Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 70 of 172
Found at i:23063403 original size:22 final size:22
Alignment explanation
Indices: 23063375--23063450 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
23063365 AAGTGTATAT
23063375 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
23063397 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
23063422 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
23063444 ATGTGAT
1 ATGTGAT
23063451 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:23063685 original size:37 final size:37
Alignment explanation
Indices: 23063644--23063722 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23063634 TCGAGCTCTA
* * *
23063644 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
23063681 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23063718 AAGAC
1 AAGAC
23063723 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23071298 original size:35 final size:35
Alignment explanation
Indices: 23071258--23071369 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 35
23071248 AAAGCTTGGT
*
23071258 TTGAAGGCGAAGCTTTTTAATAATCCGAGCTCACG
1 TTGAAGGCGAAGCTTTTTAATAATCCGAGCTCACC
* * ** *
23071293 TTGAA-G-GAAGCGTTGTAATAAAACGAAGCTCGCC
1 TTGAAGGCGAAGCTTTTTAATAATCCG-AGCTCACC
** * * *
23071327 TTGAAGGTAAAGCTTTTTGATAATCTGAGCTTACC
1 TTGAAGGCGAAGCTTTTTAATAATCCGAGCTCACC
23071362 TTGAAGGC
1 TTGAAGGC
23071370 AAAGTTGTAA
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
33 15 0.26
34 12 0.21
35 19 0.33
36 12 0.21
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (35 bp):
TTGAAGGCGAAGCTTTTTAATAATCCGAGCTCACC
Found at i:23071403 original size:69 final size:69
Alignment explanation
Indices: 23071227--23071403 Score: 212
Period size: 69 Copynumber: 2.6 Consensus size: 69
23071217 GCCTGCCTCA
* * ** **
23071227 AAGGCAAAGATGTAATAAAATAAAGCTTGGTTTGAAGGCGAAGCTTTTTAATAATCCGAGCTCAC
1 AAGGCAAAGTTGTAATAAAATGAAGCTTGCCTTGAAGGTAAAGCTTTTTAATAATCCGAGCTCAC
*
23071292 GTTG
66 CTTG
* * * * * *
23071296 AAGG-AAGCGTTGTAATAAAACGAAGCTCGCCTTGAAGGTAAAGCTTTTTGATAATCTGAGCTTA
1 AAGGCAA-AGTTGTAATAAAATGAAGCTTGCCTTGAAGGTAAAGCTTTTTAATAATCCGAGCTCA
23071360 CCTTG
65 CCTTG
*
23071365 AAGGCAAAGTTGTAATAGAATGAAGCTTGCCTTGAAGGT
1 AAGGCAAAGTTGTAATAAAATGAAGCTTGCCTTGAAGGT
23071404 TGATCTACCA
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
68 2 0.02
69 85 0.96
70 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (69 bp):
AAGGCAAAGTTGTAATAAAATGAAGCTTGCCTTGAAGGTAAAGCTTTTTAATAATCCGAGCTCAC
CTTG
Found at i:23075025 original size:46 final size:46
Alignment explanation
Indices: 23074958--23075174 Score: 328
Period size: 46 Copynumber: 4.7 Consensus size: 46
23074948 TGGCAACCTG
*
23074958 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
23075004 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
23075050 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
23075096 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
23075142 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
23075175 TCACGTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 159 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:23075160 original size:138 final size:130
Alignment explanation
Indices: 23074909--23075174 Score: 372
Period size: 138 Copynumber: 2.0 Consensus size: 130
23074899 AGTGTGCTCT
*
23074909 CTGATATGAAATGTGGAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGGAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
23074974 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
23075039 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGGAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
23075104 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
23075168 TATGGCA
122 CATGGCA
23075175 TCACGTCAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
130 48 0.40
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.56
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (130 bp):
CTGATATGAAATGTGGAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:23075480 original size:23 final size:25
Alignment explanation
Indices: 23075435--23075481 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
23075425 AATAAATATA
*
23075435 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
23075460 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
23075482 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:23076582 original size:35 final size:35
Alignment explanation
Indices: 23076543--23076609 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
23076533 GAAGCTCTCA
*
23076543 TTGAAAGCAAAGCCTTTTGATAATTTGAGCTCGCC
1 TTGAAAGCAAAGCCTTTTGATAATTCGAGCTCGCC
* * * *
23076578 TTGAAGGTAATGCTTTTTGATAATTCGAGCTC
1 TTGAAAGCAAAGCCTTTTGATAATTCGAGCTC
23076610 ATTTTGAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (35 bp):
TTGAAAGCAAAGCCTTTTGATAATTCGAGCTCGCC
Found at i:23076617 original size:104 final size:104
Alignment explanation
Indices: 23076509--23076736 Score: 224
Period size: 104 Copynumber: 2.2 Consensus size: 104
23076499 CAAGCTTGCA
* * * ** * * *
23076509 TTGAAGACAAATTTGTCATAAAATGAAGCTCTCATTGAA-AGCAAAGCCTTTTGATAATTTGAGC
1 TTGAAGACAAAGTTGTAATAAAACGAAGCTAGCATTGAAGA-CAAAGACTTTTGACAATTCGAGC
* *
23076573 TCGCCTTGAAGGTAATGCTTTTTGATAATTCGAGCTCATT
65 TCGCCTTGAAGGAAAAGCTTTTTGATAATTCGAGCTCATT
** * * * *
23076613 TTGAAGGTAAAGTTGTAATAAAACGAAGCTAGCCTTGAAGATAAAGATTTTTTACAATTCGAGCT
1 TTGAAGACAAAGTTGTAATAAAACGAAGCTAGCATTGAAGACAAAGACTTTTGACAATTCGAGCT
* * * ***
23076678 TGCTTTGAAGGAAAAGCTTTTTGATAATTTGAGCTCGCC
66 CGCCTTGAAGGAAAAGCTTTTTGATAATTCGAGCTCATT
* *
23076717 TTGAAGATAAAGCTGTAATA
1 TTGAAGACAAAGTTGTAATA
23076737 GAACAAAGTT
Statistics
Matches: 99, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
104 98 0.99
105 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (104 bp):
TTGAAGACAAAGTTGTAATAAAACGAAGCTAGCATTGAAGACAAAGACTTTTGACAATTCGAGCT
CGCCTTGAAGGAAAAGCTTTTTGATAATTCGAGCTCATT
Found at i:23076658 original size:34 final size:34
Alignment explanation
Indices: 23076613--23076808 Score: 112
Period size: 34 Copynumber: 5.7 Consensus size: 34
23076603 CGAGCTCATT
*
23076613 TTGAAGGTAAAGTTGTAATAAAACGAAGCTAGCC
1 TTGAAGATAAAGTTGTAATAAAACGAAGCTAGCC
** * * *
23076647 TTGAAGATAAAGATT-TTTTACAATTCG-AGCTTGCT
1 TTGAAGATAAAG-TTGTAATA-AA-ACGAAGCTAGCC
* * *** *
23076682 TTGAAGGA-AAAGCTTTTTGATAATTTG-AGCTCGCC
1 TTGAA-GATAAAG--TTGTAATAAAACGAAGCTAGCC
* * * * *
23076717 TTGAAGATAAAGCTGTAATAGAACAAAGTTAGAC
1 TTGAAGATAAAGTTGTAATAAAACGAAGCTAGCC
* * *
23076751 TTGAAGTTAAAGTTGTAATAAAACAAAGCTTGCC
1 TTGAAGATAAAGTTGTAATAAAACGAAGCTAGCC
**
23076785 TTGAAGGCAAAGTTGTAATAAAAC
1 TTGAAGATAAAGTTGTAATAAAAC
23076809 AAAGTATAGG
Statistics
Matches: 122, Mismatches: 32, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
33 5 0.04
34 71 0.58
35 36 0.30
36 7 0.06
37 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (34 bp):
TTGAAGATAAAGTTGTAATAAAACGAAGCTAGCC
Found at i:23076729 original size:35 final size:35
Alignment explanation
Indices: 23076551--23076730 Score: 150
Period size: 35 Copynumber: 5.2 Consensus size: 35
23076541 CATTGAAAGC
* * *
23076551 AAAGCCTTTTGATAATTTGAGCTCGCCTTGAAGGT
1 AAAGCTTTTTGATAATTCGAGCTCGCCTTGAAGAT
* *** *
23076586 AATGCTTTTTGATAATTCGAGCTCATTTTGAAGGT
1 AAAGCTTTTTGATAATTCGAGCTCGCCTTGAAGAT
* * ** *
23076621 AAAG--TTGTAATAAAACGAAGCTAGCCTTGAAGAT
1 AAAGCTTTTTGATAATTCG-AGCTCGCCTTGAAGAT
* * * * *
23076655 AAAGATTTTTTACAATTCGAGCTTGCTTTGAAGGA-
1 AAAGCTTTTTGATAATTCGAGCTCGCCTTGAA-GAT
*
23076690 AAAGCTTTTTGATAATTTGAGCTCGCCTTGAAGAT
1 AAAGCTTTTTGATAATTCGAGCTCGCCTTGAAGAT
23076725 AAAGCT
1 AAAGCT
23076731 GTAATAGAAC
Statistics
Matches: 111, Mismatches: 29, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
33 9 0.08
34 17 0.15
35 75 0.68
36 10 0.09
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (35 bp):
AAAGCTTTTTGATAATTCGAGCTCGCCTTGAAGAT
Found at i:23076754 original size:104 final size:104
Alignment explanation
Indices: 23076564--23076762 Score: 254
Period size: 104 Copynumber: 1.9 Consensus size: 104
23076554 GCCTTTTGAT
* * * ** * *
23076564 AATTTGAGCTCGCCTTGAAGGTAATGCTTTTTGATAATTCGAGCTCATTTTGAAGGTAAAGTTGT
1 AATTCGAGCTCGCCTTGAAGGAAAAGCTTTTTGATAATTCGAGCTCACCTTGAAGATAAAGCTGT
* *
23076629 AATAAAACGAAGCTAGCCTTGAAGATAAAGATTTTTTAC
66 AATAAAACAAAGCTAGACTTGAAGATAAAGATTTTTTAC
* * * *
23076668 AATTCGAGCTTGCTTTGAAGGAAAAGCTTTTTGATAATTTGAGCTCGCCTTGAAGATAAAGCTGT
1 AATTCGAGCTCGCCTTGAAGGAAAAGCTTTTTGATAATTCGAGCTCACCTTGAAGATAAAGCTGT
* * *
23076733 AATAGAACAAAGTTAGACTTGAAGTTAAAG
66 AATAAAACAAAGCTAGACTTGAAGATAAAG
23076763 TTGTAATAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
104 79 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (104 bp):
AATTCGAGCTCGCCTTGAAGGAAAAGCTTTTTGATAATTCGAGCTCACCTTGAAGATAAAGCTGT
AATAAAACAAAGCTAGACTTGAAGATAAAGATTTTTTAC
Found at i:23076809 original size:34 final size:34
Alignment explanation
Indices: 23076709--23076812 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 34
23076699 TGATAATTTG
* * *
23076709 AGCTCGCCTTGAAGATAAAGCTGTAATAGAACAA
1 AGCTTGCCTTGAAGATAAAGTTGTAATAAAACAA
* *
23076743 AG-TTAGACTTGAAGTTAAAGTTGTAATAAAACAA
1 AGCTT-GCCTTGAAGATAAAGTTGTAATAAAACAA
**
23076777 AGCTTGCCTTGAAGGCAAAGTTGTAATAAAACAA
1 AGCTTGCCTTGAAGATAAAGTTGTAATAAAACAA
23076811 AG
1 AG
23076813 TATAGGTAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 1 0.02
34 57 0.95
35 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.24
Consensus pattern (34 bp):
AGCTTGCCTTGAAGATAAAGTTGTAATAAAACAA
Found at i:23079882 original size:13 final size:13
Alignment explanation
Indices: 23079864--23079889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23079854 AATAATTTGA
23079864 TAATTTATTTTTT
1 TAATTTATTTTTT
23079877 TAATTTATTTTTT
1 TAATTTATTTTTT
23079890 CATGTTTATG
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TAATTTATTTTTT
Found at i:23089198 original size:53 final size:53
Alignment explanation
Indices: 23089118--23089220 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
23089108 GACACGGGCA
* *
23089118 TGTGTCTCAGCCGTGTGTACTACACGGCCTAGCACACGGGTGTGTGGTCGGCG
1 TGTGTCTCAGCCGTGTGTACTACACGGCCTAGCACACAGGCGTGTGGTCGGCG
*
23089171 TGTGTCTCGGCCGTGTGTACTACACGGCCTAGCACACAGGCGTGTGGTCG
1 TGTGTCTCAGCCGTGTGTACTACACGGCCTAGCACACAGGCGTGTGGTCG
23089221 ACCATGTGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (53 bp):
TGTGTCTCAGCCGTGTGTACTACACGGCCTAGCACACAGGCGTGTGGTCGGCG
Found at i:23091822 original size:17 final size:18
Alignment explanation
Indices: 23091790--23091824 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23091780 ATGTGGACTA
23091790 CCTGTGTGGACCCACACG
1 CCTGTGTGGACCCACACG
23091808 CCTGTGTGG-CCCACACG
1 CCTGTGTGGACCCACACG
23091825 GCCCAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (18 bp):
CCTGTGTGGACCCACACG
Found at i:23092435 original size:19 final size:19
Alignment explanation
Indices: 23092411--23092454 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
23092401 AGGAAGAAAA
*
23092411 AGAAAACGAATGTGAGACG
1 AGAAAACGAATGGGAGACG
23092430 AGAAAACGAATGGGAGACG
1 AGAAAACGAATGGGAGACG
*
23092449 GGAAAA
1 AGAAAA
23092455 AGAAGAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.09, G:0.34, T:0.07
Consensus pattern (19 bp):
AGAAAACGAATGGGAGACG
Found at i:23097747 original size:17 final size:17
Alignment explanation
Indices: 23097725--23097757 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23097715 ACCAAAAAAA
*
23097725 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
23097742 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
23097758 ATGATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:23102682 original size:40 final size:40
Alignment explanation
Indices: 23102621--23102779 Score: 230
Period size: 40 Copynumber: 4.0 Consensus size: 40
23102611 GGCTTTAACC
** *
23102621 GGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGCCT
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCT
** * * *
23102661 GGATATAGTAGTTCCCACAAATGTCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCT
23102701 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG-CT
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCT
23102740 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 -GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
23102780 CGAAATTAGT
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCT
Found at i:23109969 original size:40 final size:40
Alignment explanation
Indices: 23109907--23110242 Score: 545
Period size: 40 Copynumber: 8.4 Consensus size: 40
23109897 AAACCAAGTA
* * *
23109907 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
23109946 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
23109986 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23110026 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23110066 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23110106 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23110146 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
23110186 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
23110226 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
23110243 CGTTATCATC
Statistics
Matches: 283, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
39 14 0.05
40 269 0.95
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23113644 original size:43 final size:42
Alignment explanation
Indices: 23113513--23113662 Score: 183
Period size: 42 Copynumber: 3.5 Consensus size: 42
23113503 TGAGACTATG
* *
23113513 TGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTTA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
* * *
23113555 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
** * * **
23113597 TGTAAGACCATCGCTGGGCTATTGGCATCAATAGGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGATTTCA
*
23113640 TGTAAGACCATATCTGGCATATG
1 TGTAAGACCATATCTGGGATATG
23113663 ACATTGGTAT
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 56 0.63
43 33 0.37
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
Found at i:23113674 original size:85 final size:84
Alignment explanation
Indices: 23113512--23113666 Score: 204
Period size: 85 Copynumber: 1.8 Consensus size: 84
23113502 CTGAGACTAT
* * * ***
23113512 GTGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTTATGTAAGACCATATCTAGGATAT
1 GTGTAAGACCATAGCTGGGATATGGCATCAATAGGAGATCCCATGTAAGACCATATCTAGGATAT
*
23113577 GGCATCGATATGAGATTTC
66 GACATCGATATGAGATTTC
* *
23113596 GTGTAAGACCATCGCTGGGCTATTGGCATCAATAGGAGATCCCATGTAAGACCATATCT-GGCAT
1 GTGTAAGACCATAGCTGGGATA-TGGCATCAATAGGAGATCCCATGTAAGACCATATCTAGG-AT
23113660 ATGACAT
64 ATGACAT
23113667 TGGTATGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
84 21 0.35
85 39 0.65
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGGCATCAATAGGAGATCCCATGTAAGACCATATCTAGGATAT
GACATCGATATGAGATTTC
Found at i:23117905 original size:21 final size:22
Alignment explanation
Indices: 23117855--23117908 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
23117845 TTCAGGGCCC
**
23117855 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
* *
23117877 ACATGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
23117898 ACACGCCCGTG
1 ACACGCCCGTG
23117909 CTGCAGGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:23127811 original size:90 final size:90
Alignment explanation
Indices: 23127706--23127884 Score: 349
Period size: 90 Copynumber: 2.0 Consensus size: 90
23127696 TCTCTCTCTC
*
23127706 CTAGGGTTTTCATATAATTTTAGGGTTGAAGATGAAAAAATAATAAGATAATATCTTTTATTATC
1 CTAGGGTTTTAATATAATTTTAGGGTTGAAGATGAAAAAATAATAAGATAATATCTTTTATTATC
23127771 TTTTTAATTAATTAATTATTTTTCT
66 TTTTTAATTAATTAATTATTTTTCT
23127796 CTAGGGTTTTAATATAATTTTAGGGTTGAAGATGAAAAAATAATAAGATAATATCTTTTATTATC
1 CTAGGGTTTTAATATAATTTTAGGGTTGAAGATGAAAAAATAATAAGATAATATCTTTTATTATC
23127861 TTTTTAATTAATTAATTATTTTTC
66 TTTTTAATTAATTAATTATTTTTC
23127885 AAATTCTAAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.47
Consensus pattern (90 bp):
CTAGGGTTTTAATATAATTTTAGGGTTGAAGATGAAAAAATAATAAGATAATATCTTTTATTATC
TTTTTAATTAATTAATTATTTTTCT
Found at i:23130259 original size:25 final size:25
Alignment explanation
Indices: 23130227--23130279 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
23130217 ATGCATTGCA
23130227 ACATACAACAGAATGTCATGCTATC
1 ACATACAACAGAATGTCATGCTATC
*
23130252 ACATACAATAGAATGTCATGCTATC
1 ACATACAACAGAATGTCATGCTATC
23130277 ACA
1 ACA
23130280 GGTCTATCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.25
Consensus pattern (25 bp):
ACATACAACAGAATGTCATGCTATC
Found at i:23132791 original size:31 final size:31
Alignment explanation
Indices: 23132750--23132887 Score: 94
Period size: 31 Copynumber: 4.6 Consensus size: 31
23132740 TTAATAAATT
23132750 TATTAATATTAATTTAATACTAATCTTGATAG
1 TATT-ATATTAATTTAATACTAATCTTGATAG
* * * * * *
23132782 TATTTTATTAATTTAATAATAAATTTATTAAAT
1 TATTATATTAATTTAATACT-AATCT-TGATAG
* *
23132815 TAATAATATTATTTTAATA--AAT-TT-AT--
1 T-ATTATATTAATTTAATACTAATCTTGATAG
*
23132841 TA--ATATTAATTTAATACTCATCTTGATAG
1 TATTATATTAATTTAATACTAATCTTGATAG
*
23132870 TATTTTATTAATTTAATA
1 TATTATATTAATTTAATA
23132888 ATAAAGTGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 23
0.69 0.11 0.19
Matches are distributed among these distances:
23 13 0.16
25 3 0.04
26 3 0.04
27 2 0.02
28 1 0.01
29 3 0.04
30 1 0.01
31 30 0.37
32 8 0.10
33 4 0.05
34 14 0.17
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (31 bp):
TATTATATTAATTTAATACTAATCTTGATAG
Found at i:23132808 original size:20 final size:20
Alignment explanation
Indices: 23132785--23132822 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23132775 TTGATAGTAT
*
23132785 TTTATTAATTTAATAATAAA
1 TTTATTAAATTAATAATAAA
23132805 TTTATTAAATTAATAATA
1 TTTATTAAATTAATAATA
23132823 TTATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTATTAAATTAATAATAAA
Found at i:23132851 original size:88 final size:88
Alignment explanation
Indices: 23132728--23132892 Score: 312
Period size: 88 Copynumber: 1.9 Consensus size: 88
23132718 CTATTCCAAA
23132728 AATAATATTAGTTTAATAAATTTATTAATATTAATTTAATACTAATCTTGATAGTATTTTATTAA
1 AATAATATTAGTTTAATAAATTTATTAATATTAATTTAATACTAATCTTGATAGTATTTTATTAA
23132793 TTTAATAATAAATTTATTAAATT
66 TTTAATAATAAATTTATTAAATT
* *
23132816 AATAATATTATTTTAATAAATTTATTAATATTAATTTAATACTCATCTTGATAGTATTTTATTAA
1 AATAATATTAGTTTAATAAATTTATTAATATTAATTTAATACTAATCTTGATAGTATTTTATTAA
23132881 TTTAATAATAAA
66 TTTAATAATAAA
23132893 GTGATTATCT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (88 bp):
AATAATATTAGTTTAATAAATTTATTAATATTAATTTAATACTAATCTTGATAGTATTTTATTAA
TTTAATAATAAATTTATTAAATT
Found at i:23136521 original size:3 final size:3
Alignment explanation
Indices: 23136513--23136543 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23136503 CCTTTTACCA
*
23136513 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
23136544 TTTATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:23136536 original size:18 final size:18
Alignment explanation
Indices: 23136513--23136567 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
23136503 CCTTTTACCA
23136513 TCTTCTTCTTCTTTTTCT
1 TCTTCTTCTTCTTTTTCT
*
23136531 TCTTCTTCTTCTTTTTAT
1 TCTTCTTCTTCTTTTTCT
* * *
23136549 TATTATTATTCTTTTTCT
1 TCTTCTTCTTCTTTTTCT
23136567 T
1 T
23136568 TTTGCATCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (18 bp):
TCTTCTTCTTCTTTTTCT
Found at i:23140295 original size:15 final size:15
Alignment explanation
Indices: 23140243--23140299 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 15
23140233 ACCTCTTGTA
23140243 AAAAG-AAAGAGA-G
1 AAAAGAAAAGAGATG
*
23140256 AAAAGAAGA-AGATG
1 AAAAGAAAAGAGATG
*
23140270 AAAAGCAAAAAGAGATC
1 AAAAG--AAAAGAGATG
23140287 AAAAGAAAAGAGA
1 AAAAGAAAAGAGA
23140300 GGCAAGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 8 0.22
14 8 0.22
15 8 0.22
16 3 0.08
17 9 0.25
ACGTcount: A:0.68, C:0.04, G:0.25, T:0.04
Consensus pattern (15 bp):
AAAAGAAAAGAGATG
Found at i:23140384 original size:18 final size:20
Alignment explanation
Indices: 23140347--23140386 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
23140337 GAATGAAATC
23140347 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
*
23140367 GAGAGAA-AAA-AAATAAAA
1 GAGAGAAGAAACAAAGAAAA
23140385 GA
1 GA
23140387 AAGTGAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:23142401 original size:10 final size:10
Alignment explanation
Indices: 23142364--23142437 Score: 62
Period size: 10 Copynumber: 7.4 Consensus size: 10
23142354 CCCATGCGCC
*
23142364 ATTCAGCTCA
1 ATTCAGCTCG
*
23142374 AATCAGCTCG
1 ATTCAGCTCG
* *
23142384 CTTAAGCTCG
1 ATTCAGCTCG
23142394 ATTCAGCTC-
1 ATTCAGCTCG
*
23142403 ATTTGAGCTCG
1 A-TTCAGCTCG
23142414 AATTCAGCTCG
1 -ATTCAGCTCG
*
23142425 TTTCAGCTC-
1 ATTCAGCTCG
23142434 ATTC
1 ATTC
23142438 TTCTTCATCT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
9 4 0.08
10 37 0.74
11 8 0.16
12 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.32
Consensus pattern (10 bp):
ATTCAGCTCG
Found at i:23148308 original size:38 final size:38
Alignment explanation
Indices: 23148274--23148401 Score: 159
Period size: 38 Copynumber: 3.4 Consensus size: 38
23148264 ACAGGCTATA
*
23148274 TGCTGGAATTATATCCAGGTTAAATCCCGTAGGCTTCG
1 TGCTGGAATTATATCCAGGTTAAATCCCGCAGGCTTCG
*
23148312 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCAGGTTAAATCCCGCAGGCTTCG
* * ** * *
23148350 TGCTGGTATTATATCCTGGTTAAATCATGCAGGCCTAG
1 TGCTGGAATTATATCCAGGTTAAATCCCGCAGGCTTCG
*
23148388 TGCTGGTATTATAT
1 TGCTGGAATTATAT
23148402 TCGGGCCTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 77 0.96
39 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (38 bp):
TGCTGGAATTATATCCAGGTTAAATCCCGCAGGCTTCG
Found at i:23148542 original size:45 final size:45
Alignment explanation
Indices: 23148399--23148528 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
23148389 GCTGGTATTA
* *
23148399 TATTCGGGCCTTTGAGCCTAGCA-AGCTATTATGCCGATGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGA-CTATAATGCCGATGAGATAC
* * *
23148444 TATTCGGGCCTTTGGGCTTAGCAGGCTATAATGCCGATGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGACTATAATGCCGATGAGATAC
*
23148489 TATTCGGGCTTTTGAGCCTAGCAGACTATAATGCCGATGA
1 TATTCGGGCCTTTGAGCCTAGCAGACTATAATGCCGATGA
23148529 AATGATAATC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGACTATAATGCCGATGAGATAC
Found at i:23179170 original size:28 final size:27
Alignment explanation
Indices: 23179107--23179258 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
23179097 ATATTAAGTC
* *
23179107 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
23179134 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
23179162 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
23179189 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
23179217 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
23179244 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23179259 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23179191 original size:55 final size:55
Alignment explanation
Indices: 23179107--23179283 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
23179097 ATATTAAGTC
* * *
23179107 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
23179162 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
23179217 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
23179273 CGCACACTTAG
1 CGCACACTTAG
23179284 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:23187343 original size:28 final size:28
Alignment explanation
Indices: 23187277--23187625 Score: 576
Period size: 28 Copynumber: 12.5 Consensus size: 28
23187267 ATATTAAGTC
* * *
23187277 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23187304 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187332 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187360 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187388 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187416 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187444 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187472 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187500 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
23187528 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
23187556 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
23187583 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
*
23187612 CGCACTCTTAGTGC
1 CGCACACTTAGTGC
23187626 CAATCTCATG
Statistics
Matches: 305, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
27 41 0.13
28 249 0.82
29 15 0.05
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:23189454 original size:49 final size:49
Alignment explanation
Indices: 23189401--23189625 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
23189391 CTGGTACGCA
*
23189401 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * ** * *
23189450 TAGTAGCCTGCACTTAGTACCACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* ** * *
23189500 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTATCCGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
23189551 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
23189600 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
23189626 AGTGACCTCA
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 67 0.45
50 46 0.31
51 37 0.25
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:23189570 original size:101 final size:98
Alignment explanation
Indices: 23189401--23189632 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 98
23189391 CTGGTACGCA
* * *
23189401 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* * *
23189466 GTACCACACACGTGACCTAACCATCTGATACACG
66 GTACCACACACGCGACC-AACAATCCGATACACG
* ** *
23189500 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTATCCGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACAAGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * * *
23189565 TAGTACTACACATGCGACCAATAATCCGGTACACG
64 TAGTACCACACACGCGACCAACAATCCGATACACG
23189600 TAGTAGCCTGCACTTAGTACTACACAAGTGACC
1 TAGTAGCCTGCACTTAGTACTACACAAGTGACC
23189633 TCACAATAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 29 0.25
100 44 0.38
101 42 0.37
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACCACACACGCGACCAACAATCCGATACACG
Found at i:23191405 original size:26 final size:26
Alignment explanation
Indices: 23191369--23191712 Score: 670
Period size: 26 Copynumber: 13.2 Consensus size: 26
23191359 TGATACAAAT
23191369 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191395 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191421 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191447 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191473 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191499 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191525 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191551 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191577 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191603 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191629 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191655 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23191681 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23191707 TGATAA
1 TGATAA
23191713 GAATTTCATG
Statistics
Matches: 316, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 316 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:23194305 original size:216 final size:216
Alignment explanation
Indices: 23193931--23194362 Score: 837
Period size: 216 Copynumber: 2.0 Consensus size: 216
23193921 AAGATAGGTA
23193931 TTACTTATTTTAACTGTTGAAATTGGATAGCTTTAGGGCGCGTTTTTAAAAACAACAGTTGATTT
1 TTACTTATTTTAACTGTTGAAATTGGATAGCTTTAGGGCGCGTTTTTAAAAACAACAGTTGATTT
23193996 CAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTTCCAAAATTAATCACTTTT
66 CAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTTCCAAAATTAATCACTTTT
23194061 CCTAAAAATTACTTAATCAAATCGGTTTCCTAGAAATATCCATGACGTTAAGGTGTGGCAATGGC
131 CCTAAAAATTACTTAATCAAATCGGTTTCCTAGAAATATCCATGACGTTAAGGTGTGGCAATGGC
23194126 GGTATGCATGTCTAGGATTAG
196 GGTATGCATGTCTAGGATTAG
* * *
23194147 TTACTTATTTTAACTGTTTAAATTGGATATCTTTATGGCGCGTTTTTAAAAACAACAGTTGATTT
1 TTACTTATTTTAACTGTTGAAATTGGATAGCTTTAGGGCGCGTTTTTAAAAACAACAGTTGATTT
23194212 CAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTTCCAAAATTAATCACTTTT
66 CAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTTCCAAAATTAATCACTTTT
23194277 CCTAAAAATTACTTAATCAAATCGGTTTCCTAGAAATATCCATGACGTTAAGGTGTGGCAATGGC
131 CCTAAAAATTACTTAATCAAATCGGTTTCCTAGAAATATCCATGACGTTAAGGTGTGGCAATGGC
23194342 GGTATGCATGTCTAGGATTAG
196 GGTATGCATGTCTAGGATTAG
23194363 ATCCGAAGGG
Statistics
Matches: 213, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 213 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (216 bp):
TTACTTATTTTAACTGTTGAAATTGGATAGCTTTAGGGCGCGTTTTTAAAAACAACAGTTGATTT
CAAAATAACACGACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTTCCAAAATTAATCACTTTT
CCTAAAAATTACTTAATCAAATCGGTTTCCTAGAAATATCCATGACGTTAAGGTGTGGCAATGGC
GGTATGCATGTCTAGGATTAG
Found at i:23198744 original size:27 final size:28
Alignment explanation
Indices: 23198666--23198781 Score: 114
Period size: 27 Copynumber: 4.2 Consensus size: 28
23198656 CAGCATGGCT
* * * *
23198666 ACCAGATACAGA-AAATGTGACAGAGTC
1 ACCAGATACAGATATATGTGGCAGTGCC
*
23198693 ACCAGATACAGATATTTTGTGGCAGTGCC
1 ACCAGATACAGATA-TATGTGGCAGTGCC
*
23198722 ACCAGA-ACAGATATATGTGGCAGGGCC
1 ACCAGATACAGATATATGTGGCAGTGCC
*
23198749 ACCAGA-ACAGATCATTTGTGGCA-TAGCC
1 ACCAGATACAGAT-ATATGTGGCAGT-GCC
23198777 ACCAG
1 ACCAG
23198782 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
27 36 0.47
28 25 0.33
29 15 0.20
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
ACCAGATACAGATATATGTGGCAGTGCC
Found at i:23198768 original size:55 final size:56
Alignment explanation
Indices: 23198666--23198781 Score: 141
Period size: 55 Copynumber: 2.1 Consensus size: 56
23198656 CAGCATGGCT
*
23198666 ACCAGATACAGAAAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCC
1 ACCAGATACAGAAAATGTGACAGAGCCACCAGATACAGATATTTTGTGGCA-TAGCC
* * *
23198722 ACCAGA-ACAGATATATGTGGCAGGGCCACCAGA-ACAGATCA-TTTGTGGCATAGCC
1 ACCAGATACAGA-AAATGTGACAGAGCCACCAGATACAGAT-ATTTTGTGGCATAGCC
23198777 ACCAG
1 ACCAG
23198782 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 28 0.53
56 24 0.45
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
ACCAGATACAGAAAATGTGACAGAGCCACCAGATACAGATATTTTGTGGCATAGCC
Found at i:23198940 original size:28 final size:28
Alignment explanation
Indices: 23198887--23198979 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
23198877 AAATTAACCC
* * * *
23198887 TAGGGATATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAAATTTGCATACA
* *
23198915 TAAGGGTGTAATGGTAAATTTGCATACA
1 TAGGGGTATAATGGTAAATTTGCATACA
*
23198943 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAAATTTGCATACA
23198971 TAGGGGTAT
1 TAGGGGTAT
23198980 TCTAGTACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAAATTTGCATACA
Found at i:23199250 original size:16 final size:15
Alignment explanation
Indices: 23199229--23199258 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23199219 AAAATACCGA
23199229 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
23199245 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
23199259 CCGATCTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:23201908 original size:34 final size:34
Alignment explanation
Indices: 23201827--23201909 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
23201817 CTGATATGTT
* * *
23201827 AATGGGCTTAGGCCCAGACTGGTATTGTCACTGA
1 AATGGGCTTAGGCCCAGACTGCTACTGTCACTAA
** * * * *
23201861 AACAGGCTCAGGCCCATATTGCTACTGTTACTAA
1 AATGGGCTTAGGCCCAGACTGCTACTGTCACTAA
23201895 AATGGGCTTAGGCCC
1 AATGGGCTTAGGCCC
23201910 TAACTATTAC
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (34 bp):
AATGGGCTTAGGCCCAGACTGCTACTGTCACTAA
Found at i:23207982 original size:47 final size:47
Alignment explanation
Indices: 23207923--23208186 Score: 372
Period size: 47 Copynumber: 5.6 Consensus size: 47
23207913 TATTTGAATA
*
23207923 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGACAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
23207970 AATGTGACAGTGTATATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGACAGTGTATATA--TGTGATAAGGCCGAATGGCCAATGTGATG
* * *
23208019 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAGTGTGATG
1 AATGTG-ACAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
23208066 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTG-ACAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
23208113 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGACAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
23208160 GATGTGGA-AGCGTATAAATGTGATAAG
1 AATGT-GACAGTGTATATATGTGATAAG
23208187 TCCCGAAGGG
Statistics
Matches: 197, Mismatches: 15, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
46 2 0.01
47 149 0.76
48 2 0.01
49 41 0.21
50 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
AATGTGACAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:23208181 original size:143 final size:142
Alignment explanation
Indices: 23207923--23208181 Score: 396
Period size: 143 Copynumber: 1.8 Consensus size: 142
23207913 TATTTGAATA
* * *
23207923 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGACAGTGTATATA
1 AATGTGAAAGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* **
23207988 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAAT
66 -GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATATAAATGTGTGATAAGGCCGAAT
23208053 GGCCAGTGTGATG
130 GGCCAGTGTGATG
23208066 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAA-AGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* *
23208130 A-TGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGCGTATAAATGTG
65 AGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAA-CATATAAATGTG
23208182 ATAAGTCCCG
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
141 33 0.31
142 3 0.03
143 68 0.65
144 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (142 bp):
AATGTGAAAGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATATAAATGTGTGATAAGGCCGAATG
GCCAGTGTGATG
Found at i:23210802 original size:40 final size:40
Alignment explanation
Indices: 23210740--23210940 Score: 260
Period size: 40 Copynumber: 5.0 Consensus size: 40
23210730 AGGTCTCGAC
23210740 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
23210779 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
23210819 GATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
23210859 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
23210899 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
23210939 GA
1 GA
23210941 CGTGTATTCG
Statistics
Matches: 143, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 4 0.03
40 139 0.97
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:23217397 original size:34 final size:34
Alignment explanation
Indices: 23217354--23217419 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
23217344 AATAAGATGT
23217354 CTTGAGATAATAGGGTTCATGCCACACGACCTAA
1 CTTGAGATAATAGGGTTCATGCCACACGACCTAA
*
23217388 CTTGAGATAATGGGGTTCATGCCACACGACCT
1 CTTGAGATAATAGGGTTCATGCCACACGACCT
23217420 GACTCCTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (34 bp):
CTTGAGATAATAGGGTTCATGCCACACGACCTAA
Found at i:23219243 original size:43 final size:43
Alignment explanation
Indices: 23219189--23219311 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 43
23219179 ATAATAGGAT
* * *
23219189 CATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGA
1 CATCGATATGTGATTACATGTAAGACCATGTCTAGGACAGTGA
* * *
23219232 CATCGTTATGTGATTTCATGTAAGACCCTGTCTAGGACAGTGA
1 CATCGATATGTGATTACATGTAAGACCATGTCTAGGACAGTGA
* * *
23219275 CATCGATATATGATTACATGTAAGACGATATCTAGGA
1 CATCGATATGTGATTACATGTAAGACCATGTCTAGGA
23219312 TATGGCATTG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (43 bp):
CATCGATATGTGATTACATGTAAGACCATGTCTAGGACAGTGA
Found at i:23222946 original size:37 final size:37
Alignment explanation
Indices: 23222896--23222974 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23222886 TTATTACGAA
* * *
23222896 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23222933 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23222970 GTCTT
1 GTCTT
23222975 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23224099 original size:61 final size:61
Alignment explanation
Indices: 23224024--23224145 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
23224014 TAATCACTTA
*
23224024 AAACTTACCTCGGATGTTATCGAATTATCACGAATCGACTATTCAGCTAC-TTCCTCTTTCC
1 AAACTTACCTCGGATGTTATCGAATTATCACGAATCGACTATTAAGCTACATT-CTCTTTCC
23224085 AAACTTACCTCGGATGTTATCGAATTATCACGAATCGACTATTAAGCTACATTCTCTTTCC
1 AAACTTACCTCGGATGTTATCGAATTATCACGAATCGACTATTAAGCTACATTCTCTTTCC
23224146 CTTATCCGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (61 bp):
AAACTTACCTCGGATGTTATCGAATTATCACGAATCGACTATTAAGCTACATTCTCTTTCC
Found at i:23231711 original size:43 final size:43
Alignment explanation
Indices: 23231599--23231712 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
23231589 ATCAAGATGT
* *
23231599 GATTACATGTAAGACCATGTCTGGGAAATTGGCATTGTATTAA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGCATTAA
*
23231642 GATTACGTGTAAGACCATGTCTGGGACATTGGCA-T-CATTAA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGCATTAA
*
23231683 TCGATTTAC-TGTAAGACCCTGTCTGGGACA
1 --GA-TTACATGTAAGACCATGTCTGGGACA
23231713 GTGGTACCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 5 0.08
42 1 0.02
43 54 0.84
44 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGCATTAA
Found at i:23231739 original size:43 final size:42
Alignment explanation
Indices: 23231643--23231745 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
23231633 TTGTATTAAG
* * *
23231643 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCATTAATCGA
1 ATTAC-TGTAAGACCATGTCTGGGACAGTGGCACCAATAATC-A
* * *
23231687 TTTACTGTAAGACCCTGTCTGGGACAGTGGTACCAATATAT-A
1 ATTACTGTAAGACCATGTCTGGGACAGTGGCACCAATA-ATCA
23231729 ATTACATGTAAGACCAT
1 ATTAC-TGTAAGACCAT
23231746 ATCTAGGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
42 5 0.10
43 38 0.78
44 6 0.12
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (42 bp):
ATTACTGTAAGACCATGTCTGGGACAGTGGCACCAATAATCA
Found at i:23233099 original size:23 final size:24
Alignment explanation
Indices: 23233033--23233162 Score: 210
Period size: 24 Copynumber: 5.4 Consensus size: 24
23233023 CTAGAGGCCT
23233033 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
23233057 AGCCCTTTTTATATAACTGGGGCATA
1 AGCCC-TTTTA-ATAACTGGGGCATA
23233083 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
23233106 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
23233130 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
23233154 AGCCATTTT
1 AGCCCTTTT
23233163 GCACTTTCTC
Statistics
Matches: 101, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
23 20 0.20
24 63 0.62
25 12 0.12
26 6 0.06
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:23233234 original size:9 final size:9
Alignment explanation
Indices: 23233220--23233276 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
23233210 ATCTCATGTG
23233220 CATATCATA
1 CATATCATA
*
23233229 CATATCATGGG
1 CATATCAT--A
23233240 CATATCATA
1 CATATCATA
* *
23233249 CATGTCATGTG
1 CATATCA--TA
23233260 CATATCATA
1 CATATCATA
23233269 CATATCAT
1 CATATCAT
23233277 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (9 bp):
CATATCATA
Found at i:23233236 original size:20 final size:20
Alignment explanation
Indices: 23233208--23233278 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
23233198 GCATTTATGA
*
23233208 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
23233228 ACATATCATGGGCATATCAT
1 ACATATCATGTGCATATCAT
*
23233248 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
23233268 ACATATCATGT
1 ACATATCATGT
23233279 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:23233347 original size:25 final size:25
Alignment explanation
Indices: 23233315--23233362 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23233305 ATATATAAAC
* *
23233315 CCTAGGGGCATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
23233340 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
23233363 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:23240224 original size:53 final size:53
Alignment explanation
Indices: 23240165--23240270 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
23240155 TGTAACACCT
*
23240165 CAAACCCAACCCAGATGTTACGGCCAAATCTGACGTGCCACATTGGAGTTGAA
1 CAAACCCAACCCAGACGTTACGGCCAAATCTGACGTGCCACATTGGAGTTGAA
* * * *
23240218 CAAACCCAGCCCAGACGTTATGGCCGAATCTGACGTGCCATATTGGAGTTGAA
1 CAAACCCAACCCAGACGTTACGGCCAAATCTGACGTGCCACATTGGAGTTGAA
23240271 AACCCACGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (53 bp):
CAAACCCAACCCAGACGTTACGGCCAAATCTGACGTGCCACATTGGAGTTGAA
Found at i:23240954 original size:31 final size:31
Alignment explanation
Indices: 23240916--23240976 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
23240906 CCCTTTTCAT
23240916 ATTTCATAATTCATAACACTGGGCCGAAGCC
1 ATTTCATAATTCATAACACTGGGCCGAAGCC
* **
23240947 ATTTCATATTTCATATTACTGGGCCGAAGC
1 ATTTCATAATTCATAACACTGGGCCGAAGC
23240977 TTTTACTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (31 bp):
ATTTCATAATTCATAACACTGGGCCGAAGCC
Found at i:23241250 original size:23 final size:24
Alignment explanation
Indices: 23241185--23241290 Score: 171
Period size: 24 Copynumber: 4.4 Consensus size: 24
23241175 CTAGAGGCCT
23241185 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
23241209 AGCCCTTTTTAAATAACTGGGGCATA
1 AGCCC-TTTT-AATAACTGGGGCATA
23241235 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
23241258 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
23241282 AGCCCTTTT
1 AGCCCTTTT
23241291 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
23 21 0.27
24 38 0.49
25 13 0.17
26 6 0.08
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:23241288 original size:47 final size:48
Alignment explanation
Indices: 23241192--23241289 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 48
23241182 CCTAGCCTCT
23241192 TTTAATAACTGGGGCAAAGCCCTTTTTAAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCCTTTTTAAATAACTGGGGCATAAGCCC
23241240 TTTAATAACTGGGGCATAAGCCC-TTTT-AATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAAATAACTGGGGCATAAGCCC
23241287 TTT
1 TTT
23241290 TGCACTTCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 23 0.47
48 20 0.41
49 6 0.12
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (48 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAAATAACTGGGGCATAAGCCC
Found at i:23241435 original size:25 final size:25
Alignment explanation
Indices: 23241403--23241450 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23241393 ATATATAAAC
* *
23241403 CCTAGGGGCATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
23241428 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
23241451 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:23247373 original size:40 final size:40
Alignment explanation
Indices: 23247343--23247552 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
23247333 GGACTAAGAT
* * * *
23247343 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23247383 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23247423 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
23247463 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
23247503 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
23247542 CCGAAGGCATT
1 CCGAAGGCATT
23247553 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:23247427 original size:80 final size:80
Alignment explanation
Indices: 23247290--23247552 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
23247280 TTGAATGCTG
* * * * * **
23247290 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
23247353 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
23247370 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
23247435 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
23247450 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
23247514 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
23247529 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
23247553 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:23247504 original size:120 final size:120
Alignment explanation
Indices: 23247290--23247552 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
23247280 TTGAATGCTG
* * *
23247290 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
23247354 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
23247410 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
23247473 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
23247529 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
23247553 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:23247572 original size:79 final size:80
Alignment explanation
Indices: 23247343--23247587 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
23247333 GGACTAAGAT
* * * * * ** * *
23247343 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
23247407 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
23247423 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
23247488 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
23247503 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
23247567 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
23247581 CCGAAGG
1 CCGAAGG
23247588 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:23255322 original size:40 final size:40
Alignment explanation
Indices: 23255278--23255501 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
23255268 AAGTGAATAT
* * * * **
23255278 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
23255318 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
23255358 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
23255398 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
23255438 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
23255477 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
23255502 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:23255376 original size:80 final size:80
Alignment explanation
Indices: 23255239--23255501 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
23255229 TTGAATGCTG
* * * * *
23255239 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
23255301 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
23255319 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
23255384 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
23255399 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
23255463 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
23255478 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
23255502 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:23255453 original size:120 final size:120
Alignment explanation
Indices: 23255239--23255501 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
23255229 TTGAATGCTG
* * *
23255239 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
23255303 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
23255359 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
23255421 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
23255478 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
23255502 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:23261927 original size:33 final size:31
Alignment explanation
Indices: 23261884--23262051 Score: 124
Period size: 31 Copynumber: 5.4 Consensus size: 31
23261874 TCTATTTTGA
* *
23261884 GTTTATTGTCCCAATGAACTATCTCTGTCCTAT
1 GTTTACTGTCCCAATGGACTATCTCT-T-CTAT
* * * *
23261917 GCTTACTGTCCTAGTGGACTATCTCTACTAT
1 GTTTACTGTCCCAATGGACTATCTCTTCTAT
* *
23261948 TTTTACTGTCTCAATGGACTATCTCTTCTAT
1 GTTTACTGTCCCAATGGACTATCTCTTCTAT
* * * *
23261979 GTTTACTAT-CCAA-GCAGATTATATTTTCTAT
1 GTTTACTGTCCCAATG--GACTATCTCTTCTAT
* ** * * *
23262010 GTTTACTATCTTAGTTGACTATCTCTTCTGT
1 GTTTACTGTCCCAATGGACTATCTCTTCTAT
23262041 GTTTACTGTCC
1 GTTTACTGTCC
23262052 TAGAGAATTA
Statistics
Matches: 103, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
29 1 0.01
30 3 0.03
31 77 0.75
32 1 0.01
33 21 0.20
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (31 bp):
GTTTACTGTCCCAATGGACTATCTCTTCTAT
Found at i:23261957 original size:31 final size:31
Alignment explanation
Indices: 23261901--23262054 Score: 139
Period size: 31 Copynumber: 4.9 Consensus size: 31
23261891 GTCCCAATGA
*
23261901 ACTATCTCTGTCCTATGCTTACTGTCCTAGTGG
1 ACTATCTCT-T-CTATGTTTACTGTCCTAGTGG
* * *
23261934 ACTATCTCTACTATTTTTACTGT-CTCAATGG
1 ACTATCTCTTCTATGTTTACTGTCCT-AGTGG
* * **
23261965 ACTATCTCTTCTATGTTTACTATCCAAGCAG
1 ACTATCTCTTCTATGTTTACTGTCCTAGTGG
* * * * * *
23261996 ATTATATTTTCTATGTTTACTATCTTAGTTG
1 ACTATCTCTTCTATGTTTACTGTCCTAGTGG
*
23262027 ACTATCTCTTCTGTGTTTACTGTCCTAG
1 ACTATCTCTTCTATGTTTACTGTCCTAG
23262055 AGAATTATCT
Statistics
Matches: 95, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
30 2 0.02
31 83 0.87
32 1 0.01
33 9 0.09
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (31 bp):
ACTATCTCTTCTATGTTTACTGTCCTAGTGG
Found at i:23262064 original size:31 final size:31
Alignment explanation
Indices: 23261967--23262064 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 31
23261957 CTCAATGGAC
*
23261967 TATCTCTTCTATGTTTACTATCCAAGCAGAT
1 TATCTCTTCTATGTTTACTATCCTAGCAGAT
* * * ** *
23261998 TATATTTTCTATGTTTACTATCTTAGTTGAC
1 TATCTCTTCTATGTTTACTATCCTAGCAGAT
* *
23262029 TATCTCTTCTGTGTTTACTGTCCTAG-AGAAT
1 TATCTCTTCTATGTTTACTATCCTAGCAG-AT
23262060 TATCT
1 TATCT
23262065 TTGTGGATGC
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 1 0.02
31 51 0.98
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.48
Consensus pattern (31 bp):
TATCTCTTCTATGTTTACTATCCTAGCAGAT
Found at i:23268833 original size:48 final size:48
Alignment explanation
Indices: 23268781--23268994 Score: 198
Period size: 49 Copynumber: 4.4 Consensus size: 48
23268771 CCCTGATATT
* * *
23268781 GTCTTATACGGGATCACATATTGGTGCCGATGCCATGTCCCAGACATG
1 GTCTTACACGGGATCTCATATTGATGCCGATGCCATGTCCCAGACATG
** ** ** *** *
23268829 GTCTTACACTAG-TAAACATATCAACATCAATGCCATGTCCCAGACATG
1 GTCTTACACGGGAT-CTCATATTGATGCCGATGCCATGTCCCAGACATG
** * * *
23268877 GTCTTACACTAGTTCTCAT-TTCGGATGCTGATGCCATGTCCCGGACATG
1 GTCTTACACGGGATCTCATATT--GATGCCGATGCCATGTCCCAGACATG
* *
23268926 GTCTTACACGGGATCTCATCTTGAATGCCGATGCCATGTCCCCGACATG
1 GTCTTACACGGGATCTCATATTG-ATGCCGATGCCATGTCCCAGACATG
23268975 GTCTTACACGGGATCTCATA
1 GTCTTACACGGGATCTCATA
23268995 AACCATGGTG
Statistics
Matches: 133, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.02
48 51 0.38
49 78 0.59
50 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
GTCTTACACGGGATCTCATATTGATGCCGATGCCATGTCCCAGACATG
Found at i:23270109 original size:17 final size:18
Alignment explanation
Indices: 23270087--23270120 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23270077 CTCAACTTTT
23270087 GTCCTTTTTA-CAAATTA
1 GTCCTTTTTACCAAATTA
23270104 GTCCTTTTTACCAAATT
1 GTCCTTTTTACCAAATT
23270121 GACTGTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (18 bp):
GTCCTTTTTACCAAATTA
Found at i:23276049 original size:27 final size:27
Alignment explanation
Indices: 23276019--23276196 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23276009 ATATTGAGTC
* * * *
23276019 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23276046 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23276073 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23276101 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23276128 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23276155 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23276182 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23276197 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23276158 original size:82 final size:81
Alignment explanation
Indices: 23276040--23276195 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23276030 TGCTATATAA
* *
23276040 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23276105 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23276122 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23276186 CACTTAGTGC
65 CACTTAGTGC
23276196 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23284113 original size:27 final size:27
Alignment explanation
Indices: 23284083--23284260 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23284073 ATATTGAGCC
* * * *
23284083 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23284110 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23284137 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23284165 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23284192 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23284219 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23284246 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23284261 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23284222 original size:82 final size:81
Alignment explanation
Indices: 23284104--23284259 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23284094 TGCTATATAA
* *
23284104 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23284169 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23284186 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23284250 CACTTAGTGC
65 CACTTAGTGC
23284260 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23289603 original size:48 final size:48
Alignment explanation
Indices: 23289512--23289630 Score: 121
Period size: 48 Copynumber: 2.5 Consensus size: 48
23289502 TGCATATCGT
* *
23289512 GCCATATCCCAGATATGGTCTTATACGAAATCACTTAACGATACTGAA
1 GCCATATCCCAGATATGGTCTTATACGAAATCACATAACGATACCGAA
** * ** ** *
23289560 GCCATATCCTTGATATGGTCTTATATGGGATCACATATTGATACCGAT
1 GCCATATCCCAGATATGGTCTTATACGAAATCACATAACGATACCGAA
* * *
23289608 GCCATGTCCCAAACATGGTCTTA
1 GCCATATCCCAGATATGGTCTTA
23289631 CACTAGCACA
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTATACGAAATCACATAACGATACCGAA
Found at i:23289729 original size:49 final size:48
Alignment explanation
Indices: 23289651--23289789 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 48
23289641 CATATCAACA
* * * * *
23289651 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATCTCGGATG
1 CCGATGCCATGTCTC-GACATGGTCTTACACGGGATCTCATCTCGGATG
* *
23289700 CCGATGCCATGTCTCGGACATGTTTTTACACGGGATCTCATCTCGGATG
1 CCGATGCCATGTCTC-GACATGGTCTTACACGGGATCTCATCTCGGATG
*
23289749 TCGATGCCATGTCCTCGACATGGTCTTACACGGGATCTCAT
1 CCGATGCCATGT-CTCGACATGGTCTTACACGGGATCTCAT
23289790 TAATCATGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 75 0.96
50 3 0.04
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCTCGACATGGTCTTACACGGGATCTCATCTCGGATG
Found at i:23292435 original size:45 final size:45
Alignment explanation
Indices: 23292371--23292539 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 45
23292361 CTAGGAATTT
*
23292371 AGAAATCTGAGCTCGTTGAGTTGGTCCGAGTTCGTGATATATGTG
1 AGAAATCTGAGCTCGTTGAGTTGGTCCGAGTTCATGATATATGTG
* * *
23292416 AGAAATCTGAACTTGTTGAGTTGGTCCAAGTTCATGATATATGTG
1 AGAAATCTGAGCTCGTTGAGTTGGTCCGAGTTCATGATATATGTG
* * * * ** *
23292461 A-AGCATCCGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGCG
1 AGA-AATCTGAGCTCGTTGAGTTGGTCCGAGTTCATGATATATGTG
* * *
23292506 AG-CATCCGAGCTCGTTGAGTTGGTCCAAGTTCAT
1 AGAAATCTGAGCTCGTTGAGTTGGTCCGAGTTCAT
23292540 TATGGATGTA
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
44 31 0.29
45 75 0.71
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (45 bp):
AGAAATCTGAGCTCGTTGAGTTGGTCCGAGTTCATGATATATGTG
Found at i:23297675 original size:47 final size:47
Alignment explanation
Indices: 23297617--23298061 Score: 764
Period size: 47 Copynumber: 9.5 Consensus size: 47
23297607 ATTCAGCCAA
* *
23297617 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
23297664 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
23297711 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
23297758 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
23297805 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
23297852 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
23297899 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
23297946 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * * *
23297993 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* **
23298040 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATGTGTGATAAG
23298062 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 383 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:23298236 original size:37 final size:37
Alignment explanation
Indices: 23298180--23298295 Score: 180
Period size: 37 Copynumber: 3.1 Consensus size: 37
23298170 CCGAGCTCTA
* * *
23298180 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTTCGTGTGGAG-ATTATGTCCGGGT
*
23298217 AAGACCCAATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
23298254 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
23298291 AAGAC
1 AAGAC
23298296 TTCGTAATAA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
37 72 0.99
38 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
Found at i:23301657 original size:24 final size:23
Alignment explanation
Indices: 23301624--23301681 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
23301614 AGTTGAAAAG
23301624 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
23301648 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
23301670 TATATATAATAA
1 TATA-ATAATAA
23301682 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:23302036 original size:49 final size:49
Alignment explanation
Indices: 23301952--23302109 Score: 266
Period size: 49 Copynumber: 3.2 Consensus size: 49
23301942 CTTACTTTGA
* *
23301952 GAATGTGAAAGTG--TATACATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
23301999 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
23302048 GAATGTGATAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
23302097 GAATGTGATAAGT
1 GAATGTGA-AAGT
23302110 CCCGAAGGGC
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
47 13 0.12
49 88 0.85
50 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:23302283 original size:37 final size:37
Alignment explanation
Indices: 23302227--23302305 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
23302217 CCGAGCTCTA
* * *
23302227 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
23302264 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23302301 AAGAC
1 AAGAC
23302306 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23318563 original size:34 final size:34
Alignment explanation
Indices: 23318520--23318587 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
23318510 AAGAAAACAT
*
23318520 AGCCCTCAATTTAGACATTGCCTTTCTGATGAAG
1 AGCCCTCAATTTAAACATTGCCTTTCTGATGAAG
23318554 AGCCCTCAATTTAAACATTGCCTTTCTGATGAAG
1 AGCCCTCAATTTAAACATTGCCTTTCTGATGAAG
23318588 GCATCAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (34 bp):
AGCCCTCAATTTAAACATTGCCTTTCTGATGAAG
Found at i:23322567 original size:48 final size:48
Alignment explanation
Indices: 23322502--23322738 Score: 312
Period size: 48 Copynumber: 4.9 Consensus size: 48
23322492 AGAGTCATAT
* * *
23322502 GAGCTAGTGTAAAACCATGTTTGGAACATGGCATCGACATTTATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTACATGA
* * * * *
23322550 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGT
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTACATGA
* *
23322598 GGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTACATGA
* * ** *
23322646 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAACATGT
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTACATGA
* *
23322694 GGGCTAGTGTAAGACCATGCTTGGAACATGGCATCGGCATCTTAC
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT-TTAC
23322739 CCTTTTTGTA
Statistics
Matches: 160, Mismatches: 28, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
48 158 0.99
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTACATGA
Found at i:23322671 original size:96 final size:96
Alignment explanation
Indices: 23322504--23322733 Score: 406
Period size: 96 Copynumber: 2.4 Consensus size: 96
23322494 AGTCATATGA
* *
23322504 GCTAGTGTAAAACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCATG
**
23322569 TCTGGGACATGGCATCGGCCTTGACATGTGG
66 TCTGGGACATGGCATCGGCCTCAACATGTGG
23322600 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCATG
*
23322665 TTTGGGACATGGCATCGGCCTCAACATGTGG
66 TCTGGGACATGGCATCGGCCTCAACATGTGG
*
23322696 GCTAGTGTAAGACCATGCTTGGAACATGGCATCGGCAT
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
23322734 CTTACCCTTT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 128 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATCGGCCTCAACATGTGG
Found at i:23334852 original size:23 final size:23
Alignment explanation
Indices: 23334826--23334871 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
23334816 ACTCAGTGTG
*
23334826 TAATCCCTTAACAATATTTAGTC
1 TAATCCCTTAACAATAGTTAGTC
23334849 TAATCCCTTAACAATAGTTAGTC
1 TAATCCCTTAACAATAGTTAGTC
23334872 AAACAGTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.37
Consensus pattern (23 bp):
TAATCCCTTAACAATAGTTAGTC
Found at i:23342464 original size:48 final size:48
Alignment explanation
Indices: 23342387--23342764 Score: 309
Period size: 48 Copynumber: 7.8 Consensus size: 48
23342377 AGGGTCATGT
* * *
23342387 GAGCCAGTGTAAAACCATGTTTGGAACATGGCATCAGCATTTATATGA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* * * * * * *
23342435 GAGCTAGTGTAAGACCCTGTTTGGGACATGGCATCGACCTTGACATGT
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* * *
23342483 G-GACTAGTATAAGACCATGTTTGGAACATGGCATCGACATTTACATGA
1 GAG-CTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* *
23342531 GAGCTAGTGTAAGACCATGTCTAGG-ACATGGCAACGGC-TTTGACCTAT--
1 GAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTT-A--TATGA
* * * * *
23342579 GTGCTAGTGTAAGACTATATTTGGAACATGGCATCGACATTTATATAA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* * * * ** * *
23342627 GAGCTACTGTAAGACCATATCTAGG-ACATGGCATCGGCCTCGACATGT
1 GAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTTATATGA
* * * * * *
23342675 GGGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGTATCGATATATAA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT--TTATATGA
* * *
23342725 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
23342765 CTTACCCTTT
Statistics
Matches: 260, Mismatches: 56, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
46 3 0.01
47 10 0.04
48 197 0.76
49 10 0.04
50 40 0.15
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
Found at i:23342546 original size:96 final size:95
Alignment explanation
Indices: 23342382--23342762 Score: 460
Period size: 96 Copynumber: 3.9 Consensus size: 95
23342372 ATACTAGGGT
* * *
23342382 CATGTGAGCCAGTGTAAAACCATGTTTGGAACATGGCATC-AGCATTTATATGAGAGCTAGTGTA
1 CATGTG-GCTAGTGTAAGACCATGTTTGGAACATGGCATCGA-CATTTATATAAGAGCTAGTGTA
* * * *
23342446 AGACCCTGTTTGGGACATGGCATCGACCTTGA
64 AGACCATGTCTAGGACATGGCATCGGCCTTGA
* * *
23342478 CATGTGGACTAGTATAAGACCATGTTTGGAACATGGCATCGACATTTACATGAGAGCTAGTGTAA
1 CATGTGG-CTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATAAGAGCTAGTGTAA
* *
23342543 GACCATGTCTAGGACATGGCAACGGCTTTGA
65 GACCATGTCTAGGACATGGCATCGGCCTTGA
* * *
23342574 CCTATGT-GCTAGTGTAAGACTATATTTGGAACATGGCATCGACATTTATATAAGAGCTACTGTA
1 -C-ATGTGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATAAGAGCTAGTGTA
* *
23342638 AGACCATATCTAGGACATGGCATCGGCCTCGA
64 AGACCATGTCTAGGACATGGCATCGGCCTTGA
* * ** * *
23342670 CATGTGGGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGTATCGATATATAAGAGCCAGTGT
1 CATGT-GGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAT--TTATATAAGAGCTAGTGT
*
23342735 AAGACCATGTCTGGGACATGGCATCGGC
63 AAGACCATGTCTAGGACATGGCATCGGC
23342763 ATCTTACCCT
Statistics
Matches: 246, Mismatches: 31, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
94 4 0.02
95 2 0.01
96 192 0.78
97 3 0.01
98 45 0.18
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (95 bp):
CATGTGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATAAGAGCTAGTGTAAG
ACCATGTCTAGGACATGGCATCGGCCTTGA
Found at i:23349040 original size:16 final size:16
Alignment explanation
Indices: 23349021--23349075 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
23349011 TAATAATATT
*
23349021 TAATATTAAATTAATA
1 TAATATTATATTAATA
* *
23349037 TAATATT-TATCAAGA
1 TAATATTATATTAATA
*
23349052 TAAATATTATATTAATG
1 T-AATATTATATTAATA
23349069 TAATATT
1 TAATATT
23349076 GAAGTGATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 6 0.19
16 19 0.61
17 6 0.19
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (16 bp):
TAATATTATATTAATA
Found at i:23350638 original size:19 final size:20
Alignment explanation
Indices: 23350588--23350644 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
23350578 TCACAATGCG
23350588 AATAGAGACACCGAAGTGAA
1 AATAGAGACACCGAAGTGAA
* *
23350608 AGTAGAGCCACCGAA-T-ACA
1 AATAGAGACACCGAAGTGA-A
* *
23350627 AATAGAGGCACCAAAGTG
1 AATAGAGACACCGAAGTG
23350645 CATCAGAGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 14 0.48
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.11
Consensus pattern (20 bp):
AATAGAGACACCGAAGTGAA
Found at i:23353859 original size:45 final size:46
Alignment explanation
Indices: 23353747--23353837 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
23353737 GGACCTTAGG
*
23353747 TTCTGAATTCCATAGCTATTTGATCCTTCTAACTACTAGAATTCAA
1 TTCTGAATTCCACAGCTATTTGATCCTTCTAACTACTAGAATTCAA
*
23353793 TTCTGAATTCCACAGCTATTTGATCCTTC-AACTACTAGAGTTCAA
1 TTCTGAATTCCACAGCTATTTGATCCTTCTAACTACTAGAATTCAA
23353838 CTTTTACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 15 0.35
46 28 0.65
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (46 bp):
TTCTGAATTCCACAGCTATTTGATCCTTCTAACTACTAGAATTCAA
Found at i:23355454 original size:130 final size:130
Alignment explanation
Indices: 23355221--23355477 Score: 487
Period size: 130 Copynumber: 2.0 Consensus size: 130
23355211 TCTCATTATG
* *
23355221 ATTCATTTCAAACCAATTAATAGACAACCATTCATACATTTTCCCAAAGTAATATCCAAACATTA
1 ATTCATTTCAAACCAATTAATAGACAACCATCCATACATTTTCCCAAAGTAATATACAAACATTA
23355286 TATCCAATAAATCATGATAATCTAATGCTTAACTTATAACCGAGCATATAACATTACGTATAATT
66 TATCCAATAAATCATGATAATCTAATGCTTAACTTATAACCGAGCATATAACATTACGTATAATT
23355351 ATTCATTTCAAACCAATTAATAGACAACCATCCATACATTTTCCCAAAGTAATATACAAACATTA
1 ATTCATTTCAAACCAATTAATAGACAACCATCCATACATTTTCCCAAAGTAATATACAAACATTA
*
23355416 TATCCAATGAATCATGATAATCTAATGCTTAACTTATAACCGAGCATATAACATTACGTATA
66 TATCCAATAAATCATGATAATCTAATGCTTAACTTATAACCGAGCATATAACATTACGTATA
23355478 TTTCATAAGC
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 124 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (130 bp):
ATTCATTTCAAACCAATTAATAGACAACCATCCATACATTTTCCCAAAGTAATATACAAACATTA
TATCCAATAAATCATGATAATCTAATGCTTAACTTATAACCGAGCATATAACATTACGTATAATT
Found at i:23374824 original size:43 final size:43
Alignment explanation
Indices: 23374770--23374938 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 43
23374760 ATATCGTACA
*
23374770 ATGCCAA-TGTCCTAGACGTGGTCTTACATGCAATCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATG-AATCACATATCG
* * *
23374813 ATGCC-ACTGTCCCAGACAGT-GTCTTACACGAATTAAATA-CG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACATGAATCACATATCG
* * *
23374854 ATGCCGA-TGTCCCAAACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATG-AATCACATATCG
* *
23374897 ATGCCAAC-GTCCCAGACGTGGTCTTACACGAGAACACATATC
1 ATGCCAACTGTCCCAGACGTGGTCTTACATGA-ATCACATATC
23374939 AAAAACCCTA
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
40 1 0.01
41 25 0.24
42 17 0.16
43 59 0.57
44 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACATGAATCACATATCG
Found at i:23374911 original size:84 final size:84
Alignment explanation
Indices: 23374770--23374927 Score: 239
Period size: 84 Copynumber: 1.9 Consensus size: 84
23374760 ATATCGTACA
* * *
23374770 ATGCCAATGTCCTAGACGTGGTCTTACATGCAATCACATATCGATGCCACTGTCCCAGACAGT-G
1 ATGCCAATGTCCCAAACATGGTCTTACATGCAATCACATATCGATGCCACTGTCCCAGAC-GTGG
23374834 TCTTACACGAATTAAATACG
65 TCTTACACGAATTAAATACG
* *
23374854 ATGCCGATGTCCCAAACATGGTCTTACATGTAATCACATATCGATGCCAAC-GTCCCAGACGTGG
1 ATGCCAATGTCCCAAACATGGTCTTACATGCAATCACATATCGATGCC-ACTGTCCCAGACGTGG
23374918 TCTTACACGA
65 TCTTACACGA
23374928 GAACACATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
83 2 0.03
84 63 0.94
85 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (84 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGCAATCACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACGAATTAAATACG
Found at i:23376078 original size:14 final size:15
Alignment explanation
Indices: 23376061--23376089 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23376051 TCACGAAAAT
23376061 TTCACACAT-ATAAA
1 TTCACACATAATAAA
23376075 TTCACACATAATAAA
1 TTCACACATAATAAA
23376090 CAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:23382889 original size:41 final size:41
Alignment explanation
Indices: 23382825--23382951 Score: 114
Period size: 41 Copynumber: 3.0 Consensus size: 41
23382815 TCTTACATAC
* *
23382825 AATCACATATTGATGCCACTGTCCTAGACAGGGTCTTACACG
1 AATCAAATATCGATGCCA-TGTCCTAGACAGGGTCTTACACG
* * * *
23382867 AATTAAATA-CGATGCCGATGTCCTAGACATGGTCTTCCACAT
1 AATCAAATATCGATGCC-ATGTCCTAGACAGGGTCTTACAC-G
* * *
23382909 AATCATATATCGATGCCAACGTCCCAGAC-GTGGTCTTACACG
1 AATCAAATATCGATGCC-ATGTCCTAGACAG-GGTCTTACACG
23382951 A
1 A
23382952 GAACACATAT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
41 26 0.39
42 16 0.24
43 25 0.37
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (41 bp):
AATCAAATATCGATGCCATGTCCTAGACAGGGTCTTACACG
Found at i:23382962 original size:43 final size:41
Alignment explanation
Indices: 23382828--23382962 Score: 105
Period size: 43 Copynumber: 3.2 Consensus size: 41
23382818 TACATACAAT
* *
23382828 CACATATTGATGCCACTGTCCTAGACAG-GGTCTTACACGAAT
1 CACATATCGATGCCAC-GTCCTAGAC-GTGGTCTTACACGAAA
* * * * *
23382870 TAAATA-CGATGCCGATGTCCTAGACATGGTCTTCCAC-ATAA
1 CACATATCGATGCC-ACGTCCTAGACGTGGTCTTACACGA-AA
* *
23382911 TCATATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAGAA
1 -CACATATCGATGCC-ACGTCCTAGACGTGGTCTTACACGA-AA
23382955 CACATATC
1 CACATATC
23382963 AGAAACCCTA
Statistics
Matches: 71, Mismatches: 16, Indels: 11
0.72 0.16 0.11
Matches are distributed among these distances:
40 1 0.01
41 25 0.35
42 9 0.13
43 33 0.46
44 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (41 bp):
CACATATCGATGCCACGTCCTAGACGTGGTCTTACACGAAA
Found at i:23384105 original size:14 final size:15
Alignment explanation
Indices: 23384088--23384116 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23384078 TCACGAAAAT
23384088 TTCACACA-AATAAA
1 TTCACACATAATAAA
23384102 TTCACACATAATAAA
1 TTCACACATAATAAA
23384117 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:23406099 original size:20 final size:20
Alignment explanation
Indices: 23406027--23406105 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 20
23406017 AATATTGTGG
*
23406027 ACAAGCCACCAATATTGCAA
1 ACAAGCCACCAGTATTGCAA
* *
23406047 AAAAGTCACCAGTATTGCAA
1 ACAAGCCACCAGTATTGCAA
* * * ***
23406067 ATAAGCTATCAGTATTGTGG
1 ACAAGCCACCAGTATTGCAA
*
23406087 ACAAGCCACCAGTAATGCA
1 ACAAGCCACCAGTATTGCA
23406106 TATAAACTGT
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (20 bp):
ACAAGCCACCAGTATTGCAA
Found at i:23406141 original size:59 final size:60
Alignment explanation
Indices: 23406014--23406162 Score: 160
Period size: 59 Copynumber: 2.5 Consensus size: 60
23406004 TCAATAACAC
* * * *
23406014 ATCAATATTGTGGACAAGCCACCAATATTGCAAAAAAGTCACCAGTATTGCAAATAAGCT
1 ATCAGTATTGTGGACAAGCCACCAGTAATGCAAAAAACTCACCAGTATTGCAAATAAGCT
* **
23406074 ATCAGTATTGTGGACAAGCCACCAGTAATGCATATAAACT-GTCAG-ATTGCAGAA-AAGCT
1 ATCAGTATTGTGGACAAGCCACCAGTAATGCA-AAAAACTCACCAGTATTGCA-AATAAGCT
* * * *
23406133 GTCAGTATTATGGACAAGCTAACAGTAATG
1 ATCAGTATTGTGGACAAGCCACCAGTAATG
23406163 TAGGTAAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
59 37 0.49
60 34 0.45
61 5 0.07
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (60 bp):
ATCAGTATTGTGGACAAGCCACCAGTAATGCAAAAAACTCACCAGTATTGCAAATAAGCT
Found at i:23406176 original size:59 final size:60
Alignment explanation
Indices: 23406060--23406209 Score: 160
Period size: 59 Copynumber: 2.5 Consensus size: 60
23406050 AGTCACCAGT
* * * *
23406060 ATTGCA-AATAAGCTATCAGTATTGTGGACAAGCCACCAGTAATGCATATAAACTGTC-AG
1 ATTGCAGAA-AAGCTGTCAGTATTATGGACAAGCCAACAGTAATGCAGATAAACTGTCAAG
* * * * *
23406119 ATTGCAGAAAAGCTGTCAGTATTATGGACAAGCTAACAGTAATGTAGGTAAATTGTCAAT
1 ATTGCAGAAAAGCTGTCAGTATTATGGACAAGCCAACAGTAATGCAGATAAACTGTCAAG
* * * *
23406179 ATTGCAGACAAGTTGCCAGTATTATTGACAA
1 ATTGCAGAAAAGCTGTCAGTATTATGGACAA
23406210 ATCGTAATGC
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
59 46 0.61
60 30 0.39
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (60 bp):
ATTGCAGAAAAGCTGTCAGTATTATGGACAAGCCAACAGTAATGCAGATAAACTGTCAAG
Found at i:23406379 original size:38 final size:38
Alignment explanation
Indices: 23406305--23406379 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
23406295 AGAACAATAC
* **
23406305 AGTAGGCATGGTTAAAACATGCAATCAATAGTAGAAAT
1 AGTAGGCATGATTAAAACATGCAATCAATAACAGAAAT
* **
23406343 AGTAGGCATGATTTAAACATGGGATCAATAACAGAAA
1 AGTAGGCATGATTAAAACATGCAATCAATAACAGAAA
23406380 CAATGGCATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (38 bp):
AGTAGGCATGATTAAAACATGCAATCAATAACAGAAAT
Found at i:23407992 original size:26 final size:26
Alignment explanation
Indices: 23407956--23408007 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23407946 AAGTATACAC
23407956 AATATCAAAGGTTAAACAAGAGCATA
1 AATATCAAAGGTTAAACAAGAGCATA
23407982 AATATCAAAGGTTAAACAAGAGCATA
1 AATATCAAAGGTTAAACAAGAGCATA
23408008 CTACAACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (26 bp):
AATATCAAAGGTTAAACAAGAGCATA
Found at i:23410783 original size:38 final size:38
Alignment explanation
Indices: 23410732--23410808 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
23410722 TCTCATACAC
23410732 ATGGTAGGATGCCAATACCATATCCCGGATTTGGTCTT
1 ATGGTAGGATGCCAATACCATATCCCGGATTTGGTCTT
* *
23410770 ATGGTAGGATGCCAATGCCATATCCTGGATTTGGTCTT
1 ATGGTAGGATGCCAATACCATATCCCGGATTTGGTCTT
23410808 A
1 A
23410809 CATGGGATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (38 bp):
ATGGTAGGATGCCAATACCATATCCCGGATTTGGTCTT
Found at i:23410853 original size:48 final size:48
Alignment explanation
Indices: 23410777--23411002 Score: 216
Period size: 48 Copynumber: 4.8 Consensus size: 48
23410767 CTTATGGTAG
* ** **
23410777 GATGCCAATGCCATATCCTGGATTTGGTCTTACATGGGATTACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTACATATC
* * * *** *
23410825 AATTCCAATGCCATGTCCCAGACATGGTCTT-CGTGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTACATATC
* * *
23410872 GATGCCAATGTCATGTCCTAGACATGGTCTTACATTGGATCT-CATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TACATATC
**
23410920 GATGCCAAT---A-G-CCCA-ACTATGGTCTTACATGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATTACATATC
*
23410963 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
23411003 CATACATAAC
Statistics
Matches: 140, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
42 3 0.02
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 39 0.28
48 62 0.44
49 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTACATATC
Found at i:23418678 original size:18 final size:18
Alignment explanation
Indices: 23418655--23418710 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
23418645 TCTTGTGTTC
23418655 TAATGGCTTTATTGATAT
1 TAATGGCTTTATTGATAT
23418673 TAATGGCTTTATTGATAT
1 TAATGGCTTTATTGATAT
*
23418691 TAATGACTTTATTGATAT
1 TAATGGCTTTATTGATAT
23418709 TA
1 TA
23418711 TATTGAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.50
Consensus pattern (18 bp):
TAATGGCTTTATTGATAT
Found at i:23419157 original size:18 final size:17
Alignment explanation
Indices: 23419115--23419166 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
23419105 GTATGCGTGT
23419115 ATATATAAT-TC-TGAA
1 ATATATAATATCTTGAA
* *
23419130 ATTTAAAATATCTTGTAA
1 ATATATAATATCTTG-AA
*
23419148 ATATATAATATCTTAAA
1 ATATATAATATCTTGAA
23419165 AT
1 AT
23419167 GATTATACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.24
16 2 0.07
17 6 0.21
18 14 0.48
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (17 bp):
ATATATAATATCTTGAA
Found at i:23424700 original size:46 final size:46
Alignment explanation
Indices: 23424650--23424825 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23424640 TGGTTGAGCA
23424650 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23424696 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23424741 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23424789 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23424826 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23424806 original size:93 final size:93
Alignment explanation
Indices: 23424647--23424818 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23424637 GGATGGTTGA
* *
23424647 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23424712 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23424740 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23424805 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
23424819 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23431394 original size:22 final size:23
Alignment explanation
Indices: 23431354--23431398 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
23431344 ATTAAGATTT
23431354 TAGTAAGTGATCTTCCGAGCCCCA
1 TAGTAAGTGA-CTTCCGAGCCCCA
23431378 TAGTAAGTGA-TTCCGAGCCCC
1 TAGTAAGTGACTTCCGAGCCCC
23431399 GTTTTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (23 bp):
TAGTAAGTGACTTCCGAGCCCCA
Found at i:23432257 original size:46 final size:46
Alignment explanation
Indices: 23432207--23432382 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23432197 TGGTTGAGCA
23432207 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23432253 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23432298 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23432346 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23432383 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23432363 original size:93 final size:93
Alignment explanation
Indices: 23432204--23432375 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23432194 GGATGGTTGA
* *
23432204 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23432269 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23432297 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23432362 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
23432376 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23434625 original size:26 final size:26
Alignment explanation
Indices: 23434590--23434645 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
23434580 ACTTATTGGT
*
23434590 TTATTTTTTTATTTTTAAAATATATA
1 TTATTGTTTTATTTTTAAAATATATA
*
23434616 TTATTGTTTTATTTTTAAAATATCTA
1 TTATTGTTTTATTTTTAAAATATATA
23434642 TTAT
1 TTAT
23434646 CTTGGCGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTATTGTTTTATTTTTAAAATATATA
Done.