Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 73 of 427
Found at i:18051575 original size:11 final size:11
Alignment explanation
Indices: 18051545--18051599 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
18051535 TATGATTACC
18051545 TCATGTGCATA
1 TCATGTGCATA
*
18051556 TCA--TACATA
1 TCATGTGCATA
18051565 TCATGTGCATA
1 TCATGTGCATA
* *
18051576 TCA--TACATT
1 TCATGTGCATA
18051585 TCATGTGCATA
1 TCATGTGCATA
18051596 TCAT
1 TCAT
18051600 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:18051679 original size:25 final size:25
Alignment explanation
Indices: 18051647--18051694 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18051637 ATACATAAAC
* * *
18051647 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18051672 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18051695 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18058156 original size:12 final size:12
Alignment explanation
Indices: 18058141--18058170 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
18058131 TGGACGAGGC
18058141 CGCGGACGTGGT
1 CGCGGACGTGGT
18058153 CGCGGACGTGGT
1 CGCGGACGTGGT
18058165 CGCGGA
1 CGCGGA
18058171 AGGTGCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.27, G:0.50, T:0.13
Consensus pattern (12 bp):
CGCGGACGTGGT
Found at i:18063364 original size:25 final size:25
Alignment explanation
Indices: 18063335--18063382 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18063325 CCTTATAATG
* * *
18063335 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18063360 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18063383 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18063463 original size:11 final size:11
Alignment explanation
Indices: 18063430--18063483 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
18063420 TATGGTATGT
18063430 ATGATATGCAC
1 ATGATATGCAC
*
18063441 ATGA-ATG--T
1 ATGATATGCAC
18063449 ATGATATGCAC
1 ATGATATGCAC
*
18063460 ATGATATG--T
1 ATGATATGCAC
18063469 ATGATATGCAC
1 ATGATATGCAC
18063480 ATGA
1 ATGA
18063484 GGTAATCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.12
9 11 0.32
10 3 0.09
11 16 0.47
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18063470 original size:20 final size:20
Alignment explanation
Indices: 18063425--18063483 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
18063415 ATAAATATGG
18063425 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
18063445 -ATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
18063464 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
18063484 GGTAATCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:18063561 original size:24 final size:24
Alignment explanation
Indices: 18063534--18063676 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
18063524 GAGGAAGTGA
18063534 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18063558 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18063582 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
18063605 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
18063629 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
18063653 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18063677 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:18063627 original size:47 final size:47
Alignment explanation
Indices: 18063534--18063676 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
18063524 GAGGAAGTGA
18063534 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
18063582 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
18063629 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
18063677 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:18063650 original size:71 final size:72
Alignment explanation
Indices: 18063534--18063677 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
18063524 GAGGAAGTGA
*
18063534 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
18063597 CCAGTTAT
65 CCAGTTAT
** * *
18063605 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
18063670 CAGTTAT
66 CAGTTAT
18063677 A
1 A
18063678 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:18063903 original size:31 final size:31
Alignment explanation
Indices: 18063868--18063931 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
18063858 CGTTTACAGT
18063868 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
18063899 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18063930 AA
1 AA
18063932 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18067955 original size:25 final size:25
Alignment explanation
Indices: 18067927--18067974 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18067917 TTATACCATG
* *
18067927 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18067952 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18067975 GTTTATGTAT
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:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18068043 original size:20 final size:20
Alignment explanation
Indices: 18068018--18068081 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
18068008 TAAATATGGT
*
18068018 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
18068038 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
18068058 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
18068078 ATGT
1 ATGT
18068082 TCATAAATGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:18068153 original size:24 final size:24
Alignment explanation
Indices: 18068126--18068270 Score: 195
Period size: 24 Copynumber: 6.0 Consensus size: 24
18068116 GGAGGAAGTG
18068126 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
18068150 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
18068174 CAAAAAGGGCTTATGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
18068199 -AAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
** *
18068222 TGAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
18068246 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
18068271 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
23 23 0.21
24 54 0.49
25 33 0.30
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:18068497 original size:31 final size:31
Alignment explanation
Indices: 18068462--18068525 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
18068452 CGTTTACAGT
18068462 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
18068493 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18068524 AA
1 AA
18068526 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18074239 original size:42 final size:43
Alignment explanation
Indices: 18074125--18074260 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 43
18074115 TATGTGTTAT
* *
18074125 CGTGTAAGACCACATCTGGGAC-GTTGGCATCG-ACTTATGATTTA
1 CGTGTAAGACCACGTCTAGGACAG-TGGCATCGTA-TT-TGATTTA
*
18074169 CGTGTAAGACCACGTCTAGGACATTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTAGGACAGTGGCATCGTATTTGATTTA
* * *
18074211 CGTGTAAGATCC-TGTCTGGGATAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGA-CCACGTCTAGGACAGTGGCATCG-TATTTGATTTA
*
18074254 CATGTAA
1 CGTGTAA
18074261 AACTACATCT
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
42 27 0.34
43 21 0.27
44 30 0.38
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACAGTGGCATCGTATTTGATTTA
Found at i:18074282 original size:43 final size:43
Alignment explanation
Indices: 18074125--18074283 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
18074115 TATGTGTTAT
*
18074125 CGTGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * * *
18074169 CGTGTAAGACCACGTCTAGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTA
** *
18074211 CGTGTAAGATCC-TGTCTGGGATAG-TGGCATCGATATTTGATTA
1 CGTGTAAGA-CCACATCTGGGA-CGTTGGCATCGATATTTGATTA
* * *
18074254 CATGTAAAACTACATCTGGGACGTTGGCAT
1 CGTGTAAGACCACATCTGGGACGTTGGCAT
18074284 TGTACAGGCT
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 29 0.31
43 35 0.38
44 29 0.31
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTA
Found at i:18075535 original size:21 final size:21
Alignment explanation
Indices: 18075509--18075633 Score: 162
Period size: 21 Copynumber: 6.0 Consensus size: 21
18075499 AACAAGGATC
18075509 AGCTCTTATGAGCTTCTGTTA
1 AGCTCTTATGAGCTTCTGTTA
*
18075530 AGCTCTTATGAGCTTCTATTA
1 AGCTCTTATGAGCTTCTGTTA
* *
18075551 AGCTCTTTTGAGCTTTTGTTCA
1 AGCTCTTATGAGCTTCTGTT-A
* *
18075573 A-CTCTTATGAGCTTCTTTTC
1 AGCTCTTATGAGCTTCTGTTA
* * *
18075593 AGCTCTTATAAGCTTTTGTTC
1 AGCTCTTATGAGCTTCTGTTA
18075614 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
18075634 GGCGTGTTTG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
20 1 0.01
21 86 0.97
22 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTA
Found at i:18076993 original size:30 final size:30
Alignment explanation
Indices: 18076959--18077032 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
18076949 CAGGCGTGTA
* * *
18076959 CCCAGCCTGTGTGGCTCACACGAGCATATG
1 CCCAGCCCGTGTGGCTCACACAAGCATATC
*
18076989 CCCAGCCCGTGTGGCTCACACAAGCGTATC
1 CCCAGCCCGTGTGGCTCACACAAGCATATC
18077019 CCCAGCCCGTGTGG
1 CCCAGCCCGTGTGG
18077033 AAATGTCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.18, C:0.38, G:0.27, T:0.18
Consensus pattern (30 bp):
CCCAGCCCGTGTGGCTCACACAAGCATATC
Found at i:18078024 original size:106 final size:105
Alignment explanation
Indices: 18077891--18078193 Score: 369
Period size: 106 Copynumber: 2.9 Consensus size: 105
18077881 CCGTGTGTCC
* * ***
18077891 CTTGTAGGTCCAAGGCATACCAGTCAGGCAGTTACATGGCCTAGCACACGGCCTGGCACATGGGC
1 CTTGTAGGTTCAAGGCATACCAGTCAGGCAGTTACACGGCCTAGCACACGG-CTGGCACACAAGC
* * * * *
18077956 ATGTGAGGCCATTTCGAGGGTGACA-TGACTTG-GCACATGGG
65 GTGTAAGGCCATTTCGAGGGTGACACAGACTAGTACACA--GG
* * * * *
18077997 CTTGTAGGTTCAAGGCATACCAATCAGGCAGTTACACGGCCTAGCAAAAGGCTTGGTACACAAAC
1 CTTGTAGGTTCAAGGCATACCAGTCAGGCAGTTACACGGCCTAGCACACGGC-TGGCACACAAGC
* *
18078062 GTGTAAGGCCATTTTGAGGTTGACACAGACTAGTACACAGG
65 GTGTAAGGCCATTTCGAGGGTGACACAGACTAGTACACAGG
*
18078103 CCTGTAGGTTCAAGGCATACCAGTCAGGCAGTTACACGGCCTAGCACACAGG-TAGGCACACAAG
1 CTTGTAGGTTCAAGGCATACCAGTCAGGCAGTTACACGGCCTAGCACAC-GGCT-GGCACACAAG
18078167 CGTGTAAGGCCATTTCGAGGGTGACAC
64 CGTGTAAGGCCATTTCGAGGGTGACAC
18078194 GGCCTGGCAC
Statistics
Matches: 167, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
105 2 0.01
106 154 0.92
107 7 0.04
108 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (105 bp):
CTTGTAGGTTCAAGGCATACCAGTCAGGCAGTTACACGGCCTAGCACACGGCTGGCACACAAGCG
TGTAAGGCCATTTCGAGGGTGACACAGACTAGTACACAGG
Found at i:18078388 original size:20 final size:20
Alignment explanation
Indices: 18078351--18078388 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18078341 CCTACAGACC
* *
18078351 AAAATTTTCAACTTTTTCCT
1 AAAATTTTCAAATATTTCCT
18078371 AAAATTTTCAAATATTTC
1 AAAATTTTCAAATATTTC
18078389 TGATTTAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATTTTCAAATATTTCCT
Found at i:18081338 original size:143 final size:143
Alignment explanation
Indices: 18081171--18081440 Score: 459
Period size: 143 Copynumber: 1.9 Consensus size: 143
18081161 ACAAACTCTA
*
18081171 TATGTGTCTTTAGGTGAAATAGAAGGTTTAACAGATAATGAGCAAGATGATGCATTGATCAAAAT
1 TATGTGTCTTTAGGTGAAATAGAAGGTTTAACAGATAATAAGCAAGATGATGCATTGATCAAAAT
* * * *
18081236 TCCTAATCATCCAACGCAAATGCTCATTTTTCTAAGTGTACCACCTTCTATGTGGTTAGCATAAA
66 TCCTAATCATCCAACGCAAATGCTCATTTTCCTAAGTCTACCACCTTCTAAGTGATTAGCATAAA
18081301 GGTAAAAAACCTC
131 GGTAAAAAACCTC
**
18081314 TATGTGTCTTTAGGTGAAATAGAAGGTTTAACAGATAATAAGTGAGATGATGCATTGATCAAAAT
1 TATGTGTCTTTAGGTGAAATAGAAGGTTTAACAGATAATAAGCAAGATGATGCATTGATCAAAAT
* *
18081379 TCCTAATCATCCAATGCAAATGCTCATTTTCCTGAGTCTACCACCTTCTAAGTGATTAGCAT
66 TCCTAATCATCCAACGCAAATGCTCATTTTCCTAAGTCTACCACCTTCTAAGTGATTAGCAT
18081441 GGGTGAAAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 118 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (143 bp):
TATGTGTCTTTAGGTGAAATAGAAGGTTTAACAGATAATAAGCAAGATGATGCATTGATCAAAAT
TCCTAATCATCCAACGCAAATGCTCATTTTCCTAAGTCTACCACCTTCTAAGTGATTAGCATAAA
GGTAAAAAACCTC
Found at i:18081596 original size:69 final size:68
Alignment explanation
Indices: 18081520--18081726 Score: 245
Period size: 69 Copynumber: 3.0 Consensus size: 68
18081510 TCATAGAGGG
* * *
18081520 TTGTCACTTTTTGCATGTGTAAATTGGTATGGTGGTGAACTAATATAGTTTTTTGTATGTAATTG
1 TTGTCACTTTTTGTATGTGTAAATTGGTGTGGTGGTG-ACTAATATAATTTTTTGTATGTAATTG
18081585 TAGA
65 TAGA
* * * * *
18081589 TTGTCACTTTTTGTATATGTAAATGGGTGTGGTGGTCGACTAATATCACTTTTTGTACGTAATTG
1 TTGTCACTTTTTGTATGTGTAAATTGGTGTGGTGGT-GACTAATATAATTTTTTGTATGTAATTG
*
18081654 TAGG
65 TAGA
* * * *
18081658 TTGTTACTTTTCGTATGTGT-AATTGGGTGTGGTGATGGAGTAATATAATTTTTTTGTATGTAAT
1 TTGTCACTTTTTGTATGTGTAAATT-GGTGTGGTGGT-GACTAATATAA-TTTTTTGTATGTAAT
18081722 TGTAG
63 TGTAG
18081727 GATGATATAA
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
68 3 0.03
69 94 0.81
70 19 0.16
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (68 bp):
TTGTCACTTTTTGTATGTGTAAATTGGTGTGGTGGTGACTAATATAATTTTTTGTATGTAATTGT
AGA
Found at i:18093116 original size:27 final size:27
Alignment explanation
Indices: 18092776--18093115 Score: 459
Period size: 27 Copynumber: 12.6 Consensus size: 27
18092766 AAAGTACTCC
18092776 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
18092803 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
18092830 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
18092857 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
18092884 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
18092911 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
18092938 CAATTTACATAATTATCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
18092965 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
18092992 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18093019 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
18093046 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
18093073 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
18093100 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
18093116 TAAAATACCC
Statistics
Matches: 279, Mismatches: 30, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 275 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:18093153 original size:81 final size:80
Alignment explanation
Indices: 18092824--18093159 Score: 235
Period size: 81 Copynumber: 4.2 Consensus size: 80
18092814 ATTACCGTTT
** * * ****
18092824 TACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGA-T
* * ***
18092888 TTACAGAATTACTATTT
65 TTATAAAATTAC-AGAA
* * * * **** *
18092905 TACCCTCGATTTACAGAATTACCGTTTTACCCCCAATTTACATAATTATCGTTTTACCCCCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* * **
18092970 TACATAATTATC-GTTT
66 TATAAAATTA-CAG-AA
* ***
18092986 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* * **
18093051 TATAGAATTACTGTT
66 TATAAAATTACAGAA
* * * * *
18093066 TCACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGT
1 T-ACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGAT
*
18093131 TTGTAAAATTACAGAAA
65 TTATAAAATTACAG-AA
*
18093148 TACCCTCAATTT
1 TACCCTCGATTT
18093160 GTAAAATTAC
Statistics
Matches: 215, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.02
81 208 0.97
82 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (80 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAAAATTACAGAA
Found at i:18093160 original size:27 final size:27
Alignment explanation
Indices: 18093094--18093180 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
18093084 ATTACTGTTT
**
18093094 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
18093121 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTA-AAA
* *
18093148 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
*
18093175 CACCCT
1 TACCCT
18093181 TGTAGGATGA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:18094522 original size:20 final size:20
Alignment explanation
Indices: 18094497--18094559 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
18094487 ATTTTGATAA
18094497 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18094517 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
18094537 ACATGATATATGTGATATGC
1 ACATGATATGTATGATATGC
18094557 ACA
1 ACA
18094560 CGAGATGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18094670 original size:24 final size:24
Alignment explanation
Indices: 18094614--18094803 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
18094604 GAGGAAGTGA
18094614 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18094637 TAAAGGGCTTATGCCTCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18094661 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18094685 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18094708 TAAAGGGCTTATGTCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18094732 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18094756 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
18094780 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18094804 ATGATAAAGC
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
23 41 0.28
24 96 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:18094683 original size:47 final size:47
Alignment explanation
Indices: 18094614--18094804 Score: 260
Period size: 47 Copynumber: 4.0 Consensus size: 47
18094604 GAGGAAGTGA
* *
18094614 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCTCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
18094660 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* *
18094708 TAAAGGGCTTATGTCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
18094755 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-CCAGTTAT
18094804 A
1 A
18094805 TGATAAAGCA
Statistics
Matches: 129, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
47 67 0.52
48 51 0.40
49 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:18094730 original size:71 final size:71
Alignment explanation
Indices: 18094613--18094782 Score: 297
Period size: 71 Copynumber: 2.4 Consensus size: 71
18094603 GGAGGAAGTG
18094613 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCTCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCTCAGTTATCAAAAGGGCTTATGCCCC
18094678 AGTTAT
66 AGTTAT
* *
18094684 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGTCC-CAGTTATCAAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCTCAGTTATCAAAAGGGCTTATGCCC
18094748 CAGTTAT
65 CAGTTAT
*
18094755 AAAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAAGGGCTTATGCCCCAGTTATTAAA
18094783 AGAGGCTAGG
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
71 91 0.98
72 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCTCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:18095032 original size:31 final size:31
Alignment explanation
Indices: 18094997--18095060 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18094987 CGTTTACCGT
*
18094997 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
18095028 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18095059 AA
1 AA
18095061 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18096326 original size:21 final size:21
Alignment explanation
Indices: 18096293--18096338 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
18096283 ATACTAGTGG
18096293 TGTTACTAAAATGAAATATAA
1 TGTTACTAAAATGAAATATAA
* * *
18096314 TGTTATTATAATGGAATATAA
1 TGTTACTAAAATGAAATATAA
18096335 TGTT
1 TGTT
18096339 GGATATTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (21 bp):
TGTTACTAAAATGAAATATAA
Found at i:18098896 original size:40 final size:40
Alignment explanation
Indices: 18098789--18098943 Score: 131
Period size: 40 Copynumber: 3.9 Consensus size: 40
18098779 TTAGTGTATC
18098789 GAGATAGCTTC-AGCTAT-ATAAAGCACTTAGTGTGCGA-AT
1 GAGATAGCTTCGA-CTATGA-AAAGCACTTAGTGTGCGAGAT
* * * * *
18098828 CAGAATAGCTTCGGCTA-CATATGACACTTAGTGTGCGAGAT
1 GAG-ATAGCTTCGACTATGAAAAG-CACTTAGTGTGCGAGAT
*
18098869 GAGATAGCTTCGACTATGAAAAGCACTTAGTGT-CTGGGACT
1 GAGATAGCTTCGACTATGAAAAGCACTTAGTGTGC-GAGA-T
* * * *
18098910 GTGACAGCTTCGACTATGAAAGGCACTAAGTGTG
1 GAGATAGCTTCGACTATGAAAAGCACTTAGTGTG
18098944 AGGGATTACA
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
39 5 0.05
40 51 0.55
41 37 0.40
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (40 bp):
GAGATAGCTTCGACTATGAAAAGCACTTAGTGTGCGAGAT
Found at i:18103135 original size:29 final size:30
Alignment explanation
Indices: 18103039--18103167 Score: 153
Period size: 28 Copynumber: 4.5 Consensus size: 30
18103029 GACAAGATTG
* * * * *
18103039 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
18103069 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
18103097 GCACTAAGTGTGCGAGCTGAAAATT-TATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
18103126 GCACTAAGTGTGCGAGCTGAAAA-T-TATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
18103154 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
18103168 GATTCACTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
27 2 0.02
28 41 0.46
29 27 0.30
30 18 0.20
31 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:18103154 original size:57 final size:58
Alignment explanation
Indices: 18103039--18103167 Score: 172
Period size: 57 Copynumber: 2.2 Consensus size: 58
18103029 GACAAGATTG
* * * * **
18103039 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTGTACAGCACTAAGTGTGCGAGTCTGAAAATATA
*
18103097 GCACTAAGTGTGCGAGCTGAAAATT-TATAGCACTAAGTGTGCGAG-CTGAAAATTATA
1 GCACTAAGTGTGCGAGCTGAAAATTGTACAGCACTAAGTGTGCGAGTCTGAAAA-TATA
18103154 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
18103168 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 4 0.06
57 37 0.59
58 22 0.35
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTGTACAGCACTAAGTGTGCGAGTCTGAAAATATA
Found at i:18111085 original size:29 final size:30
Alignment explanation
Indices: 18110989--18111117 Score: 153
Period size: 28 Copynumber: 4.5 Consensus size: 30
18110979 GACAAGATTG
* * * * *
18110989 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
18111019 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
18111047 GCACTAAGTGTGCGAGCTGAAAATT-TATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
18111076 GCACTAAGTGTGCGAGCTGAAAA-T-TATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
18111104 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
18111118 GATTCACTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
27 2 0.02
28 41 0.46
29 27 0.30
30 18 0.20
31 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:18111104 original size:57 final size:58
Alignment explanation
Indices: 18110989--18111117 Score: 172
Period size: 57 Copynumber: 2.2 Consensus size: 58
18110979 GACAAGATTG
* * * * **
18110989 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTGTACAGCACTAAGTGTGCGAGTCTGAAAATATA
*
18111047 GCACTAAGTGTGCGAGCTGAAAATT-TATAGCACTAAGTGTGCGAG-CTGAAAATTATA
1 GCACTAAGTGTGCGAGCTGAAAATTGTACAGCACTAAGTGTGCGAGTCTGAAAA-TATA
18111104 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
18111118 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 4 0.06
57 37 0.59
58 22 0.35
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTGTACAGCACTAAGTGTGCGAGTCTGAAAATATA
Found at i:18113691 original size:20 final size:20
Alignment explanation
Indices: 18113631--18113691 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
18113621 ATAAATATGG
*
18113631 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
18113651 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
18113671 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
18113691 T
1 T
18113692 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:18113808 original size:46 final size:48
Alignment explanation
Indices: 18113741--18113858 Score: 161
Period size: 46 Copynumber: 2.5 Consensus size: 48
18113731 GAGGAAGTGA
18113741 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
18113787 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
18113835 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18113859 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
46 34 0.53
47 8 0.12
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:18113854 original size:25 final size:24
Alignment explanation
Indices: 18113741--18113858 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
18113731 GAGGAAGTGA
*
18113741 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
18113765 AAAAGGGCTTATG-CCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
18113787 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
18113811 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
18113835 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18113859 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
22 13 0.15
23 16 0.19
24 44 0.52
25 11 0.13
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:18114085 original size:31 final size:31
Alignment explanation
Indices: 18114050--18114144 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
18114040 CGTTTACAGT
18114050 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18114081 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
18114112 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18114143 AA
1 AA
18114145 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18120658 original size:25 final size:25
Alignment explanation
Indices: 18120630--18120677 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18120620 TTATAATATG
* * *
18120630 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18120655 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18120678 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18120780 original size:20 final size:20
Alignment explanation
Indices: 18120724--18120780 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
18120714 ATATGGTATA
* *
18120724 TATGAGATGCACATGACATG
1 TATGATATGCACATGATATG
18120744 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
18120764 TATGATATGCACATGAT
1 TATGATATGCACATGAT
18120781 GTAATCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:18120857 original size:24 final size:24
Alignment explanation
Indices: 18120830--18120971 Score: 207
Period size: 24 Copynumber: 6.0 Consensus size: 24
18120820 GAGGAAGTGA
18120830 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18120854 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18120878 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
18120901 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
18120925 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18120949 AAAAGAGGC-TAGGCTCCAGTTAT
1 AAAAG-GGCTTATGCCCCAGTTAT
18120972 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 23 0.21
24 84 0.76
25 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:18120923 original size:47 final size:47
Alignment explanation
Indices: 18120830--18120971 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
18120820 GAGGAAGTGA
18120830 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
18120878 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * * *
18120925 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCCCCAGTTAT
18120972 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 43 0.49
48 41 0.47
49 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:18120946 original size:71 final size:71
Alignment explanation
Indices: 18120830--18120972 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 71
18120820 GAGGAAGTGA
*
18120830 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCC
18120894 CAGTTAT
65 CAGTTAT
** * * *
18120901 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCTCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCCC
18120966 AGTTAT
66 AGTTAT
18120972 A
1 A
18120973 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 62 0.95
72 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCCC
AGTTAT
Found at i:18121198 original size:31 final size:31
Alignment explanation
Indices: 18121163--18121257 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
18121153 CGTTTACAGT
18121163 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18121194 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
18121225 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18121256 AA
1 AA
18121258 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18128513 original size:38 final size:38
Alignment explanation
Indices: 18128470--18128546 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
18128460 TTTCAAATTA
18128470 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
18128508 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
18128546 A
1 A
18128547 ATGAATCAAT
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:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:18128627 original size:48 final size:48
Alignment explanation
Indices: 18128515--18128648 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 48
18128505 GTTACATGTT
* * * *
18128515 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACTGTGGTATATCCACTTAGCACCATGTTACATGTATCAATATATA
* * * *
18128562 TAACTGTGGCATGTCCACTTAGCACTATGTTACATGTATCAATATGTA
1 TAACTGTGGTATATCCACTTAGCACCATGTTACATGTATCAATATATA
*
18128610 TAATCT-TGGTATATCCACTTAGCACCATGTTACACGTAT
1 TAA-CTGTGGTATATCCACTTAGCACCATGTTACATGTAT
18128649 AACCGTGGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
47 27 0.37
48 44 0.60
49 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (48 bp):
TAACTGTGGTATATCCACTTAGCACCATGTTACATGTATCAATATATA
Found at i:18131381 original size:28 final size:28
Alignment explanation
Indices: 18131328--18131399 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
18131318 TGAATAACAT
*
18131328 AGTCTGGGCCTAAGCCCAGGTTAGTAAC
1 AGTCTGGGCCTAAGCCCAGGTCAGTAAC
* * *
18131356 AGTCTGGGCCTTAGCCCTATG-CAGTAGC
1 AGTCTGGGCCTAAGCCC-AGGTCAGTAAC
* *
18131384 AGTGTGGGCCCAAGCC
1 AGTCTGGGCCTAAGCC
18131400 TAATGCAGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (28 bp):
AGTCTGGGCCTAAGCCCAGGTCAGTAAC
Found at i:18131619 original size:27 final size:26
Alignment explanation
Indices: 18131578--18131658 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
18131568 CTAGAAACAG
*
18131578 TAATGTGGCAAAGCCACCAGTATCAA
1 TAATGTGGCATAGCCACCAGTATCAA
*
18131604 TAATTGTGGCATAGCCACCAGTAACAA
1 TAA-TGTGGCATAGCCACCAGTATCAA
* *
18131631 TGAATGTGACATAGTCACCAGT-TCAA
1 T-AATGTGGCATAGCCACCAGTATCAA
18131657 TA
1 TA
18131659 CTTTCTCCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 38 0.79
28 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (26 bp):
TAATGTGGCATAGCCACCAGTATCAA
Found at i:18131825 original size:27 final size:27
Alignment explanation
Indices: 18131795--18131993 Score: 204
Period size: 27 Copynumber: 7.4 Consensus size: 27
18131785 GGCATAATCG
*
18131795 TCATTTTACCCAACAGGGGTATTACGA
1 TCATTTTACCCTACAGGGGTATTACGA
18131822 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTTTACCCTACAGGGGTATTACGA
* * * * *
18131849 TCATTTTACCCTACAAGGCTTTTATGG
1 TCATTTTACCCTACAGGGGTATTACGA
* *
18131876 TCATTTTACCCTACAAGGGCATTACGA
1 TCATTTTACCCTACAGGGGTATTACGA
* ***
18131903 TCATTTTACCCTATAGGGGCGCTAC-A
1 TCATTTTACCCTACAGGGGTATTACGA
* *
18131929 GTCATTTTACCCTATAGGGGTATTACGG
1 -TCATTTTACCCTACAGGGGTATTACGA
* * * *
18131957 TTATTTTACTCTACAGGGGCATTA-TA
1 TCATTTTACCCTACAGGGGTATTACGA
18131983 GTCATTTTACC
1 -TCATTTTACC
18131994 TATTTTGGGG
Statistics
Matches: 142, Mismatches: 27, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGA
Found at i:18131934 original size:81 final size:81
Alignment explanation
Indices: 18131794--18131993 Score: 233
Period size: 81 Copynumber: 2.5 Consensus size: 81
18131784 GGGCATAATC
* * * *
18131794 GTCATTTTACCCAACAGGGGTATTACGATCATTTTACCCTACAGGGGTATTACGATCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGGGCACTACGATCATTTTACC
* *
18131859 CTACAAGGCTTTTATG
66 CTACAAGGCTATTACG
* * *
18131875 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTATAGGGGCGCTAC-AGTCATTTTAC
1 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGGGCACTACGA-TCATTTTAC
* * *
18131939 CCTATAGGGGTATTACG
65 CCTACAAGGCTATTACG
* * *
18131956 GTTATTTTACTCTACAGGGGCATTA-TAGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGA-TCATTTTACC
18131994 TATTTTGGGG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 99 0.98
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (81 bp):
GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAGGGGCACTACGATCATTTTACC
CTACAAGGCTATTACG
Found at i:18137740 original size:22 final size:22
Alignment explanation
Indices: 18137712--18137757 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
18137702 TACAAAGAGC
*
18137712 TTAGTAAGCCAAATACAATTGG
1 TTAGTAAGCCAAAGACAATTGG
18137734 TTAGTAAGCCAAAGACAATTGG
1 TTAGTAAGCCAAAGACAATTGG
18137756 TT
1 TT
18137758 TAATTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (22 bp):
TTAGTAAGCCAAAGACAATTGG
Found at i:18140911 original size:26 final size:26
Alignment explanation
Indices: 18140881--18140936 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
18140871 AATTCAGCTA
18140881 AAACTGAACAATAATTAGACCGAACT
1 AAACTGAACAATAATTAGACCGAACT
18140907 AAACTGAACAATAATTAGACCGAACT
1 AAACTGAACAATAATTAGACCGAACT
18140933 AAAC
1 AAAC
18140937 GAGCATTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.18
Consensus pattern (26 bp):
AAACTGAACAATAATTAGACCGAACT
Found at i:18144708 original size:26 final size:26
Alignment explanation
Indices: 18144679--18144786 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18144669 TGGTACAAAT
18144679 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18144705 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18144731 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18144757 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18144783 TGAT
1 TGAT
18144787 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18148533 original size:22 final size:23
Alignment explanation
Indices: 18148507--18148549 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
18148497 ACCTGATTAG
18148507 AATACGAAACAT-AAGTGCCTGA
1 AATACGAAACATAAAGTGCCTGA
*
18148529 AATACGACACATAAAGTGCCT
1 AATACGAAACATAAAGTGCCT
18148550 AATCAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (23 bp):
AATACGAAACATAAAGTGCCTGA
Found at i:18148752 original size:23 final size:23
Alignment explanation
Indices: 18148722--18148777 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
18148712 GATTCCATCC
*
18148722 AAACACACCAAAAT-GTCCAACCA
1 AAACACACCAAAATAATCC-ACCA
* *
18148745 AAACACACCAATATAATCCTCCA
1 AAACACACCAAAATAATCCACCA
18148768 AAACACACCA
1 AAACACACCA
18148778 GTATCATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.52, C:0.36, G:0.02, T:0.11
Consensus pattern (23 bp):
AAACACACCAAAATAATCCACCA
Found at i:18148811 original size:23 final size:24
Alignment explanation
Indices: 18148742--18148836 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
18148732 AAATGTCCAA
18148742 CCAAAACACACCA-ATATAATCCT
1 CCAAAACACACCAGATATAATCCT
18148765 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
18148793 CCGAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
18148822 CCAAAACACACCAGA
1 CCAAAACACACCAGA
18148837 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 13 0.21
25 1 0.02
28 34 0.55
29 14 0.23
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:18148834 original size:29 final size:28
Alignment explanation
Indices: 18148754--18148839 Score: 136
Period size: 28 Copynumber: 3.0 Consensus size: 28
18148744 AAAACACACC
*
18148754 AATATAATCCTCCAAAACACACCAGTAT
1 AATATAATCCTCCAAAACACACCAGAAT
* *
18148782 CATATAATCCTCCGAAACACACCAGAAT
1 AATATAATCCTCCAAAACACACCAGAAT
18148810 AATATAATCCATCCAAAACACACCAGAAT
1 AATATAATCC-TCCAAAACACACCAGAAT
18148839 A
1 A
18148840 GCACAAAGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
28 34 0.65
29 18 0.35
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.19
Consensus pattern (28 bp):
AATATAATCCTCCAAAACACACCAGAAT
Found at i:18149883 original size:29 final size:29
Alignment explanation
Indices: 18149842--18149898 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
18149832 CACCTTGACA
* * *
18149842 CGAATTCTTAACGAACAAGTTCTTCACCG
1 CGAACTCTCAACGAACAAGTTCTCCACCG
18149871 CGAACTCTCAACGAACAAGTTCTCCACC
1 CGAACTCTCAACGAACAAGTTCTCCACC
18149899 TCTTCCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.33, G:0.12, T:0.23
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTCCACCG
Found at i:18153943 original size:5 final size:5
Alignment explanation
Indices: 18153933--18153965 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
18153923 CCAATTTGTG
18153933 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
18153966 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:18154306 original size:13 final size:13
Alignment explanation
Indices: 18154288--18154313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18154278 CAAAACCCAT
18154288 ACCAAAACAATCA
1 ACCAAAACAATCA
18154301 ACCAAAACAATCA
1 ACCAAAACAATCA
18154314 TAAAACATAT
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:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:18157996 original size:40 final size:40
Alignment explanation
Indices: 18157899--18158037 Score: 140
Period size: 40 Copynumber: 3.4 Consensus size: 40
18157889 ATAATGATCC
* * *
18157899 CGCACACTTAGTGCCATCTCAAATAACCGAATCTA-TCTCAATAT
1 CGCACACTTAGTG-C--CTCATATAGCCGAAGCTATTC-CAAT-T
18157943 CGCACACTTAGTGCCTCATATAGCCGAAGCTATTCCAATT
1 CGCACACTTAGTGCCTCATATAGCCGAAGCTATTCCAATT
* * *
18157983 CGCACACTTAGTG-CT-ATTTTTAGCCGAAGCTATTTCAAAT
1 CGCACACTTAGTGCCTCA--TATAGCCGAAGCTATTCCAATT
18158023 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
18158038 GATCATAATA
Statistics
Matches: 85, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 46 0.54
41 20 0.24
42 2 0.02
43 1 0.01
44 13 0.15
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (40 bp):
CGCACACTTAGTGCCTCATATAGCCGAAGCTATTCCAATT
Found at i:18165421 original size:40 final size:40
Alignment explanation
Indices: 18165377--18165463 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
18165367 AGTATCACAC
*
18165377 ACTTAGTTCCTCA-TATAGCCGAAGCTATTGCAATTCGCAA
1 ACTTAGTTCCT-ATTATAGCCGAAGCTATTGCAAATCGCAA
* * * *
18165417 ACTTAG-TGCTATTTTTAGCCGAAGCTATTTCAAATCGCAT
1 ACTTAGTTCCTA-TTATAGCCGAAGCTATTGCAAATCGCAA
18165457 ACTTAGT
1 ACTTAGT
18165464 GCCAAACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
38 1 0.03
39 3 0.08
40 35 0.90
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (40 bp):
ACTTAGTTCCTATTATAGCCGAAGCTATTGCAAATCGCAA
Found at i:18171360 original size:124 final size:124
Alignment explanation
Indices: 18171214--18171463 Score: 491
Period size: 124 Copynumber: 2.0 Consensus size: 124
18171204 GATACATTAA
18171214 ATTAAACTCTTTAAGGCTTGGTGATTTTCCTTAAAGAGCTTGTTCTCAAGTATTTTCTGAATCTT
1 ATTAAACTCTTTAAGGCTTGGTGATTTTCCTTAAAGAGCTTGTTCTCAAGTATTTTCTGAATCTT
18171279 TTTAATACTTTTTACAATTCCTATAATTTATTTTATATGTTAGTTTTTATTGCGTTTTC
66 TTTAATACTTTTTACAATTCCTATAATTTATTTTATATGTTAGTTTTTATTGCGTTTTC
18171338 ATTAAACTCTTTAAGGCTTGGTGATTTTCCTTAAAGAGCTTGTTCTCAAGTATTTTCTGAATCTT
1 ATTAAACTCTTTAAGGCTTGGTGATTTTCCTTAAAGAGCTTGTTCTCAAGTATTTTCTGAATCTT
*
18171403 TTTAATACTTTTTACAATTCTTATAATTTATTTTATATGTTAGTTTTTATTGCGTTTTC
66 TTTAATACTTTTTACAATTCCTATAATTTATTTTATATGTTAGTTTTTATTGCGTTTTC
18171462 AT
1 AT
18171464 GCTTTTTAGA
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 125 1.00
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.52
Consensus pattern (124 bp):
ATTAAACTCTTTAAGGCTTGGTGATTTTCCTTAAAGAGCTTGTTCTCAAGTATTTTCTGAATCTT
TTTAATACTTTTTACAATTCCTATAATTTATTTTATATGTTAGTTTTTATTGCGTTTTC
Found at i:18172008 original size:11 final size:11
Alignment explanation
Indices: 18171994--18172018 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18171984 ATTTGGTCTC
18171994 AATTTAGATTT
1 AATTTAGATTT
18172005 AATTTAGATTT
1 AATTTAGATTT
18172016 AAT
1 AAT
18172019 GATGTGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
AATTTAGATTT
Found at i:18182800 original size:12 final size:12
Alignment explanation
Indices: 18182764--18182801 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18182754 TTAAATTTTA
18182764 ATTA-TATTAAG
1 ATTATTATTAAG
*
18182775 ATTATTGTTAAG
1 ATTATTATTAAG
*
18182787 ATTATTATTTAG
1 ATTATTATTAAG
18182799 ATT
1 ATT
18182802 TAATTTTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (12 bp):
ATTATTATTAAG
Found at i:18186683 original size:29 final size:28
Alignment explanation
Indices: 18186651--18186753 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
18186641 GTGACGAGAT
* *
18186651 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
18186680 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
18186709 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
18186738 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18186754 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:18194481 original size:29 final size:28
Alignment explanation
Indices: 18194449--18194551 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
18194439 GTGACGAGAT
* *
18194449 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
18194478 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
18194507 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
18194536 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18194552 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:18198546 original size:40 final size:40
Alignment explanation
Indices: 18198486--18198693 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
18198476 TGAATGATAC
* * **
18198486 CCGGGCTAAGTCCCGAAGGCATTTATGTTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
18198526 CCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
18198566 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
18198606 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * ** *
18198646 CCGGGTTAAGACCCGGAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
18198686 CC-GGCTAA
1 CCGGGCTAA
18198694 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.03
40 141 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:18201945 original size:35 final size:35
Alignment explanation
Indices: 18201878--18201945 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
18201868 CAACCTTTAA
*
18201878 AAAAAGATTAAGATAGACCCATATAAAGCAACCAT
1 AAAAAGATTAAGATAGACCCATATAAAACAACCAT
* * * *
18201913 AAAAAGGTTGAGATAGACCCGTCTAAAACAACC
1 AAAAAGATTAAGATAGACCCATATAAAACAACC
18201946 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.16
Consensus pattern (35 bp):
AAAAAGATTAAGATAGACCCATATAAAACAACCAT
Found at i:18205265 original size:15 final size:15
Alignment explanation
Indices: 18205245--18205275 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18205235 TTCAAATTCC
18205245 TGGCAACTTATACTT
1 TGGCAACTTATACTT
18205260 TGGCAACTTATACTT
1 TGGCAACTTATACTT
18205275 T
1 T
18205276 TAATGATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (15 bp):
TGGCAACTTATACTT
Found at i:18218562 original size:40 final size:40
Alignment explanation
Indices: 18218503--18218713 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 40
18218493 CAATTGAATG
* * * * *
18218503 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * * * *
18218543 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * **
18218583 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * *
18218623 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* *
18218663 CTATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
*
18218703 CTATCCGGGCT
1 ATATCCGGGCT
18218714 GATTCGAGCA
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
Found at i:18226545 original size:40 final size:40
Alignment explanation
Indices: 18226486--18226752 Score: 282
Period size: 40 Copynumber: 6.7 Consensus size: 40
18226476 CAATTGAATG
* * * * *
18226486 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * * * *
18226526 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * * **
18226566 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * *
18226606 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* ** **
18226646 CTATCCGGGCTAAGACCCGAAGGCATTCATGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * *
18226686 AAAACCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* *
18226726 CTATCCGGGCTAAGACTCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
18226753 CGAACATGTG
Statistics
Matches: 187, Mismatches: 40, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
Found at i:18226624 original size:80 final size:80
Alignment explanation
Indices: 18226487--18226753 Score: 335
Period size: 80 Copynumber: 3.3 Consensus size: 80
18226477 AATTGAATGA
* * * ** * * *
18226487 TATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATTATATCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCAT-GTTGTTAAATCCGGGCTAATACCCGAAGGCA
* * *
18226551 ATTGTGCTAGTGACTAC
65 TTTGTGCAAGT-ACTTC
*
18226568 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCATGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
18226632 TTGTGCAAGT-CGTTC
66 TTGTGCAAGTAC-TTC
* *
18226647 TATCCGGGCTAAGACCCGAAGGCATTCATGCAAGTTGTTAAAACCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCATGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
18226712 TTGTGCAAGT-CATTC
66 TTGTGCAAGTAC-TTC
*
18226727 TATCCGGGCTAAGACTCGAAGGCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTC
18226754 GAACATGTGG
Statistics
Matches: 166, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.01
80 162 0.98
81 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCATGCATGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
TTGTGCAAGTACTTC
Found at i:18228758 original size:43 final size:43
Alignment explanation
Indices: 18228710--18228932 Score: 209
Period size: 43 Copynumber: 5.2 Consensus size: 43
18228700 AGCACCACAA
* * *
18228710 TGCATCATCAGATAAACCAAAGGAAATATAGTGGCACACATAG
1 TGCATCATCAGATAAACCAAAGCAATTATACTGGCACACATAG
** * ** * *
18228753 TGCATCATTGGACAAGTCGAAGCAATTATATTGGCACACATAG
1 TGCATCATCAGATAAACCAAAGCAATTATACTGGCACACATAG
* * *
18228796 TGCATCATCAAACAAGCCGAAA-CAATTATACTGGCACACATAG
1 TGCATCATCAGATAAACC-AAAGCAATTATACTGGCACACATAG
* * * * *
18228839 TGCATCATCAAATGAACTAAAGCAATTATATTGGCACACGTAG
1 TGCATCATCAGATAAACCAAAGCAATTATACTGGCACACATAG
* * * *
18228882 TGCATCATC-GAATAAACCGAAGCAAATATACTTGCACATA-AG
1 TGCATCATCAG-ATAAACCAAAGCAATTATACTGGCACACATAG
18228924 TGCATCATC
1 TGCATCATC
18228933 GCCTATAAAG
Statistics
Matches: 147, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
42 14 0.10
43 131 0.89
44 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (43 bp):
TGCATCATCAGATAAACCAAAGCAATTATACTGGCACACATAG
Found at i:18228862 original size:86 final size:85
Alignment explanation
Indices: 18228772--18228932 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 85
18228762 GGACAAGTCG
* *
18228772 AAGCAATTATATTGGCACACATAGTGCATCATCAAACAAGCCGAAACAATTATACTGGCACACAT
1 AAGCAATTATATTGGCACACATAGTGCATCATCAAACAAACCGAAACAAATATACTGGCACACA-
18228837 AGTGCATCATCAAATGAACTA
65 AGTGCATCATCAAATGAACTA
* * * * * *
18228858 AAGCAATTATATTGGCACACGTAGTGCATCATCGAATAAACCGAAGCAAATATACTTGCACATAA
1 AAGCAATTATATTGGCACACATAGTGCATCATCAAACAAACCGAAACAAATATACTGGCACACAA
18228923 GTGCATCATC
66 GTGCATCATC
18228933 GCCTATAAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 11 0.16
86 56 0.84
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (85 bp):
AAGCAATTATATTGGCACACATAGTGCATCATCAAACAAACCGAAACAAATATACTGGCACACAA
GTGCATCATCAAATGAACTA
Found at i:18230134 original size:31 final size:29
Alignment explanation
Indices: 18230070--18230134 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
18230060 ACAATAACGT
* *
18230070 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATTGCAAACAA
18230099 AAGTGACTAAAATGTAAC-TTGAGGCAAACAA
1 AAGTGACTAAAATGTAACATT---GCAAACAA
18230130 AAGTG
1 AAGTG
18230135 GCTATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.06
29 18 0.58
31 11 0.35
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATTGCAAACAA
Found at i:18233058 original size:21 final size:23
Alignment explanation
Indices: 18233032--18233078 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
18233022 ATTAACATGA
18233032 AAGAAAATAA-ATAAA-ATAAAT
1 AAGAAAATAAGATAAATATAAAT
18233053 AAGAAAATAAGTATAAATATAAAT
1 AAGAAAATAAG-ATAAATATAAAT
18233077 AA
1 AA
18233079 AATTGGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.43
23 5 0.22
24 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (23 bp):
AAGAAAATAAGATAAATATAAAT
Found at i:18236898 original size:46 final size:44
Alignment explanation
Indices: 18236794--18236901 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
18236784 TGTCTTTGAC
** * * *
18236794 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
18236838 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
18236884 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
18236902 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:18244280 original size:46 final size:44
Alignment explanation
Indices: 18244176--18244283 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
18244166 TGTCTTTGAC
** * * *
18244176 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
18244220 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
18244266 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
18244284 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:18245564 original size:42 final size:42
Alignment explanation
Indices: 18245505--18245692 Score: 268
Period size: 42 Copynumber: 4.5 Consensus size: 42
18245495 ACACCAATAG
*
18245505 CCCAGCTATGGTCTTACACGAAATCTCATATCGATGCCATAT
1 CCCAGATATGGTCTTACACGAAATCTCATATCGATGCCATAT
*
18245547 CCCAGATATGGTCTTACATGAAATCTCATATCGATGCCATAT
1 CCCAGATATGGTCTTACACGAAATCTCATATCGATGCCATAT
* * * * *
18245589 CCCAGATATGGTCTTATATGAAATCTCATATTGATACCACAT
1 CCCAGATATGGTCTTACACGAAATCTCATATCGATGCCATAT
* * * *
18245631 CCTAGATATGGTCTTACACGAAATCTTATATCTATGTCATAT
1 CCCAGATATGGTCTTACACGAAATCTCATATCGATGCCATAT
*
18245673 CTCAGATATGGTCTTACACG
1 CCCAGATATGGTCTTACACG
18245693 TATCTCAACT
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 129 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAATCTCATATCGATGCCATAT
Found at i:18246029 original size:17 final size:17
Alignment explanation
Indices: 18246003--18246035 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18245993 AAATCCGCTC
18246003 AAAATCACATTTTTGCA
1 AAAATCACATTTTTGCA
*
18246020 AAAATTACATTTTTGC
1 AAAATCACATTTTTGC
18246036 CCCTAAAATT
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:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAATCACATTTTTGCA
Found at i:18246513 original size:14 final size:14
Alignment explanation
Indices: 18246494--18246523 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18246484 AAATTTTGGC
18246494 TTTAATTTTAGCTT
1 TTTAATTTTAGCTT
18246508 TTTAATTTTAGCTT
1 TTTAATTTTAGCTT
18246522 TT
1 TT
18246524 ACTAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTAATTTTAGCTT
Found at i:18247773 original size:21 final size:21
Alignment explanation
Indices: 18247748--18247797 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
18247738 CTATTTACTG
18247748 TTGAAAATCCACTGTTCTCTT
1 TTGAAAATCCACTGTTCTCTT
* *
18247769 TTGAAAATCCTCTGTTTTCTT
1 TTGAAAATCCACTGTTCTCTT
*
18247790 TTAAAAAT
1 TTGAAAAT
18247798 AACAGTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (21 bp):
TTGAAAATCCACTGTTCTCTT
Found at i:18257946 original size:19 final size:19
Alignment explanation
Indices: 18257924--18257962 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18257914 ATAATTTTTG
*
18257924 GAAAATGATTTGCTTTTCT
1 GAAAATGATTTACTTTTCT
18257943 GAAAATGATTTACTTTTCT
1 GAAAATGATTTACTTTTCT
18257962 G
1 G
18257963 GTGTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (19 bp):
GAAAATGATTTACTTTTCT
Found at i:18260261 original size:32 final size:32
Alignment explanation
Indices: 18260219--18260284 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
18260209 GCTCACGAAG
18260219 AATGACATTATAAGTAAG-AGGATCAGGGTTAC
1 AATGACATTATAAGTAAGTA-GATCAGGGTTAC
*
18260251 AATGATATTATAAGTAAGTAGATCAGGGTTAC
1 AATGACATTATAAGTAAGTAGATCAGGGTTAC
18260283 AA
1 AA
18260285 CCCTCCCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (32 bp):
AATGACATTATAAGTAAGTAGATCAGGGTTAC
Found at i:18262379 original size:28 final size:28
Alignment explanation
Indices: 18262347--18262405 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
18262337 CATAATTAGT
*
18262347 CACTTAATTTTGTGTCACAATTTTGTAA
1 CACTTAATTTTGTATCACAATTTTGTAA
18262375 CACTTAATTTTGTATCACAATTTTGTAA
1 CACTTAATTTTGTATCACAATTTTGTAA
18262403 CAC
1 CAC
18262406 ATTTTTAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (28 bp):
CACTTAATTTTGTATCACAATTTTGTAA
Found at i:18262411 original size:13 final size:13
Alignment explanation
Indices: 18262352--18262410 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
18262342 TTAGTCACTT
**
18262352 AATTTTGTGTCAC
1 AATTTTGTAACAC
18262365 AATTTTGTAACAC
1 AATTTTGTAACAC
*
18262378 TTAATTTTGTATCAC
1 --AATTTTGTAACAC
18262393 AATTTTGTAACAC
1 AATTTTGTAACAC
18262406 -ATTTT
1 AATTTT
18262411 TAATGTGCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 5 0.12
13 23 0.57
15 12 0.30
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
AATTTTGTAACAC
Found at i:18267263 original size:26 final size:26
Alignment explanation
Indices: 18267227--18267337 Score: 170
Period size: 26 Copynumber: 4.2 Consensus size: 26
18267217 TGATACAAAT
18267227 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
18267253 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18267279 TGATAATTGGGTTAGGTAAATGTTTCA
1 TGATAA-TAGGTTAGGTAAATGTTTCA
*
18267306 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
18267332 TGATAA
1 TGATAA
18267338 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
26 54 0.68
27 26 0.32
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:18267294 original size:53 final size:52
Alignment explanation
Indices: 18267227--18267337 Score: 170
Period size: 53 Copynumber: 2.1 Consensus size: 52
18267217 TGATACAAAT
18267227 TGATAATAGGTTAGGTAAATG-TTCAATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTC-ATGATAATAGGTTAGGTAAATGTTCCA
* * *
18267279 TGATAATTGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAA-TAGGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCA
18267332 TGATAA
1 TGATAA
18267338 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 6 0.11
53 45 0.83
54 3 0.06
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:18268866 original size:25 final size:25
Alignment explanation
Indices: 18268818--18268866 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18268808 ACAGTTTTAC
18268818 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
18268843 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
18268867 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:18273063 original size:26 final size:26
Alignment explanation
Indices: 18273001--18273109 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18272991 TGATACAAAT
18273001 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18273026 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18273052 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18273078 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
18273104 TGATAA
1 TGATAA
18273110 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:18276954 original size:24 final size:24
Alignment explanation
Indices: 18276909--18276955 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18276899 ATTTAGTAGT
*
18276909 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTAATTAGC
18276933 ATAATATATTTTA-CATTAATTAG
1 ATAATATA-TTTAGCATTAATTAG
18276956 AATTAGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGCATTAATTAGC
Found at i:18281309 original size:24 final size:24
Alignment explanation
Indices: 18281264--18281310 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18281254 ATTTAGTAGT
*
18281264 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
18281288 ATAATATATTTTA-CATTGATTAG
1 ATAATATA-TTTAGCATTGATTAG
18281311 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:18282904 original size:27 final size:26
Alignment explanation
Indices: 18282831--18282900 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
18282821 AAACTATGGT
* *
18282831 CTTCTAATAGCACA-TTTTTAGTTTG
1 CTTCTAATAGCACATTTTTTAGTCTA
18282856 CTTCTAATA--ACATGTTTTTAGTCTA
1 CTTCTAATAGCACAT-TTTTTAGTCTA
18282881 CTTCTAATAGCACATTTTTT
1 CTTCTAATAGCACATTTTTT
18282901 TAGTAAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 3 0.08
25 27 0.69
26 5 0.13
27 4 0.10
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (26 bp):
CTTCTAATAGCACATTTTTTAGTCTA
Found at i:18285799 original size:20 final size:20
Alignment explanation
Indices: 18285774--18285873 Score: 87
Period size: 20 Copynumber: 5.0 Consensus size: 20
18285764 GCTTGTACGG
18285774 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
** *
18285794 GTTTGCACTTCAATGTCTCT
1 GTTTGCACTTCGGTGCCTCT
* * *
18285814 GATCGCACTACGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
**
18285834 ACTTGCACATTC-GTGCCTCT
1 GTTTGCAC-TTCGGTGCCTCT
*
18285854 -TTTCGCGCTTCGGTGCCTCT
1 GTTT-GCACTTCGGTGCCTCT
18285874 ATTATGCATA
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 5 0.08
20 55 0.89
21 2 0.03
ACGTcount: A:0.10, C:0.32, G:0.21, T:0.37
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:18288024 original size:26 final size:26
Alignment explanation
Indices: 18287988--18288042 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
18287978 AGATGTCAAG
18287988 TATGTACCTGATTTACGAGAGAATCC
1 TATGTACCTGATTTACGAGAGAATCC
*
18288014 TATGTACCTGATTTACGAGAGAGTCC
1 TATGTACCTGATTTACGAGAGAATCC
18288040 TAT
1 TAT
18288043 CTCCTTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (26 bp):
TATGTACCTGATTTACGAGAGAATCC
Found at i:18288793 original size:20 final size:21
Alignment explanation
Indices: 18288753--18288794 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18288743 GGACTAAATC
* *
18288753 AGAAACTCAGAGAATTTTTCA
1 AGAAACTCAGAAAAATTTTCA
18288774 AGAAACT-AGAAAAATTTTCA
1 AGAAACTCAGAAAAATTTTCA
18288794 A
1 A
18288795 AATTGCAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (21 bp):
AGAAACTCAGAAAAATTTTCA
Found at i:18289990 original size:39 final size:39
Alignment explanation
Indices: 18289925--18290242 Score: 381
Period size: 39 Copynumber: 8.1 Consensus size: 39
18289915 ATTTTCAATA
* * * * *
18289925 CACCGACACATAGCCTACTAAGCACATAGCCCAAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
* * *
18289964 CATCGGGATAAAGCCTGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
*
18290003 CACCGGCACAAAGCCTGCTAGGCACATAGCCCCAAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAG-CCCGAATAAT
* * *
18290043 CACCGGCACACAA-CCTACTAGGCACATAGCTCGTATAAT
1 CACCGGCACA-AAGCCTGCTAGGCACATAGCCCGAATAAT
* *
18290082 CACCGGCACACAGCCTGCTAGGCACATAGCCTGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
** *
18290121 CATAGGCACACAA-CCTGCTAGGTACATAGCCCGAATAAT
1 CACCGGCACA-AAGCCTGCTAGGCACATAGCCCGAATAAT
* *
18290160 CACCGGTACACAGCCTGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
* * *
18290199 CACCGGCA-AACAACCCGCTAGGCACATAGCCCAAATAAT
1 CACCGGCACAA-AGCCTGCTAGGCACATAGCCCGAATAAT
18290238 CACCG
1 CACCG
18290243 TATTTCTATT
Statistics
Matches: 237, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
38 3 0.01
39 197 0.83
40 35 0.15
41 2 0.01
ACGTcount: A:0.35, C:0.33, G:0.18, T:0.15
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
Found at i:18290031 original size:78 final size:78
Alignment explanation
Indices: 18289925--18290242 Score: 422
Period size: 78 Copynumber: 4.1 Consensus size: 78
18289915 ATTTTCAATA
* * * * * * *
18289925 CACCGACACATAGCCTACTAAGCACATAGCCCAAATAATCATCGGGATA-AAGCCTGCTAGGCAC
1 CACCGGCACACAGCCTGCTAGGCACATAGCCCAAATAATCACCGGCACACAA-CCTGCTAGGCAC
18289989 ATAGCCCGAATAAT
65 ATAGCCCGAATAAT
* *
18290003 CACCGGCACAAAGCCTGCTAGGCACATAGCCCCAAATAATCACCGGCACACAACCTACTAGGCAC
1 CACCGGCACACAGCCTGCTAGGCACATAG-CCCAAATAATCACCGGCACACAACCTGCTAGGCAC
* *
18290068 ATAGCTCGTATAAT
65 ATAGCCCGAATAAT
** ** *
18290082 CACCGGCACACAGCCTGCTAGGCACATAGCCTGAATAATCATAGGCACACAACCTGCTAGGTACA
1 CACCGGCACACAGCCTGCTAGGCACATAGCCCAAATAATCACCGGCACACAACCTGCTAGGCACA
18290147 TAGCCCGAATAAT
66 TAGCCCGAATAAT
* * * *
18290160 CACCGGTACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGCAAACAACCCGCTAGGCACA
1 CACCGGCACACAGCCTGCTAGGCACATAGCCCAAATAATCACCGGCACACAACCTGCTAGGCACA
*
18290225 TAGCCCAAATAAT
66 TAGCCCGAATAAT
18290238 CACCG
1 CACCG
18290243 TATTTCTATT
Statistics
Matches: 211, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
78 141 0.67
79 68 0.32
80 2 0.01
ACGTcount: A:0.35, C:0.33, G:0.18, T:0.15
Consensus pattern (78 bp):
CACCGGCACACAGCCTGCTAGGCACATAGCCCAAATAATCACCGGCACACAACCTGCTAGGCACA
TAGCCCGAATAAT
Found at i:18296094 original size:26 final size:26
Alignment explanation
Indices: 18296035--18296169 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
18296025 TGATACAAAT
18296035 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
18296060 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18296086 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18296112 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18296138 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18296164 TGATAA
1 TGATAA
18296170 GAATATCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18297683 original size:25 final size:26
Alignment explanation
Indices: 18297655--18297706 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
18297645 TTTACAGTTT
18297655 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
18297680 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
18297706 T
1 T
18297707 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:18301895 original size:26 final size:26
Alignment explanation
Indices: 18301836--18301970 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
18301826 TGATACAAAT
18301836 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
18301861 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18301887 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18301913 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18301939 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18301965 TGATAA
1 TGATAA
18301971 GAATTCATGT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18303482 original size:25 final size:25
Alignment explanation
Indices: 18303454--18303504 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
18303444 TTTACAGTTT
18303454 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAG-GATAAATTGACCGAAA
* *
18303479 TACCCCTAGGTTAAATTGACCTAAA
1 TACCCCTAGGATAAATTGACCGAAA
18303504 T
1 T
18303505 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (25 bp):
TACCCCTAGGATAAATTGACCGAAA
Found at i:18306023 original size:43 final size:43
Alignment explanation
Indices: 18305962--18306123 Score: 270
Period size: 43 Copynumber: 3.8 Consensus size: 43
18305952 ATGAAACTTG
* *
18305962 GTGAAATAATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCT
1 GTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCA
*
18306005 GTGAAATAATATCGGGCTTCGAGCCGAGCAGGCTATAATGCCA
1 GTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCA
* *
18306048 GTGAAATAATATCGGGCCTCGAGCCTAGCAGGCTATAATGCCG
1 GTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCA
*
18306091 GTGAAATAATATTGGGCTTCGAGCCTAGCAGGC
1 GTGAAATAATATCGGGCTTCGAGCCTAGCAGGC
18306124 GAAATGCAGG
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 111 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (43 bp):
GTGAAATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCA
Found at i:18306732 original size:16 final size:18
Alignment explanation
Indices: 18306701--18306733 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
18306691 AACTCATCAC
18306701 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
18306719 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
18306734 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:18307016 original size:16 final size:16
Alignment explanation
Indices: 18306997--18307046 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
18306987 ATTGTTTTGC
18306997 TTAAATGTTGTTTAAA
1 TTAAATGTTGTTTAAA
18307013 TTAAA---TGTTT--A
1 TTAAATGTTGTTTAAA
18307024 TT--ATGTTGTTTAAA
1 TTAAATGTTGTTTAAA
18307038 TTAAATGTT
1 TTAAATGTT
18307047 TATTATGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
9 1 0.04
11 3 0.11
12 5 0.19
13 5 0.19
14 3 0.11
16 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (16 bp):
TTAAATGTTGTTTAAA
Found at i:18307029 original size:25 final size:25
Alignment explanation
Indices: 18307001--18307059 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
18306991 TTTTGCTTAA
18307001 ATGTTGTTTAAATTAAATGTTTATT
1 ATGTTGTTTAAATTAAATGTTTATT
18307026 ATGTTGTTTAAATTAAATGTTTATT
1 ATGTTGTTTAAATTAAATGTTTATT
18307051 ATGTTGTTT
1 ATGTTGTTT
18307060 TGATGTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.58
Consensus pattern (25 bp):
ATGTTGTTTAAATTAAATGTTTATT
Found at i:18315046 original size:30 final size:27
Alignment explanation
Indices: 18314995--18315050 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 27
18314985 CCACTAGATT
18314995 ATTAATAATCATATAAATTTATACATC
1 ATTAATAATCATATAAATTTATACATC
*
18315022 ATTAATATATCATATGTGAATTTATACAT
1 ATTAATA-ATCATA--TAAATTTATACAT
18315051 TATGTTATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 6 0.24
30 12 0.48
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (27 bp):
ATTAATAATCATATAAATTTATACATC
Found at i:18315795 original size:40 final size:40
Alignment explanation
Indices: 18315740--18315823 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
18315730 AAAATCGAAT
* *
18315740 AGATCGAGTATTAGCGGCGTTTCT-GGAAAAGCGCCGCTAA
1 AGATCGAGAATTAGCGACGTTTCTAGG-AAAGCGCCGCTAA
* *
18315780 AGATCGAGAATTAGCGACGTTTTTAGGGAAGCGCCGCTAA
1 AGATCGAGAATTAGCGACGTTTCTAGGAAAGCGCCGCTAA
18315820 AGAT
1 AGAT
18315824 TGACCTATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 37 0.95
41 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (40 bp):
AGATCGAGAATTAGCGACGTTTCTAGGAAAGCGCCGCTAA
Found at i:18316672 original size:21 final size:21
Alignment explanation
Indices: 18316648--18316690 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18316638 TCTACGGTCG
*
18316648 TAAATCATAAACT-TTAAACCT
1 TAAACCATAAA-TATTAAACCT
*
18316669 TAAACCTTAAATATTAAACCT
1 TAAACCATAAATATTAAACCT
18316690 T
1 T
18316691 GGACCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAACCATAAATATTAAACCT
Found at i:18316700 original size:21 final size:21
Alignment explanation
Indices: 18316661--18316751 Score: 56
Period size: 21 Copynumber: 4.0 Consensus size: 21
18316651 ATCATAAACT
*
18316661 TTAAACCTTAAACCTTAAATA
1 TTAAACCTTAAACCCTAAATA
** *
18316682 TTAAACCTTGGACCCTAAACCA
1 TTAAACCTTAAACCCTAAA-TA
* * **
18316704 TAAAACCCTAAACTATAAATA
1 TTAAACCTTAAACCCTAAATA
18316725 GTACTAAACCCTTAAACCCTTAAATA
1 -T--TAAA-CCTTAAACCC-TAAATA
18316751 T
1 T
18316752 AGATTCCTAA
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
21 17 0.35
22 15 0.31
24 3 0.06
25 8 0.16
26 6 0.12
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.27
Consensus pattern (21 bp):
TTAAACCTTAAACCCTAAATA
Found at i:18316713 original size:15 final size:15
Alignment explanation
Indices: 18316693--18316722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18316683 TAAACCTTGG
18316693 ACCCTAAACCATAAA
1 ACCCTAAACCATAAA
*
18316708 ACCCTAAACTATAAA
1 ACCCTAAACCATAAA
18316723 TAGTACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAACCATAAA
Found at i:18316847 original size:21 final size:21
Alignment explanation
Indices: 18316813--18316869 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
18316803 TTATAAAACG
*
18316813 TCTTAAAACTATAAACCCTAAA
1 TCTT-AAACCATAAACCCTAAA
18316835 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCCTAAA
**
18316856 TCCAAAACCATAAA
1 TCTTAAACCATAAA
18316870 ACCTTAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:18317090 original size:29 final size:29
Alignment explanation
Indices: 18317034--18317090 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
18317024 ATCTCTATTC
*
18317034 TCTAAATTTTCAAATTTTATATTATTTAG
1 TCTAAATTTTCAAATTTTAAATTATTTAG
18317063 TCTAAATTTTCAAATTTTCAAATT-TTTA
1 TCTAAATTTTCAAATTTT-AAATTATTTA
18317091 ATATCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (29 bp):
TCTAAATTTTCAAATTTTAAATTATTTAG
Found at i:18317233 original size:3 final size:3
Alignment explanation
Indices: 18317225--18317289 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
18317215 TTAAATAGTA
18317225 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
18317273 AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
18317290 AGAGAAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18320834 original size:9 final size:9
Alignment explanation
Indices: 18320811--18320938 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
18320801 TATTGATCCT
*
18320811 ACTTAAATA
1 ACTTACATA
*
18320820 AATTACATA
1 ACTTACATA
18320829 ACTTACATA
1 ACTTACATA
* *
18320838 ACTCATATA
1 ACTTACATA
18320847 ACTTACATA
1 ACTTACATA
*
18320856 ATTTACATAACA
1 ACTTACAT---A
*
18320868 ACATACATA
1 ACTTACATA
*
18320877 ACTCACATA
1 ACTTACATA
18320886 ACTTACATA
1 ACTTACATA
*
18320895 ATTTACATA
1 ACTTACATA
*
18320904 ACTCACATA
1 ACTTACATA
*
18320913 ACGTACATAACA
1 ACTTACAT---A
18320925 ACTTACATA
1 ACTTACATA
18320934 ACTTA
1 ACTTA
18320939 ACTAATACAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 79 0.84
12 15 0.16
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (9 bp):
ACTTACATA
Found at i:18320912 original size:57 final size:57
Alignment explanation
Indices: 18320824--18320936 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
18320814 TAAATAAATT
* * **
18320824 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACATACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACATACATAACTC
* * *
18320881 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACATACATAACT
18320937 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACATACATAACTC
Found at i:18326505 original size:21 final size:21
Alignment explanation
Indices: 18326479--18326523 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
18326469 ACTTAGAGCA
*
18326479 GAGGCAGCAGCGCGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
18326500 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
18326521 GAG
1 GAG
18326524 CAGAACAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.58, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCG
Done.