Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011696.1 Kokia drynarioides strain JFW-HI SEQ_126690, whole genome shotgun sequence
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: 540923
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 13 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:5031 original size:12 final size:11
Alignment explanation
Indices: 5011--5067 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 11
5001 CCATACTCCC
5011 TTTAAATTTAT
1 TTTAAATTTAT
*
5022 TTTAAAATTTAAA
1 TTT-AAATTT-AT
*
5035 TTT-AATTTAGG
1 TTTAAATTTA-T
5046 TTTAAATTTAT
1 TTTAAATTTAT
5057 TTTCAAATTTA
1 TTT-AAATTTA
5068 AAATTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 1 0.03
11 14 0.37
12 19 0.50
13 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:5034 original size:18 final size:17
Alignment explanation
Indices: 5011--5074 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
5001 CCATACTCCC
5011 TTTAAATTTATTTTAAAA
1 TTTAAATTTATTTT-AAA
* **
5029 TTTAAATTTAATTTAGG
1 TTTAAATTTATTTTAAA
5046 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
5064 TTTAAAATTTA
1 TTT-AAATTTA
5075 AAATAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.37
18 17 0.45
19 7 0.18
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:5842 original size:14 final size:14
Alignment explanation
Indices: 5818--5854 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
5808 TTAATGGCAA
5818 TAATA-ATTATTA-
1 TAATATATTATTAT
5830 TAATAGTATTATTAT
1 TAATA-TATTATTAT
5845 TAATATATTA
1 TAATATATTA
5855 ATAATAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
14 12 0.55
15 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
TAATATATTATTAT
Found at i:6990 original size:29 final size:28
Alignment explanation
Indices: 6948--7354 Score: 359
Period size: 29 Copynumber: 13.8 Consensus size: 28
6938 TAAATTGTCC
*
6948 AAAAATCCCATTTTTACCTCCAAACTTCT
1 AAAAATCCAATTTTTACC-CCAAACTTCT
6977 AAAAATCCAATTTTTAACCCCAAAACTTCT
1 AAAAATCCAATTTTT-ACCCC-AAACTTCT
* * *
7007 AAAAATCCAAAATTTAACCCAAAAACTTCT
1 AAAAATCC-AATTTTTACCC-CAAACTTCT
*
7037 AAAAATCCAAATTTTAACCCCAAAACTTCT
1 AAAAATCC-AATTTTTACCCC-AAACTTCT
* *
7067 AAAAATCCCATTTTTACCCTCGAACTTCT
1 AAAAATCCAATTTTTACCC-CAAACTTCT
* *
7096 AAAAAT-CAATTTTTAACCTCAAAACTTCA
1 AAAAATCCAATTTTT-ACC-CCAAACTTCT
* * *
7125 AAAAATCCCATTTTAACCCCTAAGCTTCT
1 AAAAATCCAATTTTTACCCC-AAACTTCT
* *
7154 AAAAATCCAATTTTTAACCTCAAAACTTTT
1 AAAAATCCAATTTTT-ACC-CCAAACTTCT
*
7184 AAAAATCCCATTTTTACCCCCAAACTTCT
1 AAAAATCCAATTTTTA-CCCCAAACTTCT
* * *
7213 AAAAAT-TAATTTTTAACCTCAAAACTTCC
1 AAAAATCCAATTTTT-ACC-CCAAACTTCT
* * * *
7242 AAAAATCCCATTTTTAACCTCGAAGCTTTT
1 AAAAATCCAATTTTT-ACC-CCAAACTTCT
* * *
7272 AAAAATCCCAATTTTAACCCAAAAACTTCC
1 AAAAAT-CCAATTTTTACCC-CAAACTTCT
*
7302 AAAAATCCCATTTTTACCCCTAAACTTCT
1 AAAAATCCAATTTTTACCCC-AAACTTCT
*
7331 AAAAATCCCATTTTTAACCCCAAA
1 AAAAATCCAATTTTT-ACCCCAAA
7355 TTTTCCAAAA
Statistics
Matches: 312, Mismatches: 46, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
28 16 0.05
29 142 0.46
30 141 0.45
31 13 0.04
ACGTcount: A:0.41, C:0.27, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAAATCCAATTTTTACCCCAAACTTCT
Found at i:7363 original size:59 final size:59
Alignment explanation
Indices: 6945--7366 Score: 521
Period size: 59 Copynumber: 7.2 Consensus size: 59
6935 CCCTAAATTG
6945 TCCAAAAATCCCATTTTTACCTCC-AAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
1 TCCAAAAATCCCATTTTTACC-CCTAAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
* * * * ** *
7004 TCTAAAAATCCAAAATTTAACCCAAAAACTTCTAAAAATCCAAATTTTAACCCCAAAACT
1 TCCAAAAATCC-CATTTTTACCCCTAAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
* * *
7064 TCTAAAAATCCCATTTTTA-CCCTCGAACTTCTAAAAAT-CAATTTTTAACCTCAAAACT
1 TCCAAAAATCCCATTTTTACCCCT-AAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
* * * *
7122 TCAAAAAATCCCATTTTAACCCCTAAGCTTCTAAAAATCCAATTTTTAACCTCAAAACT
1 TCCAAAAATCCCATTTTTACCCCTAAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
** * * *
7181 TTTAAAAATCCCATTTTTACCCCCAAACTTCTAAAAAT-TAATTTTTAACCTCAAAACT
1 TCCAAAAATCCCATTTTTACCCCTAAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
* * * * *
7239 TCCAAAAATCCCATTTTTAACCTCGAAGCTTTTAAAAATCCCAA-TTTTAACCCAAAAACT
1 TCCAAAAATCCCATTTTT-ACCCCTAAACTTCTAAAAAT-CCAATTTTTAACCCCAAAACT
* **
7299 TCCAAAAATCCCATTTTTACCCCTAAACTTCTAAAAATCCCATTTTTAACCCCAAATTT
1 TCCAAAAATCCCATTTTTACCCCTAAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
7358 TCCAAAAAT
1 TCCAAAAAT
7367 TATCGTTTCA
Statistics
Matches: 313, Mismatches: 41, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
58 87 0.28
59 140 0.45
60 84 0.27
61 2 0.01
ACGTcount: A:0.41, C:0.27, G:0.01, T:0.31
Consensus pattern (59 bp):
TCCAAAAATCCCATTTTTACCCCTAAACTTCTAAAAATCCAATTTTTAACCCCAAAACT
Found at i:7366 original size:30 final size:30
Alignment explanation
Indices: 6948--7354 Score: 472
Period size: 30 Copynumber: 13.8 Consensus size: 30
6938 TAAATTGTCC
6948 AAAAATCCCATTTTT-ACCTCC-AAACTTCT
1 AAAAATCCCATTTTTAACC-CCAAAACTTCT
*
6977 AAAAATCCAATTTTTAACCCCAAAACTTCT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
* ** *
7007 AAAAATCCAAAATTTAACCCAAAAACTTCT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
* *
7037 AAAAATCCAAATTTTAACCCCAAAACTTCT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
*
7067 AAAAATCCCATTTTT-ACCCTC-GAACTTCT
1 AAAAATCCCATTTTTAACCC-CAAAACTTCT
* * *
7096 AAAAAT-CAATTTTTAACCTCAAAACTTCA
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
* *
7125 AAAAATCCCA-TTTTAACCCCTAAGCTTCT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
* * *
7154 AAAAATCCAATTTTTAACCTCAAAACTTTT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
*
7184 AAAAATCCCATTTTT-ACCCCCAAACTTCT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
** * *
7213 AAAAAT-TAATTTTTAACCTCAAAACTTCC
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
* * * *
7242 AAAAATCCCATTTTTAACCTCGAAGCTTTT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
* * *
7272 AAAAATCCCAATTTTAACCCAAAAACTTCC
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
*
7302 AAAAATCCCATTTTT-ACCCCTAAACTTCT
1 AAAAATCCCATTTTTAACCCCAAAACTTCT
7331 AAAAATCCCATTTTTAACCCCAAA
1 AAAAATCCCATTTTTAACCCCAAA
7355 TTTTCCAAAA
Statistics
Matches: 318, Mismatches: 50, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
28 14 0.04
29 132 0.42
30 172 0.54
ACGTcount: A:0.41, C:0.27, G:0.01, T:0.31
Consensus pattern (30 bp):
AAAAATCCCATTTTTAACCCCAAAACTTCT
Found at i:10554 original size:15 final size:15
Alignment explanation
Indices: 10536--10568 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
10526 AATCAATTAA
10536 ATTCACACCAATATG
1 ATTCACACCAATATG
10551 ATT--CACCAATATG
1 ATTCACACCAATATG
10564 ATTCA
1 ATTCA
10569 GTCAATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 4
0.80 0.00 0.20
Matches are distributed among these distances:
13 13 0.81
15 3 0.19
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (15 bp):
ATTCACACCAATATG
Found at i:10559 original size:13 final size:13
Alignment explanation
Indices: 10541--10568 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10531 ATTAAATTCA
10541 CACCAATATGATT
1 CACCAATATGATT
10554 CACCAATATGATT
1 CACCAATATGATT
10567 CA
1 CA
10569 GTCAATCATA
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:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
CACCAATATGATT
Found at i:11017 original size:16 final size:16
Alignment explanation
Indices: 10996--11028 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10986 TATGTTGTTT
10996 GTTTCATTTAAAAATA
1 GTTTCATTTAAAAATA
11012 GTTTCATTTAAAAATA
1 GTTTCATTTAAAAATA
11028 G
1 G
11029 ACTCATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (16 bp):
GTTTCATTTAAAAATA
Found at i:11037 original size:15 final size:16
Alignment explanation
Indices: 10999--11035 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10989 GTTGTTTGTT
**
10999 TCATTTAAAAATAGTT
1 TCATTTAAAAATAGAC
11015 TCATTTAAAAATAGAC
1 TCATTTAAAAATAGAC
11031 TCATT
1 TCATT
11036 AAGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (16 bp):
TCATTTAAAAATAGAC
Found at i:17467 original size:3 final size:3
Alignment explanation
Indices: 17459--17487 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17449 AATTCATTAC
17459 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
17488 CCTTTCTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:18205 original size:28 final size:28
Alignment explanation
Indices: 18174--18229 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
18164 TCAAAGGAGG
18174 GTTATTCTATATTCTGG-TTCGAAAGAGC
1 GTTATTCTATATTCTGGCTT-GAAAGAGC
* *
18202 GTTATTCTGTATTTTGGCTTGAAAGAGC
1 GTTATTCTATATTCTGGCTTGAAAGAGC
18230 ATTACTCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.41
Consensus pattern (28 bp):
GTTATTCTATATTCTGGCTTGAAAGAGC
Found at i:18238 original size:28 final size:27
Alignment explanation
Indices: 18194--18251 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
18184 ATTCTGGTTC
* *
18194 GAAAGAGCGTTATTCTGTATTTTGGCTT
1 GAAAGAGCATTACTCTGTATTTT-GCTT
*
18222 GAAAGAGCATTACTCTGTGTTTTGCTT
1 GAAAGAGCATTACTCTGTATTTTGCTT
18249 GAA
1 GAA
18252 TAAACCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (27 bp):
GAAAGAGCATTACTCTGTATTTTGCTT
Found at i:18260 original size:28 final size:28
Alignment explanation
Indices: 18207--18260 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
18197 AGAGCGTTAT
* *
18207 TCTGTATTTTGGCTTGAAAGAGCATTAC
1 TCTGTATTTTGGCTTGAAAAACCATTAC
*
18235 TCTGTGTTTT-GCTTGAATAAACCATT
1 TCTGTATTTTGGCTTGAA-AAACCATT
18261 TTTTGAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (28 bp):
TCTGTATTTTGGCTTGAAAAACCATTAC
Found at i:20172 original size:12 final size:12
Alignment explanation
Indices: 20157--20181 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20147 ATTAAAGAAT
20157 TAATAGCATTCA
1 TAATAGCATTCA
20169 TAATAGCATTCA
1 TAATAGCATTCA
20181 T
1 T
20182 CATGATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:23922 original size:9 final size:9
Alignment explanation
Indices: 23905--23935 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23895 CATGTTTGAA
*
23905 GAAGATGAT
1 GAAGGTGAT
23914 GAAGGTGAT
1 GAAGGTGAT
23923 GAAGGTGAT
1 GAAGGTGAT
23932 GAAG
1 GAAG
23936 ATTTTTGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (9 bp):
GAAGGTGAT
Found at i:30204 original size:25 final size:24
Alignment explanation
Indices: 30157--30207 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 24
30147 CGATCAAACG
30157 TGAATAATTAAAAGGAGAATAAAAA
1 TGAATAATTAAAAGGAG-ATAAAAA
30182 TGAATAATTAAATAAGGAG-TAAAAA
1 TGAATAATT-AA-AAGGAGATAAAAA
30207 T
1 T
30208 AACAAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 16 0.67
26 2 0.08
27 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (24 bp):
TGAATAATTAAAAGGAGATAAAAA
Found at i:32148 original size:31 final size:31
Alignment explanation
Indices: 32110--32193 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 31
32100 CACCATATCT
* *
32110 CATGCATATATATACTATATATAATAAAGCC
1 CATGCATATATATACTATATAAAATAAAACC
32141 CATGCATATATAT--TATATAAAATAAAACC
1 CATGCATATATATACTATATAAAATAAAACC
**
32170 CACACATATATATTATCTATATAA
1 CATGCATATATA-TA-CTATATAA
32194 TGAAGTCACT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 24 0.53
30 1 0.02
31 13 0.29
33 7 0.16
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (31 bp):
CATGCATATATATACTATATAAAATAAAACC
Found at i:39442 original size:104 final size:105
Alignment explanation
Indices: 39256--39498 Score: 294
Period size: 104 Copynumber: 2.3 Consensus size: 105
39246 ATAAACGAAG
* * *
39256 AGGTCCGATGACAAAGTGTCATCTTGAGTATATGGATCCTTTACGGATCAAACGATTCAATGACT
1 AGGTCCGATGACTAAGTGTCATCATGAGTATATGGATCCTTTACGGATCAAACGATCCAATGACT
* * *
39321 AATTGTCATCGTGAGTATATGAATCCTTTATGGATTA-AA
66 AATTGTCATCGTGAGTATACGAATCCCTTACGGATTATAA
* * * * *
39360 CGGTCTGATGACTAAGTGTCATCATGAGTATATGGATCCTTTATGGATTAGAA-GGTCCAATGAC
1 AGGTCCGATGACTAAGTGTCATCATGAGTATATGGATCCTTTACGGATCA-AACGATCCAATGAC
* *
39424 T-TTGTGTCATCGTGAGTATACGAATCCCTTGCGGATTATAA
65 TAAT-TGTCATCGTGAGTATACGAATCCCTTACGGATTATAA
* * * *
39465 AGGTCCGGTGGCTATGTGTCATCGTGAGTATATG
1 AGGTCCGATGACTAAGTGTCATCATGAGTATATG
39499 AATGAAGTGA
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
103 1 0.01
104 84 0.72
105 32 0.27
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (105 bp):
AGGTCCGATGACTAAGTGTCATCATGAGTATATGGATCCTTTACGGATCAAACGATCCAATGACT
AATTGTCATCGTGAGTATACGAATCCCTTACGGATTATAA
Found at i:39486 original size:53 final size:53
Alignment explanation
Indices: 39256--39615 Score: 264
Period size: 52 Copynumber: 6.7 Consensus size: 53
39246 ATAAACGAAG
* * * * * * *
39256 AGGTCCGATGACAAAGTGTCATCTTGAGTATATGGATCCTTTACGGATCA-AA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTGCGGATTATAA
* * * * * **
39308 CGATTCAATGACTAAT-TGTCATCGTGAGTATATGAATCCTTTATGGATTA-AA
1 AGGTCCGATGACT-ATGTGTCATCGTGAGTATATGAATCCCTTGCGGATTATAA
* * * * * * ** *
39360 CGGTCTGATGACTAAGTGTCATCATGAGTATATGGATCCTTTATGGATTA-GA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTGCGGATTATAA
* * *
39412 AGGTCCAATGACTTTGTGTCATCGTGAGTATACGAATCCCTTGCGGATTATAA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTGCGGATTATAA
* * *
39465 AGGTCCGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGAAATCCATTGCGGA-T-TAA
1 AGGTCCGATGACTATGTGTCATCGTGAG----T--AT--A-TG-AATCCCTTGCGGATTATAA
* * * *
39526 AGGTCTGATGACTCTGTGTCATCGTGAATATACGAATCCCTTGCGGATTATAA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTGCGGATTATAA
* *
39579 AGGTCCGGTGGCTATGTGTCATCGTGAGTATATGAAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAAT
39616 GAAGTGAAAT
Statistics
Matches: 244, Mismatches: 49, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
51 13 0.05
52 123 0.50
53 61 0.25
55 2 0.01
57 2 0.01
59 2 0.01
61 27 0.11
62 2 0.01
63 12 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (53 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCCTTGCGGATTATAA
Found at i:39546 original size:61 final size:63
Alignment explanation
Indices: 39446--39670 Score: 226
Period size: 61 Copynumber: 3.8 Consensus size: 63
39436 TGAGTATACG
* * *
39446 AATCCCTTGCGGATTATAAAGGTCCGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGA
1 AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATGAAGTGA
* * *
39509 AATCCATTGCGGA-T-TAAAGGTCTGATGACTCTGTGTCATCGT--G-A-AT--AT--A-CG-
1 AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATGAAGTGA
* * *
39560 AATCCCTTGCGGATTATAAAGGTCCGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGA
1 AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATGAAGTGA
* * * * *
39623 AATCCAATACGGATTA-AAA-GTCCGATAACTTTGTGTCATTGTGAGTAT
1 AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAGTAT
39671 CAAATGCGAA
Statistics
Matches: 130, Mismatches: 20, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
51 12 0.09
52 2 0.02
53 25 0.19
55 3 0.02
56 1 0.01
57 4 0.03
58 1 0.01
59 3 0.02
61 49 0.38
62 5 0.04
63 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (63 bp):
AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATGAAGTGA
Found at i:39575 original size:51 final size:53
Alignment explanation
Indices: 39509--39615 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 53
39499 AATGAAGTGA
* *
39509 AATCCATTGCGGA-T-TAAAGGTCTGATGACTCTGTGTCATCGTGAATATACG
1 AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAATATACG
* * * * *
39560 AATCCCTTGCGGATTATAAAGGTCCGGTGGCTATGTGTCATCGTGAGTATATG
1 AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAATATACG
39613 AAT
1 AAT
39616 GAAGTGAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 12 0.26
52 1 0.02
53 34 0.72
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (53 bp):
AATCCATTGCGGATTATAAAGGTCCGATGACTATGTGTCATCGTGAATATACG
Found at i:39611 original size:114 final size:114
Alignment explanation
Indices: 39404--39666 Score: 436
Period size: 114 Copynumber: 2.3 Consensus size: 114
39394 GATCCTTTAT
* *
39404 GGATTAGAAGGTCCAATGACTTTGTGTCATCGTGAGTATACGAATCCCTTGCGGATTATAAAGGT
1 GGATTA-AAGGTCCGATGACTTTGTGTCATCGTGAATATACGAATCCCTTGCGGATTATAAAGGT
* *
39469 CCGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGAAATCCATTGC
65 CCGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGAAATCCAATAC
* *
39519 GGATTAAAGGTCTGATGACTCTGTGTCATCGTGAATATACGAATCCCTTGCGGATTATAAAGGTC
1 GGATTAAAGGTCCGATGACTTTGTGTCATCGTGAATATACGAATCCCTTGCGGATTATAAAGGTC
39584 CGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGAAATCCAATAC
66 CGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGAAATCCAATAC
* * *
39633 GGATTAAAAGTCCGATAACTTTGTGTCATTGTGA
1 GGATTAAAGGTCCGATGACTTTGTGTCATCGTGA
39667 GTATCAAATG
Statistics
Matches: 137, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
114 131 0.96
115 6 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (114 bp):
GGATTAAAGGTCCGATGACTTTGTGTCATCGTGAATATACGAATCCCTTGCGGATTATAAAGGTC
CGGTGGCTATGTGTCATCGTGAGTATATGAATGAAGTGAAATCCAATAC
Found at i:41759 original size:16 final size:16
Alignment explanation
Indices: 41735--41775 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
41725 GATTTACTTG
* *
41735 CATTAACAACTTATTG
1 CATTGACAACTTATTA
*
41751 CGTTGACAACTTATTA
1 CATTGACAACTTATTA
41767 CATTGACAA
1 CATTGACAA
41776 TATTAACTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (16 bp):
CATTGACAACTTATTA
Found at i:42738 original size:23 final size:20
Alignment explanation
Indices: 42711--42765 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 20
42701 TGATATGTAT
42711 TTGATTTGTAATCTTTAGAAGA
1 TTGATTTGTAATC-TTAG-AGA
42733 TATGATTTTGTAATCTTAGAGA
1 T-TGA-TTTGTAATCTTAGAGA
42755 TTGGATTTGTA
1 TT-GATTTGTA
42766 GATAACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 7 0.23
22 7 0.23
23 7 0.23
24 9 0.30
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (20 bp):
TTGATTTGTAATCTTAGAGA
Found at i:47620 original size:148 final size:147
Alignment explanation
Indices: 47353--47644 Score: 469
Period size: 148 Copynumber: 2.0 Consensus size: 147
47343 ATCAGTTACC
* *
47353 AAACTTATGAAATTTTGAACTCATATAGGCTAAAATTCCTTAAATTCCCTAAAAAATTCTAGACC
1 AAACTTATGAAATTCTGAACTCATATAGGCTAAAATTCCTTAAATACCCTAAAAAATTCTAGACC
* *
47418 CAATTTTGGGGTGTGACATTATCAAACAATAAATTATATTCACAAGGAAGAAATGATCGAGCTCT
66 CAATTTTGGGGTGTGACATTATCAAACAATAAAATATATTCAAAAGGAAGAAATGATCGAGCTCT
47483 TGTCACGCCATCTCACT
131 TGTCACGCCATCTCACT
* * *
47500 AAACTTATGAAATTCTGAACTCATATAGGCTAAAATT-CTTCAAAATACCCTCAAAACTTCTAGG
1 AAACTTATGAAATTCTGAACTCATATAGGCTAAAATTCCTT--AAATACCCTAAAAAATTCTAGA
* * *
47564 CTCAATTTTGGGGTGTGACATTATCAAACAGTAAAATATATTCAAAAGGAAGAAATGATCGAGTT
64 CCCAATTTTGGGGTGTGACATTATCAAACAATAAAATATATTCAAAAGGAAGAAATGATCGAGCT
47629 CTTGTCACGCCATCTC
129 CTTGTCACGCCATCTC
47645 GCCTAAGTCT
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
146 3 0.02
147 36 0.27
148 94 0.71
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (147 bp):
AAACTTATGAAATTCTGAACTCATATAGGCTAAAATTCCTTAAATACCCTAAAAAATTCTAGACC
CAATTTTGGGGTGTGACATTATCAAACAATAAAATATATTCAAAAGGAAGAAATGATCGAGCTCT
TGTCACGCCATCTCACT
Found at i:49797 original size:2 final size:2
Alignment explanation
Indices: 49784--49813 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
49774 TTATACAATA
*
49784 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49814 CTTTTTCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:54227 original size:23 final size:23
Alignment explanation
Indices: 54218--54347 Score: 174
Period size: 23 Copynumber: 5.7 Consensus size: 23
54208 TATCGTTCAC
54218 GAACATGTTCGTTTAACGTTCGT
1 GAACATGTTCGTTTAACGTTCGT
54241 GAACATGTTCGTTTAACGTTCGT
1 GAACATGTTCGTTTAACGTTCGT
*
54264 GAACATGTTCGTTTATATGTTCGT
1 GAACATGTTCGTTTA-ACGTTCGT
* *
54288 GAACATGTTTGTTTAATGTTCGTT
1 GAACATGTTCGTTTAACGTTCG-T
* * *
54312 TAAC--GTTCGTTTAACGTTTGC
1 GAACATGTTCGTTTAACGTTCGT
54333 GAACATGTTCGTTTA
1 GAACATGTTCGTTTA
54348 TGCGTTTGCA
Statistics
Matches: 95, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.03
22 13 0.14
23 54 0.57
24 25 0.26
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (23 bp):
GAACATGTTCGTTTAACGTTCGT
Found at i:54240 original size:11 final size:11
Alignment explanation
Indices: 54224--54329 Score: 74
Period size: 11 Copynumber: 9.3 Consensus size: 11
54214 TCACGAACAT
54224 GTTCGTTTAAC
1 GTTCGTTTAAC
*
54235 GTTCG-TGAAC
1 GTTCGTTTAAC
54245 ATGTTCGTTTAAC
1 --GTTCGTTTAAC
*
54258 GTTCG-TGAAC
1 GTTCGTTTAAC
*
54268 ATGTTCGTTTATAT
1 --GTTCGTTTA-AC
*
54282 GTTCG-TGAAC
1 GTTCGTTTAAC
* *
54292 ATGTTTGTTTAAT
1 --GTTCGTTTAAC
54305 GTTCGTTTAAC
1 GTTCGTTTAAC
54316 GTTCGTTTAAC
1 GTTCGTTTAAC
54327 GTT
1 GTT
54330 TGCGAACATG
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
10 9 0.12
11 35 0.48
12 19 0.26
13 9 0.12
14 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (11 bp):
GTTCGTTTAAC
Found at i:54252 original size:12 final size:12
Alignment explanation
Indices: 54218--54296 Score: 67
Period size: 12 Copynumber: 6.8 Consensus size: 12
54208 TATCGTTCAC
54218 GAACATGTTCGTT
1 GAACATGTTCG-T
*
54231 TAAC--GTTCGT
1 GAACATGTTCGT
54241 GAACATGTTCGTT
1 GAACATGTTCG-T
*
54254 TAAC--GTTCGT
1 GAACATGTTCGT
54264 GAACATGTTCGT
1 GAACATGTTCGT
** *
54276 TTATATGTTCGT
1 GAACATGTTCGT
54288 GAACATGTT
1 GAACATGTT
54297 TGTTTAATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
10 8 0.16
11 10 0.20
12 26 0.51
13 7 0.14
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.41
Consensus pattern (12 bp):
GAACATGTTCGT
Found at i:54302 original size:47 final size:46
Alignment explanation
Indices: 54218--54347 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 46
54208 TATCGTTCAC
54218 GAACATGTTCGTTTAACGTTCGTGAACATGTTCGTTTAACGTTCGT
1 GAACATGTTCGTTTAACGTTCGTGAACATGTTCGTTTAACGTTCGT
* * *
54264 GAACATGTTCGTTTATATGTTCGTGAACATGTTTGTTTAATGTTCGTT
1 GAACATGTTCGTTTA-ACGTTCGTGAACATGTTCGTTTAACGTTCG-T
* * *
54312 TAAC--GTTCGTTTAACGTTTGCGAACATGTTCGTTTA
1 GAACATGTTCGTTTAACGTTCGTGAACATGTTCGTTTA
54348 TGCGTTTGCA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 19 0.26
46 24 0.32
47 27 0.36
48 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (46 bp):
GAACATGTTCGTTTAACGTTCGTGAACATGTTCGTTTAACGTTCGT
Found at i:54361 original size:24 final size:24
Alignment explanation
Indices: 54316--54373 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
54306 TTCGTTTAAC
* *
54316 GTTCGTTTA-ACGTTTGCGAACAT
1 GTTCGTTTATGCGTTTGCAAACAT
54339 GTTCGTTTATGCGTTTGCAAACAT
1 GTTCGTTTATGCGTTTGCAAACAT
*
54363 GTTCATTTATG
1 GTTCGTTTATG
54374 TTAACTAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (24 bp):
GTTCGTTTATGCGTTTGCAAACAT
Found at i:58307 original size:11 final size:12
Alignment explanation
Indices: 58278--58324 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
58268 GATGGGTCTA
58278 ATAAACGAGCTT
1 ATAAACGAGCTT
58290 ATAAACGAGCTT
1 ATAAACGAGCTT
58302 -TAAACGAGCTT
1 ATAAACGAGCTT
*
58313 ATAAATGAGCTT
1 ATAAACGAGCTT
58325 TATACAAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
11 11 0.33
12 22 0.67
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:58309 original size:23 final size:23
Alignment explanation
Indices: 58279--58358 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 23
58269 ATGGGTCTAA
*
58279 TAAACGAGCTTATAAACGAGCTT
1 TAAACGAGCTTATAAATGAGCTT
58302 TAAACGAGCTTATAAATGAGCTT
1 TAAACGAGCTTATAAATGAGCTT
* * * * **
58325 TATACAAGCTAATAAATGAACCA
1 TAAACGAGCTTATAAATGAGCTT
58348 TAAACGAGCTT
1 TAAACGAGCTT
58359 GTTCGTGAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.26
Consensus pattern (23 bp):
TAAACGAGCTTATAAATGAGCTT
Found at i:61544 original size:21 final size:20
Alignment explanation
Indices: 61520--61570 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
61510 GTGTTGTCGC
61520 TGCATTTGATTATGGTGTGGA
1 TGCATTTGATT-TGGTGTGGA
* *
61541 TGCATTTGGCTTTGTTGTGGA
1 TGCATTT-GATTTGGTGTGGA
61562 TGCATTTGA
1 TGCATTTGA
61571 GCGTGCTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.16, C:0.08, G:0.31, T:0.45
Consensus pattern (20 bp):
TGCATTTGATTTGGTGTGGA
Found at i:65452 original size:21 final size:21
Alignment explanation
Indices: 65399--65452 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
65389 AATGTCAATC
*
65399 CCATGAATAGTATAGTCAAAT
1 CCATGAATAGTGTAGTCAAAT
* *
65420 CCATGAACAGTGTGGTCAAAT
1 CCATGAATAGTGTAGTCAAAT
*
65441 CTATGAATAGTG
1 CCATGAATAGTG
65453 GTAACATGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (21 bp):
CCATGAATAGTGTAGTCAAAT
Found at i:67694 original size:18 final size:18
Alignment explanation
Indices: 67668--67702 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67658 ATATCATGAT
*
67668 GATTTTGGTGGATTTGGG
1 GATTATGGTGGATTTGGG
*
67686 GATTATGGTGGCTTTGG
1 GATTATGGTGGATTTGG
67703 TGGTGGTGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.03, G:0.43, T:0.43
Consensus pattern (18 bp):
GATTATGGTGGATTTGGG
Found at i:69856 original size:29 final size:29
Alignment explanation
Indices: 69824--69887 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
69814 CCTTAATGCT
* * *
69824 TAAAAATCACTCTTTTCAAATTGGAAAGG
1 TAAAAATCAATCTTTTCAAATTGAAAAGA
* *
69853 TAAAAATCAATTTTTTTAAATTGAAAAGA
1 TAAAAATCAATCTTTTCAAATTGAAAAGA
69882 TAAAAA
1 TAAAAA
69888 GAAAATGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (29 bp):
TAAAAATCAATCTTTTCAAATTGAAAAGA
Found at i:70422 original size:17 final size:18
Alignment explanation
Indices: 70400--70437 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
70390 TTTTTTTAGA
*
70400 TAATT-ACATTTATTTTT
1 TAATTAACAATTATTTTT
*
70417 TAATTAAGAATTATTTTT
1 TAATTAACAATTATTTTT
70435 TAA
1 TAA
70438 ATTTCATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TAATTAACAATTATTTTT
Found at i:71031 original size:20 final size:20
Alignment explanation
Indices: 70999--71037 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
70989 ATTTTAAAAA
70999 AATTTTATTTAAT-CATTTT
1 AATTTTATTTAATACATTTT
*
71018 AATTTTTTTATAATACATTT
1 AATTTTATT-TAATACATTT
71038 AAAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
AATTTTATTTAATACATTTT
Found at i:78285 original size:18 final size:19
Alignment explanation
Indices: 78264--78313 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
78254 ATATGTTTTT
*
78264 TAAAAATTTA-TAAATTTG
1 TAAAAAATTATTAAATTTG
78282 TAAAAAATTATTAAATTT-
1 TAAAAAATTATTAAATTTG
78300 TATAAAAA-TATTAA
1 TA-AAAAATTATTAA
78314 TTAAAGTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAAAATTATTAAATTTG
Found at i:78287 original size:19 final size:20
Alignment explanation
Indices: 78259--78318 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
78249 AAAATATATG
*
78259 TTTTTTAAAAATTTA-TAAA
1 TTTTATAAAAATTTATTAAA
78278 TTTGTA-AAAAA-TTATTAAA
1 TTT-TATAAAAATTTATTAAA
78297 TTTTATAAAAATATTAATTAAA
1 TTTTATAAAAAT-TT-ATTAAA
78319 GTTCAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 5 0.15
19 20 0.59
20 1 0.03
21 2 0.06
22 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TTTTATAAAAATTTATTAAA
Found at i:79420 original size:38 final size:38
Alignment explanation
Indices: 79374--79460 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 38
79364 TTGGTGGCAT
* * **
79374 CATG-GAATGGTTATCTACTGGCTCTATGGAGCAATGC
1 CATGAGAATGGTTATCTACTGGCTCTACGAAGCAACAC
79411 CATGAGAATGGTTATCTACTGGCTCTACGAAGCAACAC
1 CATGAGAATGGTTATCTACTGGCTCTACGAAGCAACAC
*
79449 CATGAAAATGGT
1 CATGAGAATGGT
79461 ATACATGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 4 0.09
38 40 0.91
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (38 bp):
CATGAGAATGGTTATCTACTGGCTCTACGAAGCAACAC
Found at i:79785 original size:68 final size:68
Alignment explanation
Indices: 79671--79878 Score: 281
Period size: 68 Copynumber: 3.1 Consensus size: 68
79661 GTTCATGGGA
* * * *
79671 AAACATGACACCATATTGTGTAAGATCATAGTTGGGTTATGGCAACATATGAAGTCTGCTAGGAC
1 AAACATGACACCATATTGTGTAAGATCATAGTTGGGTTATGACAACATATGAAGTCCGCCAAGAC
*
79736 AGT
66 AAT
* * *
79739 AAACATGGCACCATATTGTGTAAAATCATAGCTGGGTTATGACAACATATGAAGTCCGCCAAGAC
1 AAACATGACACCATATTGTGTAAGATCATAGTTGGGTTATGACAACATATGAAGTCCGCCAAGAC
79804 AAT
66 AAT
* * * * * *
79807 AAACATGACATCATATAGTGTAAGACCATAGTTGGGCTATAATAACATATGAAGTCCGCCAAGAC
1 AAACATGACACCATATTGTGTAAGATCATAGTTGGGTTATGACAACATATGAAGTCCGCCAAGAC
*
79872 AAA
66 AAT
79875 AAAC
1 AAAC
79879 CAGGAAGTCG
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 122 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (68 bp):
AAACATGACACCATATTGTGTAAGATCATAGTTGGGTTATGACAACATATGAAGTCCGCCAAGAC
AAT
Found at i:81533 original size:411 final size:411
Alignment explanation
Indices: 80765--81585 Score: 1378
Period size: 411 Copynumber: 2.0 Consensus size: 411
80755 AAACAAATCA
*
80765 TGTAGATCACTGATGTCGTGTGGGTCAAAACTATAAATATTCAAAAATATGTCATACAACCGTGT
1 TGTAGATCACTGATGTCGTGTGGGTCAAAACTATAAATATTCAAAAATATGTCACACAACCGTGT
* *
80830 CGTTGGATAGTGTAACAGATTATGGCCGTGTGCACTAAAAATCATCCAAAACTTACAAACCACAC
66 CGCTGGATAGTGTAACAGATTATGGCCGTGTGCACTAAAAATCATCCAAAACCTACAAACCACAC
* *
80895 AATTGTGTCTTATGCAGCGTAAGGCACACGATCGTGTGTACCTGAAAATGCCTTTCAATAAAAGT
131 AATTGTGTCTTATGCAGCGTAAGGCACACGACCGTGCGTACCTGAAAATGCCTTTCAATAAAAGT
*
80960 TTTCTAACCTTAAATCACTTATGTCTCGAGTAACCATTAAACCATATCTCAACCAATTTAAAAAC
196 TATCTAACCTTAAATCACTTATGTCTCGAGTAACCATTAAACCATATCTCAACCAATTTAAAAAC
81025 ATCAAAATCATACCAAAAATATCATTTATAACAATCATCCTAAATGCCTAACCAATATGCCATAA
261 ATCAAAATCATACCAAAAATATCATTTATAACAATCATCCTAAATGCCTAACCAATATGCCATAA
* * *
81090 TTGCCACCTTAATTAATAATTCAAAACCAACCAAAAGACCATATTCAATCATACCGATATGCCTT
326 TTGCCACCTCAATCAATAATTCAAAACCAACCAAAAGACCAAATTCAATCATACCGATATGCCTT
81155 CAATGGCACCTCAAAACAACG
391 CAATGGCACCTCAAAACAACG
* * * *
81176 TGTAGCTCACTGATGTCGTGTGGGTCAAAAGTGTAAATATTCAAAAATATGTCACACGACCGTGT
1 TGTAGATCACTGATGTCGTGTGGGTCAAAACTATAAATATTCAAAAATATGTCACACAACCGTGT
* * ** *
81241 CGCTGGATCGTGTAACAGATTGTGGTTGTGTGCACTAAATATCATCCAAAACCTACAAACCACAC
66 CGCTGGATAGTGTAACAGATTATGGCCGTGTGCACTAAAAATCATCCAAAACCTACAAACCACAC
* * * *
81306 AGTTGTGTCTTATGCCA-TGTAAGGCACACGACCGTGCGTACTTGAAAATGCCTTTCAATACAAG
131 AATTGTGTCTTATG-CAGCGTAAGGCACACGACCGTGCGTACCTGAAAATGCCTTTCAATAAAAG
* *
81370 TTATCTAACCTTAAATCACTTA-GCTCTCGAGTTACCATTAAACCATATCTCAACCAGTTTAAAA
195 TTATCTAACCTTAAATCACTTATG-TCTCGAGTAACCATTAAACCATATCTCAACCAATTTAAAA
81434 ACATCAAAATCATACCAAAAATATCATTTATAACAATCATCCTAAATGCCTAACCAATATGCCAC
259 ACATCAAAATCATACCAAAAATATCATTTATAACAATCATCCTAAATGCCTAACCAATATGCCA-
81499 T-ATTGCCACCTCAATCAATAATTCAAAACCAACCAAAAGACCAAATTCAATCATACCGATATGC
323 TAATTGCCACCTCAATCAATAATTCAAAACCAACCAAAAGACCAAATTCAATCATACCGATATGC
81563 CTTCAATGGCACCTCAAAACAAC
388 CTTCAATGGCACCTCAAAACAAC
81586 AAAACAAATA
Statistics
Matches: 383, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
410 1 0.00
411 379 0.99
412 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.27
Consensus pattern (411 bp):
TGTAGATCACTGATGTCGTGTGGGTCAAAACTATAAATATTCAAAAATATGTCACACAACCGTGT
CGCTGGATAGTGTAACAGATTATGGCCGTGTGCACTAAAAATCATCCAAAACCTACAAACCACAC
AATTGTGTCTTATGCAGCGTAAGGCACACGACCGTGCGTACCTGAAAATGCCTTTCAATAAAAGT
TATCTAACCTTAAATCACTTATGTCTCGAGTAACCATTAAACCATATCTCAACCAATTTAAAAAC
ATCAAAATCATACCAAAAATATCATTTATAACAATCATCCTAAATGCCTAACCAATATGCCATAA
TTGCCACCTCAATCAATAATTCAAAACCAACCAAAAGACCAAATTCAATCATACCGATATGCCTT
CAATGGCACCTCAAAACAACG
Found at i:88667 original size:119 final size:119
Alignment explanation
Indices: 88456--88809 Score: 672
Period size: 119 Copynumber: 3.0 Consensus size: 119
88446 ATATAATAAA
88456 AAAAGATATGGAAGGTTAGTTCACTCTTTCTCTAAGGTTTTACCCGGATTGAAACATACTCTAAA
1 AAAAGATATGGAAGGTTAGTTCACTCTTTCTCTAAGGTTTTACCCGGATTGAAACATACTCTAAA
88521 ATATCAAAATTTCCTCCCAACCATAGTTCCAAGAAGACAACTTTAATCTTATAT
66 ATATCAAAATTTCCTCCCAACCATAGTTCCAAGAAGACAACTTTAATCTTATAT
*
88575 AAAAGATATGGAAGGTTAGTTCACTCTTTCTCTAAGGTTTTACCCGGATTGAAACATACTCTAAG
1 AAAAGATATGGAAGGTTAGTTCACTCTTTCTCTAAGGTTTTACCCGGATTGAAACATACTCTAAA
*
88640 ATATCAAAATTTCCTTCCAACCATAGTTCCAAGAAGACAACTTTAATCTTATAT
66 ATATCAAAATTTCCTCCCAACCATAGTTCCAAGAAGACAACTTTAATCTTATAT
*
88694 AAAAGATATGGAAGGTTGGTTCACTCTTTCTCTAAGGTTTTACCCGGATTGAAACATACTCTAAA
1 AAAAGATATGGAAGGTTAGTTCACTCTTTCTCTAAGGTTTTACCCGGATTGAAACATACTCTAAA
*
88759 ATATCAAAATTTCCTCCCAACCATAATTCCAAGAAGACAACTTTAATCTTA
66 ATATCAAAATTTCCTCCCAACCATAGTTCCAAGAAGACAACTTTAATCTTA
88810 AGAGTATCTA
Statistics
Matches: 229, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 229 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (119 bp):
AAAAGATATGGAAGGTTAGTTCACTCTTTCTCTAAGGTTTTACCCGGATTGAAACATACTCTAAA
ATATCAAAATTTCCTCCCAACCATAGTTCCAAGAAGACAACTTTAATCTTATAT
Found at i:89471 original size:16 final size:16
Alignment explanation
Indices: 89440--89473 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
89430 ACCTTGACCT
**
89440 AATTAAAATTGTAAAA
1 AATTAAAATTAAAAAA
89456 AATTAAAATTAAAAAA
1 AATTAAAATTAAAAAA
89472 AA
1 AA
89474 ACAATTACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AATTAAAATTAAAAAA
Found at i:98570 original size:20 final size:21
Alignment explanation
Indices: 98533--98572 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
98523 AATCAAATCT
98533 ATTTTTATTTAATTTATGATTA
1 ATTTTTATTT-ATTTATGATTA
98555 ATTTTTATTT-TTTATGAT
1 ATTTTTATTTATTTATGAT
98573 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
ATTTTTATTTATTTATGATTA
Found at i:107753 original size:18 final size:18
Alignment explanation
Indices: 107730--107781 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
107720 TTTTCAATTG
107730 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
107748 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
107766 TAATTAA--AAAATTATT
1 TAATTAATTAAAATTATT
107782 CTCATCGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
18 16 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:108929 original size:29 final size:30
Alignment explanation
Indices: 108897--108955 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
108887 TATGATTTAA
* *
108897 TGTGCAATTATATACA-CAAATTTTGATTT
1 TGTGCAATTATATAAATAAAATTTTGATTT
* *
108926 TGTGTAATTTTATAAATAAAATTTTGATTT
1 TGTGCAATTATATAAATAAAATTTTGATTT
108956 GATCCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (30 bp):
TGTGCAATTATATAAATAAAATTTTGATTT
Found at i:109260 original size:31 final size:31
Alignment explanation
Indices: 109225--109303 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
109215 TTAATATAAC
*
109225 ATTTGATACTTAAACTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
* * *
109256 ATTTGGTACCTAAACTTGTCACTTTTTTTTA
1 ATTTGGTACTTAAACTTGACACTTTTTCTTA
*
109287 AGTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
109304 TTTGGAGTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTGACACTTTTTCTTA
Found at i:109749 original size:18 final size:18
Alignment explanation
Indices: 109726--109768 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
109716 TTTTCAATTG
109726 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
109744 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
109762 TAATTAA
1 TAATTAA
109769 AAATTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:110328 original size:20 final size:21
Alignment explanation
Indices: 110290--110333 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
110280 AAAAAAACTT
110290 AAATTTCTAAAACAATTCATTA
1 AAATTTCTAAAACAATTCA-TA
110312 AAATTTC-AAAA-AATTCATA
1 AAATTTCTAAAACAATTCATA
110331 AAA
1 AAA
110334 AAATATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 6 0.27
21 4 0.18
22 7 0.32
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATTTCTAAAACAATTCATA
Found at i:110337 original size:22 final size:22
Alignment explanation
Indices: 110290--110334 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
110280 AAAAAAACTT
*
110290 AAATTTCTAAAACAATTCATTA
1 AAATTTCTAAAACAATTCATAA
110312 AAATTTC-AAAA-AATTCATAA
1 AAATTTCTAAAACAATTCATAA
110332 AAA
1 AAA
110335 AATATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 4 0.18
22 7 0.32
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATTTCTAAAACAATTCATAA
Found at i:110624 original size:19 final size:20
Alignment explanation
Indices: 110591--110634 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
110581 AATTGTATGG
*
110591 ATTTTTTACATTTTTAATGA
1 ATTTTTTACATTTTTAAGGA
*
110611 ATTTTTTATA-TTTTAAGGA
1 ATTTTTTACATTTTTAAGGA
110630 ATTTT
1 ATTTT
110635 GAGTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (20 bp):
ATTTTTTACATTTTTAAGGA
Found at i:110953 original size:29 final size:30
Alignment explanation
Indices: 110916--110974 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
110906 TATGGTTTAA
* *
110916 TGTGTAATTGTATATATG-AATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
*
110945 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
110975 GATCTAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:111279 original size:31 final size:31
Alignment explanation
Indices: 111241--111376 Score: 138
Period size: 31 Copynumber: 4.4 Consensus size: 31
111231 TTAATATAAT
111241 ATTTGGTACCTAAACTTGACATTTTTTCTTA
1 ATTTGGTACCTAAACTTGACATTTTTTCTTA
* *
111272 ATTTGGTACCTAAACTT---TTTTTTTGGTTAA
1 ATTTGGTACCTAAACTTGACATTTTTT-CTT-A
*
111302 ATTTGGTA-CTCAAACTTGACACTTTTTCTTA
1 ATTTGGTACCT-AAACTTGACATTTTTTCTTA
* * * *
111333 ATTTGGTTCCTGAACTTTAC-TCTTTTTCCTA
1 ATTTGGTACCTAAACTTGACAT-TTTTTCTTA
111364 ATTTGGTACCTAA
1 ATTTGGTACCTAA
111377 TCTTTTTTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
28 6 0.07
29 4 0.05
30 15 0.18
31 51 0.60
32 4 0.05
33 5 0.06
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACATTTTTTCTTA
Found at i:115485 original size:22 final size:23
Alignment explanation
Indices: 115451--115493 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
115441 CACGGGGGGC
115451 AAAATGGTAATTTTTGAAAGTAA
1 AAAATGGTAATTTTTGAAAGTAA
* *
115474 AAAATGG-GATTTTTGGAAGT
1 AAAATGGTAATTTTTGAAAGT
115494 TCGGGAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (23 bp):
AAAATGGTAATTTTTGAAAGTAA
Found at i:115514 original size:29 final size:29
Alignment explanation
Indices: 115473--115725 Score: 291
Period size: 29 Copynumber: 8.6 Consensus size: 29
115463 TTTGAAAGTA
*
115473 AAAAATGGGATTTTTGGAAG-TTCGGGAGT
1 AAAAATGGAATTTTTGGAAGTTTCGGG-GT
* *
115502 AAAAATGGAATTTTTAGAAGTTTTGGGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
*
115531 CAAAAAT-GAGATTTTTAGAAG-TTCGGGGGT
1 -AAAAATGGA-ATTTTTGGAAGTTTC-GGGGT
*
115561 AAAAATGGAATTTTTGGAAGTTTTGGGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
* * *
115590 TAAAATGGGATTTTTAGAAGTTT-GAGGGT
1 AAAAATGGAATTTTTGGAAGTTTCG-GGGT
*
115619 AAAAATGGAATTTTTGGAAGTTTTGGGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
* *
115648 CAAAAATGGGATTTTTGGAAG-TTCGAGCGT
1 -AAAAATGGAATTTTTGGAAGTTTCG-GGGT
*
115678 AAAAATGGAATTTTTGGAAGTTTCGAGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
115707 CAAAAATGGAATTTTTGGA
1 -AAAAATGGAATTTTTGGA
115726 CACTTTAAGG
Statistics
Matches: 194, Mismatches: 18, Indels: 23
0.83 0.08 0.10
Matches are distributed among these distances:
28 1 0.01
29 117 0.60
30 76 0.39
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTTCGGGGT
Found at i:115621 original size:117 final size:117
Alignment explanation
Indices: 115474--115700 Score: 375
Period size: 117 Copynumber: 1.9 Consensus size: 117
115464 TTGAAAGTAA
*
115474 AAAATGGGATTTTTGGAAGTTCGGGAGTAAAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAATG
1 AAAATGGGATTTTTAGAAGTTCGGGAGTAAAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAATG
* *
115539 AGATTTTTAGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTT
66 AGATTTTTAGAAGTTCGAGCGTAAAAATGGAATTTTTGGAAGTTTTGGGGTT
* *
115591 AAAATGGGATTTTTAGAAGTTTGAGG-GTAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAAT
1 AAAATGGGATTTTTAGAAGTTCG-GGAGTAAAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAAT
* *
115655 GGGATTTTTGGAAGTTCGAGCGTAAAAATGGAATTTTTGGAAGTTT
65 GAGATTTTTAGAAGTTCGAGCGTAAAAATGGAATTTTTGGAAGTTT
115701 CGAGGTCAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 100 0.98
118 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (117 bp):
AAAATGGGATTTTTAGAAGTTCGGGAGTAAAAATGGAATTTTTAGAAGTTTTGGGGTCAAAAATG
AGATTTTTAGAAGTTCGAGCGTAAAAATGGAATTTTTGGAAGTTTTGGGGTT
Found at i:115723 original size:59 final size:59
Alignment explanation
Indices: 115473--115725 Score: 384
Period size: 59 Copynumber: 4.3 Consensus size: 59
115463 TTTGAAAGTA
*
115473 AAAAATGGGATTTTTGGAAGTTCG-GGAGTAAAAATGGAATTTTTAGAAGTTTTGGGGTC
1 AAAAATGGGATTTTTGGAAGTTCGAGG-GTAAAAATGGAATTTTTGGAAGTTTTGGGGTC
* * *
115532 AAAAATGAGATTTTTAGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGT-
1 AAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTC
* * *
115590 TAAAATGGGATTTTTAGAAGTTTGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTC
* * *
115649 AAAAATGGGATTTTTGGAAGTTCGAGCGTAAAAATGGAATTTTTGGAAGTTTCGAGGTC
1 AAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTC
*
115708 AAAAATGGAATTTTTGGA
1 AAAAATGGGATTTTTGGA
115726 CACTTTAAGG
Statistics
Matches: 178, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
58 54 0.30
59 122 0.69
60 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (59 bp):
AAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTC
Found at i:117521 original size:24 final size:23
Alignment explanation
Indices: 117494--117538 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
117484 GTACTTGGAC
117494 ATTTAAAATAAATTTTAAATTTAA
1 ATTTAAAATAAA-TTTAAATTTAA
*
117518 ATTTATAATAAATTTAAATTT
1 ATTTAAAATAAATTTAAATTT
117539 CAACCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAAAATAAATTTAAATTTAA
Found at i:117529 original size:17 final size:17
Alignment explanation
Indices: 117509--117591 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 17
117499 AAATAAATTT
117509 TAAATTTAAATTTATAA
1 TAAATTTAAATTTATAA
*
117526 TAAATTTAAATTTCA-AC
1 TAAATTTAAATTT-ATAA
* *
117543 CAAATTTAAATTTAGAA
1 TAAATTTAAATTTATAA
* * *
117560 TAAAGTTAATTTTAAAA
1 TAAATTTAAATTTATAA
*
117577 TAAATTTAAGTTTAT
1 TAAATTTAAATTTAT
117592 TGGGCCTAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 1 0.02
17 52 0.96
18 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:117550 original size:34 final size:34
Alignment explanation
Indices: 117510--117591 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
117500 AATAAATTTT
* * *
117510 AAATTTAAATTTATAATAAATTTAAATTTCAACC
1 AAATTTAAATTTATAATAAAGTTAAATTTAAAAC
* * *
117544 AAATTTAAATTTAGAATAAAGTTAATTTTAAAAT
1 AAATTTAAATTTATAATAAAGTTAAATTTAAAAC
*
117578 AAATTTAAGTTTAT
1 AAATTTAAATTTAT
117592 TGGGCCTAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (34 bp):
AAATTTAAATTTATAATAAAGTTAAATTTAAAAC
Found at i:119340 original size:29 final size:30
Alignment explanation
Indices: 119294--119372 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
119284 TGTGAACCAC
* *
119294 AATTAAAAATTCAAGTATATAATTG-CATCA
1 AATT-AAAGTTCATGTATATAATTGACATCA
*
119324 AATTAAAGTTCATGTATATAATTGCACATTA
1 AATTAAAGTTCATGTATATAATTG-ACATCA
* *
119355 AATCAATGTTCATGTATA
1 AATTAAAGTTCATGTATA
119373 ATATTGAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.43
30 4 0.10
31 20 0.48
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (30 bp):
AATTAAAGTTCATGTATATAATTGACATCA
Found at i:123474 original size:34 final size:37
Alignment explanation
Indices: 123433--123520 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 37
123423 ATTCTACAAA
123433 TAATTATTTAATTATTAAAAACAA-T-A-CAAATATT
1 TAATTATTTAATTATTAAAAACAACTAATCAAATATT
* *
123467 TAATTATTTAATTATTAAAAATAACTTAATTAAATATT
1 TAATTATTTAATTATTAAAAACAAC-TAATCAAATATT
*
123505 TAAATATTTAATTATT
1 TAATTATTTAATTATT
123521 TAATTTATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
34 23 0.49
36 1 0.02
37 1 0.02
38 22 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (37 bp):
TAATTATTTAATTATTAAAAACAACTAATCAAATATT
Found at i:123476 original size:8 final size:8
Alignment explanation
Indices: 123463--123534 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
123453 ACAATACAAA
123463 TATTTAAT
1 TATTTAAT
123471 TATTTAAT
1 TATTTAAT
123479 TA-TTAA-
1 TATTTAAT
**
123485 -AAATAACT
1 TATTTAA-T
* *
123493 TAATTAAA
1 TATTTAAT
*
123501 TATTTAAA
1 TATTTAAT
123509 TATTTAAT
1 TATTTAAT
123517 TATTTAAT
1 TATTTAAT
123525 T-TATTAAT
1 TAT-TTAAT
123533 TA
1 TA
123535 AATATTTCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
5 1 0.02
6 3 0.06
7 5 0.09
8 39 0.74
9 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTTAAT
Found at i:123513 original size:38 final size:37
Alignment explanation
Indices: 123437--123596 Score: 120
Period size: 38 Copynumber: 4.5 Consensus size: 37
123427 TACAAATAAT
* * *
123437 TATTTAATTATTAAAAACAA-T-A-CAAATATTTAAT
1 TATTTAATTATTAAAAATAATTAATTAAATATTTAAA
123471 TATTTAATTATTAAAAATAACTTAATTAAATATTTAAA
1 TATTTAATTATTAAAAATAA-TTAATTAAATATTTAAA
* * * * *
123509 TATTTAATTATT-TAATTTATTAATTAAATATTTCAT
1 TATTTAATTATTAAAAATAATTAATTAAATATTTAAA
* * ** *
123545 TA-TTAA--A-AAACCAAATATTTAATTATTTAATTAAA
1 TATTTAATTATTAA--AAATAATTAATTAAATATTTAAA
123580 TATTTAATTATTAAAAA
1 TATTTAATTATTAAAAA
123597 ACTCACCAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
33 1 0.01
34 19 0.20
35 21 0.22
36 22 0.23
37 8 0.08
38 23 0.24
39 2 0.02
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (37 bp):
TATTTAATTATTAAAAATAATTAATTAAATATTTAAA
Found at i:123520 original size:16 final size:16
Alignment explanation
Indices: 123463--123548 Score: 52
Period size: 16 Copynumber: 5.2 Consensus size: 16
123453 ACAATACAAA
*
123463 TATTTAATTATTTAAT
1 TATTTAAATATTTAAT
*
123479 TA-TTAAA-A-ATAACT
1 TATTTAAATATTTAA-T
* *
123493 TAATTAAATATTTAAA
1 TATTTAAATATTTAAT
*
123509 TATTTAATTATTTAATT
1 TATTTAAATATTTAA-T
*
123526 TATTAATTAAATATTTCAT
1 TA-T--TTAAATATTTAAT
123545 TATT
1 TATT
123549 AAAAAACCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
13 3 0.06
14 4 0.08
15 9 0.17
16 17 0.32
17 5 0.09
18 2 0.04
19 3 0.06
20 10 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTAAATATTTAAT
Found at i:123550 original size:51 final size:47
Alignment explanation
Indices: 123459--123576 Score: 132
Period size: 51 Copynumber: 2.4 Consensus size: 47
123449 AAAAACAATA
* **
123459 CAAATATTTAATTATTTAA-TTATTAAAAATAACTTAATTAAATATT
1 CAAATATTTAATTATTTAATTTATTAAAAATAACTTAATTAAAAAAC
* *
123505 TAAATATTTAATTATTTAATTTATTAATTAAAT-ATTTCATTATTAAAAAAC
1 CAAATATTTAATTATTTAATTTATTAA--AAATAACTT-A--ATTAAAAAAC
123556 CAAATATTTAATTATTTAATT
1 CAAATATTTAATTATTTAATT
123577 AAATATTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
46 18 0.30
47 7 0.12
48 3 0.05
49 5 0.08
51 27 0.45
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.48
Consensus pattern (47 bp):
CAAATATTTAATTATTTAATTTATTAAAAATAACTTAATTAAAAAAC
Found at i:123565 original size:43 final size:43
Alignment explanation
Indices: 123517--123716 Score: 192
Period size: 43 Copynumber: 4.4 Consensus size: 43
123507 AATATTTAAT
*
123517 TATTTAATTTATTAATTAAATATTTCATTATT-AAAAAACCAAA
1 TATTTAA-TTATTAATTAAATATTTAATTATTAAAAAAACCAAA
123560 TATTTAATTATTTAATTAAATATTTAATTATTAAAAAACTCACCAAA
1 TATTTAATTA-TTAATTAAATATTTAATTATTAAAAAA---ACCAAA
* *
123607 TATTCAATTA-T--TTAATTATTTAATTATTAAAAACAACCTAAA
1 TATTTAATTATTAATTAAATATTTAATTATTAAAAA-AACC-AAA
*
123649 TATTTAATTTATTAATTATTTAATTGTTTAATTATTAAAAACAACTCAAA
1 TATTTAA-TTATTAATTA---AA-TATTTAATTATTAAAAA-AAC-CAAA
*
123699 TATTTAAATATTTAATTA
1 TATTTAATTA-TTAATTA
123717 TTTAAATAGT
Statistics
Matches: 133, Mismatches: 7, Indels: 27
0.80 0.04 0.16
Matches are distributed among these distances:
41 3 0.02
42 12 0.09
43 51 0.38
44 7 0.05
45 1 0.01
46 3 0.02
47 15 0.11
49 3 0.02
50 37 0.28
51 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.46
Consensus pattern (43 bp):
TATTTAATTATTAATTAAATATTTAATTATTAAAAAAACCAAA
Found at i:123623 original size:8 final size:8
Alignment explanation
Indices: 123607--123684 Score: 50
Period size: 8 Copynumber: 9.5 Consensus size: 8
123597 ACTCACCAAA
*
123607 TATTCAAT
1 TATTTAAT
123615 TATTTAAT
1 TATTTAAT
123623 TATTTAAT
1 TATTTAAT
* *
123631 TATTAAAAAC
1 TATT--TAAT
* ** *
123641 AACCTAAA
1 TATTTAAT
123649 TATTTAAT
1 TATTTAAT
123657 T-TATTAAT
1 TAT-TTAAT
123665 TATTTAAT
1 TATTTAAT
*
123673 TGTTTAAT
1 TATTTAAT
123681 TATT
1 TATT
123685 AAAAACAACT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
7 1 0.02
8 47 0.90
9 1 0.02
10 3 0.06
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (8 bp):
TATTTAAT
Found at i:123652 original size:42 final size:41
Alignment explanation
Indices: 123523--123862 Score: 174
Period size: 42 Copynumber: 7.7 Consensus size: 41
123513 TAATTATTTA
* * *
123523 ATTT-ATTAATTAAATATTTCATTATT-AAAA-AACCAAAT
1 ATTTAATTATTTAATTATTTAATTATTAAAAACAACCAAAT
*
123561 ATTTAATTATTTAATTAAATATTTAATTATTAAAAAACTCACCAAAT
1 ATTTAATTATTTAA-T---TATTTAATTATT-AAAAAC-AACCAAAT
*
123608 ATTCAATTATTTAATTATTTAATTATTAAAAACAACCTAAATATTT
1 ATTTAATTATTTAATTATTTAATTATTAAAAACAACC--AA-A--T
*
123654 AATTTATTAATTATTTAATTGTTTAATTATTAAAAACAACTCAAAT
1 -A--T-TTAATTATTTAATTATTTAATTATTAAAAACAAC-CAAAT
* *
123700 ATTTAAATATTTAATTATTTAAATAGTTATTTATTAAACCCTAAACCTAAAT
1 ATTTAATTATTTAATTATTT--A-A-TTA-TTA--AAA-AC--AACC-AAAT
*** **
123752 ATTTAATTCAAAATATTTAATTATTTAATTA-T-ATTTC-GGCAAAT
1 ATTTAA-T-----TATTTAATTATTTAATTATTAAAAACAACCAAAT
*
123796 ATTTAATTATTTAATTAGTTAATTATTAAAAACAACCCAAAT
1 ATTTAATTATTTAATTATTTAATTATTAAAAACAA-CCAAAT
* *
123838 ATTTAA-T-TTAAAATATTTAATTATT
1 ATTTAATTATTTAATTATTTAATTATT
123863 TAATTATTTG
Statistics
Matches: 236, Mismatches: 26, Indels: 78
0.69 0.08 0.23
Matches are distributed among these distances:
38 21 0.09
39 9 0.04
40 17 0.07
41 4 0.02
42 33 0.14
43 27 0.11
44 12 0.05
45 7 0.03
46 6 0.03
47 24 0.10
48 2 0.01
49 7 0.03
50 33 0.14
51 2 0.01
52 14 0.06
54 3 0.01
55 1 0.00
56 1 0.00
58 13 0.06
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (41 bp):
ATTTAATTATTTAATTATTTAATTATTAAAAACAACCAAAT
Found at i:123680 original size:50 final size:50
Alignment explanation
Indices: 123607--123870 Score: 204
Period size: 50 Copynumber: 5.5 Consensus size: 50
123597 ACTCACCAAA
123607 TATTCAATTATTTAATTATTTAATTATTAAAAACAACCTAAATATTTAATT
1 TATT-AATTATTTAATTATTTAATTATTAAAAACAACCTAAATATTTAATT
* *
123658 TATTAATTATTTAATTGTTTAATTATTAAAAACAA-CTCAAATATTTAA-A
1 TATTAATTATTTAATTATTTAATTATTAAAAACAACCT-AAATATTTAATT
* * * **
123707 TATTTAATTATTTAAATAGTTATTTATTAAACCCTAAACCTAAATATTTAATT
1 TA-TTAATTATTTAATTATTTAATTATTAAAAAC--AACCTAAATATTTAATT
* * *** **
123760 CA--AAATATTTAATTATTTAATTA-T-ATTTC-GGC--AA-A--T-A--
1 TATTAATTATTTAATTATTTAATTATTAAAAACAACCTAAATATTTAATT
* *
123797 T-TTAATTATTTAATTAGTTAATTATTAAAAACAACCCAAATATTTAATT
1 TATTAATTATTTAATTATTTAATTATTAAAAACAACCTAAATATTTAATT
*
123846 TA--AAATATTTAATTATTTAATTATT
1 TATTAATTATTTAATTATTTAATTATT
123871 TGCAACTATG
Statistics
Matches: 164, Mismatches: 29, Indels: 43
0.69 0.12 0.18
Matches are distributed among these distances:
38 19 0.12
39 2 0.01
40 3 0.02
41 1 0.01
42 1 0.01
43 4 0.02
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 23 0.14
49 6 0.04
50 82 0.50
51 4 0.02
52 12 0.07
53 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (50 bp):
TATTAATTATTTAATTATTTAATTATTAAAAACAACCTAAATATTTAATT
Found at i:123720 original size:16 final size:16
Alignment explanation
Indices: 123604--123734 Score: 57
Period size: 16 Copynumber: 7.9 Consensus size: 16
123594 AAAACTCACC
*
123604 AAATATTCAATTATTT
1 AAATATTTAATTATTT
* *
123620 AATTATTTAATTATTAA
1 AAATATTTAATTATT-T
* ** *
123637 AAACAACCTAAATATTT
1 AAA-TATTTAATTATTT
*
123654 -AATTTATTAATTATTT
1 AAATAT-TTAATTATTT
* * *
123670 AATTGTTTAATTATTAA
1 AAATATTTAATTATT-T
* * * *
123687 AAACAACTCAAATATTT
1 AAA-TATTTAATTATTT
123704 AAATATTTAATTATTT
1 AAATATTTAATTATTT
* *
123720 AAATAGTTATTTATT
1 AAATATTTAATTATT
123735 AAACCCTAAA
Statistics
Matches: 79, Mismatches: 30, Indels: 12
0.65 0.25 0.10
Matches are distributed among these distances:
16 54 0.68
17 10 0.13
18 15 0.19
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
AAATATTTAATTATTT
Found at i:123866 original size:86 final size:87
Alignment explanation
Indices: 123704--123869 Score: 262
Period size: 86 Copynumber: 1.9 Consensus size: 87
123694 TCAAATATTT
* ** *
123704 AAATATTTAATTATTTAAATAGTTATTTATTAAACCCTAAACCTAAATATTTAATTCAAAATATT
1 AAATATTTAATTATTTAAATAGTTAATTATTAAAAAC-AAACCCAAATATTTAATTCAAAATATT
123769 TAATTATTTAATTATATTTCGGC
65 TAATTATTTAATTATATTTCGGC
* *
123792 AAATATTTAATTATTTAATTAGTTAATTATTAAAAAC-AACCCAAATATTTAATTTAAAATATTT
1 AAATATTTAATTATTTAAATAGTTAATTATTAAAAACAAACCCAAATATTTAATTCAAAATATTT
123856 AATTATTTAATTAT
66 AATTATTTAATTAT
123870 TTGCAACTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
86 39 0.54
88 33 0.46
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (87 bp):
AAATATTTAATTATTTAAATAGTTAATTATTAAAAACAAACCCAAATATTTAATTCAAAATATTT
AATTATTTAATTATATTTCGGC
Found at i:125688 original size:51 final size:51
Alignment explanation
Indices: 125632--125861 Score: 316
Period size: 51 Copynumber: 4.5 Consensus size: 51
125622 TCTGATGAAT
* *
125632 GTAAGTGTTATCGTGAGTAAATGAATCCCTTACGCATTAAAGGTCCGATGA
1 GTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGA
* *
125683 GTAAGTGTCATCGTGAGGAAATGAATCCCTTACGGATTAAAGGTTCGATGA
1 GTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGA
* * * *
125734 CTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGATCTGATGA
1 GTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGA
* * * * * *
125785 CTAAGTGTCATCGTGAGTAAATGAATCCATGATGAATTAAAGGTCTGATGA
1 GTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGA
* *
125836 GTTAGTGTCATCGTGAGTATATGAAT
1 GTAAGTGTCATCGTGAGTAAATGAAT
125862 TCTTATACGG
Statistics
Matches: 161, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 161 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTCCGATGA
Found at i:133293 original size:51 final size:51
Alignment explanation
Indices: 133217--133447 Score: 329
Period size: 51 Copynumber: 4.5 Consensus size: 51
133207 CGAAAGAGTT
133217 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTC
*
133268 CGATGATTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTC
* * * * *
133319 CAATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTATGGATTAAAGGTT
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTC
* * * **
133370 CGATGACTAAGTGTCATAGTGAGTATATGAATTCCTATACGGAACAAAGGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCCT-TACGGATTAAA-GGTC
133423 CGATGACTATA-TGTCATCGTGAGTA
1 CGATGACTA-AGTGTCATCGTGAGTA
133448 TTAAATGAAA
Statistics
Matches: 159, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
51 125 0.79
52 8 0.05
53 25 0.16
54 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
CGATGACTAAGTGTCATCGTGAGTAAATGAATCCCTTACGGATTAAAGGTC
Found at i:139870 original size:43 final size:43
Alignment explanation
Indices: 139815--139950 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 43
139805 CTGTTAATGT
* ** *
139815 TAGCGGCGTTTGTGGGAAAAACGTTGCTAAAGAGCATGTTCTA
1 TAGCGGCATTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTA
* * * *
139858 TAGCGGCATTTGTGAGAAAAATGCCGCTAAAGATCATGTTCTT
1 TAGCGGCATTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTA
* * * *
139901 TAGTGGCTTTTGT-GCAAAAAGCGCCACTAAAGACCATGTTCTA
1 TAGCGGCATTTGTGGGAAAAA-CGCCGCTAAAGACCATGTTCTA
139944 TAGCGGC
1 TAGCGGC
139951 GTTTTTCCTC
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 5 0.07
43 71 0.93
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
TAGCGGCATTTGTGGGAAAAACGCCGCTAAAGACCATGTTCTA
Found at i:142895 original size:19 final size:20
Alignment explanation
Indices: 142871--142910 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
142861 CATTTAAAGG
142871 AAAAAGTTT-AAATTTTTTA
1 AAAAAGTTTAAAATTTTTTA
142890 AAAAAGTTTAAAATTTTTTA
1 AAAAAGTTTAAAATTTTTTA
142910 A
1 A
142911 CTTTTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAAAGTTTAAAATTTTTTA
Found at i:143265 original size:148 final size:146
Alignment explanation
Indices: 142838--143433 Score: 671
Period size: 141 Copynumber: 4.1 Consensus size: 146
142828 TTTTTAAAAA
* *
142838 AAAAATAAAAA-ATGTTTTTTAGTCA-TTTAAAGGAAAAAGTTTAAATTTTTTAAA-AAAGTTTA
1 AAAAATAAAAATCTGTTTTTTAATCATTTTAAAGGAAAAAGTTTAAA-TTTTTAAATAAA-TTT-
** * ** * *
142900 AAATTTTTTAACTTTTTTTGAAATAAAAATTCTGATTTTTAAGAAAAGTAGTGAGTTTTTTTTTT
63 TTATTTTTTAAC-TATTTCAAAATAAAAATTTTGATTTTTAAGAAAAATAGTGA-------TTTT
* *
142965 AAATAAAAAAAGAAATTTTAGATTTTT
120 AAAAAAAAAAAGAAAATTTAGATTTTT
* * *
142992 AAAAATAAAAATCTG-TTTTTAGTCCTTATAAAGGAAAAAGTTTAAATTTTTAAATAAATTTTTG
1 AAAAATAAAAATCTGTTTTTTAATCATTTTAAAGGAAAAAGTTTAAATTTTTAAATAAATTTTT-
* *
143056 ATTTTTTAACTATTTCAAAATAAAAGTTTTGATTTTT-AGAAAAATAGTGATTTAAAAAAAAAAA
65 ATTTTTTAACTATTTCAAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTT-TAAAAAAAAA
143120 AAGAAAATTTAGATTTTT
129 AAGAAAATTTAGATTTTT
*
143138 AAAAATAAAAATGTGTTTTTTAATCATTTTAAAGGAAAAAAGTTTAAATTTTTAAATAAATTTTT
1 AAAAATAAAAATCTGTTTTTTAATCATTTTAAAGG-AAAAAGTTTAAATTTTTAAATAAATTTTT
* * *
143203 ATTTTTTAACTATTTCGAAATAAAAACTTTGATTTTTAAGAAAAATAATGA-TTT-AAAAAAAAA
65 ATTTTTTAACTATTTCAAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTAAAAAAAAAA
* *
143266 AG----TTTAAAATTTT
130 AGAAAATTTAGATTTTT
*
143279 AAAAATAAAAATCTGTTTTTTTAATCATTTT-AAGGAGAAAAGTTTAAATTTTTAAATAAAGTTT
1 AAAAATAAAAATCTG-TTTTTTAATCATTTTAAAGGA-AAAAGTTTAAATTTTTAAATAAATTTT
* * * * **
143343 GATTTTTTAACTATTTCAAAATAAAATTTTTGATATTGAAGAAAAATAGTGATTTTATTAAAAAA
64 TATTTTTTAACTATTTCAAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTAAAAAAAAA
* *
143408 AA-AAAACTTCGATTTTT
129 AAGAAAATTTAGATTTTT
143425 AAAAA-AAAA
1 AAAAATAAAA
143434 TTCAACCACC
Statistics
Matches: 386, Mismatches: 40, Indels: 41
0.83 0.09 0.09
Matches are distributed among these distances:
140 1 0.00
141 98 0.25
142 18 0.05
143 8 0.02
145 18 0.05
146 51 0.13
147 52 0.13
148 41 0.11
152 12 0.03
153 22 0.06
154 41 0.11
155 24 0.06
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (146 bp):
AAAAATAAAAATCTGTTTTTTAATCATTTTAAAGGAAAAAGTTTAAATTTTTAAATAAATTTTTA
TTTTTTAACTATTTCAAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTAAAAAAAAAAA
GAAAATTTAGATTTTT
Found at i:143979 original size:16 final size:17
Alignment explanation
Indices: 143959--143996 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
143949 TATTTATTCT
143959 TATTTCATCTTTATTTA
1 TATTTCATCTTTATTTA
*
143976 -ATTTCATGTTTATTTA
1 TATTTCATCTTTATTTA
143992 TATTT
1 TATTT
143997 ATATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (17 bp):
TATTTCATCTTTATTTA
Found at i:144630 original size:3 final size:3
Alignment explanation
Indices: 144615--144655 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
144605 AAAATTTTTA
* *
144615 AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
144656 AAGATTGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:150987 original size:28 final size:28
Alignment explanation
Indices: 150947--151007 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
150937 AGAAAATTCC
* *
150947 ATTAAGTTTTTTTA-GATTAATTAATTTA
1 ATTAGGTTATTTTAGGA-TAATTAATTTA
150975 ATTAGGTTATTTTAGGATAATTAATTTA
1 ATTAGGTTATTTTAGGATAATTAATTTA
151003 ATTAG
1 ATTAG
151008 TTTAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (28 bp):
ATTAGGTTATTTTAGGATAATTAATTTA
Found at i:155232 original size:17 final size:17
Alignment explanation
Indices: 155196--155234 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
155186 AGGTGGAGAA
* *
155196 CTTGTTCGTTGAGAGCT
1 CTTGTTCGTAGAGAACT
*
155213 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAACT
155230 CTTGT
1 CTTGT
155235 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (17 bp):
CTTGTTCGTAGAGAACT
Found at i:155281 original size:41 final size:41
Alignment explanation
Indices: 155224--155319 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
155214 TTGTTCGTAG
* *
155224 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTTGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
155265 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
*
155306 AGAATTCTTATTAA
1 AGAATTCTTGTTAA
155320 AATAAAATTC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACT
Found at i:156017 original size:30 final size:30
Alignment explanation
Indices: 155983--156047 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
155973 AAAAGTAAAT
155983 GTGACCATAAGTCATTCGTCTTTGTAATGA
1 GTGACCATAAGTCATTCGTCTTTGTAATGA
*
156013 GTGACCATAAGTCATTCGTCTTTGTGATGA
1 GTGACCATAAGTCATTCGTCTTTGTAATGA
*
156043 ATGAC
1 GTGAC
156048 TTGATTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (30 bp):
GTGACCATAAGTCATTCGTCTTTGTAATGA
Found at i:162533 original size:33 final size:33
Alignment explanation
Indices: 162491--162555 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
162481 TCTTATCTAG
162491 AGTTTTAGTGAATTAAAGAAACATACAGAGATA
1 AGTTTTAGTGAATTAAAGAAACATACAGAGATA
*
162524 AGTTTTAGTGAATTAAAGAAACATATAGAGAT
1 AGTTTTAGTGAATTAAAGAAACATACAGAGAT
162556 GATAGTGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (33 bp):
AGTTTTAGTGAATTAAAGAAACATACAGAGATA
Found at i:163012 original size:24 final size:24
Alignment explanation
Indices: 162981--163033 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
162971 ATAACACCCA
* *
162981 AACAACAAAAATAACAGTAAA-AAT
1 AACAACAAAAACAACA-AAAACAAT
163005 AACAACAAAAACAACAAAAACAAT
1 AACAACAAAAACAACAAAAACAAT
163029 AACAA
1 AACAA
163034 AATATCAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.74, C:0.17, G:0.02, T:0.08
Consensus pattern (24 bp):
AACAACAAAAACAACAAAAACAAT
Found at i:163014 original size:12 final size:12
Alignment explanation
Indices: 162981--163033 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
162971 ATAACACCCA
162981 AACAACAAAAAT
1 AACAACAAAAAT
**
162993 AACAGTAAAAAT
1 AACAACAAAAAT
*
163005 AACAACAAAAAC
1 AACAACAAAAAT
163017 AACAA-AAACAAT
1 AACAACAAA-AAT
163029 AACAA
1 AACAA
163034 AATATCAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 3 0.09
12 31 0.91
ACGTcount: A:0.74, C:0.17, G:0.02, T:0.08
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:163023 original size:21 final size:22
Alignment explanation
Indices: 162981--163035 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
162971 ATAACACCCA
* *
162981 AACAACAAAAATAACAGTAAAAAT
1 AACAACAAAAACAACA--AAAAAC
163005 AACAACAAAAACAAC-AAAAAC
1 AACAACAAAAACAACAAAAAAC
*
163026 AATAACAAAA
1 AACAACAAAA
163036 TATCAGGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.50
24 14 0.50
ACGTcount: A:0.75, C:0.16, G:0.02, T:0.07
Consensus pattern (22 bp):
AACAACAAAAACAACAAAAAAC
Found at i:165141 original size:16 final size:17
Alignment explanation
Indices: 165122--165158 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
165112 ATTGGGATGA
165122 AAATAAATTT-TTAATT
1 AAATAAATTTATTAATT
165138 AAATAAATTTAATTAATT
1 AAATAAATTT-ATTAATT
165156 AAA
1 AAA
165159 ATTTTAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAAATTTATTAATT
Found at i:165164 original size:16 final size:16
Alignment explanation
Indices: 165122--165165 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
165112 ATTGGGATGA
*
165122 AAATAAATTTTTAATT
1 AAATAAAATTTTAATT
165138 AAAT-AAA-TTTAATT
1 AAATAAAATTTTAATT
*
165152 AATTAAAATTTTAA
1 AAATAAAATTTTAA
165166 AACACTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 10 0.42
15 5 0.21
16 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATAAAATTTTAATT
Found at i:168354 original size:17 final size:18
Alignment explanation
Indices: 168332--168366 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
168322 TGTTGCACAG
168332 TTGGG-AATATATTTTGT
1 TTGGGAAATATATTTTGT
*
168349 TTGGGAAATCTATTTTGT
1 TTGGGAAATATATTTTGT
168367 GGACAAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (18 bp):
TTGGGAAATATATTTTGT
Found at i:172767 original size:16 final size:17
Alignment explanation
Indices: 172733--172769 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
172723 GTTTTAAAAT
172733 TTTAATTAATTAAATTTA
1 TTTAATTAA-TAAATTTA
172751 TTTAATTAA-AAATTTA
1 TTTAATTAATAAATTTA
172767 TTT
1 TTT
172770 TCATATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTAATAAATTTA
Found at i:175946 original size:4 final size:4
Alignment explanation
Indices: 175937--175979 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
175927 TCTTTTCCTT
**
175937 TTTC TTTC TTTC TTTC TTTC TTTC TCAC ATTTC TTTC -TTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTT
175980 ACAATCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.85
5 2 0.06
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:179852 original size:22 final size:21
Alignment explanation
Indices: 179826--179868 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
179816 ATGAACCAAT
179826 TTTAATGGCTATGTGTGAACAC
1 TTTAATGGCTA-GTGTGAACAC
* *
179848 TTTAATTGTTAGTGTGAACAC
1 TTTAATGGCTAGTGTGAACAC
179869 CTCTAGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (21 bp):
TTTAATGGCTAGTGTGAACAC
Found at i:197791 original size:17 final size:17
Alignment explanation
Indices: 197780--197835 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
197770 AAAAAGGAAA
197780 GAAAAAAGAAAAAAAAG
1 GAAAAAAGAAAAAAAAG
197797 GAAAAAAGAGAAAAAGAA-
1 GAAAAAAGA-AAAAA-AAG
*
197815 GAAAAAACACAAAAAATAG
1 GAAAAAAGA-AAAAAA-AG
197834 GA
1 GA
197836 GAGAGGTCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 10 0.30
18 19 0.58
19 4 0.12
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (17 bp):
GAAAAAAGAAAAAAAAG
Found at i:197791 original size:19 final size:18
Alignment explanation
Indices: 197769--197821 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
197759 TTTCCACCTA
197769 AAAAAAGGAAAGAAAAAAG
1 AAAAAA-GAAAGAAAAAAG
*
197788 AAAAAA-AAGGAAAAAAG
1 AAAAAAGAAAGAAAAAAG
197805 AGAAAAAG-AAGAAAAAA
1 A-AAAAAGAAAGAAAAAA
197822 CACAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 11 0.37
18 13 0.43
19 6 0.20
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAGAAAAAAG
Found at i:197795 original size:9 final size:9
Alignment explanation
Indices: 197781--197821 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
197771 AAAAGGAAAG
197781 AAAAAAGAA
1 AAAAAAGAA
197790 AAAAAAGGAA
1 AAAAAA-GAA
*
197800 AAAAGAGAA
1 AAAAAAGAA
*
197809 AAAGAAGAA
1 AAAAAAGAA
197818 AAAA
1 AAAA
197822 CACAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:198858 original size:99 final size:98
Alignment explanation
Indices: 198687--199459 Score: 458
Period size: 99 Copynumber: 7.9 Consensus size: 98
198677 ATGAACCGAG
* * * * * * * *
198687 GTACCATGAATATATGAAGGGAAAGGTTGAGGCTGTAACGACGAACCTTGTACCTTAGAAGATGT
1 GTACCATGAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATGT
* *
198752 GATGGGAAGGATCGAAGCCGTAATGGTGAATTCA
66 GATGGGAAGGATTGAAGCCGTAATGGCGAA-TCA
* *
198786 GTACCATGAAGAAATAAAAGGAAAGGTTGAGGCTGCAACGGCGAACCCTGTACCTTAAAAGATGT
1 GTACCATGAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATGT
* * *
198851 GATGGGAATGATTG-AGACCGTAACGACGAATCCA
66 GATGGGAAGGATTGAAG-CCGTAATGGCGAAT-CA
* * * ** * *
198885 GTACCATG--GAAATAAAGGGAAAGGTTGAGCCCGCTACAGTAAACTCTGTACCTTAAAAGGTGT
1 GTACCATGAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATGT
* * * * * * *
198948 GATAGGAAGAATTGAGGTCATAATGGTGAATCC
66 GATGGGAAGGATTGAAGCCGTAATGGCGAATCA
* * * * * * * *
198981 GATACCATGAATATATGAAGGGAAAAGTTGAGGCCGTAATGGTGAACCCTGTACCTTAGAAGATG
1 G-TACCATGAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATG
* * * * * * *
199046 CGATGGTAAGGATTGAGGTCGCAATGACGAATCTG
65 TGATGGGAAGGATTGAAGCCGTAATGGCGAATC-A
* * * * * * * **
199081 GTACCATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACGGTGAGCCCTATACCTTAAAATACAT
1 GTACCATGAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATGT
* * * * * *
199146 GATGAGAAAGATCGATGCTGTAACGGC-AGATCTA
66 GATGGGAAGGATTGAAGCCGTAATGGCGA-ATC-A
* * * * * *
199180 GTACCATAGAA-ATATAAAGGGAAAGGTTGAGGCCACAACGACGAA-CTTGGTACCTTAGAA-AC
1 GTACCAT-GAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCT-GTACCTTAAAAGAT
* * * * *
199242 GTGATGGGAAAGATT-AAGGCTGCAACGACGAATCTA
64 GTGATGGGAAGGATTGAA-GCCGTAATGGCGAATC-A
* * * * * * * * *
199278 GTACCATAGAA-ATATAAAGGGAAAGGTTGAGGCCTCAACGACGAGCCTTATCCCTTAGAAGATA
1 GTACCAT-GAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATG
* * * * * * **
199342 TGACGGGAAGGATCGAGGCCGCAACGACGGCTCTA
65 TGATGGGAAGGATTGAAGCCGTAATGGCGAATC-A
* ** *
199377 GTACCATG--GAAATAAAAAAGGAAAGGTTGAGGCCGCAACGATGAA-CCTAGTACCTTAGAAAC
1 GTACCATGAAGAAAT--AAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCT-GTACCTTA-AAAG
* *
199439 A--TGACGGGAAAGATTGAAGCC
62 ATGTGATGGGAAGGATTGAAGCC
199460 ACAACGGTGA
Statistics
Matches: 536, Mismatches: 118, Indels: 41
0.77 0.17 0.06
Matches are distributed among these distances:
96 2 0.00
97 77 0.14
98 107 0.20
99 342 0.64
100 8 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (98 bp):
GTACCATGAAGAAATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATGT
GATGGGAAGGATTGAAGCCGTAATGGCGAATCA
Found at i:199037 original size:196 final size:197
Alignment explanation
Indices: 198687--199308 Score: 460
Period size: 196 Copynumber: 3.2 Consensus size: 197
198677 ATGAACCGAG
* * * * *
198687 GTACCATGAATATATGAAGGGAAAGGTTGAGGCTG-TAACGACG-AACCT-TGTACCTTAGAAGA
1 GTACCATGAAGATA-GAAGGGAAAGGTTGAGCCCGCT-AC-A-GTAAACTCTGTACCTTAAAAGA
* * * * *
198749 TGTGATGGGAAGGATCGAAGCCGTAATGGTGAATTCAGTACCATGAAGAAATAAAAGGAAAGGTT
62 TGTGATAGGAAGAATCGAAGCCATAATGGTGAATCCAGTACCATGAAGAAATAAAAGGAAAAGTT
* * * *
198814 GAGGCTGCAACGGCGAACCCTGTACCTTAAAAGATGTGATGGGAATGATTGAGACCGTAACGACG
127 GAGGCCGCAACGGCGAACCCTGTACCTTAAAAGATGCGATGGGAAGGATTGAGACCGCAACGACG
198879 AATCCA
192 AATCCA
*
198885 GTACCATGGAA-ATA-AAGGGAAAGGTTGAGCCCGCTACAGTAAACTCTGTACCTTAAAAGGTGT
1 GTACCAT-GAAGATAGAAGGGAAAGGTTGAGCCCGCTACAGTAAACTCTGTACCTTAAAAGATGT
* * * * * * *
198948 GATAGGAAGAATTGAGGTCATAATGGTGAATCC-GATACCATGAATATATGAAGGGAAAAGTTGA
65 GATAGGAAGAATCGAAGCCATAATGGTGAATCCAG-TACCATGAAGAAATAAAAGGAAAAGTTGA
* * * * * ** *
199012 GGCCGTAATGGTGAACCCTGTACCTTAGAAGATGCGATGGTAAGGATTGAGGTCGCAATGACGAA
129 GGCCGCAACGGCGAACCCTGTACCTTAAAAGATGCGATGGGAAGGATTGAGACCGCAACGACGAA
**
199077 TCTG
194 TCCA
* * * * * * * * * **
199081 GTACCATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACGGTGAGCCCTATACCTTAAAATACAT
1 GTACCATGAAGATA-GAAGGGAAAGGTTGAGCCCGCTACAGTAAACTCTGTACCTTAAAAGATGT
* * ** * * * *
199146 GATGAGAAAG-ATCGATGCTGTAACGG-CAGATCTAGTACCAT--AGAAATATAAAGGGAAAGGT
65 GAT-AGGAAGAATCGAAGCCATAATGGTGA-ATCCAGTACCATGAAGAAATA-AAA-GGAAAAGT
* * * * * * * * * *
199207 TGAGGCCACAACGACGAA-CTTGGTACCTTAGAA-ACGTGATGGGAAAGATTAAGGCTGCAACGA
126 TGAGGCCGCAACGGCGAACCCT-GTACCTTAAAAGATGCGATGGGAAGGATTGAGACCGCAACGA
*
199270 CGAATCTA
190 CGAATCCA
*
199278 GTACCATAGAA-ATATAAAGGGAAAGGTTGAG
1 GTACCAT-GAAGATA-GAAGGGAAAGGTTGAG
199309 GCCTCAACGA
Statistics
Matches: 336, Mismatches: 73, Indels: 31
0.76 0.17 0.07
Matches are distributed among these distances:
194 1 0.00
195 9 0.03
196 153 0.46
197 61 0.18
198 103 0.31
199 9 0.03
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (197 bp):
GTACCATGAAGATAGAAGGGAAAGGTTGAGCCCGCTACAGTAAACTCTGTACCTTAAAAGATGTG
ATAGGAAGAATCGAAGCCATAATGGTGAATCCAGTACCATGAAGAAATAAAAGGAAAAGTTGAGG
CCGCAACGGCGAACCCTGTACCTTAAAAGATGCGATGGGAAGGATTGAGACCGCAACGACGAATC
CA
Found at i:199233 original size:49 final size:49
Alignment explanation
Indices: 199178--199465 Score: 233
Period size: 49 Copynumber: 5.9 Consensus size: 49
199168 ACGGCAGATC
*
199178 TAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCACAACGACGAACT
1 TAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCGCAACGACGAACT
* * ** * * * * *
199227 TGGTACCTTAGAAACGTGATGGGAAAGATTAAGGCTGCAACGACGAA-T
1 TAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCGCAACGACGAACT
* *
199275 CTAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCTCAACGACGAGCCT
1 -TAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCGCAACGACGA-ACT
* * * * * *
199326 TA-TCCCTTAGAAGATATGACGGG-AAGGATCGAGGCCGCAACGACG-GCT
1 TAGTACCATAGAA-ATATAAAGGGAAAGG-TTGAGGCCGCAACGACGAACT
* * * * *
199374 CTAGTACCATGGAAATAAAAAAGGAAAGGTTGAGGCCGCAACGATGAACC
1 -TAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCGCAACGACGAACT
* * * * * * *
199424 TAGTACCTTAGAAACATGACGGGAAAGATTGAAGCCACAACG
1 TAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCGCAACG
199466 GTGAATCTTA
Statistics
Matches: 181, Mismatches: 49, Indels: 18
0.73 0.20 0.07
Matches are distributed among these distances:
48 3 0.02
49 140 0.77
50 37 0.20
51 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (49 bp):
TAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCGCAACGACGAACT
Found at i:199379 original size:197 final size:197
Alignment explanation
Indices: 199031--199453 Score: 492
Period size: 197 Copynumber: 2.1 Consensus size: 197
199021 GGTGAACCCT
* * * * * * *
199031 GTACCTTAGAAGATGCGATGGTAAGGATTGAGGTCGCAATGACGAATCTGGTACCATGAAGATAT
1 GTACCTTAGAA-ACGTGATGGGAAAGATTAAGGTCGCAACGACGAATCTAGTACCATGAAGATAT
* ** * *
199096 GAAGGGAAAGGTTGAGGCTGCAACGGTGAGCCCTATACCTTAAAATACATGATGAGAAAGATCGA
65 AAAGGGAAAGGTTGAGGCTGCAACGACGAGCCCTATACCTTAAAAGACATGACGAGAAAGATCGA
* * * * * *
199161 TGCTGTAACGGCAGATCTAGTACCATAGAAATATAAAGGGAAAGGTTGAGGCCACAACGACGAAC
130 GGCCGCAACGACAGATCTAGTACCATAGAAATAAAAAAGGAAAGGTTGAGGCCACAACGACGAAC
* *
199226 TTG
195 CTA
199229 GTACCTTAGAAACGTGATGGGAAAGATTAAGG-CTGCAACGACGAATCTAGTACCATAGAA-ATA
1 GTACCTTAGAAACGTGATGGGAAAGATTAAGGTC-GCAACGACGAATCTAGTACCAT-GAAGATA
* * * * * *
199292 TAAAGGGAAAGGTTGAGGCCT-CAACGACGAGCCTTATCCCTTAGAAGATATGACGGGAAGGATC
64 TAAAGGGAAAGGTTGAGG-CTGCAACGACGAGCCCTATACCTTAAAAGACATGACGAGAAAGATC
* * * * *
199356 GAGGCCGCAACGACGGCTCTAGTACCATGGAAATAAAAAAGGAAAGGTTGAGGCCGCAACGATGA
128 GAGGCCGCAACGACAGATCTAGTACCATAGAAATAAAAAAGGAAAGGTTGAGGCCACAACGACGA
199421 ACCTA
193 ACCTA
* *
199426 GTACCTTAGAAACATGACGGGAAAGATT
1 GTACCTTAGAAACGTGATGGGAAAGATT
199454 GAAGCCACAA
Statistics
Matches: 189, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
196 1 0.01
197 172 0.91
198 16 0.08
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (197 bp):
GTACCTTAGAAACGTGATGGGAAAGATTAAGGTCGCAACGACGAATCTAGTACCATGAAGATATA
AAGGGAAAGGTTGAGGCTGCAACGACGAGCCCTATACCTTAAAAGACATGACGAGAAAGATCGAG
GCCGCAACGACAGATCTAGTACCATAGAAATAAAAAAGGAAAGGTTGAGGCCACAACGACGAACC
TA
Found at i:199697 original size:96 final size:95
Alignment explanation
Indices: 199533--199840 Score: 463
Period size: 96 Copynumber: 3.2 Consensus size: 95
199523 CCCTCGAAAT
* * *
199533 TACAGAGAAGTGGATCAAAATAATGAAGCAGAGCTCAACGTCCTTGAGGATACAATGGAGTGGAG
1 TACAGAGAAGTGGGTCAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGATACAGT-GAGTGGAG
*
199598 TGAGACTTCAAATCCCATCTTCCTGGTGAGG
65 TGAGACTTCAAATCCTATCTTCCTGGTGAGG
* * *
199629 TACAGAGAAGTGGGTCAAAATAATGAAACAGAGCTCAACATCCCTGAGGTTACAGTGTAGTGGAG
1 TACAGAGAAGTGGGTCAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGATACAGTG-AGTGGAG
199694 TGAGACTTCAAATCCTATCTTCCTGGTGAGG
65 TGAGACTTCAAATCCTATCTTCCTGGTGAGG
* * * * *
199725 TATAAAGAAGTGGGTCAAAATAATTAAGTAGAGTTCAACGTCCCTGAGGATACAGTAGAGTGGAG
1 TACAGAGAAGTGGGTCAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGATACAGT-GAGTGGAG
* *
199790 TAAGACTTCAAATCTTATCTTCCTGGTGAGG
65 TGAGACTTCAAATCCTATCTTCCTGGTGAGG
199821 TACAGAGAAGTGGGTCAAAA
1 TACAGAGAAGTGGGTCAAAA
199841 CAGTGTGTTT
Statistics
Matches: 191, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
95 1 0.01
96 189 0.99
97 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (95 bp):
TACAGAGAAGTGGGTCAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGATACAGTGAGTGGAGT
GAGACTTCAAATCCTATCTTCCTGGTGAGG
Found at i:199978 original size:104 final size:112
Alignment explanation
Indices: 199787--200161 Score: 315
Period size: 114 Copynumber: 3.4 Consensus size: 112
199777 CAGTAGAGTG
* * ** *
199787 GAGTAAGACTTCAAATCTTATCTTCCTGGTGAGGTACAGAG-AAGTGGGTCAAAAC-AGTGTGTT
1 GAGTGAGACTTCAAAACCCATCTTCCGGGTGAGGTACAGAGAAAGTGGGTCAAAACTAGTGTGTT
* * *** *
199850 TAATCAAAACGACGAAGTGGAGCTCAACGTCTCT-AAG-CAT-A-CA
66 GAATCAAAACAACGAAGCCAAGCTCAACGTCCCTGAAGACATAAGCA
* *
199893 -A-TGAGACTTCAAAACCCATCTTTCGGGTGAGGTACAAAGAAAG-GGGTCAAAACTA-TGTGTT
1 GAGTGAGACTTCAAAACCCATCTTCCGGGTGAGGTACAGAGAAAGTGGGTCAAAACTAGTGTGTT
* *
199954 GAATCAAAACAACGAAGCCAAGCTCAACGTCCCTGAAGATATAATGGA
66 GAATCAAAACAACGAAGCCAAGCTCAACGTCCCTGAAGACATAA-GCA
* * *
200002 GTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGA-AAAGTGGGTCAAAA-TAGTAT
1 ---GAGTGAGACTTCAAAACCCATCTTCCGGGTGAGGTACAGAGAAAGTGGGTCAAAACTAGTGT
** * ** * **
200065 GTTGAATCAAAACAACGAAATCGAGCTCAGTGTCCCTGAGGATACAATAAAGTG
63 GTTGAATCAAAACAACGAAGCCAAGCTCAACGTCCCTGA--AGAC-AT-AAGCA
* * ** *
200119 GAGTGAGACTTCAAATCCCATTTTCTTGGTGAGATACAGAGAA
1 GAGTGAGACTTCAAAACCCATCTTCCGGGTGAGGTACAGAGAA
200162 GTAATCTCAA
Statistics
Matches: 218, Mismatches: 32, Indels: 29
0.78 0.11 0.10
Matches are distributed among these distances:
104 75 0.34
105 8 0.04
106 2 0.01
107 1 0.00
109 1 0.00
113 7 0.03
114 115 0.53
115 2 0.01
116 2 0.01
117 3 0.01
118 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (112 bp):
GAGTGAGACTTCAAAACCCATCTTCCGGGTGAGGTACAGAGAAAGTGGGTCAAAACTAGTGTGTT
GAATCAAAACAACGAAGCCAAGCTCAACGTCCCTGAAGACATAAGCA
Found at i:200100 original size:114 final size:114
Alignment explanation
Indices: 199894--200163 Score: 346
Period size: 114 Copynumber: 2.4 Consensus size: 114
199884 AAGCATACAA
* * * * *
199894 TGAGACTTCAAAACCCATCTTTCGGGTGAGGTACAAAGAAAG-GGGTCAAAACTATGTGTTGAAT
1 TGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGA-AAAGTGGGTCAAAACTATATGTTGAAT
* * **
199958 CAAAACAACGAAGCCAAGCTCAACGTCCCTGAAGATATAATGGAGTGGAG
65 CAAAACAACGAAACCAAGCTCAACGTCCCTGAAGATACAATAAAGTGGAG
200008 TGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAAAAGTGGGTCAAAA-TAGTATGTTGAAT
1 TGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAAAAGTGGGTCAAAACTA-TATGTTGAAT
* * ** *
200072 CAAAACAACGAAATCGAGCTCAGTGTCCCTGAGGATACAATAAAGTGGAG
65 CAAAACAACGAAACCAAGCTCAACGTCCCTGAAGATACAATAAAGTGGAG
* * * *
200122 TGAGACTTCAAATCCCATTTTCTTGGTGAGATACAGAGAAGT
1 TGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAAAAGT
200164 AATCTCAATC
Statistics
Matches: 136, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
113 6 0.04
114 130 0.96
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (114 bp):
TGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAAAAGTGGGTCAAAACTATATGTTGAATC
AAAACAACGAAACCAAGCTCAACGTCCCTGAAGATACAATAAAGTGGAG
Found at i:202142 original size:17 final size:17
Alignment explanation
Indices: 202122--202154 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
202112 TTAATTTCAA
*
202122 TATATTTAAAATTTTGT
1 TATACTTAAAATTTTGT
202139 TATACTTAAAATTTTG
1 TATACTTAAAATTTTG
202155 GTTTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
TATACTTAAAATTTTGT
Found at i:203479 original size:12 final size:12
Alignment explanation
Indices: 203462--203491 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
203452 GAACAACCTT
203462 ACCAATAGCCTC
1 ACCAATAGCCTC
203474 ACCAATAGCCTC
1 ACCAATAGCCTC
203486 ACCAAT
1 ACCAAT
203492 TTCCCATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.40, G:0.07, T:0.17
Consensus pattern (12 bp):
ACCAATAGCCTC
Found at i:204380 original size:3 final size:3
Alignment explanation
Indices: 204366--204413 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
204356 AATAAGATGA
*
204366 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
204414 GTGGCCATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:212678 original size:18 final size:19
Alignment explanation
Indices: 212655--212690 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
212645 GTCGCACGTG
212655 ATGA-GGAGGGGTTTGTTC
1 ATGAGGGAGGGGTTTGTTC
*
212673 ATGAGGGCGGGGTTTGTT
1 ATGAGGGAGGGGTTTGTT
212691 TTATTTCGGA
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:0.14, C:0.06, G:0.47, T:0.33
Consensus pattern (19 bp):
ATGAGGGAGGGGTTTGTTC
Found at i:215287 original size:18 final size:18
Alignment explanation
Indices: 215276--215341 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
215266 TGCTCTTACG
215276 AGCTAGTATGCTCAAACA
1 AGCTAGTATGCTCAAACA
**
215294 AG-TCAGTATGCTTTAACA
1 AGCT-AGTATGCTCAAACA
215312 AGCTAGTATGCTCAAACA
1 AGCTAGTATGCTCAAACA
215330 AGCTAGTATGCT
1 AGCTAGTATGCT
215342 ATTCCTCCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.02
18 40 0.95
19 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (18 bp):
AGCTAGTATGCTCAAACA
Found at i:222226 original size:18 final size:17
Alignment explanation
Indices: 222175--222226 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
222165 ACTAGACCCA
* *
222175 TTTTAAATT-TATAATA
1 TTTTATATTATATAATT
* *
222191 TTTTATATTATGTTATT
1 TTTTATATTATATAATT
222208 TTTATATATTATATAATT
1 TTT-TATATTATATAATT
222226 T
1 T
222227 AAAACTCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 13 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTATATTATATAATT
Found at i:223293 original size:19 final size:20
Alignment explanation
Indices: 223244--223315 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
223234 AAAATTACAA
*
223244 AAAAATTTCAAAATAGTTTTC
1 AAAAA-TTCAAAATAATTTTC
223265 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* * *
223284 TAAGATTCAAAAT-ATTTATA
1 AAAAATTCAAAATAATTT-TC
223304 AAAAATT-AAAAT
1 AAAAATTCAAAAT
223316 TTATATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.09
19 17 0.39
20 18 0.41
21 5 0.11
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:223348 original size:18 final size:18
Alignment explanation
Indices: 223327--223384 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
223317 TATATTTTTT
223327 AAAAAATTAAAAAATATA
1 AAAAAATTAAAAAATATA
**
223345 AAAAAATTCTAAAATATA
1 AAAAAATTAAAAAATATA
*
223363 TAAAAATATATAAAAAT-TA
1 AAAAAAT-TA-AAAAATATA
223382 AAA
1 AAA
223385 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 22 0.69
19 5 0.16
20 5 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATTAAAAAATATA
Found at i:223379 original size:10 final size:10
Alignment explanation
Indices: 223328--223379 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
223318 ATATTTTTTA
223328 AAAAAT-TA-
1 AAAAATATAT
*
223336 AAAAATATAA
1 AAAAATATAT
*
223346 AAAAAT-TCT
1 AAAAATATAT
223355 -AAAATATAT
1 AAAAATATAT
223364 AAAAATATAT
1 AAAAATATAT
223374 AAAAAT
1 AAAAAT
223380 TAAAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 11 0.30
9 5 0.14
10 21 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATATAT
Found at i:226117 original size:27 final size:27
Alignment explanation
Indices: 226079--226154 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
226069 AAAGTTTGAG
226079 GAAAGAGCGATACTCTGTTTCT-GACTC
1 GAAAGAGCGATACTCTGTTTCTCG-CTC
226106 GAAAGAGCGATACTCTGTTTCTCGCTC
1 GAAAGAGCGATACTCTGTTTCTCGCTC
* *
226133 AAAAGAGCGATACTCTATTTCT
1 GAAAGAGCGATACTCTGTTTCT
226155 AGCCTGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (27 bp):
GAAAGAGCGATACTCTGTTTCTCGCTC
Found at i:228595 original size:26 final size:26
Alignment explanation
Indices: 228553--228632 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 26
228543 CTAGTTCAAC
*
228553 ATATCGCTCTTTCGAGCCAGTACAGT
1 ATATCGCTCTTTTGAGCCAGTACAGT
* * * *
228579 ATATCGCTTTTTTGAGCTAATACAAT
1 ATATCGCTCTTTTGAGCCAGTACAGT
*
228605 ATATCGCTCTTATGAGCCAGTACAGT
1 ATATCGCTCTTTTGAGCCAGTACAGT
228631 AT
1 AT
228633 CTTCGAGTCT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (26 bp):
ATATCGCTCTTTTGAGCCAGTACAGT
Found at i:228729 original size:19 final size:19
Alignment explanation
Indices: 228702--228740 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
228692 CAATACAGAA
228702 TATCACTCTTACGAGCCAG
1 TATCACTCTTACGAGCCAG
*
228721 TATCGCTCTTACGAGCCAG
1 TATCACTCTTACGAGCCAG
228740 T
1 T
228741 TCAGTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (19 bp):
TATCACTCTTACGAGCCAG
Found at i:235062 original size:26 final size:26
Alignment explanation
Indices: 235023--235099 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
235013 TTAGCTCATA
*
235023 CGAGCCAGTTCAATATATCACTCTTT
1 CGAGCCAGTACAATATATCACTCTTT
* * *
235049 CGAGCTAGTACAATATAACATTCTTT
1 CGAGCCAGTACAATATATCACTCTTT
* * * *
235075 AGAGCCAATACAGTATATCGCTCTT
1 CGAGCCAGTACAATATATCACTCTT
235100 ATGAGCTAGT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (26 bp):
CGAGCCAGTACAATATATCACTCTTT
Done.