Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2085
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: 58155
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Found at i:1812 original size:21 final size:21
Alignment explanation
Indices: 1769--1813 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1759 ATGATAAAAG
* * *
1769 TTTTTTCATAGTTTTTTTAAT
1 TTTTTTCAAAGTATATTTAAT
*
1790 TTTTTTCAAAGTATATTTGAT
1 TTTTTTCAAAGTATATTTAAT
1811 TTT
1 TTT
1814 ATCAAAAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTTTCAAAGTATATTTAAT
Found at i:2584 original size:21 final size:21
Alignment explanation
Indices: 2560--2614 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
2550 TTATCCTTTC
2560 CTTCATCTAATTCTCTATT-TT
1 CTTC-TCTAATTCTCTATTCTT
*
2581 CTTCTCCAAATTCTCTATTCTT
1 CTTCT-CTAATTCTCTATTCTT
2603 C-TCTCTAATTCT
1 CTTCTCTAATTCT
2615 TTGTTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.27
21 19 0.63
22 3 0.10
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (21 bp):
CTTCTCTAATTCTCTATTCTT
Found at i:3228 original size:17 final size:17
Alignment explanation
Indices: 3206--3239 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3196 AAATTACTCT
*
3206 TTTTCTTTTTTTTTTTA
1 TTTTCTTTATTTTTTTA
3223 TTTTCTTTATTTTTTTA
1 TTTTCTTTATTTTTTTA
3240 CCTAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTTTATTTTTTTA
Found at i:4072 original size:2 final size:2
Alignment explanation
Indices: 4067--4096 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4057 ACACACACAC
4067 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4097 CTAGCTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5064 original size:43 final size:43
Alignment explanation
Indices: 5003--5087 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
4993 AAAACTGCAG
*
5003 AGAAGGAATCCAGACCATGCCTTACGAATAGAAACAACAAAAT
1 AGAAGGAATCCAGACCATGCCTTACAAATAGAAACAACAAAAT
*
5046 AGAAGGAATCCAGACCATGCCTTATAAATAGAAACAACAAAA
1 AGAAGGAATCCAGACCATGCCTTACAAATAGAAACAACAAAA
5088 AGTTGATCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.14
Consensus pattern (43 bp):
AGAAGGAATCCAGACCATGCCTTACAAATAGAAACAACAAAAT
Found at i:12988 original size:2 final size:2
Alignment explanation
Indices: 12981--13011 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12971 AAAGTTACAA
12981 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13012 AGACTTGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13386 original size:12 final size:13
Alignment explanation
Indices: 13350--13389 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
13340 TAATAAAAAA
13350 TATTATAATT-TT
1 TATTATAATTATT
13362 TATTATAATTTATT
1 TATTATAA-TTATT
13376 TATTA-AATTATT
1 TATTATAATTATT
13388 TA
1 TA
13390 ATTTTTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 15 0.58
13 4 0.15
14 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATAATTATT
Found at i:13576 original size:19 final size:19
Alignment explanation
Indices: 13554--13622 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
13544 AAGTACAAAA
*
13554 TATTGTTATAATTACTTAT
1 TATTATTATAATTACTTAT
* * *
13573 TATTATTTTAAATAGTTACT
1 TATTATTATAATTACTTA-T
13593 TATTATTATAATTACTTAT
1 TATTATTATAATTACTTAT
*
13612 TGTTATTATAA
1 TATTATTATAA
13623 ATAACATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 25 0.61
20 16 0.39
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
TATTATTATAATTACTTAT
Found at i:17515 original size:20 final size:20
Alignment explanation
Indices: 17487--17558 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
17477 AACCTAGATA
17487 TATCAATACAATGATAAATG
1 TATCAATACAATGATAAATG
* *
17507 TATCGATACAATTTGA-AGCATG
1 TATCAATACAA--TGATA-AATG
* * * *
17529 TATCGATACATTTATTAATG
1 TATCAATACAATGATAAATG
17549 TATCAATACA
1 TATCAATACA
17559 TTTCCTTGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
20 24 0.59
21 1 0.02
22 16 0.39
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (20 bp):
TATCAATACAATGATAAATG
Found at i:18456 original size:52 final size:52
Alignment explanation
Indices: 18378--18729 Score: 289
Period size: 52 Copynumber: 6.9 Consensus size: 52
18368 TGATATTGGG
* * * * *
18378 CTTAAGGATGAGAAAAATACCAATGTGCTGATTCACGGCCAGCGACATTAGA
1 CTTAAAGATAAGAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGA
* *
18430 CTTAAAGATAAGAAAAATGCCAATGTGCTGATTCAAGGCCAGC-A-ATATAGGG
1 CTTAAAGATAAGAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACAT-TA-GA
* * * * * **
18482 CTT-AGGA-ATGTTAAAGATGCCAATATGTTGATTCAAGGCCAGCGATATCGGA
1 CTTAAAGATAAG--AAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGA
* * * * ** *
18534 CTTAAA-A-ATG-AAGGTGCTAGTGTGCTGATTCAAGGTTAGTGACATTAGA
1 CTTAAAGATAAGAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGA
* *
18583 CTTAAAGAT--G-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA
1 CTTAAAGATAAGAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGA
* * * * *
18632 CTTAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATAAGAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGA
* * * *
18684 CTT-AAGA-AA-AAAAATGCCAATGTGCTAATTCAAGGCTAGTGACATT
1 CTTAAAGATAAGAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
18730 GGGCTTAGAA
Statistics
Matches: 246, Mismatches: 42, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
49 108 0.44
50 6 0.02
51 10 0.04
52 118 0.48
53 2 0.01
54 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
CTTAAAGATAAGAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGA
Found at i:18585 original size:49 final size:49
Alignment explanation
Indices: 18397--18729 Score: 267
Period size: 49 Copynumber: 6.6 Consensus size: 49
18387 GAGAAAAATA
* **
18397 CCAATGTGCTGATTCACGGCCAGCGACATTAGACTTAAAGATAAGAAAAATG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT--G-AAGGTG
* * * *
18449 CCAATGTGCTGATTCAAGGCCAGC-A-ATATAGGGCTTAGGAATGTTAAAGATG
1 CCAATGTGCTGATTCAAGGCCAGCGACAT-TA-GACTTA--AA-GATGAAGGTG
* * * ** *
18501 CCAATATGTTGATTCAAGGCCAGCGATATCGGACTTAAAAATGAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTG
* * ** *
18550 CTAGTGTGCTGATTCAAGGTTAGTGACATTAGACTTAAAGATGAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTG
* *
18599 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGATG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATG---AAGGTG
* * * ** **
18651 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGAAAAAAAATG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAG-ATGAAGGTG
* * *
18700 CCAATGTGCTAATTCAAGGCTAGTGACATT
1 CCAATGTGCTGATTCAAGGCCAGCGACATT
18730 GGGCTTAGAA
Statistics
Matches: 228, Mismatches: 42, Indels: 25
0.77 0.14 0.08
Matches are distributed among these distances:
49 111 0.49
50 4 0.02
51 6 0.03
52 100 0.44
53 1 0.00
54 4 0.02
55 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGGTG
Found at i:18647 original size:150 final size:152
Alignment explanation
Indices: 18390--18729 Score: 436
Period size: 150 Copynumber: 2.2 Consensus size: 152
18380 TAAGGATGAG
* * * *
18390 AAAAATACCAATGTGCTGATTCACGGCCAGCGACATTAGACTTAAAGATAAGAAAAATGCCAATG
1 AAAAATGCCAATGTGCTGATTCAAGGCTAGTGACATTAGACTTAAAGAT-AGAAAAATGCCAATG
* * * * *
18455 TGCTGATTCAAGGCCAGCAATATAGGGCTTAGGAATGTTAAAGATGCCAATATGTTGATTCAAGG
65 TGCTGATTCAAGGCCAGCAACATAGGACTTAAGAATGATAAAGATGCCAATATGCTGATTCAAGG
18520 CCAGCGATATCGGACTTAA-AAA
130 CCAGCGATATCGGACTTAAGAAA
* ** * * * **
18542 TGAAGGTGCTAGTGTGCTGATTCAAGGTTAGTGACATTAGACTTAAAGAT-G-AAGGTGCCAATG
1 -AAAAATGCCAATGTGCTGATTCAAGGCTAGTGACATTAGACTTAAAGATAGAAAAATGCCAATG
* *
18605 TGCTGATTCAAGGCCAGCGACATTGGACTTAA-AGATGATAAAGATGCCAATATGCTGATTCAAG
65 TGCTGATTCAAGGCCAGCAACATAGGACTTAAGA-ATGATAAAGATGCCAATATGCTGATTCAAG
*
18669 GCCAGCGATATTGGACTTAAGAAA
129 GCCAGCGATATCGGACTTAAGAAA
*
18693 AAAAATGCCAATGTGCTAATTCAAGGCTAGTGACATT
1 AAAAATGCCAATGTGCTGATTCAAGGCTAGTGACATT
18730 GGGCTTAGAA
Statistics
Matches: 158, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
149 1 0.01
150 114 0.72
151 4 0.03
153 39 0.25
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (152 bp):
AAAAATGCCAATGTGCTGATTCAAGGCTAGTGACATTAGACTTAAAGATAGAAAAATGCCAATGT
GCTGATTCAAGGCCAGCAACATAGGACTTAAGAATGATAAAGATGCCAATATGCTGATTCAAGGC
CAGCGATATCGGACTTAAGAAA
Found at i:18912 original size:34 final size:33
Alignment explanation
Indices: 18832--19146 Score: 227
Period size: 34 Copynumber: 9.4 Consensus size: 33
18822 TTGTAGACTT
* * *
18832 AAAAGGGTGCTATGGAGTTATGGAC-TTAAAAGG
1 AAAAAGGTGCCATGGAGTTATGGGCTTTAAAA-G
* *
18865 AAAAAGAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 -AAAA-AGGTGCCATGGAGTTATGGGCTTT-AAAAG
* * * *
18901 AAAAATGTGCCATAGAGTTGTGGAC-TTAAAAG
1 AAAAAGGTGCCATGGAGTTATGGGCTTTAAAAG
* *
18933 -----GGTGCCATGGAGTTATGGAC-ATAAAAGGG
1 AAAAAGGTGCCATGGAGTTATGGGCTTTAAAA--G
* * *
18962 GAAAAGGTGCGATGGAGTTATGGGCTTTGAAAAA
1 AAAAAGGTGCCATGGAGTTATGGGCTTT-AAAAG
* * *
18996 AAAAAGATGCCATGGAGTTATGGAC-ATAAAAGG
1 AAAAAGGTGCCATGGAGTTATGGGCTTTAAAA-G
*
19029 AAAAAAGGTGCGATGGAGTTATGGGCTTTGAAAAG
1 -AAAAAGGTGCCATGGAGTTATGGGCTTT-AAAAG
* *
19064 AAAAAGATGCCATGGAGTTAT-GGATTTAAAAGG
1 AAAAAGGTGCCATGGAGTTATGGGCTTTAAAA-G
*
19097 AAAAAAATGGTGCCATGGAGTTGTGGGCTTTGAAAAG
1 --AAAAA-GGTGCCATGGAGTTATGGGCTTT-AAAAG
*
19134 AACAAGGTGCCAT
1 AAAAAGGTGCCAT
19147 TGAATTGTGG
Statistics
Matches: 225, Mismatches: 34, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
27 22 0.10
29 1 0.00
32 13 0.06
33 9 0.04
34 109 0.48
35 32 0.14
36 25 0.11
37 10 0.04
38 4 0.02
ACGTcount: A:0.37, C:0.09, G:0.32, T:0.22
Consensus pattern (33 bp):
AAAAAGGTGCCATGGAGTTATGGGCTTTAAAAG
Found at i:18939 original size:27 final size:27
Alignment explanation
Indices: 18907--18961 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
18897 AAAGAAAAAT
* *
18907 GTGCCATAGAGTTGTGGACTTAAAAGG
1 GTGCCATAGAGTTATGGACATAAAAGG
*
18934 GTGCCATGGAGTTATGGACATAAAAGG
1 GTGCCATAGAGTTATGGACATAAAAGG
18961 G
1 G
18962 GAAAAGGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.24
Consensus pattern (27 bp):
GTGCCATAGAGTTATGGACATAAAAGG
Found at i:19020 original size:95 final size:96
Alignment explanation
Indices: 18827--19028 Score: 282
Period size: 95 Copynumber: 2.1 Consensus size: 96
18817 CAAAGTTGTA
* * *
18827 GACTTAAAAGGGTGCTATGGAGTTATGGACTTAAAAGGAAAAAGAGGTGCCACGGAGTTGTGGGC
1 GACTTAAAAGGGTGCCATGGAGTTATGGACATAAAAGGAAAAAGAGGTGCCACGGAGTTATGGGC
* *
18892 TTTGAAAAGAAAAATGTGCCATAGAGTTGTG
66 TTTGAAAAGAAAAAAGTGCCATAGAGTTATG
** * *
18923 GACTTAAAAGGGTGCCATGGAGTTATGGACATAAAAGGGGAAA-AGGTGCGATGGAGTTATGGGC
1 GACTTAAAAGGGTGCCATGGAGTTATGGACATAAAAGGAAAAAGAGGTGCCACGGAGTTATGGGC
*
18987 TTTGAAAA-AAAAAAGATGCCATGGAGTTATG
66 TTTGAAAAGAAAAAAG-TGCCATAGAGTTATG
*
19018 GACATAAAAGG
1 GACTTAAAAGG
19029 AAAAAAGGTG
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
94 6 0.06
95 49 0.52
96 39 0.41
ACGTcount: A:0.37, C:0.09, G:0.32, T:0.22
Consensus pattern (96 bp):
GACTTAAAAGGGTGCCATGGAGTTATGGACATAAAAGGAAAAAGAGGTGCCACGGAGTTATGGGC
TTTGAAAAGAAAAAAGTGCCATAGAGTTATG
Found at i:19124 original size:70 final size:68
Alignment explanation
Indices: 18935--19146 Score: 325
Period size: 68 Copynumber: 3.1 Consensus size: 68
18925 CTTAAAAGGG
** *
18935 TGCCATGGAGTTATGGACATAAAAGGGGAAAAGGTGCGATGGAGTTATGGGCTTTGAAAAAAAAA
1 TGCCATGGAGTTATGGACATAAAAGGAAAAAAGGTGCGATGGAGTTATGGGCTTTGAAAAGAAAA
19000 AGA
66 AGA
19003 TGCCATGGAGTTATGGACATAAAAGGAAAAAAGGTGCGATGGAGTTATGGGCTTTGAAAAGAAAA
1 TGCCATGGAGTTATGGACATAAAAGGAAAAAAGGTGCGATGGAGTTATGGGCTTTGAAAAGAAAA
19068 AGA
66 AGA
** * *
19071 TGCCATGGAGTTATGGATTTAAAAGGAAAAAAATGGTGCCATGGAGTTGTGGGCTTTGAAAAGAA
1 TGCCATGGAGTTATGGACATAAAAGG-AAAAAA-GGTGCGATGGAGTTATGGGCTTTGAAAAGAA
* *
19136 CAAGG
64 AAAGA
19141 TGCCAT
1 TGCCAT
19147 TGAATTGTGG
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
68 89 0.67
69 6 0.05
70 38 0.29
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.22
Consensus pattern (68 bp):
TGCCATGGAGTTATGGACATAAAAGGAAAAAAGGTGCGATGGAGTTATGGGCTTTGAAAAGAAAA
AGA
Found at i:19205 original size:27 final size:27
Alignment explanation
Indices: 19151--19245 Score: 140
Period size: 26 Copynumber: 3.6 Consensus size: 27
19141 TGCCATTGAA
*
19151 TTGTGGACTT-AAAGGGTGCTACAAAG
1 TTGTGGACTTAAAAGGGTGCCACAAAG
***
19177 TTGTGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACAAAG
19204 TTGTGGACTTAAAA-GGTGCCACAAAG
1 TTGTGGACTTAAAAGGGTGCCACAAAG
19230 TTGTGGACTTAAAAGG
1 TTGTGGACTTAAAAGG
19246 AAAAGGTGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 33 0.55
27 27 0.45
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.26
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACAAAG
Found at i:19214 original size:53 final size:53
Alignment explanation
Indices: 19139--19245 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
19129 AAAAGAACAA
* * *
19139 GGTGCCATTGAATTGTGGACTTAAAGGGTGCTACAAAGTTGTGGACTTAAAAG
1 GGTGCCATGGAATTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAG
*
19192 GGTGCCATGGAGTTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAG
1 GGTGCCATGGAATTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAG
19245 G
1 G
19246 AAAAGGTGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (53 bp):
GGTGCCATGGAATTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAG
Found at i:19310 original size:32 final size:31
Alignment explanation
Indices: 19215--19316 Score: 123
Period size: 32 Copynumber: 3.2 Consensus size: 31
19205 TGTGGACTTA
* * *
19215 AAAGGTGCCACAAAGTTGTGGACTTAAAAGGA
1 AAAGGTG-CACGAAGTTATGGACTTAAAAGGG
* *
19247 AAAGGTGCTACGGACTTATGGACTTAAAAGGG
1 AAAGGTGC-ACGAAGTTATGGACTTAAAAGGG
19279 AAAGGTGACACGAAGTTATGGACTTAAAAGGG
1 AAAGGTG-CACGAAGTTATGGACTTAAAAGGG
19311 ATAAGG
1 A-AAGG
19317 GTGCCATGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.02
32 54 0.90
33 5 0.08
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (31 bp):
AAAGGTGCACGAAGTTATGGACTTAAAAGGG
Found at i:19415 original size:26 final size:26
Alignment explanation
Indices: 19346--19416 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 26
19336 TTTGAAAAAA
19346 AAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAGGTGCCATGGAGTTGTGGACTT
* ** *
19372 AAGAGGCTGCCACAGAGTTGTGGTCTT
1 AAAAGG-TGCCATGGAGTTGTGGACTT
19399 AAAAGGTGCCATGGAGTT
1 AAAAGGTGCCATGGAGTT
19417 CTGGGCTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 15 0.41
27 22 0.59
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (26 bp):
AAAAGGTGCCATGGAGTTGTGGACTT
Found at i:19536 original size:26 final size:26
Alignment explanation
Indices: 19504--19554 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
19494 AAAAGAAAAA
19504 GGTGCCACGGAGTTATGGACTTAAAG
1 GGTGCCACGGAGTTATGGACTTAAAG
* *
19530 GGTGCCATGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTATGGACTTAAA
19555 AGGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.25
Consensus pattern (26 bp):
GGTGCCACGGAGTTATGGACTTAAAG
Found at i:19596 original size:155 final size:154
Alignment explanation
Indices: 19187--20029 Score: 468
Period size: 155 Copynumber: 5.4 Consensus size: 154
19177 TTGTGGACTT
* * * * *
19187 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGG
* * * * *
19252 TGCTACGGACTTATGGACTTAAAAGGGAAAGGTGACACGAAGTTATGGACTTAAAAGGGATAAGG
66 TGCCATGGAGTTATGGACTT-AAA---AAAGGTGCCACGAAGTTATGGACTTAAAAGGGAAAAGG
* * *
19317 GTGCCATGGAGTTATGGGCTTTGAAAAA
127 GTGCCACGAAGTTATGGGCTTTGAAAAG
* * * *
19345 AAAAAGGTGCCATGGAGTTGTGGACTTAAGAGGCTGCCACAGAGTTGTGGTCTT------AAAAG
1 AAAAAGGTGCCACGGAGTTATGGACTTAA-AGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAG
* * *
19404 GTGCCATGGAGTTCTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTTAAAAGGAAAA
65 GTGCCATGGAGTTATGGAC-TT----A-AAAAAGGTGCCACGAAGTTATGGACTTAAAAGGGAAA
* *
19469 ACGGTGCCACGAAGTTGT-GGCTTTGAAAAG
124 AGGGTGCCACGAAGTTATGGGCTTTGAAAAG
**
19499 AAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG---AAA
* * * * **
19564 AGGTGCCATGGAGTTGTGGACTT-AAAATGGTGCCAC-AGAGTTGTAGACAAAAAAGGGAAAAGG
63 AGGTGCCATGGAGTTATGGACTTAAAAAAGGTGCCACGA-AGTTATGGACTTAAAAGGGAAAAGG
* *
19627 GTGCGAC-AGAGTTATGGGCTTTAAAAAG
127 GTGCCACGA-AGTTATGGGCTTTGAAAAG
* * * *
19655 AAAAAGATACCACGAAGTTATGGACTTAAAAGGAAAAAAGAGTGCCAC-GAAGTTGTGGGCTTTG
1 AAAAAGGTGCCACGGAGTTATGGACTT-AAA-G------G-GTGCCACAG-AGTTGTGGAC-TT-
* * * * * * *
19719 AAAAGAAAAAGGTGCCACGGAGTTGTAGACTT--AAAGGGTGCCACGGAGTTGTGGACTT-----
54 AAAAGGAAAAGGTGCCATGGAGTTATGGACTTAAAAAAGGTGCCACGAAGTTATGGACTTAAAAG
* * * **
19777 --AAAAGGGTGCCATGGAG-T-T--G---T-AGACT
119 GGAAAAGGGTGCCACGAAGTTATGGGCTTTGAAAAG
* * * *
19803 AAAAAGGTGCCACAGAGTTGTGAACTTAAAAGGGAAATGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTATGGACTT-AAA-GG----GTGCCACAGAGTTGTGGACTTAAAA-G
* * * * * *
19868 GAAAAGGGTGCCATGGAGTTATGGGCTTTGAAAAGAAAAAAGTGCCATGGAGTTGTAGACTTAAA
59 GAAAA-GGTGCCATGGAGTTATGGAC-TT----A-AAAAAGGTGCCACGAAGTTATGGACTT-AA
** *
19933 AAGAAAAAAAGGGTGCCACAGAA-TTGTGGGCTTTGAAAAG
116 AAG-GGAAAAGGGTGCCAC-GAAGTTATGGGCTTTGAAAAG
** * * *
19973 AAAAAAATGCCATGGAGTTATGGACTTAAAGGGTGCCA-TGAAGTTGTGTACTTAAAA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCACAG-AGTTGTGGACTTAAAA
20030 AGGTGTCACA
Statistics
Matches: 535, Mismatches: 85, Indels: 124
0.72 0.11 0.17
Matches are distributed among these distances:
142 1 0.00
143 4 0.01
144 7 0.01
145 32 0.06
146 3 0.01
148 29 0.05
149 1 0.00
152 1 0.00
153 61 0.11
154 43 0.08
155 89 0.17
156 48 0.09
157 5 0.01
158 31 0.06
159 20 0.04
161 2 0.00
162 34 0.06
163 24 0.04
164 48 0.09
165 15 0.03
166 3 0.01
167 5 0.01
168 2 0.00
169 4 0.01
170 23 0.04
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.22
Consensus pattern (154 bp):
AAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGG
TGCCATGGAGTTATGGACTTAAAAAAGGTGCCACGAAGTTATGGACTTAAAAGGGAAAAGGGTGC
CACGAAGTTATGGGCTTTGAAAAG
Found at i:19617 original size:27 final size:27
Alignment explanation
Indices: 19558--19617 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
19548 ACTTAAAAGG
** *
19558 AAAAAAAGGTGCCATGGAGTTGTGGAC
1 AAAAAAAGGTGCCACAGAGTTGTAGAC
** *
19585 TTAAAATGGTGCCACAGAGTTGTAGAC
1 AAAAAAAGGTGCCACAGAGTTGTAGAC
19612 AAAAAA
1 AAAAAA
19618 GGGAAAAGGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.20
Consensus pattern (27 bp):
AAAAAAAGGTGCCACAGAGTTGTAGAC
Found at i:19630 original size:61 final size:61
Alignment explanation
Indices: 19497--19643 Score: 170
Period size: 61 Copynumber: 2.4 Consensus size: 61
19487 GGCTTTGAAA
** * **
19497 AGAAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCATGGAGTTGTGGACTTAAAAGG
1 AGAAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCACAGAGTTGTAGACAAAAAAGG
* * * *
19558 AAAAAAAGGTGCCATGGAGTTGTGGACTTAAAATGGTGCCACAGAGTTGTAGACAAAAAAGG
1 AGAAAAAGGTGCCACGGAGTTATGGACTT-AAAGGGTGCCACAGAGTTGTAGACAAAAAAGG
* * *
19620 -GAAAAGGGTGCGACAGAGTTATGG
1 AGAAAAAGGTGCCACGGAGTTATGG
19644 GCTTTAAAAA
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
61 44 0.63
62 26 0.37
ACGTcount: A:0.36, C:0.11, G:0.33, T:0.20
Consensus pattern (61 bp):
AGAAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCACAGAGTTGTAGACAAAAAAGG
Found at i:19743 original size:34 final size:32
Alignment explanation
Indices: 19214--20002 Score: 391
Period size: 34 Copynumber: 24.9 Consensus size: 32
19204 TTGTGGACTT
** *
19214 AAAAGGTGCCACAAAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
* * * *
19246 AAAAGGTGCTACGGACTTATGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
* * * *
19278 GAAAGGTGACACGAAGTTATGGACTTAAAAGGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA--GA
* * * * * *
19312 TAAGGGTGCCATGGAGTTATGGGCTTTGAAAAAA
1 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGA
*
19346 AAAAGGTGCCATGGAGTTGTGGACTT--AAG-
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
* *
19375 ---AGGCTGCCACAGAGTTGTGGTCTT------
1 AAAAGG-TGCCACGGAGTTGTGGACTTAAAAGA
* * *
19399 AAAAGGTGCCATGGAGTTCTGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGA
* *
19433 AAAAGGTGCCACGAAGTTATGGACTTAAAAGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA-GA
*
19466 AAAACGGTGCCACGAAGTTGTGG-CTTTGAAAAGA
1 AAAA-GGTGCCACGGAGTTGTGGAC-TT-AAAAGA
*
19500 AAAAGGTGCCACGGAGTTATGGACTT-AAAG-
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
*
19530 ----GGTGCCATGGAGTTGTGGACTTAAAAGGAAA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA-G--A
*
19561 AAAAGGTGCCATGGAGTTGTGGACTT-----A
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
* * * **
19588 AAATGGTGCCACAGAGTTGTAGACAAAAAAGGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA--GA
* * * * *
19622 AAAGGGTGCGACAGAGTTATGGGCTTTAAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGA
* * * *
19656 AAAAGATACCACGAAGTTATGGACTTAAAAGGAA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-A
* *
19690 AAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGA
1 AAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGA
*
19725 AAAAGGTGCCACGGAGTTGTAGACTT-AAAG-
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
19755 ----GGTGCCACGGAGTTGTGGACTTAAAAG-
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
* *
19782 ----GGTGCCATGGAGTTGTAGAC-T-----A
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
* * *
19804 AAAAGGTGCCACAGAGTTGTGAACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
* *
19836 GAAATGTGCCACGGAGTTGTGGACTTAAAAGGGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA--GA
* * * *
19870 AAAGGGTGCCATGGAGTTATGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGA
* * *
19904 AAAAAGTGCCATGGAGTTGTAGACTTAAAAAGAAA
1 AAAAGGTGCCACGGAGTTGTGGACTT-AAAAG--A
* * *
19939 AAAAGGGTGCCACAGAATTGTGGGCTTTGAAAAGA
1 AAAA-GGTGCCACGGAGTTGTGGAC-TT-AAAAGA
** * *
19974 AAAAAATGCCATGGAGTTATGGACTTAAA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAA
20003 GGGTGCCATG
Statistics
Matches: 588, Mismatches: 105, Indels: 128
0.72 0.13 0.16
Matches are distributed among these distances:
26 75 0.13
27 69 0.12
28 1 0.00
30 2 0.00
31 8 0.01
32 89 0.15
33 43 0.07
34 200 0.34
35 61 0.10
36 29 0.05
37 11 0.02
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.21
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGA
Found at i:19761 original size:26 final size:26
Alignment explanation
Indices: 19729--19864 Score: 139
Period size: 26 Copynumber: 5.0 Consensus size: 26
19719 AAAAGAAAAA
19729 GGTGCCACGGAGTTGTAGACTTAAAG
1 GGTGCCACGGAGTTGTAGACTTAAAG
*
19755 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTAGACTT-AAAG
* * *
19782 GGTGCCATGGAGTTGTAGACTAAAAA
1 GGTGCCACGGAGTTGTAGACTTAAAG
*
19808 GGTGCCACAGAGTTGT-GAACTTAAAAGG
1 GGTGCCACGGAGTTGTAG-ACTT-AAA-G
*
19836 GAAATGTGCCACGGAGTTGTGGACTTAAA
1 G----GTGCCACGGAGTTGTAGACTTAAA
19865 AGGGAAAAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.01
26 41 0.45
27 26 0.29
28 1 0.01
31 3 0.03
32 18 0.20
33 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (26 bp):
GGTGCCACGGAGTTGTAGACTTAAAG
Found at i:19769 original size:225 final size:214
Alignment explanation
Indices: 19412--19823 Score: 635
Period size: 225 Copynumber: 1.9 Consensus size: 214
19402 AGGTGCCATG
* * * * *
19412 GAGTTCTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTTAAAAGGAAAAACGGTGCC
1 GAGTTATGGGCTTTAAAAAGAAAAAGATACCACGAAGTTATGGACTTAAAAGGAAAAAAGGTGCC
* *
19477 ACGAAGTTGTGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTAAAGGGTGCCATGGAG
66 ACGAAGTTGTGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAGACTTAAAGGGTGCCACGGAG
* *
19542 TTGTGGACTTAAAAGGAAAAAAAGGTGCCATGGAGTTGTGGACTTAAAATGGTGCCACAGAGTTG
131 TTGTGGACTTAAAA-G-------GGTGCCATGGAGTTGTAGAC-TAAAAAGGTGCCACAGAGTTG
19607 TAGACAAAAAAGGGAAAAGGGTGCGACA
187 TAGACAAAAAAGGGAAAAGGGTGCGACA
19635 GAGTTATGGGCTTTAAAAAGAAAAAGATACCACGAAGTTATGGACTTAAAAGGAAAAAAGAGTGC
1 GAGTTATGGGCTTTAAAAAGAAAAAGATACCACGAAGTTATGGACTTAAAAGGAAAAAAG-GTGC
*
19700 CACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTAGACTTAAAGGGTGCCACGG
65 CACGAAGTTGT-GGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAGACTTAAAGGGTGCCACGG
19765 AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTAGACTAAAAAGGTGCCACAGAGTTGT
129 AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTAGACTAAAAAGGTGCCACAGAGTTGT
19824 GAACTTAAAA
Statistics
Matches: 177, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
216 21 0.12
217 19 0.11
223 55 0.31
224 16 0.09
225 66 0.37
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (214 bp):
GAGTTATGGGCTTTAAAAAGAAAAAGATACCACGAAGTTATGGACTTAAAAGGAAAAAAGGTGCC
ACGAAGTTGTGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAGACTTAAAGGGTGCCACGGAG
TTGTGGACTTAAAAGGGTGCCATGGAGTTGTAGACTAAAAAGGTGCCACAGAGTTGTAGACAAAA
AAGGGAAAAGGGTGCGACA
Found at i:19812 original size:53 final size:53
Alignment explanation
Indices: 19724--20209 Score: 222
Period size: 53 Copynumber: 8.5 Consensus size: 53
19714 CTTTGAAAAG
* * * * *
19724 AAAAAGGTGCCACGGAGTTGTAGACTTAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
19777 AAAAGGGTGCCATGGAGTTGTAGACTAAAAAGGTGCCACAGAGTTGTGAACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGTGCCACAGAGTTGTGGACTT
** * *
19830 AAAAGGGAAATGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAGGGTGCCATGGAGTTATGGGCT
1 AAAA-GG----GTGCCACGGAGTTGTGGAC-T---A---AAAA-GGTGCCACAGAGTTGTGGAC-
19895 TT
52 TT
* * * *
19897 GAAAAGAAAAAAGTGCCATGGAGTTGTAGACTTAAAAAGAAAAAAAGGGTGCCACAGAATTGTGG
1 -AAAAG-----GGTGCCACGGAGTTGTGGAC-T--------AAAAA-GGTGCCACAGAGTTGTGG
*
19962 GCTTT
50 AC-TT
** * * * * * *
19967 GAAAAGAAAAAAATGCCATGGAGTTATGGACTTAAAGGGTGCCA-TGAAGTTGTGTACTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTAAAAAGGTGCCACAG-AGTTGTGGACTT
* * * * * * *
20026 AAAAAGGTGTCACAGAGTTGTGAACTTAAAAGGTGTCACGGAGTTGTGG-CTT
1 AAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGTGCCACAGAGTTGTGGACTT
* *
20078 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAA-GTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TAAAAAGGTGCCACAGAGTTGTGGACTT
* ** * * *
20131 AAAAGGATGCCATAGAGTTGTGGACTTAAAAGGTGCCACAAAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGTGCCACAGAGTTGTGGACTT
* *
20184 AAAAGGGTACCACAGAGTTGTGGACT
1 AAAAGGGTGCCACGGAGTTGTGGACT
20210 TTGAAAAGAA
Statistics
Matches: 345, Mismatches: 58, Indels: 60
0.75 0.13 0.13
Matches are distributed among these distances:
52 44 0.13
53 154 0.45
54 3 0.01
58 21 0.06
59 4 0.01
60 14 0.04
61 3 0.01
62 1 0.00
65 4 0.01
66 15 0.04
67 3 0.01
68 23 0.07
69 1 0.00
70 52 0.15
73 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.23
Consensus pattern (53 bp):
AAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:19853 original size:32 final size:32
Alignment explanation
Indices: 19809--19871 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
19799 GACTAAAAAG
19809 GTGCCACAGAGTTGTGAACTTAAAAGGGAAAT
1 GTGCCACAGAGTTGTGAACTTAAAAGGGAAAT
* *
19841 GTGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 GTGCCACAGAGTTGTGAACTTAAAAGGGAAA
19872 AGGGTGCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (32 bp):
GTGCCACAGAGTTGTGAACTTAAAAGGGAAAT
Found at i:19970 original size:70 final size:69
Alignment explanation
Indices: 19803--20002 Score: 228
Period size: 70 Copynumber: 2.9 Consensus size: 69
19793 GTTGTAGACT
** ** * *
19803 AAAAA-GGTGCCACAGAGTTGTGAAC-TT-AAAAGGGAAATGTGCCACGGAGTTGTGGACTT-AA
1 AAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTAAA
*
19864 AAGG
66 AAGA
* ** * *
19868 GAAAAGGGTGCCATGGAGTTATGGGCTTTGAAAAGAAAAAAGTGCCATGGAGTTGTAGACTTAAA
1 AAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTAAA
19933 AAGAA
66 AAG-A
* * *
19938 AAAAAGGGTGCCACAGAATTGTGGGCTTTGAAAAGAAAAAAATGCCATGGAGTTATGGACTTAAA
1 AAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTAAA
20003 GGGTGCCATG
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
65 4 0.04
66 15 0.14
67 2 0.02
68 27 0.25
69 5 0.05
70 57 0.52
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (69 bp):
AAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCATGGAGTTGTGGACTTAAA
AAGA
Found at i:20017 original size:26 final size:27
Alignment explanation
Indices: 19980--20210 Score: 171
Period size: 26 Copynumber: 8.7 Consensus size: 27
19970 AAGAAAAAAA
* * *
19980 TGCCATGGAGTTATGGACTT-AAAGGG
1 TGCCATGAAGTTGTGGACTTAAAAAGG
*
20006 TGCCATGAAGTTGTGTACTTAAAAAGG
1 TGCCATGAAGTTGTGGACTTAAAAAGG
*
20033 TGTCACA-G-AGTTGTGAACTT-AAAAGG
1 TG-C-CATGAAGTTGTGGACTTAAAAAGG
* * * *
20059 TGTCACGGAGTTGTGG-CTTAAAAGGG
1 TGCCATGAAGTTGTGGACTTAAAAAGG
*
20085 TGCCA-CAGAGTTGTGGACTTAAAAA-G
1 TGCCATGA-AGTTGTGGACTTAAAAAGG
20111 TGCCAT-AGAGTTGTGGACTT-AAAAGG
1 TGCCATGA-AGTTGTGGACTTAAAAAGG
20137 ATGCCAT-AGAGTTGTGGACTT-AAAAGG
1 -TGCCATGA-AGTTGTGGACTTAAAAAGG
** * *
20164 TGCCACAAAGTTATGGACTTAAAAGGG
1 TGCCATGAAGTTGTGGACTTAAAAAGG
* *
20191 TACCA-CAGAGTTGTGGACTT
1 TGCCATGA-AGTTGTGGACTT
20211 TGAAAAGAAA
Statistics
Matches: 173, Mismatches: 18, Indels: 27
0.79 0.08 0.12
Matches are distributed among these distances:
24 2 0.01
25 8 0.05
26 87 0.50
27 72 0.42
28 2 0.01
29 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (27 bp):
TGCCATGAAGTTGTGGACTTAAAAAGG
Found at i:20046 original size:249 final size:246
Alignment explanation
Indices: 19560--20108 Score: 652
Period size: 249 Copynumber: 2.2 Consensus size: 246
19550 TTAAAAGGAA
** * * **
19560 AAAAAGGTGCCATGGAGTTGTGGACTTAAAATG----GTGCCACAGAGTTGTAGACAAAAAAGGG
1 AAAAAGGTGCCACAGAGTTGT-GACTTAAAAGGAAATGTGCCACAGAGTTGTGGACTTAAAAGGG
* *
19621 AAAAGGGTGCGACAGAGTTATGGGCTTTAAAAAGAAAAAGATACCACGAAGTTATGGACTTAAAA
65 AAAAGGGTGCCACAGAGTTATGGGCTTTAAAAAGAAAAAGATACCACGAAGTTATAGACTTAAAA
* ** *
19686 GGAAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTAGACTT
130 GAAAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAAATGCCACGGAGTTATAGACTT
* * **
19751 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGT-AGACT
195 AAAGGGTGCCACGAAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGA-ACT
*
19803 AAAAAGGTGCCACAGAGTTGTGAACTTAAAAGGGAAATGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTG-ACTTAAAA-GGAAATGTGCCACAGAGTTGTGGACTTAAAAGG
** * * * * *
19868 GAAAAGGGTGCCATGGAGTTATGGGCTTTGAAAAGAAAAA-AGTGCCATGGAGTTGTAGACTTAA
64 GAAAAGGGTGCCACAGAGTTATGGGCTTTAAAAAGAAAAAGA-TACCACGAAGTTATAGACTT-A
* * *
19932 AAAGAAAAAAAGGGTGCCACAGAA-TTGTGGGCTTTGAAAAGAAAAAAATGCCATGGAGTTATGG
127 AAAGAAAAAAAGAGTGCCAC-GAAGTTGTGGGCTTTGAAAAGAAAAAAATGCCACGGAGTTATAG
* * *
19996 ACTTAAAGGGTGCCATGAAGTTGTGTACTTAAAAAGGTGTCACAGAGTTGTGAACT
191 ACTTAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGAACT
* * * *
20052 TAAAAGGTGTCACGGAGTTGTGGCTTAAAAGG----GTGCCACAGAGTTGTGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGACTTAAAAGGAAATGTGCCACAGAGTTGTGGACTTAAAA
20109 AGTGCCATAG
Statistics
Matches: 261, Mismatches: 35, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
242 1 0.00
243 51 0.20
244 1 0.00
247 3 0.01
248 81 0.31
249 120 0.46
250 4 0.02
ACGTcount: A:0.36, C:0.11, G:0.30, T:0.22
Consensus pattern (246 bp):
AAAAAGGTGCCACAGAGTTGTGACTTAAAAGGAAATGTGCCACAGAGTTGTGGACTTAAAAGGGA
AAAGGGTGCCACAGAGTTATGGGCTTTAAAAAGAAAAAGATACCACGAAGTTATAGACTTAAAAG
AAAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAAATGCCACGGAGTTATAGACTTA
AAGGGTGCCACGAAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGAACT
Found at i:20149 original size:79 final size:80
Alignment explanation
Indices: 19979--20210 Score: 285
Period size: 79 Copynumber: 2.9 Consensus size: 80
19969 AAAGAAAAAA
* * * *
19979 ATGCCATGGAGTTATGGACTT-AAAGGGTGCCA-TGAAGTTGTGTACTTAAAAAGGTGTCACAGA
1 ATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACAG-AGTTGTGGACTTAAAAA-GTGCCACAGA
*
20042 GTTGTGAACTTAAAAGG
64 GTTGTGGACTTAAAAGG
* * *
20059 -TGTCACGGAGTTGTGG-CTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGTGCCATAGAGT
1 ATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGTGCCACAGAGT
20122 TGTGGACTTAAAAGG
66 TGTGGACTTAAAAGG
* * * * *
20137 ATGCCATAGAGTTGTGGACTTAAAA-GGTGCCACAAAGTTATGGACTTAAAAGGGTACCACAGAG
1 ATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA-AGTGCCACAGAG
20201 TTGTGGACTT
65 TTGTGGACTT
20211 TGAAAAGAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
78 27 0.21
79 77 0.59
80 27 0.21
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (80 bp):
ATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGTGCCACAGAGT
TGTGGACTTAAAAGG
Found at i:20210 original size:53 final size:53
Alignment explanation
Indices: 19987--20210 Score: 279
Period size: 53 Copynumber: 4.2 Consensus size: 53
19977 AAATGCCATG
* * ** * * *
19987 GAGTTATGGACTTAAAGGGTGCCATGAAGTTGTGTACTTAAAAAGGTGTCACA
1 GAGTTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACA
* * **
20040 GAGTTGTGAACTTAAAAGGTGTCACGGAGTTGTGG-CTTAAAAGGGTGCCACA
1 GAGTTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACA
* * * * *
20092 GAGTTGTGGACTTAAAAAGTGCCATAGAGTTGTGGACTTAAAAGGATGCCATA
1 GAGTTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACA
* *
20145 GAGTTGTGGACTTAAAAGGTGCCACAAAGTTATGGACTTAAAAGGGTACCACA
1 GAGTTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACA
20198 GAGTTGTGGACTT
1 GAGTTGTGGACTT
20211 TGAAAAGAAA
Statistics
Matches: 147, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
52 45 0.31
53 102 0.69
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (53 bp):
GAGTTGTGGACTTAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACA
Found at i:20269 original size:33 final size:34
Alignment explanation
Indices: 20184--20293 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
20174 TTATGGACTT
* *
20184 AAAAGGGTACCACAGAGTTGTGGACTTTGAAAAGA
1 AAAATGGTGCCACAGAGTT-TGGACTTTGAAAAGA
* *
20219 AACA-GGTGCCACAGAGTTTTGGAC-TT-AAAGGA
1 AAAATGGTGCCACAGAG-TTTGGACTTTGAAAAGA
* *
20251 AAAATGGTGCCACGGAGTTTGGGCTTTGAAAAGA
1 AAAATGGTGCCACAGAGTTTGGACTTTGAAAAGA
20285 AAAATGGTG
1 AAAATGGTG
20294 GACTTGGAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 14 0.22
33 15 0.23
34 30 0.47
35 5 0.08
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (34 bp):
AAAATGGTGCCACAGAGTTTGGACTTTGAAAAGA
Found at i:21580 original size:13 final size:13
Alignment explanation
Indices: 21562--21587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21552 AATTTTTTTG
21562 TGTATCGATACAT
1 TGTATCGATACAT
21575 TGTATCGATACAT
1 TGTATCGATACAT
21588 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:22325 original size:21 final size:21
Alignment explanation
Indices: 22284--22327 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22274 CTCCCCTTTA
* *
22284 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
22305 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
22326 TC
1 TC
22328 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:24148 original size:13 final size:13
Alignment explanation
Indices: 24130--24155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24120 ATAATCACCC
24130 TGTATCGATACAA
1 TGTATCGATACAA
24143 TGTATCGATACAA
1 TGTATCGATACAA
24156 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:24361 original size:8 final size:8
Alignment explanation
Indices: 24348--24373 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24338 TATTAACAGC
24348 ATCACAAA
1 ATCACAAA
24356 ATCACAAA
1 ATCACAAA
24364 ATCACAAA
1 ATCACAAA
24372 AT
1 AT
24374 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:27819 original size:52 final size:51
Alignment explanation
Indices: 27734--27857 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
27724 ATATGAAAAG
* *
27734 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
27785 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
27837 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
27858 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:27870 original size:51 final size:51
Alignment explanation
Indices: 27734--27877 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
27724 ATATGAAAAG
*
27734 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
27786 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
27837 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
27878 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:27884 original size:13 final size:13
Alignment explanation
Indices: 27866--27890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27856 CAAAGATCAG
27866 TGTATCGATACAA
1 TGTATCGATACAA
27879 TGTATCGATACA
1 TGTATCGATACA
27891 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27968 original size:33 final size:33
Alignment explanation
Indices: 27931--27997 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
27921 AGTAGCTTAA
27931 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
27964 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
27997 A
1 A
27998 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:27971 original size:13 final size:13
Alignment explanation
Indices: 27953--27977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27943 CAAAAAAATA
27953 TGTATCGATACAT
1 TGTATCGATACAT
27966 TGTATCGATACA
1 TGTATCGATACA
27978 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29114 original size:49 final size:49
Alignment explanation
Indices: 28996--29256 Score: 329
Period size: 49 Copynumber: 5.4 Consensus size: 49
28986 AAAATGATGT
* * *
28996 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
29048 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * * * *
29097 CAATGTACTGAGTCAAGGCCAGCTACATTGGATTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
29146 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTT--A-AT---GGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
29188 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
29237 CAATATGCTGATTCAAGGCC
1 CAATATGCTGATTCAAGGCC
29257 TGTCACACTA
Statistics
Matches: 183, Mismatches: 19, Indels: 17
0.84 0.09 0.08
Matches are distributed among these distances:
42 31 0.17
43 7 0.04
45 3 0.02
46 2 0.01
48 6 0.03
49 96 0.52
51 1 0.01
52 37 0.20
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:29478 original size:49 final size:49
Alignment explanation
Indices: 29366--29686 Score: 440
Period size: 49 Copynumber: 6.6 Consensus size: 49
29356 GATGTTAATG
* * *
29366 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAATA
*
29418 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
29467 TGCTGAGTCAAGGCCAGCTACATTGGATTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
*
29516 TGCTGATTCAAGGCCAGCTATA-TGGACTT--A-AT---GGTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
29558 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
*
29607 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
* *
29656 TGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTA
29687 GAAGGGTTGC
Statistics
Matches: 242, Mismatches: 20, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
42 31 0.13
43 7 0.03
45 3 0.01
46 2 0.01
48 6 0.02
49 158 0.65
51 1 0.00
52 34 0.14
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:29547 original size:365 final size:365
Alignment explanation
Indices: 28872--29621 Score: 1473
Period size: 365 Copynumber: 2.1 Consensus size: 365
28862 AAAAGGATGT
*
28872 CAATGTGCTGATTCAAGGCCTGTCACACTAGACTTAAGTGTGATGAGGATGGAGTGTGATAAAAG
1 CAATATGCTGATTCAAGGCCTGTCACACTAGACTTAAGTGTGATGAGGATGGAGTGTGATAAAAG
28937 GACCAATACGTTGATTCACGGCCAACGATATTGGATTTAAAGATGATGAAAAATGATGTCAATGT
66 GACCAATACGTTGATTCACGGCCAACGATATTGGATTTAAAGATGATGAAAAATGATGTCAATGT
29002 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGGC
131 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGGC
29067 CAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTACTGAGTCAAGGCCAGCTACATTGGATTT
196 CAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTACTGAGTCAAGGCCAGCTACATTGGATTT
29132 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCCAATGTGCT
261 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCCAATGTGCT
29197 GATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGC
326 GATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGC
29237 CAATATGCTGATTCAAGGCCTGTCACACTAGACTTAAGTGTGATGAGGATGGAGTGTGATAAAAG
1 CAATATGCTGATTCAAGGCCTGTCACACTAGACTTAAGTGTGATGAGGATGGAGTGTGATAAAAG
*
29302 GACCAATACGTTGATTCACGGCCAACGATATTGGATTTAAAGATGATGAAAAATGATGTTAATGT
66 GACCAATACGTTGATTCACGGCCAACGATATTGGATTTAAAGATGATGAAAAATGATGTCAATGT
29367 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGGC
131 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGGC
*
29432 CAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGATTT
196 CAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTACTGAGTCAAGGCCAGCTACATTGGATTT
29497 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCCAATGTGCT
261 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCCAATGTGCT
29562 GATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGC
326 GATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGC
29602 CAATATGCTGATTCAAGGCC
1 CAATATGCTGATTCAAGGCC
29622 AGCTATATTG
Statistics
Matches: 382, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
365 382 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (365 bp):
CAATATGCTGATTCAAGGCCTGTCACACTAGACTTAAGTGTGATGAGGATGGAGTGTGATAAAAG
GACCAATACGTTGATTCACGGCCAACGATATTGGATTTAAAGATGATGAAAAATGATGTCAATGT
GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTACTGAGTCAAGGCCAGCTACATTGGATTT
AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCCAATGTGCT
GATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGC
Found at i:29663 original size:140 final size:140
Alignment explanation
Indices: 29408--29678 Score: 461
Period size: 140 Copynumber: 1.9 Consensus size: 140
29398 AGATGGAAAA
* *
29408 GGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
*
29473 GTCAAGGCCAGCTACATTGGATTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
29538 TGGACTTAAT
131 TGGACTTAAT
* * *
29548 GGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGTAGGTGCCAATATGCTGA
1 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
* * *
29613 TTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGGTGATTCAAGGCCAGCTATA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
29678 T
131 T
29679 TGGGCTTAGA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 122 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (140 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
GTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA
TGGACTTAAT
Found at i:29713 original size:30 final size:30
Alignment explanation
Indices: 29679--29767 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
29669 CCAGCTATAT
*
29679 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
*
29709 TGGGCTTTGGAAAAGGG-TGCCACTGA-TT-TG
1 TGGGC-TT--AGAAGGGTTGCCACTGACTTGTG
*
29739 TGGGCTTTGAA-GGTTGCCACTGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACTGACTTGTG
29768 GGCTTTCGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
26 2 0.04
27 11 0.22
28 2 0.04
29 4 0.08
30 12 0.24
31 4 0.08
32 8 0.16
33 6 0.12
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (30 bp):
TGGGCTTAGAAGGGTTGCCACTGACTTGTG
Found at i:29759 original size:27 final size:27
Alignment explanation
Indices: 29679--29773 Score: 100
Period size: 27 Copynumber: 3.3 Consensus size: 27
29669 CCAGCTATAT
* *
29679 TGGGCTTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAA-GGTTGCCACTGA-TT-TG
*
29709 TGGGCTTTGGAAAAGGGTGCCACTGATTTG
1 TGGGCTTT-G--AAGGTTGCCACTGATTTG
*
29739 TGGGCTTTGAAGGTTGCCACTGACTTG
1 TGGGCTTTGAAGGTTGCCACTGATTTG
29766 TGGGCTTT
1 TGGGCTTT
29774 CGAAAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
27 24 0.42
29 1 0.02
30 17 0.30
31 3 0.05
32 10 0.18
33 2 0.04
ACGTcount: A:0.16, C:0.17, G:0.36, T:0.32
Consensus pattern (27 bp):
TGGGCTTTGAAGGTTGCCACTGATTTG
Found at i:29787 original size:57 final size:60
Alignment explanation
Indices: 29679--29806 Score: 163
Period size: 57 Copynumber: 2.2 Consensus size: 60
29669 CCAGCTATAT
* * *** * *
29679 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAGGGTGCCACTGATTTG
1 TGGGCTTTGAAGGGTTGCCACCGACTTGTGTGGGCTTTCGAAAAAAATGCCACCGACTTG
*
29739 TGGGCTTTGAA-GGTTGCCACTGAC-T-TGTGGGCTTTCGAAAAAAATGCCACCGACTTG
1 TGGGCTTTGAAGGGTTGCCACCGACTTGTGTGGGCTTTCGAAAAAAATGCCACCGACTTG
29796 TGGGCTTTGAA
1 TGGGCTTTGAA
29807 AAAAATGCCA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 37 0.62
58 1 0.02
59 12 0.20
60 10 0.17
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (60 bp):
TGGGCTTTGAAGGGTTGCCACCGACTTGTGTGGGCTTTCGAAAAAAATGCCACCGACTTG
Found at i:29794 original size:30 final size:29
Alignment explanation
Indices: 29707--29832 Score: 139
Period size: 30 Copynumber: 4.3 Consensus size: 29
29697 CACCGACTTG
*** *
29707 TGTGGGCTTTGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTT-GAAAAAAATGCCACTGACT
***
29737 TGTGGGCTTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAAAAATGCCACTGACT
*
29764 TGTGGGCTTTCGAAAAAAATGCCACCGACT
1 TGTGGGCTTT-GAAAAAAATGCCACTGACT
29794 TGTGGGCTTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTGAAAAAAATGCCACTGACT
*
29823 TGTGGACTTT
1 TGTGGGCTTT
29833 TGAAGGGTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
27 24 0.28
28 1 0.01
29 28 0.33
30 32 0.38
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAAAATGCCACTGACT
Found at i:29835 original size:30 final size:30
Alignment explanation
Indices: 29753--29836 Score: 134
Period size: 29 Copynumber: 2.8 Consensus size: 30
29743 CTTTGAAGGT
*
29753 TGCCACTGACTTGTGGGCTTTCGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
29783 TGCCACCGACTTGTGGGC-TTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
29812 TGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
29837 GGGTGATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 26 0.53
30 23 0.47
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAAAA
Found at i:31280 original size:1 final size:1
Alignment explanation
Indices: 31276--31382 Score: 79
Period size: 1 Copynumber: 107.0 Consensus size: 1
31266 CCGGACCCCC
* * * * * * * * *
31276 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** **
31341 TTTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31383 GGAGGACGCC
Statistics
Matches: 80, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:31296 original size:17 final size:17
Alignment explanation
Indices: 31276--31382 Score: 105
Period size: 17 Copynumber: 6.2 Consensus size: 17
31266 CCGGACCCCC
31276 TTTTTTGTTTTTGTTTGTTT
1 TTTTTTGTTTTT-TTTG--T
31296 TTTTATTGTTTTTGTTT-T
1 TTTT-TTGTTTTT-TTTGT
31314 TTTTTTGTTTTTTTTGT
1 TTTTTTGTTTTTTTTGT
31331 TTTTTTGTTTTTTTT-T
1 TTTTTTGTTTTTTTTGT
**
31347 TTTTTTGGTTTTTCAT-T
1 TTTTTT-GTTTTTTTTGT
*
31364 TTTTTCGTTTTTTTT-T
1 TTTTTTGTTTTTTTTGT
31380 TTT
1 TTT
31383 GGAGGACGCC
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
16 21 0.27
17 37 0.47
18 5 0.06
20 4 0.05
21 12 0.15
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTGT
Found at i:31307 original size:9 final size:9
Alignment explanation
Indices: 31276--31359 Score: 102
Period size: 9 Copynumber: 9.3 Consensus size: 9
31266 CCGGACCCCC
31276 TTTTTTGTT
1 TTTTTTGTT
31285 TTTGTTTGTTT
1 TTT-TTTG-TT
31296 TTTTATTGTT
1 TTTT-TTGTT
*
31306 TTTGTT-TT
1 TTTTTTGTT
31314 TTTTTTGTT
1 TTTTTTGTT
31323 TTTTTTG-T
1 TTTTTTGTT
31331 TTTTTTGTT
1 TTTTTTGTT
31340 TTTTTT-TT
1 TTTTTTGTT
*
31348 TTTTTGGTT
1 TTTTTTGTT
31357 TTT
1 TTT
31360 CATTTTTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
8 22 0.33
9 26 0.39
10 10 0.15
11 8 0.12
ACGTcount: A:0.01, C:0.00, G:0.12, T:0.87
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:31308 original size:27 final size:26
Alignment explanation
Indices: 31277--31378 Score: 104
Period size: 28 Copynumber: 3.9 Consensus size: 26
31267 CGGACCCCCT
31277 TTTTTGTTTTTGTTTGTTTTTTTAT-TG
1 TTTTTGTTTTT-TTTGTTTTTTT-TGTG
*
31304 TTTTTGTTTTTTTTTTGTTTTTTTTGTT
1 TTTTTG--TTTTTTTTGTTTTTTTTGTG
31332 TTTTTG-TTTTTTT-TTTTTTTTG-G
1 TTTTTGTTTTTTTTGTTTTTTTTGTG
* *
31355 TTTTTCATTTTTTTCGTTTTTTTT
1 TTTTT-GTTTTTTTTGTTTTTTTT
31379 TTTTGGAGGA
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
23 5 0.08
24 9 0.14
25 13 0.20
26 8 0.12
27 7 0.11
28 18 0.28
29 5 0.08
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (26 bp):
TTTTTGTTTTTTTTGTTTTTTTTGTG
Found at i:31313 original size:16 final size:15
Alignment explanation
Indices: 31284--31382 Score: 87
Period size: 16 Copynumber: 6.4 Consensus size: 15
31274 CCTTTTTTGT
31284 TTTTGTTTGTTTTTTTA
1 TTTT-TTTG-TTTTTTA
31301 TTGTTTTTGTTTTTT-
1 TT-TTTTTGTTTTTTA
* *
31316 TTTTGTT-TTTTTTG
1 TTTTTTTGTTTTTTA
*
31330 TTTTTTTGTTTTTTTT
1 TTTTTTTG-TTTTTTA
*
31346 TTTTTTTGGTTTTTCA
1 TTTTTTT-GTTTTTTA
31362 TTTTTTTCGTTTTTT-
1 TTTTTTT-GTTTTTTA
31377 TTTTTT
1 TTTTTT
31383 GGAGGACGCC
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
13 6 0.09
14 10 0.14
15 8 0.11
16 37 0.53
17 7 0.10
18 2 0.03
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (15 bp):
TTTTTTTGTTTTTTA
Found at i:31314 original size:33 final size:32
Alignment explanation
Indices: 31276--31381 Score: 121
Period size: 29 Copynumber: 3.3 Consensus size: 32
31266 CCGGACCCCC
31276 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTG
1 TTTTTT-TTTTTGTTTGTTTTTTTATT-TTTTTG
*
31310 -TTTTTTTTTTG--T-TTTTTTTGTTTTTTTG
1 TTTTTTTTTTTGTTTGTTTTTTTATTTTTTTG
* * *
31338 TTTTTTTTTTTTTTTGGTTTTTCATTTTTTTCG
1 TTTTTTTTTTTGTTTGTTTTTTTATTTTTTT-G
31371 TTTTTTTTTTT
1 TTTTTTTTTTT
31382 TGGAGGACGC
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
28 6 0.10
29 19 0.31
30 1 0.02
31 1 0.02
32 18 0.29
33 17 0.27
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (32 bp):
TTTTTTTTTTTGTTTGTTTTTTTATTTTTTTG
Found at i:31374 original size:28 final size:23
Alignment explanation
Indices: 31277--31383 Score: 90
Period size: 23 Copynumber: 4.7 Consensus size: 23
31267 CGGACCCCCT
* *
31277 TTTTTGTTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTGTTTTTTT
* * * *
31300 ATTGTTTTTGTTTTT-TTTTTGT
1 TTTTTTTTTTTTTTTGTTTTTTT
*
31322 TTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTGTTTTTTT
** **
31345 TTTTTTTTGGTTTTTCATTTTTT
1 TTTTTTTTTTTTTTTGTTTTTTT
**
31368 TCGTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTG
31384 GAGGACGCCG
Statistics
Matches: 62, Mismatches: 21, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
22 17 0.27
23 45 0.73
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTGTTTTTTT
Found at i:41091 original size:10 final size:10
Alignment explanation
Indices: 41076--41102 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
41066 ATGTATCAAG
41076 CAAAAACAAA
1 CAAAAACAAA
41086 CAAAAACAAA
1 CAAAAACAAA
41096 CAAAAAC
1 CAAAAAC
41103 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:45378 original size:52 final size:52
Alignment explanation
Indices: 45245--45385 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
45235 TGAAAAGTTA
45245 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
45297 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
45349 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
45386 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:45392 original size:13 final size:13
Alignment explanation
Indices: 45374--45398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45364 CAAAAATCAG
45374 TGTATCGATACAA
1 TGTATCGATACAA
45387 TGTATCGATACA
1 TGTATCGATACA
45399 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:45476 original size:33 final size:33
Alignment explanation
Indices: 45439--45505 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
45429 AGTAGCTTAA
45439 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
45472 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
45505 A
1 A
45506 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:45479 original size:13 final size:13
Alignment explanation
Indices: 45461--45485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45451 CAAAAAAATA
45461 TGTATCGATACAT
1 TGTATCGATACAT
45474 TGTATCGATACA
1 TGTATCGATACA
45486 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:47025 original size:30 final size:29
Alignment explanation
Indices: 46970--47334 Score: 238
Period size: 30 Copynumber: 12.3 Consensus size: 29
46960 TCACCCTTCA
*
46970 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
46999 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
***
47028 GAAAGCCCACAAGTCAGTGGCA--ACCTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
* * *
47056 AAAGCCCACAAATCAGTGGCACCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TTTTTTTC
* * * *
47086 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
* * * *
47115 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCA-----TTT-TTTTC
* * * * * *
47150 TAAGCTCACAACTCTA-TAGCACTCTTTTC
1 AAAGCCCACAAGTC-AGTGGCATTTTTTTC
* ***
47179 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
47206 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
*** *
47236 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
* *** *
47265 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
47294 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
47324 TAAAGCCCACA
1 -AAAGCCCACA
47335 CAAGTCGATG
Statistics
Matches: 265, Mismatches: 54, Indels: 33
0.75 0.15 0.09
Matches are distributed among these distances:
26 1 0.00
27 40 0.15
28 23 0.09
29 61 0.23
30 120 0.45
34 2 0.01
35 18 0.07
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTC
Found at i:47071 original size:27 final size:26
Alignment explanation
Indices: 47029--47080 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
47019 ATTTTTTTCG
*
47029 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGC-ACCTTC
47056 AAAGCCCACAAATCAGTGGCACCTT
1 AAAGCCCACAAATCAGTGGCACCTT
47081 TTTCCGAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.15
Consensus pattern (26 bp):
AAAGCCCACAAATCAGTGGCACCTTC
Found at i:47284 original size:88 final size:93
Alignment explanation
Indices: 47179--47561 Score: 322
Period size: 97 Copynumber: 4.1 Consensus size: 93
47169 CACTCTTTTC
47179 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAG-CC
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
47243 -CACAAGTC-AGTGGC-AACCTT-T-AAA
66 ACACAAGTCGA-TGGCAAACCTTCTCAAA
* *
47267 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCTAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
*
47332 ACACAAGTCGATGGCAAACCTTCTCTAA
66 ACACAAGTCGATGGCAAACCTTCTCAAA
* * * ** ****
47360 AGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA-ACCCCCTC-
1 AG-CC-CACAAGTTAGTGGC--ACCCTTTTCAAAAG-CC-CACAAGTCAGTGGCATA-TTTTTCA
* *
47423 AAAGCCCACACAAGTCGATGGC-AACCCTCTCTAA
59 AAAGCCCACACAAGTCGATGGCAAACCTTCTCAAA
* * * ** ****
47457 AGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA-ACCCCCTC-
1 AG-CC-CACAAGTTAGTGGC--ACCCTTTTCAAAAG-CC-CACAAGTCAGTGGCATA-TTTTTCA
* *
47520 AAAGCCCACACAAGTCGATGGC-AACCCTCTCTAA
59 AAAGCCCACACAAGTCGATGGCAAACCTTCTCAAA
47554 AGCCCACA
1 AGCCCACA
47562 CAAGTCGGTG
Statistics
Matches: 268, Mismatches: 14, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
88 60 0.22
89 2 0.01
90 12 0.04
91 7 0.03
92 1 0.00
93 4 0.01
94 2 0.01
95 17 0.06
96 2 0.01
97 121 0.45
98 25 0.09
99 15 0.06
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (93 bp):
AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
ACACAAGTCGATGGCAAACCTTCTCAAA
Found at i:47295 original size:58 final size:60
Alignment explanation
Indices: 46966--47334 Score: 226
Period size: 57 Copynumber: 6.2 Consensus size: 60
46956 TTCATCACCC
* *** * * ***
46966 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCGGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTGTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * *
47025 TTCGAAAGCCCACAAGTCAGTGGCA-AC-CTTC-AAAGCCCACAAATCAGTGGC-ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTGTTCAAAAGCCCACAAGTCAGTGGCAACC-TT
** * * * * * * *
47082 TTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTGTTCAAAAGCCCACAAGTCAGTGGCAAC-C-TT
** * * * * * * *
47142 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTC---AGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACACTGTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * *
47203 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACACTGTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* * *
47262 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCACACTGTTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
*
47321 TTCTAAAGCCCACA
1 TTCAAAAGCCCACA
47335 CAAGTCGATG
Statistics
Matches: 246, Mismatches: 46, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
56 1 0.00
57 66 0.27
58 50 0.20
59 49 0.20
60 37 0.15
61 5 0.02
62 15 0.06
63 1 0.00
64 15 0.06
65 7 0.03
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (60 bp):
TTCAAAAGCCCACAAGTCAGTGGCACACTGTTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:47393 original size:34 final size:32
Alignment explanation
Indices: 47322--47589 Score: 373
Period size: 31 Copynumber: 8.3 Consensus size: 32
47312 GGCATATTTT
* *
47322 TCTAAAGCCCACACAAGTCGATGGCAAACCTTC
1 TCTAAAGCCCACACAAGTCGGTGGC-AACCCTC
*
47355 TCTAAAGCCCACACAAGTTGGTGGCAAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGC-AACCC-TC
* *
47389 TCTAAAGCCCACACAAGTTGGTGGCAACCCCC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC
*
47421 TC-AAAGCCCACACAAGTCGATGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC
*
47452 TCTAAAGCCCACACAAGTTGGTGGCAAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGC-AACCC-TC
* *
47486 TCTAAAGCCCACACAAGTTGGTGGCAACCCCC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC
*
47518 TC-AAAGCCCACACAAGTCGATGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC
47549 TCTAAAGCCCACACAAGTCGGTGGCAACCCT-
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTC
47580 TCT-AAGCCCA
1 TCTAAAGCCCA
47590 ATGTAGCTGG
Statistics
Matches: 216, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
30 7 0.03
31 59 0.27
32 53 0.25
33 43 0.20
34 54 0.25
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (32 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCTC
Found at i:47458 original size:97 final size:97
Alignment explanation
Indices: 47325--47582 Score: 482
Period size: 97 Copynumber: 2.7 Consensus size: 97
47315 ATATTTTTCT
*
47325 AAAGCCCACACAAGTCGATGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGCAAACCCTTCT
1 AAAGCCCACACAAGTCGATGGC-AACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACCCTTCT
47390 CTAAAGCCCACACAAGTTGGTGGCAACCCCCTC
65 CTAAAGCCCACACAAGTTGGTGGCAACCCCCTC
47423 AAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACCCTTCTC
1 AAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACCCTTCTC
47488 TAAAGCCCACACAAGTTGGTGGCAACCCCCTC
66 TAAAGCCCACACAAGTTGGTGGCAACCCCCTC
*
47520 AAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGC-AACCCTTCT
1 AAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACCCTTCT
47583 AAGCCCAATG
Statistics
Matches: 158, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
96 9 0.06
97 127 0.80
98 22 0.14
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (97 bp):
AAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACCCTTCTC
TAAAGCCCACACAAGTTGGTGGCAACCCCCTC
Found at i:47473 original size:63 final size:65
Alignment explanation
Indices: 47322--47589 Score: 377
Period size: 63 Copynumber: 4.2 Consensus size: 65
47312 GGCATATTTT
* *
47322 TCTAAAGCCCACACAAGTCGATGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGCAAACCCT
1 TCTAAAGCCCACACAAGTCGATGGCAAACCCTCTCTAAAGCCCACACAAGTCGGTGGC-AACCC-
47387 TC
64 TC
* * * *
47389 TCTAAAGCCCACACAAGTTGGTGGC-AACCCCCTC-AAAGCCCACACAAGTCGATGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGATGGCAAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTC
* * * *
47452 TCTAAAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCC
1 TCTAAAGCCCACACAAGTCGATGGCAAACCC-TCTCTAAAGCCCACACAAGTCGGTGGCAACCCT
47517 C
65 C
47518 TC-AAAGCCCACACAAGTCGATGGC-AACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCT-
1 TCTAAAGCCCACACAAGTCGATGGCAAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTC
47580 TCT-AAGCCCA
1 TCTAAAGCCCA
47590 ATGTAGCTGG
Statistics
Matches: 183, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
62 9 0.05
63 58 0.32
64 15 0.08
65 43 0.23
66 35 0.19
67 23 0.13
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (65 bp):
TCTAAAGCCCACACAAGTCGATGGCAAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTC
Found at i:47644 original size:49 final size:49
Alignment explanation
Indices: 47582--48198 Score: 785
Period size: 49 Copynumber: 12.7 Consensus size: 49
47572 GCAACCCTTC
* *
47582 TAAGCCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
47631 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
47680 TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * *
47723 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
47772 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * *
47815 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTT
* * * * *
47867 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * *
47916 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * *
47965 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCTT
* *
48014 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
48062 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * *
48111 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTT
*
48163 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
48199 ACATCATTTT
Statistics
Matches: 488, Mismatches: 59, Indels: 39
0.83 0.10 0.07
Matches are distributed among these distances:
43 78 0.16
44 2 0.00
48 42 0.09
49 287 0.59
50 2 0.00
51 2 0.00
52 75 0.15
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
Found at i:47761 original size:92 final size:92
Alignment explanation
Indices: 47628--48198 Score: 775
Period size: 92 Copynumber: 6.0 Consensus size: 92
47618 GCACCTTTAT
* * * *
47628 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGACCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
47693 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
47720 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
47785 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
47812 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATTTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAAT
* *
47877 GTAGTTGGCCTTGACTCAGCACATTGGCAC
63 GTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
47907 CTTCACCATTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACTTTTATCTTTAAGTCC
1 C-T-----TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCC
*
47972 AATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCAC
60 AATGTAGCTGGCCTTGAATCAGCACATT-G-----GCAC
*
48011 CATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
*
48075 GCTGGCCTTGACTCAGCACATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* *
48106 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCA
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCA
48171 ATGTAGCTGGCCTTGAATCAGCACATTG
61 ATGTAGCTGGCCTTGAATCAGCACATTG
48199 ACATCATTTT
Statistics
Matches: 432, Mismatches: 22, Indels: 41
0.87 0.04 0.08
Matches are distributed among these distances:
91 3 0.01
92 130 0.30
93 2 0.00
95 44 0.10
96 2 0.00
97 83 0.19
98 78 0.18
99 4 0.01
100 3 0.01
101 78 0.18
104 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:49162 original size:33 final size:33
Alignment explanation
Indices: 49125--49191 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49115 TTCAACGATT
49125 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
49158 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
49191 T
1 T
49192 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:49163 original size:13 final size:13
Alignment explanation
Indices: 49145--49169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49135 CATAAAATGT
49145 TGTATCGATACAA
1 TGTATCGATACAA
49158 TGTATCGATACA
1 TGTATCGATACA
49170 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49248 original size:86 final size:84
Alignment explanation
Indices: 49145--49327 Score: 210
Period size: 86 Copynumber: 2.2 Consensus size: 84
49135 CATAAAATGT
* * ** *
49145 TGTATCGATACAATGTATCGATACA-T-ATTTTTTTGTATCGATACAATTTAAGCTA-CTGCCAA
1 TGTATCGATACATTGTATCGATACACTGA--TCTTTGTATCGATAC-ATGCAAGCAATCTGCC-A
*
49207 AAATGTATCGATACATTACTCAAA
62 AAATGTATCGATACATTA-TAAAA
* * * *
49231 TGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAATTTGCCCAGAT
1 TGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAAGCAATCTGCCAAAAT
49296 GTATCGATACATTATAAAA
66 GTATCGATACATTATAAAA
49315 TGTATCGATACAT
1 TGTATCGATACAT
49328 GCAGGCAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
84 17 0.20
85 23 0.27
86 42 0.50
87 1 0.01
88 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (84 bp):
TGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAAGCAATCTGCCAAAAT
GTATCGATACATTATAAAA
Found at i:49249 original size:13 final size:13
Alignment explanation
Indices: 49231--49255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49221 ATTACTCAAA
49231 TGTATCGATACAT
1 TGTATCGATACAT
49244 TGTATCGATACA
1 TGTATCGATACA
49256 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49419 original size:52 final size:51
Alignment explanation
Indices: 49264--49438 Score: 314
Period size: 51 Copynumber: 3.4 Consensus size: 51
49254 CACTGATCTT
49264 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
49315 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
* *
49366 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
*
49418 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
49439 CTTTTCATAT
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
51 72 0.60
52 48 0.40
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:54097 original size:79 final size:78
Alignment explanation
Indices: 53999--54415 Score: 451
Period size: 79 Copynumber: 5.3 Consensus size: 78
53989 TATTTTAGAG
* * * * *
53999 ATAAAAACAGGGTTGGAGTATCCCCTCAAAAATGACGAGGTTAGAGTATCCCCGATGGTGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACG-GGTTGGAGTATCCCCGATTGTGAAAAA
* *
54064 TCGATGTTTTGAAA
65 TCAATGTTTTAAAA
* * * * *
54078 ATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGCATTGGAGTATCCCCGATTATGGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGG-GTTGGAGTATCCCCGATTGTGAAAAA
*
54143 TTAATGTTTTAAAA
65 TCAATGTTTTAAAA
* * * * *
54157 ATAAAGTGGGGGTTGGAATATCCTCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAAA
** *
54222 TTGATGTTTTAGAA
65 TCAATGTTTTAAAA
** * * *
54236 ATAAAGCCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAAA
54301 TCAATGTTTTAAAA
65 TCAATGTTTTAAAA
* * * *
54315 AT-AAAGCTGGGGTTGGAGTATTCCCTCAGAAATAACGGAGTTGGAATATCCCCGATTGTGAAAA
1 ATAAAATC-GGGGTTGGAGTATCCCCTCAAAAATAACGG-GTTGGAGTATCCCCGATTGTGAAAA
* * **
54379 ATCAGTATTTTGGAA
64 ATCAATGTTTTAAAA
54394 ATAAAA-CTGGGGTTGGAGTATC
1 ATAAAATC-GGGGTTGGAGTATC
54416 TCCGATTGTG
Statistics
Matches: 287, Mismatches: 46, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
78 6 0.02
79 276 0.96
80 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (78 bp):
ATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCCGATTGTGAAAAAT
CAATGTTTTAAAA
Found at i:54171 original size:158 final size:157
Alignment explanation
Indices: 54008--54415 Score: 504
Period size: 158 Copynumber: 2.6 Consensus size: 157
53998 GATAAAAACA
* * *
54008 GGGTTGGAGTATCCCCTCAAAAATGACGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTT
*
54073 TGAAAATAAAATCGGGGTTAGAGTATCCCCTC-GAAAATAACGGCATTGGAGTATCCCCGATTAT
66 TGAAAATAAAA-CGGGGTTGGAGTATCCCCTCAG-AAATAACGGCATTGGAGTATCCCCGATTAT
* *
54137 GGAAAATTAATGTTTTAAAAATAAAG-TGG
129 GAAAAATCAATGTTTTAAAAATAAAGCT-G
* * * *
54166 GGGTTGGAATATCCTCTCAAAAATAAC-AGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGA-GGTTGGAGTATCCCCGATTGTGAAAAATCGATGTT
* * ** * *
54230 TT-AGAAATAAAGCCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTG
65 TTGA-AAATAAA-ACGGGGTTGGAGTATCCCCTCAGAAATAACGGCATTGGAGTATCCCCGATTA
54294 TGAAAAATCAATGTTTTAAAAATAAAGCTG
128 TGAAAAATCAATGTTTTAAAAATAAAGCTG
* * * *
54324 GGGTTGGAGTATTCCCTCAGAAATAACG-GAGTTGGAATATCCCCGATTGTGAAAAATC-AGTAT
1 GGGTTGGAGTATCCCCTCAAAAATAACGAG-GTTGGAGTATCCCCGATTGTGAAAAATCGA-TGT
*
54387 TTTGGAAATAAAACTGGGGTTGGAGTATC
64 TTTGAAAATAAAAC-GGGGTTGGAGTATC
54416 TCCGATTGTG
Statistics
Matches: 213, Mismatches: 27, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
157 5 0.02
158 206 0.97
159 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (157 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTT
TGAAAATAAAACGGGGTTGGAGTATCCCCTCAGAAATAACGGCATTGGAGTATCCCCGATTATGA
AAAATCAATGTTTTAAAAATAAAGCTG
Found at i:54409 original size:51 final size:51
Alignment explanation
Indices: 54354--54501 Score: 210
Period size: 51 Copynumber: 2.9 Consensus size: 51
54344 AAATAACGGA
*
54354 GTTGGAATATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAACTGGG
1 GTTGGAATATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGG
* * *
54405 GTTGGAGTATCTCCGATTGTGAAAAATCAGTGA-TTTGAAAATAAAACCGGG
1 GTTGGAATATCCCCGATTGTGAAAAATCAGT-ATTTTGGAAATAAAACCGGG
* *
54456 GTT-GAAGTATCCCCGATAGTGAAAAATCAGTATTTTAGAAATAAAA
1 GTTGGAA-TATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAA
54502 ACATGAATGA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 3 0.04
51 81 0.95
52 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTGTGAAAAATCAGTATTTTGGAAATAAAACCGGG
Found at i:56911 original size:50 final size:50
Alignment explanation
Indices: 56852--56986 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 50
56842 AAAAATGCCT
* * ***
56852 GAATGTATCGGTACATTGAAAAATGTATCAATACATCTGGGTTTTACCCA
1 GAATGTATCGATACAATGAAAAATGTATCAATACATCTGGGTAAAACCCA
** * *
56902 GAATGTATCGATACAATGAAGGATGTATCGATATATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCAATACATCTGGGTAAAACCCA
* * *
56952 AAATGTATCGATACAAT-AAAGGATGTATCGATACA
1 GAATGTATCGATACAATGAAA-AATGTATCAATACA
56987 AATTATGGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 2 0.03
50 70 0.97
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAAAATGTATCAATACATCTGGGTAAAACCCA
Done.