Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold198
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: 3915534
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 240068 characters in sequence are not A, C, G, or T
File 9 of 13
Found at i:2416958 original size:67 final size:67
Alignment explanation
Indices: 2416840--2416970 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 67
2416830 AGGAGGGCCC
** * * *
2416840 ATTTCAAACTTTACACCATCAACATGGCAAGAAGAATTTTTGCATCCTTAACATGATAAGAGGAC
1 ATTTCAAACTTTACACCATCAACATGGCAAGAAGAACCTTTACAACCTTAACATGACAAGAGGAC
2416905 TT
66 TT
* * * *
2416907 ATTTCAAACTTTGCACCATCAACATGGCGAGAAGAGCCTTTACAACTTTAACATGACAAGAGGA
1 ATTTCAAACTTTACACCATCAACATGGCAAGAAGAACCTTTACAACCTTAACATGACAAGAGGA
2416971 AGGCCCATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (67 bp):
ATTTCAAACTTTACACCATCAACATGGCAAGAAGAACCTTTACAACCTTAACATGACAAGAGGAC
TT
Found at i:2433655 original size:84 final size:84
Alignment explanation
Indices: 2433472--2433629 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 84
2433462 TTATATTGAG
* * *
2433472 TATAAGTAT-GAA--AT-TATATTTATATATATATGTTAAATTCGAATATGTATGTGTATACAGG
1 TATAAGTATAGAATTATATATATGTATATATATATGTTAAATTCGAATATGTATATATATACAGG
*
2433533 TATAAGTTCTTGTTTCGAA
66 TATAAGATCTTGTTTCGAA
* * * *
2433552 TATAAGTATAGAATTATATATATGTATATATATTTGTTAGATTCGAATATGTATATATGTACATG
1 TATAAGTATAGAATTATATATATGTATATATATATGTTAAATTCGAATATGTATATATATACAGG
2433617 TATAAGATCTTGT
66 TATAAGATCTTGT
2433630 ATTGAAAAGG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 9 0.14
81 3 0.05
83 2 0.03
84 52 0.79
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (84 bp):
TATAAGTATAGAATTATATATATGTATATATATATGTTAAATTCGAATATGTATATATATACAGG
TATAAGATCTTGTTTCGAA
Found at i:2433664 original size:84 final size:83
Alignment explanation
Indices: 2433478--2433664 Score: 213
Period size: 84 Copynumber: 2.3 Consensus size: 83
2433468 TGAGTATAAG
* * *
2433478 TATGAAATTATAT-TTATATATATATGTTAAATTCGAATATGTATGTGTATACAGGTATAAGTTC
1 TATGAAATTATATATTATATATATATGTTAAATTCGAATATGTATATATATACAGGTATAAGATC
2433542 TTGTTTCGAATATAAGTA
66 TTGTTTCGAATATAAGTA
* * * * *
2433560 TA-GAATTATATATATGTATATATATTTGTTAGATTCGAATATGTATATATGTACATGTATAAGA
1 TATGAAAT-TATATAT-TATATATATATGTTAAATTCGAATATGTATATATATACAGGTATAAGA
*
2433624 TCTTGTATT-GAA-A-AGGTA
64 TCTTGT-TTCGAATATAAGTA
*
2433642 TATGAAATTATATAGGTATATAT
1 TATGAAATTATATA-TTATATAT
2433665 GGAATTCAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
81 4 0.05
82 26 0.30
83 6 0.07
84 50 0.57
85 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (83 bp):
TATGAAATTATATATTATATATATATGTTAAATTCGAATATGTATATATATACAGGTATAAGATC
TTGTTTCGAATATAAGTA
Found at i:2438222 original size:13 final size:13
Alignment explanation
Indices: 2438206--2438240 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2438196 GGAGAAGAAG
2438206 AAGGCAATCCCTT
1 AAGGCAATCCCTT
*
2438219 AAGGCAATCCTTT
1 AAGGCAATCCCTT
*
2438232 TAGGCAATC
1 AAGGCAATC
2438241 ACAAGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (13 bp):
AAGGCAATCCCTT
Found at i:2440205 original size:30 final size:29
Alignment explanation
Indices: 2440169--2440389 Score: 117
Period size: 30 Copynumber: 7.4 Consensus size: 29
2440159 CAAAGGTACC
*
2440169 ATCCCTTTTCATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCGATAGCTGAA-CT
* * * * *
2440199 ATCCCTTTTCATAATGCAAT-GATCGTCACC
1 ATCCCTTTTCATAATTCGATAGCT-G-AACT
*
2440229 ATCCCTTTTCATAATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCTGAA-CT
* * * * * *
2440259 ATCACTTTTCATATTTCAAT-GGTCGTCACC
1 ATCCCTTTTCATAATTCGATAGCT-G-AACT
** * * * *
2440289 ATCCCTTTTCATTGTT-GATGGTTGTCACC
1 ATCCCTTTTCATAATTCGATAGCTG-AACT
* ** *
2440318 ATCCATTTTCATTGTTCAATAGGC-GAATCT
1 ATCCCTTTTCATAATTCGATA-GCTGAA-CT
2440348 ATCCCTTTTCATAATTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCGATAGCTGAA-CT
2440378 ATCCCTTTTCAT
1 ATCCCTTTTCAT
2440390 TGGTCGATGA
Statistics
Matches: 145, Mismatches: 35, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
29 30 0.21
30 111 0.77
31 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATTCGATAGCTGAACT
Found at i:2440238 original size:60 final size:60
Alignment explanation
Indices: 2440166--2440389 Score: 231
Period size: 60 Copynumber: 3.8 Consensus size: 60
2440156 TCACAAAGGT
* *
2440166 ACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATCGTC
1 ACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATAATTCAATGATCGTC
* * * *
2440226 ACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCACTTTTCATATTTCAATGGTCGTC
1 ACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATAATTCAATGATCGTC
** * * * * * ** * *
2440286 ACCATCCCTTTTCATTGTT-GATGGTTGTCA-CCATCCATTTTCATTGTTCAAT-AGGCG-A
1 ACCATCCCTTTTCATAATTCGATAGCTG-AAGCTATCCCTTTTCATAATTCAATGA-TCGTC
*
2440344 ATCTATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT
1 A-CCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT
2440390 TGGTCGATGA
Statistics
Matches: 131, Mismatches: 28, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
58 1 0.01
59 40 0.31
60 90 0.69
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (60 bp):
ACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATAATTCAATGATCGTC
Found at i:2440315 original size:29 final size:29
Alignment explanation
Indices: 2440277--2440333 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
2440267 TCATATTTCA
*
2440277 ATGGTCGTCACCATCCCTTTTCATTGTTG
1 ATGGTCGTCACCATCCATTTTCATTGTTG
*
2440306 ATGGTTGTCACCATCCATTTTCATTGTT
1 ATGGTCGTCACCATCCATTTTCATTGTT
2440334 CAATAGGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (29 bp):
ATGGTCGTCACCATCCATTTTCATTGTTG
Found at i:2440382 original size:89 final size:88
Alignment explanation
Indices: 2440169--2440391 Score: 234
Period size: 89 Copynumber: 2.5 Consensus size: 88
2440159 CAAAGGTACC
* *
2440169 ATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT--TGCAATGATCGTCACCATCCA
*
2440234 TTTTCATAATTCGATAGCCGAAGCT
64 TTTTCATAATTCAATAGCCGAAGCT
* * * * * * ** * *
2440259 ATCACTTTTCATATTTCAAT-GGTCGTCA-CCATCCCTTTTCATTGTTGATGGTTGTCACCATCC
1 ATCCCTTTTCATAATTCGATAGCT-G-AAGCTATCCCTTTTCATTG-CAATGATCGTCACCATCC
** * *
2440322 ATTTTCATTGTTCAATAGGCGAATCT
63 ATTTTCATAATTCAATAGCCGAAGCT
2440348 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTG
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTG
2440392 GTCGATGATT
Statistics
Matches: 106, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
88 3 0.03
89 69 0.65
90 33 0.31
91 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (88 bp):
ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTGCAATGATCGTCACCATCCATT
TTCATAATTCAATAGCCGAAGCT
Found at i:2452673 original size:40 final size:40
Alignment explanation
Indices: 2452629--2452768 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
2452619 AACTATTGAA
* * *
2452629 TAAATGCACATACATGCCCTTGTTTGTACTTTGGAACCCC
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGAACCCC
* * *
2452669 TAAATGCACATACGTGCCCCTGTTTCTACTTTAGTACCCT
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGAACCCC
* * *
2452709 TGAATGCACATACGTTCCCCTGTTTGTAC-TTAAATACCCC
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGA-ACCCC
* *
2452749 TGAATGCAACTTACGTGCCC
1 TAAATGC-ACATACGTGCCC
2452769 TGCTTATACT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 3 0.04
40 71 0.85
41 10 0.12
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (40 bp):
TAAATGCACATACGTGCCCCTGTTTGTACTTTAGAACCCC
Found at i:2452793 original size:80 final size:80
Alignment explanation
Indices: 2452631--2452780 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
2452621 CTATTGAATA
* ** * *
2452631 AATGCACATACATGCCCTTGTTTGTACTTTGGAACCCCTAAATGCACATACGTGCCCCTGTTTCT
1 AATGCACATACATGCCCCTGTTTGTACTTTAAAACCCCTAAATGCACATACGTGCCCCTGCTTAT
*
2452696 ACTTTAGTACCCTTG
66 ACTCTAGTACCCTTG
* * * *
2452711 AATGCACATACGTTCCCCTGTTTGTAC-TTAAATACCCCTGAATGCAACTTACGTG-CCCTGCTT
1 AATGCACATACATGCCCCTGTTTGTACTTTAAA-ACCCCTAAATGC-ACATACGTGCCCCTGCTT
2452774 ATACTCT
64 ATACTCT
2452781 GGTAACTCTG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
79 3 0.05
80 47 0.81
81 8 0.14
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (80 bp):
AATGCACATACATGCCCCTGTTTGTACTTTAAAACCCCTAAATGCACATACGTGCCCCTGCTTAT
ACTCTAGTACCCTTG
Found at i:2453588 original size:12 final size:12
Alignment explanation
Indices: 2453571--2453597 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2453561 TCAGTGAGTT
2453571 ACACGACTTGGC
1 ACACGACTTGGC
2453583 ACACGACTTGGC
1 ACACGACTTGGC
2453595 ACA
1 ACA
2453598 TGGGTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACACGACTTGGC
Found at i:2458279 original size:51 final size:51
Alignment explanation
Indices: 2458220--2458555 Score: 317
Period size: 51 Copynumber: 6.6 Consensus size: 51
2458210 TATCGATGAA
* * *
2458220 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * *
2458271 CACATGTGTAGTACTAAT-TGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * *
2458322 CACGTGTGTAGTACTGTG-GAAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTG-AAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * *
2458373 CACATGTGTAGTACTAAGTGAAGACTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGT
* * ** *
2458424 CACGTGTGTAGTACTAGGTGAAGGCTACTACGTGAACC-TTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * ** *
2458474 CACGTGTGTAGTACTATGTGAAAGCTACTACTTGAAGCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
*
2458524 CACGTGTGTAGTACTATGTGAAGGATACTACG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACG
2458556 AGTATCGAAT
Statistics
Matches: 233, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.00
50 84 0.36
51 145 0.62
52 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
Found at i:2458406 original size:102 final size:102
Alignment explanation
Indices: 2458220--2458555 Score: 416
Period size: 102 Copynumber: 3.3 Consensus size: 102
2458210 TATCGATGAA
2458220 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
2458285 TAATTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGACTACAATGTGTACCGAAAAGCTTTGGT
2458322 CACGTGTGTAGTACTGTG-GAAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTG-AAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
*
2458386 CTAAGTGAAGACTACTATGTGTACCGAAAAGCTTTGGT
65 CTAAGTGAAGACTACAATGTGTACCGAAAAGCTTTGGT
** *** * *
2458424 CACGTGTGTAGTACTAG-GTGAAGGCTACTACGTGAA-CCTTAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACT-GTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
* * * * *
2458487 CTATGTGAA-AGCTACTACT-TGAAGCGTAAAA-C-TTGAT
65 CTAAGTGAAGA-CTAC-AATGTGTACCG-AAAAGCTTTGGT
* *
2458524 CACGTGTGTAGTACTATGTGAAGGATACTACG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACG
2458556 AGTATCGAAT
Statistics
Matches: 208, Mismatches: 19, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
100 34 0.16
101 39 0.19
102 133 0.64
103 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGACTACAATGTGTACCGAAAAGCTTTGGT
Found at i:2458775 original size:12 final size:12
Alignment explanation
Indices: 2458754--2458813 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
2458744 GATGTGTGGA
2458754 ATTGAATTGAAT
1 ATTGAATTGAAT
* *
2458766 ATTGACTTGAAA
1 ATTGAATTGAAT
*
2458778 ATGGCAAATTGAAT
1 ATTG--AATTGAAT
*
2458792 TTTGAATTGAAT
1 ATTGAATTGAAT
*
2458804 AGTG-ATTGAA
1 ATTGAATTGAA
2458814 AGTGAAAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 6 0.16
12 23 0.62
14 8 0.22
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (12 bp):
ATTGAATTGAAT
Found at i:2465061 original size:6 final size:6
Alignment explanation
Indices: 2465031--2465083 Score: 72
Period size: 6 Copynumber: 8.5 Consensus size: 6
2465021 AAACACAATG
2465031 AAAAT- AAAATA AACGAATAA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AA--AAT-A AAAATA AAAATA AAAATA AAAATA AAAATA
2465081 AAA
1 AAA
2465084 CAGAATTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.11
6 30 0.68
7 3 0.07
8 3 0.07
9 3 0.07
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:2466728 original size:28 final size:28
Alignment explanation
Indices: 2466696--2466749 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
2466686 ATCAGTACAC
*
2466696 TGTGGGCCTTAGCCCATTACAGTAATAG
1 TGTGGGCCTTAGCCCAATACAGTAATAG
2466724 TGTGGGCCTTAGCCCAATACAGTAAT
1 TGTGGGCCTTAGCCCAATACAGTAAT
2466750 CAGTACAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAATAG
Found at i:2466895 original size:26 final size:26
Alignment explanation
Indices: 2466860--2466929 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
2466850 CACCAATATT
2466860 GCAGC-AAGCTGCCAGTAATAATGAA-
1 GCAGCAAAGCTGCCAGTAATAAT-AAC
* *
2466885 GTAGCAAAGCTGCCAGTAATAGTAAC
1 GCAGCAAAGCTGCCAGTAATAATAAC
*
2466911 GCAGCAAGGCTGCCAGTAA
1 GCAGCAAAGCTGCCAGTAA
2466930 CAGTATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 6 0.15
26 33 0.85
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAATAAC
Found at i:2467140 original size:27 final size:27
Alignment explanation
Indices: 2467110--2467386 Score: 261
Period size: 27 Copynumber: 10.3 Consensus size: 27
2467100 AGTATAACAA
2467110 TCATTTTACCCTAT-GGGGGTATTTCGG
1 TCATTTTACCCT-TCGGGGGTATTTCGG
* * * * *
2467137 TCATTTCACCCTTTGAGGGCATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGG
** * ** **
2467164 TGGTTTTACCTTTCAAGGGTATTTTAG
1 TCATTTTACCCTTCGGGGGTATTTCGG
* *
2467191 TCAATTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGG
* *
2467218 TTATTTTACCCTTCGGGGGGTATTTCGA
1 TCATTTTACCCTTC-GGGGGTATTTCGG
*
2467246 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
* * * *
2467273 TCATTTTATCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGGGGGTATTTCGG
**
2467300 TTTTTTTACCCTTCGGGGGTA-TTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
* * *
2467326 TCCTTTTACCCTTCGCGGGTATTTCGA
1 TCATTTTACCCTTCGGGGGTATTTCGG
* *
2467353 TCATTTTATCCTTCAGGGGTATTTCGG
1 TCATTTTACCCTTCGGGGGTATTTCGG
*
2467380 TTATTTT
1 TCATTTT
2467387 GCCATCGAAT
Statistics
Matches: 200, Mismatches: 47, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
26 23 0.12
27 151 0.75
28 26 0.13
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGGGGGTATTTCGG
Found at i:2467308 original size:109 final size:107
Alignment explanation
Indices: 2467109--2467386 Score: 328
Period size: 109 Copynumber: 2.6 Consensus size: 107
2467099 GAGTATAACA
* * * * * **
2467109 ATCATTTTACCCTAT-GGGGGTATTTCGGTCATTTCACCCTTTGAGGGCATTTCGATGGTTTTAC
1 ATCATTTTACCCT-TCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
*
2467173 CTTTCAAGGGTATTTTAGTCAATTTACCCTTCGGGGGTATTTCG
65 CTTTCAAGGGTATTTCAGTCAATTTACCCTTCGGGGGTA-TTCG
*
2467217 ATTATTTTACCCTTCGGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAT
1 ATCATTTTACCCTTC-GGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-
* ***
2467282 CCTTT-GAGGGTATTTCAGTTTTTTTACCCTTCGGGGGTATTCG
64 CCTTTCAAGGGTATTTCAGTCAATTTACCCTTCGGGGGTATTCG
* * * * *
2467325 GTCCTTTTACCCTTCGCGGGTATTTCGATCATTTTATCCTTC-AGGGGTATTTCGGTTATTTT
1 ATCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGA-GGGTATTTCGGTCATTTT
2467387 GCCATCGAAT
Statistics
Matches: 147, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.01
107 43 0.29
108 28 0.19
109 70 0.48
110 5 0.03
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (107 bp):
ATCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACC
TTTCAAGGGTATTTCAGTCAATTTACCCTTCGGGGGTATTCG
Found at i:2467357 original size:80 final size:82
Alignment explanation
Indices: 2467109--2467386 Score: 262
Period size: 82 Copynumber: 3.4 Consensus size: 82
2467099 GAGTATAACA
* * * * * * * * * **
2467109 ATCATTTTACCCTATGGGGGTATTTCGGTCATTTCACCCTT-TGAGGGCATTTCGATGGTTTTAC
1 ATCATTTTATCCTTTGAGGGTATTTCGATTATTTTACCCTTCGGGGGGTATTTCGATCATTTTAC
* * *
2467173 CTTTCAAGGGTATTT-T
66 CCTTCGAGGGTATTTCG
* * * *
2467189 AGTCAATTTACCCTTCGGGGGTATTTCGATTATTTTACCCTTCGGGGGGTATTTCGATCATTTTA
1 A-TCATTTTATCCTTTGAGGGTATTTCGATTATTTTACCCTTCGGGGGGTATTTCGATCATTTTA
2467254 CCCTTCGAGGGTATTTCG
65 CCCTTCGAGGGTATTTCG
* * * *
2467272 GTCATTTTATCCTTTGAGGGTATTTC-AGTTTTTTTACCCTTC-GGGGGTA-TTCGGTCCTTTTA
1 ATCATTTTATCCTTTGAGGGTATTTCGA-TTATTTTACCCTTCGGGGGGTATTTCGATCATTTTA
*
2467334 CCCTTCGCGGGTATTTCG
65 CCCTTCGAGGGTATTTCG
* *
2467352 ATCATTTTATCC-TTCAGGGGTATTTCGGTTATTTT
1 ATCATTTTATCCTTTGA-GGGTATTTCGATTATTTT
2467387 GCCATCGAAT
Statistics
Matches: 165, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
79 3 0.02
80 55 0.33
81 42 0.25
82 65 0.39
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (82 bp):
ATCATTTTATCCTTTGAGGGTATTTCGATTATTTTACCCTTCGGGGGGTATTTCGATCATTTTAC
CCTTCGAGGGTATTTCG
Found at i:2473999 original size:25 final size:25
Alignment explanation
Indices: 2473950--2473999 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2473940 TATTTTTTTA
* * *
2473950 CTTAGTTTTTAACCCTTTTTTAACC
1 CTTAGTTTTTAACCATCTTTAAACC
*
2473975 CTTAGTTTTTAATCATCTTTAAACC
1 CTTAGTTTTTAACCATCTTTAAACC
2474000 AAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.50
Consensus pattern (25 bp):
CTTAGTTTTTAACCATCTTTAAACC
Found at i:2480933 original size:61 final size:61
Alignment explanation
Indices: 2480859--2481053 Score: 237
Period size: 61 Copynumber: 3.2 Consensus size: 61
2480849 AAAATTCCAT
* * * *
2480859 AAAGGATTTCCTGTCCAGAGTATTGCCACAAAAGTTGTCCTTTACGTTCAGTACTCGCCAC
1 AAAGGTTTTCCTGTCCAAAGTATTGCCACAAAGGTTGTCCTTTACATTCAGTACTCGCCAC
* * * * *
2480920 AAAGGTTTTCCTGTCCAAAGTAATGCCACAAAGGCTGTCATTTACATTTAGTACTCACCAC
1 AAAGGTTTTCCTGTCCAAAGTATTGCCACAAAGGTTGTCCTTTACATTCAGTACTCGCCAC
** * * * * *
2480981 AAAGGTTTTATTATCTACAGTATAGCCACAAAGGTTGTCCTTTTCATTCAGTACTCGCCAC
1 AAAGGTTTTCCTGTCCAAAGTATTGCCACAAAGGTTGTCCTTTACATTCAGTACTCGCCAC
*
2481042 AAAGGCTTTCCT
1 AAAGGTTTTCCT
2481054 TCTCTTGGTG
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 110 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (61 bp):
AAAGGTTTTCCTGTCCAAAGTATTGCCACAAAGGTTGTCCTTTACATTCAGTACTCGCCAC
Found at i:2481045 original size:32 final size:32
Alignment explanation
Indices: 2480883--2481054 Score: 128
Period size: 32 Copynumber: 5.6 Consensus size: 32
2480873 CCAGAGTATT
* *
2480883 GCCACAAAAGTTGTCCTTTACGTTCAGTACTC
1 GCCACAAAGGTTGTCCTTTACATTCAGTACTC
* * * * *
2480915 GCCACAAAGGTTTTCCTGTCCA--AAGTAAT-
1 GCCACAAAGGTTGTCCTTTACATTCAGTACTC
* * *
2480944 GCCACAAAGGCTGTCATTTACATTTAGTACTC
1 GCCACAAAGGTTGTCCTTTACATTCAGTACTC
* * *
2480976 ACCACAAAGGTT-T--TATTATC-TACAGTA-TA
1 GCCACAAAGGTTGTCCT-TTA-CATTCAGTACTC
*
2481005 GCCACAAAGGTTGTCCTTTTCATTCAGTACTC
1 GCCACAAAGGTTGTCCTTTACATTCAGTACTC
2481037 GCCACAAAGGCTT-TCCTT
1 GCCACAAAGG-TTGTCCTT
2481055 CTCTTGGTGA
Statistics
Matches: 106, Mismatches: 23, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
29 30 0.28
30 15 0.14
31 15 0.14
32 44 0.42
33 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (32 bp):
GCCACAAAGGTTGTCCTTTACATTCAGTACTC
Found at i:2485104 original size:20 final size:20
Alignment explanation
Indices: 2485069--2485107 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2485059 TCAGCTCAAC
2485069 TTTAGCTCAATGAGCTCATT
1 TTTAGCTCAATGAGCTCATT
* *
2485089 TTTAGCTCATTTAGCTCAT
1 TTTAGCTCAATGAGCTCAT
2485108 CTTAAGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTAGCTCAATGAGCTCATT
Found at i:2485115 original size:20 final size:20
Alignment explanation
Indices: 2485051--2485120 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
2485041 ACTCTACTTC
* * *
2485051 AAGCTCACTCAGCTCAACTT
1 AAGCTCATTTAGCTCATCTT
* * * *
2485071 TAGCTCAATGAGCTCATTTT
1 AAGCTCATTTAGCTCATCTT
*
2485091 TAGCTCATTTAGCTCATCTT
1 AAGCTCATTTAGCTCATCTT
*
2485111 AAGCTTATTT
1 AAGCTCATTT
2485121 TAGTTTGCAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (20 bp):
AAGCTCATTTAGCTCATCTT
Found at i:2500303 original size:40 final size:40
Alignment explanation
Indices: 2500259--2500399 Score: 210
Period size: 40 Copynumber: 3.5 Consensus size: 40
2500249 GGTTCTGTGC
2500259 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
*
2500299 CTAGCAGGCTTAATGCCGATGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
* * * ** *
2500339 CTAGCAAGCTTGATGCCAGTGACCTTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
*
2500379 CTAGCAGGCTTAATGTCGGTG
1 CTAGCAGGCTTAATGCCGGTG
2500400 TTCTGAGTCT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAATTTTTCAGACTTAATGT
Found at i:2501808 original size:41 final size:41
Alignment explanation
Indices: 2501751--2501888 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
2501741 GTTACAACCG
*
2501751 AAGTACAAACAAGGGCACATATGTGCAATTCAGGGGTACCA
1 AAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCA
* * *
2501792 AAGTACAAACAGGGGCACGTATATGCAATTCAGGGGTACCG
1 AAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCA
* *
2501833 AAGTACAAACAGAGGCA-AGTATGTGCAATTCAGGGCTA-CA
1 AAGTACAAACAGGGGCACA-TATGTGCAATTCAGGGGTACCA
*
2501873 GAAGTACAAATAGGGG
1 -AAGTACAAACAGGGG
2501889 ATAATTCAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 83 0.99
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (41 bp):
AAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCA
Found at i:2502801 original size:20 final size:20
Alignment explanation
Indices: 2502776--2502814 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2502766 AAGTCCTTTG
2502776 AATGGTCTATTTACTATCTC
1 AATGGTCTATTTACTATCTC
2502796 AATGGTCTATTTACTATCT
1 AATGGTCTATTTACTATCT
2502815 AAGTCCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (20 bp):
AATGGTCTATTTACTATCTC
Found at i:2504980 original size:29 final size:30
Alignment explanation
Indices: 2504940--2505007 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
2504930 ATTGATAGTT
* *
2504940 CAAGTACTACATTAG-ATATTT-TCAAAGTA
1 CAAGTACCACATTAGCAT-TTTATAAAAGTA
*
2504969 CATGTACCACATTAGCATTTTATAAAAGTA
1 CAAGTACCACATTAGCATTTTATAAAAGTA
2504999 CAAGTACCA
1 CAAGTACCA
2505008 TCACAAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (30 bp):
CAAGTACCACATTAGCATTTTATAAAAGTA
Found at i:2505088 original size:91 final size:90
Alignment explanation
Indices: 2504921--2505091 Score: 236
Period size: 91 Copynumber: 1.9 Consensus size: 90
2504911 CATAATAATA
* *
2504921 AAAAAACATATTGATAGTTCAAGTACTACATTAGATATTTTCAAAGTACATGTACCACATTAGCA
1 AAAAAACATATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTA-ATGTACCACATTAGCA
*
2504986 TTTTATAAAAGTACAAGTACCATCAC
65 TATTATAAAAGTACAAGTACCATCAC
* * * *
2505012 AAAACACATATTGATAGTTCAAGTACCATATTAGACATTTTCAAAGT-ATGATACCTCATTGGAC
1 AAAAAACATATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTAATG-TACCACATTAG-C
*
2505076 ATATTATGAAAGTACA
64 ATATTATAAAAGTACA
2505092 TGTATTAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 3 0.04
90 9 0.13
91 58 0.83
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (90 bp):
AAAAAACATATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTAATGTACCACATTAGCAT
ATTATAAAAGTACAAGTACCATCAC
Found at i:2513657 original size:16 final size:15
Alignment explanation
Indices: 2513630--2513659 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2513620 TGATAAAGTA
2513630 AATAAAAAAGTAAAT
1 AATAAAAAAGTAAAT
2513645 AATAAATAAAGTAAA
1 AATAAA-AAAGTAAA
2513660 CTATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAAAAAAGTAAAT
Found at i:2514489 original size:14 final size:15
Alignment explanation
Indices: 2514460--2514492 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2514450 AAATATTGAC
*
2514460 ATTTTTTTTCTTAAT
1 ATTTATTTTCTTAAT
2514475 ATTTATTTT-TTAAT
1 ATTTATTTTCTTAAT
2514489 ATTT
1 ATTT
2514493 TAATATGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTATTTTCTTAAT
Found at i:2516661 original size:50 final size:48
Alignment explanation
Indices: 2516607--2516728 Score: 115
Period size: 50 Copynumber: 2.5 Consensus size: 48
2516597 CAAAAGTTAA
* * *
2516607 TTTATTTTAATTTTTGTAAGTTTTAAAAACTT-TTACTATAT-TTTTTATTT
1 TTTATTTTAATTTTTATAA-TTTT-AAAA-TTATTA-TATATACTTTTAATT
* *
2516657 TTTATTTATAAAATTTTATTATTTTAAAATTATTATATATACTTTTAATT
1 TTTATTT-T-AATTTTTATAATTTTAAAATTATTATATATACTTTTAATT
2516707 TTTATTTTATATTTTTA-AATTT
1 TTTATTTTA-ATTTTTATAATTT
2516729 AATATATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
48 5 0.08
49 14 0.23
50 28 0.47
51 5 0.08
52 8 0.13
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (48 bp):
TTTATTTTAATTTTTATAATTTTAAAATTATTATATATACTTTTAATT
Found at i:2516684 original size:16 final size:17
Alignment explanation
Indices: 2516653--2516692 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
2516643 TATATTTTTT
2516653 ATTTT-TTATTTATAAA
1 ATTTTATTATTTATAAA
2516669 ATTTTATTATTT-TAAA
1 ATTTTATTATTTATAAA
2516685 ATTATTAT
1 ATT-TTAT
2516693 ATATACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTATTTATAAA
Found at i:2516739 original size:36 final size:41
Alignment explanation
Indices: 2516669--2516745 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 41
2516659 TATTTATAAA
2516669 ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
1 ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
*
2516710 ATTTTA-TATTTTTAAA-T-TTA-ATATA-TTTTAATTTTT
1 ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
2516746 TTTAAATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 11 0.31
37 5 0.14
38 3 0.09
39 1 0.03
40 9 0.26
41 6 0.17
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (41 bp):
ATTTTATTATTTTAAAATTATTATATATACTTTTAATTTTT
Found at i:2516770 original size:26 final size:26
Alignment explanation
Indices: 2516718--2516770 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
2516708 TTATTTTATA
* * *
2516718 TTTTTAAATTTAATATATTTTAATTT
1 TTTTTAAATTGAACATATGTTAATTT
* *
2516744 TTTTTAAATTGAACGTATGTTAGTTT
1 TTTTTAAATTGAACATATGTTAATTT
2516770 T
1 T
2516771 GCCACATGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (26 bp):
TTTTTAAATTGAACATATGTTAATTT
Found at i:2517652 original size:42 final size:42
Alignment explanation
Indices: 2517578--2517943 Score: 299
Period size: 42 Copynumber: 8.4 Consensus size: 42
2517568 ACGTCGCTAA
* * * *
2517578 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAAGTAATGTT
* * *
2517622 CTTTAGCAGCGCTTAGGAAAAAACGTCGCT-AATGATCAA-GTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAG-T-AATGTT
* *
2517664 CTTTAGCGGCGCTT-GGGAAAAACGCCGCTAAAGATCATGTTCTTTAGCATGAT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCT-AA-A--A-G-----TA--ATGTT
*
2517717 CTTTAGCGGCACTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAAGTAATGTT
* **
2517760 CTATAGCGGCGCTTAATAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAGTAATGTT
* ** *
2517802 CTATAGCGGCGCTTAATAAAAAACGCTGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAGTAATGTT
* *
2517844 CTATAGCGGCGCTT-GGTAGAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAAAGTAATGTT
*** * *
2517886 CTTTAGCGGCGCTTCATCTACAAACGCCGCTAAAAGTAGTGTT
1 CTTTAGCGGCGCTT-AGGAAAAAACGCCGCTAAAAGTAATGTT
* *
2517929 CTTTCGCAGCGCTTA
1 CTTTAGCGGCGCTTA
2517944 TTTCACAAAC
Statistics
Matches: 269, Mismatches: 33, Indels: 42
0.78 0.10 0.12
Matches are distributed among these distances:
41 16 0.06
42 146 0.54
43 54 0.20
44 13 0.05
45 2 0.01
47 1 0.00
50 2 0.01
51 2 0.01
52 1 0.00
53 16 0.06
54 5 0.02
55 11 0.04
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAGTAATGTT
Found at i:2517759 original size:55 final size:53
Alignment explanation
Indices: 2517663--2517766 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 53
2517653 ATGATCAAGT
* * * *
2517663 TCTTTAGCGGCGCTTGGGAAAAACGCCGCTAAAGATCATGTTCTTTAGCATGA
1 TCTTTAGCGGCACTTGGAAAAAACGCCGCTAAAGATAATGTTCTATAGCATGA
2517716 TCTTTAGCGGCACTTAGGAAAAAAACGCCGCTAAA-AGTAATGTTCTATAGC
1 TCTTTAGCGGCACTT-GG-AAAAAACGCCGCTAAAGA-TAATGTTCTATAGC
2517767 GGCGCTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
53 14 0.32
54 3 0.07
55 27 0.61
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (53 bp):
TCTTTAGCGGCACTTGGAAAAAACGCCGCTAAAGATAATGTTCTATAGCATGA
Found at i:2517954 original size:43 final size:42
Alignment explanation
Indices: 2517735--2517930 Score: 302
Period size: 42 Copynumber: 4.6 Consensus size: 42
2517725 GCACTTAGGA
2517735 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
2517777 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
* **
2517819 AAAAAACGCTGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
* * *
2517861 AGAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTCAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
* * *
2517903 CTACAAACGCCGCTAAAAGTAGTGTTCT
1 -AAAAAACGCCGCTAAAAGTAATGTTCT
2517931 TTCGCAGCGC
Statistics
Matches: 141, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 118 0.84
43 23 0.16
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT
Found at i:2523109 original size:6 final size:6
Alignment explanation
Indices: 2523098--2523138 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
2523088 AGAGAGCGAT
*
2523098 GGTGAC GGTGAC GGTGAC GGTGAC GGCGAC GGTGAC GGTGA
1 GGTGAC GGTGAC GGTGAC GGTGAC GGTGAC GGTGAC GGTGA
2523139 TGCAGTAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.51, T:0.15
Consensus pattern (6 bp):
GGTGAC
Found at i:2524462 original size:25 final size:25
Alignment explanation
Indices: 2524420--2524468 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2524410 ACATTATATA
*
2524420 ATATAATAAACTACATTATATAATC
1 ATATAATAAACTAAATTATATAATC
2524445 ATATAAT-AACATAAATTATATAAT
1 ATATAATAAAC-TAAATTATATAAT
2524469 AAACTACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAATAAACTAAATTATATAATC
Found at i:2524691 original size:113 final size:111
Alignment explanation
Indices: 2524509--2524856 Score: 412
Period size: 113 Copynumber: 3.1 Consensus size: 111
2524499 TCCCACAACG
* * * *
2524509 CGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCACAACTGCTAGTATACATCAAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACAA-TGCTAATATACATCAAG
*
2524574 ACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAAA
64 ACCAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTTCAATAAA
* * *
2524622 CGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAAG
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCAC-AATGCTAATATACATCAAG
* * * **
2524687 ACCAAA-C-TCTGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCAGTACT
64 ACCAAAGCGT-TGCGTTTTGGTT-A-ATATTTTGCGGCGCTTTTCAATAAA
* * * *
2524736 CGCCGCTAATACTATACTTTAGCGGCGTTTTAATATAAGCGGCACAATGATACTATACATCAAGA
1 CGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACAATGCTAATATACATCAAGA
* * * *
2524801 CCAAAGCGCTGCGTTTTGGTTAATCTTTTGCGGCGTTTTTCAATAAG
65 CCAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTTCAATAAA
*
2524848 CGCCACTAA
1 CGCCGCTAA
2524857 GCCTAATATA
Statistics
Matches: 198, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
111 1 0.01
112 39 0.20
113 83 0.42
114 75 0.38
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (111 bp):
CGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACAATGCTAATATACATCAAGAC
CAAAGCGTTGCGTTTTGGTTAATATTTTGCGGCGCTTTTCAATAAA
Found at i:2525179 original size:114 final size:113
Alignment explanation
Indices: 2524825--2525311 Score: 536
Period size: 114 Copynumber: 4.3 Consensus size: 113
2524815 TTTGGTTAAT
* * *
2524825 CTTTTGCGGCGTTTTTCAATAAGCGCCACTAA-GCCTAATATACCGCAAGACCAAACTCTGCGTT
1 CTTTAGCGGCGTTTTT-GATAAGCGCCACTAATG-CTAATATACCTCAAGACCAAACTCTGCGTT
* * *
2524889 TTGGTTAAGAAATCTTGCGGTGCTTTTCACTACTTGCCGCTAATACTATG
64 TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATG
* * * * * * *
2524939 ATTTAGCGGCGTTTTAATG-TAAGCACCAGTACTGCTAGTATACATCAAGACCAAAGCGCTGCGT
1 CTTTAGCGGCGTTTT--TGATAAGCGCCACTAATGCTAATATACCTCAAGACCAAA-CTCTGCGT
* * * * * **
2525003 TTTGGCT-A-ATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATG
63 TTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATG
*
2525052 CTTTAGCGGCGTTTTTCGATAAGCGCCAGTAAT-CATAATATACCTCAAGACCAAACTCTGCGTT
1 CTTTAGCGGCGTTTTT-GATAAGCGCCACTAATGC-TAATATACCTCAAGACCAAACTCTGCGTT
* *
2525116 TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCTCCGCTAATACTATT
64 TTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATG
* * * *
2525166 CTTTAGCGGCGTTTTTGTATAAGTGCCACTAATGCTAGTGTACCTCATGACCAAACTCTGCGTTT
1 CTTTAGCGGCGTTTTTG-ATAAGCGCCACTAATGCTAATATACCTCAAGACCAAACTCTGCGTTT
** *** *
2525231 TGGTTAAGATGTATTGCGGCGCTTTT-TGGACTCGCCGCTAATTCTATG
65 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATG
**
2525279 CTTTAGCGGCGATTTTAAATAAGCGCCACTAAT
1 CTTTAGCGGCG-TTTTTGATAAGCGCCACTAAT
2525312 ACTTTCTTTA
Statistics
Matches: 311, Mismatches: 50, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
111 1 0.00
112 15 0.05
113 120 0.39
114 159 0.51
115 15 0.05
116 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (113 bp):
CTTTAGCGGCGTTTTTGATAAGCGCCACTAATGCTAATATACCTCAAGACCAAACTCTGCGTTTT
GGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATG
Found at i:2525269 original size:227 final size:227
Alignment explanation
Indices: 2524825--2525311 Score: 638
Period size: 227 Copynumber: 2.1 Consensus size: 227
2524815 TTTGGTTAAT
* * *
2524825 CTTTTGCGGCGTTTTTCAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTTT
1 CTTTAGCGGCGTTTTTCAATAAGCGCCACTAATCATAATATACCGCAAGACCAAACTCTGCGTTT
* *
2524890 TGGTTAAGAAATCTTGCGGTGCTTTTCACTACTTGCCGCTAATACTATGATTTAGCGGCGTTTTA
66 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTTGCCGCTAATACTATGATTTAGCGGCGTTTTA
* * * *
2524955 ATGTAAGCACCAGTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGCTAATATTTTGC
131 ATATAAGCACCACTAATGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGCTAAGATTTTGC
*
2525020 GGCGCTTTACAATAAGCGCCGCTAATACTATG
196 GGCGCTTTACAAGAAGCGCCGCTAATACTATG
* * *
2525052 CTTTAGCGGCGTTTTTCGATAAGCGCCAGTAATCATAATATACCTCAAGACCAAACTCTGCGTTT
1 CTTTAGCGGCGTTTTTCAATAAGCGCCACTAATCATAATATACCGCAAGACCAAACTCTGCGTTT
**
2525117 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCT-CCGCTAATACTATTCTTTAGCGGCGTTTT
66 TGGTTAAGAAATATTGCGGCGCTTTTCACTACT-TGCCGCTAATACTATGATTTAGCGGCGTTTT
** ** * * * * *
2525181 TGTATAAGTGCCACTAATGCTAGTGTACCTCATGACCAAA-CTCTGCGTTTTGGTTAAGATGTAT
130 AATATAAGCACCACTAATGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGCTAAGAT-T-T
*** ** *
2525245 TGCGGCGCTTT-TTGGACTCGCCGCTAATTCTATG
193 TGCGGCGCTTTACAAGAAGCGCCGCTAATACTATG
* *
2525279 CTTTAGCGGCGATTTTAAATAAGCGCCACTAAT
1 CTTTAGCGGCGTTTTTCAATAAGCGCCACTAAT
2525312 ACTTTCTTTA
Statistics
Matches: 223, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
226 17 0.08
227 193 0.87
228 13 0.06
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (227 bp):
CTTTAGCGGCGTTTTTCAATAAGCGCCACTAATCATAATATACCGCAAGACCAAACTCTGCGTTT
TGGTTAAGAAATATTGCGGCGCTTTTCACTACTTGCCGCTAATACTATGATTTAGCGGCGTTTTA
ATATAAGCACCACTAATGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGCTAAGATTTTGC
GGCGCTTTACAAGAAGCGCCGCTAATACTATG
Found at i:2526009 original size:24 final size:24
Alignment explanation
Indices: 2525982--2526043 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
2525972 CCGCAAAGTT
* * **
2525982 CACTATCACTATCATCATAGTTTG
1 CACTATTACTATCATCATAGCTCA
2526006 CACTATTACTATCATCATAGCTCA
1 CACTATTACTATCATCATAGCTCA
2526030 CACTATTACTATCA
1 CACTATTACTATCA
2526044 ACTTCTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTCA
Found at i:2527745 original size:43 final size:43
Alignment explanation
Indices: 2527682--2527905 Score: 326
Period size: 43 Copynumber: 5.2 Consensus size: 43
2527672 GTGAAAAAAT
* * **
2527682 GCCGCTAAAGAACATTACCTTTAGTGGCGCTTTACAAACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
2527725 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
**
2527768 GCCGCTAAAGAACA-GAACCTTTAGCAACGCTTTACCCACAAAC
1 GCCGCTAAAGAACATG-ACCTTTAGCGGCGCTTTACCCACAAAC
* *
2527811 GCCACTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
* *
2527854 GCCGCTGAAGAACATGATCTTTAGCGGCGCTTTA-CCAGCAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCA-CAAAC
2527897 GCCGCTAAA
1 GCCGCTAAA
2527906 AGTACGATTC
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
42 4 0.02
43 160 0.97
44 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAAC
Found at i:2529843 original size:10 final size:11
Alignment explanation
Indices: 2529817--2529842 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2529807 AAAATCAGTC
2529817 AAAAATAGGAT
1 AAAAATAGGAT
2529828 AAAAATAGGAT
1 AAAAATAGGAT
2529839 AAAA
1 AAAA
2529843 TTCCTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (11 bp):
AAAAATAGGAT
Found at i:2530792 original size:9 final size:9
Alignment explanation
Indices: 2530778--2530808 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2530768 GTTAAACGAA
2530778 TCGAGTTAT
1 TCGAGTTAT
*
2530787 TCGAGTTAA
1 TCGAGTTAT
2530796 TCGAGTTAT
1 TCGAGTTAT
2530805 TCGA
1 TCGA
2530809 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:2534569 original size:14 final size:14
Alignment explanation
Indices: 2534550--2534663 Score: 83
Period size: 14 Copynumber: 8.1 Consensus size: 14
2534540 ATCCCTGAAT
2534550 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
2534564 CCCTAAACCCTT-AA
1 CCCTAAA-CCTTAAA
*
2534578 CCTCT-AACCTCTAAC
1 CC-CTAAACCT-TAAA
*
2534593 CCCTAACCCTTAAA
1 CCCTAAACCTTAAA
* * *
2534607 CCTTAAATC-TCAA
1 CCCTAAACCTTAAA
* * *
2534620 CCCTAACCCCTAAC
1 CCCTAAACCTTAAA
2534634 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
*
2534648 TCCC-AACCCTTAAA
1 -CCCTAAACCTTAAA
2534662 CC
1 CC
2534664 ATAATCCCTA
Statistics
Matches: 77, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
13 14 0.18
14 47 0.61
15 16 0.21
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:2534574 original size:21 final size:21
Alignment explanation
Indices: 2534550--2534675 Score: 89
Period size: 21 Copynumber: 6.0 Consensus size: 21
2534540 ATCCCTGAAT
2534550 CCCTAAACCTTAAACCCTAAA
1 CCCTAAACCTTAAACCCTAAA
* *
2534571 CCCTTAACCTCT-AACCTCTAAC
1 CCCTAAACCT-TAAACC-CTAAA
* *
2534593 CCCTAACCCTTAAACCTTAAA
1 CCCTAAACCTTAAACCCTAAA
* * * * *
2534614 -TCTCAACCCTAACCCCTAAC
1 CCCTAAACCTTAAACCCTAAA
2534634 CCCTAAACCTTAAATCCC--AA
1 CCCTAAACCTTAAA-CCCTAAA
* *
2534654 CCCTTAAACCATAATCCCTAAA
1 CCC-TAAACCTTAAACCCTAAA
2534676 TCCATACTCC
Statistics
Matches: 77, Mismatches: 20, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
20 20 0.26
21 35 0.45
22 22 0.29
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAAACCTTAAACCCTAAA
Found at i:2534631 original size:34 final size:33
Alignment explanation
Indices: 2534562--2534675 Score: 122
Period size: 35 Copynumber: 3.3 Consensus size: 33
2534552 CTAAACCTTA
*
2534562 AACCCTAAACCCTT-AACCTCTAACCTCTAACCCCT
1 AACCCTAAA-CCTTAAATCTC-AACC-CTAACCCCT
2534597 AACCCTTAAACCTTAAATCTCAACCCTAACCCCT
1 AACCC-TAAACCTTAAATCTCAACCCTAACCCCT
* * *
2534631 AACCCCTAAACCTTAAATCCCAACCCTTAAACCAT
1 AA-CCCTAAACCTTAAATCTCAACCC-TAACCCCT
2534666 AATCCCTAAA
1 AA-CCCTAAA
2534676 TCCATACTCC
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
34 30 0.43
35 31 0.44
36 9 0.13
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (33 bp):
AACCCTAAACCTTAAATCTCAACCCTAACCCCT
Found at i:2534680 original size:15 final size:14
Alignment explanation
Indices: 2534658--2534692 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
2534648 TCCCAACCCT
2534658 TAAACCATAATCCC
1 TAAACCATAATCCC
*
2534672 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
2534687 TAAACC
1 TAAACC
2534693 TTACACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:2535134 original size:41 final size:41
Alignment explanation
Indices: 2535075--2535351 Score: 360
Period size: 41 Copynumber: 6.8 Consensus size: 41
2535065 AAATGTTTTT
*
2535075 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTA
*** * *
2535116 GCGGCGCTCCCT-AGAAAACGCCGCTAAAACACCGAGCATTA
1 GCGGCGCTTTTTCA-AAAACGCCGCTAAAACCCCAAGCATTA
* *
2535157 GCAGCGCTTTCTCAAAAACGCCGCTAAAACCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTA
* *
2535198 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTA
* * *
2535239 GCGGTGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTA
* * *
2535280 GCGGCACTTCTTCAAAAACGCCGCTAAAAGCCCGAA-CATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAA-CCCCAAGCATTA
* *
2535321 GCGGCGCTTTTACAAAAATGCCGCTAAAACC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACC
2535352 ACGAAAGGTC
Statistics
Matches: 205, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
40 3 0.01
41 197 0.96
42 5 0.02
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTA
Found at i:2535450 original size:39 final size:40
Alignment explanation
Indices: 2535407--2535539 Score: 144
Period size: 40 Copynumber: 3.3 Consensus size: 40
2535397 GTTTTTTAAA
* * *
2535407 AAAACGCCGTTAATGCT-TATTTTTAGCGGCGCTTTCCT-T
1 AAAACGCCGCTAATGCTCGATTTTTAGCGGCG-TTTCATGT
* * *
2535446 AAAACACCGCTAATGCTCGATCTTTAGCGGCGTTTTATGT
1 AAAACGCCGCTAATGCTCGATTTTTAGCGGCGTTTCATGT
* **
2535486 AAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTTTTGT
1 AAAACGCCGCTAATGCTCGATTTTTAGCGGCGTTTCATGT
*
2535526 CCAAACGCCGCTAA
1 -AAAACGCCGCTAA
2535540 AAATGCCGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 19 0.24
40 49 0.62
41 11 0.14
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (40 bp):
AAAACGCCGCTAATGCTCGATTTTTAGCGGCGTTTCATGT
Found at i:2537962 original size:21 final size:22
Alignment explanation
Indices: 2537937--2537985 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2537927 GAAATAGTTA
*
2537937 AATTTTGC-T-TTGTTATACTTT
1 AATTTTGCATCTTGTCATA-TTT
2537958 AA-TTTGCATCTTGTCATATTT
1 AATTTTGCATCTTGTCATATTT
2537979 AATTTTG
1 AATTTTG
2537986 TAACGGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
AATTTTGCATCTTGTCATATTT
Found at i:2540357 original size:44 final size:45
Alignment explanation
Indices: 2540258--2540358 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
2540248 TTGAAGGAAA
* * *
2540258 TGAATAATACCATAGTTGAAAGACACTATGGCACTATACCAGAAC
1 TGAATAAGACCATAGTTGAAAGAAACTATGGCACTATACCAAAAC
*
2540303 TGAATAAGACCATAGTTGAATGAAACTAT-GCA-TCATACCGAAAAC
1 TGAATAAGACCATAGTTGAAAGAAACTATGGCACT-ATACC-AAAAC
*
2540348 -GAGTAAGACCA
1 TGAATAAGACCA
2540359 AAGCTAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 18 0.37
45 30 0.61
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.21
Consensus pattern (45 bp):
TGAATAAGACCATAGTTGAAAGAAACTATGGCACTATACCAAAAC
Found at i:2543115 original size:25 final size:25
Alignment explanation
Indices: 2543087--2543135 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
2543077 CTGTTTTGGA
* *
2543087 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
2543112 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
2543136 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:2552831 original size:25 final size:25
Alignment explanation
Indices: 2552803--2552925 Score: 169
Period size: 25 Copynumber: 4.9 Consensus size: 25
2552793 AGACACACCA
*
2552803 CAGCTCGTGTGAGCTTACCGATTTG
1 CAGCTCGTGAGAGCTTACCGATTTG
2552828 CAGCTCGTGAGAGCTTACCGATTTG
1 CAGCTCGTGAGAGCTTACCGATTTG
2552853 CAGCTCGTGAGAGCTTACCGATTCT-
1 CAGCTCGTGAGAGCTTACCGATT-TG
*
2552878 CAGCTCGT-ATGAGCTTACCGATTTT
1 CAGCTCGTGA-GAGCTTACCGATTTG
* * *
2552903 TAGCTCGAGAGAGCATACCGATT
1 CAGCTCGTGAGAGCTTACCGATT
2552926 CATAGCTTGT
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.02
25 86 0.96
26 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.29
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACCGATTTG
Found at i:2552938 original size:50 final size:50
Alignment explanation
Indices: 2552803--2552940 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 50
2552793 AGACACACCA
* * *
2552803 CAGCTCGTGTGAGCTTACCGATT-TGCAGCTCGTGA-GAGCTTACCGATTTG
1 CAGCTCGAGAGAGCATACCGATTCT-CAGCTCGT-ATGAGCTTACCGATTTG
* * *
2552853 CAGCTCGTGAGAGCTTACCGATTCTCAGCTCGTATGAGCTTACCGATTTT
1 CAGCTCGAGAGAGCATACCGATTCTCAGCTCGTATGAGCTTACCGATTTG
* *
2552903 TAGCTCGAGAGAGCATACCGATTCAT-AGCTTGTATGAG
1 CAGCTCGAGAGAGCATACCGATTC-TCAGCTCGTATGAG
2552941 AATACATGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
49 1 0.01
50 76 0.96
51 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (50 bp):
CAGCTCGAGAGAGCATACCGATTCTCAGCTCGTATGAGCTTACCGATTTG
Found at i:2556162 original size:21 final size:24
Alignment explanation
Indices: 2556109--2556163 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 24
2556099 TTAATTGGGA
2556109 ATAAATAAATAAAATATATATTTTT
1 ATAAATAAATAAAATATATA-TTTT
**
2556134 ATCGATAAAT-AAA-ATATA-TTT
1 ATAAATAAATAAAATATATATTTT
2556155 ATAAATAAA
1 ATAAATAAA
2556164 ATATAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 10 0.38
23 5 0.19
24 3 0.12
25 8 0.31
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
ATAAATAAATAAAATATATATTTT
Found at i:2558693 original size:3 final size:3
Alignment explanation
Indices: 2558637--2558682 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
2558627 AATTATTATG
2558637 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2558683 CAAGAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2567001 original size:23 final size:23
Alignment explanation
Indices: 2566955--2567037 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
2566945 CGAAACACCC
2566955 CAATTT-CAGCAAC-TAAACAA-TT
1 CAATTTGCAGC-ACTTAAA-AACTT
*
2566977 CAATTTGCAGTACTTAAAAACTT
1 CAATTTGCAGCACTTAAAAACTT
* * * *
2567000 CAATTTACAACATTTAAACACTT
1 CAATTTGCAGCACTTAAAAACTT
2567023 CAATTTGCAGCACTT
1 CAATTTGCAGCACTT
2567038 TAACATCTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 10 0.20
23 39 0.80
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
CAATTTGCAGCACTTAAAAACTT
Found at i:2567019 original size:46 final size:47
Alignment explanation
Indices: 2566968--2567165 Score: 167
Period size: 46 Copynumber: 4.3 Consensus size: 47
2566958 TTTCAGCAAC
*
2566968 TAAACAATTCAATTTGCAGTACTTAAAAACT-TCAATTTACAACATT
1 TAAACACTTCAATTTGCAGTACTTAAAAACTCTCAATTTACAACATT
* * * * *
2567014 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAAAAACATT
1 TAAACACTTCAATTTGCAGTACTTAAAAACTCTCAATTTACAACATT
* * * * * * **
2567060 TATACACCTCAA-TTACAG--C-GATAAAACATCTCAATTTCCACCAAC
1 TAAACACTTCAATTTGCAGTACTTA-AAAAC-TCTCAATTTACAACATT
* * **
2567105 TAAACACTTCAATTTGTAGTACTTAAACACT-TTGATTTACAACATT
1 TAAACACTTCAATTTGCAGTACTTAAAAACTCTCAATTTACAACATT
2567151 TAAACACTTCAATTT
1 TAAACACTTCAATTT
2567166 ACAAATCCAC
Statistics
Matches: 114, Mismatches: 30, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
43 4 0.04
45 27 0.24
46 76 0.67
47 1 0.01
48 5 0.04
49 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (47 bp):
TAAACACTTCAATTTGCAGTACTTAAAAACTCTCAATTTACAACATT
Found at i:2567042 original size:23 final size:23
Alignment explanation
Indices: 2566970--2567050 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
2566960 TCAGCAACTA
* * *
2566970 AACAATTCAATTTGCAGTACTTA
1 AACACTTCAATTTGCAGCACTTT
* * *
2566993 AAAACTTCAATTTACAACA-TTT
1 AACACTTCAATTTGCAGCACTTT
2567015 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTGCAGCACTTT
2567039 AACA-TCTCAATT
1 AACACT-TCAATT
2567051 AAAAACATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 3 0.07
23 40 0.87
24 3 0.07
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
AACACTTCAATTTGCAGCACTTT
Found at i:2567887 original size:7 final size:7
Alignment explanation
Indices: 2567875--2568051 Score: 85
Period size: 7 Copynumber: 24.9 Consensus size: 7
2567865 CCCTATCCCC
2567875 TAAACCA
1 TAAACCA
*
2567882 TGAACCA
1 TAAACCA
*
2567889 TAAAACA
1 TAAACCA
2567896 TAAACCA
1 TAAACCA
*
2567903 TAAACCC
1 TAAACCA
* *
2567910 TAATCCCC
1 TAA-ACCA
*
2567918 T-AACCTT
1 TAAACC-A
* *
2567925 TAACCCC
1 TAAACCA
*
2567932 TAAACCT
1 TAAACCA
2567939 TAAACC-
1 TAAACCA
* *
2567945 TCAACCCT
1 T-AAACCA
2567953 TAAACCA
1 TAAACCA
2567960 TAAACCA
1 TAAACCA
*
2567967 TAATCCA
1 TAAACCA
2567974 TAAACCCA
1 TAAA-CCA
*
2567982 TAATCCA
1 TAAACCA
*
2567989 TAAACCT
1 TAAACCA
2567996 TAAA--A
1 TAAACCA
*
2568001 TAGTAACTCC
1 TA--AAC-CA
*
2568011 TAAACCT
1 TAAACCA
2568018 TAAATCC-
1 TAAA-CCA
2568025 TAAACCA
1 TAAACCA
* *
2568032 TATACCC
1 TAAACCA
2568039 TAAACCA
1 TAAACCA
2568046 TAAACC
1 TAAACC
2568052 CTAGACTATA
Statistics
Matches: 130, Mismatches: 27, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
5 2 0.02
6 5 0.04
7 102 0.78
8 19 0.15
10 2 0.02
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:2567982 original size:15 final size:15
Alignment explanation
Indices: 2567947--2567994 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
2567937 CTTAAACCTC
* *
2567947 AACCCTTAAACCATA
1 AACCCATAATCCATA
2567962 AA-CCATAATCCATA
1 AACCCATAATCCATA
2567976 AACCCATAATCCATA
1 AACCCATAATCCATA
2567991 AACC
1 AACC
2567995 TTAAAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:2567999 original size:22 final size:21
Alignment explanation
Indices: 2567875--2568051 Score: 94
Period size: 21 Copynumber: 8.3 Consensus size: 21
2567865 CCCTATCCCC
* * *
2567875 TAAACCATGAACCATAAAACA
1 TAAACCATAAACCTTAAACCA
* * *
2567896 TAAACCATAAACCCTAATCCCC
1 TAAACCATAAACCTTAA-ACCA
* * * *
2567918 T-AACCTTTAACCCCTAAACCT
1 TAAACC-ATAAACCTTAAACCA
*
2567939 TAAACC-TCAACCCTTAAACCA
1 TAAACCAT-AAACCTTAAACCA
* *
2567960 TAAACCATAATCCATAAACCCA
1 TAAACCATAAACCTTAAA-CCA
*
2567982 TAATCCATAAACCTTAAA--A
1 TAAACCATAAACCTTAAACCA
*
2568001 TAGTAACTCCTAAACCTTAAATCC-
1 TA--AAC-CATAAACCTTAAA-CCA
* *
2568025 TAAACCATATACCCTAAACCA
1 TAAACCATAAACCTTAAACCA
2568046 TAAACC
1 TAAACC
2568052 CTAGACTATA
Statistics
Matches: 122, Mismatches: 21, Indels: 26
0.72 0.12 0.15
Matches are distributed among these distances:
19 3 0.02
20 3 0.02
21 65 0.53
22 49 0.40
24 2 0.02
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCATAAACCTTAAACCA
Found at i:2568062 original size:14 final size:14
Alignment explanation
Indices: 2567852--2568054 Score: 108
Period size: 14 Copynumber: 14.2 Consensus size: 14
2567842 ACTAATTAAT
*
2567852 CTAAACCTTAAACCC
1 CTAAACCATAAA-CC
** *
2567867 CTATCCCCTAAACC
1 CTAAACCATAAACC
* * *
2567881 ATGAACCATAAAAC
1 CTAAACCATAAACC
*
2567895 ATAAACCATAAACC
1 CTAAACCATAAACC
* *
2567909 CTAATCCCCT-AACC
1 CTAA-ACCATAAACC
* * *
2567923 TTTAACCCCTAAACC
1 -CTAAACCATAAACC
* *
2567938 TTAAACC-TCAACC
1 CTAAACCATAAACC
2567951 CTTAAACCATAAACC
1 C-TAAACCATAAACC
* *
2567966 ATAATCCATAAACC
1 CTAAACCATAAACC
*
2567980 CATAATCCATAAACC
1 C-TAAACCATAAACC
*
2567995 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
* *
2568010 CTAAACCTTAAATC
1 CTAAACCATAAACC
*
2568024 CTAAACCATATACC
1 CTAAACCATAAACC
2568038 CTAAACCATAAACC
1 CTAAACCATAAACC
2568052 CTA
1 CTA
2568055 GACTATAATG
Statistics
Matches: 146, Mismatches: 31, Indels: 23
0.73 0.16 0.12
Matches are distributed among these distances:
12 3 0.02
13 5 0.03
14 92 0.63
15 44 0.30
17 2 0.01
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:2568315 original size:42 final size:42
Alignment explanation
Indices: 2568262--2568362 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 42
2568252 TTCAACGTGT
*
2568262 AATTATTTTTTA-CTGAAGAAGTTAAATATTCAATTAAAAATA
1 AATTATATTTTATCTGAAG-AGTTAAATATTCAATTAAAAATA
*
2568304 AATTATATTTTAATTATTCTGAAGATTTAAATATTCAATTAAAAATA
1 AATTATA--TT--TTA-TCTGAAGAGTTAAATATTCAATTAAAAATA
2568351 AATTATATTTTA
1 AATTATATTTTA
2568363 ATTAATATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
42 6 0.12
43 3 0.06
44 2 0.04
45 2 0.04
46 3 0.06
47 29 0.57
48 6 0.12
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (42 bp):
AATTATATTTTATCTGAAGAGTTAAATATTCAATTAAAAATA
Found at i:2568336 original size:47 final size:48
Alignment explanation
Indices: 2568274--2568366 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 48
2568264 TTATTTTTTA
2568274 CTGAAGAAGTTAAATATTCAATTAAAAATAAATTATATTTTAATTATT
1 CTGAAGAAGTTAAATATTCAATTAAAAATAAATTATATTTTAATTATT
*
2568322 CTGAAG-ATTTAAATATTCAATTAAAAATAAATTATATTTTAATTA
1 CTGAAGAAGTTAAATATTCAATTAAAAATAAATTATATTTTAATTA
2568367 ATATAAATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 38 0.86
48 6 0.14
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (48 bp):
CTGAAGAAGTTAAATATTCAATTAAAAATAAATTATATTTTAATTATT
Found at i:2568546 original size:40 final size:40
Alignment explanation
Indices: 2568484--2568608 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
2568474 TTTTGCGGCA
* *
2568484 TTTTTCAAAAAGCGCCATTAATGGC-CGACCTATGGCAGCG
1 TTTTTCAAAAAGCGCAACTAAT-GCTCGACCTATGGCAGCG
* * *
2568524 TTTTTCAAAAAGTGCAACTAATGCTCGATCTATTGCAGCG
1 TTTTTCAAAAAGCGCAACTAATGCTCGACCTATGGCAGCG
* * * * * *
2568564 TTTTTCAAAAAGCACCACTAATACTCGATCTATAGCTGCG
1 TTTTTCAAAAAGCGCAACTAATGCTCGACCTATGGCAGCG
2568604 TTTTT
1 TTTTT
2568609 TATCCAAACG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.03
40 71 0.97
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCAACTAATGCTCGACCTATGGCAGCG
Found at i:2571552 original size:3 final size:3
Alignment explanation
Indices: 2571544--2571581 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2571534 CGTATTATGA
2571544 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2571582 AAGAATACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2574546 original size:19 final size:19
Alignment explanation
Indices: 2574502--2574595 Score: 107
Period size: 19 Copynumber: 4.9 Consensus size: 19
2574492 TATGCATATT
* **
2574502 GTGTGCTAGGATATACTTC
1 GTGTGCCAGGATGCACTTC
* ** *
2574521 GTCTGCCAGGATGTGCTTT
1 GTGTGCCAGGATGCACTTC
2574540 GTGTGCCAGGATGCACTTC
1 GTGTGCCAGGATGCACTTC
2574559 GTGTGCCAGGATGCACTTC
1 GTGTGCCAGGATGCACTTC
* *
2574578 GTGTGCCAAGATTCACTT
1 GTGTGCCAGGATGCACTT
2574596 TGTACGCCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (19 bp):
GTGTGCCAGGATGCACTTC
Found at i:2576657 original size:44 final size:44
Alignment explanation
Indices: 2576604--2576689 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
2576594 TTGAAATAAA
* *
2576604 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTGTAATTT
1 AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
* *
2576648 AATAGAAGTTGTGGTAATTACACATTTAAAAATAATTATAAT
1 AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAAT
2576690 CTAAATTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
Found at i:2576702 original size:6 final size:6
Alignment explanation
Indices: 2576679--2576722 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
2576669 ACATTTAAAA
2576679 ATAATT ATAATCT A-AATT ATAATT ATAATT ATAATT ATTAATT A
1 ATAATT ATAAT-T ATAATT ATAATT ATAATT ATAATT A-TAATT A
2576723 AAAAATTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.06
6 25 0.71
7 8 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:2576941 original size:25 final size:25
Alignment explanation
Indices: 2576913--2576980 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
2576903 ATTATAATTA
2576913 TTACTTAATTAATATTAGAGTTAAC
1 TTACTTAATTAATATTAGAGTTAAC
2576938 TTACTTAATTAATATTAGAGTTAAC
1 TTACTTAATTAATATTAGAGTTAAC
*
2576963 -TATGTTAATTAATTATTA
1 TTA-CTTAATTAA-TATTA
2576981 TTTTGAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
24 2 0.05
25 33 0.82
26 5 0.12
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (25 bp):
TTACTTAATTAATATTAGAGTTAAC
Found at i:2577399 original size:44 final size:44
Alignment explanation
Indices: 2577349--2577437 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
2577339 GTTGAAGTAA
* * *
2577349 AATAGAAGTTGTGATAATTATACATTTAAAAATATTTATAATTT
1 AATAGAAATTGTGATAATTACACATTTAAAAATAATTATAATTT
*
2577393 AATAGAAATTGTGATGATTACACATTTAAAAATAATTATAATTT
1 AATAGAAATTGTGATAATTACACATTTAAAAATAATTATAATTT
2577437 A
1 A
2577438 TATTTATTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.40
Consensus pattern (44 bp):
AATAGAAATTGTGATAATTACACATTTAAAAATAATTATAATTT
Found at i:2578430 original size:55 final size:55
Alignment explanation
Indices: 2578346--2578455 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
2578336 GTATCCATTG
*
2578346 GATGATAAATCATCACTTTTAAATTGAATAGTGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAAATTGAATAGTGCTCATGAATAATTAATTTGCAA
*
2578401 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAAATTGAATAGTGCTCATGAATAATTAATTTGCAA
2578456 TATATAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAAATTGAATAGTGCTCATGAATAATTAATTTGCAA
Found at i:2582968 original size:55 final size:55
Alignment explanation
Indices: 2582884--2582989 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
2582874 GTATCCATTG
* * *
2582884 GATGATAAATCATCACTTTTAATTTGAATAGTGGTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGATCATAAATAATTAATTTGCAA
2582939 GATGATAAATCATCACTTTTAATTTGAATAGTGATCATAAATAATTAATTT
1 GATGATAAATCATCACTTTTAATTTGAATAGTGATCATAAATAATTAATTT
2582990 ACAATCTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGATCATAAATAATTAATTTGCAA
Found at i:2582973 original size:29 final size:29
Alignment explanation
Indices: 2582886--2582973 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
2582876 ATCCATTGGA
2582886 TGATAAATCATCACTTTTAATTTGAATAG
1 TGATAAATCATCACTTTTAATTTGAATAG
* * * * *
2582915 TGGT---T-ATGAATAATTAATTTGCA-AG
1 TGATAAATCATCACT-TTTAATTTGAATAG
2582940 ATGATAAATCATCACTTTTAATTTGAATAG
1 -TGATAAATCATCACTTTTAATTTGAATAG
2582970 TGAT
1 TGAT
2582974 CATAAATAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 6 0.14
26 13 0.31
29 17 0.40
30 6 0.14
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (29 bp):
TGATAAATCATCACTTTTAATTTGAATAG
Found at i:2589723 original size:29 final size:29
Alignment explanation
Indices: 2589690--2589780 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
2589680 TGAACCTATT
2589690 AAAGGATAATCTTTGTGGCAGAACTCTGG
1 AAAGGATAATCTTTGTGGCAGAACTCTGG
* *
2589719 AAAGG-TAAGTCTTTGTGG-TGAAC-CTGTT
1 AAAGGATAA-TCTTTGTGGCAGAACTCTG-G
*** *
2589747 AAAGGATTGCCTTTGTGGCAAAACTCTGG
1 AAAGGATAATCTTTGTGGCAGAACTCTGG
2589776 AAAGG
1 AAAGG
2589781 TAAGGTTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
27 3 0.06
28 20 0.41
29 23 0.47
30 3 0.06
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (29 bp):
AAAGGATAATCTTTGTGGCAGAACTCTGG
Found at i:2589751 original size:28 final size:28
Alignment explanation
Indices: 2589662--2589751 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
2589652 AAAACTCTAG
* * *
2589662 AAAGGTAAGTTTTTATGGTGAACCTATT
1 AAAGGTAAGTCTTTGTGGTGAACCTGTT
* *
2589690 AAAGGATAA-TCTTTGTGGCAGAACTCTG-G
1 AAAGG-TAAGTCTTTGTGG-TGAAC-CTGTT
2589719 AAAGGTAAGTCTTTGTGGTGAACCTGTT
1 AAAGGTAAGTCTTTGTGGTGAACCTGTT
2589747 AAAGG
1 AAAGG
2589752 ATTGCCTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.06
28 24 0.48
29 21 0.42
30 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (28 bp):
AAAGGTAAGTCTTTGTGGTGAACCTGTT
Found at i:2589808 original size:57 final size:57
Alignment explanation
Indices: 2589643--2589821 Score: 218
Period size: 57 Copynumber: 3.1 Consensus size: 57
2589633 TTAAGGACGT
* * * * **
2589643 CTTTGTGGCAAAACTCTAGAAAGGTAAGTTTTTATGGTGAACCTATTAAAGGATAAT
1 CTTTGTGGCAAAACTCTGGAAAGGTAAGGTTTTGTGGTGAACCTGTTAAAGGATAGC
* *
2589700 CTTTGTGGCAGAACTCTGGAAAGGTAA-GTCTTTGTGGTGAACCTGTTAAAGGATTGC
1 CTTTGTGGCAAAACTCTGGAAAGGTAAGGT-TTTGTGGTGAACCTGTTAAAGGATAGC
* ** *
2589757 CTTTGTGGCAAAACTCTGGAAAGGTAAGGTTTTGTGGTAAATTTGTGAAAGGA-AGGC
1 CTTTGTGGCAAAACTCTGGAAAGGTAAGGTTTTGTGGTGAACCTGTTAAAGGATA-GC
2589814 CTTTGTGG
1 CTTTGTGG
2589822 TGATCTCTGT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.01
57 102 0.97
58 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.32
Consensus pattern (57 bp):
CTTTGTGGCAAAACTCTGGAAAGGTAAGGTTTTGTGGTGAACCTGTTAAAGGATAGC
Found at i:2594023 original size:42 final size:41
Alignment explanation
Indices: 2593933--2594010 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 41
2593923 TTATGAACCA
* *
2593933 TATCCAATGGTAAACCAACCGATTGGAACAAATGTTTTAAAT
1 TATCCAATGGTAAACCAACCAATTGGAAC-AATCTTTTAAAT
2593975 TATCCAATGGTAAACCAACCAATTGGAAC-ATCTTTT
1 TATCCAATGGTAAACCAACCAATTGGAACAATCTTTT
2594011 TCATTAACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 6 0.18
42 28 0.82
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (41 bp):
TATCCAATGGTAAACCAACCAATTGGAACAATCTTTTAAAT
Found at i:2595678 original size:13 final size:13
Alignment explanation
Indices: 2595659--2595687 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2595649 AGTATTCTAG
2595659 CTTTTTTT-TTTT
1 CTTTTTTTCTTTT
2595671 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
2595684 CTTT
1 CTTT
2595688 ACTTTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
CTTTTTTTCTTTT
Found at i:2596060 original size:153 final size:154
Alignment explanation
Indices: 2595884--2596163 Score: 465
Period size: 154 Copynumber: 1.8 Consensus size: 154
2595874 TAAAAAAACT
* *
2595884 GAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAATTTTAA-ATT
1 GAAAGATTAGATTTTTAAAATAAAAATATG-TTTTTTAGTCATATTAAAGGAAAAGTTTAATATT
* *
2595948 CTTAAAAC-AAAGTTTTCATCTTTTTCAACTATTTCGAAATAAAGTTTTTATTTTTAAGAAAAAT
65 CTTAAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAAT
2596012 AACGATTTTTTAAATAAAAAATAGA
130 AACGATTTTTTAAATAAAAAATAGA
* * *
2596037 GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTTAATTTTT
1 GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAAGTTTAATATTC
*
2596102 TTTAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAA
66 TTAAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAA
2596164 GTAGTAATTT
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
152 28 0.24
153 37 0.32
154 52 0.44
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (154 bp):
GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAAGTTTAATATTC
TTAAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATA
ACGATTTTTTAAATAAAAAATAGA
Found at i:2597108 original size:27 final size:27
Alignment explanation
Indices: 2597078--2597139 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
2597068 TAAGTAGGTG
*
2597078 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATAAAACCATAAGGTTT
*
2597105 TTACATTTTAATAAAACCTTAAGGTTT
1 TTACATTTTAATAAAACCATAAGGTTT
2597132 TTACATTT
1 TTACATTT
2597140 GAATTTAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
TTACATTTTAATAAAACCATAAGGTTT
Found at i:2601693 original size:32 final size:32
Alignment explanation
Indices: 2601651--2601725 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
2601641 TTCGGGCTCG
*
2601651 TTCTCAAGCTC-AGTCTTTTTCGACCTCAAATT
1 TTCTCAAGCTCAAGTCCTTTTCGA-CTCAAATT
* * *
2601683 TTCTCTAGCTCAAGTCCTTTTGGACTCAGATT
1 TTCTCAAGCTCAAGTCCTTTTCGACTCAAATT
* *
2601715 TTTTCGAGCTC
1 TTCTCAAGCTC
2601726 TGATTTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
32 26 0.72
33 10 0.28
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (32 bp):
TTCTCAAGCTCAAGTCCTTTTCGACTCAAATT
Found at i:2603533 original size:108 final size:109
Alignment explanation
Indices: 2603342--2603538 Score: 272
Period size: 108 Copynumber: 1.8 Consensus size: 109
2603332 ATAGAGGTGT
* * *
2603342 CATGGGTTTCAACCACATGGGCTTACACATAATTTCATGTCGTGATCTGCCAGTCCAGTTTACAT
1 CATGGGTTTCAACCACATGGACTTACACAT-ACTTCATGTCGTGATCTGCCAGTCCAATTTACAT
* *
2603407 ATTACCGAAGGCATCACCAGGAGTATTCATTTTATCATATCATGC
65 ATCACCGAAGGCAACACCAGGAGTATTCATTTTATCATATCATGC
* *
2603452 CATGGGTTTCAACCACATGGACTTACACAT-CTTCATGTCGTGATCTGTCAGTCCAATCTT-CTT
1 CATGGGTTTCAACCACATGGACTTACACATACTTCATGTCGTGATCTGCCAGTCCAAT-TTACAT
* * *
2603515 CTCACTGAAGGCAACACCATGAGT
65 ATCACCGAAGGCAACACCAGGAGT
2603539 GTTTTTAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
108 45 0.59
109 2 0.03
110 29 0.38
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (109 bp):
CATGGGTTTCAACCACATGGACTTACACATACTTCATGTCGTGATCTGCCAGTCCAATTTACATA
TCACCGAAGGCAACACCAGGAGTATTCATTTTATCATATCATGC
Found at i:2603554 original size:108 final size:108
Alignment explanation
Indices: 2603342--2603566 Score: 258
Period size: 108 Copynumber: 2.1 Consensus size: 108
2603332 ATAGAGGTGT
* * *
2603342 CATGGGTTTCAACCACATGGGCTTACACATAATTTCATGTCGTGATCTGCCAGTCCAGTTTACAT
1 CATGGGTTTCAACCACATGGACTTACACAT-ACTTCATGTCGTGATCTGCCAGTCCAATTTACAT
* * * *
2603407 ATTACCGAAGGCATCACCAGGAGTATTCATTTTATCATATCATGC
65 ATCACCGAAGGCAACACCAGGAGTATT-ATTTTACCATATAATGC
* *
2603452 CATGGGTTTCAACCACATGGACTTACACAT-CTTCATGTCGTGATCTGTCAGTCCAATCTT-CTT
1 CATGGGTTTCAACCACATGGACTTACACATACTTCATGTCGTGATCTGCCAGTCCAAT-TTACAT
* * * *
2603515 CTCACTGAAGGCAACACCATGAGTGTT-TTTAATACCATATAATGC
65 ATCACCGAAGGCAACACCAGGAGTATTATTT--TACCATATAATGC
*
2603560 CAAGGGT
1 CATGGGT
2603567 CTTAGTGGAA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
106 3 0.03
108 64 0.65
109 2 0.02
110 29 0.30
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (108 bp):
CATGGGTTTCAACCACATGGACTTACACATACTTCATGTCGTGATCTGCCAGTCCAATTTACATA
TCACCGAAGGCAACACCAGGAGTATTATTTTACCATATAATGC
Found at i:2609152 original size:13 final size:13
Alignment explanation
Indices: 2609134--2609161 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2609124 CTTGTACAAG
2609134 TAAACTTCATAAA
1 TAAACTTCATAAA
2609147 TAAACTTCATAAA
1 TAAACTTCATAAA
2609160 TA
1 TA
2609162 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:2609540 original size:34 final size:35
Alignment explanation
Indices: 2609482--2609548 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
2609472 CAAACACCAG
* * *
2609482 AAAATATTTTTCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
2609517 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
2609549 ACAGACCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:2614300 original size:22 final size:22
Alignment explanation
Indices: 2614275--2614317 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2614265 AAAATGACCT
2614275 CTTC-AGGCTTTAATGTCGCGAC
1 CTTCTAGGC-TTAATGTCGCGAC
* *
2614297 CTTCTATGCTTGATGTCGCGA
1 CTTCTAGGCTTAATGTCGCGA
2614318 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (22 bp):
CTTCTAGGCTTAATGTCGCGAC
Found at i:2616410 original size:68 final size:68
Alignment explanation
Indices: 2616114--2616393 Score: 310
Period size: 68 Copynumber: 4.1 Consensus size: 68
2616104 GAGGTATAAG
* ** * * *
2616114 GTGTAAGACCATAGCTCGATTATGGTAACCAATAGAGTCCGCTAGGACATTAAACATGGGGTTAA
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
2616179 AAA
66 AAA
* * * * * *
2616182 GTGAAAGGCCATAGCTAGACTATGACAACCAATAGAGTCCACAAGGACCTTAAATATTGGGTTAC
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
2616247 AAA
66 AAA
** * ** ** * * *
2616250 GTGTAAGATTAAAGCTCGACTACAACAACCAATAGAGTTTACCAGGACAGTAAACATGAGGTTAC
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
*
2616315 AAT
66 AAA
**
2616318 GTGTAAGACCATAGCTC-AGCTATGACAACCAATAGAGTCTGCAAGGACATTAAACATGGGGTTA
1 GTGTAAGACCATAGCTCGA-CTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTA
*
2616382 CAAG
65 CAAA
2616386 GTGTAAGA
1 GTGTAAGA
2616394 TTATAGGTTG
Statistics
Matches: 171, Mismatches: 40, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
67 1 0.01
68 170 0.99
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
AAA
Found at i:2618113 original size:35 final size:35
Alignment explanation
Indices: 2618074--2618144 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
2618064 TCTAGGATCA
*
2618074 CATATCTCTGAAGATCACCTTCCATATCTGCCAAG
1 CATATCTCTGAAGATCACCTTCCATATCTACCAAG
* * *
2618109 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTCTGAAGATCACCTTCCATATCTACCAAG
2618144 C
1 C
2618145 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (35 bp):
CATATCTCTGAAGATCACCTTCCATATCTACCAAG
Found at i:2618205 original size:22 final size:22
Alignment explanation
Indices: 2618173--2618226 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
2618163 ATCTCTCCAA
*
2618173 GCAATGAACCAGTCCGATTGGG
1 GCAATGGACCAGTCCGATTGGG
2618195 GCAATGGACCAGTCCGATTGGG
1 GCAATGGACCAGTCCGATTGGG
* *
2618217 CCAATTGACC
1 GCAATGGACC
2618227 TCCCTCGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (22 bp):
GCAATGGACCAGTCCGATTGGG
Found at i:2623259 original size:35 final size:35
Alignment explanation
Indices: 2623189--2623259 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
2623179 TATAGGATCA
* **
2623189 CATATCTCTGAAGATCACCTTCCATATTTGTCAAG
1 CATATCTCTGAAGACCACCTTCCATATTTACCAAG
* *
2623224 CATATCTTTGAAGACCACTTTCCATATTTACCAAG
1 CATATCTCTGAAGACCACCTTCCATATTTACCAAG
2623259 C
1 C
2623260 TCCGGAGACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.34
Consensus pattern (35 bp):
CATATCTCTGAAGACCACCTTCCATATTTACCAAG
Found at i:2627919 original size:68 final size:67
Alignment explanation
Indices: 2627741--2628097 Score: 292
Period size: 68 Copynumber: 5.3 Consensus size: 67
2627731 TCAAAAGTGA
* * * * * * * *
2627741 TACAATGTGTAAAACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAACATGG
1 TACAAGGTGTAAGACCATAGCTCAACTAAG-CAACCAATAGAGTCCGCTAGGACATTAAATATAG
2627806 GGT
65 GGT
* * * ** *
2627809 TAAAAGGT-TTA-CCCATAGCTTTACT-AGACAACCAATAGAGTCCGCTAGGACATTCAATATAG
1 TACAAGGTGTAAGACCATAGCTCAACTAAG-CAACCAATAGAGTCCGCTAGGACATTAAATATAG
*
2627871 GTT
65 GGT
* * * *
2627874 TACAGGGTGTAAGGCCATAGCTCAACTATAGCAACCAATAAAGTCCG-TCATGACATTAAACT-T
1 TACAAGGTGTAAGACCATAGCTCAACTA-AGCAACCAATAGAGTCCGCT-AGGACATTAAA-TAT
2627937 AGGGT
63 AGGGT
* * ** * ** * *
2627942 TACAAGATGTAAAACCATAGCTCAGTTACAACAAGAAATAGAGTTCGTTAGGACATTAAATATAG
1 TACAAGGTGTAAGACCATAGCTCAACTA-AGCAACCAATAGAGTCCGCTAGGACATTAAATATAG
2628007 GGT
65 GGT
** * * * * *
2628010 TACAAGGTGTAAGACCATAGCTTGACTACGACAACCAATAGAGTCCGCTAGGATATTCAACATGG
1 TACAAGGTGTAAGACCATAGCTCAACTAAG-CAACCAATAGAGTCCGCTAGGACATTAAATATAG
2628075 GGT
65 GGT
*
2628078 TACAAGGTGTAAGGCCATAG
1 TACAAGGTGTAAGACCATAG
2628098 GTCGATTATG
Statistics
Matches: 227, Mismatches: 53, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
65 39 0.17
66 13 0.06
67 15 0.07
68 156 0.69
69 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (67 bp):
TACAAGGTGTAAGACCATAGCTCAACTAAGCAACCAATAGAGTCCGCTAGGACATTAAATATAGG
GT
Found at i:2628089 original size:136 final size:134
Alignment explanation
Indices: 2627741--2628089 Score: 375
Period size: 136 Copynumber: 2.6 Consensus size: 134
2627731 TCAAAAGTGA
* * * *
2627741 TACAATGTGTAAAACCATAGCTCGACTATGACAACCAATAGAGTCCACCAGGACATTAAACATGG
1 TACAAGGTGTAAGACCATAGCTCGACTA-GACAACCAATAGAGTCCGCTAGGACATTAAACATGG
* * * * *
2627806 GGTTAAAAGGT-T-TACCCATAGCTTTACTAGACAACCAATAGAGTCCGCTAGGACATTCAATAT
65 GGTTACAAGGTGTAAAACCATAGCTTTACTAGACAACAAATAGAGTCCGCTAGGACATTAAATAT
*
2627869 AGGTT
130 AGGGT
* * * * * * * *
2627874 TACAGGGTGTAAGGCCATAGCTCAACTATAGCAACCAATAAAGTCCG-TCATGACATTAAACTTA
1 TACAAGGTGTAAGACCATAGCTCGACTAGA-CAACCAATAGAGTCCGCT-AGGACATTAAACATG
* * * *
2627938 GGGTTACAAGATGTAAAACCATAGCTCAGTTAC-A-ACAAGAAATAGAGTTCGTTAGGACATTAA
64 GGGTTACAAGGTGTAAAACCATAGCT---TTACTAGACAACAAATAGAGTCCGCTAGGACATTAA
2628001 ATATAGGGT
126 ATATAGGGT
* * *
2628010 TACAAGGTGTAAGACCATAGCTTGACTACGACAACCAATAGAGTCCGCTAGGATATTCAACATGG
1 TACAAGGTGTAAGACCATAGCTCGACTA-GACAACCAATAGAGTCCGCTAGGACATTAAACATGG
2628075 GGTTACAAGGTGTAA
65 GGTTACAAGGTGTAA
2628090 GGCCATAGGT
Statistics
Matches: 173, Mismatches: 34, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
132 1 0.01
133 59 0.34
134 1 0.01
135 9 0.05
136 96 0.55
137 3 0.02
138 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (134 bp):
TACAAGGTGTAAGACCATAGCTCGACTAGACAACCAATAGAGTCCGCTAGGACATTAAACATGGG
GTTACAAGGTGTAAAACCATAGCTTTACTAGACAACAAATAGAGTCCGCTAGGACATTAAATATA
GGGT
Found at i:2630956 original size:21 final size:21
Alignment explanation
Indices: 2630916--2630978 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
2630906 TCGGGGCTAC
* *
2630916 ATGTTTAGAGACATTGGCCTGT
1 ATGTTCAGAGACA-TAGCCTGT
*
2630938 ATG-TCAGAGACATAAGCCTAT
1 ATGTTCAGAGACAT-AGCCTGT
2630959 ATGTTTC-GAGACATAGCCTG
1 ATG-TTCAGAGACATAGCCTG
2630979 CCAACAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 1 0.03
21 21 0.62
22 10 0.29
23 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (21 bp):
ATGTTCAGAGACATAGCCTGT
Found at i:2638517 original size:18 final size:18
Alignment explanation
Indices: 2638482--2638514 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2638472 GAATGATGGT
2638482 TTTAACTATTATTTATAA
1 TTTAACTATTATTTATAA
2638500 TTTAA-TATT-TTTATA
1 TTTAACTATTATTTATA
2638515 TAACATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAACTATTATTTATAA
Found at i:2638563 original size:23 final size:21
Alignment explanation
Indices: 2638511--2638573 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
2638501 TTAATATTTT
2638511 TATATAACATTATTA-TT-AAA
1 TATAT-ACATTATTATTTCAAA
2638531 TATATA-ATTACTTATTTCAAA
1 TATATACATTA-TTATTTCAAA
2638552 TATATATCATTATATATTTCAA
1 TATATA-CATTAT-TATTTCAA
2638574 CTTGTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 7 0.19
21 9 0.24
22 1 0.03
23 12 0.32
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATACATTATTATTTCAAA
Found at i:2639181 original size:21 final size:21
Alignment explanation
Indices: 2639142--2639182 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2639132 GTTTAGGGGC
*
2639142 AGAGGTGATGGAGGGAGAGGG
1 AGAGGTGATGGAGGAAGAGGG
* *
2639163 AGAGGTGGTGGTGGAAGAGG
1 AGAGGTGATGGAGGAAGAGG
2639183 TGGCGATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.61, T:0.12
Consensus pattern (21 bp):
AGAGGTGATGGAGGAAGAGGG
Found at i:2639258 original size:15 final size:15
Alignment explanation
Indices: 2639238--2639266 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2639228 TGGTGGCCGC
2639238 GGTGGAGGAAGAGGG
1 GGTGGAGGAAGAGGG
2639253 GGTGGAGGAAGAGG
1 GGTGGAGGAAGAGG
2639267 TGGAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.66, T:0.07
Consensus pattern (15 bp):
GGTGGAGGAAGAGGG
Found at i:2663461 original size:45 final size:45
Alignment explanation
Indices: 2663389--2663498 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
2663379 AAAAAATACC
* * *
2663389 AAAAAGGAAGTAAAGTGAAAAAACAACCACATCCATGTCTAGACA
1 AAAAAGGAAGCAAAGTGGAAAAACAACCACATCCATGTCTAAACA
* * *
2663434 AAAAAGGAAGCAATGTGGAAAAGCAACCACATTCATGTCTAAACA
1 AAAAAGGAAGCAAAGTGGAAAAACAACCACATCCATGTCTAAACA
*
2663479 AAAAAGGAAGC-ACGTGGAAA
1 AAAAAGGAAGCAAAGTGGAAA
2663499 CAATCACATC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
44 8 0.14
45 50 0.86
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (45 bp):
AAAAAGGAAGCAAAGTGGAAAAACAACCACATCCATGTCTAAACA
Found at i:2664210 original size:27 final size:27
Alignment explanation
Indices: 2664157--2664210 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
2664147 GAAAGGTGTG
*
2664157 GAGAAAGCGAATGTGAAAGAGGCGGTA
1 GAGAAAGCGAATGTGAAAGAGGAGGTA
2664184 GAGAAAGCGAA-G-GAGAAGAGGAAGGTA
1 GAGAAAGCGAATGTGA-AAGAGG-AGGTA
2664211 AATTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.08
26 7 0.29
27 15 0.62
ACGTcount: A:0.44, C:0.06, G:0.43, T:0.07
Consensus pattern (27 bp):
GAGAAAGCGAATGTGAAAGAGGAGGTA
Found at i:2666333 original size:20 final size:19
Alignment explanation
Indices: 2666303--2666350 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2666293 TCTCTCACAA
2666303 CAAAA-TTATAAAAAAATT
1 CAAAATTTATAAAAAAATT
*
2666321 CAAATATTTAT-AAAAATTT
1 CAAA-ATTTATAAAAAAATT
2666340 CAAAATTTATA
1 CAAAATTTATA
2666351 TTATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 12 0.46
20 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAATTTATAAAAAAATT
Found at i:2669866 original size:3 final size:3
Alignment explanation
Indices: 2669858--2669905 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
2669848 CTCCGCTCTC
2669858 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2669906 GACACCTCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2670804 original size:19 final size:19
Alignment explanation
Indices: 2670780--2670819 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2670770 TTGAAACCAC
*
2670780 TGCCCACCATAATCAAATT
1 TGCCCACCACAATCAAATT
*
2670799 TGCCCACCGCAATCAAATT
1 TGCCCACCACAATCAAATT
2670818 TG
1 TG
2670820 TTATTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.25
Consensus pattern (19 bp):
TGCCCACCACAATCAAATT
Found at i:2672952 original size:53 final size:55
Alignment explanation
Indices: 2672783--2672962 Score: 181
Period size: 55 Copynumber: 3.3 Consensus size: 55
2672773 CCCTTCAAAC
** * * *
2672783 CCTTTTACTTTCCTCC-CAAAAAAATTA-TTTCCCTCAAACTGC-CATAACTATTTTT
1 CCTTTTACTTTCC-CCTCAAAAATTTTACTTTCCCCCAAAC-CCTCAAAACT-TTTTT
*
2672838 CCTTTTACTTTCCCCCTTAAAAATTTTACTTTCCCCCAAACCCTCAAAACTTTTTT
1 CCTTTTACTTT-CCCCTCAAAAATTTTACTTTCCCCCAAACCCTCAAAACTTTTTT
* ***
2672894 TCTTTTACTTTCCCCTCAAAAATTTTAC-TTCTTTCAAA-CCTCAAAACTTTTTT
1 CCTTTTACTTTCCCCTCAAAAATTTTACTTTCCCCCAAACCCTCAAAACTTTTTT
**
2672947 CCTTTTGTTTTCCCCT
1 CCTTTTACTTTCCCCT
2672963 AAACCCCCCA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
53 28 0.26
54 7 0.07
55 29 0.27
56 26 0.24
57 17 0.16
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (55 bp):
CCTTTTACTTTCCCCTCAAAAATTTTACTTTCCCCCAAACCCTCAAAACTTTTTT
Found at i:2673356 original size:18 final size:19
Alignment explanation
Indices: 2673335--2673370 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2673325 GATGAAAGTT
2673335 AATA-ACAAATTTGATTAC
1 AATAGACAAATTTGATTAC
*
2673353 AATAGGCAAATTTGATTA
1 AATAGACAAATTTGATTA
2673371 TTGTGGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.33
Consensus pattern (19 bp):
AATAGACAAATTTGATTAC
Found at i:2678083 original size:25 final size:26
Alignment explanation
Indices: 2678055--2678106 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
2678045 AAGTTGTAAA
2678055 TAAAAAAATATC-TCTAGA-AATTTTC
1 TAAAAAAATATCTTC-AGAGAATTTTC
* *
2678080 TAAAATAATCTCTTCAGAGAATTTTC
1 TAAAAAAATATCTTCAGAGAATTTTC
2678106 T
1 T
2678107 CTCTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (26 bp):
TAAAAAAATATCTTCAGAGAATTTTC
Found at i:2679271 original size:23 final size:23
Alignment explanation
Indices: 2679241--2679306 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
2679231 CAATGAGACA
2679241 ATACAAAATTTGCCACAAAGGCC
1 ATACAAAATTTGCCACAAAGGCC
* *
2679264 ATACAAAATATGCCACAAAGGCT
1 ATACAAAATTTGCCACAAAGGCC
** *
2679287 ATACGGAATTCGCCACAAAG
1 ATACAAAATTTGCCACAAAG
2679307 ACTTTGCAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (23 bp):
ATACAAAATTTGCCACAAAGGCC
Found at i:2680990 original size:24 final size:25
Alignment explanation
Indices: 2680963--2681029 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
2680953 GTTATTAGGG
* *
2680963 TTATCAATTC-CAGCTCTTATGAGC
1 TTATCAATACTCAGCTCGTATGAGC
*
2680987 TTATCGATACTCAGCTCGTATGAGC
1 TTATCAATACTCAGCTCGTATGAGC
* * *
2681012 TTACCATTATTCAGCTCG
1 TTATCAATACTCAGCTCG
2681030 GAGAAGTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
24 8 0.23
25 27 0.77
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (25 bp):
TTATCAATACTCAGCTCGTATGAGC
Found at i:2681025 original size:25 final size:25
Alignment explanation
Indices: 2680973--2681085 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
2680963 TTATCAATTC
* * *
2680973 CAGCTCTTATGAGCTTATCGA-TACT
1 CAGCTCGTATGAGCTTA-CCATTATT
2680998 CAGCTCGTATGAGCTTACCATTATT
1 CAGCTCGTATGAGCTTACCATTATT
* * *
2681023 CAGCTCGGA-GAAGTTTACCGTTATT
1 CAGCTCGTATG-AGCTTACCATTATT
* * * *
2681048 TAGCTCGGAGGAGCTTACC-TTTTAT
1 CAGCTCGTATGAGCTTACCATTAT-T
2681073 CA-CTCGTATGAGC
1 CAGCTCGTATGAGC
2681086 ATACATGTAC
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
24 15 0.21
25 56 0.78
26 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCATTATT
Found at i:2681474 original size:25 final size:25
Alignment explanation
Indices: 2681440--2681492 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
2681430 TTCTGTGTTA
2681440 TACGAACTTACTAAGCTTAATTGCT
1 TACGAACTTACTAAGCTTAATTGCT
2681465 TACGAACTTACTAAGCTTAATTGCT
1 TACGAACTTACTAAGCTTAATTGCT
2681490 TAC
1 TAC
2681493 TCTGTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (25 bp):
TACGAACTTACTAAGCTTAATTGCT
Found at i:2691238 original size:16 final size:17
Alignment explanation
Indices: 2691217--2691254 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2691207 TAATTTTTTT
*
2691217 AAAAATAATTT-TACAA
1 AAAAATAATTTGAACAA
*
2691233 AAAAATTATTTGAACAA
1 AAAAATAATTTGAACAA
2691250 AAAAA
1 AAAAA
2691255 ATTCATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAATAATTTGAACAA
Found at i:2692971 original size:21 final size:21
Alignment explanation
Indices: 2692927--2692997 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
2692917 ATAACAGATT
* * *
2692927 CAGATCATGCTTAACA-AATA
1 CAGATCATACTTATCATATTA
2692947 CAGATCATACTTATCATATTA
1 CAGATCATACTTATCATATTA
** * *
2692968 CAGATTGTACTTATCTTATCA
1 CAGATCATACTTATCATATTA
2692989 CAGATCATA
1 CAGATCATA
2692998 TTGGGCATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (21 bp):
CAGATCATACTTATCATATTA
Found at i:2693755 original size:41 final size:41
Alignment explanation
Indices: 2693710--2693792 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
2693700 AGTCTAGCAT
* *
2693710 ATGGCTTGGCACACG-TTCATATGTCACACACGACTTACCAC
1 ATGGCATGGCACACGCCT-ATATGTCACACACGACTTACCAC
* *
2693751 ATGGCATGTCACACGCCTATGTGTCACACACGACTTACCAC
1 ATGGCATGGCACACGCCTATATGTCACACACGACTTACCAC
2693792 A
1 A
2693793 CAGCCATGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGGCATGGCACACGCCTATATGTCACACACGACTTACCAC
Found at i:2704972 original size:43 final size:43
Alignment explanation
Indices: 2704822--2704981 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
2704812 TTGTACAACA
* * * *
2704822 CCAACGTCCCAGACGTGGTCTTACATGTAAACA-TAGATCGATG
1 CCAACGTCCCAGACATGGTCTTACACGAAAACACAAG-TCGATG
* *
2704865 CC-ACTGTCCCAGACAGGGTCTTACACGAAAATACAAGTCGATG
1 CCAAC-GTCCCAGACATGGTCTTACACGAAAACACAAGTCGATG
* * * *
2704908 CCAACATTCCAGACGTGGTCTTACATGAAAACACAAGTCGATG
1 CCAACGTCCCAGACATGGTCTTACACGAAAACACAAGTCGATG
* *
2704951 CCAACGTCCCAGACATTGTCTTGCACGAAAA
1 CCAACGTCCCAGACATGGTCTTACACGAAAA
2704982 AATTTATCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.02
43 90 0.94
44 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (43 bp):
CCAACGTCCCAGACATGGTCTTACACGAAAACACAAGTCGATG
Done.