Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 127 of 187
Found at i:37862312 original size:28 final size:27
Alignment explanation
Indices: 37862235--37862312 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
37862225 TATAATATGT
* *
37862235 ATAAATTAAAAGGTTAAAATAAATTTGA
1 ATAAATTAAAATGTTAAAAT-AAGTTGA
**
37862263 ATAAATTAACAATGTTGGAATAAGTTGA
1 ATAAATTAA-AATGTTAAAATAAGTTGA
37862291 GATAAATTAAAATGTTAAAATA
1 -ATAAATTAAAATGTTAAAATA
37862313 TTGGAAAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 25 0.60
29 17 0.40
ACGTcount: A:0.54, C:0.01, G:0.13, T:0.32
Consensus pattern (27 bp):
ATAAATTAAAATGTTAAAATAAGTTGA
Found at i:37862615 original size:24 final size:24
Alignment explanation
Indices: 37862579--37862624 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
37862569 TGGAAATTTA
* *
37862579 AATAATGATACATAATAAATTTTG
1 AATAATAAAACATAATAAATTTTG
**
37862603 AATAATAAAACATTGTAAATTT
1 AATAATAAAACATAATAAATTT
37862625 ATATAATATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
AATAATAAAACATAATAAATTTTG
Found at i:37863343 original size:20 final size:19
Alignment explanation
Indices: 37863309--37863376 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 19
37863299 TTTTTCGTAT
37863309 AGAAAATAGAAAGAAACAA
1 AGAAAATAGAAAGAAACAA
*
37863328 AGAAAATAGTAAAGAAACAC
1 AGAAAATAG-AAAGAAACAA
*
37863348 AGAGAAAGAGAAAG-AA-AA
1 AGA-AAATAGAAAGAAACAA
*
37863366 AGAAAAGAGAA
1 AGAAAATAGAA
37863377 CCACCTTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.18
18 4 0.09
19 11 0.25
20 16 0.36
21 5 0.11
ACGTcount: A:0.71, C:0.04, G:0.21, T:0.04
Consensus pattern (19 bp):
AGAAAATAGAAAGAAACAA
Found at i:37863788 original size:26 final size:27
Alignment explanation
Indices: 37863759--37863809 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
37863749 CCACATTAGC
* *
37863759 TGGGCTTGGTTAATTGGGT-TTTGGTT
1 TGGGCTAGGTTAAGTGGGTATTTGGTT
37863785 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGCTAGGTTAAGTGGGTATTTGG
37863810 GATCTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.12, C:0.04, G:0.41, T:0.43
Consensus pattern (27 bp):
TGGGCTAGGTTAAGTGGGTATTTGGTT
Found at i:37863929 original size:16 final size:15
Alignment explanation
Indices: 37863890--37863936 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
37863880 CTTTTAATAA
37863890 TTTTGTTT-TTATTT
1 TTTTGTTTATTATTT
*
37863904 TTATTTTTTATATATTT
1 TT-TTGTTTAT-TATTT
37863921 TTTTGTTTATTTATTT
1 TTTTGTTTA-TTATTT
37863937 GATTTGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 5 0.19
16 12 0.44
17 8 0.30
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTGTTTATTATTT
Found at i:37864558 original size:176 final size:175
Alignment explanation
Indices: 37864263--37864723 Score: 778
Period size: 176 Copynumber: 2.6 Consensus size: 175
37864253 TCTATTCCAT
* *
37864263 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTTAGTGAAATAGGA
1 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
*
37864328 TTACTTGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCATT
66 TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCATT
37864393 CCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
131 CCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
* * *
37864438 TGTAACTTCAGAAAGATAAGATCCTTTTATCTTAATCCGTTCCACTGTAATATCAGGGAAATAGG
1 TGTAACTTCAGAGAGATAAGATCC-TTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGG
* * * *
37864503 ATTACTGGCTTCAGTCTGCTCCGCTGTAATATCAGGGAGATAAGATCTGTAATTCTTCGGTCTAT
65 ATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCAT
*
37864568 TCCATTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
130 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
* *
37864614 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAAGGAAATAGGA
1 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
* *
37864679 TTACTGGCTTCAATCCGCTCCGCTGCAATCTCAGGGAGATAAGAT
66 TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
37864724 TCACCATTTT
Statistics
Matches: 265, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 101 0.38
176 164 0.62
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (175 bp):
TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCATT
CCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
Found at i:37865577 original size:26 final size:27
Alignment explanation
Indices: 37865548--37865598 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
37865538 CCACATTAGC
*
37865548 TGGGATAGGTTAATTGGGT-TTTGGTT
1 TGGGATAGGTTAAGTGGGTATTTGGTT
*
37865574 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGATAGGTTAAGTGGGTATTTGG
37865599 GATCTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (27 bp):
TGGGATAGGTTAAGTGGGTATTTGGTT
Found at i:37866415 original size:12 final size:11
Alignment explanation
Indices: 37866386--37866429 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
37866376 AATCATTTAA
*
37866386 TAATAAAATAA
1 TAATAAAATAT
*
37866397 TACTAAAAATAT
1 TAAT-AAAATAT
37866409 TAATAAAATAT
1 TAATAAAATAT
*
37866420 TAATTAAATA
1 TAATAAAATA
37866430 ACATTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:37868208 original size:27 final size:27
Alignment explanation
Indices: 37868169--37868523 Score: 497
Period size: 27 Copynumber: 13.3 Consensus size: 27
37868159 ATTCGTGGGC
* *
37868169 AAATGATCGAAATACCCTCGAACGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37868196 AAATGACCAAAATACTCC-CGAAGGGTA
1 AAATGACCGAAATAC-CCTCGAAGGGTA
*
37868223 AAATGA-TGTAAATACCCTCGAAGGGTA
1 AAATGACCG-AAATACCCTCGAAGGGTA
* *
37868250 AAATGAACGAAATACCCTCGAAGCGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
37868277 AAATGACCAAAATA-CCTCCCAATGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTA
* *
37868304 AAATAACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37868331 AAATGACCAAAATACCCTC-AAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
37868357 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37868384 AAATGACCGAAGTACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37868411 AAATGATCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37868437 AAATGACCGAAATACACTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
37868464 AAATGACCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37868490 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
37868517 AAATGAC
1 AAATGAC
37868524 TAAATGGTGA
Statistics
Matches: 290, Mismatches: 29, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
26 79 0.27
27 205 0.71
28 6 0.02
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:37868380 original size:53 final size:54
Alignment explanation
Indices: 37868169--37868523 Score: 497
Period size: 53 Copynumber: 6.6 Consensus size: 54
37868159 ATTCGTGGGC
* * *
37868169 AAATGATCGAAATACCCTCGAACGGTAAAATGACCAAAATACTCC-CGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATAC-CCTCGAAGGGTA
* * *
37868223 AAATGA-TGTAAATACCCTCGAAGGGTAAAATGAACGAAATACCCTCGAAGCGTA
1 AAATGACCG-AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* * * * *
37868277 AAATGACCAAAATA-CCTCCCAATGGTAAAATAACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
*
37868331 AAATGACCAAAATACCCTC-AAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* *
37868384 AAATGACCGAAGTACCCTCGAAGGGTAAAATGATCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
*
37868437 AAATGACCGAAATACACTCGAAGGGTAAAATGACCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
*
37868490 AAATGATCGAAATACCCTCGAAGGGTAAAATGAC
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGAC
37868524 TAAATGGTGA
Statistics
Matches: 271, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
53 148 0.55
54 120 0.44
55 3 0.01
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (54 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
Found at i:37868403 original size:80 final size:81
Alignment explanation
Indices: 37868169--37868523 Score: 515
Period size: 80 Copynumber: 4.4 Consensus size: 81
37868159 ATTCGTGGGC
* *
37868169 AAATGATCGAAATACCCTCGAACGGTAAAATGACCAAAATACTCC-CGAAGGGTAAAATGA-TGT
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATAC-CCTCGAAGGGTAAAATGACCG-
37868232 AAATACCCTCGAAGGGTA
64 AAATACCCTCGAAGGGTA
* * * * * *
37868250 AAATGAACGAAATACCCTCGAAGCGTAAAATGACCAAAATA-CCTCCCAATGGTAAAATAACTGA
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCT-CGAAGGGTAAAATGACCGA
37868314 AATACCCTCGAAGGGTA
65 AATACCCTCGAAGGGTA
* * *
37868331 AAATGACCAAAATACCCTC-AAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAA
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAA
*
37868395 GTACCCTCGAAGGGTA
66 ATACCCTCGAAGGGTA
* *
37868411 AAATGATCGAAATA-CCTCGAAGGGTAAAATGACCGAAATACACTCGAAGGGTAAAATGACCGAA
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAA
37868475 ATA-CCTCGAAGGGTA
66 ATACCCTCGAAGGGTA
37868490 AAATGATCGAAATACCCTCGAAGGGTAAAATGAC
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGAC
37868524 TAAATGGTGA
Statistics
Matches: 249, Mismatches: 19, Indels: 13
0.89 0.07 0.05
Matches are distributed among these distances:
79 32 0.13
80 127 0.51
81 88 0.35
82 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (81 bp):
AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAA
ATACCCTCGAAGGGTA
Found at i:37882663 original size:25 final size:25
Alignment explanation
Indices: 37882622--37882675 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
37882612 CTCGTGAGAA
* *
37882622 CATATCGATCTATAGCTCAAATGCG
1 CATATCGATCTACAGCTCAAATGAG
*
37882647 CATATCGAT-TCACAGCTCATATGAG
1 CATATCGATCT-ACAGCTCAAATGAG
37882672 CATA
1 CATA
37882676 CTTGTACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (25 bp):
CATATCGATCTACAGCTCAAATGAG
Found at i:37884898 original size:14 final size:14
Alignment explanation
Indices: 37884852--37884899 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
37884842 TTCACTTTAG
37884852 TATCGAAAATGATT
1 TATCGAAAATGATT
* *
37884866 TATTGTATTAATAGATT
1 TATCG-A-AAAT-GATT
37884883 TATCGAAAATGATT
1 TATCGAAAATGATT
37884897 TAT
1 TAT
37884900 TGTATCGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 11 0.41
15 4 0.15
16 4 0.15
17 8 0.30
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (14 bp):
TATCGAAAATGATT
Found at i:37900993 original size:32 final size:32
Alignment explanation
Indices: 37900948--37901008 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
37900938 AGCTTGGTTC
37900948 GAGAAATTGGTTAGGTAAATGGTAAGTGACTA
1 GAGAAATTGGTTAGGTAAATGGTAAGTGACTA
* *
37900980 GAGAATTTTGTTAGGTAAATGGTAAGTGA
1 GAGAAATTGGTTAGGTAAATGGTAAGTGA
37901009 AAGCATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.36, C:0.02, G:0.31, T:0.31
Consensus pattern (32 bp):
GAGAAATTGGTTAGGTAAATGGTAAGTGACTA
Found at i:37904228 original size:8 final size:8
Alignment explanation
Indices: 37904209--37904259 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
37904199 TGTCGAATCT
37904209 TCTCTT-C
1 TCTCTTCC
37904216 TCTCTTCC
1 TCTCTTCC
37904224 TCTCTTCC
1 TCTCTTCC
37904232 TCTC-TCC
1 TCTCTTCC
*
37904239 TCT-TTAC
1 TCTCTTCC
37904246 TGCTTCTTCC
1 T-C-TCTTCC
37904256 TCTC
1 TCTC
37904260 CCCTACCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 15 0.41
8 16 0.43
9 2 0.05
10 4 0.11
ACGTcount: A:0.02, C:0.45, G:0.02, T:0.51
Consensus pattern (8 bp):
TCTCTTCC
Found at i:37904229 original size:15 final size:15
Alignment explanation
Indices: 37904209--37904259 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
37904199 TGTCGAATCT
37904209 TCTCTTCTCTCTTCC
1 TCTCTTCTCTCTTCC
37904224 TCTCTTC-CTCTCTCC
1 TCTCTTCTCTCT-TCC
37904239 TCT-TTACTGCTTCTTCC
1 TCTCTT-CT-C-TCTTCC
37904256 TCTC
1 TCTC
37904260 CCCTACCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 6 0.20
15 14 0.47
17 7 0.23
18 3 0.10
ACGTcount: A:0.02, C:0.45, G:0.02, T:0.51
Consensus pattern (15 bp):
TCTCTTCTCTCTTCC
Found at i:37905023 original size:27 final size:27
Alignment explanation
Indices: 37904985--37905514 Score: 537
Period size: 27 Copynumber: 19.6 Consensus size: 27
37904975 ATTCATGGGC
*
37904985 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37905012 AAATGACCGAAATACCCTCTAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37905039 AAATGACCGAAATACCCTCTAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
37905066 AAATTACCAAAATACCC-CTGAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
37905093 AAATAACCGAAATACCCTCGTACGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
37905120 AAATGACCAAAATACCCCCGATTGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
37905147 AAATAACCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * *
37905174 AAATAATCTAAACACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
37905201 AAATGATCGAAATACCC-CTGAAGGGTT
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * * *
37905228 AAATGACAGAAATACCCCCAAAGTGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
37905255 AAATGATCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
37905282 AAATGACCAAAATATCCCT-AAAAGGTA
1 AAATGACCGAAATA-CCCTCGAAGGGTA
** * *
37905309 AAATGATTGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
37905336 AAATGACCGATATACTCTTAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
37905363 AAATGACCAAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
37905390 AAAGGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* **
37905417 AAATGACCGAAATACCCTCAAAAAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
37905444 AAATGATCGAAATACCCTCGATA-GATA
1 AAATGACCGAAATACCCTCGA-AGGGTA
* * *
37905471 AAATGATCGAAATACCCTCTATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
37905498 AATTGACCGAAATACCC
1 AAATGACCGAAATACCC
37905515 CCTAAAGGTG
Statistics
Matches: 416, Mismatches: 79, Indels: 16
0.81 0.15 0.03
Matches are distributed among these distances:
26 5 0.01
27 404 0.97
28 7 0.02
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:37905727 original size:27 final size:27
Alignment explanation
Indices: 37905682--37905753 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
37905672 GTAGGGGAAG
**
37905682 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGCAGCTTTGCCACA
**
37905708 TATACTGTTACTGGCAGCTTTGCTGCA
1 TATACTGTTACTGGCAGCTTTGCCACA
*
37905735 T-TACTATT-CTGGCAGCTTT
1 TATACTGTTACTGGCAGCTTT
37905754 CCTGCGATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 11 0.28
26 13 0.32
27 16 0.40
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (27 bp):
TATACTGTTACTGGCAGCTTTGCCACA
Found at i:37905919 original size:28 final size:28
Alignment explanation
Indices: 37905879--37905951 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
37905869 TTTACTATAT
* *** *
37905879 TGGGCAAAGGCCCACATTGTCACTGTAC
1 TGGGCTAAGGCCCACACCCTCACTGTAA
*
37905907 TGGGCTAAGGCCCACACCCTTACTGTAA
1 TGGGCTAAGGCCCACACCCTCACTGTAA
*
37905935 TGGGCTTAGGCCCACAC
1 TGGGCTAAGGCCCACAC
37905952 TGTACCGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.21
Consensus pattern (28 bp):
TGGGCTAAGGCCCACACCCTCACTGTAA
Found at i:37912944 original size:27 final size:27
Alignment explanation
Indices: 37912904--37913312 Score: 468
Period size: 27 Copynumber: 15.3 Consensus size: 27
37912894 GATTCGTGGG
* *
37912904 AAAATGATCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * *
37912931 AGAATGACCAAAATACCCCCGATGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
37912958 AAAATGACTGAAATA-CCTCCGAAGGGT
1 AAAATGACCGAAATACCCT-CGAAGGGT
* *
37912985 AAAATAACCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
37913012 AAGATGACCAAAATACCC-CTGAAGGGT
1 AAAATGACCGAAATACCCTC-GAAGGGT
* * **
37913039 AAAATGATCAAAATACCCTTAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
37913066 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
37913093 AAAATGACAGAAATA-CCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
37913119 AAAATGATCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** *
37913146 AAAATGAGTGAAATA-CCTCGAAAGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
37913172 AGAATGGCCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
37913199 AAAATGAGTGAAATA-CCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
37913225 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
37913252 AAAATGACTGAAATACCCTCGATGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
37913279 AAATTGACTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
37913306 GAAATGA
1 AAAATGA
37913313 TTGTTATACC
Statistics
Matches: 323, Mismatches: 52, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
26 69 0.21
27 251 0.78
28 3 0.01
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.19
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:37913511 original size:26 final size:25
Alignment explanation
Indices: 37913471--37913542 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
37913461 GCCACATATG
*
37913471 CTGTTGCTGGTAGCTTTGCTGCG-TT
1 CTGTT-CTGGCAGCTTTGCTGCGCTT
37913496 ACTGTTACTGGCAGCTTTGCTGCGCTT
1 -CTGTT-CTGGCAGCTTTGCTGCGCTT
* *
37913523 TTATTCTGGCAGCTTTGCTG
1 CTGTTCTGGCAGCTTTGCTG
37913543 TGATATTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 15 0.37
26 24 0.59
27 2 0.05
ACGTcount: A:0.08, C:0.22, G:0.28, T:0.42
Consensus pattern (25 bp):
CTGTTCTGGCAGCTTTGCTGCGCTT
Found at i:37913697 original size:28 final size:27
Alignment explanation
Indices: 37913656--37913743 Score: 122
Period size: 28 Copynumber: 3.2 Consensus size: 27
37913646 TTATTCTATT
37913656 TACTGTATTGGGCTAAGGCCCACATTG
1 TACTGTATTGGGCTAAGGCCCACATTG
*
37913683 TCACTGTATTGGGCTAAGGCCCACACTG
1 T-ACTGTATTGGGCTAAGGCCCACATTG
* * *
37913711 TTACTGTAATGGGCTAAGACCCACTTTG
1 -TACTGTATTGGGCTAAGGCCCACATTG
37913739 TACTG
1 TACTG
37913744 ATACTGTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 6 0.11
28 47 0.87
29 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (27 bp):
TACTGTATTGGGCTAAGGCCCACATTG
Found at i:37923650 original size:28 final size:27
Alignment explanation
Indices: 37923585--37923672 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 27
37923575 TGCACTGTAG
* **
37923585 TATTACTGTATTGGGCTAAGGCAAAACAC
1 TATTATTGTATT-GGCTAAGGC-CCACAC
37923614 TATTATTGTATTGGACTAAGGCCCACAC
1 TATTATTGTATTGG-CTAAGGCCCACAC
37923642 TATTATTGTATTTGGCTAAGGCCCACAC
1 TATTATTGTA-TTGGCTAAGGCCCACAC
37923670 TAT
1 TAT
37923673 ACTGTTACTG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 32 0.59
29 22 0.41
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (27 bp):
TATTATTGTATTGGCTAAGGCCCACAC
Found at i:37927068 original size:24 final size:24
Alignment explanation
Indices: 37927041--37927122 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
37927031 CCATGCACGG
*
37927041 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAAACA
* *
37927065 AATCAGTCATACAAATCATACACA
1 AATCAGTCATACAAATCACAAACA
**
37927089 AATCAGTCATTTAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
37927113 AATCAGTCAT
1 AATCAGTCAT
37927123 TTAGATCTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:37927117 original size:11 final size:11
Alignment explanation
Indices: 37927048--37927117 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
37927038 CGGAATCAGT
37927048 CATACAAATCA
1 CATACAAATCA
*
37927059 CAGACAAATCA
1 CATACAAATCA
37927070 GTCATACAAATCA
1 --CATACAAATCA
* *
37927083 TACACAAATCA
1 CATACAAATCA
**
37927094 GTCATTTAAATCA
1 --CATACAAATCA
*
37927107 CAAACAAATCA
1 CATACAAATCA
37927118 GTCATTTAGA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.20
Consensus pattern (11 bp):
CATACAAATCA
Found at i:37927123 original size:24 final size:24
Alignment explanation
Indices: 37927041--37927174 Score: 117
Period size: 24 Copynumber: 5.6 Consensus size: 24
37927031 CCATGCACGG
** *
37927041 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAAACA
** * *
37927065 AATCAGTCATACAAATCATACACA
1 AATCAGTCATTTAAATCACAAACA
37927089 AATCAGTCATTTAAATCACAAACA
1 AATCAGTCATTTAAATCACAAACA
* *
37927113 AATCAGTCATTTAGATCTCGAAA-A
1 AATCAGTCATTTAAATCAC-AAACA
* * * **
37927137 AATCATTCATTTACATCATAGGCA
1 AATCAGTCATTTAAATCACAAACA
*
37927161 AATCAATCATTTAA
1 AATCAGTCATTTAA
37927175 CCCCGATGGG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 1 0.01
24 88 0.96
25 3 0.03
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAAACA
Found at i:37927212 original size:27 final size:27
Alignment explanation
Indices: 37927192--37927366 Score: 199
Period size: 27 Copynumber: 6.5 Consensus size: 27
37927182 GGGCAAAATA
37927192 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
* * *
37927219 GTCATTTTACCCTACAAGGGCGTTACG
1 GTCATTTTACCCTATAGGGGCATTACG
*
37927246 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
37927273 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
* * * * *
37927300 GTTATTTTACCC-ATTGAGGGTATTTCA
1 GTCATTTTACCCTATAG-GGGCATTACG
* * * **
37927327 GTCATTTTACCCTTTCGGGGTATTTGG
1 GTCATTTTACCCTATAGGGGCATTACG
*
37927354 GTAATTTTACCCT
1 GTCATTTTACCCT
37927367 TCGAAGGTAT
Statistics
Matches: 127, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 122 0.96
28 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGCATTACG
Found at i:37927331 original size:81 final size:80
Alignment explanation
Indices: 37927192--37927405 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 80
37927182 GGGCAAAATA
* ** ** * *
37927192 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAAGGGCGTTACGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTAATTTTACCCT-TGAGGGTATTTCAGTCATTTTACC
37927257 CTATAGGGGTATTACG
65 CTATAGGGGTATTACG
*
37927273 GTCATTTTACCCTATAGGGGCATTACGGTTATTTTACCCATTGAGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTAATTTTACCC-TTGAGGGTATTTCAGTCATTTTACC
* * **
37927338 CTTTCGGGGTATTTGG
65 CTATAGGGGTATTACG
* * * * *
37927354 GTAATTTTACCCT-TCGAAGGTATTTCGGTAATTTTACCCTTTGAGGGTATTT
1 GTCATTTTACCCTATAG-GGGCATTACGGTAATTTTACCC-TTGAGGGTATTT
37927406 TGATAATTTT
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 110 0.97
82 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (80 bp):
GTCATTTTACCCTATAGGGGCATTACGGTAATTTTACCCTTGAGGGTATTTCAGTCATTTTACCC
TATAGGGGTATTACG
Found at i:37927437 original size:26 final size:27
Alignment explanation
Indices: 37927195--37927443 Score: 177
Period size: 27 Copynumber: 9.3 Consensus size: 27
37927185 CAAAATAGTC
* * * *
37927195 ATTTTACCCTATAG-GGGCATTACGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* * ** * *
37927222 ATTTTACCCTACAAGGGCGTTACGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
37927249 ATTTTACCCTATAG-GGGTATTACGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* * * *
37927276 ATTTTACCCTATAG-GGGCATTACGGTT
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* *
37927303 ATTTTACCCATT-GAGGGTATTTCAGTC
1 ATTTTACCC-TTCGAGGGTATTTCGGTA
*
37927330 ATTTTACCCTTTCG-GGGTATTTGGGTA
1 ATTTTACCC-TTCGAGGGTATTTCGGTA
*
37927357 ATTTTACCCTTCGAAGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
37927384 ATTTTACCCTTTGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
**
37927411 ATTTTACCC-TCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
37927437 ATTTTAC
1 ATTTTAC
37927444 AACCTTTTCG
Statistics
Matches: 188, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.14
27 160 0.85
28 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:37937547 original size:17 final size:18
Alignment explanation
Indices: 37937517--37937550 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37937507 AACAACTCAT
37937517 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
37937535 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
37937551 ACTCAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:37939030 original size:5 final size:5
Alignment explanation
Indices: 37939017--37939069 Score: 54
Period size: 5 Copynumber: 10.8 Consensus size: 5
37939007 AGTTTCCCCA
* * * * *
37939017 TTTAC TTTAT TTTAT TTT-T ATTAT TTTAT TCTAT TTTAT TTTCT CTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
37939066 TTTA
1 TTTA
37939070 ATAATTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
4 3 0.08
5 35 0.92
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:37939076 original size:24 final size:24
Alignment explanation
Indices: 37939025--37939077 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
37939015 CATTTACTTT
* *
37939025 ATTTTATTTTTATTATTTTATTCT
1 ATTTTATTTTTATTATTTTAATCA
*
37939049 ATTTTATTTTCTCTTATTTTAAT-A
1 ATTTTATTTT-TATTATTTTAATCA
37939073 ATTTT
1 ATTTT
37939078 TAGTTCTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTTATTTTTATTATTTTAATCA
Found at i:37940406 original size:23 final size:21
Alignment explanation
Indices: 37940351--37940407 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
37940341 AGGATCATTG
*
37940351 ATTTTATTTGTTTTGTTTTTA
1 ATTTTATTTCTTTTGTTTTTA
*
37940372 ATTTTAATTTTCTTTTGTTTGTTT
1 ATTTT-A-TTTCTTTTGTTT-TTA
37940396 ATGTTTATTTCT
1 AT-TTTATTTCT
37940408 ATTTTTAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 5 0.17
22 1 0.03
23 16 0.53
24 5 0.17
25 3 0.10
ACGTcount: A:0.14, C:0.04, G:0.09, T:0.74
Consensus pattern (21 bp):
ATTTTATTTCTTTTGTTTTTA
Found at i:37944131 original size:3 final size:3
Alignment explanation
Indices: 37944123--37944159 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
37944113 NNNNNNNNNN
37944123 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
37944160 CAAAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37944169 original size:24 final size:24
Alignment explanation
Indices: 37944123--37944175 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
37944113 NNNNNNNNNN
* *
37944123 ATAATAATAATATATAATATAATA
1 ATAATAATAATACAAAATATAATA
37944147 ATAATAATAATAACAAAAT-TAATA
1 ATAATAATAAT-ACAAAATATAATA
37944171 A-AATA
1 ATAATA
37944176 GACTAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 17 0.65
25 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATACAAAATATAATA
Found at i:37944419 original size:19 final size:21
Alignment explanation
Indices: 37944381--37944419 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
37944371 CCTTTTTTAA
*
37944381 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
37944402 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
37944420 AAGAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:37944641 original size:24 final size:22
Alignment explanation
Indices: 37944594--37944662 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
37944584 TACAAATTAA
* *
37944594 ATCTT-TAAGATTACAAAATCAT
1 ATCTTCTAAGATTGC-ATATCAT
37944616 ATCTTCTAAGATTG--TA-CAT
1 ATCTTCTAAGATTGCATATCAT
37944635 ATCATATCTAAGATTGCATATCAT
1 ATC-T-TCTAAGATTGCATATCAT
37944659 ATCT
1 ATCT
37944663 AAGATTGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 10 0.26
22 5 0.13
23 10 0.26
24 6 0.15
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (22 bp):
ATCTTCTAAGATTGCATATCAT
Found at i:37944646 original size:21 final size:21
Alignment explanation
Indices: 37944613--37944671 Score: 90
Period size: 19 Copynumber: 3.0 Consensus size: 21
37944603 ATTACAAAAT
37944613 CATATC-T-TCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
37944632 CATATCATATCTAAGATTG--
1 CATATCATATCTAAGATTGTA
37944651 CATATCATATCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
37944672 TATCCTCGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 25 0.69
20 1 0.03
21 10 0.28
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
CATATCATATCTAAGATTGTA
Found at i:37949066 original size:101 final size:102
Alignment explanation
Indices: 37948950--37949132 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 102
37948940 AAAGTGATGG
* *
37948950 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
*
37949014 CTATGTGCAGGATACTATGCGTACCAGATAGCTTCGA
66 CTATGTGAAGGATACTATGCGTACCAGATAGCTTCGA
* * * * * *
37949051 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCATATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
*
37949116 CTATGTGAAGGCTACTA
66 CTATGTGAAGGATACTA
37949133 CGTGTATCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 38 0.54
102 33 0.46
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
CTATGTGAAGGATACTATGCGTACCAGATAGCTTCGA
Found at i:37949140 original size:51 final size:51
Alignment explanation
Indices: 37948946--37949138 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
37948936 AGTGAAAGTG
* *
37948946 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
* * * * * * *
37948996 AAGGTCGCATGTGTAGTACTATGTGCAGGATACTATGCGTACCAGATAGCTT-
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATA--TTA
* * * * *
37949048 -CGATCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCATATATTA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
*
37949098 ATGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA
37949139 TCGAATGATA
Statistics
Matches: 116, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 75 0.65
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
Found at i:37952095 original size:6 final size:6
Alignment explanation
Indices: 37952086--37952208 Score: 56
Period size: 6 Copynumber: 20.2 Consensus size: 6
37952076 TCGAATAACC
* * * ** *
37952086 ATAAAA ATAAAA ATATAG TTCAAAA GATAATAA ATGGAA A-AAAA GTAA-A
1 ATAAAA ATAAAA ATAAAA AT-AAAA -ATAA-AA ATAAAA ATAAAA ATAAAA
* * *
37952135 ATAAAA ATAAAA CA-ACTAAA A-AAAT ATAAAA ATAAAC ATAAAA TTAAAA
1 ATAAAA ATAAAA -ATA--AAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* * *
37952184 TTAAAA TTAAAA TTAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
37952209 CAAATAAAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
5 9 0.10
6 66 0.73
7 9 0.10
8 6 0.07
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:37952146 original size:18 final size:17
Alignment explanation
Indices: 37952125--37952217 Score: 73
Period size: 18 Copynumber: 5.2 Consensus size: 17
37952115 ATAAATGGAA
37952125 AAAAAGTAAAATAAAAAT
1 AAAAA-TAAAATAAAAAT
*
37952143 AAAACAACTAAAA-AAATAT
1 -AAA-AA-TAAAATAAAAAT
*
37952162 AAAAATAAACATAAAATT
1 AAAAATAAA-ATAAAAAT
* *
37952180 AAAATTAAAATTAAAATT
1 AAAAATAAAA-TAAAAAT
*
37952198 AAAAATAAAA-ACAAAT
1 AAAAATAAAATAAAAAT
37952214 AAAA
1 AAAA
37952218 TCAATGATCG
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
16 12 0.19
17 4 0.06
18 31 0.50
19 8 0.13
20 7 0.11
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:37952175 original size:12 final size:11
Alignment explanation
Indices: 37952125--37952218 Score: 73
Period size: 12 Copynumber: 8.0 Consensus size: 11
37952115 ATAAATGGAA
37952125 AAAAAGTAAAAT
1 AAAAA-TAAAAT
*
37952137 AAAAATAAAAC
1 AAAAATAAAAT
*
37952148 AACTAAAAAAATAT
1 AA--AAATAAA-AT
37952162 AAAAATAAACAT
1 AAAAATAAA-AT
*
37952174 AAAATTAAAATT
1 AAAAATAAAA-T
*
37952186 AAAATTAAAATT
1 AAAAATAAAA-T
37952198 AAAAATAAAA-
1 AAAAATAAAAT
*
37952208 ACAAATAAAAT
1 AAAAATAAAAT
37952219 CAATGATCGT
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.13
11 8 0.12
12 43 0.62
13 6 0.09
14 3 0.04
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.20
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:37952991 original size:37 final size:37
Alignment explanation
Indices: 37952944--37953017 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
37952934 GACTCAAAGT
37952944 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
1 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
37952981 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
1 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
37953018 CCAAGGTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.65, C:0.11, G:0.08, T:0.16
Consensus pattern (37 bp):
AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
Found at i:37953119 original size:4 final size:4
Alignment explanation
Indices: 37953104--37953173 Score: 56
Period size: 4 Copynumber: 17.0 Consensus size: 4
37953094 TAAGAAGAGG
* *
37953104 AATA AGATA AATA AATG AATA AATA AATA GAAGA AA-A TAATA AATTA
1 AATA A-ATA AATA AATA AATA AATA AATA -AATA AATA -AATA AA-TA
37953151 AATA AAT- AA-A AATA AATTA AATA
1 AATA AATA AATA AATA AA-TA AATA
37953174 GGGAAAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 5 0.09
4 34 0.62
5 16 0.29
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:37953126 original size:8 final size:8
Alignment explanation
Indices: 37953104--37953173 Score: 56
Period size: 9 Copynumber: 8.5 Consensus size: 8
37953094 TAAGAAGAGG
37953104 AATAAGATA
1 AATAA-ATA
*
37953113 AATAAATG
1 AATAAATA
37953121 AATAAATA
1 AATAAATA
*
37953129 AATAGAAGA
1 AATA-AATA
37953138 AA-ATAATA
1 AATA-AATA
37953146 AATTAAATA
1 AA-TAAATA
37953155 AAT-AA-A
1 AATAAATA
37953161 AATAAATTA
1 AATAAA-TA
37953170 AATA
1 AATA
37953174 GGGAAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
6 4 0.08
7 4 0.08
8 20 0.40
9 21 0.42
10 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (8 bp):
AATAAATA
Found at i:37953141 original size:26 final size:27
Alignment explanation
Indices: 37953107--37953167 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
37953097 GAAGAGGAAT
*
37953107 AAGATAAATAAATGAA-TAAATAAATAG
1 AAGATAAAT-AATAAATTAAATAAATAG
37953134 AAGA-AAATAATAAATTAAATAAATA-
1 AAGATAAATAATAAATTAAATAAATAG
*
37953159 AAAATAAAT
1 AAGATAAAT
37953168 TAAATAGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 8 0.27
26 18 0.60
27 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (27 bp):
AAGATAAATAATAAATTAAATAAATAG
Found at i:37953152 original size:22 final size:21
Alignment explanation
Indices: 37953116--37953183 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
37953106 TAAGATAAAT
37953116 AAATGAATAAA-TAAATAGAAGA
1 AAAT-AATAAATTAAATAGAA-A
*
37953138 AAATAATAAATTAAATA-AAT
1 AAATAATAAATTAAATAGAAA
37953158 AAA-AATAAATTAAATAGGGAAA
1 AAATAATAAATTAAATA--GAAA
37953180 AAAT
1 AAAT
37953184 CAACGGAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 8 0.21
22 15 0.38
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (21 bp):
AAATAATAAATTAAATAGAAA
Found at i:37953181 original size:19 final size:19
Alignment explanation
Indices: 37953121--37953173 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
37953111 TAAATAAATG
37953121 AATAAA-TAAATAGAAGAAAA
1 AATAAATTAAATA-AAG-AAA
*
37953141 TAATAAATTAAATAAATAAA
1 -AATAAATTAAATAAAGAAA
37953161 AATAAATTAAATA
1 AATAAATTAAATA
37953174 GGGAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 8 0.27
22 6 0.20
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AATAAATTAAATAAAGAAA
Found at i:37958115 original size:10 final size:10
Alignment explanation
Indices: 37958100--37958149 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
37958090 TAAAGGATAT
*
37958100 ATTAATTTTA
1 ATTAATTTTG
37958110 ATTAATTTT-
1 ATTAATTTTG
37958119 ATGCTCAATTTTG
1 AT--T-AATTTTG
37958132 ATTAATTTTG
1 ATTAATTTTG
37958142 ATT-ATTTT
1 ATTAATTTT
37958150 CGATAGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 7 0.19
10 19 0.53
11 2 0.06
12 6 0.17
13 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (10 bp):
ATTAATTTTG
Found at i:37960368 original size:25 final size:22
Alignment explanation
Indices: 37960350--37960398 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
37960340 AGAATGATGG
37960350 TTGAGGGATGATTGAAGAATGA
1 TTGAGGGATGATTGAAGAATGA
*
37960372 TTGTGGGATGATTGAAGAATGA
1 TTGAGGGATGATTGAAGAATGA
*
37960394 ATGAG
1 TTGAG
37960399 AGGGTCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.29
Consensus pattern (22 bp):
TTGAGGGATGATTGAAGAATGA
Found at i:37961848 original size:40 final size:40
Alignment explanation
Indices: 37961811--37961995 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
37961801 GCTACTCGTT
*
37961811 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37961851 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
37961891 CAAATGCCTTCGGG-CTTAGCCCGAAATTATTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37961930 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37961971 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37961996 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37961928 original size:79 final size:80
Alignment explanation
Indices: 37961811--37961993 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 80
37961801 GCTACTCGTT
* *
37961811 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGATTATA-TAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
37961875 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
37961891 CAAATGCCTTCGGG-CTTAGCCCGAAATTAT-TATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCG--ATTATATAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
37961954 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
37961971 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
37961994 GACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.57
80 31 0.35
81 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATATAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:37974917 original size:27 final size:27
Alignment explanation
Indices: 37974886--37974944 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
37974876 GTTAAAACAG
* * *
37974886 TAAAAAAAATATAAAAAT-GACTAAAC
1 TAAAAAAAAAAGAAAAATAAACTAAAC
* *
37974912 TAAAAAGAAAAGAAAACTAAACTAAAC
1 TAAAAAAAAAAGAAAAATAAACTAAAC
37974939 TAAAAA
1 TAAAAA
37974945 CCTAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.71, C:0.08, G:0.05, T:0.15
Consensus pattern (27 bp):
TAAAAAAAAAAGAAAAATAAACTAAAC
Found at i:37976656 original size:45 final size:45
Alignment explanation
Indices: 37976592--37976726 Score: 270
Period size: 45 Copynumber: 3.0 Consensus size: 45
37976582 TAGCTATAGA
37976592 ATTTTAAAGTAAGATGACTTAGATGGTAATTAGACCATTTATGTT
1 ATTTTAAAGTAAGATGACTTAGATGGTAATTAGACCATTTATGTT
37976637 ATTTTAAAGTAAGATGACTTAGATGGTAATTAGACCATTTATGTT
1 ATTTTAAAGTAAGATGACTTAGATGGTAATTAGACCATTTATGTT
37976682 ATTTTAAAGTAAGATGACTTAGATGGTAATTAGACCATTTATGTT
1 ATTTTAAAGTAAGATGACTTAGATGGTAATTAGACCATTTATGTT
37976727 GTTAGTGGAT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.40
Consensus pattern (45 bp):
ATTTTAAAGTAAGATGACTTAGATGGTAATTAGACCATTTATGTT
Found at i:37977561 original size:41 final size:41
Alignment explanation
Indices: 37977485--37977609 Score: 171
Period size: 41 Copynumber: 3.0 Consensus size: 41
37977475 TCAATGTAAG
* * *
37977485 TGTACTTCGATACCCCTTGAATTGCACACACGTGCCCCTGTT
1 TGTACTTCGATACCCC-TAAATTGCACATACGTGCCCCTATT
*
37977527 TGTACTTC-AGTACCCCTAAATTGCACATATGTGCCCCTATT
1 TGTACTTCGA-TACCCCTAAATTGCACATACGTGCCCCTATT
* *
37977568 TGTACTTTGATACCCCTAAATTACACATACGTGCCCCTATT
1 TGTACTTCGATACCCCTAAATTGCACATACGTGCCCCTATT
37977609 T
1 T
37977610 ACATTCCAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
41 59 0.80
42 15 0.20
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (41 bp):
TGTACTTCGATACCCCTAAATTGCACATACGTGCCCCTATT
Found at i:37977565 original size:21 final size:21
Alignment explanation
Indices: 37977539--37977606 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
37977529 TACTTCAGTA
37977539 CCCCTAAATTGCACATATGTG
1 CCCCTAAATTGCACATATGTG
* * * *
37977560 CCCCT-ATTTGTAC-TTTGATA
1 CCCCTAAATTGCACATATG-TG
* *
37977580 CCCCTAAATTACACATACGTG
1 CCCCTAAATTGCACATATGTG
37977601 CCCCTA
1 CCCCTA
37977607 TTTACATTCC
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 17 0.50
22 2 0.06
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.31
Consensus pattern (21 bp):
CCCCTAAATTGCACATATGTG
Found at i:37978981 original size:40 final size:40
Alignment explanation
Indices: 37978917--37979053 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 40
37978907 GGGGTGTTAC
* * *
37978917 ATGCTTAGTAGGCTTCGTGCCAGTGTATCTATCGGGCTAA
1 ATGCCTAGAAGGCTTTGTGCCAGTGTATCTATCGGGCTAA
* *
37978957 ATGCCTAGAAGGCTTTGTACCAGTGTATCTATCGAGCTAA
1 ATGCCTAGAAGGCTTTGTGCCAGTGTATCTATCGGGCTAA
* *
37978997 ATGCCTAGCAA-G-TTTCGTGTCAGTGTA-CTTATCGGGCTTA
1 ATGCCTAG-AAGGCTTT-GTGCCAGTGTATC-TATCGGGCTAA
* *
37979037 GTGCCTAGCAGGCTTTG
1 ATGCCTAGAAGGCTTTG
37979054 GGCAGGTGTA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.06
40 71 0.88
41 5 0.06
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
ATGCCTAGAAGGCTTTGTGCCAGTGTATCTATCGGGCTAA
Found at i:37983566 original size:12 final size:12
Alignment explanation
Indices: 37983544--37983572 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37983534 ATTAGATTTA
37983544 GTTTT-AATTAG
1 GTTTTAAATTAG
37983555 GTTTTAAATTAG
1 GTTTTAAATTAG
37983567 GTTTTA
1 GTTTTA
37983573 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (12 bp):
GTTTTAAATTAG
Found at i:37984904 original size:14 final size:15
Alignment explanation
Indices: 37984882--37984917 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
37984872 TACAATGATG
*
37984882 AAATAAAAAAT-TGA
1 AAATTAAAAATGTGA
37984896 AAATTAAAAATGTGA
1 AAATTAAAAATGTGA
37984911 AAATTAA
1 AAATTAA
37984918 TTCTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (15 bp):
AAATTAAAAATGTGA
Found at i:37984905 original size:15 final size:16
Alignment explanation
Indices: 37984885--37984917 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
37984875 AATGATGAAA
37984885 TAAAAAAT-TGAAAAT
1 TAAAAAATGTGAAAAT
37984900 T-AAAAATGTGAAAAT
1 TAAAAAATGTGAAAAT
37984915 TAA
1 TAA
37984918 TTCTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.38
15 9 0.56
16 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (16 bp):
TAAAAAATGTGAAAAT
Found at i:37987696 original size:54 final size:53
Alignment explanation
Indices: 37987585--37987705 Score: 127
Period size: 54 Copynumber: 2.2 Consensus size: 53
37987575 GTGTTTCAAG
* ** * **
37987585 TCAGTGAGTTACATGGCCTAGCACACGGCTTGGCACATGGGCGTGTGTGGCAAC
1 TCAGTGAGTTACACGGCCTAGCACACGGCCAGGCACA-GCGAATGTGTGGCAAC
* *
37987639 TCAGAGAGTTACACGGCCTAGCACACGGCCAGGCAC-GCGAATGTGTAGGGCATC
1 TCAGTGAGTTACACGGCCTAGCACACGGCCAGGCACAGCGAATGTGT--GGCAAC
*
37987693 TCAGTGAGCTACA
1 TCAGTGAGTTACA
37987706 TGGGTGAGGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 7 0.13
54 48 0.87
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.19
Consensus pattern (53 bp):
TCAGTGAGTTACACGGCCTAGCACACGGCCAGGCACAGCGAATGTGTGGCAAC
Found at i:37989269 original size:85 final size:85
Alignment explanation
Indices: 37989126--37989304 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
37989116 GGTCGGCCAT
37989126 GAGCATGGGTGGACAAGATGTTAAGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTAAGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
37989191 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
37989211 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTAAGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
37989276 GTACGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
37989296 GGGCATGGG
1 GAGCATGGG
37989305 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTAAGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:37991495 original size:47 final size:47
Alignment explanation
Indices: 37991442--37992607 Score: 2010
Period size: 47 Copynumber: 24.6 Consensus size: 47
37991432 GTATATTTGA
* * * *
37991442 ATGAATGTGAAAGTGTATATATGTAATAAGG-CTGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCT-AATAGCCGATGTG
* *
37991489 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TACATATGTGATAAGGCCTAATAGCCGATGTG
37991538 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
*
37991585 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991632 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991679 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991726 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991773 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991820 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991867 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991914 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37991961 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37992008 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37992055 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37992102 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37992149 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37992196 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37992243 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
37992290 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
* *
37992337 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TACATATGTGATAAGGCCTAATAGCCGATGTG
* *
37992386 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TACATATGTGATAAGGCCTAATAGCCGATGTG
* *
37992435 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TACATATGTGATAAGGCCTAATAGCCGATGTG
* *
37992484 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
* * * * * * * * *
37992531 ATTAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
* *
37992578 ATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTACATATGTGATAAG
37992608 TCCCGAAGGG
Statistics
Matches: 1095, Mismatches: 19, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
47 908 0.83
49 185 0.17
50 2 0.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTG
Found at i:37998971 original size:20 final size:20
Alignment explanation
Indices: 37998946--37998992 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
37998936 ATTTATTTGA
37998946 TCTGTAAACTCCGGTAACGC
1 TCTGTAAACTCCGGTAACGC
37998966 TCTGTAAACTCCGGTAACGC
1 TCTGTAAACTCCGGTAACGC
37998986 TCTGTAA
1 TCTGTAA
37998993 CCCTGTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (20 bp):
TCTGTAAACTCCGGTAACGC
Found at i:37999926 original size:28 final size:28
Alignment explanation
Indices: 37999895--38000023 Score: 78
Period size: 33 Copynumber: 4.2 Consensus size: 28
37999885 CCCTTTCTAG
37999895 TATCAGTGTGGGCCTTAGCCCAATACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
*
37999923 TATCAGAATAGTGTGGGCCTTAGCCCAATATAA
1 TATC-----AGTGTGGGCCTTAGCCCAATACAA
* * *
37999956 TAACAGAATAGTGCGGGCATTAGCCCAATATAA
1 TATCAG--T-GT--GGGCCTTAGCCCAATACAA
* * * ** *
37999989 TAACATTGTGGGCCTAAGCCCGTTACAG
1 TATCAGTGTGGGCCTTAGCCCAATACAA
38000017 TATCAGT
1 TATCAGT
38000024 ATGGTGCAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
28 24 0.30
30 3 0.04
31 3 0.04
33 49 0.62
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:37999941 original size:33 final size:33
Alignment explanation
Indices: 37999899--37999993 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
37999889 TTCTAGTATC
* *
37999899 AGTGTGGGCCTTAGCCCAATACAATATCAGAAT
1 AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
37999932 AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
1 AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
* *
37999965 AGTGCGGGCATTAGCCCAATATAATAACA
1 AGTGTGGGCCTTAGCCCAATATAATAACA
37999994 TTGTGGGCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (33 bp):
AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
Found at i:38000215 original size:27 final size:28
Alignment explanation
Indices: 38000177--38000236 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
38000167 AGCTGTCAGT
*
38000177 ACAGT-ATATGTGGCATAGCCACCA-ATA
1 ACAGTAATATGTGGCAGAGCCACCAGA-A
38000204 ACAGTAAT-TGTGGCAGAGCCACCAGAA
1 ACAGTAATATGTGGCAGAGCCACCAGAA
38000231 ACAGTA
1 ACAGTA
38000237 CTTCCTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (28 bp):
ACAGTAATATGTGGCAGAGCCACCAGAA
Found at i:38000455 original size:26 final size:26
Alignment explanation
Indices: 38000421--38000663 Score: 319
Period size: 26 Copynumber: 9.3 Consensus size: 26
38000411 TCCCTATGGT
* *
38000421 GGTATTTCGGTAATTTGCCCATCG-G
1 GGTATTTCGATAATTTACCCATCGAG
* *
38000446 GGATATTTCGATAATTTACCCATTGGG
1 GG-TATTTCGATAATTTACCCATCGAG
38000473 GGTATTTC-AGTAATTTACCCATCGAG
1 GGTATTTCGA-TAATTTACCCATCGAG
* *
38000499 GGTATTTCGATAATTTAACCATTGAG
1 GGTATTTCGATAATTTACCCATCGAG
38000525 GGTATTTCGATAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* * *
38000551 GGTATTTTGGTAATTTACCCATCAAG
1 GGTATTTCGATAATTTACCCATCGAG
*
38000577 GGTATTTCTATAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* * *
38000603 TGTATTTTGATAATTTTCCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
38000629 GGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
38000655 GGTATTTCG
1 GGTATTTCG
38000664 GTCAACACAA
Statistics
Matches: 190, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
25 3 0.02
26 183 0.96
27 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (26 bp):
GGTATTTCGATAATTTACCCATCGAG
Found at i:38003623 original size:24 final size:24
Alignment explanation
Indices: 38003587--38003633 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
38003577 ATAAAAATGT
* *
38003587 CAATCTCATATACAAAATTAGATG
1 CAATCTCAGATACAAAATCAGATG
* *
38003611 CAATTTCAGATACAGAATCAGAT
1 CAATCTCAGATACAAAATCAGAT
38003634 CCTACCCCTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (24 bp):
CAATCTCAGATACAAAATCAGATG
Found at i:38007823 original size:25 final size:24
Alignment explanation
Indices: 38007795--38007854 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
38007785 TCTCTTAGGG
*
38007795 TTAGGGTTTTTAATAGTTTTAAGGT
1 TTAGGGTTTTTAATAG-GTTAAGGT
* **
38007820 TTAGGATTTTTTTTAGGTTAAGGT
1 TTAGGGTTTTTAATAGGTTAAGGT
38007844 TTAGGGTTTTT
1 TTAGGGTTTTT
38007855 TAAAAGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (24 bp):
TTAGGGTTTTTAATAGGTTAAGGT
Found at i:38010976 original size:40 final size:40
Alignment explanation
Indices: 38010932--38011193 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
38010922 GCTCCTCGTT
* *
38010932 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
38010972 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38011012 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38011051 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38011090 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38011129 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
38011170 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38011194 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:38019029 original size:79 final size:81
Alignment explanation
Indices: 38018927--38019111 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
38018917 GCTCCTCGTT
* *
38018927 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
38018990 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
38019007 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
38019071 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
38019087 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38019112 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:38019111 original size:40 final size:40
Alignment explanation
Indices: 38018927--38019111 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
38018917 GCTCCTCGTT
* *
38018927 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
38018967 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
38019007 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
38019046 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
38019087 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38019112 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 80 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:38021954 original size:18 final size:18
Alignment explanation
Indices: 38021933--38021975 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
38021923 CCTTAGCTTT
*
38021933 GTCTTCGTCATAGTGTTC
1 GTCTTCATCATAGTGTTC
*
38021951 GTCTTCATTATAGTGTTC
1 GTCTTCATCATAGTGTTC
*
38021969 GCCTTCA
1 GTCTTCA
38021976 GAACAGAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (18 bp):
GTCTTCATCATAGTGTTC
Found at i:38022594 original size:12 final size:12
Alignment explanation
Indices: 38022569--38022607 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38022559 ACTCGCTTCT
* *
38022569 TTACTTACTCAC
1 TTACTTGCTTAC
*
38022581 TTACTTGTTTAC
1 TTACTTGCTTAC
38022593 TTACTTGCTTAC
1 TTACTTGCTTAC
38022605 TTA
1 TTA
38022608 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:38022932 original size:50 final size:51
Alignment explanation
Indices: 38022806--38023048 Score: 183
Period size: 50 Copynumber: 4.7 Consensus size: 51
38022796 TTAATAATGC
* * * * **
38022806 ATGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTT-TT-T-T-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* * * * *
38022853 TACTGCCAATCCCATATCCCAGATATGGTCTTACATGGGA-GTTCTTATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* *** *
38022905 ATGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACC-TCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* * * * *
38022955 GTGCCAACGCCATGTCCTAGGCATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-TTATCTC---G
*
38023011 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
38023049 TCTCATTCCC
Statistics
Matches: 152, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
48 4 0.03
49 32 0.21
50 71 0.47
51 2 0.01
52 3 0.02
53 6 0.04
56 34 0.22
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
Found at i:38026845 original size:18 final size:19
Alignment explanation
Indices: 38026810--38026846 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
38026800 CATGACATTG
38026810 AATGAAATGTATGTATACA
1 AATGAAATGTATGTATACA
38026829 AATG-AATGT-TGTGATACA
1 AATGAAATGTATGT-ATACA
38026847 TATGCTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (19 bp):
AATGAAATGTATGTATACA
Found at i:38028591 original size:16 final size:17
Alignment explanation
Indices: 38028570--38028602 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38028560 TTGTTTTGTT
38028570 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
38028586 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
38028603 CTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:38038843 original size:20 final size:20
Alignment explanation
Indices: 38038815--38038852 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38038805 TACAGACTAA
38038815 AACAAAC-AACACATTTCATC
1 AACAAACAAACA-ATTTCATC
*
38038835 AACACACAAACAATTTCA
1 AACAAACAAACAATTTCA
38038853 CATTCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (20 bp):
AACAAACAAACAATTTCATC
Found at i:38040014 original size:3 final size:3
Alignment explanation
Indices: 38039999--38040040 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
38039989 TCTAGATGAT
*
38039999 AAC AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
38040041 TATATACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.31, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:38043757 original size:44 final size:44
Alignment explanation
Indices: 38043709--38043830 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
38043699 ATGATGCTTC
38043709 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
1 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
* * * *
38043753 TGTCCCAGATATGGTCTTACACATAAATC-TCA-AATCGATGCCAA
1 TGTCCCAGACAGGGTCTTACAC-GAAATCAT-ATATTCGATGCCAA
* * * *
38043797 CGTCCTAGAC-GTGGTCTTACACGATATCACATAT
1 TGTCCCAGACAG-GGTCTTACACGAAATCATATAT
38043831 CAGAATTCCA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
43 5 0.08
44 50 0.82
45 6 0.10
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
Found at i:38047299 original size:139 final size:139
Alignment explanation
Indices: 38047120--38047394 Score: 496
Period size: 139 Copynumber: 2.0 Consensus size: 139
38047110 CAAACTTCAA
* *
38047120 ATACATTTCTCGGAGGCTTCCAATCCAGTATAGCTGAAATCTTGCTCGAATCAACCCGAATACCC
1 ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
*
38047185 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTGAACTT
66 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
38047250 CGCATACGG
131 CGCATACGG
* *
38047259 ATACATTTCTCAGAGGCTTCCAATCTAGTATAGCTAAAATCTTGCTCGGATCAACCCGAATACCC
1 ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
*
38047324 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTTACATTTACTAAACTT
66 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
38047389 CGCATA
131 CGCATA
38047395 TAAATGCTTA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 130 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (139 bp):
ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
CGCATACGG
Found at i:38051794 original size:44 final size:44
Alignment explanation
Indices: 38051746--38051867 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
38051736 ATGATGCTTC
38051746 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
1 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
* * * *
38051790 TGTCCCAGATATGGTCTTACACATAAATC-TCA-AATCGATGCCAA
1 TGTCCCAGACAGGGTCTTACAC-GAAATCAT-ATATTCGATGCCAA
* * * *
38051834 CGTCCTAGAC-GTGGTCTTACACGATATCACATAT
1 TGTCCCAGACAG-GGTCTTACACGAAATCATATAT
38051868 CAGAATTCCA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
43 5 0.08
44 50 0.82
45 6 0.10
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
Found at i:38052529 original size:9 final size:8
Alignment explanation
Indices: 38052506--38052535 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
38052496 CATGAATACA
38052506 TCAACAAAT
1 TCAA-AAAT
38052515 TCAAAAAT
1 TCAAAAAT
38052523 TCAAAAAT
1 TCAAAAAT
38052531 TCAAA
1 TCAAA
38052536 GATGGGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (8 bp):
TCAAAAAT
Found at i:38054068 original size:359 final size:359
Alignment explanation
Indices: 38053400--38054124 Score: 1209
Period size: 359 Copynumber: 2.0 Consensus size: 359
38053390 ATATCAATAA
* *
38053400 TCATATTAGTATCAATTAAAAACATAAATATTGTCCCTTATACGAGCCCTTGAGGCCCTAAATAT
1 TCAT-TTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATAT
38053465 GCGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTT
65 GCGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTT
* * * *
38053530 TGAACACTGCAGTGGTCACACACCGCGTGGGCATTCGAAGTACGAACACATGGCCATGTCCGTGC
130 TCAACACTGCAGGGGTCACACACCGCGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGC
*
38053595 CCGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCTGTGTACCC
195 CCGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCC
* *
38053660 TTCAAAATAACATCACACGCCCATGTACCAGGCTATGTGCTAGGCCATGTAACAGACTAACTTGC
260 TTCAAAAAAACATCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGC
**
38053725 AACCCTTTGAAAGCTACAGGGGACACACGACTGTG
325 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
38053760 TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
1 TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
* *
38053825 CGTTAGAAACAAGTCGAGACTAAATCAAAAACTTAGAGAATTTTTTAGAAAACAATAAAAATTTT
66 CGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTTT
* * * * * *
38053890 CAACACTGTAGGGGTCACACGCCGTGTGGGCATTCAAAGTAGGGACACAAGGCCATGTCTGTGCC
131 CAACACTGCAGGGGTCACACACCGCGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGCC
* * *
38053955 CGTGTAACTTACTGACTTGGGCCACACGGCCAAGCCATATGCCCGTGTGTCAGGCCGTGTACCCT
196 CGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCCT
* *
38054020 TCAAAAAAA-ACTCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAATAGACTAACTTGT
261 TCAAAAAAACA-TCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGC
38054084 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
325 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
38054119 TCATTT
1 TCATTT
38054125 GGCCGTGTGT
Statistics
Matches: 340, Mismatches: 24, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
358 1 0.00
359 335 0.99
360 4 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (359 bp):
TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
CGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTTT
CAACACTGCAGGGGTCACACACCGCGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGCC
CGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCCT
TCAAAAAAACATCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGCA
ACCCTTTGAAAGCTACAGGGGACACACGACCATG
Found at i:38055304 original size:25 final size:24
Alignment explanation
Indices: 38055265--38055349 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 24
38055255 TCCTGTACCT
38055265 GTATGCTCA-TACGAGCTATGAATCG
1 GTATGCTCACT-CGAGCT-TGAATCG
*
38055290 GTATGCTCACTCGAG-TTGTAGATTG
1 GTATGCTCACTCGAGCTTG-A-ATCG
** * *
38055315 GTATGCTTTCACGAGCTGTAAATCG
1 GTATGCTCACTCGAGCT-TGAATCG
38055340 GTATGCTCAC
1 GTATGCTCAC
38055350 ATGAGTTGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 39 0.83
26 3 0.06
27 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (24 bp):
GTATGCTCACTCGAGCTTGAATCG
Found at i:38055796 original size:16 final size:17
Alignment explanation
Indices: 38055775--38055806 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38055765 CAATGTAGCC
38055775 CAAAATTAT-ATTTTGG
1 CAAAATTATCATTTTGG
38055791 CAAAATTATCATTTTG
1 CAAAATTATCATTTTG
38055807 CCCCTATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (17 bp):
CAAAATTATCATTTTGG
Found at i:38059852 original size:40 final size:40
Alignment explanation
Indices: 38059670--38059892 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
38059660 TCCTCGTTCA
* * * *
38059670 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38059709 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38059749 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38059789 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38059829 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38059869 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38059893 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 38 0.24
40 115 0.71
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38059892 original size:120 final size:119
Alignment explanation
Indices: 38059670--38059892 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
38059660 TCCTCGTTCA
* * *
38059670 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
38059735 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
38059789 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
38059853 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
38059893 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 38 0.44
120 43 0.49
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38059901 original size:41 final size:41
Alignment explanation
Indices: 38059824--38059901 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38059814 TTAGTATCTC
* * *
38059824 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38059865 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38059902 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38068540 original size:17 final size:17
Alignment explanation
Indices: 38068518--38068553 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
38068508 ATCTGTGGGA
38068518 TCCGCGGGCTGACCGGT
1 TCCGCGGGCTGACCGGT
38068535 TCCGCGGGCTGACCGGT
1 TCCGCGGGCTGACCGGT
38068552 TC
1 TC
38068554 TTCTCGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.36, G:0.39, T:0.19
Consensus pattern (17 bp):
TCCGCGGGCTGACCGGT
Found at i:38075147 original size:22 final size:22
Alignment explanation
Indices: 38075121--38075193 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
38075111 GTACCTTTGC
*
38075121 AGAAGTACAATTACTTCATGGG
1 AGAAGTACAAATACTTCATGGG
** *
38075143 AGAAGTACAGGTACCTC-T-GG
1 AGAAGTACAAATACTTCATGGG
*
38075163 AGAAGTATAAATACTT-ATTGGG
1 AGAAGTACAAATACTTCA-TGGG
38075185 AGAAGTACA
1 AGAAGTACA
38075194 GGTACCTCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 14 0.35
21 2 0.05
22 24 0.60
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (22 bp):
AGAAGTACAAATACTTCATGGG
Found at i:38075166 original size:20 final size:20
Alignment explanation
Indices: 38075105--38075212 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
38075095 TGGAACAATG
* *
38075105 GTACAGGTACCTTTGCAGAA
1 GTACAGGTACCTCTGGAGAA
** *
38075125 GTACAATTACTTCATGGGAGAA
1 GTACAGGTACCTC-T-GGAGAA
38075147 GTACAGGTACCTCTGGAGAA
1 GTACAGGTACCTCTGGAGAA
* ** * *
38075167 GTATAAATACTTATTGGGAGAA
1 GTACAGGTACCT-CT-GGAGAA
*
38075189 GTACAGGTACCTCTTGAGAA
1 GTACAGGTACCTCTGGAGAA
38075209 GTAC
1 GTAC
38075213 TGGTGCAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
20 32 0.49
21 4 0.06
22 29 0.45
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (20 bp):
GTACAGGTACCTCTGGAGAA
Found at i:38075167 original size:42 final size:42
Alignment explanation
Indices: 38075105--38075212 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
38075095 TGGAACAATG
* * *
38075105 GTACAGGTACCTTTGCAGAAGTACAATTACTTCA-TGGGAGAA
1 GTACAGGTACCTCTGGAGAAGTACAAATACTT-ATTGGGAGAA
*
38075147 GTACAGGTACCTCTGGAGAAGTATAAATACTTATTGGGAGAA
1 GTACAGGTACCTCTGGAGAAGTACAAATACTTATTGGGAGAA
*
38075189 GTACAGGTACCTCTTGAGAAGTAC
1 GTACAGGTACCTCTGGAGAAGTAC
38075213 TGGTGCAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (42 bp):
GTACAGGTACCTCTGGAGAAGTACAAATACTTATTGGGAGAA
Found at i:38078469 original size:29 final size:29
Alignment explanation
Indices: 38078387--38078507 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
38078377 GTATCGATAC
** *
38078387 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
*
38078416 CCATCGAATATGAAAGGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* * *
38078445 CCATTGAATATGAAAAGAGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* * * * *
38078474 TCATCGATTAAAGAAAATGGATGGTTTCGA
1 CCATCGAAT-ATGAAAAGGGATGGTTTCAA
38078504 CCAT
1 CCAT
38078508 AATTTAGCAC
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 56 0.74
30 20 0.26
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCAA
Found at i:38086854 original size:20 final size:19
Alignment explanation
Indices: 38086824--38086875 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
38086814 TTGGCGCGGG
* *
38086824 AATATCAATACCTTAGGAA
1 AATATCGATACCTTAAGAA
38086843 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
38086863 AAGTATCGATACC
1 AA-TATCGATACC
38086876 GGATCGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:38088722 original size:20 final size:21
Alignment explanation
Indices: 38088697--38088736 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
38088687 TGGAGCAAGA
38088697 ATATCGATACCTT-AGAAAAT
1 ATATCGATACCTTAAGAAAAT
38088717 ATATCGATACCTTAAGAAAA
1 ATATCGATACCTTAAGAAAA
38088737 GTATCAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (21 bp):
ATATCGATACCTTAAGAAAAT
Found at i:38093803 original size:15 final size:15
Alignment explanation
Indices: 38093767--38093813 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
38093757 ATTTAATAAG
*
38093767 TTGAAAAATTAAGTG
1 TTGAAAAATTAAGTA
* *
38093782 TTAAAAAAATAAGTA
1 TTGAAAAATTAAGTA
*
38093797 TTGAAAATTTAAGTA
1 TTGAAAAATTAAGTA
38093812 TT
1 TT
38093814 AAACTTAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (15 bp):
TTGAAAAATTAAGTA
Found at i:38095572 original size:17 final size:18
Alignment explanation
Indices: 38095542--38095575 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
38095532 TCAATTGAAA
38095542 ATTTAATATTTTCAATTG
1 ATTTAATATTTTCAATTG
38095560 ATTTAAT-TTTTCAATT
1 ATTTAATATTTTCAATT
38095576 TCTTTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTAATATTTTCAATTG
Found at i:38095662 original size:29 final size:28
Alignment explanation
Indices: 38095586--38095662 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
38095576 TCTTTGATAG
38095586 ATTAAAAAATTAAGTGTTGAAAAAATTAAA
1 ATTAAAAAATTAAGTGTTG--AAAATTAAA
*
38095616 A--AATAAA-TAAGTGTTGAAAATTAAA
1 ATTAAAAAATTAAGTGTTGAAAATTAAA
38095641 TATTAAAAAATTAAGTGTTGAA
1 -ATTAAAAAATTAAGTGTTGAA
38095663 TATAAGTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
25 9 0.22
26 1 0.02
27 9 0.22
28 10 0.24
29 11 0.27
30 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (28 bp):
ATTAAAAAATTAAGTGTTGAAAATTAAA
Found at i:38099184 original size:27 final size:27
Alignment explanation
Indices: 38099143--38099195 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
38099133 CTGTACATGT
* *
38099143 ATGCTCATACGAGCTATGAAAATGGGC
1 ATGCTCACACAAGCTATGAAAATGGGC
*
38099170 ATGCTCACACAAGCTGTGAAAATGGG
1 ATGCTCACACAAGCTATGAAAATGGG
38099196 TCTACTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (27 bp):
ATGCTCACACAAGCTATGAAAATGGGC
Found at i:38099947 original size:27 final size:27
Alignment explanation
Indices: 38099889--38099941 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
38099879 TTGTACATGT
38099889 ATGCTCACACGATGTGTGAAAATGGGC
1 ATGCTCACACGATGTGTGAAAATGGGC
*
38099916 ATGCTCACATGA-GTTGTGAAAATGGG
1 ATGCTCACACGATG-TGTGAAAATGGG
38099942 TCTGCTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
ATGCTCACACGATGTGTGAAAATGGGC
Found at i:38099960 original size:27 final size:27
Alignment explanation
Indices: 38099889--38099960 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
38099879 TTGTACATGT
*
38099889 ATGCTCACACGATG-TGTGAAAATGGGC
1 ATGCTCACAC-AAGCTGTGAAAATGGGC
** *
38099916 ATGCTCACATGAGTTGTGAAAATGGGTC
1 ATGCTCACACAAGCTGTGAAAATGGG-C
*
38099944 -TGCTTACACAAGCTGTG
1 ATGCTCACACAAGCTGTG
38099961 GGTCGAAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (27 bp):
ATGCTCACACAAGCTGTGAAAATGGGC
Found at i:38103900 original size:27 final size:27
Alignment explanation
Indices: 38103836--38103906 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
38103826 CGATTATTGT
*
38103836 TCGCCAAGCCTACTGGCAAACACCAAC
1 TCGCCAAACCTACTGGCAAACACCAAC
* * * * *
38103863 TTGTCAGACCTACTGGCACACACCAGC
1 TCGCCAAACCTACTGGCAAACACCAAC
*
38103890 TCGCCAAACCTATTGGC
1 TCGCCAAACCTACTGGC
38103907 GATCACATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (27 bp):
TCGCCAAACCTACTGGCAAACACCAAC
Found at i:38104915 original size:17 final size:16
Alignment explanation
Indices: 38104877--38104919 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
38104867 TGTTATAAGT
*
38104877 TAATAATTAAAATAAA
1 TAATAAATAAAATAAA
*
38104893 TGAATAAATAAAACTTAA
1 T-AATAAATAAAA-TAAA
38104911 TAATAAATA
1 TAATAAATA
38104920 TGATAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 18 0.78
18 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
TAATAAATAAAATAAA
Found at i:38110737 original size:23 final size:23
Alignment explanation
Indices: 38110710--38110756 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38110700 CTTGATCTAA
38110710 ACATTTTCAAATTTAGCCTTTTT
1 ACATTTTCAAATTTAGCCTTTTT
38110733 ACATTTTCAAATTTAGCCTTTTT
1 ACATTTTCAAATTTAGCCTTTTT
38110756 A
1 A
38110757 TTCATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (23 bp):
ACATTTTCAAATTTAGCCTTTTT
Found at i:38110764 original size:22 final size:22
Alignment explanation
Indices: 38110716--38110766 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
38110706 CTAAACATTT
*
38110716 TCAAATTTAGCCTTTTTACATTT
1 TCAAATTTAGCCTTTTTA-ATTA
38110739 TCAAATTTAGCCTTTTT-ATTCA
1 TCAAATTTAGCCTTTTTAATT-A
38110761 TCAAAT
1 TCAAAT
38110767 CATTCAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 17 0.65
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (22 bp):
TCAAATTTAGCCTTTTTAATTA
Found at i:38122951 original size:32 final size:28
Alignment explanation
Indices: 38122886--38122952 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
38122876 TGATGTGTAG
*
38122886 GGTTGGTTGGGCATTGAATGCCCTTAAC
1 GGTTGGTTGGGCATTGAACGCCCTTAAC
*
38122914 GGTTGGTTGGGCATTGAACGCCTTTAAC
1 GGTTGGTTGGGCATTGAACGCCCTTAAC
38122942 GG-TGTGTTGGG
1 GGTTG-GTTGGG
38122953 ATGGCCGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.15, C:0.15, G:0.37, T:0.33
Consensus pattern (28 bp):
GGTTGGTTGGGCATTGAACGCCCTTAAC
Found at i:38124553 original size:20 final size:19
Alignment explanation
Indices: 38124507--38124546 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
38124497 TAGCGTGACT
38124507 TTTAATAATTTTTATCAAC
1 TTTAATAATTTTTATCAAC
38124526 TTTAATAAGTTTTTAT-AAC
1 TTTAATAA-TTTTTATCAAC
38124545 TT
1 TT
38124547 ATTATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTAATAATTTTTATCAAC
Found at i:38124751 original size:78 final size:78
Alignment explanation
Indices: 38124596--38124750 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
38124586 TTTTCCATAC
38124596 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
1 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
38124661 ATTTTTTAAAAAA
66 ATTTTTTAAAAAA
* *
38124674 GTTTTATTTTGTTTAAGTTCATTCTAGATGTGATTTTTT-AAAATAATTA-TTTTTATGATTTTT
1 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
38124737 ATTTTTTTAAAAAA
66 A-TTTTTTAAAAAA
38124751 ATATTTGTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
76 14 0.19
77 22 0.30
78 38 0.51
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.57
Consensus pattern (78 bp):
GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
ATTTTTTAAAAAA
Found at i:38132036 original size:38 final size:38
Alignment explanation
Indices: 38131994--38132210 Score: 247
Period size: 38 Copynumber: 5.7 Consensus size: 38
38131984 ATTGTAATGT
* * **
38131994 TATTCGAGCTATGTGCCTAGCGGGCTTTGTGCTAGTGA
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
38132032 TATTC-AGGCTCTGCGCCTTGTAGGCTTTGTGCAGGTGA
1 TATTCGA-GCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
38132070 TATTCGAGCTCTGTGCCTAGCAAGCTATGTGCTGGTGA
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
38132108 TATTCGAGCTCTATGCCTAGCAAGCTTTGTGCCGGTGT
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
38132146 TATTCGGGTTTTGTGCCTAGCAGGCTTTGTGCCGGTGT
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
*
38132184 TATTCGAGCTCCGTGCCTAGCAGGCTT
1 TATTCGAGCTCTGTGCCTAGCAGGCTT
38132211 CATGTCGATG
Statistics
Matches: 151, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
37 1 0.01
38 149 0.99
39 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.34
Consensus pattern (38 bp):
TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:38132194 original size:114 final size:114
Alignment explanation
Indices: 38131994--38132205 Score: 280
Period size: 114 Copynumber: 1.9 Consensus size: 114
38131984 ATTGTAATGT
* ** * * *
38131994 TATTCGAGCTATGTGCCTAGCGGGCTTTGTGCTAGTGATATTCAGGCTCTGCGCCTTGTAGGCTT
1 TATTCGAGCTATATGCCTAGCAAGCTTTGTGCCAGTGATATTCAGGCTCTGCGCCTAGCAGGCTT
*
38132059 TGTGCAGGTGATATTCGAGCTCTGTGCCTAGCAAGCTATGTGCTGGTGA
66 TGTGCAGGTGATATTCGAGCTCCGTGCCTAGCAAGCTATGTGCTGGTGA
* * * * * * *
38132108 TATTCGAGCTCTATGCCTAGCAAGCTTTGTGCCGGTGTTATTCGGGTTTTGTGCCTAGCAGGCTT
1 TATTCGAGCTATATGCCTAGCAAGCTTTGTGCCAGTGATATTCAGGCTCTGCGCCTAGCAGGCTT
* *
38132173 TGTGCCGGTGTTATTCGAGCTCCGTGCCTAGCA
66 TGTGCAGGTGATATTCGAGCTCCGTGCCTAGCA
38132206 GGCTTCATGT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
114 82 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.34
Consensus pattern (114 bp):
TATTCGAGCTATATGCCTAGCAAGCTTTGTGCCAGTGATATTCAGGCTCTGCGCCTAGCAGGCTT
TGTGCAGGTGATATTCGAGCTCCGTGCCTAGCAAGCTATGTGCTGGTGA
Found at i:38135376 original size:23 final size:22
Alignment explanation
Indices: 38135325--38135376 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
38135315 CCTCGTCTTT
*
38135325 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
38135347 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
38135370 TTCTTTT
1 TTCTTTT
38135377 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:38135391 original size:18 final size:18
Alignment explanation
Indices: 38135370--38135408 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38135360 TTTCTTCAAC
* *
38135370 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
38135388 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
38135406 TTC
1 TTC
38135409 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:38137204 original size:118 final size:118
Alignment explanation
Indices: 38136996--38137232 Score: 465
Period size: 118 Copynumber: 2.0 Consensus size: 118
38136986 CCAAGTCACG
*
38136996 GGAAACTCCTACTAAAACCCTAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAT
1 GGAAACTCCTACGAAAACCCTAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAT
38137061 TTTTGAATTTTCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATT
66 TTTTGAATTTTCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATT
38137114 GGAAACTCCTACGAAAACCCTAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAT
1 GGAAACTCCTACGAAAACCCTAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAT
38137179 TTTTGAATTTTCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATT
66 TTTTGAATTTTCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATT
38137232 G
1 G
38137233 AGAATAGAAA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (118 bp):
GGAAACTCCTACGAAAACCCTAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAT
TTTTGAATTTTCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATT
Found at i:38137656 original size:325 final size:315
Alignment explanation
Indices: 38137189--38137829 Score: 1138
Period size: 315 Copynumber: 2.0 Consensus size: 315
38137179 TTTTGAATTT
38137189 TCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGG
1 TCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGG
38137254 GTTCTTGAAACCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAA
66 GTTCTTGAAACCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAA
* * * *
38137319 TTTCGGCAATCTAATTTCTCCCAAAAAGAGTATGGATGAATCGGCAAGAACCCTAGAAATTGGGG
131 TTTCGACAATCTAATTTC-ACCAAAAA-AG-A--G-T--AT-GG-AAAAACCCTAGAAATTGGAG
38137384 ATTTTTGGGCTGATTCCTTAAGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAAATTA
186 ATTTTTGGGCTGATTCCTTAAGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAAATTA
38137449 GATAATGATTCAGCACAAGTAGAAATAAAGAAAGAATTGATAGTAAGAAATTAAAAGATAAGTCC
251 GATAATGATTCAGCACAAGTAGAAATAAAGAAAGAATTGATAGTAAGAAATTAAAAGATAAGTCC
38137514 TCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGG
1 TCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGG
38137579 GTTCTTGAAACCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAA
66 GTTCTTGAAACCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAA
*
38137644 TTTTGACAATCTAATTTCACCAAAAAAGAGTATGGAAAAACCCTAGAAATTGGAGATTTTTGGGC
131 TTTCGACAATCTAATTTCACCAAAAAAGAGTATGGAAAAACCCTAGAAATTGGAGATTTTTGGGC
*
38137709 TGATTCCTTAAGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATT
196 TGATTCCTTAAGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAAATTAGATAATGATT
38137774 CAGCACAAGTAGAAATAAAGAAAGAATTGATAGTAAGAAATTAAAAGATAAGTCC
261 CAGCACAAGTAGAAATAAAGAAAGAATTGATAGTAAGAAATTAAAAGATAAGTCC
38137829 T
1 T
38137830 AAGAAGCCTT
Statistics
Matches: 310, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
315 148 0.48
316 2 0.01
317 2 0.01
319 1 0.00
320 1 0.00
322 1 0.00
323 2 0.01
324 7 0.02
325 146 0.47
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (315 bp):
TCAGATCTGAAATAAAATCCCCAAATCAGCAAAGAATCAAATTGAGAATAGAAATAAGTGTTAGG
GTTCTTGAAACCCTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAA
TTTCGACAATCTAATTTCACCAAAAAAGAGTATGGAAAAACCCTAGAAATTGGAGATTTTTGGGC
TGATTCCTTAAGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAAATTAGATAATGATT
CAGCACAAGTAGAAATAAAGAAAGAATTGATAGTAAGAAATTAAAAGATAAGTCC
Found at i:38140768 original size:16 final size:17
Alignment explanation
Indices: 38140738--38140770 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38140728 TACTGGCCAA
*
38140738 TCTTCATGGTGTTATGG
1 TCTTCATGGTCTTATGG
38140755 TCTT-ATGGTCTTATGG
1 TCTTCATGGTCTTATGG
38140771 AAATGAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.12, G:0.27, T:0.48
Consensus pattern (17 bp):
TCTTCATGGTCTTATGG
Found at i:38143037 original size:27 final size:27
Alignment explanation
Indices: 38143007--38143060 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
38142997 GTACATATAT
38143007 AAACATCCATATCAAAGCAAACTTTGA
1 AAACATCCATATCAAAGCAAACTTTGA
38143034 AAACATCCATATCAAAGCAAACTTTGA
1 AAACATCCATATCAAAGCAAACTTTGA
38143061 GAGATGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (27 bp):
AAACATCCATATCAAAGCAAACTTTGA
Found at i:38144007 original size:43 final size:43
Alignment explanation
Indices: 38143946--38144033 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
38143936 AAAACATATA
38143946 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
1 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
38143989 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
1 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
38144032 TA
1 TA
38144034 CAAAAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.10, C:0.27, G:0.02, T:0.60
Consensus pattern (43 bp):
TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
Done.