Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 161 of 318
Found at i:49629675 original size:53 final size:53
Alignment explanation
Indices: 49629503--49629695 Score: 206
Period size: 53 Copynumber: 3.6 Consensus size: 53
49629493 AAGATAACAA
* * * * *
49629503 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTATAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAGGATACCAT
* * * * * * * *
49629557 GTAAGACCATGTCAAGACATGGCATTGATAAACTACTGTAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAGGATACCAT
* * *
49629612 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAGGATACCAT
*
49629665 GTAAGACCATGTCAAGACATGGCAATGGTAA
1 GTAAGACCATGCCAAGACATGGCAATGGTAA
49629696 TTTTAAAAAG
Statistics
Matches: 112, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
53 42 0.38
54 30 0.27
55 40 0.36
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAGGATACCAT
Found at i:49634333 original size:40 final size:39
Alignment explanation
Indices: 49634229--49634334 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
49634219 CTGGAAATTA
* *
49634229 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT-GCTAC
*
49634270 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGC-TAC
49634309 TATCCGGGCTAAGACCCGAAGGCATT
1 TATCCGGGCTAAGACCCGAAGGCATT
49634335 ATACTCCGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 53 0.90
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGCTAC
Found at i:49640115 original size:45 final size:44
Alignment explanation
Indices: 49640023--49640154 Score: 169
Period size: 45 Copynumber: 3.0 Consensus size: 44
49640013 CCCAAATTTA
* *
49640023 CTCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCGAAA-AATAT
1 CTCACCGGCATTATAGCCTGCTAGGCTCAAGGCCC-AAATAATAT
* *
49640066 CTCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAATGT
1 CTCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCAAATAATAT
* *
49640111 CTCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 CTCACCGGCATTATAGCCTGCTAGGCT-CAAGGCCCAAATAATA
49640155 CTGTACAACA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
43 11 0.14
44 17 0.22
45 48 0.62
46 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (44 bp):
CTCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCAAATAATAT
Found at i:49646768 original size:45 final size:44
Alignment explanation
Indices: 49646670--49646800 Score: 174
Period size: 45 Copynumber: 3.0 Consensus size: 44
49646660 CCGAATTTAT
* * * *
49646670 TCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATGTC
* *
49646713 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATGTC
*
49646758 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATG
1 TCACCGGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATG
49646801 CTGTACAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
43 10 0.13
44 14 0.18
45 51 0.67
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATGTC
Found at i:49651822 original size:28 final size:28
Alignment explanation
Indices: 49651790--49651869 Score: 160
Period size: 28 Copynumber: 2.9 Consensus size: 28
49651780 ATGGTGAAAA
49651790 TACACATACTTAATAAAATCAACACATC
1 TACACATACTTAATAAAATCAACACATC
49651818 TACACATACTTAATAAAATCAACACATC
1 TACACATACTTAATAAAATCAACACATC
49651846 TACACATACTTAATAAAATCAACA
1 TACACATACTTAATAAAATCAACA
49651870 TTCATCTCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (28 bp):
TACACATACTTAATAAAATCAACACATC
Found at i:49653248 original size:40 final size:40
Alignment explanation
Indices: 49653181--49653346 Score: 127
Period size: 40 Copynumber: 4.0 Consensus size: 40
49653171 GACTTATCGG
* * *
49653181 CTAAAA-TGGCACTTAGTGTTCAGTTTGAAATAGTTTCGA
1 CTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCTTCGA
* *
49653220 CTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTTCGGCTATATA
1 CTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCTTC-G------A
* * ** ** *
49653267 TATAAAAATGGCACTTAGTGTGTGATTCAAAATAGCTTCGG
1 -CTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCTTCGA
* *
49653308 CTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTTCG
1 CTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCTTCG
49653347 GCTATATATA
Statistics
Matches: 96, Mismatches: 22, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
39 6 0.06
40 57 0.59
41 1 0.01
47 2 0.02
48 30 0.31
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (40 bp):
CTAAAAGTGGCACTTAGTGTGCAATTTGAAATAGCTTCGA
Found at i:49653332 original size:88 final size:89
Alignment explanation
Indices: 49653183--49653376 Score: 320
Period size: 88 Copynumber: 2.2 Consensus size: 89
49653173 CTTATCGGCT
** *
49653183 AAAATGGCACTTAGTGT-TCAGTTTGAAATAGTTTCGACTAAAAGTGGCACTTGGTGTGCAATTT
1 AAAATGGCACTTAGTGTGTCAGTTCAAAATAGCTTCGACTAAAAGTGGCACTTGGTGTGCAATTT
49653247 GAGATAGCTTCGGCTATATATATA
66 GAGATAGCTTCGGCTATATATATA
* *
49653271 AAAATGGCACTTAGTGTGTGA-TTCAAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTT
1 AAAATGGCACTTAGTGTGTCAGTTCAAAATAGCTTCGACTAAAAGTGGCACTTGGTGTGCAATTT
49653335 GAGATAGCTTCGGCTATATATATA
66 GAGATAGCTTCGGCTATATATATA
*
49653359 TAAATGGCACTTAGTGTG
1 AAAATGGCACTTAGTGTG
49653377 CAAAGTATTG
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
88 97 0.98
89 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (89 bp):
AAAATGGCACTTAGTGTGTCAGTTCAAAATAGCTTCGACTAAAAGTGGCACTTGGTGTGCAATTT
GAGATAGCTTCGGCTATATATATA
Found at i:49655942 original size:50 final size:50
Alignment explanation
Indices: 49655883--49656157 Score: 242
Period size: 50 Copynumber: 5.5 Consensus size: 50
49655873 TGTGAGCTAG
* * *
49655883 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGAAATATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCAGCACCGAAATATGAGAGTCAA
* * * * *
49655933 TGTAAGACCATGTCTGGGATATGGCATCAGC-CTCGATATAAGAAAGTCAT
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGAAATATGAGAGTCAA
* * * *
49655983 TGTAAGAGCATGTCTGGGATATGGCATC-G-ACTC--AATATGTGA-TTACA
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGAAATATGAGAGTCA-A
* * * *
49656030 TCTAAGACCATGTCTGGGACATCGCATCAGCA-CGAAAAGATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCAGCACCG-AAATATGAGAGTCAA
* * ** * *
49656080 TGTAAGACCATGTCTGGGATATGGCATCGGC-CTCGATTTAAGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGAAATATGAGAGTCAA
49656130 TGTAAGACCATGTCTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACA-TGGCAT
49656158 TGTATTGTGA
Statistics
Matches: 179, Mismatches: 34, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
46 2 0.01
47 30 0.17
48 1 0.01
49 6 0.03
50 131 0.73
51 9 0.05
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCACCGAAATATGAGAGTCAA
Found at i:49656142 original size:147 final size:148
Alignment explanation
Indices: 49655885--49656157 Score: 449
Period size: 147 Copynumber: 1.9 Consensus size: 148
49655875 TGAGCTAGTG
* * * *
49655885 TAAGACCATGTCTGGGACATGGCATCGGCACGGAAATATGAGAGCCAATGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATCGCATCAGCACGAAAAGATGAGAGCCAATGTAAGACCATGTCTGG
* * *
49655950 GATATGGCATCAGCCTCGATATAAGAAAGTCATTGTAAGAGCATGTCTGGGATA-TGGCATCGAC
66 GATATGGCATCAGCCTCGATATAAGAAAGTCAGTGTAAGACCATGTCTGGGACATTGGCATCGAC
49656014 TCAATATGTGATTACATC
131 TCAATATGTGATTACATC
49656032 TAAGACCATGTCTGGGACATCGCATCAGCACGAAAAGATGAGAGCCAATGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATCGCATCAGCACGAAAAGATGAGAGCCAATGTAAGACCATGTCTGG
* * *
49656097 GATATGGCATCGGCCTCGATTTAAGAGAGTCAGTGTAAGACCATGTCTGGGACATTGGCAT
66 GATATGGCATCAGCCTCGATATAAGAAAGTCAGTGTAAGACCATGTCTGGGACATTGGCAT
49656158 TGTATTGTGA
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
147 109 0.95
148 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (148 bp):
TAAGACCATGTCTGGGACATCGCATCAGCACGAAAAGATGAGAGCCAATGTAAGACCATGTCTGG
GATATGGCATCAGCCTCGATATAAGAAAGTCAGTGTAAGACCATGTCTGGGACATTGGCATCGAC
TCAATATGTGATTACATC
Found at i:49659971 original size:28 final size:28
Alignment explanation
Indices: 49659906--49660006 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
49659896 ATAGTGAATC
*
49659906 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
49659935 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49659963 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
49659993 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49660007 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49667925 original size:28 final size:28
Alignment explanation
Indices: 49667860--49667960 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
49667850 ATAGTGAATC
*
49667860 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
49667889 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49667917 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
49667947 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49667961 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49671434 original size:21 final size:22
Alignment explanation
Indices: 49671398--49671450 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
49671388 TGAGAGTGGA
*
49671398 AAAAGAAAGTGAAAATGAAAAAG
1 AAAAGAAA-AGAAAATGAAAAAG
*
49671421 -AAAGAAAAGAAAATGAAAGAG
1 AAAAGAAAAGAAAATGAAAAAG
49671442 AAAAGAAAA
1 AAAAGAAAA
49671451 AGAATTGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAGAAAATGAAAAAG
Found at i:49671444 original size:27 final size:26
Alignment explanation
Indices: 49671398--49671449 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
49671388 TGAGAGTGGA
*
49671398 AAAAGAAAGTGAAAATGAAAAAGAAAG
1 AAAAGAAAATGAAAATG-AAAAGAAAG
49671425 AAAAGAAAATGAAAGA-GAAAAGAAA
1 AAAAGAAAATGAAA-ATGAAAAGAAA
49671450 AAGAATTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 14 0.61
28 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (26 bp):
AAAAGAAAATGAAAATGAAAAGAAAG
Found at i:49672571 original size:21 final size:20
Alignment explanation
Indices: 49672537--49672583 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
49672527 AGCTCCAATC
49672537 AGCTCACTTGAGCTCGTTTA
1 AGCTCACTTGAGCTCGTTTA
* *
49672557 AGCTCGACTTTAGCTCGTTTC
1 AGCTC-ACTTGAGCTCGTTTA
49672578 AGCTCA
1 AGCTCA
49672584 TTTCTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (20 bp):
AGCTCACTTGAGCTCGTTTA
Found at i:49680347 original size:40 final size:39
Alignment explanation
Indices: 49680284--49680366 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 39
49680274 TAACGAGTTA
*
49680284 TCGGCTAAAATGGCACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAGTTTGAAATAGCT
* *
49680323 TCGGCTAAAAGTGGCACTTGGTGTGCAGTTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAGTTTGAAATAGCT
49680363 TCGG
1 TCGG
49680367 ATATATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAGTTTGAAATAGCT
Found at i:49680448 original size:92 final size:92
Alignment explanation
Indices: 49680291--49680469 Score: 304
Period size: 92 Copynumber: 1.9 Consensus size: 92
49680281 TTATCGGCTA
* * * *
49680291 AAATGGCACTTAGTGTGCGGTTTGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAGTTTGA
1 AAATGGCACTTAGTGTACGATTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGA
*
49680356 GATAGCTTCGGATATATATATATATAT
66 GATAGCTTCAGATATATATATATATAT
49680383 AAATGGCACTTAGTGTACGATTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGA
1 AAATGGCACTTAGTGTACGATTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGA
*
49680448 GATAGCTTCAGCTATATATATA
66 GATAGCTTCAGATATATATATA
49680470 AATGGAACTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (92 bp):
AAATGGCACTTAGTGTACGATTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGA
GATAGCTTCAGATATATATATATATAT
Found at i:49680453 original size:40 final size:40
Alignment explanation
Indices: 49680386--49680461 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
49680376 TATATATAAA
* *
49680386 TGGCACTTAGTGTACGATTCGAAATAGCTTCGGCTAAAAG
1 TGGCACTTAGTGTACAATTCGAAATAGCTTCAGCTAAAAG
* * * *
49680426 TGGCACTTGGTGTGCAATTTGAGATAGCTTCAGCTA
1 TGGCACTTAGTGTACAATTCGAAATAGCTTCAGCTA
49680462 TATATATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (40 bp):
TGGCACTTAGTGTACAATTCGAAATAGCTTCAGCTAAAAG
Found at i:49680558 original size:28 final size:28
Alignment explanation
Indices: 49680476--49680568 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 28
49680466 TATAAATGGA
* *
49680476 ACTTAGTGTGCAAAGTATCAAGGAT-GAC
1 ACTTAGTGTGCGAAGTATCAAGAATAG-C
** *
49680504 ACTTAGTGTGCGAAACATCCAGAATAGC
1 ACTTAGTGTGCGAAGTATCAAGAATAGC
* * * *
49680532 ACTTAGTGTGCGAGGTATCGAGTATAGT
1 ACTTAGTGTGCGAAGTATCAAGAATAGC
*
49680560 ACATAGTGT
1 ACTTAGTGT
49680569 ACGAGACATC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 51 0.98
29 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (28 bp):
ACTTAGTGTGCGAAGTATCAAGAATAGC
Found at i:49680579 original size:28 final size:28
Alignment explanation
Indices: 49680507--49680580 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
49680497 GGATGACACT
* * *
49680507 TAGTGTGCGAAACATCCAGAATAGCACT
1 TAGTGTGCGAGACATCGAGAATAGCACA
** * *
49680535 TAGTGTGCGAGGTATCGAGTATAGTACA
1 TAGTGTGCGAGACATCGAGAATAGCACA
*
49680563 TAGTGTACGAGACATCGA
1 TAGTGTGCGAGACATCGA
49680581 AGATGCAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (28 bp):
TAGTGTGCGAGACATCGAGAATAGCACA
Found at i:49683672 original size:39 final size:39
Alignment explanation
Indices: 49683588--49683744 Score: 183
Period size: 39 Copynumber: 4.0 Consensus size: 39
49683578 CAAATCCAAT
* * *
49683588 CACCACCA-CAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCATCAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* *
49683628 TACCAGCA-CAAAGCCTACGGGACTTTAGCCCGGATATAA
1 CACCAGCATCAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* *
49683667 CACCAGCATGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCATCAAAGCCTTCGGGACTTAGCCCGGATATAA
* * *
49683706 CACCAGCATGAATGCCTTCGGGACTTAGCTCGGATATAA
1 CACCAGCATCAAAGCCTTCGGGACTTAGCCCGGATATAA
49683745 TTCTCCATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
39 73 0.68
40 34 0.32
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (39 bp):
CACCAGCATCAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:49686063 original size:21 final size:21
Alignment explanation
Indices: 49686039--49686081 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49686029 CGATGTATGT
*
49686039 TTTGGGCCTCTTAGGCCCGTA
1 TTTGGGCCTCGTAGGCCCGTA
*
49686060 TTTGGGCCTCGTAGTCCCGTA
1 TTTGGGCCTCGTAGGCCCGTA
49686081 T
1 T
49686082 AAGGGATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.28, G:0.28, T:0.35
Consensus pattern (21 bp):
TTTGGGCCTCGTAGGCCCGTA
Found at i:49688327 original size:20 final size:20
Alignment explanation
Indices: 49688300--49688338 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49688290 ATTTTATGGT
49688300 TATATTTAAATATT-TAAAA
1 TATATTTAAATATTCTAAAA
*
49688319 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
49688339 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTAAATATTCTAAAA
Found at i:49694252 original size:39 final size:40
Alignment explanation
Indices: 49694106--49694312 Score: 284
Period size: 40 Copynumber: 5.3 Consensus size: 40
49694096 GCTACTCGTT
* *
49694106 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
**
49694146 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
49694186 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
*
49694226 CGAATGCCTTC-GATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
*
49694265 CGAATGCCTTCGGATCTTAGTCCGGA-TTAGT-ACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
49694303 CAAA-GCCTTC
1 CAAATGCCTTC
49694313 TTAGGGACTT
Statistics
Matches: 158, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
37 6 0.04
38 10 0.06
39 47 0.30
40 93 0.59
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:49694278 original size:79 final size:78
Alignment explanation
Indices: 49694106--49694312 Score: 271
Period size: 79 Copynumber: 2.6 Consensus size: 78
49694096 GCTACTCGTT
* *
49694106 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCAC-AATGCCTTC-GGACTTAACCC
49694169 GGATTTAGTAACTCGCA
62 GGATTTAGTAACTCGCA
**
49694186 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACGAATGCCTTC-GATCTTAGTCCGG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCAC-AATGCCTTCGGA-CTTAACCCGG
49694250 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* *
49694265 CGAATGCCTTCGGATCTTAGTCCGGA-TTAGT-ACTCGCACAAAGCCTTC
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAATGCCTTC
49694313 TTAGGGACTT
Statistics
Matches: 117, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
76 8 0.07
77 8 0.07
78 7 0.06
79 51 0.44
80 41 0.35
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAATGCCTTCGGACTTAACCCGGAT
TTAGTAACTCGCA
Found at i:49702478 original size:40 final size:40
Alignment explanation
Indices: 49702265--49702494 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
49702255 TACTCGTTCA
* * *
49702265 AATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACG
** * *
49702305 AATGCCTTCGGGA-CTTAACCCGGATTTAGGAACTCGCACA
1 AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
**
49702345 AATGCCTTCGGATCTTAGTCCGGATTTAGTAACAAGCACG
1 AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACG
49702385 AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACG
*
49702425 AATGCCTTTGGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACG
*
49702465 AATGCCTTCGGATCTTAGTCCGGATATAGT
1 AATGCCTTCGGATCTTAGTCCGGATTTAGT
49702495 CACTTAGCAC
Statistics
Matches: 174, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.02
40 169 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACG
Found at i:49702482 original size:80 final size:80
Alignment explanation
Indices: 49702263--49702528 Score: 317
Period size: 80 Copynumber: 3.3 Consensus size: 80
49702253 GCTACTCGTT
* * * **
49702263 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTC
*
49702325 CGGATTTAGGAACTCGCA
63 CGGATTTAGTAACTCGCA
**
49702343 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACAAGCACGAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGG
49702408 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* *
49702423 CGAATGCCTTTGGATCTTAGTCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGG
* * *
49702488 ATATAGTCACTTAGCA
66 ATTTAGTAAC-TCGCA
* *
49702504 CAAA-GCCTCCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
49702529 CATCATTCGA
Statistics
Matches: 162, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
79 6 0.04
80 144 0.89
81 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTCGCA
Found at i:49702522 original size:40 final size:39
Alignment explanation
Indices: 49702291--49702528 Score: 264
Period size: 40 Copynumber: 5.9 Consensus size: 39
49702281 AGCCCGGTTA
**
49702291 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT
1 TAGTAACTCGCACAAA-GCCTTC-GGATCTTAGTCCGGATT
*
49702331 TAGGAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAA-GCCTTCGGATCTTAGTCCGGATT
** *
49702371 TAGTAACAAGCACGAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCAC-AAAGCCTTCGGATCTTAGTCCGGATT
* *
49702411 TAGTAACTCGCACGAATGCCTTTGGATCTTAGTCCGGATT
1 TAGTAACTCGCAC-AAAGCCTTCGGATCTTAGTCCGGATT
* *
49702451 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCAC-AAAGCCTTCGGATCTTAGTCCGGATT
* * * *
49702491 TAGTCACTTAGCACAAAGCCTCCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAAGCCTTC-GGATCTTAGTCCGGA
49702529 CATCATTCGA
Statistics
Matches: 177, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 164 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAAGCCTTCGGATCTTAGTCCGGATT
Found at i:49702528 original size:120 final size:120
Alignment explanation
Indices: 49702263--49702528 Score: 342
Period size: 120 Copynumber: 2.2 Consensus size: 120
49702253 GCTACTCGTT
*
49702263 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
49702327 GATTTAGGAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACAAGCA
65 GATTTAGGAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACAAGCA
* * * * **
49702383 CGAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACGAATGCCTT-TGGATCTTAGTC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* * * *
49702445 CGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
63 CGGATTTAGGAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAAC-AAGCA
*
49702504 CAAAGCCTCCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
49702529 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
119 6 0.05
120 107 0.86
121 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGGAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACAAGCA
Found at i:49706869 original size:40 final size:40
Alignment explanation
Indices: 49706766--49706919 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
49706756 TTCGAATGGT
* * * *
49706766 ATCCGGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCC-GGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* * * * *
49706808 ATTCGGGTCAATTCCCAAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
49706848 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
49706888 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
49706920 ATCACTATAA
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
40 69 0.74
41 21 0.23
42 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:49706932 original size:80 final size:81
Alignment explanation
Indices: 49706771--49706943 Score: 215
Period size: 80 Copynumber: 2.1 Consensus size: 81
49706761 ATGGTATCCG
* * *
49706771 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATTCGGGTCAATTCCCAAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCAAAGGCAATTGT
* *
49706836 GCGAGTTACCAAAACC
66 GCGAATCACCAAAACC
* * * *
49706852 GGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCAAAGGCAATTG
* *
49706915 TGCGAATCACTATAACC
65 TGCGAATCACCAAAACC
*
49706932 GGGCTATGTCCC
1 GGGCTAAGTCCC
49706944 AAAGACAATC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 53 0.68
81 24 0.31
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCAAAGGCAATTGT
GCGAATCACCAAAACC
Found at i:49706934 original size:40 final size:39
Alignment explanation
Indices: 49706771--49706937 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
49706761 ATGGTATCCG
* * * * *
49706771 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATTC
1 GGGCTAATTCCCGAAGGCATTTGTGC-GAGTTACTAAA-CC
* *
49706812 GGG-TCAATTCCCAAAGGCATTTGTGCGAGTTACCAAAACC
1 GGGCT-AATTCCCGAAGGCATTTGTGCGAGTTA-CTAAACC
* *
49706852 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA-CC
* * *
49706892 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
1 GGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTA-AACC
49706932 GGGCTA
1 GGGCTA
49706938 TGTCCCAAAG
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
39 4 0.04
40 74 0.70
41 28 0.26
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
GGGCTAATTCCCGAAGGCATTTGTGCGAGTTACTAAACC
Found at i:49706960 original size:80 final size:80
Alignment explanation
Indices: 49706803--49706961 Score: 176
Period size: 80 Copynumber: 2.0 Consensus size: 80
49706793 GTGCTAAGTG
* * * * * *
49706803 ACTAAATTCGGGTCAATTCCCAAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCAAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAG
* * * *
49706868 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTT
* * * *
49706883 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCAAA
1 ACTAAATCCGGGTC-AATTCCCAAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCAAA
49706947 GACAATCGAGCGAGT
65 GACAATCGAGCGAGT
49706962 CGCTATATCC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCAAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAG
ACAATCGAGCGAGTT
Found at i:49711571 original size:31 final size:31
Alignment explanation
Indices: 49711514--49711575 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
49711504 ACGAAGTCAC
* *
49711514 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATA-ATATTGTGGCGAAGCCACCAGAA
49711546 CAGATAT-ATATGTGTGGCGAAGCCACCAGA
1 CAGATATAATAT-TGTGGCGAAGCCACCAGA
49711576 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 4 0.15
31 16 0.59
32 7 0.26
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (31 bp):
CAGATATAATATTGTGGCGAAGCCACCAGAA
Found at i:49711598 original size:71 final size:67
Alignment explanation
Indices: 49711521--49711661 Score: 167
Period size: 67 Copynumber: 2.0 Consensus size: 67
49711511 CACCAGATAT
* * * *
49711521 AGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGTGGCGAAGCCACC-AGATTGCAGCGA
1 AGATATTGTGACGAAGCCACCAAAACAG--ATATA--TGTGGCGAAGCCACCGA-ATTGCAGCGA
49711585 GGCTGCC
61 GGCTGCC
* * *
49711592 AGATATTGTGACGAAGTCACCAAAACAGATATATGTGGCGAGGGCACCGAATTGCAGCGAGGCTG
1 AGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCGAATTGCAGCGAGGCTG
49711657 CC
66 CC
49711659 AGA
1 AGA
49711662 ATGCTTCCTC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 33 0.53
68 1 0.02
69 5 0.08
71 23 0.37
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.18
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCGAATTGCAGCGAGGCTG
CC
Found at i:49719850 original size:68 final size:66
Alignment explanation
Indices: 49719778--49719949 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
49719768 CATCATGTGT
* * * *
49719778 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
49719841 TGTAG
62 TGTAG
** * *
49719846 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
49719911 AG
65 AG
* * * *
49719913 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
49719950 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:49719883 original size:64 final size:64
Alignment explanation
Indices: 49719802--49719985 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
49719792 AGACATTATG
* * *
49719802 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
49719866 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
49719931 AA
63 AA
* * *
49719933 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
49719986 CAAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:49722213 original size:27 final size:26
Alignment explanation
Indices: 49722165--49722216 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49722155 GCGAGGCGGC
*
49722165 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
49722191 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
49722217 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49724986 original size:20 final size:20
Alignment explanation
Indices: 49724949--49724987 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49724939 AATGTTAATT
*
49724949 GAGGCACCAAACTGCAAACA
1 GAGGCACCAAACTACAAACA
* *
49724969 GAGGTACCAAAGTACAAAC
1 GAGGCACCAAACTACAAAC
49724988 CCTATTGGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.26, G:0.21, T:0.08
Consensus pattern (20 bp):
GAGGCACCAAACTACAAACA
Found at i:49727747 original size:18 final size:19
Alignment explanation
Indices: 49727714--49727753 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
49727704 GGGTCAAAAT
49727714 GGGCTGTGTGGGCCCA-AC
1 GGGCTGTGTGGGCCCACAC
49727732 GGGCT-TGTGGGCCCCACAC
1 GGGCTGTGTGGG-CCCACAC
49727751 GGG
1 GGG
49727754 GAAAATCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 9 0.45
19 5 0.25
ACGTcount: A:0.10, C:0.30, G:0.45, T:0.15
Consensus pattern (19 bp):
GGGCTGTGTGGGCCCACAC
Found at i:49729636 original size:14 final size:15
Alignment explanation
Indices: 49729617--49729645 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49729607 GAATGAAATT
49729617 TTCACACAC-ATAAA
1 TTCACACACAATAAA
49729631 TTCACACACAATAAA
1 TTCACACACAATAAA
49729646 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
TTCACACACAATAAA
Found at i:49732059 original size:24 final size:24
Alignment explanation
Indices: 49732027--49732111 Score: 118
Period size: 24 Copynumber: 3.5 Consensus size: 24
49732017 ACCAAACGTT
* **
49732027 GCACACATAGTGCT-TATTATGTTC
1 GCACACATAGTGCTATAGTA-AATC
49732051 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
*
49732075 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
49732099 GCACACATAGTGC
1 GCACACATAGTGC
49732112 ATTTGAGATT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
24 52 0.93
25 4 0.07
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCTATAGTAAATC
Found at i:49735357 original size:30 final size:31
Alignment explanation
Indices: 49735276--49735358 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
49735266 TCAGTCTCGA
*
49735276 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
49735306 CATATCACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
49735337 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
49735359 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 17 0.35
31 32 0.65
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:49737296 original size:40 final size:40
Alignment explanation
Indices: 49737221--49737378 Score: 205
Period size: 40 Copynumber: 4.0 Consensus size: 40
49737211 AACCCAAGTA
* *
49737221 CCTTCGGGATTTAG-CCGGATAT-AGCAACT-CGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAC-CACAAATG
49737260 CCTTCGGGACTTAGCCCGGATATAATCACTACCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTACCACAAATG
* * *
49737300 CCTTCGGGACTTAGCCCGGATATAGTCACAAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTACCACAAATG
* * *
49737340 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAAT
1 CCTTCGGGACTTAGCCCGGATATAATCACTACCACAAAT
49737379 TGTAACACCC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 13 0.12
40 93 0.85
41 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTACCACAAATG
Found at i:49737353 original size:80 final size:79
Alignment explanation
Indices: 49737221--49737378 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 79
49737211 AACCCAAGTA
* **
49737221 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
1 CCTTCGGGACTTAGCCGGATATAGCAACAAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
*
49737286 CACTACCACAAATG
66 AACTACCACAAATG
49737300 CCTTCGGGACTTAGCCCGGATATAGTC-ACAAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAG-CCGGATATAG-CAACAAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
49737364 GTAACTAGCACAAAT
64 ATAACTACCACAAAT
49737379 TGTAACACCC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
79 13 0.18
80 57 0.80
81 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCAACAAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
AACTACCACAAATG
Found at i:49738922 original size:77 final size:77
Alignment explanation
Indices: 49738803--49738992 Score: 319
Period size: 77 Copynumber: 2.5 Consensus size: 77
49738793 TATGGTAACC
* *
49738803 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
49738868 CGGGTATCATAGCT
65 C-GGTATCATAGCT
* *
49738882 C-CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
49738946 GGTATCATAGCT
66 GGTATCATAGCT
49738958 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
49738993 TCGAACATTC
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
76 13 0.12
77 76 0.72
78 15 0.14
79 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (77 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGTATCATAGCT
Found at i:49738937 original size:39 final size:39
Alignment explanation
Indices: 49738803--49738991 Score: 310
Period size: 38 Copynumber: 4.9 Consensus size: 39
49738793 TATGGTAACC
* * * *
49738803 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
49738843 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
49738882 C-CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
49738920 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
49738958 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
49738992 CTCGAACATT
Statistics
Matches: 141, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
38 75 0.53
39 49 0.35
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:49742182 original size:40 final size:40
Alignment explanation
Indices: 49742137--49742267 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
49742127 CGGAATATAA
49742137 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49742177 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
49742217 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49742257 CCGGATATAAT
1 CCGGATATAAT
49742268 TTCCAGCATA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49742281 original size:40 final size:40
Alignment explanation
Indices: 49742137--49742303 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 40
49742127 CGGAATATAA
* ** * *
49742137 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
* *
49742177 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAAC
*** *
49742217 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
** * ** * *
49742257 CCGGATATAATTTCCAGCATAATTGTTTTCGGGGCTT-AG
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
49742296 CCGGATAT
1 CCGGATAT
49742304 CATTCAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 11 0.11
40 91 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
Found at i:49747951 original size:40 final size:40
Alignment explanation
Indices: 49747906--49748073 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49747896 CGGAATATAA
49747906 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49747946 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49747986 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49748026 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
49748066 CCGGATAT
1 CCGGATAT
49748074 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49748056 original size:80 final size:80
Alignment explanation
Indices: 49747922--49748071 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49747912 ATAATCACGT
*
49747922 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49747986 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49748002 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49748065 CCCGGAT
64 CCCGGAT
49748072 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49752102 original size:39 final size:39
Alignment explanation
Indices: 49752039--49752196 Score: 217
Period size: 39 Copynumber: 4.1 Consensus size: 39
49752029 TGTGAATATA
* * *
49752039 TATACGCGAGAATTATATCTGGACTTCAGTTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
49752078 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * * * *
49752117 TATATGCAAGAATTATATCCAGACTTCATGTTCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
49752156 TATATGCGAGAATTATATCCGGACTTTAGGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
49752195 TA
1 TA
49752197 CGTGCTGGAC
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 103 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:49760506 original size:39 final size:39
Alignment explanation
Indices: 49760451--49760635 Score: 244
Period size: 39 Copynumber: 4.7 Consensus size: 39
49760441 TTCCAACCCA
* * * *
49760451 AATGCCTTCGGAACTTAGCCCGAATATAACATCAGCAAG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
49760490 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
49760529 AATGCCTTCGGGACTTAACCTGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * * * *
49760568 AATGCCTTTGGGACTTAACTCGAATATAATATTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
49760607 AATACCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
49760636 ATCTCACACA
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 127 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:49764778 original size:40 final size:40
Alignment explanation
Indices: 49764708--49764925 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
49764698 AAGCCAGGTA
* * * *
49764708 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
49764747 CCTTTGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49764787 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
49764827 CCTTCGGGACTTAACTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
49764867 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
49764907 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49764926 TTATCATCCG
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.08
40 147 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49774977 original size:16 final size:18
Alignment explanation
Indices: 49774956--49774988 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
49774946 CAGACTAGAT
49774956 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
49774972 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
49774989 GTGACAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:49775568 original size:45 final size:45
Alignment explanation
Indices: 49775478--49775636 Score: 218
Period size: 45 Copynumber: 3.6 Consensus size: 45
49775468 AGCATTTAAA
* *
49775478 CTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCA-CAGCATTATAGC
1 CTGCTAGGCTCAAAGGCCCGAATAGT-ATTTCACCAGCATCATAGC
* *
49775520 CTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCAGCATCATAGC
1 CTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATCATAGC
* *
49775565 CTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGTATCATAGC
1 CTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATCATAGC
*
49775610 CTGCTAGGCTCAAAGGCCCAAATAGTA
1 CTGCTAGGCTCAAAGGCCCGAATAGTA
49775637 CTGTACGATA
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
42 14 0.13
43 5 0.05
44 8 0.08
45 79 0.75
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
CTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCAGCATCATAGC
Found at i:49778743 original size:26 final size:26
Alignment explanation
Indices: 49778714--49778765 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
49778704 TATCGAGTTT
* *
49778714 TCTGTTGGCAAAAAAGTATTTTTGAA
1 TCTGTTGGCAAAAAAGCATTCTTGAA
49778740 TCTGTTGGCAAAAAAGCATTCTTGAA
1 TCTGTTGGCAAAAAAGCATTCTTGAA
49778766 AGTCTCGCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (26 bp):
TCTGTTGGCAAAAAAGCATTCTTGAA
Found at i:49780302 original size:13 final size:13
Alignment explanation
Indices: 49780263--49780302 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
49780253 AGTTTAGTAT
49780263 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
49780276 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
49780289 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
49780302 T
1 T
49780303 TTTGTTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:49785018 original size:72 final size:72
Alignment explanation
Indices: 49784672--49784989 Score: 455
Period size: 72 Copynumber: 4.4 Consensus size: 72
49784662 TTGTATATCT
* * * ** *
49784672 AAAATCAAATATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAATATAAATTC
1 AAAACCAAACATAAACAACCATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTC
49784735 AATATCCA
65 AATATCCA
** *
49784743 AAAACCAAACATAAACAATTATTGATAAAACTAGCTCTA-AGCATAAATAAGTA-AACCATAAAT
1 AAAACCAAACATAAACAACCATTGATAAAACTAGAT-TACA-CATAAATAAGTAGAA-CATAAAT
49784806 TCAATATCCA
63 TCAATATCCA
* *
49784816 AAAACAAAACATAAACAACCATTGATAAAACTAGACTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
49784881 ATATCCA
66 ATATCCA
*
49784888 AAAACCAAACATAAACAACCATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
49784953 ATATCCA
66 ATATCCA
*
49784960 AAAACCAAACATAAACAACTATTGATAAAA
1 AAAACCAAACATAAACAACCATTGATAAAA
49784990 TTAGTTTAGC
Statistics
Matches: 224, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
71 31 0.14
72 132 0.59
73 61 0.27
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (72 bp):
AAAACCAAACATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:49789967 original size:39 final size:39
Alignment explanation
Indices: 49789800--49789950 Score: 266
Period size: 39 Copynumber: 3.9 Consensus size: 39
49789790 ATATATACGT
*
49789800 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATAAGC
1 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATATGC
*
49789839 GAGAATTATATCCGGACTTCAGGTCCGCATGCTATATGC
1 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATATGC
*
49789878 GAGAATTATATCCGGACTTCATGTCCGCAGGCTATATGC
1 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATATGC
*
49789917 GAGAATTATATCCGGACTTTAGGTCCGCAGGCTA
1 GAGAATTATATCCGGACTTCAGGTCCGCAGGCTA
49789951 CGTGCTGGAC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (39 bp):
GAGAATTATATCCGGACTTCAGGTCCGCAGGCTATATGC
Found at i:49790326 original size:2 final size:2
Alignment explanation
Indices: 49790319--49790344 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49790309 TATGTTAGTG
49790319 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
49790345 CGTAATTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49795649 original size:43 final size:43
Alignment explanation
Indices: 49795582--49795734 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 43
49795572 CTATCACCTC
*
49795582 AGTGCATCATTGGATAAACTGAAGGAAATATAC-AGGAACATGT
1 AGTGCATCATCGGATAAACTGAAGGAAATATACTA-GAACATGT
* *
49795625 ATTGCATCATCGGATAAA-TCGAAGGAAATATACTAGCACATGT
1 AGTGCATCATCGGATAAACT-GAAGGAAATATACTAGAACATGT
* * * * * * * **
49795668 AGTGCATCATTGAACAAACTGAAGCAATTATACTAGCACCTAC
1 AGTGCATCATCGGATAAACTGAAGGAAATATACTAGAACATGT
* *
49795711 AGTGCATCATCGAATAAACCGAAG
1 AGTGCATCATCGGATAAACTGAAG
49795735 TATAACCTAC
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 89 0.97
44 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (43 bp):
AGTGCATCATCGGATAAACTGAAGGAAATATACTAGAACATGT
Found at i:49797149 original size:25 final size:25
Alignment explanation
Indices: 49797120--49797170 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
49797110 AACAATGAAT
49797120 AATATCTACATACGCCAATAGACTA
1 AATATCTACATACGCCAATAGACTA
*
49797145 AATATCTATATACGCCAATAGACTA
1 AATATCTACATACGCCAATAGACTA
49797170 A
1 A
49797171 CATTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (25 bp):
AATATCTACATACGCCAATAGACTA
Found at i:49798520 original size:27 final size:28
Alignment explanation
Indices: 49798468--49798522 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
49798458 TACTATGTAC
*
49798468 GGCACTTAGTGTGCGAGATATCGAGTAT
1 GGCACTTAGTGTGCGAGACATCGAGTAT
*
49798496 GGCACTTAGTGTG-GAGACATTGAGTAT
1 GGCACTTAGTGTGCGAGACATCGAGTAT
49798523 TCAACGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGACATCGAGTAT
Found at i:49802906 original size:22 final size:22
Alignment explanation
Indices: 49802857--49802899 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49802847 TAACATGTGT
49802857 CACATATA-TCATGAGCTCAGAC
1 CACATA-ACTCATGAGCTCAGAC
49802879 CACATAACTCATGAGCTCAGA
1 CACATAACTCATGAGCTCAGA
49802900 TAGCATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (22 bp):
CACATAACTCATGAGCTCAGAC
Found at i:49811485 original size:35 final size:35
Alignment explanation
Indices: 49811424--49811490 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
49811414 TTCAACCAAT
* *
49811424 ATTCATTTCAATTCAATAATCACAAATCCTCAAGA
1 ATTCAATTCAATTCAATAATCACAAATACTCAAGA
49811459 ATTCAATTCAATATC-ATAAT-ATCAAATACTCA
1 ATTCAATTCAAT-TCAATAATCA-CAAATACTCA
49811491 CCTCATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 1 0.04
35 25 0.89
36 2 0.07
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (35 bp):
ATTCAATTCAATTCAATAATCACAAATACTCAAGA
Found at i:49811915 original size:30 final size:30
Alignment explanation
Indices: 49811879--49811939 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
49811869 AAATCCCGCA
49811879 TTCCATATAACCCGAACATTCATTTTAAAT
1 TTCCATATAACCCGAACATTCATTTTAAAT
49811909 TTCCATATAACCCGAACATTCATTTTAAAT
1 TTCCATATAACCCGAACATTCATTTTAAAT
49811939 T
1 T
49811940 CATTATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
TTCCATATAACCCGAACATTCATTTTAAAT
Found at i:49814286 original size:40 final size:40
Alignment explanation
Indices: 49814190--49814479 Score: 320
Period size: 40 Copynumber: 7.3 Consensus size: 40
49814180 ACCCAAGTAT
* ** *
49814190 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
* * * ** * *
49814228 CTTCAGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
* *
49814268 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATTC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
*
49814308 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
* ** *
49814348 CTTCGGGGCTTAGCCCGGA-ATTTGTAACTCGCACAAAAGC
1 CTTCGGGACTTAGCCCGGATA-TAATAACTCGCACAAATGC
*
49814388 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAATAACTCGCACAAATGC
* * *
49814428 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAATAACTCGCACAAATGC
49814468 CTTCGGGACTTA
1 CTTCGGGACTTA
49814480 ACCCCGTTAG
Statistics
Matches: 220, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 10 0.05
39 17 0.08
40 193 0.88
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
Found at i:49814401 original size:120 final size:120
Alignment explanation
Indices: 49814190--49814479 Score: 356
Period size: 120 Copynumber: 2.4 Consensus size: 120
49814180 ACCCAAGTAT
* * * * * * *
49814190 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCAGGTCTTAGTCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATGGT
* * * *
49814253 CACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAATAACTTGCACAAATTC
66 AACTAGCACAAAAGCCTTCGGGACTTAGCCCGGAAT-TAATAACTCGCACAAATGC
* * * *
49814308 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGCCTTCGGGGCTTAGCCCGGA-ATTTG
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA-TGG
* *
49814372 TAACTCGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
65 TAACTAGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAATAACTCGCACAAATGC
*
49814428 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATA-TAATCACTAGCACAAATGCCTTCGGGACTTA
49814480 ACCCCGTTAG
Statistics
Matches: 148, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
118 12 0.08
119 19 0.13
120 115 0.78
121 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATGGT
AACTAGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAATAACTCGCACAAATGC
Found at i:49822556 original size:40 final size:40
Alignment explanation
Indices: 49822466--49822760 Score: 312
Period size: 40 Copynumber: 7.4 Consensus size: 40
49822456 ACCCAAGTAT
* ** *
49822466 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
* * ** * *
49822504 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
* *
49822544 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATTC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
*
49822584 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
* ** *
49822624 CTTCGGGGCTTAGCCCGGA-ATTTGTAACTCGCACAAAAGC
1 CTTCGGGACTTAGCCCGGATA-TAATAACTCGCACAAATGC
* *
49822664 CTTCGGGACTTAGCCC-GAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAATAACTCGCACAAATGC
* * *
49822704 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAATAACTCGCACAAATGC
* *
49822744 CTTGGGGACTTAACCCG
1 CTTCGGGACTTAGCCCG
49822761 TTAGCATCCG
Statistics
Matches: 223, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
38 11 0.05
39 19 0.09
40 191 0.86
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGC
Found at i:49822677 original size:120 final size:120
Alignment explanation
Indices: 49822466--49822760 Score: 350
Period size: 120 Copynumber: 2.5 Consensus size: 120
49822456 ACCCAAGTAT
* * * * * *
49822466 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGGCTTAGCCCGGATATGGT
* * * * *
49822529 CACTAGCACAAATGCCTTCGGGACTTAGCCCG-GATATAATAACTTGCACAAATTC
66 AACTAGCACAAAAGCCTTCGGGACTTAGCCCGAAAT-TAATAACTCGCACAAATGC
* * *
49822584 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGCCTTCGGGGCTTAGCCCGGA-ATTTG
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGGCTTAGCCCGGATA-TGG
* *
49822648 TAACTCGCACAAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGC
65 TAACTAGCACAAAAGCCTTCGGGACTTAGCCCGAAATTAATAACTCGCACAAATGC
* *
49822704 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGTCTT-GGGGACTTAACCCG
1 CTTCGGGACTTAGCCCGGATA-TAATCACTAGCACAAATGCCTTCGGGG-CTTAGCCCG
49822761 TTAGCATCCG
Statistics
Matches: 152, Mismatches: 19, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
118 12 0.08
119 23 0.15
120 115 0.76
121 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGGCTTAGCCCGGATATGGT
AACTAGCACAAAAGCCTTCGGGACTTAGCCCGAAATTAATAACTCGCACAAATGC
Found at i:49828662 original size:56 final size:56
Alignment explanation
Indices: 49828600--49828803 Score: 302
Period size: 56 Copynumber: 3.6 Consensus size: 56
49828590 ATGAGGTATC
* * *
49828600 GATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTTATATGTTGACATA
1 GATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCATA
* *
49828656 GATATGTGACTCTGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCA
1 GATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCAT-A
* * *
49828713 -ATATGTGACTCTGATATATTTGTGCGAGTAAGACCACGTTTTATACGTTGGCATC
1 GATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCATA
* *
49828768 GATATGTGACTCCGATATATGTGTATGAGTAAGACC
1 GATATGTGACTCTGATATATGTGTACGAGTAAGACC
49828804 CTATCTGGGA
Statistics
Matches: 134, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
56 133 0.99
57 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (56 bp):
GATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGGCATA
Found at i:49828821 original size:112 final size:112
Alignment explanation
Indices: 49828601--49828832 Score: 306
Period size: 112 Copynumber: 2.1 Consensus size: 112
49828591 TGAGGTATCG
* *
49828601 ATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTTATATGTTGACATAGATATGTGAC
1 ATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGACATAGATATGTGAC
* * * * *
49828666 TCTGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCA
66 TCCGATATATGTGTACGAGTAAGACCACATCTGAGACGTTGGCATCA
* * * *
49828713 ATATGTGACTCTGATATATTTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGAC
1 ATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGACATAGATATGTGAC
* * *
49828778 TCCGATATATGTGTATGAGTAAGACC-CTATCTGGGACAG-TGGCATCG
66 TCCGATATATGTGTACGAGTAAGACCAC-ATCTGAGAC-GTTGGCATCA
49828825 ATATGTGA
1 ATATGTGA
49828833 TTACATGTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
111 1 0.01
112 102 0.98
113 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (112 bp):
ATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTTATACGTTGACATAGATATGTGAC
TCCGATATATGTGTACGAGTAAGACCACATCTGAGACGTTGGCATCA
Found at i:49837885 original size:76 final size:77
Alignment explanation
Indices: 49837722--49837885 Score: 201
Period size: 76 Copynumber: 2.2 Consensus size: 77
49837712 TCAATTTTTA
* * * * *
49837722 ATTATGTG-TTTTGTTTGTTTAATGCATCTTTATTTAATGTTTTGCATTAATACATCTACATCTT
1 ATTATGTGTTTTTGTTTATTGAATGCATCTTTAGTTAATGCTTTGCATTAATACATCTACATCAT
49837786 TTAAAAATGTGC
66 TTAAAAATGTGC
**
49837798 ATTATGT-TTTTTGTTTATTGAATGTTTCTTTAGTTAATGCTTTGCATTAATACAT-TAGCATCA
1 ATTATGTGTTTTTGTTTATTGAATGCATCTTTAGTTAATGCTTTGCATTAATACATCTA-CATCA
** *
49837861 TTTACGACT-TGC
65 TTTAAAAATGTGC
49837873 ATTATGTGTTTTT
1 ATTATGTGTTTTT
49837886 CATATTTAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
75 12 0.16
76 63 0.84
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.52
Consensus pattern (77 bp):
ATTATGTGTTTTTGTTTATTGAATGCATCTTTAGTTAATGCTTTGCATTAATACATCTACATCAT
TTAAAAATGTGC
Found at i:49854963 original size:20 final size:20
Alignment explanation
Indices: 49854940--49854997 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
49854930 TAAACATGGT
49854940 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
49854960 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
49854980 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
49854998 GTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:49854980 original size:11 final size:11
Alignment explanation
Indices: 49854944--49854997 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
49854934 CATGGTATGT
49854944 ATGATATGCAC
1 ATGATATGCAC
* *
49854955 ATGACATG--T
1 ATGATATGCAC
49854964 ATGATATGCAC
1 ATGATATGCAC
*
49854975 ATGATATG--T
1 ATGATATGCAC
49854984 ATGATATGCAC
1 ATGATATGCAC
49854995 ATG
1 ATG
49854998 GTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49855073 original size:24 final size:24
Alignment explanation
Indices: 49855046--49855141 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
49855036 GGAGGAAGTG
49855046 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
49855070 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
49855093 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
49855117 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
49855142 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 32 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:49855077 original size:23 final size:23
Alignment explanation
Indices: 49855048--49855120 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
49855038 AGGAAGTGTA
49855048 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
49855071 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
49855094 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
49855118 AAA
1 AAA
49855121 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:49855370 original size:31 final size:31
Alignment explanation
Indices: 49855335--49855394 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
49855325 CGTTTACAGT
49855335 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
*
49855366 AAAGGCTTCGGCCCAGTATTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
49855395 GAAATATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:49858275 original size:44 final size:43
Alignment explanation
Indices: 49858171--49858297 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 43
49858161 GAATTAAGAA
* * * **
49858171 ATCCGAACTCGTTGAGTTGGTCTGGGTTCGTGATATGTATGTGGC
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTC-AG-TATGGATGAAGC
* **
49858216 ATCCGACCTATTTGAGTTGGTCTGAGTTCAGTATGGATGCAAGC
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCAGTATGGATG-AAGC
* * * *
49858260 ATCCGAGCTCGTTGAGTTAGTCCGAGTTCATTATGGAT
1 ATCCGAACTCGTTGAGTTGGTCTGAGTTCAGTATGGAT
49858298 ACGTTAGATG
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
43 7 0.10
44 35 0.52
45 25 0.37
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTTGGTCTGAGTTCAGTATGGATGAAGC
Found at i:49864737 original size:40 final size:39
Alignment explanation
Indices: 49864674--49864837 Score: 163
Period size: 40 Copynumber: 4.1 Consensus size: 39
49864664 CGGAGTTTAA
* ** * *
49864674 CCGGATATAGCTACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGTTATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
*
49864714 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
*
49864754 CCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGG-TTATAGT-ACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
49864794 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGTTATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
49864834 CCGG
1 CCGG
49864838 GCATCATTCG
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
39 6 0.06
40 85 0.81
41 14 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGTTATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49868868 original size:29 final size:29
Alignment explanation
Indices: 49868835--49868966 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
49868825 GTGACGAGAT
49868835 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49868864 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
49868893 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49868922 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49868951 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49868967 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49876813 original size:29 final size:29
Alignment explanation
Indices: 49876780--49876911 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
49876770 GTGACGAGAT
49876780 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49876809 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
49876838 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49876867 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49876896 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49876912 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49882516 original size:40 final size:39
Alignment explanation
Indices: 49882352--49882516 Score: 172
Period size: 40 Copynumber: 4.1 Consensus size: 39
49882342 CGGAGTTTAA
** * *
49882352 CCGGATATAGCTACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
49882392 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
* * *
49882432 CTGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGA-CTTAGC
*
49882472 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
49882512 CCGGA
1 CCGGA
49882517 CATCATTCGA
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
39 5 0.05
40 87 0.84
41 12 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49885889 original size:13 final size:13
Alignment explanation
Indices: 49885873--49885903 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49885863 ATTTAGTTAT
*
49885873 TTAATTTCTATCA
1 TTAATTTCTACCA
49885886 TTAATTTCTACCA
1 TTAATTTCTACCA
49885899 TTAAT
1 TTAAT
49885904 ACTATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTTCTACCA
Found at i:49888620 original size:30 final size:29
Alignment explanation
Indices: 49888584--49888663 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
49888574 GTAACGGCGA
*
49888584 TTATCGACGAATGAAAAGGGATAGCTTCGG
1 TTATCGA-TAATGAAAAGGGATAGCTTCGG
** *
49888614 TTATCGAATACGGAAAA-GGATAGTTTCGG
1 TTATCG-ATAATGAAAAGGGATAGCTTCGG
* *
49888643 CTATCGATTATGAAAAGGGAT
1 TTATCGATAATGAAAAGGGAT
49888664 TATGATGACC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
28 7 0.17
29 20 0.50
30 12 0.30
31 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (29 bp):
TTATCGATAATGAAAAGGGATAGCTTCGG
Found at i:49888663 original size:29 final size:29
Alignment explanation
Indices: 49888594--49888812 Score: 102
Period size: 30 Copynumber: 7.4 Consensus size: 29
49888584 TTATCGACGA
* * *
49888594 ATGAAAAGGGATAGCTTCGGTTATCGAAT
1 ATGAAAAGGGATAGTTTCGGCTATCGATT
*
49888623 ACGGAAAA-GGATAGTTTCGGCTATCGATT
1 A-TGAAAAGGGATAGTTTCGGCTATCGATT
* * * * **
49888652 ATGAAAAGGGATTA-TGAT-GACCATCAAAA
1 ATGAAAAGGGA-TAGT-TTCGGCTATCGATT
* ** ** * * *
49888681 ATGAAAAGGGATGGTGACAACCATCAAACT
1 ATGAAAAGGGATAGTTTCGGCTATC-GATT
* * * *
49888711 ATGAAAAGGGATGGCTTCAGCTATCGAACT
1 ATGAAAAGGGATAGTTTCGGCTATCG-ATT
* * **
49888741 ATGAAAAGAGATGGTTTCATCTATCGATCT
1 ATGAAAAGGGATAGTTTCGGCTATCGAT-T
* *
49888771 ATGAAAAGGTATAGTTTCGGCTATCAAATT
1 ATGAAAAGGGATAGTTTCGGCTATC-GATT
49888801 ATGAAAAGGGAT
1 ATGAAAAGGGAT
49888813 GGTGACAAAC
Statistics
Matches: 146, Mismatches: 34, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
28 6 0.04
29 49 0.34
30 89 0.61
31 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGTTTCGGCTATCGATT
Found at i:49888717 original size:30 final size:30
Alignment explanation
Indices: 49888651--49888872 Score: 151
Period size: 30 Copynumber: 7.4 Consensus size: 30
49888641 GGCTATCGAT
** **
49888651 TATGAAAAGGGATTATGATGACCATCAAA-
1 TATGAAAAGGGATGGTGACAACCATCAAAC
*
49888680 AATGAAAAGGGATGGTGACAACCATCAAAC
1 TATGAAAAGGGATGGTGACAACCATCAAAC
* * * *
49888710 TATGAAAAGGGATGGCT-TCAGCTATCGAAC
1 TATGAAAAGGGATGG-TGACAACCATCAAAC
* ** * * * *
49888740 TATGAAAAGAGATGGTTTCATCTATCGATC
1 TATGAAAAGGGATGGTGACAACCATCAAAC
* * ** ** * *
49888770 TATGAAAAGGTATAGTTTCGGCTATCAAAT
1 TATGAAAAGGGATGGTGACAACCATCAAAC
*
49888800 TATGAAAAGGGATGGTGACAAACATCAAAC
1 TATGAAAAGGGATGGTGACAACCATCAAAC
* * ** *
49888830 AATGAAAAGGGATGGCGATGACCATCAAAT
1 TATGAAAAGGGATGGTGACAACCATCAAAC
49888860 TATGAAAAGGGAT
1 TATGAAAAGGGAT
49888873 AGCTTCGATT
Statistics
Matches: 153, Mismatches: 37, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
29 25 0.16
30 127 0.83
31 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACAACCATCAAAC
Found at i:49888754 original size:60 final size:60
Alignment explanation
Indices: 49888681--49888932 Score: 204
Period size: 60 Copynumber: 4.2 Consensus size: 60
49888671 ACCATCAAAA
*
49888681 ATGAAAAGGGATGGTGACAACCATCAAACTATGAAAAGGGATGGCTTCAGCTATCGAACT
1 ATGAAAAGGGATGGTGACAACCATCAAACTATGAAAAGGGATGGCTTCAGCTATCAAACT
* ** * * * * * * * * *
49888741 ATGAAAAGAGATGGTTTCATCTATCGATCTATGAAAAGGTATAGTTTCGGCTATCAAATT
1 ATGAAAAGGGATGGTGACAACCATCAAACTATGAAAAGGGATGGCTTCAGCTATCAAACT
* * * * * *
49888801 ATGAAAAGGGATGGTGACAAACATCAAACAATGAAAAGGGATGGCGATGA-CCATCAAATT
1 ATGAAAAGGGATGGTGACAACCATCAAACTATGAAAAGGGATGGC-TTCAGCTATCAAACT
* * * *** ** * *
49888861 ATGAAAAGGGATAGCT-TCGATTGTCAAACTATGAAAAGGGATAACTTCA-TTATCAAATT
1 ATGAAAAGGGAT-GGTGACAACCATCAAACTATGAAAAGGGATGGCTTCAGCTATCAAACT
49888920 ATGAAAAGGGATG
1 ATGAAAAGGGATG
49888933 TGTCCACCAT
Statistics
Matches: 148, Mismatches: 42, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
58 1 0.01
59 22 0.15
60 122 0.82
61 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACAACCATCAAACTATGAAAAGGGATGGCTTCAGCTATCAAACT
Found at i:49888926 original size:29 final size:30
Alignment explanation
Indices: 49888853--49888931 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
49888843 GGCGATGACC
*
49888853 ATCAAATTATGAAAAGGGATAGCTTCGATT
1 ATCAAATTATGAAAAGGGATAACTTCGATT
* *
49888883 GTCAAACTATGAAAAGGGATAACTTC-ATT
1 ATCAAATTATGAAAAGGGATAACTTCGATT
49888912 ATCAAATTATGAAAAGGGAT
1 ATCAAATTATGAAAAGGGAT
49888932 GTGTCCACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 21 0.48
30 23 0.52
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATAACTTCGATT
Found at i:49889109 original size:16 final size:16
Alignment explanation
Indices: 49889088--49889118 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49889078 CTCAGGTTCG
49889088 ATTGGGTTATACATGT
1 ATTGGGTTATACATGT
49889104 ATTGGGTTATACATG
1 ATTGGGTTATACATG
49889119 CTTTGTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (16 bp):
ATTGGGTTATACATGT
Found at i:49895577 original size:13 final size:13
Alignment explanation
Indices: 49895559--49895584 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49895549 ACTTAATACA
49895559 TAGACATTCTAGC
1 TAGACATTCTAGC
49895572 TAGACATTCTAGC
1 TAGACATTCTAGC
49895585 CTATACATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TAGACATTCTAGC
Found at i:49896186 original size:44 final size:43
Alignment explanation
Indices: 49896048--49896208 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 43
49896038 TATAATGCCA
* * * *
49896048 ATGTCCCAGACATGGTCTTACATGT-AATTCAGTATTGATGCCT
1 ATGTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCGT
* * * ** *
49896091 CTATCCCAGACAGGGTCTTATGCG-AAA-TCAGATGCGATGCCG-
1 ATGTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATG-CGT
49896133 ATGTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCGT
1 ATGTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCGT
* *
49896177 GTGTCCCAGACACGGTCTTACACG-ATAATTCA
1 ATGTCCCAGACATGGTCTTACACGTA-AATTCA
49896209 GATTAATACC
Statistics
Matches: 93, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 26 0.28
43 31 0.33
44 29 0.31
45 5 0.05
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCGT
Found at i:49903790 original size:46 final size:44
Alignment explanation
Indices: 49903715--49903972 Score: 193
Period size: 46 Copynumber: 5.6 Consensus size: 44
49903705 GTCGATGCCG
* * *
49903715 TGTCCCAGACAGGTCTTACACT-GATACATGTAACTGTGTCGATGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATGT--CTGTGCCGATGCA
* *
49903761 TGTCCCAAACATGTCTTACACTAGCACATGTC-GTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATGTCTGT-GCCGATGCA
* * *
49903805 TGTCCCAGACATGTCTGACACTAGCTAACATCTC-GAGCCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC--ACATGTCTGTG-CCGATGCA
* * * *
49903851 TGTCCCAGACATGTCTTACACTGGCTCTCAT-ACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAG--CACATGTCTGT-GCCGATGCA
* * * *
49903897 TGTCCTAGACATGTCTTACACTAGC-CCTCGTCTCAATGCCAATGCCA
1 TGTCCCAGACATGTCTTACACTAGCACAT-GTCT--GTGCCGATG-CA
*
49903944 TGTCCCAGACATGGTCTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTAGCACA
49903973 CAAATCTCAT
Statistics
Matches: 170, Mismatches: 26, Indels: 29
0.76 0.12 0.13
Matches are distributed among these distances:
43 4 0.02
44 32 0.19
45 4 0.02
46 100 0.59
47 16 0.09
48 13 0.08
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATGTCTGTGCCGATGCA
Found at i:49906879 original size:27 final size:27
Alignment explanation
Indices: 49906839--49906979 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
49906829 AGGAAGCGTC
* *
49906839 CTGGTGGCTATGCCACAGT-TATCTAAT
1 CTGGTGGCTCTGCCACA-TATATCTGAT
49906866 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
49906892 CCTGGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
* *
49906920 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
49906947 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
49906974 CTGGTG
1 CTGGTG
49906980 ACTTCATTAC
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:49906927 original size:54 final size:54
Alignment explanation
Indices: 49906836--49906975 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
49906826 TGGAGGAAGC
* * *
49906836 GTCCTGGTGGCTATGCCACAGTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
49906890 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
* *
49906944 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCT
49906976 GGTGACTTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
Found at i:49913871 original size:29 final size:29
Alignment explanation
Indices: 49913838--49913998 Score: 153
Period size: 29 Copynumber: 5.6 Consensus size: 29
49913828 GTGACGAGAT
49913838 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
49913867 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
49913896 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
49913925 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49913954 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49913983 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49913999 AAATCGAGTA
Statistics
Matches: 108, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 2 0.02
29 106 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49921853 original size:29 final size:29
Alignment explanation
Indices: 49921820--49921980 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
49921810 GTGACGAGAT
49921820 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
49921849 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49921878 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
49921907 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49921936 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49921965 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49921981 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49925460 original size:27 final size:27
Alignment explanation
Indices: 49925420--49925560 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
49925410 AGGAAGCGTC
* *
49925420 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
49925447 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
49925473 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
49925501 CTAGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
49925528 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
49925555 CTGGTG
1 CTGGTG
49925561 ACTTCGTCAT
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:49925508 original size:54 final size:54
Alignment explanation
Indices: 49925417--49925556 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
49925407 TGGAGGAAGC
* *
49925417 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
49925471 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
* *
49925525 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCT
49925557 GGTGACTTCG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCT
Found at i:49932916 original size:92 final size:93
Alignment explanation
Indices: 49932805--49932974 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
49932795 GCCCATAAGT
** *
49932805 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49932870 CGAGTT-GGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
49932897 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49932962 CGAGTTCGGATGC
66 CGAGTTCGGATGC
49932975 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 67 0.92
93 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:49932990 original size:46 final size:46
Alignment explanation
Indices: 49932797--49932976 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
49932787 TGTAACCCGC
* * *
49932797 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
*
49932843 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-GGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG---CAT
* * *
49932892 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
49932935 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
49932977 AACCATCCTA
Statistics
Matches: 115, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 6 0.05
46 95 0.83
47 6 0.05
48 1 0.01
49 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:49936703 original size:42 final size:43
Alignment explanation
Indices: 49936603--49936761 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
49936593 AACGAGTATA
* * * *
49936603 ATGCCAATGTCCCAGACATGGTCTTACATGTAATTC-AGTATCG
1 ATGCCTATGTCCCAGACATGGTCTTACACGTAAATCAAATA-CG
* * *
49936646 ATGCCTCTGTCCCAGACAGGGTCTTATACG-AAATCAAATACG
1 ATGCCTATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
*
49936688 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATTTCAAAT-CG
1 ATGCCTATGTCCCAGACATGGTCTTACACGTAAA--TCAAATACG
**
49936732 ATGCCTATG-CCCTAGACACAGTCTTACACG
1 ATGCCTATGTCCC-AGACATGGTCTTACACG
49936762 ATAATTTAGA
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 32 0.33
43 34 0.35
44 25 0.26
45 6 0.06
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCTATGTCCCAGACATGGTCTTACACGTAAATCAAATACG
Found at i:49942577 original size:81 final size:81
Alignment explanation
Indices: 49942452--49942650 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
49942442 ATGATTCTTA
* * *
49942452 ACACTGGCTC-AAA-CCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
49942515 ACTAAGTCCGGTTATG
66 ACTAAGTCCGGTTATG
* *
49942531 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* * ** *
49942594 TAATTAAGTTTGGTTATT
64 GAACTAAGTCCGGTTATG
*
49942612 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
49942651 TACACCCCGA
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
79 10 0.10
80 6 0.06
81 50 0.49
82 32 0.31
83 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
ACTAAGTCCGGTTATG
Found at i:49942589 original size:41 final size:41
Alignment explanation
Indices: 49942453--49942636 Score: 216
Period size: 41 Copynumber: 4.6 Consensus size: 41
49942443 TGATTCTTAA
* * *
49942453 CACTGGCTC-AAA-CCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
49942491 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
49942532 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* * *
49942573 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTTGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
49942614 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
49942637 CCCAAGCTCG
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.07
40 37 0.30
41 75 0.60
43 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:49942690 original size:51 final size:51
Alignment explanation
Indices: 49942609--49942717 Score: 200
Period size: 51 Copynumber: 2.1 Consensus size: 51
49942599 AAGTTTGGTT
*
49942609 ATTAGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATTTACACCCCG
1 ATTAACACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATTTACACCCCG
*
49942660 ATTAACACTGGCTTAAAAGCCCTTCGAACCCAAGCTCGGATTTACACCCCG
1 ATTAACACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATTTACACCCCG
49942711 ATTAACA
1 ATTAACA
49942718 TTCACACATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (51 bp):
ATTAACACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATTTACACCCCG
Found at i:49945785 original size:20 final size:21
Alignment explanation
Indices: 49945760--49945800 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49945750 GTAGTGTTTA
*
49945760 TTGAATTAGGA-TTTAAAAAT
1 TTGAATTAGAATTTTAAAAAT
*
49945780 TTGAATTTGAATTTTAAAAAT
1 TTGAATTAGAATTTTAAAAAT
49945801 AATATGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (21 bp):
TTGAATTAGAATTTTAAAAAT
Found at i:49947566 original size:11 final size:11
Alignment explanation
Indices: 49947550--49947579 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
49947540 TGGGTTAAAT
49947550 TTGCCAATACA
1 TTGCCAATACA
49947561 TTGCCAATACA
1 TTGCCAATACA
*
49947572 TAGCCAAT
1 TTGCCAAT
49947580 GGTAACCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (11 bp):
TTGCCAATACA
Found at i:49951584 original size:23 final size:22
Alignment explanation
Indices: 49951554--49951615 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
49951544 GCATAATTTT
49951554 ATATATTTTTAATTTATTAAATA
1 ATATATTTTTAATTTATTAAA-A
*
49951577 ATATATTTTTTATAATT-TTAAAA
1 ATATA-TTTTTA-ATTTATTAAAA
*
49951600 ATATA-ATTTAATTTAT
1 ATATATTTTTAATTTAT
49951616 ATTAAAGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.09
21 5 0.15
23 11 0.33
24 11 0.33
25 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATATTTTTAATTTATTAAAA
Found at i:49956068 original size:2 final size:2
Alignment explanation
Indices: 49956061--49956101 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
49956051 AACCTTTTCT
49956061 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49956102 TGCTTGTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49966036 original size:73 final size:73
Alignment explanation
Indices: 49965945--49966092 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
49965935 GGTAAAAGCG
*
49965945 AAGGTTTATGATGGTTTTAAATTATATTATAAAGGTTATATATGTAATTTAGTTAATAAACTTAT
1 AAGGTTTATGATGATTTTAAATTATATTATAAAGGTTATATATGTAATTTAGTTAATAAACTTAT
49966010 ATTAAATA
66 ATTAAATA
*
49966018 AAGGTTTATGATGATTTTAAATTATATTATAAAGGTTATATATGTAATTTAGTTAATAAATTTAT
1 AAGGTTTATGATGATTTTAAATTATATTATAAAGGTTATATATGTAATTTAGTTAATAAACTTAT
49966083 ATTAAATA
66 ATTAAATA
49966091 AA
1 AA
49966093 ACCAAAGTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (73 bp):
AAGGTTTATGATGATTTTAAATTATATTATAAAGGTTATATATGTAATTTAGTTAATAAACTTAT
ATTAAATA
Found at i:49966053 original size:31 final size:31
Alignment explanation
Indices: 49965945--49966054 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
49965935 GGTAAAAGCG
*
49965945 AAGGTTTATGATGGTTTTAAATTATATTATA
1 AAGGTTTATGATGATTTTAAATTATATTATA
49965976 AAGGTTATAT-ATGTAATTTAGTTAATAAACTTATATTAAATA
1 AAGGTT-TATGATG--A--T--TT--TAAA-TTATATT--ATA
49966018 AAGGTTTATGATGATTTTAAATTATATTATA
1 AAGGTTTATGATGATTTTAAATTATATTATA
49966049 AAGGTT
1 AAGGTT
49966055 ATATATGTAA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
31 18 0.28
32 3 0.05
33 7 0.11
34 4 0.06
35 1 0.02
36 2 0.03
37 2 0.03
38 1 0.02
39 4 0.06
40 8 0.12
41 3 0.05
42 12 0.18
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (31 bp):
AAGGTTTATGATGATTTTAAATTATATTATA
Found at i:49970164 original size:53 final size:54
Alignment explanation
Indices: 49969965--49970188 Score: 132
Period size: 53 Copynumber: 4.2 Consensus size: 54
49969955 ATTAGAGTTT
* * * * * * *
49969965 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGA
* * * * * * * * ** **
49970019 AAGGAAATCATGTAAGACCTTGTCAAGAAATAGCATTAATAA-ACTACTATAAGGCA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTA--ATAAGG-A
* * * ** * *
49970075 AA-GATCCCATGTATGACCATGCCAAGGTATGGCAATGGTGAG-TTCATAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGA
* * *
49970127 AAGGATACCACGTAAGACCATGTCAAGACATGTCAATGGTAAGTTTAAAAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGA
49970181 AAGG-TACC
1 AAGGATACC
49970189 CATGTATCCT
Statistics
Matches: 123, Mismatches: 41, Indels: 13
0.69 0.23 0.07
Matches are distributed among these distances:
52 3 0.02
53 43 0.35
54 43 0.35
55 32 0.26
56 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (54 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGA
Found at i:49970644 original size:20 final size:20
Alignment explanation
Indices: 49970619--49970662 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
49970609 CGTGTGGTCA
49970619 GACACGCCCGTGTGGCTTGG
1 GACACGCCCGTGTGGCTTGG
*
49970639 GACACGCTCGTGTGGCTTGG
1 GACACGCCCGTGTGGCTTGG
49970659 GACA
1 GACA
49970663 TGTCCTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.27, G:0.39, T:0.20
Consensus pattern (20 bp):
GACACGCCCGTGTGGCTTGG
Found at i:49972010 original size:18 final size:18
Alignment explanation
Indices: 49971970--49972033 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
49971960 TATCAATATC
*
49971970 ATTCAGTAACGATCAATT
1 ATTCAGTAACAATCAATT
* * *
49971988 GTTCAGTGACAATCAGTT
1 ATTCAGTAACAATCAATT
* * *
49972006 ATTCAATATCAGTCAATT
1 ATTCAGTAACAATCAATT
49972024 ATTCAGTAAC
1 ATTCAGTAAC
49972034 TGTCAACATC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:49982370 original size:21 final size:21
Alignment explanation
Indices: 49982346--49982421 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 21
49982336 TAAGCCATGA
*
49982346 TTTATCCATAG-GATTTTCATT
1 TTTATCAATAGAGA-TTTCATT
*
49982367 TTTATTCAATCGAGATTTCATT
1 TTTA-TCAATAGAGATTTCATT
*
49982389 TTTATTCAATCGAGATTTTCTATT
1 TTTA-TCAATAGAGA-TTTC-ATT
*
49982413 TTCATCAAT
1 TTTATCAAT
49982422 TATCTCATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 4 0.08
22 27 0.56
23 11 0.23
24 6 0.12
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (21 bp):
TTTATCAATAGAGATTTCATT
Found at i:49982421 original size:23 final size:23
Alignment explanation
Indices: 49982357--49982414 Score: 100
Period size: 22 Copynumber: 2.5 Consensus size: 23
49982347 TTATCCATAG
49982357 GATTTTCATTTTTATTCAATCGA
1 GATTTTCATTTTTATTCAATCGA
49982380 GA-TTTCATTTTTATTCAATCGA
1 GATTTTCATTTTTATTCAATCGA
49982402 GATTTTCTATTTT
1 GATTTTC-ATTTT
49982415 CATCAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 22 0.67
23 6 0.18
24 5 0.15
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (23 bp):
GATTTTCATTTTTATTCAATCGA
Found at i:49985017 original size:27 final size:27
Alignment explanation
Indices: 49984987--49985477 Score: 605
Period size: 27 Copynumber: 18.2 Consensus size: 27
49984977 AAAGTACTCC
*
49984987 CGATTTACAGAAATACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49985014 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
49985041 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49985068 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49985095 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
49985122 CGATTTACAGAATTACCATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49985149 C-AGTTTACAGAATTACTGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
49985176 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
49985203 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49985230 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
49985257 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
49985284 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
49985311 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
49985338 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
49985365 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
49985392 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
49985419 C-AGTTTACAAAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
49985446 TGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49985473 TGATT
1 CGATT
49985478 GTGAAATTAC
Statistics
Matches: 400, Mismatches: 54, Indels: 20
0.84 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 390 0.98
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:49985512 original size:27 final size:27
Alignment explanation
Indices: 49985482--49985677 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
49985472 TTGATTGTGA
*
49985482 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49985509 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
49985536 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49985563 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49985590 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49985617 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
49985644 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49985671 AATTACC
1 AATTACC
49985678 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49985914 original size:27 final size:27
Alignment explanation
Indices: 49985876--49985960 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
49985866 CGGAGGAAGC
*
49985876 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
49985903 GTTCTGGTGGCTCTGCCACAATATATTT
1 GTTCTGGTGGCTCTGCCACAA-ATATCT
* * *
49985931 GTATTTGGTGACTCTGTCA-AAATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
49985958 GTT
1 GTT
49985961 GACCGATCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 27 0.54
28 9 0.18
29 13 0.26
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:49986080 original size:22 final size:22
Alignment explanation
Indices: 49986048--49986106 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
49986038 CCCGTTATTA
*
49986048 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
49986070 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
49986092 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
49986107 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Done.