 0.06
91 22 0.29
92 2 0.03
93 48 0.62
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (93 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATACGATTAAACAAAA
GGCTTCGGCCCAGTGATATGATAGATGA
Found at i:21359444 original size:48 final size:48
Alignment explanation
Indices: 21359381--21359565 Score: 203
Period size: 48 Copynumber: 3.8 Consensus size: 48
21359371 GATACTAGGG
* *
21359381 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTT
* * * * * *
21359429 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCTTG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTT
* * * *
21359477 ACATGTAG-GCTAGTGTAAGACCATGTTTGGAACATGGCATC-AGCATCGAT
1 ATATG-AGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGA-CAT--TT
*
21359527 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCA
21359566 CCAGCATCTT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
48 76 0.68
49 4 0.04
50 32 0.29
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTT
Found at i:21363158 original size:40 final size:40
Alignment explanation
Indices: 21363121--21363346 Score: 312
Period size: 40 Copynumber: 5.7 Consensus size: 40
21363111 GCTACTCGTT
* *
21363121 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
21363161 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
21363201 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
21363241 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
21363281 CAAATGCCTTCGGGTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
21363322 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21363347 CATCATTCAA
Statistics
Matches: 172, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
40 162 0.94
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21371235 original size:79 final size:81
Alignment explanation
Indices: 21371133--21371317 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
21371123 GCTCCTCGTT
* *
21371133 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
21371195 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
21371213 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
21371277 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
21371293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21371318 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:21371317 original size:40 final size:40
Alignment explanation
Indices: 21371133--21371317 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
21371123 GCTCCTCGTT
* * *
21371133 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
21371173 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
21371213 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
21371252 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
21371293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21371318 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:21379142 original size:79 final size:82
Alignment explanation
Indices: 21379025--21379209 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
21379015 GCTACTCGTT
* *
21379025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21379088 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21379105 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21379168 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21379185 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21379210 CGTCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21379209 original size:40 final size:40
Alignment explanation
Indices: 21379006--21379209 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
21378996 CTGAATTTAA
** *
21379006 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21379046 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21379086 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21379125 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21379165 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21379205 CCGGA
1 CCGGA
21379210 CGTCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21387846 original size:81 final size:81
Alignment explanation
Indices: 21387729--21387890 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
21387719 TTTAATATTA
21387729 AATTTAATTTAATACTTATCTTAAGAGTATTTTATTAATTCAATATTAAAGTGATTATCTTAATA
1 AATTTAATTTAATACTTATCTTAAGAGTATTTTATTAATTCAATATTAAAGTGATTATCTTAATA
*
21387794 TTTAATTAAATTTAAT
66 TTAAATTAAATTTAAT
21387810 AATTTAATTTAATACTTATCTTAAGAGTATTTTATTAATTCAATATTAAAGTGATTATCTTAATA
1 AATTTAATTTAATACTTATCTTAAGAGTATTTTATTAATTCAATATTAAAGTGATTATCTTAATA
21387875 TTAAATTAAATTTAAT
66 TTAAATTAAATTTAAT
21387891 GTTTATCTTG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (81 bp):
AATTTAATTTAATACTTATCTTAAGAGTATTTTATTAATTCAATATTAAAGTGATTATCTTAATA
TTAAATTAAATTTAAT
Found at i:21395406 original size:14 final size:14
Alignment explanation
Indices: 21395387--21395415 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21395377 TTCAAATATG
21395387 TTTGCATCAAAGAT
1 TTTGCATCAAAGAT
21395401 TTTGCATCAAAGAT
1 TTTGCATCAAAGAT
21395415 T
1 T
21395416 AAGTAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (14 bp):
TTTGCATCAAAGAT
Found at i:21397776 original size:12 final size:12
Alignment explanation
Indices: 21397733--21397778 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
21397723 TGTAAAGAGA
21397733 AAATTTTCTAAAG
1 AAATTTT-TAAAG
*
21397746 AAATTATTAAAGG
1 AAATTTTTAAA-G
21397759 AAATTTTTAAAG
1 AAATTTTTAAAG
*
21397771 ATATTTTT
1 AAATTTTT
21397779 CTTATTTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (12 bp):
AAATTTTTAAAG
Found at i:21401223 original size:47 final size:47
Alignment explanation
Indices: 21401160--21401924 Score: 1208
Period size: 47 Copynumber: 16.3 Consensus size: 47
21401150 CCCTTCGGGA
* * * *
21401160 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21401207 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21401254 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21401301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21401348 CTTGTCACATATATACCCTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21401395 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21401442 CTTATCACATATATACCCTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21401489 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21401536 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
21401583 CTTATCTCATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21401630 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21401677 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
21401724 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21401771 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21401818 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21401865 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21401912 TTTATCACATATA
1 CTTATCACATATA
21401925 CATATCTTGT
Statistics
Matches: 664, Mismatches: 52, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 662 1.00
48 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21405364 original size:43 final size:41
Alignment explanation
Indices: 21405239--21405364 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 41
21405229 TCAGGGACGT
* *
21405239 TGGCATCGATTTGAGATCTACGTGTAAGACCATGTTTGGGACAT
1 TGGCATCGATTT-TGAT-TACGTGTAAGACC-TGTTTGGGACAG
* *
21405283 TGGCATCG-TGTATGATTTCGTGTAAGACACTGTTTGGGACAG
1 TGGCATCGAT-TTTGATTACGTGTAAGAC-CTGTTTGGGACAG
* *
21405325 TGGCATCGATATTTGATTACATGTAAGACCTCGTCTGGGA
1 TGGCATCGAT-TTTGATTACGTGTAAGACCT-GTTTGGGA
21405365 TGTTGGCATT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
42 32 0.46
43 28 0.41
44 9 0.13
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (41 bp):
TGGCATCGATTTTGATTACGTGTAAGACCTGTTTGGGACAG
Found at i:21413150 original size:47 final size:47
Alignment explanation
Indices: 21413099--21413594 Score: 902
Period size: 47 Copynumber: 10.6 Consensus size: 47
21413089 GATAATTGTG
*
21413099 ATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413146 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413193 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413240 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413287 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413334 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413381 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413428 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21413475 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
21413522 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
21413569 ATGTGAAAGTGTATAAATGTTATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
21413595 TCCCGAAGGG
Statistics
Matches: 437, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 437 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:21415098 original size:40 final size:40
Alignment explanation
Indices: 21415042--21415255 Score: 376
Period size: 40 Copynumber: 5.4 Consensus size: 40
21415032 TGAGAGTTAT
*
21415042 ATATATCCGGGGTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
21415082 ATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
21415122 ATATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
21415162 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
21415202 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
21415242 ATATAT-CGGGCTAA
1 ATATATCCGGGCTAA
21415256 ACCTCGAAGG
Statistics
Matches: 166, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 8 0.05
40 158 0.95
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:21419145 original size:22 final size:22
Alignment explanation
Indices: 21419117--21419192 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
21419107 ACATGCATAT
21419117 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
21419139 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
21419163 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
21419186 ATGTGAT
1 ATGTGAT
21419193 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:21419239 original size:22 final size:22
Alignment explanation
Indices: 21419117--21419239 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
21419107 ACATGCATAT
*
21419117 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
21419139 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
*
21419163 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
*
21419186 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
21419210 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
21419233 ATGTGAT
1 ATGTGAT
21419240 GAACGTGGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 36
0.64 0.06 0.30
Matches are distributed among these distances:
22 23 0.30
23 19 0.25
24 18 0.24
25 16 0.21
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:21419258 original size:94 final size:95
Alignment explanation
Indices: 21419092--21419284 Score: 291
Period size: 94 Copynumber: 2.0 Consensus size: 95
21419082 TTAGGATTTT
* *
21419092 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGAACA
*
21419157 TG-CATATATGTGATAAGGCCGAATGGCCA
66 TGACATATATGTGATAAAGCCGAATGGCCA
21419186 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGT-GAAC
* * * *
21419250 GTGTATATATATGTGGTAAAGCCGAATGGCTA
65 ATG-ACATATATGTGATAAAGCCGAATGGCCA
21419282 ATG
1 ATG
21419285 CGAAATGTGT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 60 0.67
95 3 0.03
96 26 0.29
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (95 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGAACA
TGACATATATGTGATAAAGCCGAATGGCCA
Found at i:21419259 original size:47 final size:47
Alignment explanation
Indices: 21419092--21419242 Score: 293
Period size: 47 Copynumber: 3.2 Consensus size: 47
21419082 TTAGGATTTT
21419092 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21419139 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
21419186 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21419233 ATGTGATGAA
1 ATGTGATGAA
21419243 CGTGGAAGTG
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21419314 original size:46 final size:46
Alignment explanation
Indices: 21419258--21419394 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
21419248 AAGTGTATAT
21419258 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
21419304 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
21419350 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
21419395 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:21420971 original size:13 final size:13
Alignment explanation
Indices: 21420953--21420977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21420943 TATGCAATAT
21420953 GTGTGAAAATTTC
1 GTGTGAAAATTTC
21420966 GTGTGAAAATTT
1 GTGTGAAAATTT
21420978 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:21425487 original size:25 final size:25
Alignment explanation
Indices: 21425449--21425572 Score: 110
Period size: 25 Copynumber: 5.0 Consensus size: 25
21425439 CAGTAAACAC
* * *
21425449 GAATTATCTGGAAAGCCTTTGTGGT
1 GAATTCTCTTGAAAGCCTTTGTGGA
21425474 GAATTCTCTTGAAAGCCTTTAG-GGA
1 GAATTCTCTTGAAAGCCTTT-GTGGA
* * *
21425499 AAATTCTCTAGAAAGCCTTTGTGGC
1 GAATTCTCTTGAAAGCCTTTGTGGA
* *
21425524 GAATACTC-TGTAAGGCCTTTGTGGA
1 GAATTCTCTTG-AAAGCCTTTGTGGA
* *
21425549 GAACTCTC-TGTAAAACCTTTGTGG
1 GAATTCTCTTG-AAAGCCTTTGTGG
21425573 TGTTCTATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.02
25 78 0.96
26 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (25 bp):
GAATTCTCTTGAAAGCCTTTGTGGA
Found at i:21425557 original size:50 final size:49
Alignment explanation
Indices: 21425459--21425572 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 49
21425449 GAATTATCTG
* * *
21425459 GAAAGCCTTTGTGGTGAATTCTCTTGAAAGCCTTTAGGGAAAATTCTCT
1 GAAAGCCTTTGTGGCGAATACTCTTGAAAGCCTTTAGGGAAAACTCTCT
* *
21425508 AGAAAGCCTTTGTGGCGAATACTC-TGTAAGGCCTTT-GTGGAGAACTCTCT
1 -GAAAGCCTTTGTGGCGAATACTCTTG-AAAGCCTTTAG-GGAAAACTCTCT
*
21425558 GTAAAACCTTTGTGG
1 G-AAAGCCTTTGTGG
21425573 TGTTCTATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (49 bp):
GAAAGCCTTTGTGGCGAATACTCTTGAAAGCCTTTAGGGAAAACTCTCT
Found at i:21430682 original size:23 final size:23
Alignment explanation
Indices: 21430647--21430695 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
21430637 TCATCTATTC
* *
21430647 TTTTCTCTCCTTTTGTCTTTCC-A
1 TTTTCTATCC-TTTCTCTTTCCTA
*
21430670 TTTTCTATTCTTTCTCTTTCCTA
1 TTTTCTATCCTTTCTCTTTCCTA
21430693 TTT
1 TTT
21430696 CCCATCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.06, C:0.27, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTCTATCCTTTCTCTTTCCTA
Found at i:21432514 original size:30 final size:30
Alignment explanation
Indices: 21432457--21432514 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
21432447 CTTTCCAGCA
* **
21432457 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
21432487 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
21432515 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:21433013 original size:94 final size:94
Alignment explanation
Indices: 21432909--21433168 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 94
21432899 GGGCTAGTTG
* * *
21432909 AAGACGTGTCTGGGACATGCATCAG-TCGTATCATGATAGCCCGTGTAAGACCACGTCTAGGACA
1 AAGACATGTCTGGGACATGCATCAGCTCGTATCATGATAGCCAGTGTAAGACCATGTCTAGGACA
*
21432973 TGGCATCGGAGTAAAGGTGAGTGCCAATGT
66 TGGCATCGGACTAAA-GTGAGTGCCAATGT
* * * *
21433003 AAGACATGTCTGGGACATGCATCAGCTGCG-ATGATGTTAGCCAGTGTAAGA-CGTGTCTGGGAC
1 AAGACATGTCTGGGACATGCATCAGCT-CGTATCATGATAGCCAGTGTAAGACCATGTCTAGGAC
* * ** * *
21433066 AT-GCATC-GCCTAAATTTCGTGCTAGTGT
65 ATGGCATCGGACTAAAGTGAGTGCCAATGT
* ** * *
21433094 AAGACATGTCTGGGACATGCATCAGCACGTATACACAATAGCTAGTGTAAAACCATGTCTCA-GA
1 AAGACATGTCTGGGACATGCATCAGCTCGTAT-CATGATAGCCAGTGTAAGACCATGTCT-AGGA
21433158 CATGGCATCGG
64 CATGGCATCGG
21433169 CCTCGATGGA
Statistics
Matches: 135, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
90 2 0.01
91 37 0.27
92 18 0.13
93 16 0.12
94 40 0.30
95 20 0.15
96 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (94 bp):
AAGACATGTCTGGGACATGCATCAGCTCGTATCATGATAGCCAGTGTAAGACCATGTCTAGGACA
TGGCATCGGACTAAAGTGAGTGCCAATGT
Found at i:21433051 original size:47 final size:44
Alignment explanation
Indices: 21432995--21433119 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
21432985 AAAGGTGAGT
* *
21432995 GCCAATGTAAGACATGTCTGGGACATGCATCAGCTGCGATGATGTT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC--CGA-AAT-TTCA
* * *
21433042 GCCAGTGTAAGACGTGTCTGGGACATGCATC-GCCTAAATTTCGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCGAAATTTC-A
*
21433086 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
21433120 ACGTATACAC
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 31 0.46
45 2 0.03
46 2 0.03
47 29 0.43
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCGAAATTTCA
Found at i:21435599 original size:27 final size:28
Alignment explanation
Indices: 21435515--21435612 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
21435505 CATGAGATTG
* * * *
21435515 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
21435544 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21435572 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21435599 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21435613 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21435623 original size:27 final size:27
Alignment explanation
Indices: 21435543--21435625 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
21435533 TAAATTGTAC
* *
21435543 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
21435571 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
21435598 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
21435625 A
1 A
21435626 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:21435626 original size:29 final size:27
Alignment explanation
Indices: 21435515--21435626 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
21435505 CATGAGATTG
** * *
21435515 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
21435544 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
21435572 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
21435599 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
21435627 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:21437365 original size:55 final size:54
Alignment explanation
Indices: 21437250--21437366 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 54
21437240 CTTAAACTTT
* * *
21437250 TAAA-TCAATATTGTCCACGGTTAGGCCACACGGACGTGTGCCATAGCCGTGTC
1 TAAAGTCAATATTGCCCACGGGTAGGCCACACGGACGTGTGCCATAGCCGTGCC
* * *
21437303 TATAAGTCAATATTGCCCACGGGTAGGCCACACAGG-CTTGTGTCATGGCCGTGCCC
1 TA-AAGTCAATATTGCCCACGGGTAGGCCACAC-GGACGTGTGCCATAGCCGTG-CC
21437359 TAAAGTCA
1 TAAAGTCA
21437367 GTGTCGCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 45 0.83
56 5 0.09
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (54 bp):
TAAAGTCAATATTGCCCACGGGTAGGCCACACGGACGTGTGCCATAGCCGTGCC
Found at i:21452410 original size:55 final size:54
Alignment explanation
Indices: 21452302--21452506 Score: 227
Period size: 55 Copynumber: 3.8 Consensus size: 54
21452292 ATTAGGGTTT
* * * * *
21452302 AAGGATACCATGTAAGACCATGCCAAGGCATGTCAATTGGTAAGTTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAAGTTCTATAAGGC
* * *
21452357 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * * *
21452412 AAAGG-TCCCATGTAAGACCA-ATCTAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGGTAAGTTCTATAAGGC
* *
21452465 AAGGATACCATATAAGACCATGTCAAGACATGGCAATGGTAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
21452507 TGTTTCAAAA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 4 0.03
53 35 0.28
54 15 0.12
55 66 0.53
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:21452775 original size:16 final size:16
Alignment explanation
Indices: 21452754--21452784 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21452744 ATAAATTTGA
21452754 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
21452770 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
21452785 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:21455268 original size:43 final size:42
Alignment explanation
Indices: 21455220--21455363 Score: 148
Period size: 42 Copynumber: 3.4 Consensus size: 42
21455210 TCCCAAATAC
* * * *
21455220 GGTCTTACATGTAA-TCTCGTATCAATGCTAATAGCCTAGCTAT
1 GGTCTTACACG-AAGTCTCATATCAATGC-AATACCCTAGATAT
* *
21455263 GGTCTTACACGAAGTCTCATATCGATGCCATACCCTAGATAT
1 GGTCTTACACGAAGTCTCATATCAATGCAATACCCTAGATAT
* * * *
21455305 GGTCTTACAAGAAGTCTCATATCGATTCCATATCCC-AGATAT
1 GGTCTTACACGAAGTCTCATATCAATGCAATA-CCCTAGATAT
*
21455347 GGTCTTACACGTAGTCT
1 GGTCTTACACGAAGTCT
21455364 TAGTAACCCT
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
42 64 0.72
43 25 0.28
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
GGTCTTACACGAAGTCTCATATCAATGCAATACCCTAGATAT
Found at i:21455306 original size:42 final size:43
Alignment explanation
Indices: 21455254--21455363 Score: 170
Period size: 42 Copynumber: 2.6 Consensus size: 43
21455244 ATGCTAATAG
*
21455254 CCTAGCTATGGTCTTACACGAAGTCTCATATCGATGCCATA-C
1 CCTAGATATGGTCTTACACGAAGTCTCATATCGATGCCATATC
* *
21455296 CCTAGATATGGTCTTACAAGAAGTCTCATATCGATTCCATATC
1 CCTAGATATGGTCTTACACGAAGTCTCATATCGATGCCATATC
*
21455339 CC-AGATATGGTCTTACACGTAGTCT
1 CCTAGATATGGTCTTACACGAAGTCT
21455364 TAGTAACCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 59 0.95
43 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (43 bp):
CCTAGATATGGTCTTACACGAAGTCTCATATCGATGCCATATC
Found at i:21463027 original size:15 final size:15
Alignment explanation
Indices: 21463001--21463045 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
21462991 TAAACTAAAA
21463001 AAAAAATCAAGTACTG
1 AAAAAAT-AAGTACTG
*
21463017 AAAAAATAAGTATTG
1 AAAAAATAAGTACTG
*
21463032 AAAAATTAAGTACT
1 AAAAAATAAGTACT
21463046 TTATGGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.24
Consensus pattern (15 bp):
AAAAAATAAGTACTG
Found at i:21463396 original size:16 final size:16
Alignment explanation
Indices: 21463364--21463411 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 16
21463354 ACATACATAA
*
21463364 AAAAATTAA-ATTATT
1 AAAAATTAATATTTTT
21463379 AAAAATTAATATTTTT
1 AAAAATTAATATTTTT
*
21463395 AATAATTTAATATTTTT
1 AA-AAATTAATATTTTT
21463412 GATAGTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 9 0.31
16 7 0.24
17 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAAATTAATATTTTT
Found at i:21466037 original size:3 final size:3
Alignment explanation
Indices: 21466029--21466833 Score: 1610
Period size: 3 Copynumber: 268.3 Consensus size: 3
21466019 TTCATGACAC
21466029 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466077 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466125 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466173 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466221 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466269 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466317 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466365 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466413 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466461 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466509 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466557 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466605 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466653 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466701 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466749 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
21466797 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
21466834 TATGAACCTA
Statistics
Matches: 802, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 802 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
AGT
Found at i:21475553 original size:6 final size:6
Alignment explanation
Indices: 21475538--21475639 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
21475528 AACCAAAATG
* *
21475538 AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
21475586 AGTAA-C AGAATC AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
21475635 AGAAT
1 AGAAT
21475640 GTGAATGTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
5 6 0.08
6 67 0.84
7 5 0.06
8 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:21475572 original size:30 final size:30
Alignment explanation
Indices: 21475538--21475639 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
21475528 AACCAAAATG
* *
21475538 AGAATTAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
21475568 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
* *
21475598 AGAATCAGAATTAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
21475629 AGAATCAGAAT
1 AGAATCAGAAT
21475640 GTGAATGTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.65
31 22 0.34
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:21475793 original size:27 final size:26
Alignment explanation
Indices: 21475756--21475821 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
21475746 AGCATGGCTG
*
21475756 CCAGAACAGATATCGTGACACAGTCA
1 CCAGAACAGATATCGTGACACAGCCA
* * *
21475782 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACACAGCCA
21475809 CCAGAATCAGATA
1 CCAGAA-CAGATA
21475822 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACACAGCCA
Found at i:21475836 original size:27 final size:27
Alignment explanation
Indices: 21475780--21475837 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
21475770 GTGACACAGT
* * *
21475780 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
21475807 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
21475834 CACC
1 CACC
21475838 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:21476042 original size:22 final size:22
Alignment explanation
Indices: 21475994--21476045 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
21475984 GTAAATACGT
*
21475994 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
21476016 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
21476038 TTGGCACA
1 TTGGCACA
21476046 GAACTATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:21476219 original size:27 final size:26
Alignment explanation
Indices: 21476143--21476222 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
21476133 ATCGGTCAAT
* * *
21476143 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
21476170 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
21476196 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
21476223 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:21476451 original size:27 final size:27
Alignment explanation
Indices: 21476421--21476616 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
21476411 GGGGCAAAAT
* * * *
21476421 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
21476448 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
21476475 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
21476502 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
21476529 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
21476556 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
21476583 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
21476610 AGTAATT
1 GGTAATT
21476617 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:21476651 original size:27 final size:27
Alignment explanation
Indices: 21476621--21477030 Score: 463
Period size: 27 Copynumber: 15.2 Consensus size: 27
21476611 GTAATTTCAC
*
21476621 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
21476648 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
21476675 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** ** * **
21476702 AATTAAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
21476729 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
21476756 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21476783 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
21476810 AATCGAAGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
21476837 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
21476864 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21476891 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
21476918 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
21476945 AA-CTAAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
21476972 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21476999 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
21477026 AATCG
1 AATCG
21477031 GGAGTACTTT
Statistics
Matches: 324, Mismatches: 47, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.03
27 307 0.95
28 8 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:21476697 original size:54 final size:54
Alignment explanation
Indices: 21476626--21477030 Score: 532
Period size: 54 Copynumber: 7.5 Consensus size: 54
21476616 TTCACAATCA
21476626 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTTTGTAAACTG
* * ** * **
21476680 AGGGTAAACCAGTAATTCTGTAAATTAAGGGTAAAATAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* ** * *
21476734 AGGGTAAAACGGTAATTTTACAAATCAAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
*
21476788 AGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTTTGTAAACTG
* * **
21476842 AGGGT-AAACTAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTTACAAA-TCG
1 AGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
21476896 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * *
21476950 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
21477004 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
21477031 GGAGTACTTT
Statistics
Matches: 304, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
53 7 0.02
54 289 0.95
55 8 0.03
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
Found at i:21476732 original size:81 final size:81
Alignment explanation
Indices: 21476625--21477028 Score: 519
Period size: 81 Copynumber: 5.0 Consensus size: 81
21476615 TTTCACAATC
* ** * *
21476625 AAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAACC
1 AAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAAC
21476690 AGTAATTCTGTAAATT
66 AGTAATTCTGTAAATT
* * ** *
21476706 AAGGGTAAAATAGTAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAA-TCAAGGGTAAAA
1 AAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACT-GAGGGTAAAA
*
21476770 CAGTAATTCTGTAAACT
65 CAGTAATTCTGTAAATT
* * ** * *
21476787 GAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACGATAATTTTGTAAACTGAGGGT-AAAC
1 AAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAAC
*
21476851 TAGTAATTCTGTAAATC
66 -AGTAATTCTGTAAATT
* *
21476868 AAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA-TCGAGGGTAAAA
1 AAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACT-GAGGGTAAAA
*
21476932 CAGTAATTCTGTAAACT
65 CAGTAATTCTGTAAATT
** *
21476949 AAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
1 AAGGGTAAAACAG-TAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAA
*
21477013 CGGTAATTCTGTAAAT
65 CAGTAATTCTGTAAAT
21477029 CGGGAGTACT
Statistics
Matches: 277, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
80 7 0.03
81 264 0.95
82 6 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
AAGGGTAAAACAGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAAC
AGTAATTCTGTAAATT
Found at i:21484475 original size:46 final size:46
Alignment explanation
Indices: 21484425--21484646 Score: 288
Period size: 46 Copynumber: 4.8 Consensus size: 46
21484415 TGTTTGGGCA
21484425 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
21484471 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
21484517 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * *
21484564 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21484610 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21484647 GCGGGTTACA
Statistics
Matches: 155, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 1 0.01
46 113 0.73
47 32 0.21
48 1 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21487910 original size:25 final size:26
Alignment explanation
Indices: 21487882--21487940 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
21487872 AATTTTCTCG
*
21487882 AAATTTTATTAGGG-TAAAATTGTCT
1 AAATTTTATTAGGGATAAAATTGTCA
* *
21487907 AAATTTTCTTTGGGATAAAATTGTCA
1 AAATTTTATTAGGGATAAAATTGTCA
21487933 AAATTTTA
1 AAATTTTA
21487941 CTCAAGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (26 bp):
AAATTTTATTAGGGATAAAATTGTCA
Found at i:21499045 original size:46 final size:46
Alignment explanation
Indices: 21498995--21499166 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
21498985 TGGGCATCCA
*
21498995 AACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAATGTCCG
1 AACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGTCCG
*** * * * *
21499041 AACTCGTTGAGTTGAGTTCGAGTTCCAGAGATGTA-ACTAGGCATCCG
1 AACTCGTTGAGTTGAGTTCGAGTT-CACTTATGGATACGA-ACGTCCG
* * * * * *
21499088 AGCTCATTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGTCCG
*
21499134 AGCTCGTTGAGTTGAG-TCTGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTTC-GAGTTCACTTATGG
21499167 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
45 1 0.01
46 65 0.66
47 32 0.33
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGTCCG
Found at i:21499146 original size:93 final size:93
Alignment explanation
Indices: 21498987--21499158 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
21498977 AGGATATTTG
* * * *
21498987 GGCATCCAAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
21499052 TTGAGT-TCGAGTTCCAGAGATGTAACTA
66 TTGAGTCT-GAGTTCCAGAGATGTAACTA
* * * * *
21499080 GGCATCCGAGCTCATTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
21499145 TTGAGTCTGAGTTC
66 TTGAGTCTGAGTTC
21499159 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCTGAGTTCCAGAGATGTAACTA
Found at i:21508283 original size:20 final size:20
Alignment explanation
Indices: 21508260--21508300 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21508250 TAGGGATCAA
* *
21508260 TTCAAACAAATATGAAAATT
1 TTCAAAAAAACATGAAAATT
21508280 TTCAAAAAAACATGAAAATT
1 TTCAAAAAAACATGAAAATT
21508300 T
1 T
21508301 GGGAAAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (20 bp):
TTCAAAAAAACATGAAAATT
Found at i:21512217 original size:40 final size:39
Alignment explanation
Indices: 21512167--21512292 Score: 173
Period size: 40 Copynumber: 3.2 Consensus size: 39
21512157 TGTAACAACC
21512167 TTTTCAACCTTTTCATTTGATATCAGTTTCAGATATATCA
1 TTTTCAACCTTTTCATTTGATATCA-TTTCAGATATATCA
* *
21512207 TTTTCAACCTTTTCATTTGATATCCATTTCGGATATATCC
1 TTTTCAACCTTTTCATTTGATAT-CATTTCAGATATATCA
* * *
21512247 TTTTCAAACTTTTCATTTGATA-CATTTTAGATATCTACA
1 TTTTCAACCTTTTCATTTGATATCATTTCAGATATAT-CA
21512286 TTTTCAA
1 TTTTCAA
21512293 GAATTCGGAG
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
38 11 0.14
39 8 0.10
40 56 0.73
41 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (39 bp):
TTTTCAACCTTTTCATTTGATATCATTTCAGATATATCA
Found at i:21517527 original size:6 final size:6
Alignment explanation
Indices: 21517518--21517542 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21517508 CATCATCTAT
21517518 TCAGAA TCAGAA TCAGAA TCAGAA T
1 TCAGAA TCAGAA TCAGAA TCAGAA T
21517543 TACACTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TCAGAA
Found at i:21522213 original size:42 final size:42
Alignment explanation
Indices: 21522111--21522269 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
21522101 ATTAAGTACA
* * *
21522111 ATGCCGACATCCCAGACATGGTCTTACATGTAATTCAATATCG
1 ATGCCGATATCCCAGACATGGTCTTACACGAAATTCAATA-CG
** * *
21522154 ATGCCTCTATCCTAGACAAGGTCTTACACGAAATT-AGATACG
1 ATGCCGATATCCCAGACATGGTCTTACACGAAATTCA-ATACG
* *
21522196 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAAT-CG
1 ATGCCGATATCCCAGACATGGTCTTACACG-AAAT-TCAATACG
* * * *
21522239 AGGCTTG-TGTCCCAGACACGGTCTTACACGA
1 ATGC-CGATATCCCAGACATGGTCTTACACGA
21522270 TGTCACAAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 28 0.30
43 61 0.65
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGCCGATATCCCAGACATGGTCTTACACGAAATTCAATACG
Found at i:21525767 original size:31 final size:30
Alignment explanation
Indices: 21525690--21525768 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
21525680 ACTAAAATGG
* **
21525690 AGGGCTTAATTAATTTTTAATTATTTTACG
1 AGGGCTTAATTATTTTTTAATTATTTTAAA
* *
21525720 AGAGCTCAATTAATTTTTTAATTATTTTAAA
1 AGGGCTTAATT-ATTTTTTAATTATTTTAAA
21525751 AGGGCTTAATTGATTTTT
1 AGGGCTTAATT-ATTTTT
21525769 AGAGATTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 9 0.22
31 31 0.77
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (30 bp):
AGGGCTTAATTATTTTTTAATTATTTTAAA
Found at i:21526244 original size:22 final size:21
Alignment explanation
Indices: 21526199--21526245 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
21526189 TTTTTGATAC
21526199 TTTTAATAAGATTTTATAACT
1 TTTTAATAAGATTTTATAACT
*
21526220 TTTTAAATAA-ATTTTATAAAT
1 TTTT-AATAAGATTTTATAACT
21526241 TTTTA
1 TTTTA
21526246 TATTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 18 0.75
22 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTAATAAGATTTTATAACT
Found at i:21529035 original size:10 final size:9
Alignment explanation
Indices: 21529011--21529073 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 9
21529001 AAAAATTGTG
21529011 AAAAAATACT
1 AAAAAATA-T
* *
21529021 GAAAAGTAT
1 AAAAAATAT
21529030 AAAAAATAT
1 AAAAAATAT
*
21529039 AAAAATTATT
1 AAAAAATA-T
* *
21529049 AGAAATTAT
1 AAAAAATAT
21529058 AAAAAATAAT
1 AAAAAAT-AT
21529068 AAAAAA
1 AAAAAA
21529074 ATTGTATCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 21 0.49
10 22 0.51
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.24
Consensus pattern (9 bp):
AAAAAATAT
Found at i:21529042 original size:28 final size:29
Alignment explanation
Indices: 21529011--21529073 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
21529001 AAAAATTGTG
21529011 AAAAAATACTGA-AAAGTATAAAAAAT-AT
1 AAAAAATA-TGAGAAAGTATAAAAAATAAT
* * *
21529039 AAAAATTATTAGAAATTATAAAAAATAAT
1 AAAAAATATGAGAAAGTATAAAAAATAAT
21529068 AAAAAA
1 AAAAAA
21529074 ATTGTATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 20 0.69
29 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.24
Consensus pattern (29 bp):
AAAAAATATGAGAAAGTATAAAAAATAAT
Found at i:21533044 original size:18 final size:17
Alignment explanation
Indices: 21533021--21533054 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21533011 TACTGAAGAC
*
21533021 TGACTGTTATTGATTATG
1 TGACTGTGATTG-TTATG
21533039 TGACTGTGATTGTTAT
1 TGACTGTGATTGTTAT
21533055 ACGATTGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.50
Consensus pattern (17 bp):
TGACTGTGATTGTTATG
Found at i:21543158 original size:46 final size:46
Alignment explanation
Indices: 21543060--21543206 Score: 154
Period size: 46 Copynumber: 3.2 Consensus size: 46
21543050 GGCTACATTA
* * ** * * *
21543060 TGTAAGACATGTCTGGGACATGGCATCAAAATCAAGATGAGT-GCTAG
1 TGTAAGACATGTCCGGGACAT-GCATCGACCTCGAGACGA-TAGCCAG
21543107 TGTAAGACATGTCCGGGACATGCATCGACCTCGAGACG-TAAGCCAG
1 TGTAAGACATGTCCGGGACATGCATCGACCTCGAGACGAT-AGCCAG
* * * *
21543153 TGTAAGACATGTCTGTGACATGCATCGGCCTCGAGATGATAGCCAG
1 TGTAAGACATGTCCGGGACATGCATCGACCTCGAGACGATAGCCAG
21543199 TGTAAGAC
1 TGTAAGAC
21543207 CATATATGGG
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
44 1 0.01
46 64 0.74
47 21 0.24
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCCGGGACATGCATCGACCTCGAGACGATAGCCAG
Found at i:21546674 original size:49 final size:49
Alignment explanation
Indices: 21546606--21546999 Score: 437
Period size: 49 Copynumber: 7.9 Consensus size: 49
21546596 ACTATTGTGA
* *
21546606 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
* * * * **
21546655 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-T-T
* * *
21546706 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
* * * * **
21546755 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-T-T
* * *
21546806 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
* * * * **
21546855 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-T-T
* * *
21546906 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
* * * *
21546955 GGTCGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
21547000 AGCTTCGGCT
Statistics
Matches: 279, Mismatches: 60, Indels: 12
0.79 0.17 0.03
Matches are distributed among these distances:
49 156 0.56
50 6 0.02
51 117 0.42
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
Found at i:21546786 original size:100 final size:100
Alignment explanation
Indices: 21546608--21546995 Score: 731
Period size: 100 Copynumber: 3.9 Consensus size: 100
21546598 TATTGTGAGG
* * * *
21546608 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
21546673 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
21546708 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
21546773 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
21546808 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
21546873 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
21546908 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
*
21546973 AAGTGCAGACTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
21546996 AGATAGCTTC
Statistics
Matches: 283, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 283 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:21554250 original size:14 final size:15
Alignment explanation
Indices: 21554233--21554261 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21554223 TCACGAAAAT
21554233 TTCACACAT-ATAAA
1 TTCACACATAATAAA
21554247 TTCACACATAATAAA
1 TTCACACATAATAAA
21554262 CAATGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:21565840 original size:21 final size:21
Alignment explanation
Indices: 21565816--21565858 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21565806 TTTTTGAGTG
21565816 TAAGCTTTCTATTTCTCTTGT
1 TAAGCTTTCTATTTCTCTTGT
21565837 TAAGCTTTCTATTTCTCTTGT
1 TAAGCTTTCTATTTCTCTTGT
21565858 T
1 T
21565859 TTATTTTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.09, T:0.58
Consensus pattern (21 bp):
TAAGCTTTCTATTTCTCTTGT
Found at i:21575993 original size:89 final size:90
Alignment explanation
Indices: 21575836--21576013 Score: 277
Period size: 89 Copynumber: 2.0 Consensus size: 90
21575826 CCTGTTCCAT
* *
21575836 GAAAACTTAAATATCTCTTAAATTACGACTCATATGATCATTTTGTTTCTTCCATATGAAAGTAG
1 GAAAACTTAAATATCTCTTAAAATACGACTCATATGATCATTTCGTTTCTTCCATATGAAAGTAG
21575901 ATTCA-CAAGGTTCGATTACATAAC
66 ATTCATCAAGGTTCGATTACATAAC
* ** * * *
21575925 GAAAACTTAAATATCTCTTAAAATATGACTCATATGATTGTTTCGTTTCTTCCATGTGAAATTCG
1 GAAAACTTAAATATCTCTTAAAATACGACTCATATGATCATTTCGTTTCTTCCATATGAAAGTAG
21575990 ATTCATCAAGGTTCGATTACATAA
66 ATTCATCAAGGTTCGATTACATAA
21576014 TTTATTAACT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 62 0.77
90 18 0.22
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (90 bp):
GAAAACTTAAATATCTCTTAAAATACGACTCATATGATCATTTCGTTTCTTCCATATGAAAGTAG
ATTCATCAAGGTTCGATTACATAAC
Found at i:21576862 original size:40 final size:39
Alignment explanation
Indices: 21576791--21576995 Score: 245
Period size: 40 Copynumber: 5.2 Consensus size: 39
21576781 AAACCAAGTA
* * * *
21576791 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCAGATATAG-TACTCGCACAAATG
21576830 CCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTA-CTCGCACAAATG
* *
21576870 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAGAAATG
1 CCTTCGGGACTTAGCCCAGATATAGT-ACTCGCACAAATG
*
21576910 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATA-TAGT-ACTCGCACAAATG
* *
21576950 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATA-TAGT-ACTCGCACAAATG
21576990 CCTTCG
1 CCTTCG
21576996 TTATCATCCG
Statistics
Matches: 151, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.10
40 135 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCAGATATAGTACTCGCACAAATG
Found at i:21576945 original size:80 final size:79
Alignment explanation
Indices: 21576791--21576995 Score: 274
Period size: 80 Copynumber: 2.6 Consensus size: 79
21576781 AAACCAAGTA
* * *
21576791 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCAGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAG
*
21576855 TAGCTCGCACAAATG
65 TAGCTAGCACAAATG
*
21576870 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAGAAATGCCTTCGGGACTTAGCCCAGA-ATTA
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATA-TA
21576934 GTCA-CTAGCACAAATG
64 GT-AGCTAGCACAAATG
*
21576950 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCG
21576996 TTATCATCCG
Statistics
Matches: 113, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
79 15 0.13
80 97 0.86
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
AGCTAGCACAAATG
Found at i:21581064 original size:47 final size:47
Alignment explanation
Indices: 21581006--21582105 Score: 2047
Period size: 47 Copynumber: 23.4 Consensus size: 47
21580996 CAGCCAAGAC
21581006 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581053 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581100 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581147 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581194 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581241 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581288 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581335 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581382 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581429 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581476 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581523 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581570 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581617 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581664 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581711 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581758 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21581805 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
21581852 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
21581899 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
21581946 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
21581993 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
21582040 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
21582087 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
21582106 TCCCGAAGGG
Statistics
Matches: 1026, Mismatches: 27, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 1026 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:21583486 original size:76 final size:76
Alignment explanation
Indices: 21583394--21583539 Score: 283
Period size: 76 Copynumber: 1.9 Consensus size: 76
21583384 AATTAGCAAA
21583394 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGA
1 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGA
21583459 AACTGTTCCCG
66 AACTGTTCCCG
*
21583470 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATTACGA
1 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGA
21583535 AACTG
66 AACTG
21583540 ATTTTCGAGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (76 bp):
ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATCACGA
AACTGTTCCCG
Found at i:21585901 original size:14 final size:14
Alignment explanation
Indices: 21585882--21585909 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21585872 AGAAATCCCT
21585882 AATTTATATTATTA
1 AATTTATATTATTA
21585896 AATTTATATTATTA
1 AATTTATATTATTA
21585910 TCTCTCTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTATATTATTA
Found at i:21591968 original size:70 final size:70
Alignment explanation
Indices: 21591882--21592018 Score: 229
Period size: 70 Copynumber: 2.0 Consensus size: 70
21591872 GCTGGCTAAC
*
21591882 TGCGTCACTGTAACCTTAAAAATCATATATTGAGTTACAAAACTCGAAAATCAGTTTCGTAAATT
1 TGCGTCACTGTAACCTTAAAAATCATATATTGAGTTACAAAACTCGAAAATCAGTTTCATAAATT
21591947 TTAAG
66 TTAAG
* * * *
21591952 TGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTCCAAAACTCGAAAATCAGTTTCATAATTT
1 TGCGTCACTGTAACCTTAAAAATCATATATTGAGTTACAAAACTCGAAAATCAGTTTCATAAATT
21592017 TT
66 TT
21592019 CCTTGAAACT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (70 bp):
TGCGTCACTGTAACCTTAAAAATCATATATTGAGTTACAAAACTCGAAAATCAGTTTCATAAATT
TTAAG
Found at i:21600276 original size:40 final size:40
Alignment explanation
Indices: 21600239--21600345 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
21600229 GCTACTCGTT
*
21600239 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
21600279 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
21600319 CAAATGCCTTCGGGACCTAACCCGGAT
1 CAAATGCCTTCGGGACATAACCCGGAT
21600346 ATCATTCGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 58 0.94
41 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Done.