Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 44 of 352
Found at i:14039609 original size:16 final size:16
Alignment explanation
Indices: 14039588--14039621 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
14039578 GCCAAAATAT
14039588 CACCGCCACTCTAAAG
1 CACCGCCACTCTAAAG
14039604 CACCGCCACTCTAAAG
1 CACCGCCACTCTAAAG
14039620 CA
1 CA
14039622 TCAAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.44, G:0.12, T:0.12
Consensus pattern (16 bp):
CACCGCCACTCTAAAG
Found at i:14040474 original size:17 final size:18
Alignment explanation
Indices: 14040454--14040489 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14040444 ACTTAGATTG
*
14040454 AAAAAA-TAATTTAATTT
1 AAAAAATTAATTAAATTT
14040471 AAAAAATTAATTAAATTT
1 AAAAAATTAATTAAATTT
14040489 A
1 A
14040490 TTTTAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAAATTAATTAAATTT
Found at i:14041933 original size:48 final size:49
Alignment explanation
Indices: 14041881--14041973 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
14041871 TATGACCTTG
* *
14041881 CTCTTAGATGCAT--GAGAGAGCTTGCGAAAAGTAAAAATTATAACATTA
1 CTCTTAGACGCATAGGAGAG-GCTTACGAAAAGTAAAAATTATAACATTA
* *
14041929 CTCTTAGACGCATAGGGGAGGCTTACGGAAAGTAAAAATTATAAC
1 CTCTTAGACGCATAGGAGAGGCTTACGAAAAGTAAAAATTATAAC
14041974 CCTGCTCCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
48 12 0.31
49 23 0.59
50 4 0.10
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.25
Consensus pattern (49 bp):
CTCTTAGACGCATAGGAGAGGCTTACGAAAAGTAAAAATTATAACATTA
Found at i:14041986 original size:49 final size:49
Alignment explanation
Indices: 14041908--14042193 Score: 132
Period size: 49 Copynumber: 5.8 Consensus size: 49
14041898 GAGCTTGCGA
** * * *
14041908 AAAGTAAAAATTATAACATTACTCTTAGACGCATAGGGGAGGCTTACGG
1 AAAGTAAAAATTATAACCCTACTCCTAGACACATAGGGGAGGCTTACAG
* * * * *
14041957 AAAGTAAAAATTATAACCCTGCTCCTAGACATATA-GAGAGAACTTACAA
1 AAAGTAAAAATTATAACCCTACTCCTAGACACATAGGGGAG-GCTTACAG
** * ** * ** * *
14042006 AAAGTAGTAATAATGGCCCTGCT-CTCAGATTCAT-GAAGGAGGCTTA-TG
1 AAAGTAAAAATTATAACCCTACTCCT-AGACACATAG-GGGAGGCTTACAG
** * ** * * *
14042054 AGAAGTAGTAATAATGGCCCTACTCCCACACTCATAGGGGGAGGCTTAC-G
1 A-AAGTAAAAATTATAACCCTACTCCTAGACACATA-GGGGAGGCTTACAG
* * * *
14042104 AAAATTAAAAAAATTATAACCCTACTCCTAAACGCATAGGGGAGGCTTATAG
1 -AAAGT--AAAAATTATAACCCTACTCCTAGACACATAGGGGAGGCTTACAG
* ** * *
14042156 AAAGAAAAAATTATAACTTTGCTCTTAGACACATAGGG
1 AAAGTAAAAATTATAACCCTACTCCTAGACACATAGGG
14042194 AGAATTTACA
Statistics
Matches: 178, Mismatches: 46, Indels: 26
0.71 0.18 0.10
Matches are distributed among these distances:
48 7 0.04
49 115 0.65
50 17 0.10
51 16 0.09
52 23 0.13
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (49 bp):
AAAGTAAAAATTATAACCCTACTCCTAGACACATAGGGGAGGCTTACAG
Found at i:14047050 original size:20 final size:19
Alignment explanation
Indices: 14047025--14047074 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
14047015 GAATTGTTAG
14047025 AAATCAAAGCAT-TTAACTTC
1 AAATCAAAG-ATATTAAC-TC
*
14047045 AAATCAGAGATATTAACTC
1 AAATCAAAGATATTAACTC
*
14047064 AAATCATAGAT
1 AAATCAAAGAT
14047075 TCATGTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (19 bp):
AAATCAAAGATATTAACTC
Found at i:14047067 original size:19 final size:20
Alignment explanation
Indices: 14047037--14047074 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14047027 ATCAAAGCAT
14047037 TTAACTTCAAATCAGAGATA
1 TTAACTTCAAATCAGAGATA
*
14047057 TTAAC-TCAAATCATAGAT
1 TTAACTTCAAATCAGAGAT
14047075 TCATGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (20 bp):
TTAACTTCAAATCAGAGATA
Found at i:14047816 original size:16 final size:16
Alignment explanation
Indices: 14047783--14047816 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14047773 TAATATTGTT
* *
14047783 AACATTAATGGGAGAC
1 AACATTAATGGAAAAC
14047799 AACATTAATGGAAAAC
1 AACATTAATGGAAAAC
14047815 AA
1 AA
14047817 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGAAAAC
Found at i:14050638 original size:21 final size:21
Alignment explanation
Indices: 14050612--14050652 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14050602 AGACGAGCAA
* *
14050612 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14050633 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14050653 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14052586 original size:16 final size:16
Alignment explanation
Indices: 14052553--14052586 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14052543 GGAGATTGTT
* *
14052553 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
14052569 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
14052585 AA
1 AA
14052587 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:14053368 original size:26 final size:26
Alignment explanation
Indices: 14053339--14053389 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
14053329 ACATCCCTCC
14053339 TTACTGTCCACCCTCACATTAAATGT
1 TTACTGTCCACCCTCACATTAAATGT
14053365 TTACTGTCCACCCTCACATTAAATG
1 TTACTGTCCACCCTCACATTAAATG
14053390 AACTTCTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.33
Consensus pattern (26 bp):
TTACTGTCCACCCTCACATTAAATGT
Found at i:14055505 original size:29 final size:30
Alignment explanation
Indices: 14055437--14055505 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 30
14055427 GCCCTTCAAC
* * * *
14055437 TTTTTTATATTTATACTTTAATCCCTTAAA
1 TTTTTTATATTTACACTTGAATCACTAAAA
** *
14055467 TTTTAAATATTTACACTTGGATCAC-AAAA
1 TTTTTTATATTTACACTTGAATCACTAAAA
14055496 TTTTTTATAT
1 TTTTTTATAT
14055506 CTTTACTATT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTTTTATATTTACACTTGAATCACTAAAA
Found at i:14057398 original size:24 final size:24
Alignment explanation
Indices: 14057371--14057419 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14057361 AAAAATTAAT
14057371 TACATGTGTATAAAGTATAATACA
1 TACATGTGTATAAAGTATAATACA
14057395 TACATGTGTATAAAGTATAATACA
1 TACATGTGTATAAAGTATAATACA
14057419 T
1 T
14057420 GTAATACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (24 bp):
TACATGTGTATAAAGTATAATACA
Found at i:14057922 original size:11 final size:11
Alignment explanation
Indices: 14057906--14057933 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14057896 ATGAGATATT
14057906 TTATTATTTTA
1 TTATTATTTTA
14057917 TTATTATTTTA
1 TTATTATTTTA
14057928 TTATTA
1 TTATTA
14057934 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:14060025 original size:16 final size:15
Alignment explanation
Indices: 14059987--14060016 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14059977 AAATGTGTAA
14059987 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14060002 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14060017 ATACCATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
GACCATGGTTGAAAG
Found at i:14060069 original size:46 final size:46
Alignment explanation
Indices: 14060002--14060257 Score: 352
Period size: 46 Copynumber: 5.6 Consensus size: 46
14059992 TGGTTGAAAG
*
14060002 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
** **
14060048 GACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
*
14060094 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
* **
14060140 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
** * *
14060186 GACCATGGTTGAAAGATACCATGGCAATATGACA-GAAAATAAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGAGTAA
* * *
14060232 GACCATAGTTGAAAGACACTATGGCA
1 GACCATGGTTGAAAGATACCATGGCA
14060258 TCATGTCAAA
Statistics
Matches: 186, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 185 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAA
Found at i:14060159 original size:92 final size:92
Alignment explanation
Indices: 14060002--14060257 Score: 415
Period size: 92 Copynumber: 2.8 Consensus size: 92
14059992 TGGTTGAAAG
14060002 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
*
14060067 CATGGCAATGTGATATGAAATGAACAA
66 CATGGCAACGTGATATGAAATGAACAA
14060094 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
14060159 CATGGCAACGTGATATGAAATGAACAA
66 CATGGCAACGTGATATGAAATGAACAA
** * ** * *
14060186 GACCATGGTTGAAAGATACCATGGCAATATGACA-GAAAATAAGTAAGACCATAGTTGAAAGACA
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATA
*
14060250 CTATGGCA
65 CCATGGCA
14060258 TCATGTCAAA
Statistics
Matches: 154, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
91 1 0.01
92 153 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
CATGGCAACGTGATATGAAATGAACAA
Found at i:14060256 original size:138 final size:138
Alignment explanation
Indices: 14060002--14060257 Score: 390
Period size: 138 Copynumber: 1.9 Consensus size: 138
14059992 TGGTTGAAAG
***
14060002 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGATAC
* * * *
14060067 CATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
66 CATGGCAATATGACATGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACCTGATATGAA
14060132 ATGTGTAA
131 ATGTGTAA
*
14060140 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGATAC
* *
14060205 CATGGCAATATGACA-GAAAAT-AAGTAAGACCATAGTTGAAAGACACTATGGCA
66 CATGGCAATATGACATG-AAATGAA-CAAGACCATAGTTGAAAGACACCATGGCA
14060258 TCATGTCAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
137 3 0.03
138 103 0.97
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGATAC
CATGGCAATATGACATGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACCTGATATGAA
ATGTGTAA
Found at i:14065309 original size:16 final size:15
Alignment explanation
Indices: 14065271--14065300 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14065261 AAATGTATAA
14065271 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14065286 GACCATGGTTGAAAG
1 GACCATGGTTGAAAG
14065301 ATACCATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
GACCATGGTTGAAAG
Found at i:14065353 original size:46 final size:46
Alignment explanation
Indices: 14065286--14065454 Score: 223
Period size: 46 Copynumber: 3.7 Consensus size: 46
14065276 TGGTTGAAAG
* *
14065286 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAA
* **
14065332 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAA
1 GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAA
* *
14065378 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATAAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGAGTAA
* * * *
14065424 GACCATAGTTGAAAGACACTATGGCATCATG
1 GACCATGGTTGAAAGATACCATGGCAACATG
14065455 TCAAAGATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 108 0.99
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAA
Found at i:14066221 original size:21 final size:21
Alignment explanation
Indices: 14066197--14066243 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
14066187 AAAATATAAT
*
14066197 AATATAATA-AAAGAATAAAGA
1 AATAAAATAGAAA-AATAAAGA
14066218 AATAAAATAGAAAAATAAAGA
1 AATAAAATAGAAAAATAAAGA
14066239 AATAA
1 AATAA
14066244 CAGACAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (21 bp):
AATAAAATAGAAAAATAAAGA
Found at i:14068144 original size:14 final size:14
Alignment explanation
Indices: 14068125--14068161 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14068115 TGTGCCCTTA
*
14068125 TTTTCAAGGAAAAG
1 TTTTCAAAGAAAAG
14068139 TTTTCAAAGAAAAG
1 TTTTCAAAGAAAAG
*
14068153 TTTTTAAAG
1 TTTTCAAAG
14068162 TTCCCGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (14 bp):
TTTTCAAAGAAAAG
Found at i:14075025 original size:31 final size:33
Alignment explanation
Indices: 14074957--14075026 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
14074947 AAACTTTTAT
* **
14074957 TAAAAATATATATATATTATTTTATTTAATATT
1 TAAAAATATATATATATTATTTTATTTAAAAGA
14074990 TAAAAA-AT-TATATATTATTATTA-TTAAAAGA
1 TAAAAATATATATATATTATT-TTATTTAAAAGA
14075021 TAAAAA
1 TAAAAA
14075027 GAAACAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 22 0.67
32 5 0.15
33 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (33 bp):
TAAAAATATATATATATTATTTTATTTAAAAGA
Found at i:14075487 original size:15 final size:17
Alignment explanation
Indices: 14075467--14075501 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
14075457 CTCTATTAAA
14075467 TTTAAA-TAATATCT-T
1 TTTAAATTAATATCTAT
14075482 TTTAAATTAATATCTAT
1 TTTAAATTAATATCTAT
14075499 TTT
1 TTT
14075502 TATCGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTAATATCTAT
Found at i:14088827 original size:39 final size:39
Alignment explanation
Indices: 14088754--14088834 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
14088744 ATCTACGGAT
* *
14088754 TAAGTGTATAAGGTTGAAAGTATCAGTTCGAGGACCCAG
1 TAAGTGTATAAGGTGGAAAGTATCAGTTCAAGGACCCAG
* *
14088793 TAAGTGTATAAGGTGGAAAGTA-CTGCTTCAAGGACCTAG
1 TAAGTGTATAAGGTGGAAAGTATCAG-TTCAAGGACCCAG
14088832 TAA
1 TAA
14088835 AATTGATCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.05
39 35 0.95
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTGTATAAGGTGGAAAGTATCAGTTCAAGGACCCAG
Found at i:14088899 original size:96 final size:96
Alignment explanation
Indices: 14088735--14088931 Score: 358
Period size: 96 Copynumber: 2.1 Consensus size: 96
14088725 TTTTGGTTCC
* *
14088735 GTAAAATGGATCTACGGATTAAGTGTATAAGGTTGAAAGTATCAGTTCGAGGACCCAGTAAGTGT
1 GTAAAATGGATCTACAGATTAAGTGTATAAGGTTGAAAGTATCAGTTCAAGGACCCAGTAAGTGT
14088800 ATAAGGTGGAAAGTACTGCTTCAAGGACCTA
66 ATAAGGTGGAAAGTACTGCTTCAAGGACCTA
* *
14088831 GTAAAATTGATCTACAGATTAAGTGTATCAGGTTGAAAGTATCAGTTCAAGGACCCAGTAAGTGT
1 GTAAAATGGATCTACAGATTAAGTGTATAAGGTTGAAAGTATCAGTTCAAGGACCCAGTAAGTGT
14088896 ATAAGGTGGAAAGTACTGCTTCAAGGACCTA
66 ATAAGGTGGAAAGTACTGCTTCAAGGACCTA
14088927 GTAAA
1 GTAAA
14088932 TCAATCTTCT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (96 bp):
GTAAAATGGATCTACAGATTAAGTGTATAAGGTTGAAAGTATCAGTTCAAGGACCCAGTAAGTGT
ATAAGGTGGAAAGTACTGCTTCAAGGACCTA
Found at i:14088908 original size:39 final size:39
Alignment explanation
Indices: 14088850--14088930 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
14088840 ATCTACAGAT
* *
14088850 TAAGTGTATCAGGTTGAAAGTATCAG-TTCAAGGACCCAG
1 TAAGTGTATAAGGTGGAAAGTA-CAGCTTCAAGGACCCAG
* *
14088889 TAAGTGTATAAGGTGGAAAGTACTGCTTCAAGGACCTAG
1 TAAGTGTATAAGGTGGAAAGTACAGCTTCAAGGACCCAG
14088928 TAA
1 TAA
14088931 ATCAATCTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.05
39 35 0.95
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (39 bp):
TAAGTGTATAAGGTGGAAAGTACAGCTTCAAGGACCCAG
Found at i:14097185 original size:43 final size:43
Alignment explanation
Indices: 14097138--14097226 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
14097128 TGTGTTATGT
*
14097138 TTTTTAGGGTTAGGGTTTTATTTTTTAAAATTTAGAGTTAGGG
1 TTTTTAGGGTTAGGATTTTATTTTTTAAAATTTAGAGTTAGGG
14097181 TTTTTAGGGTTAGGATTTTATTTTTTAAAATTTAGAGTTAGGG
1 TTTTTAGGGTTAGGATTTTATTTTTTAAAATTTAGAGTTAGGG
14097224 TTT
1 TTT
14097227 AGGGTTTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (43 bp):
TTTTTAGGGTTAGGATTTTATTTTTTAAAATTTAGAGTTAGGG
Found at i:14103299 original size:25 final size:23
Alignment explanation
Indices: 14103262--14103332 Score: 54
Period size: 25 Copynumber: 2.9 Consensus size: 23
14103252 GGAATTAATT
**
14103262 TTATTTAAGTTTTGTTTTTTAAG
1 TTATTTATTTTTTGTTTTTTAAG
**
14103285 TTATATATATTTTTT-TTTCTTTGTG
1 TTAT-T-TATTTTTTGTTT-TTTAAG
14103310 TTATTTATTTTATTGTATTTTTA
1 TTATTTATTTT-TTGT-TTTTTA
14103333 TTTTTGGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
23 10 0.27
24 7 0.19
25 18 0.49
26 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.08, T:0.70
Consensus pattern (23 bp):
TTATTTATTTTTTGTTTTTTAAG
Found at i:14106107 original size:41 final size:41
Alignment explanation
Indices: 14106025--14106131 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
14106015 GGAGTGGGGG
* *
14106025 AACGCTTCTAACTGGAAGTGTTTTCCTGCAAATAAGCTGAA
1 AACGCTTCCAACTGGAAGCGTTTTCCTGCAAATAAGCTGAA
* *
14106066 AACGCTTCCAACTGGAAGCGCTTTTCC-GCATATCA-CTTGAA
1 AACGCTTCCAACTGGAAGCG-TTTTCCTGCAAATAAGC-TGAA
* ** *
14106107 AACGTTTTTAGCTGGAAGCGTTTTC
1 AACGCTTCCAACTGGAAGCGTTTTC
14106132 ATAAAATTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
40 6 0.11
41 44 0.79
42 6 0.11
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (41 bp):
AACGCTTCCAACTGGAAGCGTTTTCCTGCAAATAAGCTGAA
Found at i:14120387 original size:22 final size:22
Alignment explanation
Indices: 14120362--14120424 Score: 56
Period size: 26 Copynumber: 2.7 Consensus size: 22
14120352 AAACCCTAAT
*
14120362 TTCTCCTTTTTCTTTTCTTTTC
1 TTCTCCTTTTTCTTTTCGTTTC
*
14120384 TTCTTTCTTTCTTTCTATTTCGTTTC
1 TTC--TCCTT-TTTCT-TTTCGTTTC
*
14120410 TTCT-CTGTTTCTTTT
1 TTCTCCTTTTTCTTTT
14120425 TCTTGATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
21 3 0.09
22 8 0.24
23 1 0.03
24 5 0.15
25 5 0.15
26 11 0.33
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (22 bp):
TTCTCCTTTTTCTTTTCGTTTC
Found at i:14120390 original size:26 final size:26
Alignment explanation
Indices: 14120370--14120423 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
14120360 ATTTCTCCTT
*
14120370 TTTCT-TTTCTTTTCTTCTTTCTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTC
* *
14120395 TTTCTATTTCGTTTCTTCTCTGTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTC
14120421 TTT
1 TTT
14120424 TTCTTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTCTATTTCGTTTCTTCTTTCTTTC
Found at i:14120458 original size:25 final size:26
Alignment explanation
Indices: 14120406--14120458 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
14120396 TTCTATTTCG
*
14120406 TTTCTTCTCTGTTTCTTTTTCTTGAT
1 TTTCTTCTCTGTTTATTTTTCTTGAT
*
14120432 TTTCTT-TCT-TTTATTTATTCTTTAT
1 TTTCTTCTCTGTTTATTT-TTCTTGAT
14120457 TT
1 TT
14120459 CATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 12 0.50
26 6 0.25
ACGTcount: A:0.08, C:0.15, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTCTTCTCTGTTTATTTTTCTTGAT
Found at i:14128489 original size:8 final size:8
Alignment explanation
Indices: 14128476--14128519 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
14128466 ACTTAAGTAT
14128476 ATAATATA
1 ATAATATA
14128484 ATAATATA
1 ATAATATA
* * *
14128492 TTAGTTTA
1 ATAATATA
*
14128500 ATAATTTA
1 ATAATATA
14128508 ATAATATA
1 ATAATATA
14128516 ATAA
1 ATAA
14128520 AACCTAAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
ATAATATA
Found at i:14137021 original size:16 final size:15
Alignment explanation
Indices: 14136996--14137029 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
14136986 AAATCCAAAA
*
14136996 ATAATTAGTATATATT
1 ATAATGAGTATA-ATT
14137012 ATAATGAGTATAATT
1 ATAATGAGTATAATT
14137027 ATA
1 ATA
14137030 TATTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (15 bp):
ATAATGAGTATAATT
Found at i:14148010 original size:24 final size:24
Alignment explanation
Indices: 14147963--14148012 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
14147953 AAATTACAAA
* **
14147963 AGAATGTTCCATTTTTTTGGAATG
1 AGAATGTTCCATTTGTTTAAAATG
14147987 AGAATGTTCCATTTGTTTAAAATG
1 AGAATGTTCCATTTGTTTAAAATG
14148011 AG
1 AG
14148013 CAGTGTCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (24 bp):
AGAATGTTCCATTTGTTTAAAATG
Found at i:14151183 original size:8 final size:8
Alignment explanation
Indices: 14151170--14151213 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
14151160 ACTTAAGTAT
14151170 ATAATATA
1 ATAATATA
14151178 ATAATATA
1 ATAATATA
*
14151186 TTAATATA
1 ATAATATA
14151194 ATAAT-TGA
1 ATAATAT-A
14151202 ATAATATA
1 ATAATATA
14151210 ATAA
1 ATAA
14151214 AACATAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 1 0.03
8 30 0.94
9 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:14151197 original size:24 final size:24
Alignment explanation
Indices: 14151162--14151209 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14151152 GACTTAATAC
14151162 TTAAGTATATAATAT-AATAATATA
1 TTAAGTATATAAT-TGAATAATATA
14151186 TTAA-TATAATAATTGAATAATATA
1 TTAAGTAT-ATAATTGAATAATATA
14151210 ATAAAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
TTAAGTATATAATTGAATAATATA
Found at i:14160339 original size:13 final size:13
Alignment explanation
Indices: 14160317--14160349 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14160307 AAGGGTTTGT
14160317 TTAT-TAAACTAA
1 TTATCTAAACTAA
14160329 TTATCTAAACTAA
1 TTATCTAAACTAA
*
14160342 TTAACTAA
1 TTATCTAA
14160350 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:14160713 original size:31 final size:31
Alignment explanation
Indices: 14160675--14160737 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14160665 GCGTTCGATC
14160675 AACTCCGCTTAATTATGCCAAATCTACTCTT
1 AACTCCGCTTAATTATGCCAAATCTACTCTT
14160706 AACTCCGCTTAATTATGCCAAATCTACTCTT
1 AACTCCGCTTAATTATGCCAAATCTACTCTT
14160737 A
1 A
14160738 GGCAGCGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (31 bp):
AACTCCGCTTAATTATGCCAAATCTACTCTT
Found at i:14165033 original size:14 final size:14
Alignment explanation
Indices: 14165014--14165043 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14165004 TTGATTCTGA
*
14165014 TTTTAATTTTGATT
1 TTTTAATCTTGATT
14165028 TTTTAATCTTGATT
1 TTTTAATCTTGATT
14165042 TT
1 TT
14165044 AAAGGGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTAATCTTGATT
Found at i:14165565 original size:40 final size:41
Alignment explanation
Indices: 14165521--14165612 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
14165511 TATTATACAT
14165521 TAGCGGCGTTTGCAAT-AAAACGCCGCAAAAAACTGAGCAA
1 TAGCGGCGTTTGCAATCAAAACGCCGCAAAAAACTGAGCAA
*** * * *
14165561 TAGCGGCGTTTTTTATCCAAACGCCGCTAAAAACTGAGTAA
1 TAGCGGCGTTTGCAATCAAAACGCCGCAAAAAACTGAGCAA
14165602 TAGCGGCGTTT
1 TAGCGGCGTTT
14165613 TTGGTCCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 13 0.29
41 32 0.71
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (41 bp):
TAGCGGCGTTTGCAATCAAAACGCCGCAAAAAACTGAGCAA
Found at i:14165593 original size:41 final size:41
Alignment explanation
Indices: 14165538--14165630 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
14165528 GTTTGCAATA
* *
14165538 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTTATCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGATCC
* *
14165579 AAACGCCGCTAAAAACTGAGTAATAGCGGCGTTTTTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGATCC
14165620 AAACGCCGCTA
1 AAACGCCGCTA
14165631 TAGGTCGAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGATCC
Found at i:14165657 original size:42 final size:42
Alignment explanation
Indices: 14165602--14165699 Score: 196
Period size: 42 Copynumber: 2.3 Consensus size: 42
14165592 AACTGAGTAA
14165602 TAGCGGCGTTTTTGGTCCAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGTTTTTGGTCCAAACGCCGCTATAGGTCGAGGTTT
14165644 TAGCGGCGTTTTTGGTCCAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGTTTTTGGTCCAAACGCCGCTATAGGTCGAGGTTT
14165686 TAGCGGCGTTTTTG
1 TAGCGGCGTTTTTG
14165700 AAAAAACGCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.33
Consensus pattern (42 bp):
TAGCGGCGTTTTTGGTCCAAACGCCGCTATAGGTCGAGGTTT
Found at i:14166271 original size:7 final size:7
Alignment explanation
Indices: 14166261--14166294 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
14166251 TGGGGTTAAG
14166261 GGTTTAT
1 GGTTTAT
14166268 GGTTTAT
1 GGTTTAT
14166275 GGTTTAT
1 GGTTTAT
*
14166282 GTTTTAT
1 GGTTTAT
14166289 GGTTTA
1 GGTTTA
14166295 GAGTTTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (7 bp):
GGTTTAT
Found at i:14166278 original size:21 final size:21
Alignment explanation
Indices: 14166254--14166294 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14166244 TAAGGGTTGG
14166254 GGTTAAGGGTTTATGGTTTAT
1 GGTTAAGGGTTTATGGTTTAT
* * *
14166275 GGTTTATGTTTTATGGTTTA
1 GGTTAAGGGTTTATGGTTTA
14166295 GAGTTTAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (21 bp):
GGTTAAGGGTTTATGGTTTAT
Found at i:14166413 original size:36 final size:35
Alignment explanation
Indices: 14166313--14166424 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 35
14166303 GGGATATGGG
* * *
14166313 TTATGATATAATGTTTATTATTTTGGGGTTTAGAAT
1 TTATGATATAATGTTTATTGTTTT-TGGTTTAGAGT
* * *** *
14166349 TTATGATTTAA-GATTTAATGTCCATGGTTTAAGGGT
1 TTATGATATAATG-TTTATTGTTTTTGGTTT-AGAGT
14166385 TTATGATATAATGTTTATTGTTTTTGGTTTAGAGT
1 TTATGATATAATGTTTATTGTTTTTGGTTTAGAGT
14166420 TTATG
1 TTATG
14166425 GTTTAGAGTT
Statistics
Matches: 58, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
35 15 0.26
36 42 0.72
37 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.52
Consensus pattern (35 bp):
TTATGATATAATGTTTATTGTTTTTGGTTTAGAGT
Found at i:14166414 original size:14 final size:14
Alignment explanation
Indices: 14166404--14166442 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
14166394 AATGTTTATT
*
14166404 GTTTTTGGTTTAGA
1 GTTTATGGTTTAGA
14166418 GTTTATGGTTTAGA
1 GTTTATGGTTTAGA
*
14166432 GTTTGTGGTTT
1 GTTTATGGTTT
14166443 TTTGGTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:14166887 original size:17 final size:18
Alignment explanation
Indices: 14166865--14166898 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14166855 TAATTGTTTT
14166865 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
14166882 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
14166899 TTAAAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:14169008 original size:138 final size:138
Alignment explanation
Indices: 14168783--14169034 Score: 452
Period size: 138 Copynumber: 1.8 Consensus size: 138
14168773 GTGGAGTCCC
* * *
14168783 TGTTTTGAATTTTAGAATCATATGTAATCTCTTTAAAAATTGGCATTAAATTGTTTTTAGGTTTT
1 TGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCATTAAATTATTTTTAGGTTTT
14168848 ATAATTACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTTAACGTCTGGATGCTTTTA
66 ATAATTACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTTAACGTCTGGATGCTTTTA
14168913 GGAGTACT
131 GGAGTACT
*
14168921 TGTTTTGAATTTTAGAACCATATGTAATTTCCTTAAAAATTGGCATTAAATTATTTTTAGGTTTT
1 TGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCATTAAATTATTTTTAGGTTTT
14168986 AT-ATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTTAA
66 ATAATT-ACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTTAA
14169035 AATTTTAAAA
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
137 3 0.03
138 106 0.97
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (138 bp):
TGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCATTAAATTATTTTTAGGTTTT
ATAATTACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTTAACGTCTGGATGCTTTTA
GGAGTACT
Found at i:14171016 original size:43 final size:43
Alignment explanation
Indices: 14170947--14171071 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
14170937 AAATTTCATT
* * * *
14170947 ACCTTTAGTGGTGTTTTTGGGAAAAGCGTTGCTAAAGGTCAAG
1 ACCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCAAG
* * *
14170990 ACCTTTAGCGGCGTTTGTGGGTAAAGCGTCGCGAAAGGTCATG
1 ACCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCAAG
*
14171033 ACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT
1 ACCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGT
14171072 ATAAACGTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (43 bp):
ACCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCAAG
Found at i:14174511 original size:18 final size:17
Alignment explanation
Indices: 14174474--14174519 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
14174464 TTAAAACTAT
*
14174474 TAAATTTATTAATATAA
1 TAAATTTATTAACATAA
14174491 TAATATTTATTATACAT-A
1 TAA-ATTTATTA-ACATAA
14174509 TAAATTT-TTAA
1 TAAATTTATTAA
14174520 ATCGATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 7 0.27
18 12 0.46
19 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTTATTAACATAA
Found at i:14185737 original size:10 final size:10
Alignment explanation
Indices: 14185724--14185756 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
14185714 ATTTAATAAA
14185724 TTTTTAAAAT
1 TTTTTAAAAT
14185734 TTTTTAAAAT
1 TTTTTAAAAT
14185744 TTTTTAAAAT
1 TTTTTAAAAT
14185754 TTT
1 TTT
14185757 ATTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:14198294 original size:28 final size:30
Alignment explanation
Indices: 14198250--14198309 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
14198240 ATTTTAATAG
14198250 TTAAAATAATAAATT-AATTA-ATATAATT
1 TTAAAATAATAAATTAAATTATATATAATT
* *
14198278 TTAAAA-ATTAAAGTTAAATTATATTTAATT
1 TTAAAATAATAAA-TTAAATTATATATAATT
14198308 TT
1 TT
14198310 CAAGTCTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 8 0.30
29 5 0.19
30 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TTAAAATAATAAATTAAATTATATATAATT
Found at i:14198506 original size:29 final size:28
Alignment explanation
Indices: 14198474--14198545 Score: 72
Period size: 30 Copynumber: 2.5 Consensus size: 28
14198464 TTTAATTATA
14198474 AAAATTAAAGTTGGTGGAAAAAGTTCAAT
1 AAAATTAAAGTTGGTGGAAAAA-TTCAAT
* * *
14198503 AAAATTCAAATTTTAGTGGCAAAATTCAAT
1 AAAATT-AAA-GTTGGTGGAAAAATTCAAT
* *
14198533 CACATTAAAGTTG
1 AAAATTAAAGTTG
14198546 ATTGACAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 2 0.06
29 9 0.26
30 13 0.38
31 10 0.29
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (28 bp):
AAAATTAAAGTTGGTGGAAAAATTCAAT
Found at i:14202165 original size:21 final size:22
Alignment explanation
Indices: 14202127--14202168 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
14202117 TTTTAACCTA
14202127 TAATTTTTAATTCTAATTATTT
1 TAATTTTTAATTCTAATTATTT
14202149 TAATATTTT-ATT-TAATTATT
1 TAAT-TTTTAATTCTAATTATT
14202169 CCTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATTTTTAATTCTAATTATTT
Found at i:14205353 original size:20 final size:20
Alignment explanation
Indices: 14205335--14205371 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14205325 ATGATTAATC
14205335 TTAA-TTAA-CTTTAATTAA
1 TTAACTTAATCTTTAATTAA
14205353 TTAACTTAATCTTTAATTA
1 TTAACTTAATCTTTAATTA
14205372 GTTTACCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAACTTAATCTTTAATTAA
Found at i:14205368 original size:16 final size:16
Alignment explanation
Indices: 14205329--14205371 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14205319 TATACCATGA
14205329 TTAATCTTAATTAACT
1 TTAATCTTAATTAACT
14205345 TTAA--TTAATTAAC-
1 TTAATCTTAATTAACT
14205358 TTAATCTTTAATTA
1 TTAATC-TTAATTA
14205372 GTTTACCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
16 11 0.46
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATCTTAATTAACT
Found at i:14205376 original size:29 final size:31
Alignment explanation
Indices: 14205328--14205402 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
14205318 ATATACCATG
*
14205328 ATTAATC-TTAATTAACTTTA-ATTAATTAAC
1 ATTAATCTTTAATT-AGTTTACATTAATTAAC
* *
14205358 -TTAATCTTTAATTAGTTTACCTTAATTATC
1 ATTAATCTTTAATTAGTTTACATTAATTAAC
14205388 ATTAA-CTTT-ATTAGT
1 ATTAATCTTTAATTAGT
14205403 GGAAAATAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 17 0.44
30 18 0.46
31 4 0.10
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.51
Consensus pattern (31 bp):
ATTAATCTTTAATTAGTTTACATTAATTAAC
Found at i:14206625 original size:22 final size:22
Alignment explanation
Indices: 14206582--14206625 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14206572 GGATTATATC
* *
14206582 TATTTTTTATTTTTGTATTTAA
1 TATTTTTTATTTATGTACTTAA
14206604 TATTTTTTATCTTAT-TACTTAA
1 TATTTTTTAT-TTATGTACTTAA
14206626 ATTGTCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
TATTTTTTATTTATGTACTTAA
Found at i:14208814 original size:28 final size:28
Alignment explanation
Indices: 14208749--14208843 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
14208739 TTTTTATATC
* * * *
14208749 TTACAGTTTTGCCCCTATCTTTCAGATA
1 TTACAATTTTGCCCCTATTTTTCAAATT
* * *
14208777 TTATATTTTTGCCTCTATTTTTCAAATT
1 TTACAATTTTGCCCCTATTTTTCAAATT
* * *
14208805 TTACAATTTTTCTCCCTACTTTACAAATT
1 TTACAATTTTGC-CCCTATTTTTCAAATT
14208834 TTACAATTTT
1 TTACAATTTT
14208844 ACCCAAAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 31 0.57
29 23 0.43
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.52
Consensus pattern (28 bp):
TTACAATTTTGCCCCTATTTTTCAAATT
Found at i:14208856 original size:29 final size:29
Alignment explanation
Indices: 14208793--14208856 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
14208783 TTTTGCCTCT
* * **
14208793 ATTTTTCAAATTTTACAATTTTTCTCCCT
1 ATTTTACAAATTTTACAATTTTACTCCAA
*
14208822 ACTTTACAAATTTTACAATTTTAC-CCAAA
1 ATTTTACAAATTTTACAATTTTACTCC-AA
14208851 ATTTTA
1 ATTTTA
14208857 TGATTTGTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTTACAAATTTTACAATTTTACTCCAA
Found at i:14211694 original size:65 final size:66
Alignment explanation
Indices: 14211590--14211723 Score: 216
Period size: 65 Copynumber: 2.0 Consensus size: 66
14211580 GATCAACCGA
* * * * *
14211590 TCTCCATCTGTTTTCATTGAGAAAAAGACTCCACAAGAGGTAT-GGCTGGTCATCTTGCTAATTA
1 TCTCCATCCGTTGTCATTGAGAAAAAGACTCAACAAGAGGTATGGGCTGGTAATCCTGCTAATTA
14211654 T
66 T
14211655 TCTCCATCCGTTGTCATTGAGAAAAAGACTCAACAAGAGGTATGGGCTGGTAATCCTGCTAATTA
1 TCTCCATCCGTTGTCATTGAGAAAAAGACTCAACAAGAGGTATGGGCTGGTAATCCTGCTAATTA
14211720 T
66 T
14211721 TCT
1 TCT
14211724 AATTTAAAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
65 40 0.63
66 23 0.37
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (66 bp):
TCTCCATCCGTTGTCATTGAGAAAAAGACTCAACAAGAGGTATGGGCTGGTAATCCTGCTAATTA
T
Found at i:14215111 original size:20 final size:19
Alignment explanation
Indices: 14215083--14215121 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
14215073 ATAATATGAA
*
14215083 ATTTCAAAAAAATTATAAAT
1 ATTTAAAAAAAATT-TAAAT
*
14215103 ATTTAAAAAATATTTAAAT
1 ATTTAAAAAAAATTTAAAT
14215122 TAAAAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTAAAAAAAATTTAAAT
Found at i:14215112 original size:19 final size:20
Alignment explanation
Indices: 14215083--14215121 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14215073 ATAATATGAA
14215083 ATTTCAAAAAA-ATTATAAAT
1 ATTTCAAAAAATATT-TAAAT
14215103 ATTT-AAAAAATATTTAAAT
1 ATTTCAAAAAATATTTAAAT
14215122 TAAAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTCAAAAAATATTTAAAT
Found at i:14215403 original size:31 final size:31
Alignment explanation
Indices: 14215367--14215425 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
14215357 TTAAACATTG
*
14215367 AAAAAATTCAAAAATATATATTTTCTATTTA
1 AAAAAATTCAAAAATACATATTTTCTATTTA
*
14215398 AAAAAATTGAAAAATACATATTTTCTAT
1 AAAAAATTCAAAAATACATATTTTCTAT
14215426 AAAAATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (31 bp):
AAAAAATTCAAAAATACATATTTTCTATTTA
Found at i:14216088 original size:108 final size:109
Alignment explanation
Indices: 14215897--14216106 Score: 323
Period size: 108 Copynumber: 1.9 Consensus size: 109
14215887 CACATATACG
* * **
14215897 TGTGAAAACTTAAAACGCAAATGCTTGTTTAAAAATAACATACAATAAAAAATAACTGGTATGGT
1 TGTGAAAACGTAAAACACAAATGCTTGTTTAAAAATAACATACAATAAAAAATAACCCGTATGGT
* *
14215962 TTGAAACTAATTATGCAACTAATGTAGATACTAAATTGTATGCA
66 TTGAAACTAATTATGCAACTAATATAGATAATAAATTGTATGCA
* * * *
14216006 TGTGAAAACGTAAAACACAAATGCTTGTTTAAAAGTAA-ATATAATAAATAATGACCCGTATGGT
1 TGTGAAAACGTAAAACACAAATGCTTGTTTAAAAATAACATACAATAAAAAATAACCCGTATGGT
14216070 TTGAAACTAATTATGCAACTAATATAGATAATAAATT
66 TTGAAACTAATTATGCAACTAATATAGATAATAAATT
14216107 ATATATACTA
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
108 56 0.62
109 35 0.38
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.30
Consensus pattern (109 bp):
TGTGAAAACGTAAAACACAAATGCTTGTTTAAAAATAACATACAATAAAAAATAACCCGTATGGT
TTGAAACTAATTATGCAACTAATATAGATAATAAATTGTATGCA
Found at i:14216555 original size:21 final size:21
Alignment explanation
Indices: 14216513--14216557 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14216503 GTTAATAAAT
* *
14216513 AAATAAAATCAGATAAATAAA
1 AAATAAAATCAGAAAAAGAAA
14216534 AAATAAAAT-ATGAAAAAGAAA
1 AAATAAAATCA-GAAAAAGAAA
14216555 AAA
1 AAA
14216558 GAAATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (21 bp):
AAATAAAATCAGAAAAAGAAA
Found at i:14220649 original size:21 final size:21
Alignment explanation
Indices: 14220624--14220664 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14220614 TACTAGGTAG
14220624 ATAAAAAATGAATAC-TACGAT
1 ATAAAAAAT-AATACATACGAT
*
14220645 ATAAAGAATAATACATACGA
1 ATAAAAAATAATACATACGA
14220665 AGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAAAAATAATACATACGAT
Found at i:14221287 original size:25 final size:24
Alignment explanation
Indices: 14221241--14221295 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
14221231 ACATATATAT
*
14221241 ATAAAAAACAATAAATAATATAAAA
1 ATAAAAAACAATAAAGAATAT-AAA
* * * *
14221266 ATAAAACATAATAAAGATTATATA
1 ATAAAAAACAATAAAGAATATAAA
14221290 ATAAAA
1 ATAAAA
14221296 TGTAATATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (24 bp):
ATAAAAAACAATAAAGAATATAAA
Found at i:14221399 original size:28 final size:25
Alignment explanation
Indices: 14221368--14221424 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
14221358 TATAAGTAAT
* *
14221368 TAATAAATATAATATATGTGAAATATAA
1 TAATAAATA-AAAAGATGT-AAA-ATAA
*
14221396 TAATATATAAAAAGATGTAAAATAA
1 TAATAAATAAAAAGATGTAAAATAA
14221421 TAAT
1 TAAT
14221425 TTAAGGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 8 0.31
26 3 0.12
27 7 0.27
28 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (25 bp):
TAATAAATAAAAAGATGTAAAATAA
Found at i:14221464 original size:20 final size:21
Alignment explanation
Indices: 14221433--14221510 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 21
14221423 ATTTAAGGGA
14221433 AATAAT-ATATATAAT-AAAT
1 AATAATAATATATAATAAAAT
*
14221452 AATAATAATATATAATCAAA-
1 AATAATAATATATAATAAAAT
* *
14221472 AATAATACT-CATAATAAAAT
1 AATAATAATATATAATAAAAT
*
14221492 AATTTTATAATATATAATA
1 AA--TAATAATATATAATA
14221511 TAAAAGTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.30
20 19 0.40
21 3 0.06
22 5 0.11
23 6 0.13
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAATAATATATAATAAAAT
Found at i:14221490 original size:17 final size:15
Alignment explanation
Indices: 14221449--14221522 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 15
14221439 ATATATAATA
14221449 AATAATAATAATATAT
1 AATAA-AATAATATAT
14221465 AATCAAAAATAATACTCAT
1 AAT--AAAATAATA-T-AT
*
14221484 AATAAAATAATTTTAT
1 AATAAAATAA-TATAT
* *
14221500 AAT-ATATAATATAA
1 AATAAAATAATATAT
14221514 AAGTAAAAT
1 AA-TAAAAT
14221523 TAAAATAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
14 5 0.11
15 6 0.13
16 11 0.24
17 15 0.33
18 4 0.09
19 5 0.11
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (15 bp):
AATAAAATAATATAT
Found at i:14222904 original size:10 final size:10
Alignment explanation
Indices: 14222844--14222940 Score: 61
Period size: 10 Copynumber: 8.8 Consensus size: 10
14222834 AATTTGGGCT
14222844 TTTACATATAA
1 TTTA-ATATAA
*
14222855 TTTAATAAAA
1 TTTAATATAA
*
14222865 ATTATATATAA
1 TTTA-ATATAA
14222876 TTTAATA-ACA
1 TTTAATATA-A
*
14222886 TTCTTAATATAT
1 -T-TTAATATAA
14222898 TTTAATATAA
1 TTTAATATAA
*
14222908 TTTAAAATAAAA
1 TTT--AATATAA
14222920 TATTAATATATA
1 T-TTAATATA-A
14222932 TATTAATAT
1 T-TTAATAT
14222941 TTTATATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
9 1 0.01
10 23 0.33
11 19 0.28
12 23 0.33
13 3 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (10 bp):
TTTAATATAA
Found at i:14222939 original size:18 final size:17
Alignment explanation
Indices: 14222921--14222977 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
14222911 AAAATAAAAT
14222921 ATTAATATATATATTAA
1 ATTAATATATATATTAA
* *
14222938 TATT-TTATATTAAATTAA
1 -ATTAATATA-TATATTAA
*
14222956 ATTAATATTTTATATTAA
1 ATTAATA-TATATATTAA
14222974 ATTA
1 ATTA
14222978 TTTAAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.23
18 23 0.74
19 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATATATATATTAA
Found at i:14222959 original size:23 final size:23
Alignment explanation
Indices: 14222919--14222977 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
14222909 TTAAAATAAA
*
14222919 ATATTAATATATATATTAATATTTT
1 ATATTAA-AT-TAAATTAATATTTT
14222944 ATATTAAATTAAATTAATATTTT
1 ATATTAAATTAAATTAATATTTT
14222967 ATATTAAATTA
1 ATATTAAATTA
14222978 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 24 0.73
24 2 0.06
25 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTAAATTAAATTAATATTTT
Found at i:14222978 original size:10 final size:11
Alignment explanation
Indices: 14222919--14223001 Score: 57
Period size: 13 Copynumber: 7.5 Consensus size: 11
14222909 TTAAAATAAA
14222919 ATATTAATATAT
1 ATATTAATAT-T
14222931 ATATTAATATTTT
1 ATATTAATA--TT
14222944 ATATTAA-ATT
1 ATATTAATATT
*
14222954 AAATTAATATTTT
1 ATATTAATA--TT
14222967 ATATTAA-ATT
1 ATATTAATATT
*
14222977 AT-TTAA-AAT
1 ATATTAATATT
* *
14222986 ATATTATTTTT
1 ATATTAATATT
14222997 ATATT
1 ATATT
14223002 TTTTGAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
9 8 0.14
10 15 0.26
11 7 0.12
12 11 0.19
13 16 0.28
14 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTAATATT
Found at i:14226186 original size:20 final size:20
Alignment explanation
Indices: 14226153--14226192 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14226143 TAGTTTTTTA
*
14226153 TAATTTATAAATTTATAAAT
1 TAATTTATAAATTTAAAAAT
**
14226173 TAATTTATTTATTTAAAAAT
1 TAATTTATAAATTTAAAAAT
14226193 AATAAAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTTATAAATTTAAAAAT
Found at i:14226237 original size:16 final size:17
Alignment explanation
Indices: 14226218--14226258 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
14226208 TAATCTTTTA
*
14226218 AAAATTGTAAAAAT-AT
1 AAAATTATAAAAATAAT
14226234 AAAA-TATAAAAATAAT
1 AAAATTATAAAAATAAT
14226250 AAAATTATA
1 AAAATTATA
14226259 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:14227472 original size:17 final size:17
Alignment explanation
Indices: 14227425--14227482 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 17
14227415 TTTATATATA
*
14227425 TTATATATA-TATAG-T
1 TTATATATATTTTAGAT
14227440 TTATA-AT-TTTTA-AT
1 TTATATATATTTTAGAT
14227454 TTATATATATTTTAGAT
1 TTATATATATTTTAGAT
*
14227471 TTTTATATATTT
1 TTATATATATTT
14227483 ATTTTTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 11 0.31
15 7 0.19
16 5 0.14
17 13 0.36
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATATATTTTAGAT
Found at i:14231673 original size:6 final size:6
Alignment explanation
Indices: 14231664--14231690 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14231654 CACCGTAAGG
14231664 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
14231691 GCGGTATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:14232903 original size:11 final size:11
Alignment explanation
Indices: 14232878--14232919 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 11
14232868 TATATATATA
14232878 TAATAATAA--
1 TAATAATAACT
14232887 TAATAATAACT
1 TAATAATAACT
14232898 TAATAATATACT
1 TAATAATA-ACT
14232910 TATATAATAA
1 TA-ATAATAA
14232920 GTAAATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
11 8 0.28
12 6 0.21
13 6 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAACT
Found at i:14233181 original size:5 final size:5
Alignment explanation
Indices: 14233171--14233195 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14233161 TTTATTTATT
14233171 TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA
14233196 ATTTAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TATCA
Found at i:14234417 original size:30 final size:30
Alignment explanation
Indices: 14234360--14234417 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14234350 ACAAATTTCA
* *
14234360 TTTTATTTTTATTTTAATTTGGCCCTAAAC
1 TTTTATTTTTATTTCAATTTAGCCCTAAAC
* *
14234390 TTTTATTTTTGTTTCAATTTAGTCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
14234418 TGGCCATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAAAC
Found at i:14234727 original size:14 final size:14
Alignment explanation
Indices: 14234644--14234737 Score: 68
Period size: 14 Copynumber: 6.5 Consensus size: 14
14234634 GTAAAAATAG
14234644 TATATATTATTTTTAT
1 TATATA-TA-TTTTAT
*
14234660 T-TATATATTAT-T
1 TATATATATTTTAT
*
14234672 TACCATATTATTTATAT
1 TA-TATA-TATTT-TAT
**
14234689 TATCATATATTCCAT
1 TAT-ATATATTTTAT
*
14234704 T-TATAAATTTTAT
1 TATATATATTTTAT
14234717 TATATATATTTTAT
1 TATATATATTTTAT
14234731 TATATAT
1 TATATAT
14234738 TAACCCTTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
12 2 0.03
13 12 0.20
14 24 0.39
15 11 0.18
16 6 0.10
17 6 0.10
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATATATTTTAT
Found at i:14234784 original size:7 final size:7
Alignment explanation
Indices: 14234748--14234789 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
14234738 TAACCCTTAC
14234748 ATTATTT
1 ATTATTT
14234755 -TTATTT
1 ATTATTT
*
14234761 CATTATAT
1 -ATTATTT
14234769 ATTATTTT
1 ATTA-TTT
14234777 ATTATTT
1 ATTATTT
14234784 ATTATT
1 ATTATT
14234790 AGTATATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.20
7 13 0.43
8 11 0.37
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTATTT
Found at i:14235237 original size:14 final size:14
Alignment explanation
Indices: 14235218--14235244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14235208 TTTGCATAAA
14235218 ATATTGTTATATTT
1 ATATTGTTATATTT
14235232 ATATTGTTATATT
1 ATATTGTTATATT
14235245 CATTGTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
ATATTGTTATATTT
Found at i:14235306 original size:64 final size:62
Alignment explanation
Indices: 14235232--14235353 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 62
14235222 TGTTATATTT
* * *
14235232 ATATTGTTATATTCATTGTTTTCCATGTTATATTTTGCATAAAATGTTATTATGTATGTAATCA
1 ATATTATTATATTCATTGTTTTCCATGATATATCTTGCATAAAATGTTA--ATGTATGTAATCA
* * *
14235296 ATATTATTATATTCATTGTTTTCTATGATGTATCTTGCATGAAATGTTAATGTATGTA
1 ATATTATTATATTCATTGTTTTCCATGATATATCTTGCATAAAATGTTAATGTATGTA
14235354 TATTTAGGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 9 0.17
64 43 0.83
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (62 bp):
ATATTATTATATTCATTGTTTTCCATGATATATCTTGCATAAAATGTTAATGTATGTAATCA
Found at i:14242950 original size:14 final size:14
Alignment explanation
Indices: 14242931--14242957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14242921 TTTGCATAAA
14242931 ATATTGTTATATTT
1 ATATTGTTATATTT
14242945 ATATTGTTATATT
1 ATATTGTTATATT
14242958 CATTGTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
ATATTGTTATATTT
Found at i:14247818 original size:8 final size:8
Alignment explanation
Indices: 14247805--14247830 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14247795 AAAACCAGGC
14247805 AAAAGATA
1 AAAAGATA
14247813 AAAAGATA
1 AAAAGATA
14247821 AAAAGATA
1 AAAAGATA
14247829 AA
1 AA
14247831 CAGGGAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAGATA
Found at i:14261051 original size:46 final size:46
Alignment explanation
Indices: 14261000--14261308 Score: 474
Period size: 46 Copynumber: 6.7 Consensus size: 46
14260990 TTCAAATGTG
*
14261000 AAGACCATGGTTGAAAGATACCATGGAAACATGACAGGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
14261046 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
* * *
14261092 AAGACCATGGTTGAAAGATACCATGGTAACGTGACAAGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
* *
14261138 AAGACCATGGTTAAAAGATACCATGGCAACATGACAGAAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
*
14261184 AAGACCATGGTTGAAAGATACCATGGCAACATGACAAGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
* * * *
14261230 AAGACCATGGTTGAAAGATACCATTGAAACATGACAGAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
* * * * *
14261276 AAGACCGTAGTTGAAAGACACTATGGCATCATG
1 AAGACCATGGTTGAAAGATACCATGGCAACATG
14261309 TCAAAGATAA
Statistics
Matches: 239, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 239 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
Found at i:14261422 original size:26 final size:25
Alignment explanation
Indices: 14261391--14261460 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
14261381 ATCAGATGAT
*
14261391 GAATGGTTATATGAATTGGTTGTACAA
1 GAATGGTTATATGAAAT-GTT-TACAA
* *
14261418 -AATGGTTGTGTGAAATGTTTACAA
1 GAATGGTTATATGAAATGTTTACAA
14261442 GAATTGGTTATATGGAAAT
1 GAA-TGGTTATAT-GAAAT
14261461 ATATGTACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.14
25 5 0.14
26 20 0.57
27 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (25 bp):
GAATGGTTATATGAAATGTTTACAA
Found at i:14264058 original size:20 final size:20
Alignment explanation
Indices: 14264030--14264073 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
14264020 TACCAACTTG
*
14264030 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
* *
14264050 CAACATACCATAGTTTTTCA
1 CAACATACCATAATCTTTCA
14264070 CAAC
1 CAAC
14264074 TTAAACATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:14264223 original size:43 final size:42
Alignment explanation
Indices: 14264159--14264272 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
14264149 TACCATACCA
* * * **
14264159 ATGCCATATCTCAGATATGGTCTTACATGGGACCTCATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAACCTCATATCG
* * * *
14264201 ATGCCAATAGCCCAGCTATGGTCTTATACGAAATCTCATATTG
1 ATGCC-ATAGCCCAGATATGGTCTTACACGAAACCTCATATCG
* *
14264244 ATTCCATATCCCAGATATGGTCTTACACG
1 ATGCCATAGCCCAGATATGGTCTTACACG
14264273 TAATCTCAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACGAAACCTCATATCG
Found at i:14264278 original size:42 final size:42
Alignment explanation
Indices: 14264159--14264280 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
14264149 TACCATACCA
* * ** *
14264159 ATGCCATATCTCAGATATGGTCTTACATGGGACCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
14264201 ATGCCAATAGCCCAGCTATGGTCTTATACGAAATCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
14264244 ATTCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
14264281 ACTAACATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 33 0.51
43 32 0.49
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:14292726 original size:3 final size:3
Alignment explanation
Indices: 14292718--14292748 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
14292708 ATAATATCTT
14292718 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
14292749 CATCATCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:14296096 original size:3 final size:3
Alignment explanation
Indices: 14296088--14296119 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14296078 AAAGCCTGTC
14296088 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14296120 TTCTTTTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14308196 original size:231 final size:232
Alignment explanation
Indices: 14307774--14308246 Score: 876
Period size: 231 Copynumber: 2.0 Consensus size: 232
14307764 GCTACAAAAA
* *
14307774 AACCAGTCTCTGACATTTCTAAATGAACAGCTTCATAATCCCTAACCTTTCTTGAATTTTCTTCA
1 AACCAATCTCTGACATTTCTAAATGAACAGCTTCATAATCCCTAACCTTGCTTGAATTTTCTTCA
*
14307839 ATTTTTTTTCTGGTAGTTTGTGCTTTTTAGTAAGAAGATCATTGGGTAAGTTTAAGATCTAGAAT
66 ATTTTTTTTCTGGTAGTTTGTGCTTTTTAGT-A-AAGATCATTGGGTAAGTTTAAGATCTAGAAC
14307904 CCTAGAACAGATTCGACAGGTAATCTTTCTAACAAAAGGACAACATATGTTTGTTTCAATTTAAG
129 CCTAGAACAGATTCGACAGGTAATCTTTCTAACAAAAGGACAACATATGTTTGTTTCAATTTAAG
14307969 GCCTATTACAATCAGGTATTAATACTTGCAGTTGCGTAG
194 GCCTATTACAATCAGGTATTAATACTTGCAGTTGCGTAG
14308008 AACCAATCTCTGACATTTCTAAATGAACAGCTTCATAATCCCTAACCTTGCTTGAATTTTCTTCA
1 AACCAATCTCTGACATTTCTAAATGAACAGCTTCATAATCCCTAACCTTGCTTGAATTTTCTTCA
*
14308073 TTTTTTTTTCTGGTAGTTTGTGCTTTTTAGT-AAGATCATTGGGTAAGTTTAAGATCTAGAACCC
66 ATTTTTTTTCTGGTAGTTTGTGCTTTTTAGTAAAGATCATTGGGTAAGTTTAAGATCTAGAACCC
14308137 TAGAACAGATTCGACAGGTAATCTTTCTAACAAAAGGACAACATATGTTTGTTTCAATTTAAGGC
131 TAGAACAGATTCGACAGGTAATCTTTCTAACAAAAGGACAACATATGTTTGTTTCAATTTAAGGC
*
14308202 CTATTACAATCAGGTATTAATACTTGCAGTTGCTTAG
196 CTATTACAATCAGGTATTAATACTTGCAGTTGCGTAG
14308239 AACCAATC
1 AACCAATC
14308247 ATTGGTCCTT
Statistics
Matches: 234, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
231 141 0.60
234 93 0.40
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (232 bp):
AACCAATCTCTGACATTTCTAAATGAACAGCTTCATAATCCCTAACCTTGCTTGAATTTTCTTCA
ATTTTTTTTCTGGTAGTTTGTGCTTTTTAGTAAAGATCATTGGGTAAGTTTAAGATCTAGAACCC
TAGAACAGATTCGACAGGTAATCTTTCTAACAAAAGGACAACATATGTTTGTTTCAATTTAAGGC
CTATTACAATCAGGTATTAATACTTGCAGTTGCGTAG
Found at i:14310535 original size:28 final size:28
Alignment explanation
Indices: 14310495--14310552 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
14310485 AAGAACTACC
14310495 TTCTTTTTAGCATTTTTCCCCTGCTAAG
1 TTCTTTTTAGCATTTTTCCCCTGCTAAG
14310523 TTCTTTTTAGCATTTTTCCCCTGCTAAG
1 TTCTTTTTAGCATTTTTCCCCTGCTAAG
14310551 TT
1 TT
14310553 TTCTTCTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.14, C:0.24, G:0.10, T:0.52
Consensus pattern (28 bp):
TTCTTTTTAGCATTTTTCCCCTGCTAAG
Found at i:14322545 original size:15 final size:15
Alignment explanation
Indices: 14322522--14322595 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
14322512 TAATATTTAC
14322522 GGTTGTAGGGTTTATG
1 GGTT-TAGGGTTTATG
14322538 GGTTTAGGGTTTA-G
1 GGTTTAGGGTTTATG
* *
14322552 GATGTAGGGTTT-TG
1 GGTTTAGGGTTTATG
* *
14322566 GATTTTAAGGTTT-TAG
1 G-GTTTAGGGTTTAT-G
*
14322582 GGTTTAGTGTTTAT
1 GGTTTAGGGTTTAT
14322596 ATATATATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
14 13 0.28
15 26 0.57
16 7 0.15
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.47
Consensus pattern (15 bp):
GGTTTAGGGTTTATG
Found at i:14322549 original size:7 final size:7
Alignment explanation
Indices: 14322517--14322594 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
14322507 ATTTTTAATA
*
14322517 TTTACGG
1 TTTAGGG
14322524 TTGTAGGG
1 TT-TAGGG
14322532 TTTATGGG
1 TTTA-GGG
14322540 TTTAGGG
1 TTTAGGG
*
14322547 TTTAGGA
1 TTTAGGG
*
14322554 TGTAGGG
1 TTTAGGG
* *
14322561 TTTTGGAT
1 TTTAGG-G
*
14322569 TTTAAGGT
1 TTT-AGGG
14322577 TTTAGGG
1 TTTAGGG
*
14322584 TTTAGTG
1 TTTAGGG
14322591 TTTA
1 TTTA
14322595 TATATATATT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 35 0.61
8 20 0.35
9 2 0.04
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:14324474 original size:19 final size:17
Alignment explanation
Indices: 14324429--14324466 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14324419 AATTGTATAA
14324429 AATTAAAATTCATGTAT
1 AATTAAAATTCATGTAT
* *
14324446 CATTAAAATTCATGTGT
1 AATTAAAATTCATGTAT
14324463 AATT
1 AATT
14324467 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (17 bp):
AATTAAAATTCATGTAT
Found at i:14327848 original size:21 final size:21
Alignment explanation
Indices: 14327824--14327865 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14327814 AACTTCCTAC
*
14327824 TCCTACTAACTAGCTAACAAT
1 TCCTACTAACAAGCTAACAAT
14327845 TCCTACTAACAAGCTAACAAT
1 TCCTACTAACAAGCTAACAAT
14327866 CTCTCTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.29, G:0.05, T:0.26
Consensus pattern (21 bp):
TCCTACTAACAAGCTAACAAT
Found at i:14330363 original size:21 final size:22
Alignment explanation
Indices: 14330317--14330364 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14330307 ACTAGAAGAT
*
14330317 AATTGAAGAAAAAGGTGTTTAG
1 AATTGAAGAAAAAGATGTTTAG
*
14330339 AATTGAATAAAAAGATGTTTA-
1 AATTGAAGAAAAAGATGTTTAG
14330360 AATTG
1 AATTG
14330365 GTTATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (22 bp):
AATTGAAGAAAAAGATGTTTAG
Found at i:14331019 original size:26 final size:25
Alignment explanation
Indices: 14330954--14331019 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
14330944 GGGTTCTCTA
*
14330954 AAGCTAGTGTTAGCAGCATCGAACC
1 AAGCTAGTGTTAGCAACATCGAACC
* * * *
14330979 AAGATAGTGTTAGCAACCTTGATCC
1 AAGCTAGTGTTAGCAACATCGAACC
14331004 GAAGCTAGTGTTAGCA
1 -AAGCTAGTGTTAGCA
14331020 GCCCGATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 20 0.59
26 14 0.41
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
AAGCTAGTGTTAGCAACATCGAACC
Found at i:14332068 original size:39 final size:40
Alignment explanation
Indices: 14332025--14332158 Score: 141
Period size: 39 Copynumber: 3.5 Consensus size: 40
14332015 ACTAGCTCGA
* * *
14332025 AGCCTGCGGGA-CTTTAGCCCAGACATATTTCCAGCACGT
1 AGCCTGCGGGACCTTAAGCCCAGACATAATTCCAGCACAT
* * *
14332064 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCAGACATAATTCCAGCACAT
* * * *
14332103 AGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGGACCTTAAGCCCAGACATAATTCCAGCACAT
*
14332142 AGCCTGC-GGACCCTAAG
1 AGCCTGCGGGACCTTAAG
14332159 TTCGGATATA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 3 0.03
39 84 0.97
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
AGCCTGCGGGACCTTAAGCCCAGACATAATTCCAGCACAT
Found at i:14332159 original size:39 final size:39
Alignment explanation
Indices: 14332053--14332168 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
14332043 CCAGACATAT
* *
14332053 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
14332092 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
14332131 TTCCAGCACATAGCCTGCGGACCCTAAGTTCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
14332169 CATCACTGAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:14334519 original size:22 final size:21
Alignment explanation
Indices: 14334479--14334519 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14334469 TTTGTTCTTC
*
14334479 TTTTCTTATTTCAATTAATAT
1 TTTTCTTATTTCAAATAATAT
*
14334500 TTTTTTTATTTCAAAATAAT
1 TTTTCTTATTTC-AAATAAT
14334520 GTAAATTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTCTTATTTCAAATAATAT
Found at i:14336112 original size:64 final size:64
Alignment explanation
Indices: 14336032--14336400 Score: 624
Period size: 64 Copynumber: 5.8 Consensus size: 64
14336022 ATATATATTT
14336032 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
14336096 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
14336160 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
14336224 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* *
14336288 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
* *
14336352 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGTA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
14336401 GAATGTTTGT
Statistics
Matches: 297, Mismatches: 3, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
61 1 0.00
62 14 0.05
63 4 0.01
64 267 0.90
65 11 0.04
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:14336579 original size:41 final size:41
Alignment explanation
Indices: 14336520--14336800 Score: 336
Period size: 41 Copynumber: 6.9 Consensus size: 41
14336510 ATATGAGATT
* * * *
14336520 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14336561 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14336602 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
14336644 -TCGGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14336684 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14336725 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
14336767 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
14336801 TTTTATATAG
Statistics
Matches: 207, Mismatches: 26, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
40 9 0.04
41 182 0.88
42 16 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:14336820 original size:123 final size:123
Alignment explanation
Indices: 14336524--14336800 Score: 527
Period size: 123 Copynumber: 2.3 Consensus size: 123
14336514 GAGATTTTCA
14336524 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
1 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
14336589 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
66 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
14336647 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
1 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
14336712 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
66 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
** *
14336770 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 GGCTTAATGCCTAGCAGGCTTGATGCCGGTG
14336801 TTTTATATAG
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 151 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (123 bp):
GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
Found at i:14337493 original size:14 final size:15
Alignment explanation
Indices: 14337469--14337503 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14337459 TACTTTAATC
14337469 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
14337484 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
14337499 ATGGT
1 ATGGT
14337504 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:14343317 original size:64 final size:64
Alignment explanation
Indices: 14343237--14343605 Score: 624
Period size: 64 Copynumber: 5.8 Consensus size: 64
14343227 ATATATATTT
14343237 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
14343301 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
14343365 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
14343429 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* *
14343493 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
* *
14343557 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGTA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
14343606 GAATGTTTGT
Statistics
Matches: 297, Mismatches: 3, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
61 1 0.00
62 14 0.05
63 4 0.01
64 267 0.90
65 11 0.04
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:14343784 original size:41 final size:41
Alignment explanation
Indices: 14343725--14344005 Score: 336
Period size: 41 Copynumber: 6.9 Consensus size: 41
14343715 ATATGAGATT
* * * *
14343725 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14343766 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14343807 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
14343849 -TCGGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14343889 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
14343930 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
14343972 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
14344006 TTTTATATAG
Statistics
Matches: 207, Mismatches: 26, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
40 9 0.04
41 182 0.88
42 16 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:14344025 original size:123 final size:123
Alignment explanation
Indices: 14343729--14344005 Score: 527
Period size: 123 Copynumber: 2.3 Consensus size: 123
14343719 GAGATTTTCA
14343729 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
1 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
14343794 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
66 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
14343852 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
1 GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
14343917 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
66 GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
** *
14343975 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 GGCTTAATGCCTAGCAGGCTTGATGCCGGTG
14344006 TTTTATATAG
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 151 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (123 bp):
GGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTGAT
GCCGGTGAATTAATTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGAATCG
Found at i:14344697 original size:14 final size:15
Alignment explanation
Indices: 14344673--14344707 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14344663 TACTTTAATC
14344673 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
14344688 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
14344703 ATGGT
1 ATGGT
14344708 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:14345761 original size:19 final size:19
Alignment explanation
Indices: 14345734--14345771 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14345724 GTAAATTTCG
14345734 TATGAACTTACTAAGCATT
1 TATGAACTTACTAAGCATT
*
14345753 TATGGACTTACTAAGCATT
1 TATGAACTTACTAAGCATT
14345772 CAAAATGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
TATGAACTTACTAAGCATT
Found at i:14348105 original size:22 final size:22
Alignment explanation
Indices: 14348079--14348137 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
14348069 CCTGAGCTGA
14348079 TAAACAGTAAGCTCCGAAGAGC
1 TAAACAGTAAGCTCCGAAGAGC
* *
14348101 TAAACGGTAAGCCCCGAAGAGC
1 TAAACAGTAAGCTCCGAAGAGC
14348123 TGAAACAGTAAGCTC
1 T-AAACAGTAAGCTC
14348138 ATATAAGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (22 bp):
TAAACAGTAAGCTCCGAAGAGC
Found at i:14351971 original size:24 final size:24
Alignment explanation
Indices: 14351922--14351986 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
14351912 TACAAACTTA
* * *
14351922 CCATAAAGGCACCTGCAAAATCTG
1 CCATAAAGGCACTTACAAAATATG
*
14351946 CCATAAAGGCACTTACAGAATATG
1 CCATAAAGGCACTTACAAAATATG
* *
14351970 CCACAAGGGCACTTACA
1 CCATAAAGGCACTTACA
14351987 TAATTGATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (24 bp):
CCATAAAGGCACTTACAAAATATG
Found at i:14355264 original size:43 final size:43
Alignment explanation
Indices: 14355144--14355291 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
14355134 ATTTCCGAAT
* * * * * * * *
14355144 ATGGTCTTACATGTTATCACATATCGATGCCACTATCCCAGAC
1 ATGGTCTTACACGTAATCATATAACAATGCCAATGTCTCAGAC
* * * *
14355187 AGGGTCTTACACGAAATCATATAACGATGTCAATGTC-CAAGAC
1 ATGGTCTTACACGTAATCATATAACAATGCCAATGTCTC-AGAC
14355230 ATGGTCTTACACGTAATCATA-ATACAATGCCAATGTCTCAGAC
1 ATGGTCTTACACGTAATCATATA-ACAATGCCAATGTCTCAGAC
* *
14355273 ATGGTTTTACATGTAATCA
1 ATGGTCTTACACGTAATCA
14355292 GATCTCGGTA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 84 0.97
44 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCATATAACAATGCCAATGTCTCAGAC
Found at i:14360555 original size:314 final size:316
Alignment explanation
Indices: 14359810--14360670 Score: 1358
Period size: 318 Copynumber: 2.7 Consensus size: 316
14359800 TTGAAAATTA
* * * *
14359810 ACACATTACTAGGTATAAATACTACTTACGTGCTAATTACATTATGGA-AAAGCAAATAATGGAG
1 ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTA-CGACAAAGAAAATAATGGAG
* *
14359874 AGATGATTTATAAACAGCATGAAAATAAATTCTAAAGTAAACTATCTAAATTTCAATCAAATTGT
65 AGATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGT
* *
14359939 AATAGCTCGGTTTTCAATAGTGTCAGAAACAGTGGTATTAGAACCACAGTTTTGATGAGTGAGTC
130 AATAGCTCGGTTTTCAATAGTGTCAGAAACAGTGGTATTAGGACCACGGTTTTGATGAGTGAGTC
14360004 AATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTAA
195 AATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTAA
** * *
14360069 TTTGGTTGAAAAGTTAGCAATGTAGATGTAAGGACTAAACTGTAAGAATGGTAAAAGTT
260 TTTCATT--AAAGCTAGCAATGTAGATATAAGGACTAAACTGTAAGAATGGTAAAAGTT
* * * *
14360128 ACACATTACTAGGTATAAATACTACTTACGTAGTAAATATAGTACGACAAAGAAAATAATAGAGA
1 ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGAAAATAATGGAGA
*
14360193 GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAATTTGTA
66 GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGTA
*
14360258 AT-GACTCGATTTTCAATAGTGTC-GAAAACAGTGGTATTAGGACCACGGTTTTGATGAGTGAGT
131 ATAG-CTCGGTTTTCAATAGTGTCAG-AAACAGTGGTATTAGGACCACGGTTTTGATGAGTGAGT
14360321 CAATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTA
194 CAATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTA
* * *
14360386 ATTTCATT-TA-CTAGTAATGTAGATATAAGGACTAAACTGTAAGTATGGTAAAAGTT
259 ATTTCATTAAAGCTAGCAATGTAGATATAAGGACTAAACTGTAAGAATGGTAAAAGTT
*
14360442 ACACATTATTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGAAAATAATGGAGA
1 ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGAAAATAATGGAGA
* *
14360507 TATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTTAATCAAATTGTA
66 GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGTA
* * * * *
14360572 ACAGCTCGGTTTTCAGT--TGTCAGAAATAGTGGTATTAGGACCATGATTTTGATGAGTGAGTCA
131 ATAGCTCGGTTTTCAATAGTGTCAGAAACAGTGGTATTAGGACCACGGTTTTGATGAGTGAGTCA
*
14360635 ATAAATATTATTCATTAATATTTACAAGTCCGTTAT
196 ATAAATATTATTCATTAATATTTACAAGTCTGTTAT
14360671 TGTAACGCCC
Statistics
Matches: 502, Mismatches: 36, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
312 76 0.15
313 1 0.00
314 176 0.35
315 2 0.00
317 4 0.01
318 243 0.48
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (316 bp):
ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGAAAATAATGGAGA
GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGTA
ATAGCTCGGTTTTCAATAGTGTCAGAAACAGTGGTATTAGGACCACGGTTTTGATGAGTGAGTCA
ATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTAAT
TTCATTAAAGCTAGCAATGTAGATATAAGGACTAAACTGTAAGAATGGTAAAAGTT
Done.