Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 127 of 322
Found at i:41562618 original size:32 final size:32
Alignment explanation
Indices: 41562531--41562634 Score: 111
Period size: 32 Copynumber: 3.2 Consensus size: 32
41562521 TATACAACTG
* *
41562531 GAAAAGGAAATGTACA-ATGTGTGTGTACAACTT
1 GAAAAGGAAACGTACACCT-TGTGTGTAC-ACTT
* *
41562564 AAAAAGGAAACGTACACTTTGTGTGTACACTT
1 GAAAAGGAAACGTACACCTTGTGTGTACACTT
* * *
41562596 GAAAAGGAAAGGTACGCCTTGTGTGTACAATGT
1 GAAAAGGAAACGTACACCTTGTGTGTACACT-T
41562629 GAAAAG
1 GAAAAG
41562635 TGGTAACTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
32 30 0.49
33 30 0.49
34 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (32 bp):
GAAAAGGAAACGTACACCTTGTGTGTACACTT
Found at i:41562664 original size:31 final size:31
Alignment explanation
Indices: 41562627--41562712 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
41562617 TGTGTACAAT
* *
41562627 GTGAAAAGTGGTAACTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTAATCA
* * * **
41562658 GTGAAAAGTAGTAGCTCCAGCTAATTAATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTAATCA
*
41562689 GTGAATAGTGGTAGCTTCGGCTAC
1 GTGAAAAGTGGTAGCTTCGGCTAC
41562713 AATTGACAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTAATCA
Found at i:41562833 original size:27 final size:27
Alignment explanation
Indices: 41562802--41562866 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
41562792 TAGTTGAACT
* *
41562802 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGACAAAC
*
41562829 ATGGCAAAGTGATATAGTGTGACAAAC
1 ATGGCAAAGTGATAAAGTGTGACAAAC
*
41562856 ATAGCAAAGTG
1 ATGGCAAAGTG
41562867 TTCAGTGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGACAAAC
Found at i:41562939 original size:34 final size:34
Alignment explanation
Indices: 41562921--41562994 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
41562911 CATGGCACAG
*
41562921 TGTGAAACGTAGGTATGGTATTTCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATATCCATACCGAGT
* * *
41562955 TGTGAAACGTAGGTATGGTGTTTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATATCCATACCGAGT
41562989 TGTGAA
1 TGTGAA
41562995 TCATGGCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (34 bp):
TGTGAAACGTAGGTATGGTATATCCATACCGAGT
Found at i:41572201 original size:79 final size:81
Alignment explanation
Indices: 41572092--41572274 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
41572082 TACTCGTTCA
* * *
41572092 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATACCTTC-GGATCTTAACCCGG
* *
41572155 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
41572172 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATACCTTCGGATCTTAACCCGGA
* *
41572235 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
41572251 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41572275 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATACCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:41572274 original size:40 final size:40
Alignment explanation
Indices: 41572090--41572274 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
41572080 GCTACTCGTT
* * *
41572090 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
41572130 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
41572170 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* * *
41572209 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
41572250 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41572275 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:41580308 original size:39 final size:40
Alignment explanation
Indices: 41580194--41580378 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
41580184 GCTACTCGTT
*
41580194 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41580234 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
41580274 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
41580313 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41580354 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41580379 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41580362 original size:79 final size:81
Alignment explanation
Indices: 41580194--41580378 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
41580184 GCTACTCGTT
* *
41580194 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
41580258 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* ** *
41580275 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
41580337 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
41580354 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
41580379 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:41583155 original size:12 final size:12
Alignment explanation
Indices: 41583138--41583169 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
41583128 CGGGACACAC
41583138 GCCCATGTCTCT
1 GCCCATGTCTCT
41583150 GCCCATGTCTCT
1 GCCCATGTCTCT
*
41583162 ACCCATGT
1 GCCCATGT
41583170 GCTCAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.41, G:0.16, T:0.31
Consensus pattern (12 bp):
GCCCATGTCTCT
Found at i:41585991 original size:42 final size:42
Alignment explanation
Indices: 41585833--41585991 Score: 160
Period size: 42 Copynumber: 3.8 Consensus size: 42
41585823 TATACCAATG
** * *
41585833 CCATATCTTAGATATGGTCTTACATGTAATCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATA
* * *
41585875 CCAACAGCCCAGCTATGGTCTTACATG-AAGTCTCATATCGATA
1 CC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCGATA
* *** * *
41585918 CCATATCCCAGATATGATCTTACACAAAATCTCATATAGATT
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATA
41585960 CCATATCCCAGATATGGTCTTAC-TGGTAATCT
1 CCATATCCCAGATATGGTCTTACAT-GTAATCT
41585992 TAGTAACCTT
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
42 60 0.64
43 34 0.36
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATA
Found at i:41591459 original size:26 final size:26
Alignment explanation
Indices: 41591417--41591545 Score: 186
Period size: 26 Copynumber: 5.0 Consensus size: 26
41591407 CGGGCTACTG
* *
41591417 TATTATACCACATAGGCTTTCTTTCA
1 TATTACACCACACAGGCTTTCTTTCA
** * *
41591443 TATTATGCCTCACAGGCTTTCTTTTA
1 TATTACACCACACAGGCTTTCTTTCA
*
41591469 TATTACACCACACAAGCTTTCTTTCA
1 TATTACACCACACAGGCTTTCTTTCA
*
41591495 TATTACGCCACACAGGCTTTCTTTCA
1 TATTACACCACACAGGCTTTCTTTCA
41591521 TATTACACCACACAGGCTTTCTTTC
1 TATTACACCACACAGGCTTTCTTTC
41591546 TTGACGTGTT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 91 1.00
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.39
Consensus pattern (26 bp):
TATTACACCACACAGGCTTTCTTTCA
Found at i:41597352 original size:15 final size:15
Alignment explanation
Indices: 41597293--41597372 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 15
41597283 CAAAGATAAC
*
41597293 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
41597307 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * * *
41597322 GAGACACCCGGAATA
1 AAGAAATCCAGAATA
41597337 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
41597352 AAGAGATCTAGGATA
1 AAGAAATCCAGAATA
41597367 AAGAAA
1 AAGAAA
41597373 CCCAAGATAC
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
14 9 0.18
15 40 0.80
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.19, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:41597381 original size:15 final size:15
Alignment explanation
Indices: 41597304--41597381 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
41597294 AGAAAACCGA
41597304 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * **
41597319 ATAGAGACA-CCCGG
1 ATAAAGAAATCCAAG
41597333 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
41597348 AATAAAGAGATCTAGG
1 -ATAAAGAAATCCAAG
*
41597364 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
41597379 ATA
1 ATA
41597382 CGATACTATG
Statistics
Matches: 46, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
14 3 0.07
15 40 0.87
16 3 0.07
ACGTcount: A:0.54, C:0.15, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:41600478 original size:93 final size:93
Alignment explanation
Indices: 41600319--41600490 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
41600309 CGCCCATAAG
* * * *
41600319 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41600384 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
41600412 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41600477 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
41600491 TCAACCATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:41600487 original size:46 final size:46
Alignment explanation
Indices: 41600312--41600487 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
41600302 TGTAACCCGC
* * * *
41600312 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
41600358 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
41600408 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
41600451 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
41600488 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 29 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:41600941 original size:30 final size:30
Alignment explanation
Indices: 41600907--41600966 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41600897 ATTTAATACG
41600907 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
41600937 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
41600967 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:41606721 original size:43 final size:42
Alignment explanation
Indices: 41606646--41607337 Score: 228
Period size: 43 Copynumber: 16.3 Consensus size: 42
41606636 ATGGTGTCCA
* *
41606646 AGGCTCCCACACATCCAAGCACCAAGGTGCCAAT-GCTGCTCG
1 AGGCTCCCGCACATCCAAGCACCAAGGTGCCAATAG-TGCCCG
*
41606688 AGGCTCCCGCACATCCGAGGCACCAAGGTGCCAATAGTGCCCG
1 AGGCTCCCGCACATCC-AAGCACCAAGGTGCCAATAGTGCCCG
** * * *
41606731 AGGCTCCCGCACGA-CCAAGGC-CGTAGGTTACCGATGGTGCCCG
1 AGGCTCCCGCAC-ATCCAA-GCACCAAGG-TGCCAATAGTGCCCG
* * * * * **
41606774 AGGCTCCCACACGA-CCAAG-AGCCTAGGTTCCTGATGGTGTTCG
1 AGGCTCCCGCAC-ATCCAAGCA-CCAAGGTGCC-AATAGTGCCCG
* * * * *
41606817 AGGCTTCCGCACATCCAAGCACCAATGTGTCGATGGTGCCCG
1 AGGCTCCCGCACATCCAAGCACCAAGGTGCCAATAGTGCCCG
* * * * * * *
41606859 AGGCTCTCGCACGA-CCAAG-GCCTAGGTTACCGATGGTGCCTG
1 AGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCAATAGTGCCCG
* ** * * *
41606901 AGGCTCCCGCACGA-CCAGGGGCCTAGGTTGCCGATGGTGCCCG
1 AGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCAATAGTGCCCG
* ** * * * * **
41606944 AGGCTCTCGCACGA-CCAAGGGCCTAGGTTACCGATGGTGTTCG
1 AGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCAATAGTGCCCG
* * * *
41606987 AGGCTGCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCG
1 AGGCTCCCGCACATCCAAGCACCAAGGTGCCAATAGTGCCCG
* *** * * * *
41607029 AGGCTCCCGCACGA-CTAAGGGTCTAGGTTGCCGATGGTGTCC-
1 AGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCAATAGTGCCCG
* * ** *
41607071 AGGGCTGCCGCACATCCAAGCACCAAGGTACTGATAATGCCCG
1 A-GGCTCCCGCACATCCAAGCACCAAGGTGCCAATAGTGCCCG
** * ** *
41607114 AGGCTCCCAG-ACGA-CCAAGGGCCTAGGTGCTGATGGT-CCCG
1 AGGCTCCC-GCAC-ATCCAAGCACCAAGGTGCCAATAGTGCCCG
* ** * * * *
41607155 AGGCTCTCGCACGA-CCAAGGGCCTAGGTTACCGATGGTGCCCG
1 AGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCAATAGTGCCCG
* * ** * * * *
41607198 AGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCTG
1 AGGCTCCCGCACATCCAAGCACCAAGG-TGCCAATAGTGCCCG
* ** * * * * *
41607241 AGGCTCCCGCACGA-CCATGGGCCTAGGTTGTCGATGGTGTCCG
1 AGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCAATAGTGCCCG
* * * *
41607284 AGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCG
1 AGGCTCCCGCACATCCAAGCACCAAGGTGCCAATAGTGCCCG
41607326 AGGCTCCCGCAC
1 AGGCTCCCGCAC
41607338 GATTAGGGGC
Statistics
Matches: 529, Mismatches: 94, Indels: 54
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.00
41 32 0.06
42 178 0.34
43 314 0.59
44 4 0.01
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.16
Consensus pattern (42 bp):
AGGCTCCCGCACATCCAAGCACCAAGGTGCCAATAGTGCCCG
Found at i:41606873 original size:85 final size:84
Alignment explanation
Indices: 41606762--41607509 Score: 585
Period size: 85 Copynumber: 8.8 Consensus size: 84
41606752 CGTAGGTTAC
* * *
41606762 CGATGGTGCCCGAGGCTCCCACACGACCAAGAGCCTAGGTT-CCTGATGGTGTTCGAGGCTTCCG
1 CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACC-GATGGTG-TCGAGGCTGCCG
*
41606826 CACATCCAAGCACCAATGTGT
64 CACATCCAAGCACCAAGGTGT
* * *
41606847 CGATGGTGCCCGAGGCTCTCGCACGACCAA-GGCCTAGGTTACCGATGGTGCCTGAGGCTCCCGC
1 CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGTC-GAGGCTGCCGC
* ** * *
41606911 ACGA-CCAGGGGCCTAGGTTGC
65 AC-ATCCAAGCACCAAGG-TGT
*
41606932 CGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTACCGATGGTGTTCGAGGCTGCCGC
1 CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTG-TCGAGGCTGCCGC
41606997 ACATCCAAGCACCAAGGTGT
65 ACATCCAAGCACCAAGGTGT
* * * *
41607017 CGATGGTGCCCGAGGCTCCCGCACGACTAAGGGTCTAGGTTGCCGATGGTGTCCAGGGCTGCCGC
1 CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGTCGA-GGCTGCCGC
*
41607082 ACATCCAAGCACCAAGGT-A
65 ACATCCAAGCACCAAGGTGT
** * * **
41607101 CTGATAATGCCCGAGGCTCCCAG-ACGACCAAGGGCCTAGG-TGCTGATGGTCCCGAGGCT-CTC
1 C-GATGGTGCCCGAGGCTCCC-GCACGACCAAGGGCCTAGGTTACCGATGGTGTCGAGGCTGC-C
** *
41607163 GCACGA-CCAAGGGCCTAGGT-T
63 GCAC-ATCCAAGCACCAAGGTGT
* * * * *
41607184 ACCGATGGTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCTGAGGCTCCC
1 --CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGTC-GAGGCTGCC
* ** *
41607249 GCACGA-CCATGGGCCTAGGTTGT
63 GCAC-ATCCAAGCACCAAGG-TGT
* * ** * * *
41607272 CGATGGTGTCCGAGGCTCCCACAC-ATCCAAGCACCAAGG-TACCGATGGTGCCCGAGGCTCCCG
1 CGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTACCGATGGTG-TCGAGGCTGCCG
* * ** * *
41607335 CACGAT-TAGGGGCCTAGGT-A
64 CAC-ATCCAAGCACCAAGGTGT
* * * * * *
41607355 CTGATGGTGCCCGAGGCTCCCGCACAACCAAGGGCCTAAGTTACTGATGGTGCCCGAGGCTCCCA
1 C-GATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTG-TCGAGGCTGCCG
* ** * *
41607420 CACGAT-CATGGGCCTAGGTTGC
64 CAC-ATCCAAGCACCAAGG-TGT
* *
41607442 CGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTCA-GTTACCGATGGTGCCCGAGGCT-CCT
1 CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT-AGGTTACCGATGGTG-TCGAGGCTGCC-
41607505 GCACA
63 GCACA
41607510 ACCAGTGGCC
Statistics
Matches: 565, Mismatches: 68, Indels: 60
0.82 0.10 0.09
Matches are distributed among these distances:
82 1 0.00
83 23 0.04
84 115 0.20
85 262 0.46
86 158 0.28
87 5 0.01
88 1 0.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.17
Consensus pattern (84 bp):
CGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGTCGAGGCTGCCGCA
CATCCAAGCACCAAGGTGT
Found at i:41606959 original size:170 final size:170
Alignment explanation
Indices: 41606624--41607509 Score: 854
Period size: 170 Copynumber: 5.2 Consensus size: 170
41606614 CATCCAACGT
* * * * * *
41606624 CCTAGGTTGCCT-ATGGTGTCCAAGGCTCCCACACATCCAAGCACCAAGGTGCCAATGCTGCTCG
1 CCTAGGTT-CCTGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCG
* * * * * *
41606688 AGGCTCCCGCACATCCGAGGCACCAAGG-TGCCAATAGTGCCCGAGGCTCCCGCACGACCA-AGG
65 AGGCTCCCGCACAACCAAGG--CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCATGGG
* * *
41606751 CCGTAGGTTACCGATGGTGCCCGAGGCTCCCACACGACCAAGAG
128 CC-TAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* * *
41606795 CCTAGGTTCCTGATGGTGTTCGAGGCTTCCGCACATCCAAGCACCAATGTGTCGATGGTGCCCGA
1 CCTAGGTTCCTGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCGA
* * * * *
41606860 GGCTCTCGCACGACCAAGGCCTAGGTTACCGATGGTGCCTGAGGCTCCCGCACGACCAGGGGCCT
66 GGCTCCCGCACAACCAAGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCATGGGCCT
*
41606925 AGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAAGGG
131 AGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* *
41606965 CCTAGGTTACC-GATGGTGTTCGAGGCTGCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCG
1 CCTAGGTT-CCTGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCG
* * * * * * *
41607029 AGGCTCCCGCACGACTAAGGGTCTAGGTTGCCGATGGTGTCC-AGGGCTGCCGCAC-ATCCAAGC
65 AGGCTCCCGCACAACCAA-GGCCTAGGTTGCCGATGGTGCCCGA-GGCTCCCGCACGA-CCATGG
* * * * **
41607092 ACCAAGG-TACTGATAATGCCCGAGGCTCCCAG-ACGACCAAGGG
127 GCCTAGGTTGCCGATGGTGCCCGAGGCTCCC-GCACGACCAAGGG
* * * ** *
41607135 CCTAGG-TGCTGATGGT-CCCGAGGCTCTCGCACGA-CCAAGGGCCTAGGT-TACCGATGGTGCC
1 CCTAGGTTCCTGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGGTGT--CGATGGTGCC
* *
41607196 CGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCTGAGGCTCCCGCACGACCATGG
63 CGAGGCTCCCGCACAACCA-AGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCATGG
* * * **
41607261 GCCTAGGTTGTCGATGGTGTCCGAGGCTCCCACAC-ATCCAAGCA
127 GCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGG
* * * * * ** * *
41607305 CCAAGGTACC-GATGGTGCCCGAGGCTCCCGCACGAT-TAGGGGCCTAGGT-ACTGATGGTGCCC
1 CCTAGGTTCCTGATGGTGTCCGAGGCTCCCGCAC-ATCCAAGCACCAAGGTGTC-GATGGTGCCC
* * * * *
41607367 GAGGCTCCCGCACAACCAAGGGCCTAAGTTACTGATGGTGCCCGAGGCTCCCACACGATCATGGG
64 GAGGCTCCCGCACAACCAA-GGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCATGGG
*
41607432 CCTAGGTTGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGG
128 CCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
* *
41607475 CCTCA-GTTACC-GATGGTGCCCGAGGCTCCTGCACA
1 CCT-AGGTT-CCTGATGGTGTCCGAGGCTCCCGCACA
41607510 ACCAGTGGCC
Statistics
Matches: 597, Mismatches: 92, Indels: 53
0.80 0.12 0.07
Matches are distributed among these distances:
167 1 0.00
168 24 0.04
169 81 0.14
170 324 0.54
171 167 0.28
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (170 bp):
CCTAGGTTCCTGATGGTGTCCGAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCGA
GGCTCCCGCACAACCAAGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCATGGGCCT
AGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
Found at i:41607221 original size:297 final size:299
Alignment explanation
Indices: 41606686--41607551 Score: 1043
Period size: 297 Copynumber: 2.9 Consensus size: 299
41606676 CAATGCTGCT
* * * * * *
41606686 CGAGGCTCCCGCACATCCGAGGCACCAAGGTGCCAATAGTGCCCGAGGCTCCCGCACGACCAA-G
1 CGAGGCTCCCACACATCC-AAGCACCAAGGTACCGATGGTGCCCGAGGCTCCCGCACGACTAAGG
* * * * **
41606750 GCCGTAGGTTACCGATGGTGCCCGAGGCTCCCACACGACCAAG-AGCCT-AGGTTCCTGATGGTG
65 GCC-TAGG-TACCGATGGTGCCAGAGGCTCCCGCACAACCAAGCA-CCTAAGG-TACTGATAATG
** * * ** * * *
41606813 TTCGAGGCTTCCGCAC-ATCCAAGCACCAATG-TGTCGATGGTGCCCGAGGCTCTCGCACGACCA
126 CCCGAGGCTCCCACACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCA
* *
41606876 A-GGCCTAGGTTACCGATGGTGCCTGAGGCTCCCGCACGACCAGGGGCCTAGGTTGCCGATGGTG
190 AGGGCCTAGGTTACCGATGGTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTG
* *
41606940 CCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTACCGATGGTGTT
255 CCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGTC
* * **
41606985 CGAGGCTGCCGCACATCCAAGCACCAAGGTGTCGATGGTGCCCGAGGCTCCCGCACGACTAAGGG
1 CGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGAGGCTCCCGCACGACTAAGGG
* * * *
41607050 TCTAGGTTGCCGATGGTGTCCAG-GGCTGCCGCACATCCAAGCACC-AAGGTACTGATAATGCCC
66 CCTAGG-TACCGATGGTG-CCAGAGGCTCCCGCACAACCAAGCACCTAAGGTACTGATAATGCCC
* *
41607113 GAGGCTCCCAGACGACCAAGGGCCTAGG-TGCTGATGGT-CCCGAGGCTCTCGCACGACCAAGGG
129 GAGGCTCCCACACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAAGGG
*
41607176 CCTAGGTTACCGATGGTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCTG
194 CCTAGGTTACCGATGGTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCCG
* **
41607241 AGGCTCCCGCACGACCATGGGCCTAGGTTGTCGATGGTGTC
259 AGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGTC
* *
41607282 CGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGAGGCTCCCGCACGATTAGGGG
1 CGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGAGGCTCCCGCACGACTAAGGG
* * ** * **
41607347 CCTAGGTACTGATGGTGCCCGAGGCTCCCGCACAACCAAGGGCCTAAGTTACTGATGGTGCCCGA
66 CCTAGGTACCGATGGTGCCAGAGGCTCCCGCACAACCAAGCACCTAAGGTACTGATAATGCCCGA
* * * *
41607412 GGCTCCCACACGATCATGGGCCTAGGTTGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCC
131 GGCTCCCACACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCC
* * * * *
41607477 TCA-GTTACCGATGGTGCCCGAGGCTCCTGCACAACCAGTGGCCAAGTTTGCCGATGGTGTCCGA
196 T-AGGTTACCGATGGTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCCGA
**
41607541 TACTCCCGCAC
260 GGCTCCCGCAC
41607552 ATCTGAGGCA
Statistics
Matches: 490, Mismatches: 66, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
295 3 0.01
296 49 0.10
297 240 0.49
298 83 0.17
299 114 0.23
300 1 0.00
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.17
Consensus pattern (299 bp):
CGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGAGGCTCCCGCACGACTAAGGG
CCTAGGTACCGATGGTGCCAGAGGCTCCCGCACAACCAAGCACCTAAGGTACTGATAATGCCCGA
GGCTCCCACACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCC
TAGGTTACCGATGGTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCCGAG
GCTCCCGCACGACCAAGGGCCTAGGTTACCGATGGTGTC
Found at i:41607414 original size:43 final size:43
Alignment explanation
Indices: 41606724--41607551 Score: 814
Period size: 43 Copynumber: 19.4 Consensus size: 43
41606714 GGTGCCAATA
41606724 GTGCCCGAGGCTCCCGCACGACCAA-GGCCGTAGGTTACCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCC-TAGGTTACCGATG
* *
41606767 GTGCCCGAGGCTCCCACACGACCAAGAGCCTAGGTT-CCTGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACC-GATG
** * ** * *
41606810 GTGTTCGAGGCTTCCGCAC-ATCCAAGCACCAATGTGT--CGATG
1 GTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGT-TACCGATG
*
41606852 GTGCCCGAGGCTCTCGCACGACCAA-GGCCTAGGTTACCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
* * *
41606894 GTGCCTGAGGCTCCCGCACGACCAGGGGCCTAGGTTGCCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
*
41606937 GTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTACCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
** * ** *
41606980 GTGTTCGAGGCTGCCGCAC-ATCCAAGCACCAAGGTGT--CGATG
1 GTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGT-TACCGATG
* * *
41607022 GTGCCCGAGGCTCCCGCACGACTAAGGGTCTAGGTTGCCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
* * ** * * *
41607065 GTGTCC-AGGGCTGCCGCAC-ATCCAAGCACCAAGG-TACTGATA
1 GTGCCCGA-GGCTCCCGCACGA-CCAAGGGCCTAGGTTACCGATG
* * *
41607107 ATGCCCGAGGCTCCCAG-ACGACCAAGGGCCTAGG-TGCTGATG
1 GTGCCCGAGGCTCCC-GCACGACCAAGGGCCTAGGTTACCGATG
*
41607149 GT-CCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTACCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
* * *
41607191 GTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
* * **
41607234 GTGCCTGAGGCTCCCGCACGACCATGGGCCTAGGTTGTCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
* * ** *
41607277 GTGTCCGAGGCTCCCACAC-ATCCAAGCACCAAGG-TACCGATG
1 GTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTACCGATG
** * *
41607319 GTGCCCGAGGCTCCCGCACGATTAGGGGCCTAGG-TACTGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
* * *
41607361 GTGCCCGAGGCTCCCGCACAACCAAGGGCCTAAGTTACTGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
* * * *
41607404 GTGCCCGAGGCTCCCACACGATCATGGGCCTAGGTTGCCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
*
41607447 GTGCCCAAGGCTCCCGCACGACCAAGGGCCTCA-GTTACCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAGGGCCT-AGGTTACCGATG
* * * * *
41607490 GTGCCCGAGGCTCCTGCACAACC-AGTGGCCAAGTTTGCCGATG
1 GTGCCCGAGGCTCCCGCACGACCAAG-GGCCTAGGTTACCGATG
* **
41607533 GTGTCCGATACTCCCGCAC
1 GTGCCCGAGGCTCCCGCAC
41607552 ATCTGAGGCA
Statistics
Matches: 642, Mismatches: 116, Indels: 54
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.00
41 34 0.05
42 198 0.31
43 402 0.63
44 6 0.01
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (43 bp):
GTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTACCGATG
Found at i:41607503 original size:213 final size:213
Alignment explanation
Indices: 41606624--41607503 Score: 994
Period size: 213 Copynumber: 4.1 Consensus size: 213
41606614 CATCCAACGT
* * * * * *
41606624 CCTAGGTTGCCTATGGTGTCCAAGGCTCCCACACATCCAAGCACCAAGGTGCCAATGCTGCTCGA
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGA
** * * *
41606689 GGCTCCCGCAC-ATCCGAGGCACCAAGGTGCCAATAGTGCCCGAGGCTCCCGCACGACCAA-GGC
66 GGCTCCCGCACGA-CC-AGGGGCCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGC
* **
41606752 CGTAGGTTACCGATGGTGCCCGAGGCTCCCACACGACCAAGAGCCTAGGTT-CCTGATGGTGTTC
129 C-TAGGTTACCGATGGTGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCC-GATGGTGCCC
* **
41606816 GAGGCTTCCGCAC-ATCCAAGCA
192 GAGGCTCCCGCACGA-CCAAGGG
* * * * * * * * *
41606838 CCAATG-TGTCGATGGTGCCCGAGGCTCTCGCACGA-CCAAG-GCCTAGGTTACCGATGGTGCCT
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCACAC-ATCCAAGCACCAAGG-TACCGATGGTGCCC
*
41606900 GAGGCTCCCGCACGACCAGGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCTCGCACGACCAAGGG
64 GAGGCTCCCGCACGACCAGGGGCCTAGG-TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGG
** * * ** * *
41606965 CCTAGGTTACCGATGGTGTTCGAGGCTGCCGCAC-ATCCAAGCACCAAGG-TGTCGATGGTGCCC
128 CCTAGGTTACCGATGGTGCCCGAGGCTCCCACACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCC
*
41607028 GAGGCTCCCGCACGACTAAGGG
192 GAGGCTCCCGCACGACCAAGGG
* * * * **
41607050 TCTAGGTTGCCGATGGTGTCC-AGGGCTGCCGCACATCCAAGCACCAAGGTACTGATAATGCCCG
1 CCTAGGTTGCCGATGGTGTCCGA-GGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCG
* * *
41607114 AGGCTCCCAG-ACGACCAAGGGCCTAGGTGCTGATGGT-CCCGAGGCTCTCGCACGACCAAGGGC
65 AGGCTCCC-GCACGACCAGGGGCCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGC
* * * *
41607177 CTAGGTTACCGATGGTGCCCGAGGCTCCCGCACAACCAGGGGCCTAGGTTGCCGATGGTGCCTGA
129 CTAGGTTACCGATGGTGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGA
*
41607242 GGCTCCCGCACGACCATGGG
194 GGCTCCCGCACGACCAAGGG
*
41607262 CCTAGGTTGTCGATGGTGTCCGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGA
1 CCTAGGTTGCCGATGGTGTCCGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGA
** * * *
41607327 GGCTCCCGCACGATTAGGGGCCTAGGTACTGATGGTGCCCGAGGCTCCCGCACAACCAAGGGCCT
66 GGCTCCCGCACGACCAGGGGCCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
* * * * *
41607392 AAGTTACTGATGGTGCCCGAGGCTCCCACACGATCATGGGCCTAGGTTGCCGATGGTGCCCAAGG
131 AGGTTACCGATGGTGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGG
41607457 CTCCCGCACGACCAAGGG
196 CTCCCGCACGACCAAGGG
* *
41607475 CCTCA-GTTACCGATGGTGCCCGAGGCTCC
1 CCT-AGGTTGCCGATGGTGTCCGAGGCTCC
41607504 TGCACAACCA
Statistics
Matches: 561, Mismatches: 86, Indels: 39
0.82 0.13 0.06
Matches are distributed among these distances:
211 66 0.12
212 172 0.31
213 306 0.55
214 17 0.03
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (213 bp):
CCTAGGTTGCCGATGGTGTCCGAGGCTCCCACACATCCAAGCACCAAGGTACCGATGGTGCCCGA
GGCTCCCGCACGACCAGGGGCCTAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT
AGGTTACCGATGGTGCCCGAGGCTCCCACACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGG
CTCCCGCACGACCAAGGG
Found at i:41607895 original size:24 final size:24
Alignment explanation
Indices: 41607863--41607927 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
41607853 TTTATATTAT
41607863 GGGATGGCTCACCGGAGCACCGCC
1 GGGATGGCTCACCGGAGCACCGCC
* *
41607887 GGGATGGCTCACCGAAGCACCGTC
1 GGGATGGCTCACCGGAGCACCGCC
*
41607911 GGGATGGCATCGCCGGA
1 GGGATGGC-TCACCGGA
41607928 ATGGCTCGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 30 0.83
25 6 0.17
ACGTcount: A:0.18, C:0.32, G:0.38, T:0.11
Consensus pattern (24 bp):
GGGATGGCTCACCGGAGCACCGCC
Found at i:41611915 original size:40 final size:39
Alignment explanation
Indices: 41611860--41611996 Score: 177
Period size: 40 Copynumber: 3.5 Consensus size: 39
41611850 GGATGATAAC
* *
41611860 CGGGCTAAGTTCCGAAGGCATTTGTGTGAGTTACTATATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
41611900 CGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
41611940 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
41611979 CCGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
41611997 TACTCGGTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 19 0.22
40 66 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41612298 original size:55 final size:55
Alignment explanation
Indices: 41612232--41612341 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
41612222 ATATGAGATT
41612232 GTTCGTTTAGTCATATGAATGCTATACATCAGTTGTGCATGATTTCATTACTCAA
1 GTTCGTTTAGTCATATGAATGCTATACATCAGTTGTGCATGATTTCATTACTCAA
41612287 GTTCGTTTAGTCATATGAATGCTATACATCAGTTGTGCATGATTTCATTACTCAA
1 GTTCGTTTAGTCATATGAATGCTATACATCAGTTGTGCATGATTTCATTACTCAA
41612342 ACTTACTAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (55 bp):
GTTCGTTTAGTCATATGAATGCTATACATCAGTTGTGCATGATTTCATTACTCAA
Found at i:41618585 original size:195 final size:186
Alignment explanation
Indices: 41618218--41618590 Score: 507
Period size: 195 Copynumber: 2.0 Consensus size: 186
41618208 TAACTGAAAA
* *
41618218 TTTTCTTTTGGCCCAAAAGAAATACAAGAAACCGAATGAAATATGGCATGATGGCACGGCACAAC
1 TTTTCTGTTGGCCCAAAACAAATACAAGAAACCGAATGAAATATGGCATGATGGCACGGCACAAC
* *
41618283 AGAAAATTGAACAAGTGCCCGGAACACCAACAGTTGGGAGCTCGTACCCCGCACCACCACGGCCC
66 AGAAAATTGAACAAATGCCCGGAACACCAACAGTTGGGAGCTCGCACCCCGCACCACCACGGCCC
* * *
41618348 CCGCTGTGCCATGTTTCCCGAGGGGGCAGCACGGCCAAGTGTTTAACTTAGAAATT
131 CCGCTGTGCCATGTTTCCCGAAGAGGCAGCACGACCAAGTGTTTAACTTAGAAATT
*
41618404 TTTTCTGTTGGCCCAAAACAAATACAAGAAGCCGAAT-AAATTATGGCATGATGGCACGGCACGG
1 TTTTCTGTTGGCCCAAAACAAATACAAGAAACCGAATGAAA-TATGGCATGAT-----GGCACGG
* * *
41618468 CACGACACGGCAGAAAATTGAACAAATGCCTGGACCACCAACAGTTGGGAGCTCGCA-CTCGCAC
60 CAC-A-A---CAGAAAATTGAACAAATGCCCGGAACACCAACAGTTGGGAGCTCGCACCCCGCAC
* * *
41618532 CGCCACGGCCCCCGTTGTGCCATGTTTCTCGAAGAGGCAGCACGACCAAGTGTTTAACT
120 CACCACGGCCCCCGCTGTGCCATGTTTCCCGAAGAGGCAGCACGACCAAGTGTTTAACT
41618591 AACCCCTTAC
Statistics
Matches: 162, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
185 3 0.02
186 45 0.28
191 10 0.06
192 1 0.01
193 1 0.01
195 59 0.36
196 43 0.27
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (186 bp):
TTTTCTGTTGGCCCAAAACAAATACAAGAAACCGAATGAAATATGGCATGATGGCACGGCACAAC
AGAAAATTGAACAAATGCCCGGAACACCAACAGTTGGGAGCTCGCACCCCGCACCACCACGGCCC
CCGCTGTGCCATGTTTCCCGAAGAGGCAGCACGACCAAGTGTTTAACTTAGAAATT
Found at i:41626682 original size:35 final size:35
Alignment explanation
Indices: 41626643--41626713 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
41626633 TTTAGGATCA
*
41626643 CATATCTTTGAAGATCGCCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* *
41626678 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
41626713 C
1 C
41626714 TCTAGAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:41632874 original size:13 final size:13
Alignment explanation
Indices: 41632852--41632884 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
41632842 TTGCTTTAGT
41632852 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
41632864 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
41632877 TTAGTTTA
1 TTAGTTTA
41632885 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:41637893 original size:6 final size:6
Alignment explanation
Indices: 41637882--41637914 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
41637872 TCCTCCTATC
*
41637882 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
41637915 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:41637920 original size:18 final size:18
Alignment explanation
Indices: 41637882--41637921 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
41637872 TCCTCCTATC
* **
41637882 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
41637900 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
41637918 TTTT
1 TTTT
41637922 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:41640866 original size:13 final size:13
Alignment explanation
Indices: 41640844--41640876 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
41640834 TTACTTTACT
41640844 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
41640856 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
41640869 TTAGTTTA
1 TTAGTTTA
41640877 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:41645356 original size:18 final size:17
Alignment explanation
Indices: 41645332--41645367 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
41645322 CACATCATGA
*
41645332 CTAGACCACCACTCTTT
1 CTAGACCACAACTCTTT
41645349 CNTAGACCACAACTCTTT
1 C-TAGACCACAACTCTTT
41645367 C
1 C
41645368 CATTCGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.25, C:0.39, G:0.06, T:0.28
Consensus pattern (17 bp):
CTAGACCACAACTCTTT
Found at i:41646474 original size:46 final size:46
Alignment explanation
Indices: 41646406--41646728 Score: 251
Period size: 46 Copynumber: 6.9 Consensus size: 46
41646396 GACATTGGAT
* * * *
41646406 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC
1 GATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
* *
41646452 AATATGAGAGCTAGTGTAAGACATGTCTGGGATATGCATCAGCCTC
1 GATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
* * * * * *
41646498 AAGATGTTTA-AGCCAGTGTAAGACATGTCTGGGACATTCATCAGCGTT
1 --GAT-ATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
* * * *
41646546 GAGACGAGAGCTAGTGTAAGACATGACTGGGACATGCTTCAGCCTC
1 GATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
* * * *
41646592 GTGATAT-ACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTCAG-CTT
1 --GATATGA-GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTC
* * * * * *
41646640 GTTAT--GTGCCAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTC
1 GATATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTC
* *
41646685 GCTATATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 G--ATATGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
41646729 GGTATCTTAA
Statistics
Matches: 219, Mismatches: 44, Indels: 24
0.76 0.15 0.08
Matches are distributed among these distances:
44 30 0.14
45 4 0.02
46 78 0.36
47 4 0.02
48 65 0.30
49 20 0.09
50 18 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (46 bp):
GATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
Found at i:41646588 original size:94 final size:94
Alignment explanation
Indices: 41646418--41646629 Score: 262
Period size: 94 Copynumber: 2.3 Consensus size: 94
41646408 TATGTGTGCT
* * * *
41646418 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACGAGAGCTAGTGTAAGACATGACTGGG
* * **
41646483 ATATGCATCAGCCTCAAGATGTTTAAGCC
66 ACATGCATCAGCCTCAAGATATACAAGCC
* ****
41646512 AGTGTAAGACATGTCTGGGACATTCATCAGCGTTGAGACGAGAGCTAGTGTAAGACATGACTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACGAGAGCTAGTGTAAGACATGACTGGG
* ** *
41646577 ACATGCTTCAGCCTCGTGATATACAAGCT
66 ACATGCATCAGCCTCAAGATATACAAGCC
*
41646606 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
41646630 GCGTCAGCTT
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 99 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACGAGAGCTAGTGTAAGACATGACTGGG
ACATGCATCAGCCTCAAGATATACAAGCC
Found at i:41647207 original size:34 final size:34
Alignment explanation
Indices: 41647164--41647234 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
41647154 ACTAAATCAT
*
41647164 GTAAAGTGCAAAAGTTGCATTCTAATAGCTGAAG
1 GTAAAGTGCAAAAGTTACATTCTAATAGCTGAAG
41647198 GTAAAGTGCAAAAGTTACATTCTAATAGCTGAAG
1 GTAAAGTGCAAAAGTTACATTCTAATAGCTGAAG
41647232 GTA
1 GTA
41647235 TTAAATAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (34 bp):
GTAAAGTGCAAAAGTTACATTCTAATAGCTGAAG
Found at i:41648531 original size:48 final size:45
Alignment explanation
Indices: 41648426--41648553 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 45
41648416 ATGGATGTGT
* * *
41648426 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTCTGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATTGG-CAAATACTGAGA
*
41648472 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTAATAC-GAGA
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATTGGCA--AATACTGAGA
*
41648520 GCTAGTGTAAGACATGTCTGGGACATGCATTGGC
1 GCTAGTGTAAGACATGTTTGGGACATGCATTGGC
41648554 CTCGAGATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 19 0.26
47 29 0.40
48 21 0.29
49 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATTGGCAAATACTGAGA
Found at i:41648571 original size:48 final size:48
Alignment explanation
Indices: 41648426--41648698 Score: 229
Period size: 49 Copynumber: 5.7 Consensus size: 48
41648416 ATGGATGTGT
* * * *
41648426 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCAC-ATTCTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAATATGAGA
* * * * * *
41648472 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCAT-TAATACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAATATGAGA
*
41648520 GCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA-ATATG-AGA
* * *
41648568 GCTAGTGTAAGACCT-TCCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GCTAGTGTAAGACATGT-CTGGGACATGGCATCGGC-CTCGA-ATATGAGA
* * * * * *
41648617 GCTAGTATAAGACCTGTCTGGGATATGGCATCAGCCTCGATATTTGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA-ATATGAGA
*
41648666 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCG
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCG
41648699 ACTTAGATAT
Statistics
Matches: 187, Mismatches: 27, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
46 20 0.11
47 29 0.16
48 55 0.29
49 81 0.43
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAATATGAGA
Found at i:41648635 original size:97 final size:98
Alignment explanation
Indices: 41648426--41648700 Score: 260
Period size: 98 Copynumber: 2.9 Consensus size: 98
41648416 ATGGATGTGT
* * * * * * * *
41648426 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCAC-A-TTCTGAGAGCCAGTGTAAGACCAT
1 GCTAGTATAAGACATGTCTGGGACATGGCATCAGCCTCGAGATATGAAAGTCAGTGTAAGACC-T
* * * ** * *
41648488 GTTTGGGACATGGCATTGGCA-TTA-ATACGAGA
65 GTCTGGGACATGGCATCGACACCGATAGATGAGA
* ** *
41648520 GCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCTCGAGATATGCAAG-CTAGTGTAAGACCT
1 GCTAGTATAAGACATGTCTGGGACATGGCATCAGCCTCGAGATATGAAAGTC-AGTGTAAGACCT
41648583 -TCCTGGGACATGGCATCGACACCGATAGATGAGA
65 GT-CTGGGACATGGCATCGACACCGATAGATGAGA
* * * *
41648617 GCTAGTATAAGACCTGTCTGGGATATGGCATCAGCCTCGATATTTGAAAGTCAGTGTAAGACCTG
1 GCTAGTATAAGACATGTCTGGGACATGGCATCAGCCTCGAGATATGAAAGTCAGTGTAAGACCTG
41648682 TCTGGGACATGGCATCGAC
66 TCTGGGACATGGCATCGAC
41648701 TTAGATATGT
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
94 35 0.23
95 19 0.13
96 17 0.11
97 29 0.19
98 48 0.32
99 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (98 bp):
GCTAGTATAAGACATGTCTGGGACATGGCATCAGCCTCGAGATATGAAAGTCAGTGTAAGACCTG
TCTGGGACATGGCATCGACACCGATAGATGAGA
Found at i:41650697 original size:40 final size:40
Alignment explanation
Indices: 41650637--41650823 Score: 277
Period size: 40 Copynumber: 4.7 Consensus size: 40
41650627 CAATTGAGGA
*
41650637 TTATATCCGGGTTAACTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
41650677 TTATATCCGGGTTAAGTCCCGAAGGCA-TCTGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTC-GTGCTGGTTG
* *
41650717 TTATATCCAGATTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
41650757 TTATATCTGAGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
41650797 TTATATCCGGGCTAAATCCCGGAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
41650824 ATTGGGTTGG
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 128 0.97
41 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:41654560 original size:48 final size:48
Alignment explanation
Indices: 41654508--41655714 Score: 1209
Period size: 57 Copynumber: 22.9 Consensus size: 48
41654498 TATGTGTGTA
41654508 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* *
41654556 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTG-AA-A--TAT---ATATG-AGA-TATGTATATG
41654613 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
*
41654670 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
41654718 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
*
41654766 TGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATATG
* *
41654814 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTG-AA-A--TAT---ATATG-AGA-TATGTATATG
41654871 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41654928 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41654985 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41655042 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41655099 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41655156 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41655213 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41655270 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
41655327 TGGTAAAGCCGAATGGCTAGTGTGGCTAATGTGAAATATATATGAGATATGTATATG
1 TGGTAAAGCCG-A-----A---TGGCTAATGTGAAATATATATGAGATATGTATATG
*
41655384 TGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATATG
*
41655432 TGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATATG
*
41655480 TGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATATG
* *
41655528 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
*
41655576 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* *
41655624 TGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTTTATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATATG
* * *
41655672 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATATGT
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGT
41655715 GTATATTGTG
Statistics
Matches: 1100, Mismatches: 18, Indels: 82
0.92 0.01 0.07
Matches are distributed among these distances:
48 478 0.43
49 6 0.01
50 2 0.00
51 2 0.00
52 6 0.01
54 2 0.00
55 8 0.01
56 6 0.01
57 540 0.49
58 6 0.01
59 10 0.01
62 6 0.01
63 2 0.00
64 2 0.00
65 4 0.00
66 20 0.02
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
Found at i:41655446 original size:28 final size:28
Alignment explanation
Indices: 41655414--41655542 Score: 74
Period size: 28 Copynumber: 5.2 Consensus size: 28
41655404 TGTGAAATAT
41655414 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
41655442 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
41655462 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
41655490 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
41655510 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
41655538 GAATG
1 GAATG
41655543 GCTAGTGTGA
Statistics
Matches: 69, Mismatches: 16, Indels: 32
0.59 0.14 0.27
Matches are distributed among these distances:
20 16 0.23
21 8 0.12
22 8 0.12
26 8 0.12
27 8 0.12
28 21 0.30
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.29
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:41657135 original size:13 final size:13
Alignment explanation
Indices: 41657117--41657141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41657107 TAATGGTATA
41657117 TTGAATCCATGAT
1 TTGAATCCATGAT
41657130 TTGAATCCATGA
1 TTGAATCCATGA
41657142 AAATTTAGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:41659060 original size:47 final size:47
Alignment explanation
Indices: 41658992--41659145 Score: 254
Period size: 47 Copynumber: 3.3 Consensus size: 47
41658982 ACAAGATATG
*
41658992 TATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * **
41659039 TAAATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
41659086 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
41659133 TATATGTGATAAG
1 TATATGTGATAAG
41659146 TCCCGAAGGA
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:41663903 original size:23 final size:24
Alignment explanation
Indices: 41663873--41663923 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
41663863 CTGATCTATT
41663873 CATAGAAAAATAAAACTT-AAACA
1 CATAGAAAAATAAAACTTAAAACA
41663896 CATAGAAAAATAAAACTTAAAACA
1 CATAGAAAAATAAAACTTAAAACA
41663920 CATA
1 CATA
41663924 CACAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.65, C:0.14, G:0.04, T:0.18
Consensus pattern (24 bp):
CATAGAAAAATAAAACTTAAAACA
Found at i:41672246 original size:68 final size:66
Alignment explanation
Indices: 41672167--41672336 Score: 186
Period size: 64 Copynumber: 2.6 Consensus size: 66
41672157 CATCATGTGT
* * *
41672167 ACAAGAAAGCTATAAGACATTATGATGTAGGTAGGTCGTATGGGTGATACTATGTGTACACCATA
1 ACAAGAGAGCTATAAGACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATA
41672232 TAG
64 TAG
* * ** * *
41672235 ATAAGAGAGC--TACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACTATGTA
1 ACAAGAGAGCTATAAGACATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATA
41672298 G
66 G
* * *
41672299 ACAAGAGAGC--TACGGCATATATGTAGCTAGGTTGCATG
1 ACAAGAGAGCTATAAGACATATATGTAGCTAGGTCGCATG
41672337 CGTGGTTCCA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 75 0.83
65 3 0.03
66 4 0.04
68 8 0.09
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (66 bp):
ACAAGAGAGCTATAAGACATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATA
G
Found at i:41672260 original size:64 final size:64
Alignment explanation
Indices: 41672191--41672336 Score: 229
Period size: 64 Copynumber: 2.3 Consensus size: 64
41672181 AGACATTATG
* * * *
41672191 ATGTAGGTAGGTCGTATGGGTGATACTATGTGTACACCATATAGATAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAGAGAGCTACGGCATAT
* *
41672255 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACTATGTAGACAAGAGAGCTACGGCATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAGAGAGCTACGGCATAT
*
41672319 ATGTAGCTAGGTTGCATG
1 ATGTAGCTAGGTCGCATG
41672337 CGTGGTTCCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAGAGAGCTACGGCATAT
Found at i:41676309 original size:20 final size:20
Alignment explanation
Indices: 41676284--41676323 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
41676274 CTCTTGAAAT
41676284 AGGGCACACA-CCCGTGTGGA
1 AGGGCA-ACAGCCCGTGTGGA
41676304 AGGGCAACATGCCCGTGTGG
1 AGGGCAACA-GCCCGTGTGG
41676324 TCATTATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 6 0.33
21 9 0.50
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCAACAGCCCGTGTGGA
Found at i:41677668 original size:48 final size:47
Alignment explanation
Indices: 41677602--41677815 Score: 215
Period size: 46 Copynumber: 4.6 Consensus size: 47
41677592 AAGCTGACGC
* * *
41677602 CATGTCCCAGACAGGTCTTACACTAGGTTGTCTATCGT-GAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGGCTCTC-ATC-TCGAGGCCGATG
* * *
41677650 CATGTCCCAGACATGTCTTACACTA-ACTCTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGGCTCTCATCTCGAGGCCGATG
* * *
41677696 CATGTCCCAGACATGTCTTATACT-GGCT-TAAATATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGGCTCT---CATCTCGAGGCCGATG
* * * *
41677744 CATGTCCCAAACATATCTTACACT-GGCTCTCATACT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGGCTCTCAT-CTCGAGGCCGATG
41677790 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
41677816 CACACAAATG
Statistics
Matches: 137, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 67 0.49
47 6 0.04
48 61 0.45
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGGCTCTCATCTCGAGGCCGATG
Found at i:41677702 original size:94 final size:95
Alignment explanation
Indices: 41677602--41677815 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 95
41677592 AAGCTGACGC
* *** * *
41677602 CATGTCCCAGACAGGTCTTACACTAGG-TTGTCTATCGT-GAGGCCGATGCATGTCCCAGACATG
1 CATGTCCCAGACATGTCTTACACTAGGCTTAAATATC-TCGAGGCCGATGCATGTCCCAAACATA
41677665 TCTTACACTAACTCTCAT-CTCAAT-GCCGATG
65 TCTTACACTAACTCTCATACT--ATGGCCGATG
* *
41677696 CATGTCCCAGACATGTCTTATACT-GGCTTAAATATCTCGAGGTCGATGCATGTCCCAAACATAT
1 CATGTCCCAGACATGTCTTACACTAGGCTTAAATATCTCGAGGCCGATGCATGTCCCAAACATAT
** * *
41677760 CTTACACTGGCTCTCATACTGTGGCTGATG
66 CTTACACTAACTCTCATACTATGGCCGATG
41677790 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
41677816 CACACAAATG
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
93 4 0.04
94 95 0.93
95 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (95 bp):
CATGTCCCAGACATGTCTTACACTAGGCTTAAATATCTCGAGGCCGATGCATGTCCCAAACATAT
CTTACACTAACTCTCATACTATGGCCGATG
Found at i:41685390 original size:46 final size:46
Alignment explanation
Indices: 41685282--41685448 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 46
41685272 AAACTGACGC
* * * * * *
41685282 CATGTCCCAGACAGGTCTTACACTAACTTATCTATCGCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTC-ATCACAATGTCGATG
* * * * *
41685330 CTTATCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCACAATGTCGATG
* *
41685376 CATGTCCCAGACATGTCTTACACTAGCTCTCAT-ACAGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCACAATGTC-GATG
*
41685422 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
41685449 ACACAAATGG
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
45 5 0.05
46 70 0.70
47 3 0.03
48 22 0.22
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCACAATGTCGATG
Found at i:41691069 original size:40 final size:40
Alignment explanation
Indices: 41690992--41691208 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
41690982 AAACCAAGTA
* * * *
41690992 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
41691031 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41691071 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41691111 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
41691151 CCTTCGGG-CTTAGCCGGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
41691190 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41691209 TTATCATCCA
Statistics
Matches: 162, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 47 0.29
40 114 0.70
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41694787 original size:15 final size:15
Alignment explanation
Indices: 41694752--41694787 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
41694742 TTACTTCTTC
*
41694752 TTCCACATCCACGAA
1 TTCCACATCCACAAA
*
41694767 TACCACATCCACAAA
1 TTCCACATCCACAAA
41694782 TTCCAC
1 TTCCAC
41694788 GAGCAGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.42, G:0.03, T:0.19
Consensus pattern (15 bp):
TTCCACATCCACAAA
Found at i:41697948 original size:14 final size:14
Alignment explanation
Indices: 41697929--41697956 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41697919 GGGTAAAATG
41697929 AATTAAAAGACAAA
1 AATTAAAAGACAAA
41697943 AATTAAAAGACAAA
1 AATTAAAAGACAAA
41697957 TCTGTCAATC
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:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AATTAAAAGACAAA
Found at i:41700667 original size:23 final size:23
Alignment explanation
Indices: 41700641--41700690 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
41700631 TTTTCATTTG
*
41700641 GTTTTCTACCCAAATTATCTCAC
1 GTTTTATACCCAAATTATCTCAC
41700664 GTTTTATACCCAAATTATCTCAC
1 GTTTTATACCCAAATTATCTCAC
41700687 -TTTT
1 GTTTT
41700691 GTTCCTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.44
Consensus pattern (23 bp):
GTTTTATACCCAAATTATCTCAC
Found at i:41703695 original size:90 final size:90
Alignment explanation
Indices: 41703540--41703715 Score: 289
Period size: 90 Copynumber: 2.0 Consensus size: 90
41703530 GAGAAGTTAG
*
41703540 AATGGTTTTGCCATGAAGGGTTATAGAAGTTAGACTGTGGTCCCTGCCCACTTCTATTCTGATTT
1 AATGGTTTCGCCATGAAGGGTTATAGAAGTTAGACTGTGGTCCCTGCCCACTTCTATTCTGATTT
41703605 TAATATCCTACATAGTAGACTGATA
66 TAATATCCTACATAGTAGACTGATA
* * ** *
41703630 AATGGTTTCGCCATGAGGGGTTATAGAAGTTGGACTGTGGTCTTTGCCCACTTCTATTCTTATTT
1 AATGGTTTCGCCATGAAGGGTTATAGAAGTTAGACTGTGGTCCCTGCCCACTTCTATTCTGATTT
*
41703695 TAATTTCCTACATAGTAGACT
66 TAATATCCTACATAGTAGACT
41703716 AACTCTAGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (90 bp):
AATGGTTTCGCCATGAAGGGTTATAGAAGTTAGACTGTGGTCCCTGCCCACTTCTATTCTGATTT
TAATATCCTACATAGTAGACTGATA
Found at i:41709900 original size:23 final size:23
Alignment explanation
Indices: 41709871--41709918 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
41709861 CATGTGTTCT
41709871 CTTCATCAAACACAATATCTTCG
1 CTTCATCAAACACAATATCTTCG
41709894 CTTCATCAAACACAATATCTTCG
1 CTTCATCAAACACAATATCTTCG
41709917 CT
1 CT
41709919 AATCACAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (23 bp):
CTTCATCAAACACAATATCTTCG
Found at i:41715638 original size:109 final size:109
Alignment explanation
Indices: 41715441--41715641 Score: 303
Period size: 109 Copynumber: 1.8 Consensus size: 109
41715431 ACTTTGAAGA
* *
41715441 TTTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
** * *
41715506 TCTCGATTTTTCTAAATACGAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
* * *
41715550 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
**
41715615 TCTCGAACTTTCCAAACGTGAAATATT
66 TCTCGAACTTTCCAAACACGAAATATT
41715642 GCTTTTACGA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
Found at i:41715843 original size:3 final size:3
Alignment explanation
Indices: 41715826--41715876 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
41715816 AATGTAAGAG
* * * * *
41715826 AAT AAT AA- AAG AAT AAT AAT TAT AAT AGT AAA AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
41715873 AAT A
1 AAT A
41715877 GCTAAGTGGG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:41715973 original size:21 final size:21
Alignment explanation
Indices: 41715949--41715988 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41715939 TAAAGAAAAA
* *
41715949 AATATATATATTAATAATAGT
1 AATAAATATAATAATAATAGT
*
41715970 AATAAATATAATAGTAATA
1 AATAAATATAATAATAATA
41715989 AATAGAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AATAAATATAATAATAATAGT
Found at i:41715980 original size:15 final size:15
Alignment explanation
Indices: 41715962--41715992 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
41715952 ATATATATTA
41715962 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
41715977 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
41715992 A
1 A
41715993 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:41716002 original size:25 final size:25
Alignment explanation
Indices: 41715942--41716020 Score: 63
Period size: 24 Copynumber: 3.1 Consensus size: 25
41715932 ATAGCACTAA
* *
41715942 AGAAAAAAATATATATATTAATAAT
1 AGAAAATAATATATATAGTAATAAT
*
41715967 AG-TAATAA-ATATAATAGTAATAAAT
1 AGAAAATAATATAT-ATAGTAAT-AAT
* *
41715992 AGAAAATAATAGTACATTAATAATAAT
1 AGAAAATAATA-TATA-TAGTAATAAT
41716019 AG
1 AG
41716021 TATATGTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 4 0.10
24 11 0.26
25 7 0.17
26 5 0.12
27 7 0.17
28 8 0.19
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (25 bp):
AGAAAATAATATATATAGTAATAAT
Found at i:41716345 original size:19 final size:17
Alignment explanation
Indices: 41716310--41716369 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
41716300 AAAAATAGTG
41716310 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
*
41716327 GTAATATAACAAGAGAATA
1 ATAATATAAC-A-AGAATA
* *
41716346 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
41716364 ATAATA
1 ATAATA
41716370 ATAGTAATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 10 0.28
18 11 0.31
19 11 0.31
20 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:41716350 original size:3 final size:3
Alignment explanation
Indices: 41716342--41716414 Score: 83
Period size: 3 Copynumber: 23.3 Consensus size: 3
41716332 ATAACAAGAG
*
41716342 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT AAT
* * *
41716390 AAT AAT AAT GAT ACT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
41716415 TAAATAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 55 0.93
4 1 0.02
5 1 0.02
6 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:41717346 original size:13 final size:13
Alignment explanation
Indices: 41717328--41717385 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
41717318 TCGCGAAGAG
41717328 AAAGAAAAAAATA
1 AAAGAAAAAAATA
* *
41717341 AAAG-AAAATACA
1 AAAGAAAAAAATA
41717353 AAAGAAAAAAACTA
1 AAAGAAAAAAA-TA
41717367 AATA-AAAATAAA-A
1 AA-AGAAAA-AAATA
41717380 AAAGAA
1 AAAGAA
41717386 CCAAGAACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 11 0.31
13 14 0.39
14 7 0.19
15 4 0.11
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAGAAAAAAATA
Found at i:41717362 original size:25 final size:26
Alignment explanation
Indices: 41717328--41717381 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
41717318 TCGCGAAGAG
*
41717328 AAAGAAAAAAA-TAAA-AGAAAATACA
1 AAAGAAAAAAACTAAATA-AAAATAAA
41717353 AAAGAAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAACTAAATAAAAATAAA
41717379 AAA
1 AAA
41717382 AGAACCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.42
26 14 0.54
27 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (26 bp):
AAAGAAAAAAACTAAATAAAAATAAA
Found at i:41717363 original size:20 final size:19
Alignment explanation
Indices: 41717340--41717385 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
41717330 AGAAAAAAAT
41717340 AAAAGAAAATACAAAAGAAA
1 AAAAGAAAATA-AAAAGAAA
** *
41717360 AAAACTAAATAAAAATAAA
1 AAAAGAAAATAAAAAGAAA
41717379 AAAAGAA
1 AAAAGAA
41717386 CCAAGAACAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAGAAAATAAAAAGAAA
Found at i:41717720 original size:49 final size:49
Alignment explanation
Indices: 41717661--41717758 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
41717651 GTCAGACGGT
41717661 ATGGGACTGTTGTAGTGGAGGTATGGGGCTGTTGTAGTGGGGGTATGGG
1 ATGGGACTGTTGTAGTGGAGGTATGGGGCTGTTGTAGTGGGGGTATGGG
41717710 ATGGGACTGTTGTAGTGGAGGTATGGGGCTGTTGTAGTGGGGGTATGGG
1 ATGGGACTGTTGTAGTGGAGGTATGGGGCTGTTGTAGTGGGGGTATGGG
41717759 GTTTGGTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.14, C:0.04, G:0.51, T:0.31
Consensus pattern (49 bp):
ATGGGACTGTTGTAGTGGAGGTATGGGGCTGTTGTAGTGGGGGTATGGG
Found at i:41717759 original size:22 final size:22
Alignment explanation
Indices: 41717658--41717759 Score: 132
Period size: 22 Copynumber: 4.4 Consensus size: 22
41717648 GGGGTCAGAC
*
41717658 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
41717680 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
41717702 GGTATGGGATGGGACTGTTGTAGTGGA
1 GGTAT--G--GGG-CTGTTGTAGTGGA
*
41717729 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
41717751 GGTATGGGG
1 GGTATGGGG
41717760 TTTGGTATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
22 46 0.65
23 3 0.04
24 1 0.01
25 1 0.01
26 3 0.04
27 17 0.24
ACGTcount: A:0.14, C:0.04, G:0.52, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:41722854 original size:19 final size:20
Alignment explanation
Indices: 41722830--41722873 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
41722820 CGTGAAAGTC
* *
41722830 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
41722849 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
41722869 -AATGC
1 TAATGC
41722874 CGAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:41730651 original size:46 final size:45
Alignment explanation
Indices: 41730484--41730657 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
41730474 GATGGTTGAG
41730484 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
** * * * * *
41730529 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGC-A-A
*
41730576 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AA
* * *
41730622 CACCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41730658 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
44 1 0.01
45 30 0.29
46 41 0.40
47 30 0.29
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (45 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
Found at i:41740956 original size:58 final size:59
Alignment explanation
Indices: 41740864--41740985 Score: 165
Period size: 58 Copynumber: 2.1 Consensus size: 59
41740854 TCCCTCTCTA
** * * *
41740864 ATCCCAAAAGGTAGAATTTGGGTACCGTTACATGTTCGGTACCCAATAATGAATCAATC
1 ATCCCAAAAGGTAGAATTCAGATACCGTTACATGTCCGGTACCCAACAATGAATCAATC
* *
41740923 ATCCC-AAAGGTAGAATTCAGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATC
1 ATCCCAAAAGGTAGAATTCAGATACCGTTACATGTCCGGTACCCAACAATGAATCAATC
*
41740981 GTCCC
1 ATCCC
41740986 TGTCCCTCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 50 0.91
59 5 0.09
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (59 bp):
ATCCCAAAAGGTAGAATTCAGATACCGTTACATGTCCGGTACCCAACAATGAATCAATC
Found at i:41741701 original size:42 final size:42
Alignment explanation
Indices: 41741630--41741722 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
41741620 AACTAGGCCA
* * *
41741630 TTGGTTGTGCGGGAGCCTCGGGCATCATCAGCACCTTGGTGC
1 TTGGATGTGCGGAAGCCTCGGGCACCATCAGCACCTTGGTGC
*
41741672 TTGGATGTGCGGAAGCCTCGGGGACCATCAGCACCTTGGTGC
1 TTGGATGTGCGGAAGCCTCGGGCACCATCAGCACCTTGGTGC
*
41741714 TTAGATGTG
1 TTGGATGTG
41741723 TGAGTGCCTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.15, C:0.24, G:0.35, T:0.26
Consensus pattern (42 bp):
TTGGATGTGCGGAAGCCTCGGGCACCATCAGCACCTTGGTGC
Found at i:41741792 original size:43 final size:43
Alignment explanation
Indices: 41741593--41744589 Score: 2147
Period size: 43 Copynumber: 70.3 Consensus size: 43
41741583 TGCCTCAGAT
* * * * * *
41741593 GTGCGGGAGCCTCGGACACCATTGGTAAACTAGGCCATTGGTT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * **
41741636 GTGCGGGAGCCTCGGGCATCATCAGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * * ** *
41741678 GTGCGGAAGCCTCGGGGACCATCAGC-ACCTTGGTGCTTAGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTC
* * * * **
41741720 GTGTGAGTGCCTC-GGCGCCATCGAAAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
41741762 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41741805 ATGCGAGAGCCTTGGACACTATC--CAACCTAGGCCCCTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* *
41741846 GTGCGGGAGCCTCAGGCACCATCGGCAACCAAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
41741889 GTGCGAGAGCCTCGGG-ACCATTGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
*
41741931 GTGCGGGAGCCTTGGGCACCATCGGC-ACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41741973 GTGTGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCTTTGCTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * ** *
41742015 GTGCAGGAGCCTCGGGCACCATTGG-TACATTGGTGCTTAGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTC
* * * *
41742057 GTGCGGGAGCCTCAGCCACCATCGGCAA-CTGAGGCCCCTAGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCT-AGGCCCTTGGTC
* * * *
41742100 GTGCGGGAGCCTCGAGTACCATCAGCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* **
41742143 GTACAAGAGCCTCGGG-ACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41742185 GTGTGGGAGCCTCGGACACTATCGGC-ACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * ** * ***
41742227 ATGTGGGAGCCTCGGGCACCACCAAC-ACCTCGATACTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* **
41742269 GTGCGAGAGCCTCGGGCACCATCCACAACC-AGGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTA-GGCCCTTGGTC
* * * * * **
41742312 ATGCGGCAGCCTCGGGCACCATCGGTAACGTAGGCCCCTAATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41742355 TTGCGAGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41742398 GTGTGAGAGCCTTGAG-ACCATCGAC-ACCTAGGCCTTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * **
41742439 ATGCGGGAGCCTCAGGCAGCATCGGCATA--TTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCA-ACCTAGGCCCTTGG-TC
* * *
41742481 GTGCGGGAGCCTCGGACACCATCGGCAACCTAAGCCCTTGATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * *
41742524 ATGCGGGAGCCTCAGGCATCATCGGTAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * **
41742567 GTGCGAGAGCCTCGGGCACCATCGG-TACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * *
41742609 GTACGGGAGCTTCGGGCACTATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * ** *
41742652 GTCCAGGAGCCTCGAGTAGTAAT-GGCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCA-CCATCGGCAACCTAGGCCCTTGGTC
*
41742695 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTG
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41742738 GTACGAGAGCCTCGGG-ATCATCAG-TACCTAAGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * ** *
41742779 GTGCAGGAACCTCGGGCACCATCGGC-ACCTTGGTACTTGAAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTG-GTC
* * * * * * * *
41742821 GTACGGGAGTCTCGGACACCATCAGCAACCTAGGACATCGGTG
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * ** * * * ** *
41742864 GTACGAGAGCCTCAAGTAGCATCGGC-ACCTTGGTGCTCGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * * * * *
41742906 GTGTGGGAGCCTCGAGCAGCATCGG-TACCTTGGTACCTCGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TC
* * * * * * *
41742949 GTGTGGAAGCCTCGGACACCATCGGTAAACTAGGCCATTGGTT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * **
41742992 GTGCGGGAGCCTCAGGCACTATCAGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * * **
41743034 GTGC-AGATGCCTCGGGGACCATCGGC-ACTTTGGTGCTTGGAT-
1 GTGCGGGA-GCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * *
41743076 GTGCGAGAGCCTC-GGCGCCATC-GAAATCCTAGGCCCTTGGTT
1 GTGCGGGAGCCTCGGGCACCATCGGCAA-CCTAGGCCCTTGGTC
* * * *
41743118 GTGCGGGAGTCGCGAGCACCATCGGCAACCTAGGCCTTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41743161 TTGCGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* ** * *
41743204 ATGCGGGAGCCTTAGGCACCATCAGCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41743247 TTGCGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41743290 ATGCGAGAGTCTCGGG-ACCATTGGC-ACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * **
41743331 GTACGGGAGCCTCAGGCA-CATCGGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * *
41743372 GTACGGAAGCCTTGGACACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * *
41743415 GTACTGGAGCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * **
41743458 GTGCGGGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * *
41743500 GTGCGGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * **
41743543 GTGCGGGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * *
41743585 GTGCGGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* **
41743628 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCATCAGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
** * * * * *
41743671 GTATGAGAGCCTCGGG-ACTATCAGCAACCTAGGCCCCTAGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41743713 TTGCGGGAGCCTCGGGCACTATCGGTAACATAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41743756 ATGCGAGAGTCTCGGG-ACCATTGGC-ACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* ** * * **
41743797 GTACGGGAGCCTAAGGCACCATCAGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * ** *
41743839 ATACGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTCGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * *
41743882 GTGCTGAAGCCTCGGACACCATCGGTAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * **
41743925 GTGCGGAAGCTTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* *
41743967 GTGCGGGAGCCTCGGGCACCATCTGCAATCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * * *
41744010 GTACAGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* ***
41744053 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGATGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
** *
41744095 GTGCGGGAGCCTCGAACACCATCGGTAACCTAGGCCCTTGGTCGTGTAGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCC----T--TG--GTC
* ***
41744146 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGATGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
** *
41744188 GTGCGGGAGCCTCGAACACCATCGGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
*
41744231 GTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCTAGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-G----GTC
*
41744279 GTGCGGAAGCCTCGGGCACCATCGGCAACCTAGG-CCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
** * * **
41744321 GTGCGAAAGCCTCGGGCACCATCGAC-ACCTTGGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * *
41744363 GTGCGGGAGCCTCGGACACCATCGACAACCTAGGCCCTTGGTA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
*** * * *
41744406 GTGTAAGAGCCTCGGGCACCATCGGTAATCTAGGCCCTTGCTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41744449 GTACGGGAGCCTCGAGCACCATCGGC-ACCTTGGTGCCTCAGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCT-TGGTC
* * * ** **
41744492 GTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTCGTGCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * * *
41744534 GTGCGGGAGCCTCGGACACCGTAGGCAACCTAGGACGTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
*
41744577 GTGCGGGTGCCTC
1 GTGCGGGAGCCTC
41744590 AAGCAGTAGG
Statistics
Matches: 2312, Mismatches: 544, Indels: 196
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.00
41 193 0.08
42 892 0.39
43 1132 0.49
44 19 0.01
46 2 0.00
47 5 0.00
48 35 0.02
49 2 0.00
50 7 0.00
51 24 0.01
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.20
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
Found at i:41741797 original size:169 final size:165
Alignment explanation
Indices: 41741593--41744430 Score: 1001
Period size: 169 Copynumber: 16.6 Consensus size: 165
41741583 TGCCTCAGAT
** * * * *
41741593 GTGCGGGAGCCTCG-GACACCATTGGTAAACTAGGCCATTGGTTGTGCGGGAGCCTCGGGCATCA
1 GTGCGGGAGCCTCGAG-CACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CA
* * * *
41741657 TCAGCACCTTGGTGCTTGGATGTGCGGAAGCCTCGGGGACCATCAGCACCTTGGTGCTTAGATGT
64 TC-GCACCTAGG-CCTTGGATGTGCGG-AGCCTCGGGCACCATCGGCACCTTGGTGCTTAGATGT
* * **
41741722 GTGAGTGCCTCGGCGCCATCGAAAACCTAGGCCCTTGGTC
126 GCGAGAGCCTCGGCGCCATCGGCAACCTAGGCCCTTGGTC
* * * *
41741762 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCATGCGAGAGCCTTGGACACTAT
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCAC-AT
* * ** ** *
41741827 C-CAACCTAGGCCCCTGGATGTGCGGGAGCCTCAGGCACCATCGGCAACCAAGGCCCTT-GGTCG
65 CGC-ACCTAGG-CCTTGGATGTGC-GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTAGAT-G
*
41741890 TGCGAGAGCCTCGG-GACCATTGGCAACCTAGGCCCTTGGTC
125 TGCGAGAGCCTCGGCG-CCATCGGCAACCTAGGCCCTTGGTC
* * * *
41741931 GTGCGGGAGCCTTGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CAT
* * * * *
41741995 CGGCACCTAGGCCTTTGCTCGTGCAGGAGCCTCGGGCACCATTGGTACATTGGTGCTTAGATGTG
65 C-GCACCTAGGCCTTGGAT-GTGC-GGAGCCTCGGGCACCATCGGCACCTTGGTGCTTAGATGTG
* * * * *
41742060 CGGGAGCCTCAGCCACCATCGGCAA-CTGAGGCCCCTAGTC
127 CGAGAGCCTC-GGCGCCATCGGCAACCT-AGGCCCTTGGTC
* * * **
41742100 GTGCGGGAGCCTCGAGTACCATCAGCAACCTAGGCCCCTGGTCGTACAAGAGCCTCGGG-ACCAT
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CAT
* * * * ** *
41742164 CGGCAACCTAGGCCCTTGG-TCGTGTGGGAGCCTCGGACACTATCGGCACCTAGGCCCTTGGTCA
65 C-GC-ACCTAGG-CCTTGGAT-GTG-CGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTAG--A
* * ** * ***
41742228 TGTG-G-GAGCCTCGGGCACCACCAAC-ACCTCGATACTTGGAT-
123 TGTGCGAGAGCCTC-GGCGCCATCGGCAACCTAGGCCCTTGG-TC
* * * *
41742269 GTGCGAGAGCCTCGGGCACCATCCA-CAACC-AGGGCCCTTGGTCATGCGGCAGCCTCGGGCACC
1 GTGCGGGAGCCTCGAGCACCAT-CAGCAACCTA-GGCCCTTGGTCGTGCGGGAGCCTCGGGCA-C
* * * * * * * ** *
41742332 ATCGGTAACGTAGGCCCCT-AATCTTGCGAGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGG
63 ATC-G-CACCTAGG-CCTTGGAT-GTGCG-GAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTAG
* * * * * *
41742396 TTGTGTGAGAGCCTTGAG-ACCATCGAC-ACCTAGGCCTTTGGTC
122 ATGTGCGAGAGCCTCG-GCGCCATCGGCAACCTAGGCCCTTGGTC
* * * * ** *
41742439 ATGCGGGAGCCTC-AGGCAGCATCGGCATA--TTGGTGCTTGGAT-GTGCGGGAGCCTCGGACAC
1 GTGCGGGAGCCTCGA-GCACCATCAGCA-ACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCA-
* * * * * * ** *
41742500 CATCGGCAACCTAAGCCCTT-GATCATGCGGGAGCCTCAGGCATCATCGGTAACCTAGGCCCCT-
62 CATC-GC-ACCT-AGGCCTTGGAT-GTGC-GGAGCCTCGGGCACCATCGG-CACCTTGGTGCTTA
* * * * **
41742563 GGTCGTGCGAGAGCCTCGGGCACCATCGG-TACCTTGGTGCTTGGAT-
121 GAT-GTGCGAGAGCCTC-GGCGCCATCGGCAACCTAGGCCCTTGG-TC
* * * * * * * *
41742609 GTACGGGAGCTTCGGGCACTATCGGCAACCTAGGCCCTTGGTCGTCCAGGAGCCTCGAGTAGTA-
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-G--GCAC
* * * ** *
41742673 ATGGCAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GG
63 ATCGC-ACCTAGG-CCTTGGAT-GTGC-GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTAGA
* * * * *
41742736 TGGTACGAGAGCCTCGG-GATCATCAG-TACCTAAGCCCTTGGTC
123 T-GTGCGAGAGCCTCGGCG-CCATCGGCAACCTAGGCCCTTGGTC
* * * * * ** * * * *
41742779 GTGCAGGAACCTCGGGCACCATCGGC-ACCTTGGTACTTGAAT-GTACGGGAGTCTCGGACACCA
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTG-GTCGTGCGGGAGCCTCGGGCA-CA
* * * ** * * **
41742842 TCAGCAACCTAGGACATCGG-TGGTACGAGAGCCTCAAGTAGCATCGGCACCTTGGTGCTCGGAT
64 TC-GC-ACCTAGG-CCTTGGAT-GTGCG-GAGCCTCGGGCACCATCGGCACCTTGGTGCTTAGAT
* * * * * *
41742906 GTGTGGGAGCCTCGAGCAG-CATCGG-TACCTTGGTACCTCGGAT-
124 GTGCGAGAGCCTCG-GC-GCCATCGGCAACCTAGG-CCCTTGG-TC
* * * * * * * *
41742949 GTGTGGAAGCCTCG-GACACCATCGGTAAACTAGGCCATTGGTTGTGCGGGAGCCTCAGGCACTA
1 GTGCGGGAGCCTCGAG-CACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCAC-A
* * * * * *
41743013 TCAGCACCTTGGTGCTTGGATGTGCAGATGCCTCGGGGACCATCGGCACTTTGGTGCTTGGATGT
64 TC-GCACCTAGG-CCTTGGATGTGCGGA-GCCTCGGGCACCATCGGCACCTTGGTGCTTAGATGT
* *
41743078 GCGAGAGCCTCGGCGCCATC-GAAATCCTAGGCCCTTGGTT
126 GCGAGAGCCTCGGCGCCATCGGCAA-CCTAGGCCCTTGGTC
* * * * *
41743118 GTGCGGGAGTCGCGAGCACCATCGGCAACCTAGGCCTTTGGTCTTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CAT
* * ** * * ** * *
41743183 CAGTAACCTAGGCCCTTGG-TCATGCGGGAGCCTTAGGCACCATCAGCAACCTAGGCCCCT-GGT
65 C-G-CACCTAGG-CCTTGGAT-GTGC-GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTAGAT
* * * * *
41743246 CTTGCGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCTTGGTC
124 -GTGCGAGAGCCTC-GGCGCCATCGGCAACCTAGGCCCTTGGTC
* * * * ** * *
41743290 ATGCGAGAGTCTCG-GGACCATTGGC-ACCTAGGCCCTTGGTCGTACGGGAGCCTCAGGCACATC
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACATC
* * * * * * ** *
41743353 GGCACCTTGGTGCTTGGATGTACGGAAGCCTTGGACACCATCGGCAACCTAGGCCCTT-GGTCGT
66 -GCACCTAGG-CCTTGGATGTGCGG-AGCCTCGGGCACCATCGGC-ACCTTGGTGCTTAGAT-GT
* * * * *
41743417 ACTG-GAGCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTC
126 GC-GAGAGCCTC-GGCGCCATCGGCAACCTAGGCCCTTGGTC
* ** * ** * *
41743458 GTGCGGGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGTACCA
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCA-CA
* * * *
41743521 TTGGCAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATTGGCACCTTGGTGCTTGGAT
64 -TCGC-ACCTAGG-CCTTGGAT-GTGC-GGAGCCTCGGGCACCATCGGCACCTTGGTGCTTAGAT
* ** * *
41743585 GTGCGGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTC
124 GTGCGAGAGCCTCG-GCGCCATCGGCAACCTAGGCCCTTGGTC
* * * ** ** *
41743628 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCATCAGTCGTATGAGAGCCTCGGG-ACTAT
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCAC-AT
* * * * * * * ** *
41743692 CAGCAACCTAGGCCCCTAG-TCTTGCGGGAGCCTCGGGCACTATCGGTAACATAGGCCCTT-GGT
65 C-GC-ACCTAGG-CCTTGGAT-GTGC-GGAGCCTCGGGCACCATCGG-CACCTTGGTGCTTAGAT
* * *
41743755 CATGCGAGAGTCTCGG-GACCATTGGC-ACCTAGGCCCTTGGTC
124 -GTGCGAGAGCCTCGGCG-CCATCGGCAACCTAGGCCCTTGGTC
* * * ** * * **
41743797 GTACGGGAGCCT-AAGGCACCATCAGC-ACCTTGGTGCTTGGAT-ATACGGGAGCCTCGAACACC
1 GTGCGGGAGCCTCGA-GCACCATCAGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCA-C
* * * * * ** *
41743859 ATCGGCAACCTAGGCCCTTCG-TCGTGCTGAAGCCTCGGACACCATCGGTAACCTAGGCCCCT-G
63 ATC-GC-ACCTAGG-CCTTGGAT-GTGC-GGAGCCTCGGGCACCATCGG-CACCTTGGTGCTTAG
* * * * **
41743922 GTCGTGCG-GAAGCTTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-
122 AT-GTGCGAG-AGCCTC-GGCGCCATCGGCAACCTAGGCCCTTGG-TC
* * * * * * *
41743967 GTGCGGGAGCCTCGGGCACCATCTGCAATCTAGGCCCTTGGTCGTACAGGAGCCTCGAGTACCAT
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CA-
* * * * *
41744032 TGGCAACCTAGGCCCCTGGTTGTGCGGGAGCCTCGGGCACCATCGGCACCTTGATGCTTGGATGT
64 TCGC-ACCTAGG-CCTTGGATGTGC-GGAGCCTCGGGCACCATCGGCACCTTGGTGCTTAGATGT
* * * *
41744097 GCGGGAGCCTCGAACACCATCGGTAACCTAGGCCCTTGGTCGTGTAGTC
126 GCGAGAGCCTCG-GCGCCATCGGCAACCTAGGCCC----T--TG--GTC
* * * *** **
41744146 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGATGCTTGGAT-GTGCGGGAGCCTCGAACACCA
1 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCA-CA
* * *
41744209 TCGGTAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
64 TC-G-CACCTAGG-CCTTGGAT-GTGCG-GAGCCTCGGGCACCATCGGC-ACCTTGG----TGCT
*
41744273 CTAG-TCGTGCG-GAAGCCTCGGGCACCATCGGCAACCTAGG-CCTTGGTC
119 -TAGAT-GTGCGAG-AGCCTC-GGCGCCATCGGCAACCTAGGCCCTTGGTC
** * * ** *
41744321 GTGCGAAAGCCTCGGGCACCATC-G-ACACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACC
1 GTGCGGGAGCCTCGAGCACCATCAGCA-ACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCA-C
**
41744383 ATCGACAACCTAGGCCCTTGG-TAGTGTAAGAGCCTCGGGCACCATCGG
63 ATCG-C-ACCTAGG-CCTTGGAT-GTG-CGGAGCCTCGGGCACCATCGG
41744431 TAATCTAGGC
Statistics
Matches: 2071, Mismatches: 444, Indels: 302
0.74 0.16 0.11
Matches are distributed among these distances:
166 1 0.00
167 3 0.00
168 237 0.11
169 631 0.30
170 590 0.28
171 315 0.15
172 46 0.02
173 3 0.00
174 3 0.00
175 99 0.05
177 7 0.00
178 65 0.03
179 33 0.02
183 7 0.00
184 30 0.01
185 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.20
Consensus pattern (165 bp):
GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACATC
GCACCTAGGCCTTGGATGTGCGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTAGATGTGCGAG
AGCCTCGGCGCCATCGGCAACCTAGGCCCTTGGTC
Found at i:41741952 original size:85 final size:85
Alignment explanation
Indices: 41741593--41744475 Score: 1989
Period size: 85 Copynumber: 33.8 Consensus size: 85
41741583 TGCCTCAGAT
* * * * * * *
41741593 GTGCGGGAGCCTCGGACACCATTGGTAAACTAGGCCATTGGTTGTGCGGGAGCCTCGGGCATCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
* * **
41741658 CAGC-ACCTTGGTGCTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* * * * ** * * * *
41741678 GTGCGGAAGCCTCGGGGACCATCAGC-ACCTTGGTGCTTAGAT-GTGTGAGTGCCTCGGCG-CCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCGGGAGCCTCGG-GACCA
**
41741740 TCGAAAACCTAGGCCCTTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * * * *
41741762 GTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCATGCGAGAGCCT-TGGACACTA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGAC-C-A
*
41741826 TC--CAACCTAGGCCCCTGGAT-
64 TCGGCAACCTAGGCCCTTGG-TC
* * * *
41741846 GTGCGGGAGCCTCAGGCACCATCGGCAACCAAGGCCCTTGGTCGTGCGAGAGCCTCGGGACCATT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATC
41741911 GGCAACCTAGGCCCTTGGTC
66 GGCAACCTAGGCCCTTGGTC
* *
41741931 GTGCGGGAGCCTTGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
* *
41741995 CGGC-ACCTAGGCCTTTGCTC
65 CGGCAACCTAGGCCCTTGGTC
* * * * * ** * **
41742015 GTGCAGGAGCCTCGGGCACCATTGG-TACATTGGTGCTTAGAT-GTGCGGGAGCCTCAGCCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCGGGAGCCTC-GGGACCA
* *
41742078 TCGGCAA-CTGAGGCCCCTAGTC
64 TCGGCAACCT-AGGCCCTTGGTC
* * * * * **
41742100 GTGCGGGAGCCTCGAGTACCATCAGCAACCTAGGCCCCTGGTCGTACAAGAGCCTCGGGACCATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATC
41742165 GGCAACCTAGGCCCTTGGTC
66 GGCAACCTAGGCCCTTGGTC
* * * * * *
41742185 GTGTGGGAGCCTCGGACACTATCGGC-ACCTAGGCCCTTGGTCATGTGGGAGCCTCGGGCACCAC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
** * ***
41742249 CAAC-ACCTCGATACTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* ** * *
41742269 GTGCGAGAGCCTCGGGCACCATCCACAACC-AGGGCCCTTGGTCATGCGGCAGCCTCGGGCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTA-GGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCA
* * * **
41742333 TCGGTAACGTAGGCCCCTAATC
64 TCGGCAACCTAGGCCCTTGGTC
* * * * * * * *
41742355 TTGCGAGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTTGTGTGAGAGCCTTGAGACCATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATC
* *
41742420 GAC-ACCTAGGCCTTTGGTC
66 GGCAACCTAGGCCCTTGGTC
* * * * ** *
41742439 ATGCGGGAGCCTCAGGCAGCATCGGCATA--TTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACC
1 GTGCGGGAGCCTCGGGCACCATCGGCA-ACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-GACC
* *
41742501 ATCGGCAACCTAAGCCCTTGATC
63 ATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41742524 ATGCGGGAGCCTCAGGCATCATCGGTAACCTAGGCCCCTGGTCGTGCGAGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
* * **
41742589 CGG-TACCTTGGTGCTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* * * * * * **
41742609 GTACGGGAGCTTCGGGCACTATCGGCAACCTAGGCCCTTGGTCGTCCAGGAGCCTCGAGTAGTAA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GGA-CCA
*
41742674 T-GGCAACCTAGGCCCCTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * * *
41742695 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTGGTACGAGAGCCTCGGGATCATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATC
* * *
41742760 AG-TACCTAAGCCCTTGGTC
66 GGCAACCTAGGCCCTTGGTC
* * * ** * * * *
41742779 GTGCAGGAACCTCGGGCACCATCGGC-ACCTTGGTACTTGAAT-GTACGGGAGTCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTG-GTCGTGCGGGAGCCTCGG-GACCA
* * * * *
41742842 TCAGCAACCTAGGACATCGGTG
64 TCGGCAACCTAGGCCCTTGGTC
* * ** * * * ** * * * *
41742864 GTACGAGAGCCTCAAGTAGCATCGGC-ACCTTGGTGCTCGGAT-GTGTGGGAGCCTCGAGCAGCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GGACCA
* * * *
41742927 TCGG-TACCTTGGTACCTCGGAT-
64 TCGGCAACCTAGG-CCCTTGG-TC
* * * * * * * * *
41742949 GTGTGGAAGCCTCGGACACCATCGGTAAACTAGGCCATTGGTTGTGCGGGAGCCTCAGGCACTAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGGACCAT
* * **
41743014 CAGC-ACCTTGGTGCTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* * * * ** *
41743034 GTGC-AGATGCCTCGGGGACCATCGGC-ACTTTGGTGCTTGGAT-GTGCGAGAGCCTCGGCG-CC
1 GTGCGGGA-GCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-GACC
* *
41743095 ATC-GAAATCCTAGGCCCTTGGTT
63 ATCGGCAA-CCTAGGCCCTTGGTC
* * * * *
41743118 GTGCGGGAGTCGCGAGCACCATCGGCAACCTAGGCCTTTGGTCTTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
* *
41743183 CAGTAACCTAGGCCCTTGGTC
65 CGGCAACCTAGGCCCTTGGTC
* ** * * *
41743204 ATGCGGGAGCCTTAGGCACCATCAGCAACCTAGGCCCCTGGTCTTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
* *
41743269 CAGTAACCTAGGCCCTTGGTC
65 CGGCAACCTAGGCCCTTGGTC
* * * * * *
41743290 ATGCGAGAGTCTCGGG-ACCATTGGC-ACCTAGGCCCTTGGTCGTACGGGAGCCTCAGG-CACAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGAC-CAT
* **
41743352 CGGC-ACCTTGGTGCTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* * * * * *
41743372 GTACGGAAGCCTTGGACACCATCGGCAACCTAGGCCCTTGGTCGTACTGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
* * *
41743437 CAGTAACCTAGGCCCCTGGTC
65 CGGCAACCTAGGCCCTTGGTC
* * ** *
41743458 GTGCGGGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGTACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GGACCA
* *
41743521 TTGGCAACCTAGGCCCCTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * ** *
41743543 GTGCGGGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGTACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GGACCA
* *
41743606 TTGGCAACCTAGGCCCCTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* ** ** * *
41743628 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCATCAGTCGTATGAGAGCCTCGGGACTATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATC
* * *
41743693 AGCAACCTAGGCCCCTAGTC
66 GGCAACCTAGGCCCTTGGTC
* * * * * * * *
41743713 TTGCGGGAGCCTCGGGCACTATCGGTAACATAGGCCCTTGGTCATGCGAGAGTCTCGGGACCATT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATC
41743778 GGC-ACCTAGGCCCTTGGTC
66 GGCAACCTAGGCCCTTGGTC
* ** * * ** * * **
41743797 GTACGGGAGCCTAAGGCACCATCAGC-ACCTTGGTGCTTGGAT-ATACGGGAGCCTCGAACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GGACCA
*
41743860 TCGGCAACCTAGGCCCTTCGTC
64 TCGGCAACCTAGGCCCTTGGTC
* * * * * * *
41743882 GTGCTGAAGCCTCGGACACCATCGGTAACCTAGGCCCCTGGTCGTGCGGAAGCTTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCAT
* **
41743947 CGGC-ACCTTGGTGCTTGGAT-
65 CGGCAACCTAGGCCCTTGG-TC
* * * * *
41743967 GTGCGGGAGCCTCGGGCACCATCTGCAATCTAGGCCCTTGGTCGTACAGGAGCCTCGAGTACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GGACCAT
* * *
41744032 TGGCAACCTAGGCCCCTGGTT
65 CGGCAACCTAGGCCCTTGGTC
* *** **
41744053 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGATGCTTGGAT-GTGCGGGAGCCTCGAACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GGACCA
*
41744116 TCGGTAACCTAGGCCCTTGGTCGTGTAGTC
64 TCGGCAACCTAGGCCC----T--TG--GTC
* *** **
41744146 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGATGCTTGGAT-GTGCGGGAGCCTCGAACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GGACCA
*
41744209 TCGGTAACCTAGGCCCTTGGTC
64 TCGGCAACCTAGGCCCTTGGTC
* *
41744231 GTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCTAGTCGTGCGGAAGCCTCGGGC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-G----GTCGTGCGGGAGCCTCGGG-
41744296 ACCATCGGCAACCTAGG-CCTTGGTC
60 ACCATCGGCAACCTAGGCCCTTGGTC
** * * ** *
41744321 GTGCGAAAGCCTCGGGCACCATCGAC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-GACCA
* *
41744384 TCGACAACCTAGGCCCTTGGTA
64 TCGGCAACCTAGGCCCTTGGTC
*** * * * * *
41744406 GTGTAAGAGCCTCGGGCACCATCGGTAATCTAGGCCCTTGCTCGTACGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GGACCAT
41744471 CGGCA
65 CGGCA
41744476 CCTTGGTGCC
Statistics
Matches: 2206, Mismatches: 480, Indels: 223
0.76 0.17 0.08
Matches are distributed among these distances:
82 22 0.01
83 93 0.04
84 558 0.25
85 896 0.41
86 471 0.21
87 9 0.00
88 1 0.00
89 10 0.00
90 33 0.01
91 32 0.01
93 81 0.04
ACGTcount: A:0.18, C:0.30, G:0.31, T:0.20
Consensus pattern (85 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATC
GGCAACCTAGGCCCTTGGTC
Found at i:41742211 original size:212 final size:212
Alignment explanation
Indices: 41741728--41744475 Score: 1420
Period size: 212 Copynumber: 12.9 Consensus size: 212
41741718 ATGTGTGAGT
* ** * * *
41741728 GCCTC-GGCGCCATCGAAAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCAGCAAC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGA-CACTATCGGC-AC
* * * * * ** *
41741791 CTAGGCCCTTGGTCATGC-GAGAGCCTTGGACACTATC--CAACCTAGGCCCCTGGATGTGCGGG
64 CTAGGCCCTTGGTCATGCAG-GAGCCTCGGGCACCATCGGC-ACATTGGTGCTTGGATGTGCGGG
* * * * * *
41741853 AGCCTCAGGCACCATCGGCAACCAAGGCCCTTGGTCGTGCGAGAGCCTCG-GGACCATTGGCAAC
127 AGCCTCAGGCACCATCGGCAA-CTAGGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCAAC
* *
41741917 CTAGGCCCTTGGTCGTGCGGGA
191 CTAGGCCCCTGGTCGTGCGAGA
* * *
41741939 GCCTTGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCACCT
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATCGGCACCT
* * * * * *
41742003 AGGCCTTTGCTCGTGCAGGAGCCTCGGGCACCATTGGTACATTGGTGCTTAGATGTGCGGGAGCC
66 AGGCCCTTGGTCATGCAGGAGCCTCGGGCACCATCGGCACATTGGTGCTTGGATGTGCGGGAGCC
* * * * *
41742068 TCAGCCACCATCGGCAACTGAGGCCCCTAGTCGTGCGGGAGCCTCGAGTACCATCAGCAACCTAG
131 TCAGGCACCATCGGCAACT-AGGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCAACCTAG
* *
41742133 GCCCCTGGTCGTACAAGA
195 GCCCCTGGTCGTGCGAGA
41742151 GCCTCGGG-ACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATCGGCACCT
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATCGGCACCT
** * ** * * * * *
41742215 AGGCCCTTGGTCATGTGGGAGCCTCGGGCACCACCAACACCTCGATACTTGGATGTGCGAGAGCC
66 AGGCCCTTGGTCATGCAGGAGCCTCGGGCACCATCGGCACATTGGTGCTTGGATGTGCGGGAGCC
* ** * * * * * *
41742280 TCGGGCACCATCCACAACCAGGGCCCTTGGTCATGCGGCAGCCTCGGGCACCATCGGTAACGTAG
131 TCAGGCACCATCGGCAACTA-GGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCAACCTAG
** *
41742345 GCCCCTAATCTTGCGAGA
195 GCCCCTGGTCGTGCGAGA
* * * * *
41742363 GCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTTGTGTGAGAGCCTTGAGAC-C-ATCGACACC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCG-GACACTATCGGCACC
* * * * *
41742426 TAGGCCTTTGGTCATGCGGGAGCCTCAGGCAGCATCGGCATATTGGTGCTTGGATGTGCGGGAGC
65 TAGGCCCTTGGTCATGCAGGAGCCTCGGGCACCATCGGCACATTGGTGCTTGGATGTGCGGGAGC
* * * * *
41742491 CTC-GGACACCATCGGCAACCTAAGCCCTTGATCATGCGGGAGCCTC-AGGCATCATCGGTAACC
130 CTCAGG-CACCATCGGCAA-CTAGGCCCCTGGTCATGCGGGAGCCTCGA-GCACCATCGGCAACC
41742554 TAGGCCCCTGGTCGTGCGAGA
192 TAGGCCCCTGGTCGTGCGAGA
* * ** ** * *
41742575 GCCTCGGGCACCATCGG-TACCTTGGTGCTTGGAT-GTACGGGAGCTTCGGGCACTATCGGCAAC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGTGGGAGCCTCGGACACTATCGGC-AC
* * * * ** * * ** *
41742638 CTAGGCCCTTGGTCGTCCAGGAGCCTCGAGTAGTAAT-GGCAACCTAGGCCCCTGG-TCGTGCGG
64 CTAGGCCCTTGGTCATGCAGGAGCCTCGGGCA-CCATCGGC-ACATTGGTGCTTGGAT-GTGCGG
* * ** * * * * * *
41742701 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTGGTACGAGAGCCTCG-GGATCATCAG-TA
126 GAGCCTCAGGCACCATCGGCAA-CTAGGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCAA
* *
41742764 CCTAAGCCCTTGGTCGTGC-AGGA
190 CCTAGGCCCCTGGTCGTGCGA-GA
* * ** * ** * * *
41742787 ACCTCGGGCACCATCGGC-ACCTTGGTACTTGAAT-GTACGGGAGTCTCGGACACCATCAGCAAC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTG-GTCGTGTGGGAGCCTCGGACACTATCGGC-AC
* * * ** * ** * * * * *
41742850 CTAGGACATCGGTGGTAC-GAGAGCCTCAAGTAGCATCGGCACCTTGGTGCTCGGATGTGTGGGA
64 CTAGGCCCTTGGTCATGCAG-GAGCCTCGGGCACCATCGGCACATTGGTGCTTGGATGTGCGGGA
* * * * ** * *
41742914 GCCTC-GAGCAGCATCGGTACCTTGGTACCTCGG--ATGTGTGGAAGCCTCG-GACACCATCGGT
128 GCCTCAG-GCACCATCGGCAACTAGGCCCCT-GGTCATGCG-GG-AGCCTCGAG-CACCATCGGC
* ** * *
41742975 AAACTAGGCCATTGGTTGTGCGGGA
188 AACCTAGGCCCCTGGTCGTGCGAGA
* * * * ** ** ** *
41743000 GCCTCAGGCACTATCAGC-ACCTTGGTGCTTGGAT-GTG-CAGATGCCTCGGGGACCATCGGCAC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGTGGGA-GCCTCGGACACTATCGGCAC
* * ** * * ** * * ** *
41743062 TTTGGTGCTTGGAT-GTGC-GAGAGCCTC-GGCGCCATCGAAATCCTAGGCCCTTGGTTGTGCGG
64 CTAGGCCCTTGG-TCATGCAG-GAGCCTCGGGCACCATCGGCA-CATTGGTGCTTGGATGTGCGG
* * ** * * * *
41743124 GAGTCGC-GAGCACCATCGGCAACCTAGGCCTTTGGTCTTGCGGGAGCCTCGGGCACCATCAGTA
126 GAGCCTCAG-GCACCATCGGCAA-CTAGGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCA
* * *
41743188 ACCTAGGCCCTTGGTCATGCGGGA
189 ACCTAGGCCCCTGGTCGTGCGAGA
** * * * * * * **
41743212 GCCTTAGGCACCATCAGCAACCTAGGCCCCTGGTCTTGCGGGAGCCTCGGGCACCATCAGTAACC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATC-GGCACC
* * * * ** *
41743277 TAGGCCCTTGGTCATGC-GAGAGTCTCGGG-ACCATTGGCACCTAGGCCCTTGG-TCGTACGGGA
65 TAGGCCCTTGGTCATGCAG-GAGCCTCGGGCACCATCGGCACATTGGTGCTTGGAT-GTGCGGGA
* * ** * * *
41743339 GCCTCAGGCA-CATCGGCACCTTGGTGCTTGG--ATGTACGGAAGCCTTG-GACACCATCGGCAA
128 GCCTCAGGCACCATCGGCAACTAGGCCCCTGGTCATG--CGGGAGCCTCGAG-CACCATCGGCAA
* *
41743400 CCTAGGCCCTTGGTCGTACTG-GA
190 CCTAGGCCCCTGGTCGTGC-GAGA
* * * * * * *
41743423 GCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATTGGCACCT
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATCGGCACCT
* ** * * * * * * * ** *
41743488 TGGTGCTTGGAT-GTGCGGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGG-TCGTGCGGGA
66 AGGCCCTTGG-TCATGCAGGAGCCTCGGGCACCATCGGC-ACATTGGTGCTTGGAT-GTGCGGGA
* * * * ** * * * *
41743551 GCCTCGGGCACCATTGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGTACCATTGGCAACC
128 GCCTCAGGCACCATCGGCAACTAGGCCCCTGG-TCATGCGGGAGCCTCGAGCACCATCGGCAACC
*
41743615 TAGGCCCCTGGTCGTGCGGGA
192 TAGGCCCCTGGTCGTGCGAGA
* ** * * * *
41743636 GCCTCGGGCACCATCGGCAACCTAGGCCATCAGTCGTATGAGAGCCTCGG-GACTATCAGCAACC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATCGGC-ACC
* * * * * * * ** * *
41743700 TAGGCCCCTAGTCTTGCGGGAGCCTCGGGCACTATCGGTAACATAGGCCCTTGG-TCATGCGAGA
65 TAGGCCCTTGGTCATGCAGGAGCCTCGGGCACCATCGG-CACATTGGTGCTTGGAT-GTGCGGGA
* * * * * * * * *
41743764 GTCTC-GGGACCATTGGCACCTAGGCCCTTGGTCGTACGGGAGCCT-AAGGCACCATCAGC-ACC
128 GCCTCAGGCACCATCGGCAACTAGGCCCCTGGTCATGCGGGAGCCTCGA-GCACCATCGGCAACC
* ** * * * *
41743826 TTGGTGCTTGGAT-ATACGGGA
192 TAGGCCCCTGG-TCGTGCGAGA
** * * * *
41743847 GCCTCGAACACCATCGGCAACCTAGGCCCTTCGTCGTGCT-GAAGCCTCGGACACCATCGGTAAC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG-TGGGAGCCTCGGACACTATCGG-CAC
* * * *
41743911 CTAGGCCCCTGGTCGTGC-GGAAGCTTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGA
64 CTAGGCCCTTGGTCATGCAGG-AGCCTCGGGCACCATCGGCACATTGGTGCTTGGATGTGCGGGA
* * * * * * * *
41743975 GCCTCGGGCACCATCTGCAATCTAGGCCCTTGGTCGTACAGGAGCCTCGAGTACCATTGGCAACC
128 GCCTCAGGCACCATCGGCAA-CTAGGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCAACC
* *
41744040 TAGGCCCCTGGTTGTGCGGGA
192 TAGGCCCCTGGTCGTGCGAGA
* *** * * * *
41744061 GCCTCGGGCACCATCGGC-ACCTTGATGCTTGGAT-GTGCGGGAGCCTCGAACACCATCGGTAAC
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGTGGGAGCCTCGGACACTATCGG-CAC
* * *
41744124 CTAGGCCCTTGGTCGTGTAGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGATGCTTGGATG
64 CTAGGCCCTTGGTC----A----TGCAGGAGCCTCGGGCACCATCGGCACATTGGTGCTTGGATG
* * * * * *
41744189 TGCGGGAGCCTC-GAACACCATCGGTAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCAT
121 TGCGGGAGCCTCAG-GCACCATCGGCAA-CTAGGCCCCTGGTCATGCGGGAGCCTCGAGCACCAT
*
41744253 CGGCAACCTAGGCCCTTGGTCTAGTCGTGCG-GAA
184 CGGCAACCTAGGCCC-----CTGGTCGTGCGAG-A
* ** * * *
41744287 GCCTCGGGCACCATCGGCAACCTAGG-CCTTGGTCGTGCGAAAGCCTCGGGCACCATCGACACCT
1 GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATCGGCACCT
* ** * * * * * * ** ***
41744351 TGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCATCGACAACCTAGGCCCTTGG-TAGTGTAAGA
66 AGGCCCTTGG-TCATGCAGGAGCCTCGGGCACCATCGGC-ACATTGGTGCTTGGAT-GTGCGGGA
* * * * * *
41744414 GCCTCGGGCACCATCGGTAATCTAGGCCCTTGCTCGTACGGGAGCCTCGAGCACCATCGGCA
128 GCCTCAGGCACCATCGGCAA-CTAGGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCA
41744476 CCTTGGTGCC
Statistics
Matches: 2004, Mismatches: 428, Indels: 203
0.76 0.16 0.08
Matches are distributed among these distances:
209 4 0.00
210 65 0.03
211 377 0.19
212 715 0.36
213 435 0.22
214 129 0.06
215 6 0.00
217 24 0.01
218 69 0.03
219 1 0.00
220 1 0.00
221 104 0.05
222 2 0.00
225 13 0.01
226 54 0.03
227 5 0.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (212 bp):
GCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGACACTATCGGCACCT
AGGCCCTTGGTCATGCAGGAGCCTCGGGCACCATCGGCACATTGGTGCTTGGATGTGCGGGAGCC
TCAGGCACCATCGGCAACTAGGCCCCTGGTCATGCGGGAGCCTCGAGCACCATCGGCAACCTAGG
CCCCTGGTCGTGCGAGA
Found at i:41742853 original size:297 final size:294
Alignment explanation
Indices: 41741553--41744314 Score: 1438
Period size: 297 Copynumber: 9.2 Consensus size: 294
41741543 GTCAGTGGTG
* * * ** * * *
41741553 CGAGAGCCTCAAGCAGCATCGGTACCTTGGTGCCTCAGATGTGCGGGAGCCTCGGACACCATTGG
1 CGAGAGCCTCAGGGA-CATCGGCACCTTGGTG-CTTGGATGTGC-GGAACCTCGGGCACCATCGG
* * * * * * * * * ** *
41741618 TAAACTAGGCCATTGGTTGTGCGGGAGCCTCGGGCATCATCAGC-ACCTTGGTGCTTGGAT-GTG
63 -CACCTAGGCCCTT-GATGTACGGGAGTCTCGGACACCATCAGCAACCTAGGCCCCTGG-TCGTG
* * * * * * * *
41741681 CG-GAAGCCTCGGGGACCATCAGCACCTTGGTGCTTAGATGTGTGAGTGCCTCG-GCGCCATCGA
125 CGAG-AGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
* * * * * *
41741744 AAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCAGCAACCTAGGCCCTTGGTCATGC
189 CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTTGGTCGTGC
* * * * * *
41741809 GAGAGCCTTGGACACTATC--CAACCTAGGCCCCTGGAT-GTG
254 GGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGG-TCGTA
* * ** ** * *
41741849 CGGGAGCCTCAGGCACCATCGGCAACCAAGGCCCTTGG-TCGTGCGAGAGCCTCGGG-ACCATTG
1 CGAGAGCCTCAGGGA-CATCGGC-ACCTTGGTGCTTGGAT-GTGCG-GAACCTCGGGCACCATCG
* * * * * * *
41741912 GCAACCTAGGCCCTTGGTCGTGCGGGAGCCTTGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTG
62 GC-ACCTAGGCCCTTGAT-GTACGGGAGTCTCGGACACCATCAGCAACCTAGGCCCCTGGTCGTG
* * * * * * * * *
41741976 TGGGAGCCTCGGGCACCATCGGCACCTAGG-CCTTTGCTCGTGCAGGAGCCTCGGGCACCATTGG
125 CGAGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGG
* * * ** * * * * * * *
41742040 -TACATTGGTGCTTAGAT-GTGCGGGAGCCTCAGCCACCATCGGCAA-CTGAGGCCCCTAGTCGT
189 CAACCTAGGCCCCT-GGTCGTGCGGGAGCCTCGGGCACAATCGGCAACCT-AGGCCCTTGGTCGT
* * * *
41742102 GCGGGAGCCTCGAGTACCATCAGCAACCTAGGCCCCTGGTCGTA
252 GCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTA
* * ** * * * *
41742146 CAAGAGCCTC-GGGACCATCGGCAACCTAGGCCCTTGG-TCGTGTGGGAGCCTCGGACACTATCG
1 CGAGAGCCTCAGGGA-CATCGGC-ACCTTGGTGCTTGGAT-GTG-CGGAACCTCGGGCACCATCG
* * * * * *** *
41742209 GCACCTAGGCCCTTGGTCATGT--GGGAGCCTCGGGCACCACCAAC-ACCTCGATACTTGGAT-G
62 GCACCTAGGCCCTT-G--ATGTACGGGAGTCTCGGACACCATCAGCAACCTAGGCCCCTGG-TCG
** ** ** * * *
41742270 TGCGAGAGCCTCGGGCACCATCCACAACCAGGGCCCTTGG-TCATGCGGCAGCCTCGGGCACCAT
123 TGCGAGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCAT
* * ** * * * * *
41742334 CGGTAACGTAGGCCCCTAATCTTGCGAGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTTG
186 CGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTTGGTCG
* * * * * * * *
41742399 TGTGAGAGCCTTGAG-ACCATCGACACCTAGGCCTTTGGTCATG
251 TGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTA
* * ** * *
41742442 CGGGAGCCTCAGGCAGCATCGGCATATTGGTGCTTGGATGTGCGGGAGCCTCGGACACCATCGGC
1 CGAGAGCCTCAGGGA-CATCGGCACCTTGGTGCTTGGATGTGC-GGAACCTCGGGCACCATCGGC
* * * * * * *
41742507 AACCTAAGCCCTTGATCATGCGGGAGCCTCAGG-CATCATCGGTAACCTAGGCCCCTGGTCGTGC
64 -ACCTAGGCCCTTGAT-GTACGGGAGTCTC-GGACACCATCAGCAACCTAGGCCCCTGGTCGTGC
* * * * *
41742571 GAGAGCCTCGGGCACCATCGGTACCTTGGTGCTTGGATGTACGGGAGCTTCGGGCACTATCGGCA
126 GAGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCA
* * * * * * *
41742636 ACCTAGGCCCTTGGTCGTCCAGGAGCCTCGAGTAGTAAT-GGCAACCTAGGCCCCTGGTCGTGCG
191 ACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCA-CAATCGGCAACCTAGGCCCTTGGTCGTGCG
*
41742700 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTGGTA
255 GGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTA
* * ** **
41742741 CGAGAGCCTC-GGGATCATCAGTACCTAAGCCCTTGG-TCGTGCAGGAACCTCGGGCACCATCGG
1 CGAGAGCCTCAGGGA-CATCGGCACCTTGGTGCTTGGAT-GTGC-GGAACCTCGGGCACCATCGG
* ** * * * *
41742804 CACCTTGGTACTTGAATGTACGGGAGTCTCGGACACCATCAGCAACCTAGG-ACATCGGTGGTAC
63 CACCTAGGCCCTTG-ATGTACGGGAGTCTCGGACACCATCAGCAACCTAGGCCCCT-GGTCGTGC
** * * * * * *
41742868 GAGAGCCTCAAGTAGCATCGGCACCTTGGTGCTCGGATGTGTGGGAGCCTCGAGCAGCATCGG-T
126 GAGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCA
* ** * * * * * * * *
41742932 ACCTTGGTACCTCGGAT-GTGTGGAAGCCTCGGACACCATCGGTAAACTAGGCCATTGGTTGTGC
191 ACCTAGGCCCCT-GG-TCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTTGGTCGTGC
* * * * ** *
41742996 GGGAGCCTCAGGCACTATCAGCACCTTGGTGCTTGGAT-GTG
254 GGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGG-TCGTA
* * * * *
41743037 C-AGATGCCTCGGGGACCATCGGCACTTTGGTGCTTGGATGTGCGAGAGCCTC-GGCGCCATCGA
1 CGAGA-GCCTCAGGGA-CATCGGCACCTTGGTGCTTGGATGTGCG-GAACCTCGGGCACCATCGG
* * * * * ** *
41743100 AATCCTAGGCCCTTGGTTGTGCGGGAGTCGC-GAGCACCATCGGCAACCTAGGCCTTTGGTCTTG
63 CA-CCTAGGCCCTT-GATGTACGGGAGTCTCGGA-CACCATCAGCAACCTAGGCCCCTGGTCGTG
* ** * ** * *
41743164 CGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCTTGG-TCATGCGGGAGCCT-TAGGCACCATC
125 CGAGAGCCTCGGGCACCATC-GGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGA-GCACCATC
* * * * * *
41743227 AGCAACCTAGGCCCCTGGTCTTGCGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCTTGGTCAT
187 GGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTTGGTCGT
* * *
41743292 GCGAGAGTCTCGGG-ACCATTGGCACCTAGGCCCTTGGTCGTA
252 GCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTA
* * * * *
41743334 CGGGAGCCTCAGGCACATCGGCACCTTGGTGCTTGGATGTACGGAAGCCTTGGACACCATCGGCA
1 CGAGAGCCTCAGGGACATCGGCACCTTGGTGCTTGGATGTGCGGAA-CCTCGGGCACCATCGGC-
* * * * * *
41743399 ACCTAGGCCCTTGGTCGTACTGGAGCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTCGTGCGG
64 ACCTAGGCCCTTGAT-GTACGGGAGTCTCGGACACCATCAGCAACCTAGGCCCCTGGTCGTGCGA
* * *
41743464 GAGCCTCGGGCACCATTGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGTACCATTGGCAAC
128 GAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAAC
* * * **
41743529 CTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGAT-GTGCGGG
193 CTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTTGG-TCGTGCGGG
* * * * *
41743592 AGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTCGTG
257 AGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTA
* * * * * ** * *
41743631 CGGGAGCCTC-GGGCACCATCGGCAACCTAGG-CCAT-CAGTCGTATGAGAGCCTCGGG-ACTAT
1 CGAGAGCCTCAGGG-A-CATCGGC-ACCTTGGTGCTTGGA-T-GTGCG-GAACCTCGGGCACCAT
* * * * * * * * * * *
41743692 CAGCAACCTAGGCCCCT-AGTCTTGCGGGAGCCTCGGGCACTATCGGTAACATAGGCCCTTGGTC
60 CGGC-ACCTAGGCCCTTGA-T-GTACGGGAGTCTCGGACACCATCAGCAACCTAGGCCCCTGGTC
* * * * ** * *
41743756 ATGCGAGAGTCTCGGG-ACCATTGGCACCTAGGCCCTTGG-TCGTACGGGAGCCT-AAGGCACCA
122 GTGCGAGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGA-GCACCA
* * ** * * * ** * *
41743818 TCAGC-ACCTTGGTGCTTGGAT-ATACGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTCGT
185 TCGGCAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTTGGT
* * * * * *
41743881 CGTGCTGAAGCCTCGGACACCATCGGTAACCTAGGCCCCTGGTCGTG
249 CGTGCGGGAGCCTCGGGCACCATCGG-CACCTAGGCCCTTGGTCGTA
* * *
41743928 CG-GAAGCTTC-GGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATCT
1 CGAG-AGCCTCAGGG-A-CATCGGCACCTTGGTGCTTGGATGTGC-GGAACCTCGGGCACCATCG
* * * * * ** *
41743991 GCAATCTAGGCCCTTGGTCGTACAGGAGCCTC-GAGTACCATTGGCAACCTAGGCCCCTGGTTGT
62 GC-ACCTAGGCCCTTGAT-GTACGGGAGTCTCGGA-CACCATCAGCAACCTAGGCCCCTGGTCGT
* * *
41744055 GCGGGAGCCTCGGGCACCATCGGCACCTTGATGCTTGGATGTGCGGGAGCCTCGAACACCATCGG
124 GCGAGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
* * * ***
41744120 TAACCTAGGCCCTTGGTCGTGTAGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGATGCTT
189 CAACCTAGGCCC-----C-TG--GTCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTT
** * *
41744184 GGAT-GTGCGGGAGCCTCGAACACCATCGGTAACCTAGGCCCTTGGTCGTG
246 GG-TCGTGCGGGAGCCTCGGGCACCATCGG-CACCTAGGCCCTTGGTCGTA
* **
41744234 CGAGAGCCTC-GGGCACCATCGGCAACCTAGGCCCTTGGTCTAGTCGTGCGGAAGCCTCGGGCAC
1 CGAGAGCCTCAGGG-A-CATCGGC-ACCTTGGTGCTTGG---A-T-GTGCGGAA-CCTCGGGCAC
41744298 CATCGGCAACCTAGGCC
57 CATCGGC-ACCTAGGCC
41744315 TTGGTCGTGC
Statistics
Matches: 1900, Mismatches: 452, Indels: 212
0.74 0.18 0.08
Matches are distributed among these distances:
294 12 0.01
295 178 0.09
296 417 0.22
297 736 0.39
298 351 0.18
299 60 0.03
300 2 0.00
305 2 0.00
306 72 0.04
307 36 0.02
310 1 0.00
311 4 0.00
312 29 0.02
ACGTcount: A:0.18, C:0.30, G:0.31, T:0.20
Consensus pattern (294 bp):
CGAGAGCCTCAGGGACATCGGCACCTTGGTGCTTGGATGTGCGGAACCTCGGGCACCATCGGCAC
CTAGGCCCTTGATGTACGGGAGTCTCGGACACCATCAGCAACCTAGGCCCCTGGTCGTGCGAGAG
CCTCGGGCACCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTA
GGCCCCTGGTCGTGCGGGAGCCTCGGGCACAATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCC
TCGGGCACCATCGGCACCTAGGCCCTTGGTCGTA
Found at i:41744212 original size:93 final size:85
Alignment explanation
Indices: 41744143--41744567 Score: 383
Period size: 85 Copynumber: 4.9 Consensus size: 85
41744133 TGGTCGTGTA
*
41744143 GTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGATGCTTGGATGTGCGGGAGCCTCGAACACC
1 GTCGTGCGAGAGCCTCGGGCACCATCGGCACCTTGATGCTTGGATGTGCGGGAGCCTCGAACACC
*
41744208 ATCGGTAACCTAGGCCCTTG
66 ATCGGCAACCTAGGCCCTTG
* *** *
41744228 GTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCTAGTCGTGCGGAAGCCTCG
1 GTCGTGCGAGAGCCTCGGGCACCATCGGC-ACCTTGATGCTTGG---A-T-GTGCGGGAGCCTCG
**
41744293 GGCACCATCGGCAACCTAGG-CCTTG
60 AACACCATCGGCAACCTAGGCCCTTG
* * * *
41744318 GTCGTGCGAAAGCCTCGGGCACCATCGACACCTTGGTGCTTGGATGTGCGGGAGCCTCGGACACC
1 GTCGTGCGAGAGCCTCGGGCACCATCGGCACCTTGATGCTTGGATGTGCGGGAGCCTCGAACACC
*
41744383 ATCGACAACCTAGGCCCTTG
66 ATCGGCAACCTAGGCCCTTG
* ** * * * *** * * *
41744403 GTAGTGTAAGAGCCTCGGGCACCATCGGTAATCTAGGCCCTT-GCTCGTACGGGAGCCTCGAGCA
1 GTCGTGCGAGAGCCTCGGGCACCATCGG-CACCTTGATGCTTGGAT-GTGCGGGAGCCTCGAACA
* * *
41744467 CCATCGGC-ACCTTGGTGCCTCAG
64 CCATCGGCAACCTAGG-CCCT-TG
* * * * * *
41744490 AT-GTGCGGGAGCCTCGAGCAGCATTGGCACCTTCG-TGCTTGGATGTGCGGGAGCCTCGGACAC
1 GTCGTGCGAGAGCCTCGGGCACCATCGGCACCTT-GATGCTTGGATGTGCGGGAGCCTCGAACAC
* *
41744553 CGTAGGCAACCTAGG
65 CATCGGCAACCTAGG
41744568 ACGTTGGATG
Statistics
Matches: 272, Mismatches: 54, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
84 31 0.11
85 92 0.34
86 72 0.26
87 2 0.01
89 12 0.04
90 33 0.12
91 30 0.11
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.19
Consensus pattern (85 bp):
GTCGTGCGAGAGCCTCGGGCACCATCGGCACCTTGATGCTTGGATGTGCGGGAGCCTCGAACACC
ATCGGCAACCTAGGCCCTTG
Found at i:41744544 original size:128 final size:128
Alignment explanation
Indices: 41741593--41744589 Score: 1979
Period size: 128 Copynumber: 23.4 Consensus size: 128
41741583 TGCCTCAGAT
* * * * * * *
41741593 GTGCGGGAGCCTCGGACACCATTGGTAAACTAGGCCATTGGTTGTGCGGGAGCCTCGGGCATCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * * * * * ** *
41741658 CAGCACCTTGGTGCTTGGATGTGCGGAAGCCTCGGGGACCATCAGC-ACCTTGGTGCTTAGAT-
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTT-GGTC
* * * * ** *
41741720 GTGTGAGTGCCTC-GGCGCCATCGAAAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * * * *
41741784 CAGCAACCTAGGCCCTTGG-TCATGCGAGAGCCTTG-GACACTATC--CAACCTAGGCCCCTGGA
66 CGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAG-CACCATCGGCAACCTAGGCCCTTGG-
41741845 T-
127 TC
* * *
41741846 GTGCGGGAGCCTCAGGCACCATCGGCAACCAAGGCCCTTGGTCGTGCGAGAGCCTCGGG-ACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * *
41741910 TGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTTGGGCACCATCGGC-ACCTAGGCCCTTGGTC
66 CGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41741973 GTGTGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCTTTGCTCGTGCAGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * * * * *
41742037 TGGTACATTGGTGCTTAGATGTGCGGGAGCCTC-AGCCACCATCGGCAA-CTGAGGCCCCTAGTC
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAG-CACCATCGGCAACCT-AGGCCCTTGGTC
* * * * * **
41742100 GTGCGGGAGCCTCGAGTACCATCAGCAACCTAGGCCCCTGGTCGTACAAGAGCCTCGGG-ACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* ** * *
41742164 CGGCAACCTAGGCCCTTGG-TCGTGTGGGAGCCTCG-GACACTATCGGC-ACCTAGGCCCTTGGT
66 CGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAG-CACCATCGGCAACCTAGGCCCTTGGT
41742226 C
128 C
* * * ** * *** *
41742227 ATGTGGGAGCCTCGGGCACCACCAAC-ACCTCGATACTTGGAT-GTGCGAGAGCCTCGGGCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
** ** ** * * * * * * **
41742290 TCCACAACCAGGGCCCTTGG-TCATGCGGCAGCCTCGGGCACCATCGGTAACGTAGGCCCCTAAT
65 TCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGT
41742354 C
128 C
* * * * * * * *
41742355 TTGCGAGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTTGTGTGAGAGCCTTGAG-ACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * * * * * **
41742419 CGACACCTAGG-CCTTTGG-TCATGCGGGAGCCTC-AGGCAGCATCGGCATA--TTGGTGCTTGG
66 CGGCACCTTGGTGC-TTGGAT-GTGCGGGAGCCTCGA-GCACCATCGGCA-ACCTAGGCCCTTGG
41742479 AT-
127 -TC
* * * * * *
41742481 GTGCGGGAGCCTCGGACACCATCGGCAACCTAAGCCCTTGATCATGCGGGAGCCTCAGGCATCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * * * * **
41742546 CGGTAACCTAGGCCCCTGG-TCGTGCGAGAGCCTCGGGCACCATCGG-TACCTTGGTGCTTGGAT
66 CGG-CACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGG-T
41742609 -
128 C
* * * * * * * **
41742609 GTACGGGAGCTTCGGGCACTATCGGCAACCTAGGCCCTTGGTCGTCCAGGAGCCTCGAGTAGTAA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CCA
* ** * *
41742674 T-GGCAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
65 TCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGT
*
41742737 G
128 C
* * * * * * * *
41742738 GTACGAGAGCCTCGGG-ATCATCAG-TACCTAAGCCCTTGGTCGTGCAGGAACCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * * * * * * * *
41742801 CGGCACCTTGGTACTTGAATGTACGGGAGTCTCG-GACACCATCAGCAACCTAGGACATCGGTG
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAG-CACCATCGGCAACCTAGGCCCTTGGTC
* * ** * * * ** * * * *
41742864 GTACGAGAGCCTCAAGTAGCATCGGC-ACCTTGGTGCTCGGAT-GTGTGGGAGCCTCGAGCAGCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
* * * * * * * *
41742927 TCGGTACCTTGGTACCTCGGATGTGTGGAAGCCTCG-GACACCATCGGTAAACTAGGCCATTGGT
65 TCGGCACCTTGGT-GCTTGGATGTGCGGGAGCCTCGAG-CACCATCGGCAACCTAGGCCCTTGGT
*
41742991 T
128 C
* * * * ** * *
41742992 GTGCGGGAGCCTCAGGCACTATCAGC-ACCTTGGTGCTTGGAT-GTGC-AGATGCCTCGGGGACC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGA-GCCTCGGGCACC
* * * *
41743054 ATCGGCACTTTGGTGCTTGGATGTGCGAGAGCCTCG-GCGCCATC-GAAATCCTAGGCCCTTGGT
64 ATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAA-CCTAGGCCCTTGGT
*
41743117 T
128 C
* * * * *
41743118 GTGCGGGAGTCGCGAGCACCATCGGCAACCTAGGCCTTTGGTCTTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
** * ** * * * *
41743183 CAGTAACCTAGGCCCTTGG-TCATGCGGGAGCCT-TAGGCACCATCAGCAACCTAGGCCCCTGGT
66 C-GGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGA-GCACCATCGGCAACCTAGGCCCTTGGT
41743246 C
128 C
* * * * * *
41743247 TTGCGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCTTGGTCATGCGAGAGTCTCGGG-ACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * **
41743311 TGGCACCTAGGCCCTTGG-TCGTACGGGAGCCTC-AGGCA-CATCGGC-ACCTTGGTGCTTGGAT
66 CGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGA-GCACCATCGGCAACCTAGGCCCTTGG-T
41743372 -
128 C
* * * * * *
41743372 GTACGGAAGCCTTGGACACCATCGGCAACCTAGGCCCTTGGTCGTACTGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
** * ** * * * * **
41743437 CAGTAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGAT
66 C-GGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGG-T
41743500 -
128 C
* * * *
41743500 GTGCGGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * * *
41743565 TGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTC
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
* ** ** * *
41743628 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCATCAGTCGTATGAGAGCCTCGGG-ACTAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * * * * * *
41743692 CAGCAACCTAGGCCCCTAG-TCTTGCGGGAGCCTCGGGCACTATCGGTAACATAGGCCCTTGGTC
66 CGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * **
41743756 ATGCGAGAGTCTCGGG-ACCATTGGC-ACCTAGGCCCTTGGTCGTACGGGAGCCTAAGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * * * *
41743819 CAGCACCTTGGTGCTTGGATATACGGGAGCCTCGAACACCATCGGCAACCTAGGCCCTTCGTC
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * * *
41743882 GTGCTGAAGCCTCGGACACCATCGGTAACCTAGGCCCCTGGTCGTGCGGAAGCTTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
41743947 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATCTGCAATCTAGGCCCTTGGTC
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * * *
41744010 GTACAGGAGCCTCGAGTACCATTGGCAACCTAGGCCCCTGGTTGTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
41744075 CGGCACCTTGATGCTTGGATGTGCGGGAGCCTCGAACACCATCGGTAACCTAGGCCCTTGGTCGT
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCC----T--T
41744140 GTAGTC
125 G--GTC
* *** **
41744146 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGATGCTTGGAT-GTGCGGGAGCCTCGAACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
* * ** * *
41744209 TCGGTAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
65 TCGG-CACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTT-G-
41744273 CTAGTC
126 ---GTC
* **
41744279 GTGCGGAAGCCTCGGGCACCATCGGCAACCTAGG-CCTTGGTCGTGCGAAAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
41744343 CGACACCTTGGTGCTTGGATGTGCGGGAGCCTCG-GACACCATCGACAACCTAGGCCCTTGGTA
66 CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAG-CACCATCGGCAACCTAGGCCCTTGGTC
*** * * * * *
41744406 GTGTAAGAGCCTCGGGCACCATCGGTAATCTAGGCCCTTGCTCGTACGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
** * * ** **
41744471 CGGCACCTTGGTGCCTCAGATGTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTCGTGCTTGGAT-
66 CGGCACCTTGGTG-CTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * * * *
41744534 GTGCGGGAGCCTCGGACACCGTAGGCAACCTAGGACGTTGGAT-GTGCGGGTGCCTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTC
41744590 AAGCAGTAGG
Statistics
Matches: 2276, Mismatches: 499, Indels: 189
0.77 0.17 0.06
Matches are distributed among these distances:
125 64 0.03
126 437 0.19
127 560 0.25
128 844 0.37
129 150 0.07
130 5 0.00
131 3 0.00
132 49 0.02
133 56 0.02
134 7 0.00
135 33 0.01
136 68 0.03
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.20
Consensus pattern (128 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
CGGCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
Found at i:41748782 original size:29 final size:29
Alignment explanation
Indices: 41748731--41748858 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
41748721 ATAGTAAGTC
*
41748731 CGCACAGTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* *
41748759 CGCACACTTAATGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
41748788 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* ** * *
41748816 TGCACACTTAGTGC-TATGCAATTTAAACC
1 CGCACACTTAGTGCTTATATAA-TCAAACT
41748845 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41748859 CAATCTCATG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 42 0.48
29 45 0.52
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:41748806 original size:57 final size:57
Alignment explanation
Indices: 41748730--41748858 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 57
41748720 TATAGTAAGT
* *
41748730 CCGCACAGTTAGTGTTATATAATCAAACTCGCACACTTAATGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAATGCTATACA-AATCAAAC
* * * * * *
41748787 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAATGCTATACAAATCAAAC
41748844 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
41748859 CAATCTCATG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 59 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAATGCTATACAAATCAAAC
Found at i:41755050 original size:17 final size:18
Alignment explanation
Indices: 41755024--41755062 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
41755014 CATAATGTGG
41755024 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
41755040 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
41755058 AAAAT
1 AAAAT
41755063 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:41755239 original size:15 final size:15
Alignment explanation
Indices: 41755219--41755249 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
41755209 AAAACAATAT
41755219 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
41755234 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
41755249 A
1 A
41755250 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:41768683 original size:41 final size:40
Alignment explanation
Indices: 41768603--41768683 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
41768593 CGTCGCGTGG
* *
41768603 TGTCCGGTGCGCCCCCGGCGGCCCTTGAAAATCCGGAGGA
1 TGTCCGGTGCGCCCCCAGCGGCCCTTGAAAATCCAGAGGA
* *
41768643 NTGTCCGGTGCGCCCTCAGCGGCCCTTGAAAATCTAGAGGA
1 -TGTCCGGTGCGCCCCCAGCGGCCCTTGAAAATCCAGAGGA
41768684 CCTAGTGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.17
Consensus pattern (40 bp):
TGTCCGGTGCGCCCCCAGCGGCCCTTGAAAATCCAGAGGA
Found at i:41770438 original size:5 final size:5
Alignment explanation
Indices: 41770414--41770447 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
41770404 TGCCGTGCTG
41770414 TGCCA TGCCA TGCCA TGCCA TGCCA T--CA TGCCA T
1 TGCCA TGCCA TGCCA TGCCA TGCCA TGCCA TGCCA T
41770448 ACTTCATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
5 24 0.89
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.24
Consensus pattern (5 bp):
TGCCA
Found at i:41771204 original size:58 final size:58
Alignment explanation
Indices: 41771114--41771224 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
41771104 CCTAATCCCA
** *
41771114 AAAGGTACAATTCGGGTACCGTTACATGTTCGGTACCCAATAATGAATGAATCGTCCT
1 AAAGGTACAATTCGAATACCGTTACATGTTCGGTACCCAACAATGAATGAATCGTCCT
* *
41771172 AAAGGTAGAATTCGAATACCGTTTCATGTTCGGTACCCAACAATGAATGAATC
1 AAAGGTACAATTCGAATACCGTTACATGTTCGGTACCCAACAATGAATGAATC
41771225 ATCCCTGTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (58 bp):
AAAGGTACAATTCGAATACCGTTACATGTTCGGTACCCAACAATGAATGAATCGTCCT
Found at i:41776845 original size:24 final size:24
Alignment explanation
Indices: 41776817--41776863 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
41776807 GCCGGTTAGG
*
41776817 TTCCCGGCGGTGCTCCGGTGAGCT
1 TTCCCAGCGGTGCTCCGGTGAGCT
41776841 TTCCCAGCGGTGCTCCGGTGAGC
1 TTCCCAGCGGTGCTCCGGTGAGC
41776864 CATCCTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.34, G:0.36, T:0.23
Consensus pattern (24 bp):
TTCCCAGCGGTGCTCCGGTGAGCT
Found at i:41777196 original size:9 final size:9
Alignment explanation
Indices: 41777184--41777210 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
41777174 GGAGCCTCGG
41777184 GCACCATCA
1 GCACCATCA
41777193 GCACCATCA
1 GCACCATCA
41777202 GCACCATCA
1 GCACCATCA
41777211 ACACGATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.44, G:0.11, T:0.11
Consensus pattern (9 bp):
GCACCATCA
Found at i:41780899 original size:79 final size:81
Alignment explanation
Indices: 41780799--41780982 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
41780789 GCTCCTCGTT
* *
41780799 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
41780861 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
41780879 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
41780943 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
41780959 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41780983 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:41780916 original size:39 final size:41
Alignment explanation
Indices: 41780799--41780982 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
41780789 GCTCCTCGTT
* *
41780799 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
41780839 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
41780879 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
41780918 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
41780959 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41780983 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:41788864 original size:39 final size:40
Alignment explanation
Indices: 41788747--41788930 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
41788737 GCTCCTCGTT
*
41788747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
41788787 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
41788827 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
41788866 CAAATGCCTTC-GGATCTTAGTCTGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
41788907 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41788931 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 63 0.51
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:41788924 original size:79 final size:81
Alignment explanation
Indices: 41788747--41788930 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
41788737 GCTCCTCGTT
* *
41788747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
41788811 GATTTAGTAACTCGCA
66 GATTTAGTAACTAGCA
**
41788827 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
41788888 TGGATATT-GTCACTTAGCA
64 CGGAT-TTAGTAAC-TAGCA
41788907 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41788931 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTAGCA
Found at i:41797791 original size:58 final size:59
Alignment explanation
Indices: 41797699--41797820 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 59
41797689 AACGAACTCA
** * *
41797699 ATCCCAAAAGGTAGAATTCGGGTACTGTTACATGTTCGGTACCCAATAATGAATGAATC
1 ATCCCAAAAGGTAGAATTCGAATACTGTTACATGTCCGGTACCCAACAATGAATGAATC
* *
41797758 ATCCC-AAAGGTAGAATTCGAATACTGTTGCATGTCCGGTACCCAACAATGGATGAATC
1 ATCCCAAAAGGTAGAATTCGAATACTGTTACATGTCCGGTACCCAACAATGAATGAATC
*
41797816 GTCCC
1 ATCCC
41797821 TGTCCCTCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
58 51 0.91
59 5 0.09
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (59 bp):
ATCCCAAAAGGTAGAATTCGAATACTGTTACATGTCCGGTACCCAACAATGAATGAATC
Found at i:41800007 original size:24 final size:24
Alignment explanation
Indices: 41799944--41800007 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
41799934 AGGTTCCCGA
* *
41799944 CGGTGCTCCGGTGATCTATTCCGG
1 CGGTGCTCCGGTGAGCTATTCCAG
* *
41799968 CGGTGCTCTGGAGAGCT-TTCCCAG
1 CGGTGCTCCGGTGAGCTATT-CCAG
*
41799992 CGGTGCTCCAGTGAGC
1 CGGTGCTCCGGTGAGC
41800008 CATCCCGGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 2 0.06
24 30 0.94
ACGTcount: A:0.11, C:0.30, G:0.34, T:0.25
Consensus pattern (24 bp):
CGGTGCTCCGGTGAGCTATTCCAG
Found at i:41800262 original size:43 final size:43
Alignment explanation
Indices: 41800214--41803027 Score: 2605
Period size: 43 Copynumber: 66.3 Consensus size: 43
41800204 GCCTTGGACG
* * * * *
41800214 CCATCGGCAACCTAGGACGTCGGTGGTGCGAGAGCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * ** * * *
41800257 GCATCGAC-ACCTTGGTGCTCGGAT-GTGCGAGAGCCTAGAGCA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAGCA
* * *
41800299 GCATCGGC-ACCTTGGTGCCC-CGGAT-GTGCGGGAGCCTC-AGACA
1 CCATCGGCAACC-TAG-GCCCTTGG-TCGTGCGGGAGCCTCGAG-CA
* * * * * * *
41800342 CCATCGACAAACTAGGCCATTGGTTGTGCCGGAGCCTTGAGTA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * * * *
41800385 CCATTGGCAACCTAGGCCCTTGATCGTGGGGGAGACTTGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * *
41800428 CCATCGACAACCTAGGCCCCTGGTCGTGCGAGAGCCTCGA-CG
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
*** * * * *
41800470 CCATCTAAAACTTAGGCCTTTGGTCATGTGGGAGCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
*
41800513 CCATCGGCAACCTAGGCCCTTGGTCGTGGGGGAGCCTCG-GACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
* *
41800556 CCATCGGCAACCTAGGCCAC-TGGTCGTGCAGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCC-CTTGGTCGTGCGGGAGCCTCGAGCA
* * * *
41800599 CCATCGGCAACATAGGCCATTGGTCGTGCGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
*
41800641 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
*
41800684 CCATCGGC-ACCTAGACCCTTGGTCGTGCGGGAGCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * *
41800726 CCA-CGGC-ACTTAGGCCATTGGCCGTGCGGGACCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * *
41800767 CCATCGGGAACCTAGGCCCTTGGTCGTGCGGGAGACACGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41800810 CCATCGGTAACCTAGGCCCTCGGTCGTGCGAGAGCCTCG-GACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
* * * *
41800853 CCATCGGC-GCCTAAGCCCTTGGTCGTGCAGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * ** *
41800895 CCATCGAC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAGCA
* * * *
41800937 CCATTGGCAACCTAGGCCCTTGGTCGTACGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41800979 CCATCGGCAACCTAGGCCTTTGGTCGTGCGGCAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * * *
41801022 CCATTGGTAACCTAGGCCCATGGTCGTGCGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* *
41801064 CAATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTC-AGACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
* * * ** * *
41801107 CCATTGG-TACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGTA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAGCA
* * * *
41801149 CCATCGGTAACCTAGGCCCCTGGTCATGCGGGAGCCTC-AGACC
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
* * * *
41801192 CCATCGGCAACCTAGTCCCCTGGTCGTACGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * *
41801235 CCATCGGCAACCTAGGCCTTTGGTCGTACGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * *
41801277 CCATTGGC-ACCTAGGCTCTTGGTTGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41801319 CCATCGGCAACCTAGGCCCTTAGTCGTGCGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* *
41801361 CCATCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
41801404 CCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
** * *
41801446 CCA-CAAC-AGCTAGGCCCTTGGTCATGCGGGAGCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
** *
41801487 CCA-CAAC-AGCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * ** * *
41801528 CCATCGGCAACCTAGGCTCTTGGTCGTCCAAGAGCCACGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* *
41801571 CCATCGGCAACCTAGGCCTTTGGTCGTGTGGGAGCCTCGAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41801614 CCATCGGC-GCCTAGGCCCTTGGTCGTGCAGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* ** *
41801656 CCATCGGC-ACCTTGGTGCTTGGAT-GTACGGGAGCCTC-AGCCA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAG-CA
* * *
41801698 CCATCGGCATCCTAGGCCCTTAGTCTTGCGGGAGCCTTCG-GCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCC-TCGAGCA
* * * * *
41801741 CCATTGGCAACCTAGGCCCTTGGTCGTGCGAGAGCGT-TAGGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
*
41801783 CCATCGGCAATCTAGGCCCTTGGTCGTGCGGGAGCCTCG-GACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
* * * ** *
41801826 CCATTGG-TACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAGCA
* * * * * *
41801868 CCATTGGGAAGCTAGGCCCTTGGTCGTGTGGGAGCCTCGTGCC
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41801911 CCATCGGTAACCTAGTACCC-TGGTCGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAG-GCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41801954 CCATCGGCAACCTAGGCCCTTGGTCATGCGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41801996 CCATTGGC-ACCTAGGCCCTTGGTCGTGCGGGAGGCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* ** *
41802038 CCATCGGC-ACCTTGGTGCTTGGAT-GTGCAGGAGCCTCG-GACA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAG-CA
* * * *
41802080 CCATCGGAAACCTAGGCCCGTGGTCGTGCGGGAGCCACGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41802123 CCATCGGCAACCTAGGCCCTTGGTCGTGCAGGAGCCTTG-GATA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
** *
41802166 CCATCGG-TGCCTAGGCCCTTGGTCGTGCAGGAGCCTCG-GACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
* * *
41802208 CCATCGGTAACCTTGGCCCTTGGTCGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * * *
41802251 CTATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGTA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * * *
41802294 CCATCGGCAACTTGGTGCCTTTGATC-TGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAG-GCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * *
41802337 CCATCGGC-GCCTAGGCTCTTGGTCGTGCAGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* ** **
41802379 CCATCGGC-ACCTGGGTGCTTGGAT-GTGTAGGAGCCTCG-GCCA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAG-CA
* *
41802421 CCATCGGCAACCTAGGCCCTTGGTCTTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * * *
41802464 CCATTGGCAACCTAGGCCCTTGGTCATACGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* **
41802506 CCATCGGCAACCTAGGCCCCTGGTAATGCGGGAGCCTCG-GACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
* * * ** * * *
41802549 CCATTGG-TACCTTGGTGCTTAGAT-GTGCGAGAACCTCGAGCA
1 CCATCGGCAACCTAGGCCCTT-GGTCGTGCGGGAGCCTCGAGCA
* *
41802591 CCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTC-AGGCC
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA-GCA
* * * *
41802634 CCATCGGGAA-CTGAGTCCCCTGGTCGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCT-AGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41802677 CCATCGGCAACCTAGGCCCTTGGCCGTGCGAGAGCCTCG-GGA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41802719 CCATTGGC-ACCTAGGCTCTTGGTCGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* *
41802761 CCATCGGC-ACCTTAGTG--CTTGGAT-GTGCGGGAGCCTCAAACA
1 CCATCGGCAACC-TAG-GCCCTTGG-TCGTGCGGGAGCCTCGAGCA
* * *
41802803 CCATCGGCAACCTGGGCCCTTGGTCGTGCGGGAGCCACGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * *
41802846 CCATCGGCAACCTCGGCCCTTGGTCGTGCGAGAGCCTCAAGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
** * * **
41802889 CCATCGG-TGCATAGGCCCTTGGTCATGCAAGAGCCTCG-GACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CA
*
41802931 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
* * * * * *
41802974 CCATCGGTAAGCTAGGCCCCTAGTTGTGCGGGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
41803017 CCATCGGCAAC
1 CCATCGGCAAC
41803028 TTGGTGCCTC
Statistics
Matches: 2283, Mismatches: 402, Indels: 172
0.80 0.14 0.06
Matches are distributed among these distances:
41 204 0.09
42 867 0.38
43 1183 0.52
44 29 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCA
Found at i:41800291 original size:42 final size:43
Alignment explanation
Indices: 41800239--41800350 Score: 156
Period size: 42 Copynumber: 2.6 Consensus size: 43
41800229 GACGTCGGTG
*
41800239 GTGCGAGAGCCTCGAGCAGCATCGACACCTTGGTG-CTCGGAT
1 GTGCGAGAGCCTCGAGCAGCATCGACACCTTGGTGCCCCGGAT
* *
41800281 GTGCGAGAGCCTAGAGCAGCATCGGCACCTTGGTGCCCCGGAT
1 GTGCGAGAGCCTCGAGCAGCATCGACACCTTGGTGCCCCGGAT
* *
41800324 GTGCGGGAGCCTC-AGACACCATCGACA
1 GTGCGAGAGCCTCGAG-CAGCATCGACA
41800351 AACTAGGCCA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 35 0.57
43 26 0.43
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (43 bp):
GTGCGAGAGCCTCGAGCAGCATCGACACCTTGGTGCCCCGGAT
Found at i:41800524 original size:85 final size:86
Alignment explanation
Indices: 41800189--41803027 Score: 2769
Period size: 85 Copynumber: 33.4 Consensus size: 86
41800179 CACATTACTG
* * * * * * * * * *
41800189 CTTGGACGTGCTGGAGCCTTGGACGCCATCGGCAACCTAGGACGTCGGTGGTGCGAGAGCCTCGA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* * * **
41800254 GCAGCATCGAC-ACCTTGGTG
66 GCACCATCGGCAACCTAGGCC
* * * * * * *
41800274 CTCGGAT-GTGCGAGAGCCTAGAGCAGCATCGGC-ACCTTGGTGCCC-CGGAT-GTGCGGGAGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC-TAG-GCCCTTGG-TCGTGCGGGAGCC
* *
41800335 TC-AGACACCATCGACAAACTAGGCC
62 TCGAG-CACCATCGGCAACCTAGGCC
* * * * * * * * * * * *
41800360 ATTGGTTGTGCCGGAGCCTTGAGTACCATTGGCAACCTAGGCCCTTGATCGTGGGGGAGACTTGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
41800425 GCACCATCGACAACCTAGGCC
66 GCACCATCGGCAACCTAGGCC
* * * * *** * * * *
41800446 CCTGGTCGTGCGAGAGCCTC-GACGCCATCTAAAACTTAGGCCTTTGGTCATGTGGGAGCCTCGA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
41800510 GCACCATCGGCAACCTAGGCC
66 GCACCATCGGCAACCTAGGCC
* * *
41800531 CTTGGTCGTGGGGGAGCCTCGGACACCATCGGCAACCTAGGCCAC-TGGTCGTGCAGGAGCCTCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC-CTTGGTCGTGCGGGAGCCTCG
* *
41800595 GGCACCATCGGCAACATAGGCC
65 AGCACCATCGGCAACCTAGGCC
* * *
41800617 ATTGGTCGTGCGAGAGCCTCGGG-ACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
41800681 GCACCATCGGC-ACCTAGACC
66 GCACCATCGGCAACCTAGGCC
* * * * *
41800701 CTTGGTCGTGCGGGAGCCTCGAGCACCA-CGGC-ACTTAGGCCATTGGCCGTGCGGGACCCTCGA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
41800764 GCACCATCGGGAACCTAGGCC
66 GCACCATCGGCAACCTAGGCC
* * * * *
41800785 CTTGGTCGTGCGGGAGACACGGGCACCATCGGTAACCTAGGCCCTCGGTCGTGCGAGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* *
41800849 GACACCATCGGC-GCCTAAGCC
66 G-CACCATCGGCAACCTAGGCC
* * * **
41800870 CTTGGTCGTGCAGGAGCCTCGGGCACCATCGAC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG
* *
41800933 GGCACCATTGGCAACCTAGGCC
65 AGCACCATCGGCAACCTAGGCC
* * * * *
41800955 CTTGGTCGTACGAGAGCCTCGGG-ACCATCGGCAACCTAGGCCTTTGGTCGTGCGGCAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* *
41801019 GCACCATTGGTAACCTAGGCC
66 GCACCATCGGCAACCTAGGCC
* * * *
41801040 CATGGTCGTGCGAGAGCCTCGGG-ACAATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTC-A
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* * * **
41801103 GACACCATTGG-TACCTTGGTG
66 G-CACCATCGGCAACCTAGGCC
* * * *
41801124 CTTGGAT-GTGCGGGAGCCTCGGGTACCATCGGTAACCTAGGCCCCTGGTCATGCGGGAGCCTC-
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
* *
41801187 AGACCCCATCGGCAACCTAGTCC
65 AG-CACCATCGGCAACCTAGGCC
* * * * *
41801210 CCTGGTCGTACGGGAGCCTCGGGCACCATCGGCAACCTAGGCCTTTGGTCGTACGAGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* * *
41801274 GGACCATTGGC-ACCTAGGCT
66 GCACCATCGGCAACCTAGGCC
* * *
41801294 CTTGGTTGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTAGTCGTGCGAGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* *
41801358 GGACCATCGACAACCTAGGCC
66 GCACCATCGGCAACCTAGGCC
41801379 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
** *
41801443 GCACCA-CAAC-AGCTAGGCC
66 GCACCATCGGCAACCTAGGCC
* * ** *
41801462 CTTGGTCATGCGGGAGCCTCGAGCACCA-CAAC-AGCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
41801525 GCACCATCGGCAACCTAGGCT
66 GCACCATCGGCAACCTAGGCC
* ** * * *
41801546 CTTGGTCGTCCAAGAGCCACGGGCACCATCGGCAACCTAGGCCTTTGGTCGTGTGGGAGCCTCGA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
41801611 GCACCATCGGC-GCCTAGGCC
66 GCACCATCGGCAACCTAGGCC
* * ** *
41801631 CTTGGTCGTGCAGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTACGGGAGCCTC-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG
*
41801693 AGCCACCATCGGCATCCTAGGCC
65 AG-CACCATCGGCAACCTAGGCC
* * * * * *
41801716 CTTAGTCTTGCGGGAGCCTTC-GGCACCATTGGCAACCTAGGCCCTTGGTCGTGCGAGAGCGT-T
1 CTTGGTCGTGCGGGAGCC-TCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
* *
41801779 AGGACCATCGGCAATCTAGGCC
65 AGCACCATCGGCAACCTAGGCC
* * * * **
41801801 CTTGGTCGTGCGGGAGCCTCGGACACCATTGG-TACCTTGGTGCTTGGAT-GTGCGGGAGCCTCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG
* * * *
41801864 GGCACCATTGGGAAGCTAGGCC
65 AGCACCATCGGCAACCTAGGCC
* * * * *
41801886 CTTGGTCGTGTGGGAGCCTCGTGCCCCATCGGTAACCTAGTACCC-TGGTCGTGCGGGAGCCTCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAG-GCCCTTGGTCGTGCGGGAGCCTCG
*
41801950 GGCACCATCGGCAACCTAGGCC
65 AGCACCATCGGCAACCTAGGCC
* * * * *
41801972 CTTGGTCATGCGAGAGCCTCGGG-ACCATTGGC-ACCTAGGCCCTTGGTCGTGCGGGAGGCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* **
41802035 GCACCATCGGC-ACCTTGGTG
66 GCACCATCGGCAACCTAGGCC
* * * * *
41802055 CTTGGAT-GTGCAGGAGCCTCGGACACCATCGGAAACCTAGGCCCGTGGTCGTGCGGGAGCCACG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
*
41802119 GGCACCATCGGCAACCTAGGCC
65 AGCACCATCGGCAACCTAGGCC
* * ** ** *
41802141 CTTGGTCGTGCAGGAGCCTTGGATACCATCGG-TGCCTAGGCCCTTGGTCGTGCAGGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* *
41802204 GACACCATCGGTAACCTTGGCC
66 G-CACCATCGGCAACCTAGGCC
* * * *
41802226 CTTGGTCGTGCGGGAGCCTCGGGCACTATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* * *
41802291 GTACCATCGGCAACTTGGTGCC
66 GCACCATCGGCAACCTAG-GCC
* * * * * *
41802313 TTTGATC-TGCGGGAGCCTCGGGCACCATCGGC-GCCTAGGCTCTTGGTCGTGCAGGAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* **
41802376 GCACCATCGGC-ACCTGGGTG
66 GCACCATCGGCAACCTAGGCC
** * *
41802396 CTTGGAT-GTGTAGGAGCCTCGGCCACCATCGGCAACCTAGGCCCTTGGTCTTGCGGGAGCCTCG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
* *
41802460 GGCACCATTGGCAACCTAGGCC
65 AGCACCATCGGCAACCTAGGCC
* * * * **
41802482 CTTGGTCATACGAGAGCCTCGGG-ACCATCGGCAACCTAGGCCCCTGGTAATGCGGGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* * * **
41802545 GACACCATTGG-TACCTTGGTG
66 G-CACCATCGGCAACCTAGGCC
* * * * *
41802566 CTTAGAT-GTGCGAGAACCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTC-
1 CTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
* * *
41802629 AGGCCCCATCGGGAA-CTGAGTCC
65 A-GCACCATCGGCAACCT-AGGCC
* * *
41802652 CCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGCCGTGCGAGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* * *
41802716 GGACCATTGGC-ACCTAGGCT
66 GCACCATCGGCAACCTAGGCC
41802736 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTAGTG--CTTGGAT-GTGCGGGAGCCT
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC-TAG-GCCCTTGG-TCGTGCGGGAGCCT
* * *
41802797 CAAACACCATCGGCAACCTGGGCC
63 CGAGCACCATCGGCAACCTAGGCC
* * * *
41802821 CTTGGTCGTGCGGGAGCCACGGGCACCATCGGCAACCTCGGCCCTTGGTCGTGCGAGAGCCTCAA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
** *
41802886 GCACCATCGG-TGCATAGGCC
66 GCACCATCGGCAACCTAGGCC
* ** * *
41802906 CTTGGTCATGCAAGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
* *
41802971 GCACCATCGGTAAGCTAGGCC
66 GCACCATCGGCAACCTAGGCC
* * *
41802992 CCTAGTTGTGCGGGAGCCTCGGGCACCATCGGCAAC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAC
41803028 TTGGTGCCTC
Statistics
Matches: 2272, Mismatches: 398, Indels: 167
0.80 0.14 0.06
Matches are distributed among these distances:
82 38 0.02
83 124 0.05
84 468 0.21
85 1024 0.45
86 604 0.27
87 14 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.19
Consensus pattern (86 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
GCACCATCGGCAACCTAGGCC
Found at i:41803094 original size:128 final size:126
Alignment explanation
Indices: 41800324--41803055 Score: 2255
Period size: 128 Copynumber: 21.5 Consensus size: 126
41800314 TGCCCCGGAT
* * * * * * * *
41800324 GTGCGGGAGCCTCAGACACCATCGACAAAC-TAGGCCAT-TGGTTGTGCCGGAGCCTTGAGTACC
1 GTGCGGGAGCCTCGGGCACCATCGGC-AACTTGGGCC-TCTGGTCGTGCGGGAGCCTCG-GCACC
* * * * * * *
41800387 ATTGGCAACCTAGGCCCTTGATCGTGGGGGAGACTTGGGCACCATCGACAACCTAGGCCCCTGGT
63 ATCGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
41800452 C
126 C
* * * *** * * * *
41800453 GTGCGAGAGCCTC-GACGCCATCTAAAACTTAGGCCTTTGGTCATGTGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTCG-GCACCAT
* *
41800517 CGGCAACCTAGGCCCTTGGTCGTGGGGGAGCCTCGGACACCATCGGCAACCTAGGCCAC-TGGTC
65 CGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC-CTTGGTC
* * * * *
41800581 GTGCAGGAGCCTCGGGCACCATCGGCAACATAGGCCAT-TGGTCGTGCGAGAGCCTCGGGACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCC-TCTGGTCGTGCGGGAGCCTCGGCACCAT
*
41800645 CGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGACCCTTGGTC
65 CGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41800708 GTGCGGGAGCCTCGAGCACCA-CGGC-ACTTAGGCCAT-TGGCCGTGCGGGACCCTCGAGCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCC-TCTGGTCGTGCGGGAGCCTCG-GCACCA
* * * * *
41800770 TCGGGAACCTAGGCCCTTGGTCGTGCGGGAGACACGGGCACCATCGGTAACCTAGGCCCTCGGTC
64 TC-GGCACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * ** ** * *
41800835 GTGCGAGAGCCTCGGACACCATCGGCGCCTAAGCCCT-TGGTCGTGCAGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTC-GGCACCAT
* * ** *
41800899 CGACACCTTGGTGCTTGGATGTGCGGGAGCCTCGGGCACCATTGGCAACCTAGGCCCTTGGTC
65 CGGCACCTAGGCCCTTGG-TGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41800962 GTACGAGAGCCTCGGG-ACCATCGGCAACCTAGGCCTTTGGTCGTGCGGCAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTC-GGCACCAT
* * * * * *
41801026 TGGTAACCTAGGCCCATGGTCGTGCGAGAGCCTCGGG-ACAATCGGCAACCTAGGCCCCTGGTC
65 CGG-CACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41801089 GTGCGGGAGCCTCAGACACCATTGGTACCTTGGTG-CT-TGGAT-GTGCGGGAGCCTCGGGTACC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGG-GCCTCTGG-TCGTGCGGGAGCCTC-GGCACC
* * * * * * * *
41801151 ATCGGTAACCTAGGCCCCTGGTCATGCGGGAGCCTCAGACCCCATCGGCAACCTAGTCCCCTGGT
63 ATCGG-CACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
41801216 C
126 C
* * * * * * * *
41801217 GTACGGGAGCCTCGGGCACCATCGGCAACCTAGGCCTTTGGTCGTACGAGAGCCTCGGGACCATT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTCGGCACCATC
* *
41801282 GGCACCTAGGCTCTTGGTTGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTAGTC
66 GGCACCTAGGCCCTTGG-TGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41801344 GTGCGAGAGCCTCGGG-ACCATCGACAACCTAGGCC-CTTGGTCGTGCGGGAGCCTCGGGCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTC-TGGTCGTGCGGGAGCCTC-GGCACCA
* ** *
41801407 TCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCA-CAAC-AGCTAGGCCCTTGGTC
64 TCGGCACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * ** * * *
41801469 ATGCGGGAGCCTCGAGCACCA-CAACAGCTAGGCCCT-TGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTCG-GCACCAT
* * ** * *
41801532 CGGCAACCTAGGCTCTTGGTCGTCCAAGAGCCACGGGCACCATCGGCAACCTAGGCCTTTGGTC
65 CGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * ** * * *
41801596 GTGTGGGAGCCTCGAGCACCATCGGCGCCTAGGCCCT-TGGTCGTGCAGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTC-GGCACCAT
* ** * * * * *
41801660 CGGCACCTTGGTGCTTGGATGTACGGGAGCCTCAGCCACCATCGGCATCCTAGGCCCTTAGTC
65 CGGCACCTAGGCCCTTGG-TGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * * *
41801723 TTGCGGGAGCCTTC-GGCACCATTGGCAACCTAGGCC-CTTGGTCGTGCGAGAGCGTTAGG-ACC
1 GTGCGGGAGCC-TCGGGCACCATCGGCAACTTGGGCCTC-TGGTCGTGCGGGAGC-CTCGGCACC
* * * * * **
41801785 ATCGGCAATCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATTGG-TACCTTGGTGCTTGGA
63 ATCGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-
41801849 T-
125 TC
* * * * * *
41801850 GTGCGGGAGCCTCGGGCACCATTGGGAAGCTAGGCCCT-TGGTCGTGTGGGAGCCTCGTGCCCCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAA-CTTGGGCCTCTGGTCGTGCGGGAGCCTCG-GCACCA
* *
41801914 TCGGTAACCTAGTACCC-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
64 TCGG-CACCTAG-GCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
41801978 C
126 C
* * * * * * *
41801979 ATGCGAGAGCCTCGGG-ACCATTGGCACCTAGGCCCT-TGGTCGTGCGGGAGGCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTC-GGCACCAT
* ** * * * *
41802042 CGGCACCTTGGTGCTTGGATGTGCAGGAGCCTCGGACACCATCGGAAACCTAGGCCCGTGGTC
65 CGGCACCTAGGCCCTTGG-TGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41802105 GTGCGGGAGCCACGGGCACCATCGGCAACCTAGGCC-CTTGGTCGTGCAGGAGCCTTGGATACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTC-TGGTCGTGCGGGAGCCTCGG-CACCA
** * * * *
41802169 TCGGTGCCTAGGCCCTTGGTCGTGCAGGAGCCTCGGACACCATCGGTAACCTTGGCCCTTGGTC
64 TCGGCACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41802233 GTGCGGGAGCCTCGGGCACTATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGTACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTC-GGCACCAT
* * * * * * *
41802298 CGGCAACTTGGTGCCTTTGATCTGCGGGAGCCTCGGGCACCATCGGC-GCCTAGGCTCTTGGTC
65 CGGC-ACCTAG-GCCCTTGGTGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * **
41802361 GTGCAGGAGCCTCGGGCACCATCGGC-ACCTGGGTGCT-TGGAT-GTGTAGGAGCCTCGGCCACC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGG-CCTCTGG-TCGTGCGGGAGCCTCGG-CACC
* *
41802423 ATCGGCAACCTAGGCCCTTGGTCTTGCGGGAGCCTCGGGCACCATTGGCAACCTAGGCCCTTGGT
63 ATCGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
41802488 C
126 C
* * * * * * **
41802489 ATACGAGAGCCTCGGG-ACCATCGGCAACCTAGGCCCCTGGTAATGCGGGAGCCTCGGACACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTCGG-CACCAT
* * * ** * * * *
41802553 TGGTACCTTGGTGCTTAGATGTGCGAGAACCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
65 CGGCACCTAGGCCCTT-GGTGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * * * *
41802616 GTGCGAGAGCCTCAGGCCCCATCGGGAAC-TGAGTCCCCTGGTCGTGCGGGAGCCTCGGGCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTG-GGCCTCTGGTCGTGCGGGAGCCTC-GGCACCA
* * * *
41802680 TCGGCAACCTAGGCCCTTGGCCGTGCGAGAGCCTCGGG-ACCATTGGC-ACCTAGGCTCTTGGTC
64 TCGGC-ACCTAGGCCCTTGG-TGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * **
41802743 GTGCGGGAGCCTCGGGCACCATCGGCACCTTAGTG-CT-TGGAT-GTGCGGGAGCCTCAAACACC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTT-GGGCCTCTGG-TCGTGCGGGAGCCTC-GGCACC
* * *
41802805 ATCGGCAACCTGGGCCCTTGGTCGTGCGGGAGCCACGGGCACCATCGGCAACCTCGGCCCTTGGT
63 ATCGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
41802870 C
126 C
* ** * * * **
41802871 GTGCGAGAGCCTCAAGCACCATCGGTGC-A-TAGGCCCT-TGGTCATGCAAGAGCCTCGGACACC
1 GTGCGGGAGCCTCGGGCACCATC-G-GCAACTTGGGCCTCTGGTCGTGCGGGAGCCTCGG-CACC
* * * *
41802933 ATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTAAGCTAGGCCCCTAGT
63 ATCGGC-ACCTAGGCCCTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
*
41802998 T
126 C
* *
41802999 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGTGCCTCAGATC-TGCGGGAGCCTCG
1 GTGCGGGAGCCTCGGGCACCATCGGCAACTTGG-GCCTCTGGTCGTGCGGGAGCCTCG
41803056 AGCAGCATTG
Statistics
Matches: 2124, Mismatches: 386, Indels: 186
0.79 0.14 0.07
Matches are distributed among these distances:
123 1 0.00
124 29 0.01
125 93 0.04
126 238 0.11
127 747 0.35
128 837 0.39
129 166 0.08
130 13 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.19
Consensus pattern (126 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACTTGGGCCTCTGGTCGTGCGGGAGCCTCGGCACCATC
GGCACCTAGGCCCTTGGTGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
Found at i:41805333 original size:40 final size:40
Alignment explanation
Indices: 41805278--41805471 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
41805268 GCATCTGCCG
*
41805278 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATC
* *
41805318 CGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATC
* *
41805358 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATC
* ** * * *
41805398 CGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATC
* * *
41805438 CGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
41805472 CGTGTATTCG
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATC
Found at i:41807567 original size:90 final size:90
Alignment explanation
Indices: 41807414--41807592 Score: 349
Period size: 90 Copynumber: 2.0 Consensus size: 90
41807404 AAGTTTTTGT
*
41807414 TTCTTGTTAAATTGGATGAATCTTGTTGTATGAGTGCTTAAACATACTATGATTAAATGGATGCA
1 TTCTTGTTAAATTGGATGAATCTTGTTGTATGAGTGCTTAAACAAACTATGATTAAATGGATGCA
41807479 TAAATTCAAAGTGGGAAGAAATGGG
66 TAAATTCAAAGTGGGAAGAAATGGG
41807504 TTCTTGTTAAATTGGATGAATCTTGTTGTATGAGTGCTTAAACAAACTATGATTAAATGGATGCA
1 TTCTTGTTAAATTGGATGAATCTTGTTGTATGAGTGCTTAAACAAACTATGATTAAATGGATGCA
41807569 TAAATTCAAAGTGGGAAGAAATGG
66 TAAATTCAAAGTGGGAAGAAATGG
41807593 ACTATTATAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (90 bp):
TTCTTGTTAAATTGGATGAATCTTGTTGTATGAGTGCTTAAACAAACTATGATTAAATGGATGCA
TAAATTCAAAGTGGGAAGAAATGGG
Found at i:41809099 original size:47 final size:47
Alignment explanation
Indices: 41809030--41809464 Score: 701
Period size: 47 Copynumber: 9.2 Consensus size: 47
41809020 ATATGAAATG
41809030 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
41809077 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
41809124 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
41809171 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
41809220 GTGAT-AGCGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
41809267 GTGATAGGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
41809314 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATCTAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
41809361 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
* * * * * * * *
41809410 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
41809457 GTGATAAG
1 GTGATAAG
41809465 TCCCGAAGGG
Statistics
Matches: 362, Mismatches: 20, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 277 0.77
48 3 0.01
49 82 0.23
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:41809337 original size:22 final size:22
Alignment explanation
Indices: 41809312--41809387 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
41809302 AAGTGTATAT
41809312 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ** *
41809334 ATGTGATGAATGTGAAAGTGTATCT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
41809359 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
41809381 ATGTGAT
1 ATGTGAT
41809388 GAATGTGGAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:41809364 original size:190 final size:189
Alignment explanation
Indices: 41809030--41809464 Score: 735
Period size: 190 Copynumber: 2.3 Consensus size: 189
41809020 ATATGAAATG
41809030 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 GTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41809095 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65 CAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
41809160 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
130 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
*
41809220 GTGATAGCGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGC
1 GTGATAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41809285 CAATGTGGTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
65 CAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
41809350 AGTGTATCTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATAT
130 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
* * * * * * *
41809410 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGATA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41809465 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
189 2 0.01
190 227 0.99
191 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (189 bp):
GTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
Found at i:41811563 original size:43 final size:43
Alignment explanation
Indices: 41811515--41812305 Score: 1564
Period size: 43 Copynumber: 18.4 Consensus size: 43
41811505 TTGGTTTTCA
*
41811515 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811558 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811601 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811644 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811687 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811730 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811773 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811816 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811859 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811902 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811945 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41811988 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41812031 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41812074 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41812117 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41812160 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41812203 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
*
41812246 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
41812289 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
41812306 TTGAAATGCA
Statistics
Matches: 746, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 746 1.00
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAGGTGTTCACGGTTGTGAGATTG
Found at i:41816530 original size:42 final size:42
Alignment explanation
Indices: 41816462--41817154 Score: 597
Period size: 42 Copynumber: 16.3 Consensus size: 42
41816452 GGTGTTACAT
*
41816462 GGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
1 GGGCACCATCGG-TACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* * * *
41816505 GGGCACCATCGGTGCCTAGGCCCTTGCTCTTGCAGGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* *
41816547 GGACACCATCGGTAACCTAGGCCCTTGGTCGTGCAGGAGCCTC
1 GGGCACCATCGGT-ACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* * *
41816590 GGGCACCATCGGTAACCTAGGCCCCTAGTCGTGCGAGAGCCTC
1 GGGCACCATCGGT-ACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* * * ** * * *
41816633 GGGCACCATCGGCAACTTGATTCCTCGGAT-TTGCGGGATCCTC
1 GGGCACCATCGGTACCTAG-GCCCTTGG-TCGTGCGGGAGCCTC
* ** *
41816676 GAGCACCATCGGCGCCTAGGCCCTTGGTCGTGCAGGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* * ** * *
41816718 GGGCACCATCGGCACCTTGGTGCTTGGAT-ATACGGGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGG-TCGTGCGGGAGCCTC
* * ** * *
41816760 GGGCACCATCGGCACCTTGGTGCTTGGAT-GTCCGAGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGG-TCGTGCGGGAGCCTC
* * * ** * * *
41816802 GGCCACTATCGGAAACCTAATCCCTTGGTCTTGCGAGAGGCTC
1 GGGCACCATCGG-TACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* * *
41816845 GAGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTC
1 GGGCACCATCGG-TACCTAGGCCCTTGGTCGTGCGGGAGCCTC
*** *
41816888 GGGCACCATCAACAACCTAGGCCCTTGGTCGTGCAGGAGCCTC
1 GGGCACCATC-GGTACCTAGGCCCTTGGTCGTGCGGGAGCCTC
41816931 GGGCACCATCGGTAACCTAGGCTCC-TGGTCGTGCGGGAGCCTC
1 GGGCACCATCGGT-ACCTAGGC-CCTTGGTCGTGCGGGAGCCTC
* * * *
41816974 GGGCACCATCGGTGCCTAAGCCCTTGGTCATGCCGGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* * ** * *
41817016 GGGCACCATCGGCACCTTGGTGCTTGGAT-GTACAGGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGG-TCGTGCGGGAGCCTC
* * * *
41817058 GGGCACCATCGGTGCCTAAGCCCTTGGTCATGCCGGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGGTCGTGCGGGAGCCTC
* * ** * *
41817100 GGGCACCATCGGCACCTTGGTGCTTGGAT-GTACAGGAGCCTC
1 GGGCACCATCGGTACCTAGGCCCTTGG-TCGTGCGGGAGCCTC
41817142 GGGCACCATCGGT
1 GGGCACCATCGGT
41817155 GTGATAGTCC
Statistics
Matches: 528, Mismatches: 108, Indels: 29
0.79 0.16 0.04
Matches are distributed among these distances:
41 4 0.01
42 265 0.50
43 256 0.48
44 3 0.01
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.19
Consensus pattern (42 bp):
GGGCACCATCGGTACCTAGGCCCTTGGTCGTGCGGGAGCCTC
Found at i:41816676 original size:86 final size:85
Alignment explanation
Indices: 41816462--41817116 Score: 528
Period size: 86 Copynumber: 7.7 Consensus size: 85
41816452 GGTGTTACAT
* **
41816462 GGGCACCATCGGCAACCT-AGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTGCCTAGGC
1 GGGCACCATCGGCAACCTGA-GCCCTTGGTCTTGCGGGAGCCTCGGGCACCATCGGAACCTAGGC
* * *
41816526 CCTTGCTCTTGC-AGGAGCCTC
65 CCCTGGTCGTGCGA-GAGCCTC
* * * *
41816547 GGACACCATCGGTAACCT-AGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATCGGTAACCTAGG
1 GGGCACCATCGGCAACCTGA-GCCCTTGGTCTTGCGGGAGCCTCGGGCACCATCGG-AACCTAGG
*
41816611 CCCCTAGTCGTGCGAGAGCCTC
64 CCCCTGGTCGTGCGAGAGCCTC
* ** * * * **
41816633 GGGCACCATCGGCAACTTGATTCCTCGGAT-TTGCGGGATCCTCGAGCACCATCGGCGCCTAGGC
1 GGGCACCATCGGCAACCTGAGCCCTTGG-TCTTGCGGGAGCCTCGGGCACCATCGGAACCTAGGC
*
41816697 CCTTGGTCGTGC-AGGAGCCTC
65 CCCTGGTCGTGCGA-GAGCCTC
** * * * *
41816718 GGGCACCATCGGC-ACCTTG-GTGCTTGGAT-ATACGGGAGCCTCGGGCACCATCGGCACCTTGG
1 GGGCACCATCGGCAACC-TGAGCCCTTGG-TCTTGCGGGAGCCTCGGGCACCATCGGAACCTAGG
** * *
41816780 TGCTTGGAT-GTCCGAGAGCCTC
64 CCCCTGG-TCGTGCGAGAGCCTC
* * * * * * * *
41816802 GGCCACTATCGGAAACCTAATCCCTTGGTCTTGCGAGAGGCTCGAGCACCATCGGCAACCTAGGC
1 GGGCACCATCGGCAACCTGAGCCCTTGGTCTTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGC
*
41816867 CCCTGGTCGTGCGGGAGCCTC
65 CCCTGGTCGTGCGAGAGCCTC
** * *
41816888 GGGCACCATCAACAACCT-AGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATCGGTAACCTAGG
1 GGGCACCATCGGCAACCTGA-GCCCTTGGTCTTGCGGGAGCCTCGGGCACCATCGG-AACCTAGG
* *
41816952 CTCCTGGTCGTGCGGGAGCCTC
64 CCCCTGGTCGTGCGAGAGCCTC
** * * * * * **
41816974 GGGCACCATCGG-TGCCTAAGCCCTTGGTCATGCCGGAGCCTCGGGCACCATCGGCACCTTGGTG
1 GGGCACCATCGGCAACCTGAGCCCTTGGTCTTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
* *
41817038 CTTGGAT-GTAC-AGGAGCCTC
66 CCTGG-TCGTGCGA-GAGCCTC
** * * * *
41817058 GGGCACCATCGG-TGCCTAAGCCCTTGGTCATGCCGGAGCCTCGGGCACCATCGGCACCT
1 GGGCACCATCGGCAACCTGAGCCCTTGGTCTTGCGGGAGCCTCGGGCACCATCGGAACCT
41817117 TGGTGCTTGG
Statistics
Matches: 472, Mismatches: 81, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
84 143 0.30
85 160 0.34
86 166 0.35
87 3 0.01
ACGTcount: A:0.16, C:0.33, G:0.31, T:0.19
Consensus pattern (85 bp):
GGGCACCATCGGCAACCTGAGCCCTTGGTCTTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
CCTGGTCGTGCGAGAGCCTC
Found at i:41817099 original size:298 final size:297
Alignment explanation
Indices: 41816462--41817116 Score: 829
Period size: 298 Copynumber: 2.2 Consensus size: 297
41816452 GGTGTTACAT
* * ** *
41816462 GGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTGCCTAGGCC
1 GGGCACCATCGG-AACCTAGGCCCTTGGTCATGCCGGAGCCTCGGGCACCATCGGAACCTAAGCC
* *
41816527 CTTGCTCTTGCAGGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCAGGAGCCTCGG
65 CTTGCTCTTGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCAGGAGCCTCGG
*** * *
41816592 GCACCATCGGTAACCTAGGCCCCTAGTCGTGCGAGAGCCTCGGGCACCATCGGCAACTTGATTCC
130 GCACCATCAACAACCTAGGCCCCTAGTCGTGCGAGAGCCTCGGGCACCATCGGCAACTAGACTCC
* * * *
41816657 TCGGATTTGCGGGATCCTCGAGCACCATCGGCGCCTAGGCCCTTGGTCGTGCAGGAGCCTCGGGC
195 TCGGATGTGCGGGAGCCTCGAGCACCATCGGCGCCTAAGCCCTTGGTCATGCAGGAGCCTCGGGC
*
41816722 ACCATCGGCACCTTGGTGCTTGGATATACGGGAGCCTC
260 ACCATCGGCACCTTGGTGCTTGGATATACAGGAGCCTC
* * ** * * *
41816760 GGGCACCATCGGCACCTTGGTGCTTGG--ATGTCCGAGAGCCTCGGCCACTATCGGAAACCTAAT
1 GGGCACCATCGGAACCTAGGCCCTTGGTCATG-CCG-GAGCCTCGGGCACCATCGG-AACCTAAG
* * *
41816823 CCCTTGGTCTTGC-GAGAGGCTC-GAGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCC
63 CCCTTGCTCTTGCAG-GAGCCTCGGA-CACCATCGGCAACCTAGGCCCCTGGTCGTGCAGGAGCC
* * *
41816886 TCGGGCACCATCAACAACCTAGGCCCTTGGTCGTGC-AGGAGCCTCGGGCACCATCGGTAACCTA
126 TCGGGCACCATCAACAACCTAGGCCCCTAGTCGTGCGA-GAGCCTCGGGCACCATCGGCAA-CTA
* * * *
41816950 GGCTCCT-GG-TCGTGCGGGAGCCTCGGGCACCATCGGTGCCTAAGCCCTTGGTCATGCCGGAGC
189 GACTCCTCGGAT-GTGCGGGAGCCTCGAGCACCATCGGCGCCTAAGCCCTTGGTCATGCAGGAGC
*
41817013 CTCGGGCACCATCGGCACCTTGGTGCTTGGATGTACAGGAGCCTC
253 CTCGGGCACCATCGGCACCTTGGTGCTTGGATATACAGGAGCCTC
** * *
41817058 GGGCACCATCGGTGCCTAAGCCCTTGGTCATGCCGGAGCCTCGGGCACCATCGGCACCT
1 GGGCACCATCGGAACCTAGGCCCTTGGTCATGCCGGAGCCTCGGGCACCATCGGAACCT
41817117 TGGTGCTTGG
Statistics
Matches: 303, Mismatches: 44, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
295 2 0.01
296 2 0.01
297 37 0.12
298 249 0.82
299 10 0.03
300 3 0.01
ACGTcount: A:0.16, C:0.33, G:0.31, T:0.19
Consensus pattern (297 bp):
GGGCACCATCGGAACCTAGGCCCTTGGTCATGCCGGAGCCTCGGGCACCATCGGAACCTAAGCCC
TTGCTCTTGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGCAGGAGCCTCGGG
CACCATCAACAACCTAGGCCCCTAGTCGTGCGAGAGCCTCGGGCACCATCGGCAACTAGACTCCT
CGGATGTGCGGGAGCCTCGAGCACCATCGGCGCCTAAGCCCTTGGTCATGCAGGAGCCTCGGGCA
CCATCGGCACCTTGGTGCTTGGATATACAGGAGCCTC
Found at i:41818675 original size:28 final size:28
Alignment explanation
Indices: 41818643--41818710 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
41818633 AATGAGATTG
*
41818643 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
41818671 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
41818699 GCACTAAGTGTG
1 GCACTAAGTGTG
41818711 TGGACTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:41820332 original size:43 final size:43
Alignment explanation
Indices: 41820284--41822205 Score: 1829
Period size: 43 Copynumber: 44.7 Consensus size: 43
41820274 ATTGGATGTC
* * *
41820284 CGGGAGCCTCGGCCACCATCGGTAACCTAGGCCCTTGGTCTTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41820327 CGGGAGCCTCGAGCACCATTGGCAACCTAGGCCCCTGGAT-GTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTG
* * **
41820370 CGAGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTG
* * * *
41820412 CGGGAGCCTCGGACACCAACAGCAACCTAGGCCCGTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
41820455 TGGGAGCCACGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41820498 CGGGAACCTCGGGCACCATCGGC-GCCTAGGCCTTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41820540 CAGGAGCCTCGGACACCATCGGCAACCTAGGCTCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * * *
41820583 CTGGAGCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
** * * *
41820626 CGGGAGCCTC-AACACCATCGGCAA-CTTGGTGCCTCGGATC-TG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TCGTG
* *
41820668 CGGGAGCCTCGGGTACCATCGGC-GCCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * * * *
41820710 TCCTAGG-CCCTTGGTCGTGCGTGAGCC-TCTGGCACCATCGGCAACCTAGGCTCC-TGGTCTTC
1 --C-GGGAGCC----TCG-G-G-CA-CCATC-GG---------CAACCTAGGC-CCTTGGTCGTG
* * *
41820772 CGGGAGCCTCGAGCACCATTGGCAACCTAGGCCCTTGTTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41820815 CGAGAGCCTCGGG-ACCATC-GTAACCTAGG-CCTCTAGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTG
* * ***
41820856 CGGGAGCCTCGGGTACCATCGAC-ACCTTA-GTTTTTGGAT-GTG
1 CGGGAGCCTCGGGCACCATCGGCAACC-TAGGCCCTTGG-TCGTG
* ** *
41820898 CGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTC
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTG
* * * **
41820940 CGGGAGCCTCGGCCACCATCGACAACCTAGGCTCTTGGTATTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41820983 CGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCCTAGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
41821026 CGGAAGCCTCGGGCACCATCGACAACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41821069 CGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
** * * *
41821112 CGGGAGCCTC-AACACCATCGGCAA-CTTGGTGCCTCGGATC-TG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TCGTG
* *
41821154 CGGGAGCCTCGGGTACCATCGGC-GCCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
** *
41821196 TAGGAGCCAT-AGGCACCA-CGGC-ACCTAGGCCCTTGGTCGTG
1 CGGGAGCC-TCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * * **
41821237 CGGGAGCCTCGAGCACCATCAGC-ACCTTGGTGCTTGGAT-GTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTG
* *
41821279 TGGGAGCCTTGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
41821322 CGTGAGCCTCGGGCACCATCGGCAACCTAGGCTCC-TGGTC-TT
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTG
* * *
41821364 CTGGGAGCCTCGAGCACCATTGGCAACCTAGGCCCTTGTTCGTG
1 C-GGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41821408 CGAGAGCCTCGGG-ACCATCGGTAACCTAGGCCCCTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
41821450 CGGGAGCCTCAGGCACCATCGGCAACCTAGGCTCC-TGGTC-TT
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTG
* *
41821492 CTGGGAGCCTCGAGCACCATCGGCAACCTAGGCTCC-TGGTC-TT
1 C-GGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTG
* *
41821535 CTGGGAGCCTCGAGCACCATCGGCAACCTAGGCTCC-TGGTC-TT
1 C-GGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTG
* *
41821578 CTGGGAGCCTCGAGCACCATCGGCAACCTAGGCTCC-TGGTC-TT
1 C-GGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTG
*
41821621 CTGGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTG
1 C-GGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
41821665 CGGGAGCCTCGGGCACCATCGGCAATCTAGTCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
41821708 CGGGAGCCACAGGCACCA-CGGC-ACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* *
41821749 CGGGAGCCTTGAGCACCATCGGCAACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * * *
41821792 CGGAAGCCTCGGGCACCGTCAGTAACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * **
41821835 CGGGAGCCTCGGGCACCATCAGC-ACCTTGGTGCTTGGAT-GTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTG
* * *
41821877 TGGGAGCCTTGGGCACCATCAGCAACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * * *
41821920 CGTGAGCCTCTGGCACCATCGGCAACCTAGGCTCC-TGGTCTTC
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTG
* * *
41821963 CGGGAGCCTCGAGCACCATTGGCAACCTAGGCCCTTGTTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41822006 CGAGAGCCTCGGG-ACCATC-GTAACCTAGG-CCTCTAGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTG
* * ***
41822047 CGGGAGCCTCGGGTACCATCGAC-ACCTTA-GTTTTTGGAT-GTG
1 CGGGAGCCTCGGGCACCATCGGCAACC-TAGGCCCTTGG-TCGTG
41822089 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
* * *
41822132 CGGGAGCCTCGGGCACCATCGGCAATCTAGTCCCCTGGTCGTG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
*
41822175 CGGGAGCTTCGGGCACCATCGGCAACCTAGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGG
41822206 AGAGCCTCGA
Statistics
Matches: 1560, Mismatches: 239, Indels: 160
0.80 0.12 0.08
Matches are distributed among these distances:
40 7 0.00
41 132 0.08
42 399 0.26
43 963 0.62
44 14 0.01
45 2 0.00
48 3 0.00
49 1 0.00
50 1 0.00
51 3 0.00
52 8 0.01
53 2 0.00
54 1 0.00
56 3 0.00
59 2 0.00
60 3 0.00
61 1 0.00
62 13 0.01
63 2 0.00
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.20
Consensus pattern (43 bp):
CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG
Found at i:41820487 original size:128 final size:128
Alignment explanation
Indices: 41820284--41822647 Score: 1924
Period size: 128 Copynumber: 18.5 Consensus size: 128
41820274 ATTGGATGTC
* * * *
41820284 CGGGAGCCTCGGCCACCATCGGTAACCTAGGCCCTTGGTCTTGCGGGAGCCTCGAGCACCATTGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* * *
41820349 CAACCTAGGCCCCTGGAT-GTGCGAGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-GTG
66 CAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTCCTTGG-TCGTG
* * * * * * *
41820412 CGGGAGCCTCGGACACCAACAGCAACCTAGGCCCGTGGTCGTGTGGGAGCCACGGGCACCATCGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* * *
41820477 CAACCTAGGCCCTTGGTCGTGCGGGAACCTCGGGCACCATCGGCGCCTAGG-CCTTTGGTCGTG
66 CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTCC-TTGGTCGTG
* * * * * *
41820540 CAGGAGCCTCGGACACCATCGGCAACCTAGGCTCTTGGTCGTGCTGGAGCCTCGGGCACCATCAG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* ** * * *
41820605 TAACCTAGGCCCCTGGTCGTGCGGGAGCCTC-AACACCATCGGCAACTTGGTGCCTCGGATC-TG
66 CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGT-CCTTGG-TCGTG
* * *
41820668 CGGGAGCCTCGGGTACCATCGGC-GCCTAGGCCCTTGGTCGTGTCCTAGGCCCTTG-GTCGTGCG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG--C--GG-----GAG-CCT-C-
* * * * * *
41820731 TGAGCCTCTGGCACCATCGGCAACCTAGGCTCCTGGTCTTCCGGGAGCCTCGAGCACCATTGGCA
54 -GAG-CAC---CA---TCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-
* *
41820796 ACCTAGGCCCTTGTTCGTG
110 ACCTAGGTCCTTGGTCGTG
* * * * *
41820815 CGAGAGCCTCGGG-ACCATC-GTAACCTAGG-CCTCTAGTCGTGCGGGAGCCTCGGGTACCATCG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGAGCCTCGAGCACCATCG
* **** * *
41820877 AC-ACCTTA-GTTTTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-G
65 GCAACC-TAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTCCTTGG-TCG
*
41820938 TC
127 TG
* * * **
41820940 CGGGAGCCTCGGCCACCATCGACAACCTAGGCTCTTGGTATTGCGGGAGCCTCGAGCACCATCGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* * * *
41821005 CAACCTAGGCCCCTAGTCGTGCGGAAGCCTCGGGCACCATCGACAACCTAGGCCCTTGGTCGTG
66 CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGTCCTTGGTCGTG
* * * *
41821069 CGGGAGCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTC-AACACCATCGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* ** * * *
41821133 CAA-CTTGGTGCCTCGGATC-TGCGGGAGCCTCGGGTACCATCGGCGCCTAGGCCCTTGGTCGTG
66 CAACCTAGGCCCCT-GG-TCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTCCTTGGTCGTG
** * *
41821196 TAGGAGCCAT-AGGCACCA-CGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCA
1 CGGGAGCC-TCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCG
* ** * * * *
41821258 GC-ACCTTGGTGCTTGGAT-GTGTGGGAGCCTTGGGCACCATCGGCAACCTAGGCCCTTGGTCGT
65 GCAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGTCCTTGGTCGT
41821321 G
128 G
* * *
41821322 CGTGAGCCTCGGGCACCATCGGCAACCTAGGCTCC-TGGTC-TTCTGGGAGCCTCGAGCACCATT
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTGC-GGGAGCCTCGAGCACCATC
* * * * * *
41821385 GGCAACCTAGGCCCTTGTTCGTGCGAGAGCCTCGGG-ACCATCGGTAACCTAGGCCCCTGGTCGT
64 GGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGG-CACCTAGGTCCTTGGTCGT
41821449 G
128 G
* *
41821450 CGGGAGCCTCAGGCACCATCGGCAACCTAGGCTCC-TGGTC-TTCTGGGAGCCTCGAGCACCATC
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTGC-GGGAGCCTCGAGCACCATC
* * *
41821513 GGCAACCTAGGCTCCTGGTC-TTCTGGGAGCCTCGAGCACCATCGGCAACCTAGGCTCC-TGGTC
64 GGCAACCTAGGCCCCTGGTCGTGC-GGGAGCCTCGGGCACCATCGGC-ACCTAGG-TCCTTGGTC
*
41821576 -TT
126 GTG
* *
41821578 CTGGGAGCCTCGAGCACCATCGGCAACCTAGGCTCC-TGGTC-TTCTGGGAGCCTCGAGCACCAT
1 C-GGGAGCCTCGGGCACCATCGGCAACCTAGGC-CCTTGGTCGTGC-GGGAGCCTCGAGCACCAT
* *
41821641 CGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAATCTA-GTCCCTTGGTC
63 CGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGT-CCTTGGTC
41821705 GTG
126 GTG
* * *
41821708 CGGGAGCCACAGGCACCA-CGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTTGAGCACCATCGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* * * ** *
41821771 CAACCTAGGCCCTTGGTCGTGCGGAAGCCTCGGGCACCGTCAGTAACCTAGGCCCTTGGTCGTG
66 CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATC-GGCACCTAGGTCCTTGGTCGTG
* * ** * * * *
41821835 CGGGAGCCTCGGGCACCATCAGC-ACCTTGGTGCTTGGAT-GTGTGGGAGCCTTGGGCACCATCA
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAGCACCATCG
* * * *
41821898 GCAACCTAGGCCCTTGGTCGTGCGTGAGCCTCTGGCACCATCGGCAACCTAGGCTCC-TGGTCTT
65 GCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGG-TCCTTGGTCGT
*
41821962 C
128 G
* * * * *
41821963 CGGGAGCCTCGAGCACCATTGGCAACCTAGGCCCTTGTTCGTGCGAGAGCCTCG-GGACCATC-G
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* * * * * **
41822026 TAACCTAGGCCTCTAGTCGTGCGGGAGCCTCGGGTACCATCGACACCTTA-GTTTTTGGAT-GTG
66 CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACC-TAGGTCCTTGG-TCGTG
*
41822089 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* * * *
41822154 CAATCTAGTCCCCTGGTCGTGCGGGAGCTTCGGGCACCATCGGCA---A---CC----T--AG
66 CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTCCTTGGTCGTG
* * *
41822205 -GAGAGCCTCGAG-ACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
* ** * * * *
41822267 C-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCATGGTCGTG
66 CAACCTAGGCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGTCCTTGGTCGTG
* * * * * * * * *
41822330 CGGGAGCCTCGGGCACCATCGGTAACCTAGTCCCTTGGTCGTTCCCCTGG-TCGTGCG-GGAGCT
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCG-T--GCGGGAGCCT-CGAGCACCA
* * * * * *
41822393 TCGGGC-ACCATCGGCAACC---T--AG-GAGAGCCTCGAG-ACCATCGGCACCTAGGCCCTTGG
62 TC-GGCAACC-TAGGC-CCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTCCTTGG
41822450 TCGTG
124 TCGTG
* *
41822455 CGGGAGCCTCGGGCACCATCGGTAACCTAGG-CCTTGGTCGTGCGAGAGCCTC-AGGCACCATCG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA-GCACCATCG
* * * ** * * * * * * *
41822518 AC-GCCTTGGTACTTGCAT-GTGCGAGAGCCTTGGACACCATCGGTAACCTAGGCCCTTGGTCGT
65 GCAACCTAGGCCCCTG-GTCGTGCGGGAGCCTCGGGCACCATCGG-CACCTAGGTCCTTGGTCGT
41822581 G
128 G
* * * * * * *
41822582 CGGGAGCCTC-GGCACTATCGGTAACCTAGGCCCCTAGTCGTACAGGAGCCTCGGGCACCATCGG
1 CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
41822646 CA
66 CA
41822648 CCTTGGTGCC
Statistics
Matches: 1826, Mismatches: 290, Indels: 240
0.78 0.12 0.10
Matches are distributed among these distances:
112 32 0.02
113 44 0.02
114 9 0.00
115 10 0.01
116 2 0.00
117 1 0.00
119 4 0.00
120 3 0.00
121 7 0.00
122 7 0.00
123 3 0.00
124 11 0.01
125 138 0.08
126 194 0.11
127 347 0.19
128 614 0.34
129 259 0.14
130 15 0.01
131 12 0.01
132 3 0.00
133 2 0.00
134 2 0.00
135 1 0.00
136 4 0.00
137 4 0.00
138 1 0.00
139 2 0.00
140 2 0.00
142 2 0.00
143 2 0.00
144 1 0.00
145 4 0.00
146 51 0.03
147 28 0.02
148 5 0.00
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.19
Consensus pattern (128 bp):
CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGG
CAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTCCTTGGTCGTG
Found at i:41820716 original size:19 final size:19
Alignment explanation
Indices: 41820692--41820728 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
41820682 ACCATCGGCG
41820692 CCTAGGCCCTTGGTCGTGT
1 CCTAGGCCCTTGGTCGTGT
41820711 CCTAGGCCCTTGGTCGTG
1 CCTAGGCCCTTGGTCGTG
41820729 CGTGAGCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.32, G:0.32, T:0.30
Consensus pattern (19 bp):
CCTAGGCCCTTGGTCGTGT
Found at i:41820790 original size:104 final size:104
Alignment explanation
Indices: 41820608--41820814 Score: 251
Period size: 104 Copynumber: 2.0 Consensus size: 104
41820598 CCATCAGTAA
* *
41820608 CCTAGGCCCCTGGTCGTGCGGGAGCCTCAACACCATCGGCAACTTGGTGCCTCGGATCTGCGGGA
1 CCTAGGCCCCTGGTCGTGCGGGAGCCTCAACACCATCGGCAACTAGGTGCCTCGGATCTCCGGGA
* * *
41820673 GCCTCGGGTACCATCGGC-GCCTAGGCCCTTGGTCGTGT
66 GCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGT
* * **
41820711 CCTAGGCCCTTGGTCGTGCGTGAGCCTCTGGCACCATCGGCAACCTAGGCT-CCT-GG-TCTTCC
1 CCTAGGCCCCTGGTCGTGCGGGAGCCTC-AACACCATCGGCAA-CTAGG-TGCCTCGGATC-TCC
* *
41820773 GGGAGCCTCGAGCACCATTGGCAACCTAGGCCCTTGTTCGTG
62 GGGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTG
41820815 CGAGAGCCTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
103 28 0.32
104 35 0.40
105 24 0.27
106 1 0.01
ACGTcount: A:0.13, C:0.34, G:0.31, T:0.22
Consensus pattern (104 bp):
CCTAGGCCCCTGGTCGTGCGGGAGCCTCAACACCATCGGCAACTAGGTGCCTCGGATCTCCGGGA
GCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGT
Found at i:41820832 original size:146 final size:146
Alignment explanation
Indices: 41820565--41820834 Score: 350
Period size: 146 Copynumber: 1.8 Consensus size: 146
41820555 CCATCGGCAA
* * *
41820565 CCTAGGCTCTTGGTCGTGCTGGAGCCTCGGGCACCATCAGTAACCTAGGCCCCTGGTCGTGCGGG
1 CCTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATCAGCAACCTAGGCCCCTGGTCGTCCGGG
* * *
41820630 AGCCTCAACACCATCGGCAACTTGGTGCCTCGGATCTGCGGGAGCCTCGGGTACCATCGGCGCCT
66 AGCCTCAACACCATCGGCAACTAGGTCCCTCGGATCTGCGAGAGCCTCGGGTACCATCGGCGCCT
41820695 AGGCCCTTGGTCGTGT
131 AGGCCCTTGGTCGTGT
* * * *
41820711 CCTAGGCCCTTGGTCGTGC-GTGAGCCTCTGGCACCATCGGCAACCTAGGCTCCTGGTCTTCCGG
1 CCTAGGCCCTTGGTCGTGCTG-GAGCCTCGGGCACCATCAGCAACCTAGGCCCCTGGTCGTCCGG
* * * *
41820775 GAGCCTCGAGCACCATTGGCAACCTAGG-CCCT-TGTTCGTGCGAGAGCCTCGGG-ACCATCG
65 GAGCCTC-AACACCATCGGCAA-CTAGGTCCCTCGGATC-TGCGAGAGCCTCGGGTACCATCG
41820835 TAACCTAGGC
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
145 1 0.01
146 72 0.68
147 29 0.27
148 4 0.04
ACGTcount: A:0.14, C:0.34, G:0.31, T:0.21
Consensus pattern (146 bp):
CCTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATCAGCAACCTAGGCCCCTGGTCGTCCGGG
AGCCTCAACACCATCGGCAACTAGGTCCCTCGGATCTGCGAGAGCCTCGGGTACCATCGGCGCCT
AGGCCCTTGGTCGTGT
Found at i:41822240 original size:113 final size:114
Alignment explanation
Indices: 41822092--41822317 Score: 334
Period size: 113 Copynumber: 2.0 Consensus size: 114
41822082 GGATGTGCGG
*
41822092 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA-
1 GAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAC
* * *
41822156 ATCTAGTCCCCTGG-TCGTGCGGGAGCTTCGGGCACCATCGGCAACCTAGGA
66 CT-TAGT-CCCTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGA
41822207 GAGCCTCGAG-ACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAC
1 GAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAC
* * *
41822270 CTTGGTGCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGG
66 CTTAGTCCCTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGG
41822318 CCCATGGTCG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
112 36 0.35
113 47 0.46
114 10 0.10
115 9 0.09
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (114 bp):
GAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAC
CTTAGTCCCTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGA
Found at i:41822250 original size:70 final size:72
Alignment explanation
Indices: 41822135--41822268 Score: 209
Period size: 70 Copynumber: 1.9 Consensus size: 72
41822125 GGTCGTGCGG
* * * *
41822135 GAGCCTCGGGCACCATCGGCAATCTAGTCCCCTGGTCGTGCGGGAGCTTCGGGCACCATCGGCAA
1 GAGCCTCGAGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA
41822200 CCTAGGA
66 CCTAGGA
*
41822207 GAGCCTCGAG-ACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GAGCCTCGAGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
41822269 CCTTGGTGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 39 0.68
71 9 0.16
72 9 0.16
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (72 bp):
GAGCCTCGAGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA
CCTAGGA
Found at i:41822476 original size:42 final size:43
Alignment explanation
Indices: 41822417--41822645 Score: 238
Period size: 42 Copynumber: 5.4 Consensus size: 43
41822407 CAACCTAGGA
* *
41822417 GAGCCTCGAG-ACCATCGG-CACCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGCGG
*
41822458 GAGCCTCGGGCACCATCGGTAACCTAGG-CCTTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGCGG
* * * ** * *
41822500 GAGCCTCAGGCACCATC-G-ACGCCTTGGTACTTGCAT-GTGCGA
1 GAGCCTCGGGCACCATCGGTA-ACCTAGGCCCTTG-GTCGTGCGG
* *
41822542 GAGCCTTGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGCGG
* * * * *
41822585 GAGCCTC-GGCACTATCGGTAACCTAGGCCCCTAGTCGTACAG
1 GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGCGG
41822627 GAGCCTCGGGCACCATCGG
1 GAGCCTCGGGCACCATCGG
41822646 CACCTTGGTG
Statistics
Matches: 154, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 15 0.10
42 98 0.64
43 39 0.25
44 1 0.01
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.19
Consensus pattern (43 bp):
GAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGCGG
Found at i:41829115 original size:38 final size:38
Alignment explanation
Indices: 41829064--41829290 Score: 445
Period size: 38 Copynumber: 6.0 Consensus size: 38
41829054 CAGATACGAA
*
41829064 AAATATTTTTGAGAGTAGGGTTTAGGCCCTTGTCTCTG
1 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
41829102 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
1 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
41829140 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
1 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
41829178 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
1 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
41829216 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
1 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
41829254 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCT
1 AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCT
41829291 CGATGCCTAT
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 188 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.37
Consensus pattern (38 bp):
AAATATTTTTGAGAGTAGGGATTAGGCCCTTGTCTCTG
Found at i:41836292 original size:58 final size:59
Alignment explanation
Indices: 41836194--41836314 Score: 156
Period size: 58 Copynumber: 2.1 Consensus size: 59
41836184 CCCTCCCCAA
*** * *
41836194 TCCCAAAAGGTAGAATTCGGGTACCGTTACATGTTCGGTACCCAATAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCAAATACCGTTACATGCTCGGTACCCAACAATGAATGAATCG
* *
41836253 TCCC-AAAGGTAGAATTCAAATACCGTTGCATGC-CTGGTACCCAACAATGGATGAATCG
1 TCCCAAAAGGTAGAATTCAAATACCGTTACATGCTC-GGTACCCAACAATGAATGAATCG
41836311 TCCC
1 TCCC
41836315 TGTCCCTCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.02
58 49 0.91
59 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCAAATACCGTTACATGCTCGGTACCCAACAATGAATGAATCG
Found at i:41837070 original size:43 final size:43
Alignment explanation
Indices: 41837024--41838320 Score: 1567
Period size: 43 Copynumber: 30.5 Consensus size: 43
41837014 TGCCTCGGAT
* * * * * * *
41837024 GTGCGGGAGCCTCAGACCCCATCGGTAAACTAGGCCATTGGTT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
** *
41837067 GTGCCAGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
41837110 GTG-GAGGAGCCTCGGGCACCATCTGCAACCTAGGCCCCTGGTC
1 GTGCG-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
*
41837153 GTGCGGGAGCCTCGGGCACCATCGG-GACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
41837195 GTGTGGGAGCCTCGGGCACCA-CGGC-ATCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41837236 GCGCGGGAGACTCGGACACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41837279 GTGCGGGATCCTCGGACACTATCGG-GACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* *
41837321 GTGTGGGAGCCTCGGGCACCA-CGGC-ATCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41837362 GCGCGGGAGACTCGGACACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41837405 GTGCGGGATCCTCGGACACTATCGG-GACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
** *
41837447 GTGCGGGAGCCTCTAGCACCATCGGCAACCTATGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41837490 GTGCAGGAGACTCGAGCACCATCGACAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41837533 GTGGGGGAGCCTCGGGCACCATCGTCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41837576 GTGCGAGAACCTCGGGCACCA-CAGC-ACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
**
41837617 GTGCGGGAGCCTCTAGCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
**
41837660 GTGCGGGAGCCTCTAGCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
**
41837703 GTGCGGGAGCCTCTAGCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
**
41837746 GTGCGGGAGCCTCTAGCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41837789 GTGCAGGAGACTCGAGCACCATCGACAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41837832 GTGGGGGAGCCTCGGGCACCATCGTCAACCTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41837875 GTGCGAGAACCTCGGGCACCA-CAGC-ACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* ** *
41837916 ATGCGGGAGCCTCTAGCACCATCGGTAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
*
41837959 GTGCGGGAGACTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * * *
41838002 GTGCGAGAGCCTCGAGCACCATTGGC-GCCTAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41838044 GCGCGGGAGCCTCGGGCACCATCGGC-ACTTAGTG--CTTAGATC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAG-GCCCTT-GGTC
*
41838086 -TGCGGGAGCCTCGGGCACCATCGACAACCTAGGTCCC-TGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGGTC
* * *
41838128 TTGTGGGAGCCTCGGGCACCATTGGCAACCTAGG-CCTCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTC
* *
41838171 GTGCGAGAGCCTCGGG-ACCATCGGCAACATAGGCCCTTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* **
41838213 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTTCTTGGAT-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TC
* * * * *
41838255 GTGCGAGAGCCTCAGGCACCATCGGTAACTTAGGCCCCTGGTC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
* * *
41838298 GTGTGGAAGCCTCGGGTACCATC
1 GTGCGGGAGCCTCGGGCACCATC
41838321 AGTAACCTTG
Statistics
Matches: 1083, Mismatches: 144, Indels: 54
0.85 0.11 0.04
Matches are distributed among these distances:
41 162 0.15
42 242 0.22
43 677 0.63
44 2 0.00
ACGTcount: A:0.17, C:0.33, G:0.32, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTC
Found at i:41838670 original size:35 final size:35
Alignment explanation
Indices: 41838631--41838702 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
41838621 CATCTCCAGA
*
41838631 GCTTGGCAAATATAGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATAGAAAGGAATCTTCAAAGATAT
* * *
41838666 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATAGAAAGGAATCTTCAAAGATAT
41838701 GC
1 GC
41838703 GATCCTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATAGAAAGGAATCTTCAAAGATAT
Done.