Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2733
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: 153858
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:4857 original size:73 final size:72
Alignment explanation
Indices: 4689--5255 Score: 421
Period size: 73 Copynumber: 7.5 Consensus size: 72
4679 CTTTTCAAGG
* * * * * *
4689 AAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAAGACACGTTGAGGTACTTT-AATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTCT
*
4753 GTTTTTC-
65 GTTTGTCA
* *
4760 -AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTCT
4824 GTTTGTCA
65 GTTTGTCA
*
4832 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GACACGCTGAGGTAATTTCAATTTCT
4897 GTTTGTCA
65 GTTTGTCA
* * **
4905 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTAATTTCAATTT
*
4970 CTGTTCTTCAATTTCTGTTCGT
63 CTG---------TT-TG-TC-A
** * * ** * *
4992 AAAAAAAAATCA-ACT-C-ATTTTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 AAAATCAACTCATATTGCGA--GAG-GTGAGTTGAG-----CCTC-GGACACGCTGAGGTAATTT
5054 CAATTTCTGTTT-TCA
57 CAATTTCTGTTTGTCA
* * ** * * *
5069 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTCT
5134 GTTT-TCAAAA
65 GTTTGTC---A
* * * *
5144 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTAATTTCAATTT
* *
5209 CTGTTTTTAAAAA
63 CTGTTTGT---CA
5222 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
5256 TTCAGATTAC
Statistics
Matches: 400, Mismatches: 55, Indels: 75
0.75 0.10 0.14
Matches are distributed among these distances:
70 49 0.12
71 12 0.03
72 37 0.09
73 103 0.26
74 1 0.00
75 57 0.14
77 41 0.10
78 38 0.09
79 1 0.00
80 2 0.00
81 2 0.00
84 3 0.01
85 3 0.01
86 5 0.01
87 17 0.04
90 23 0.06
92 4 0.01
93 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTCAATTTCTG
TTTGTCA
Found at i:4981 original size:14 final size:14
Alignment explanation
Indices: 4962--4989 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4952 CTGAGGTCTT
4962 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
4976 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
4990 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:5250 original size:78 final size:75
Alignment explanation
Indices: 4976--5260 Score: 362
Period size: 72 Copynumber: 3.8 Consensus size: 75
4966 ATTTCTGTTC
* *
4976 TTCAATTTCTGTTCGTAAAAAAAAATCAACTCATTTTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTCAATTTCTGTT-TTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
5041 GCTGAGGTAAT
65 GCTGAGGTATT
* * * ** *
5052 TTCAATTTCTGTTTT---CAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTCAATTTCTGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
5114 TTGAGGTATT
66 CTGAGGTATT
* * *
5124 TTCAATTTCTGTTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTC-GGTTCAC
1 TTCAATTTCTGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
*
5188 ATGCTGAGGTATT
63 ACGCTGAGGTATT
*
5201 TTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTCAATTTCTG-TTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
5261 ATTACACACT
Statistics
Matches: 179, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
72 63 0.35
74 1 0.01
75 35 0.20
76 13 0.07
77 24 0.13
78 42 0.23
79 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (75 bp):
TTCAATTTCTGTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATT
Found at i:5419 original size:54 final size:54
Alignment explanation
Indices: 5349--5491 Score: 250
Period size: 54 Copynumber: 2.6 Consensus size: 54
5339 TTTCTGTTTG
5349 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
1 TCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
5404 TCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
1 TCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
* * *
5458 TCAAAATCAGCTCATATTGCAAGAGGTGAGTTGA
1 TCAAAATCAACTCATATTGCGAGAGGTGGGTTGA
5492 GCCTCGGGGT
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 81 0.95
55 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (54 bp):
TCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
Found at i:5574 original size:68 final size:72
Alignment explanation
Indices: 5468--5605 Score: 185
Period size: 70 Copynumber: 2.0 Consensus size: 72
5458 TCAAAATCAG
* ** *
5468 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGTACGCT-GGTATTTTCAATTTTTG-TGTTTTA
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTAGGTATTTTCAATTTTCGTTGTTTTA
5531 ATTTCAA
66 ATTTCAA
* *
5538 CTCATATTGCGAGA-GTGAG-TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT-AGGTATTTTCAATTTTCGTTGTTTT
5601 AATTT
65 AATTT
5606 ATGTTTCAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
68 15 0.25
69 5 0.08
70 29 0.49
71 10 0.17
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (72 bp):
CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTAGGTATTTTCAATTTTCGTTGTTTTA
ATTTCAA
Found at i:5740 original size:73 final size:73
Alignment explanation
Indices: 5617--5829 Score: 252
Period size: 73 Copynumber: 2.9 Consensus size: 73
5607 TGTTTCAAAA
* *
5617 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA--ATACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
**
5680 TGTTTGTC
66 TGTTCATC
* ** *
5688 AAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
5753 TGTTCATC
66 TGTTCATC
* * * * * *
5761 AAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAAT
5825 TTATG
63 TTATG
5830 GTTTTCAATT
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
71 38 0.31
72 2 0.02
73 58 0.48
75 23 0.19
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
TGTTCATC
Found at i:5836 original size:14 final size:14
Alignment explanation
Indices: 5817--5851 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5807 CGCTGAGGTA
5817 TTTTCAATTTATGG
1 TTTTCAATTTATGG
* *
5831 TTTTCAATTTCTGT
1 TTTTCAATTTATGG
5845 TTTTCAA
1 TTTTCAA
5852 AAATCGACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTATGG
Found at i:5864 original size:162 final size:162
Alignment explanation
Indices: 5670--6466 Score: 694
Period size: 162 Copynumber: 5.0 Consensus size: 162
5660 GCTGAGGTAA
* * * *
5670 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * * *
5735 TGAGGTGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTAATTTCAATTTCTGTTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
*
5800 GCTCACACGCTGAGGTATTTTCAATTTATGGT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
* *
5832 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** *
5897 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 TGAGGTAATTTCAATTTCTGTTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
* *
5962 GCTCACATGCTGAGGTCTTTTCAATTTCT-GT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
** *
5993 TCTTCAATTTCTGTTCATAAAAAAAAT-GAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGAC
1 T-TTCAATTTCTGTT--TATCAAAAATCG-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * * * *
6057 ACGCTAAGGTAATTTCAATTTCTGTTGTCA-AAAAAATCAACTCGTATTGCGAGCGGCGAGTTGA
62 ACGCTGAGGTAATTTCAATTTCTG-T-TCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
* *
6121 GCCTTAGG-TCACACGCCGAGGTATTTTCAATTTCTGTT
125 GCCTT-GGCTCACACGCTGAGGTATTTTCAATTTCTGGT
* * * ** ** *
6159 TTTCAA---------A-AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAACATGC
1 TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
6214 TGAGGT-TTTTCAATTTCTGTTTTCA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TGAGGTAATTTCAATTTCTG--TTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
6277 CAGG---ACACGCTGAGGTAATTTCAATTTCT-GT
129 -TGGCTCACACGCTGAGGTATTTTCAATTTCTGGT
* * * * *
6308 TGTC-A---------A--AAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACAC
* * * * * *
6361 GC-CAGGTATTTTCAATTCTGCTTTTAAATAAAAAATCAAACTCATATTGCGA-AGGTGAGTTGA
64 GCTGAGGTAATTTCAATT-T-CTGTT-CATCAAAAAT-TAACTCATATTGCGAGAGGTGAGTTGA
* *
6424 GCCTTGGCTCACGCGCTGAGCTATTTTC-ATTTCT-GT
125 GCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGGT
6460 CTTTCAA
1 -TTTCAA
6467 AAAATCAACT
Statistics
Matches: 542, Mismatches: 69, Indels: 56
0.81 0.10 0.08
Matches are distributed among these distances:
147 35 0.06
148 6 0.01
149 20 0.04
150 27 0.05
151 24 0.04
152 74 0.14
153 64 0.12
154 2 0.00
161 3 0.01
162 155 0.29
163 1 0.00
164 63 0.12
165 63 0.12
166 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (162 bp):
TTTCAATTTCTGTTTATCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
GCTCACACGCTGAGGTATTTTCAATTTCTGGT
Found at i:6000 original size:14 final size:14
Alignment explanation
Indices: 5981--6008 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5971 CTGAGGTCTT
5981 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
5995 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
6009 ATAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:6118 original size:74 final size:75
Alignment explanation
Indices: 5995--6500 Score: 573
Period size: 74 Copynumber: 6.7 Consensus size: 75
5985 ATTTCTGTTC
* * * *
5995 TTCAATTTCTGTTCATAAAAAAAATGAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACAC
* *
6059 GCTAAGGTAAT
65 GCTGAGGTATT
* * * * *
6070 TTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACAC
1 TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACAC
*
6135 GCCGAGGTATT
65 GCTGAGGTATT
* ** **
6146 TTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-AAAC
1 TTCAATTTCTG-TTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
*
6210 ATGCTGAGGT-TT
63 ACGCTGAGGTATT
6222 TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACG
1 TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACG
*
6286 CTGAGGTAAT
66 CTGAGGTATT
* * * *
6296 TTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACAC
*
6361 GC-CAGGTATT
65 GCTGAGGTATT
* *
6371 TTCAA-TTCTGCTTTTAAATAAAAAATCAAACTCATATTGCGA-AGGTGAGTTGAGCCT-TGGCT
1 TTCAATTTCTG-TTTT-CA-AAAAAATC-AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* *
6433 CACGCGCTGAGCTATT
60 CACACGCTGAGGTATT
6449 TTC-ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
6501 TTTGATCACA
Statistics
Matches: 368, Mismatches: 45, Indels: 36
0.82 0.10 0.08
Matches are distributed among these distances:
73 49 0.13
74 113 0.31
75 53 0.14
76 45 0.12
77 45 0.12
78 29 0.08
79 34 0.09
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (75 bp):
TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACG
CTGAGGTATT
Found at i:6250 original size:152 final size:150
Alignment explanation
Indices: 5995--6500 Score: 582
Period size: 152 Copynumber: 3.4 Consensus size: 150
5985 ATTTCTGTTC
* * * **
5995 TTCAATTTCTGTTCATAAAAAAAATGAACTCATATTGCT-AGAGGTGAGTTGAGCCTCAGGACAC
1 TTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTG-TGAGAGGTGAGTTGAGCCTCAAAACAC
* * * * *
6059 GCTAAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCC
64 GCTAAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
6124 TTAGGTCACACGCCGAGGTATT
129 TTAGGTCACACGCTGAGGTATT
**
6146 TTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAACA
1 TTCAATTTCTG-TTTTC--AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAAACA
* *
6211 TGCTGAGGT-TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 CGCTAAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
6275 CTCAGG--ACACGCTGAGGTAAT
128 CTTAGGTCACACGCTGAGGTATT
* * * **
6296 TTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA--AAACAC
* *
6361 GC-CAGGTATTTTCAA-TTCTGCTTTTAAATAAAAAATCAAACTCATATTGCGA-AGGTGAGTTG
64 GCTAAGGTATTTTCAATTTCTG-TTTT-CA-AAAAAATC-AACTCATATTGCGAGAGGTGAGTTG
* *
6423 AGCCTT-GGCTCACGCGCTGAGCTATT
125 AGCCTTAGG-TCACACGCTGAGGTATT
*
6449 TTC-ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
6501 TTTGATCACA
Statistics
Matches: 305, Mismatches: 35, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
147 37 0.12
148 9 0.03
149 20 0.07
150 27 0.09
151 35 0.11
152 113 0.37
153 64 0.21
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (150 bp):
TTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAAACACGC
TAAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
AGGTCACACGCTGAGGTATT
Found at i:6458 original size:226 final size:227
Alignment explanation
Indices: 5995--6500 Score: 733
Period size: 226 Copynumber: 2.2 Consensus size: 227
5985 ATTTCTGTTC
* * * *
5995 TTCAATTTCTGT-TCATAAAAAAAATGAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACAC
1 TTCAATTTCTGTCT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
6059 GCTAAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCC
65 GCTAAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCC
* * *
6124 TTAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAG
130 TCAGGTCACACGCCGAGGTATTTTCAATTTCTGCTTTTCAAAAAAAAATCAACTCATATTGCGAG
* *
6189 AAATGAGTTGAGCCTCAAAACATGCTGAGGTTT
195 AAATGAGTTGAGCCTCAAAACACGCTGAGCTTT
6222 TTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
6286 CTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCT
66 CTAAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
6351 CAGGTCACACGCC-AGGTATTTTCAA-TTCTGCTTTT-AAATAAAAAATCAAACTCATATTGCGA
131 CAGGTCACACGCCGAGGTATTTTCAATTTCTGCTTTTCAAA-AAAAAATC-AACTCATATTGCGA
** ** *
6413 -AGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATT
194 GAAATGAGTTGAGCC-T--CAAAACACGCTGAGCT-TT
6449 TTC-ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
6501 TTTGATCACA
Statistics
Matches: 255, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
223 3 0.01
224 29 0.11
225 26 0.10
226 174 0.68
227 23 0.09
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (227 bp):
TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTAAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
CAGGTCACACGCCGAGGTATTTTCAATTTCTGCTTTTCAAAAAAAAATCAACTCATATTGCGAGA
AATGAGTTGAGCCTCAAAACACGCTGAGCTTT
Found at i:6767 original size:30 final size:30
Alignment explanation
Indices: 6731--6791 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
6721 CAACTCATAT
6731 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
6761 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
6791 T
1 T
6792 ATTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.43
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:6888 original size:251 final size:242
Alignment explanation
Indices: 6390--6909 Score: 570
Period size: 251 Copynumber: 2.1 Consensus size: 242
6380 GCTTTTAAAT
* *
6390 AAAAAATCAAACTCATATTGCGA-AGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAT
1 AAAAAATC-AACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCAT
*
6454 TTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTGATCACACAATTGGA
65 TTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAATCACACAATTGGA
* * * * *
6519 GGTATTTTTTTCAATTTATATTTTTCAAAAAAAAATTAACTTACATTGCGAGTATGAGTTGAGCC
130 GGTAGTCTTTTCAATTTATATTTTTC---AAAAAATCAACTCACATTGCGAGTATGAGTTGAACC
** * * * **
6584 TCGGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCGATTCTGTTTTC
192 TCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAATTAAGTTTTC
* *
6635 -AAAAATTAACT-ATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTC-AT
* * *
6698 TTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTG
65 TTC---TGTCTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTTAA--TC-A
* * * * *
6763 CGAGAGTT-GAGTTGAGTCTTTT-AATTTCTATTTTTC-AAAAATCAACTCATATTGCGAG-AGG
120 C-ACAATTGGAGGT-AGTCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGTA--
*
6824 TGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAG-TTTC
181 TGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAA-TTAAGTTTTC
6886 AAAAAATCAACTCATATTGCGAGA
1 AAAAAATCAACTCATATTGCGAGA
6910 GAGTAGAGAA
Statistics
Matches: 229, Mismatches: 27, Indels: 30
0.80 0.09 0.10
Matches are distributed among these distances:
242 9 0.04
243 40 0.17
244 11 0.05
247 6 0.03
248 6 0.03
249 31 0.14
250 19 0.08
251 53 0.23
252 13 0.06
253 13 0.06
254 18 0.08
255 10 0.04
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (242 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCATT
TCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAATCACACAATTGGAG
GTAGTCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGTATGAGTTGAACCTCCA
GTCACATATCGAGGTATTTTCAAAATCTACTTTTCAATTAAGTTTTC
Found at i:7497 original size:30 final size:30
Alignment explanation
Indices: 7461--7531 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
7451 ACTTTTCTCA
* * *
7461 ACTAGCCACTCCTTTTACACCACCAACTCC
1 ACTAGCCACACCTTCTACACCACCAAATCC
*
7491 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTACACCACCAAATCC
7521 ACTAGCCACAC
1 ACTAGCCACAC
7532 TTGCTCCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.30, C:0.48, G:0.04, T:0.18
Consensus pattern (30 bp):
ACTAGCCACACCTTCTACACCACCAAATCC
Found at i:7539 original size:30 final size:30
Alignment explanation
Indices: 7478--7575 Score: 135
Period size: 30 Copynumber: 3.3 Consensus size: 30
7468 ACTCCTTTTA
7478 CACCACCAACTCCACTAGCCACACCTT-CTC
1 CACCACCAACTCCACTAGCCACA-CTTGCTC
*
7508 CACCACCAAATCCACTAGCCACACTTGCTC
1 CACCACCAACTCCACTAGCCACACTTGCTC
** * *
7538 CATTACCTACTCCACTAACCACACTTGCTC
1 CACCACCAACTCCACTAGCCACACTTGCTC
7568 CACCACCA
1 CACCACCA
7576 CTTGTACCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 3 0.05
30 55 0.95
ACGTcount: A:0.29, C:0.49, G:0.04, T:0.18
Consensus pattern (30 bp):
CACCACCAACTCCACTAGCCACACTTGCTC
Found at i:8102 original size:23 final size:23
Alignment explanation
Indices: 8065--8192 Score: 70
Period size: 23 Copynumber: 5.5 Consensus size: 23
8055 TCTTTTTTGT
8065 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
8088 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
8110 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
8133 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATATTA
* *
8156 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
8181 TATTATTTATAT
1 TATTATATATAT
8193 ATATATATAT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
21 8 0.10
22 15 0.19
23 25 0.32
24 8 0.10
25 22 0.28
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:8192 original size:48 final size:46
Alignment explanation
Indices: 8067--8207 Score: 121
Period size: 48 Copynumber: 3.0 Consensus size: 46
8057 TTTTTTGTTA
* * *
8067 TTAT-TATATT-TCTTAATATTATATTATATATAT-TCTTTTAATATA
1 TTATGTATATTCT-TTAATATTATATTATATATATATATTAT-ATATT
* * **
8112 TTAGGTATATT-TTAAAT-TCTATATTACGTATATATATTATACTATT
1 TTATGTATATTCTTTAATAT-TATATTATATATATATATTATA-TATT
*
8158 TTATGTATATATCTTTAATATTATATTATTTATATATATATATATATT
1 TTATGTATAT-TCTTTAATATTATATTATATATATATAT-TATATATT
8206 TT
1 TT
8208 TACATGTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
44 1 0.01
45 20 0.26
46 23 0.30
47 1 0.01
48 27 0.35
49 5 0.06
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (46 bp):
TTATGTATATTCTTTAATATTATATTATATATATATATTATATATT
Found at i:8230 original size:36 final size:35
Alignment explanation
Indices: 8163--8230 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
8153 CTATTTTATG
*
8163 TATATATCTTTAATATTATATTATTTATATATATA
1 TATATATCTTTAATATTATATTATGTATATATATA
* * *
8198 TATATATTTTTACATGTTATCTTATGTATATAT
1 TATATATCTTTA-ATATTATATTATGTATATAT
8231 CTTAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.39
36 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (35 bp):
TATATATCTTTAATATTATATTATGTATATATATA
Found at i:8245 original size:22 final size:24
Alignment explanation
Indices: 8219--8277 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
8209 ACATGTTATC
8219 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
8241 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
8266 TTATGTACATAT
1 TTATGTATATAT
8278 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:8267 original size:25 final size:25
Alignment explanation
Indices: 8235--8283 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
8225 ATATATCTTA
**
8235 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
8260 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
8284 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:8465 original size:16 final size:15
Alignment explanation
Indices: 8441--8488 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
8431 TAATTATTAT
*
8441 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
8457 TATTTTAATATTTTA
1 TATTTTAATATTTTA
8472 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
8488 T
1 T
8489 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:8476 original size:7 final size:8
Alignment explanation
Indices: 8441--8492 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
8431 TAATTATTAT
*
8441 TATTCTAA
1 TATTTTAA
*
8449 TATTTTGA
1 TATTTTAA
8457 TATTTTAA
1 TATTTTAA
8465 TATTTT-A
1 TATTTTAA
8472 TATTTTATA
1 TATTTTA-A
*
8481 TATTTTAT
1 TATTTTAA
8489 TATT
1 TATT
8493 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:17074 original size:8 final size:8
Alignment explanation
Indices: 17063--17092 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
17053 ATTTTATACT
17063 TTTTTATA
1 TTTTTATA
17071 TTTTTATA
1 TTTTTATA
17079 TGTTTTATA
1 T-TTTTATA
17088 TTTTT
1 TTTTT
17093 TTAATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:17092 original size:17 final size:18
Alignment explanation
Indices: 17054--17092 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
17044 CTTAATAAAA
*
17054 TTTTATACTTTTTTATAT
1 TTTTATACTGTTTTATAT
17072 TTTTATA-TGTTTTATAT
1 TTTTATACTGTTTTATAT
17089 TTTT
1 TTTT
17093 TTAATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTATACTGTTTTATAT
Found at i:17095 original size:10 final size:9
Alignment explanation
Indices: 17054--17093 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
17044 CTTAATAAAA
17054 TTTTATACTT
1 TTTTATA-TT
17064 TTTTATA-T
1 TTTTATATT
*
17072 TTTTATATG
1 TTTTATATT
17081 TTTTATATT
1 TTTTATATT
17090 TTTT
1 TTTT
17094 TAATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 8 0.30
9 12 0.44
10 7 0.26
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTATATT
Found at i:17111 original size:27 final size:27
Alignment explanation
Indices: 17045--17111 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
17035 TTTTTACGAC
17045 TTAATAAAATTTTATACTTTTTTATATT
1 TTAAT-AAATTTTATACTTTTTTATATT
* ** *
17073 TTTATATGTTTTATATTTTTTTA-ATT
1 TTAATAAATTTTATACTTTTTTATATT
17099 TATAATAAATTTT
1 T-TAATAAATTTT
17112 TAATAGTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 4 0.13
27 23 0.74
28 4 0.13
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTAATAAATTTTATACTTTTTTATATT
Found at i:17361 original size:86 final size:88
Alignment explanation
Indices: 17188--17412 Score: 226
Period size: 86 Copynumber: 2.6 Consensus size: 88
17178 AATTTTTAAT
* ** * *
17188 AAAAGC-AAGGGCTTAATTACTTTTTTGAAAAAATTTGAGGATCTTTTTGATGTATTTTGAAAAT
1 AAAAGCTAGGGGCTTAATTGTTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGAATTTTGAAAAT
** *
17252 TCAAGTACTCAATTGAGTAC-AA
66 TCAAGTACTCAAACGAATACAAA
* ** **
17274 AAAAG-TAGGGGCTTAATTGTTTTTTTTAAAAGGTTTGAGGGTCTTTTTGATGAATTTTGAATGT
1 AAAAGCTAGGGGCTTAATTGTTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGAATTTTGAAAAT
*
17338 TCAAGTA-TCCAAACGAATGCAAAAA
66 TCAAGTACT-CAAACGAAT--ACAAA
** *
17363 AAAAGCTAGGGATTTAATTGCTTTTTTTGAAAAACTTTGAGGG-CTTTTTG
1 AAAAGCTAGGGGCTTAATTG-TTTTTTTGAAAAAATTTGAGGGTCTTTTTG
17413 CACCCTTAAG
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
85 1 0.01
86 66 0.58
88 1 0.01
89 7 0.06
90 19 0.17
91 19 0.17
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (88 bp):
AAAAGCTAGGGGCTTAATTGTTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGAATTTTGAAAAT
TCAAGTACTCAAACGAATACAAA
Found at i:17727 original size:32 final size:32
Alignment explanation
Indices: 17648--17727 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
17638 AGTTTGTCCG
*
17648 TTGAACTTGTCT-AAAAGTACTTAGTTGGTAC
1 TTGAACTTGTCTAAAAAGTACCTAGTTGGTAC
* * *
17679 TTGAATTTATCCAAAAAGTACCTAGTTGGTA-
1 TTGAACTTGTCTAAAAAGTACCTAGTTGGTAC
*
17710 TCTGAACTTGTTTAAAAA
1 T-TGAACTTGTCTAAAAA
17728 AATATATACC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
31 10 0.26
32 29 0.74
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (32 bp):
TTGAACTTGTCTAAAAAGTACCTAGTTGGTAC
Found at i:26643 original size:20 final size:19
Alignment explanation
Indices: 26596--26643 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
26586 TAAAATTAAA
*
26596 AAAAT-AATAATAATTTTT
1 AAAATAAATAATAATCTTT
*
26614 ATAAAAAAATAATACATCTTT
1 A-AAATAAATAATA-ATCTTT
26635 AAAATAAAT
1 AAAATAAAT
26644 GAAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 14 0.58
21 6 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATAAATAATAATCTTT
Found at i:37775 original size:89 final size:90
Alignment explanation
Indices: 37667--37837 Score: 254
Period size: 89 Copynumber: 1.9 Consensus size: 90
37657 CATTTTACCC
* * *
37667 GAAATGAGAAAGACTATAGTTGAAAGATACTATGACATTAAAT-CAAAATGAATAAGACTATAGT
1 GAAATGAGAAAGACCATAGTTGAAAGATACTATGACATTAAATCCAAAACGAATAAGACCATAGT
37731 TGAAAGATACTATGGCACTAAACTA
66 TGAAAGATACTATGGCACTAAACTA
* * * * *
37756 GAAATGTGTAAGACCATAGTTGAAAGATACTATGGCATTAAATCCGATACGAATAAGACCATAGT
1 GAAATGAGAAAGACCATAGTTGAAAGATACTATGACATTAAATCCAAAACGAATAAGACCATAGT
*
37821 TGAAATATACTATGGCA
66 TGAAAGATACTATGGCA
37838 TCACATTGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 39 0.54
90 33 0.46
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (90 bp):
GAAATGAGAAAGACCATAGTTGAAAGATACTATGACATTAAATCCAAAACGAATAAGACCATAGT
TGAAAGATACTATGGCACTAAACTA
Found at i:37776 original size:45 final size:45
Alignment explanation
Indices: 37621--37907 Score: 214
Period size: 45 Copynumber: 6.4 Consensus size: 45
37611 CCTTGGATCG
* * ** *
37621 AGAAATGAGAAAGACCAT-GATTGAAAGATA-TCATGGCATTTTACC
1 AGAAATGAGTAAGACCATAG-TTGAAAGATACT-ATGGCACTAAATC
* * * * *
37666 CGAAATGAGAAAGACTATAGTTGAAAGATACTATGACATTAAATC
1 AGAAATGAGTAAGACCATAGTTGAAAGATACTATGGCACTAAATC
* *
37711 A-AAATGAATAAGACTATAGTTGAAAGATACTATGGCACTAAA-C
1 AGAAATGAGTAAGACCATAGTTGAAAGATACTATGGCACTAAATC
* *
37754 TAGAAATGTGTAAGACCATAGTTGAAAGATACTATGGCATTAAATC
1 -AGAAATGAGTAAGACCATAGTTGAAAGATACTATGGCACTAAATC
* * * * * *
37800 CGATACGAATAAGACCATAGTTGAAATATACTATGGCA-TCACAT-
1 AGAAATGAGTAAGACCATAGTTGAAAGATACTATGGCACT-AAATC
* * **
37844 TGATAATGA-TCGAA-ACCATAGTTGAAAGATACTGTGGCACTACTTC
1 AGA-AATGAGT--AAGACCATAGTTGAAAGATACTATGGCACTAAATC
*
37890 GGAAATGCA-TAAGACCAT
1 AGAAATG-AGTAAGACCAT
37908 GGTTAGAAGA
Statistics
Matches: 200, Mismatches: 29, Indels: 26
0.78 0.11 0.10
Matches are distributed among these distances:
43 1 0.00
44 44 0.22
45 145 0.73
46 10 0.05
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (45 bp):
AGAAATGAGTAAGACCATAGTTGAAAGATACTATGGCACTAAATC
Found at i:37902 original size:90 final size:90
Alignment explanation
Indices: 37667--37907 Score: 249
Period size: 90 Copynumber: 2.7 Consensus size: 90
37657 CATTTTACCC
* * * * * * *
37667 GAAATGAGAAAGACTATAGTTGAAAGATACTATGACATTAAAT-CAAAATGAATAAGACTATAGT
1 GAAATGTGTAAGACCATAGTTGAAAGATACTATGGCACTAAATCCGAAATGAATAAGACCATAGT
37731 TGAAAGATACTATGGCACTAAACTA
66 TGAAAGATACTATGGCACTAAACTA
* * *
37756 GAAATGTGTAAGACCATAGTTGAAAGATACTATGGCATTAAATCCGATACGAATAAGACCATAGT
1 GAAATGTGTAAGACCATAGTTGAAAGATACTATGGCACTAAATCCGAAATGAATAAGACCATAGT
* * *
37821 TGAAATATACTATGGCA-T-CACATT
66 TGAAAGATACTATGGCACTAAAC-TA
* ** * *
37845 GATAATGATCG-AA-ACCATAGTTGAAAGATACTGTGGCACTACTTCGGAAATGCATAAGACCAT
1 GA-AATG-T-GTAAGACCATAGTTGAAAGATACTATGGCACTAAATCCGAAATGAATAAGACCAT
37908 GGTTAGAAGA
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
88 2 0.02
89 43 0.34
90 79 0.62
91 3 0.02
92 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (90 bp):
GAAATGTGTAAGACCATAGTTGAAAGATACTATGGCACTAAATCCGAAATGAATAAGACCATAGT
TGAAAGATACTATGGCACTAAACTA
Found at i:43300 original size:13 final size:12
Alignment explanation
Indices: 43275--43308 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
43265 ATAGATTGAG
43275 TTTAAATATGAA
1 TTTAAATATGAA
43287 TTTAAATAATGAA
1 TTTAAAT-ATGAA
*
43300 TTTAGATAT
1 TTTAAATAT
43309 TTGGATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (12 bp):
TTTAAATATGAA
Found at i:45206 original size:13 final size:14
Alignment explanation
Indices: 45188--45216 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45178 AGTATATACT
45188 TTGAAATTT-TATG
1 TTGAAATTTATATG
45201 TTGAAATTTATATG
1 TTGAAATTTATATG
45215 TT
1 TT
45217 TCAGGAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (14 bp):
TTGAAATTTATATG
Found at i:45915 original size:13 final size:13
Alignment explanation
Indices: 45880--45917 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
45870 TTTCTCGTTA
45880 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
45893 CTTATGAAAAGTG
1 CTTTTGAAAAGTG
*
45906 CTTTTAAAAAGT
1 CTTTTGAAAAGT
45918 TTGATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:46140 original size:21 final size:20
Alignment explanation
Indices: 46111--46151 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
46101 ACATATGAAA
*
46111 TATAAATTTGGAATATAATTT
1 TATAAATTTGAAATA-AATTT
*
46132 TATATATTTGAAATAAATTT
1 TATAAATTTGAAATAAATTT
46152 CAATAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TATAAATTTGAAATAAATTT
Found at i:46219 original size:26 final size:28
Alignment explanation
Indices: 46167--46224 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
46157 ACAAATAATT
*
46167 ATATACTTAATATAAATATTACATAAA-
1 ATATACTTAATATAAATATAACATAAAG
*
46194 ATATA-TTAATATAAATA-AAGATTAAAG
1 ATATACTTAATATAAATATAACA-TAAAG
46221 ATAT
1 ATAT
46225 CATTTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 16 0.59
27 9 0.33
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (28 bp):
ATATACTTAATATAAATATAACATAAAG
Found at i:55920 original size:15 final size:15
Alignment explanation
Indices: 55900--55929 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55890 GCCTGGGTAA
*
55900 AATTATTTAAGTGTT
1 AATTATTTAAATGTT
55915 AATTATTTAAATGTT
1 AATTATTTAAATGTT
55930 TGTTTTTCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (15 bp):
AATTATTTAAATGTT
Found at i:60394 original size:15 final size:15
Alignment explanation
Indices: 60374--60429 Score: 89
Period size: 14 Copynumber: 3.9 Consensus size: 15
60364 CGATGAATTT
60374 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
60389 ATTGAAATTAT-TTG
1 ATTGAATTTATATTG
60403 ATTGAATTTATATTG
1 ATTGAATTTATATTG
60418 ATTGAA-TTATAT
1 ATTGAATTTATAT
60430 AATATACATG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 19 0.50
15 19 0.50
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:60406 original size:29 final size:27
Alignment explanation
Indices: 60370--60427 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
60360 TATGCGATGA
60370 ATTTATTGAATTTATATTGATTGAAATT
1 ATTTATTGAATTTATATTGATTG-AATT
60398 ATTTGATTGAATTTATATTGATTGAATT
1 ATTT-ATTGAATTTATATTGATTGAATT
60426 AT
1 AT
60428 ATAATATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
ATTTATTGAATTTATATTGATTGAATT
Found at i:60839 original size:23 final size:23
Alignment explanation
Indices: 60813--60887 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
60803 AGACACTTTA
60813 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
60836 TGTGTCGTA--TCAAGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
60857 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
60878 TGTGTCGTAT
1 TGTGTCGTAT
60888 ACTGATCAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 33 0.75
22 2 0.05
23 9 0.20
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:62604 original size:26 final size:26
Alignment explanation
Indices: 62568--62619 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
62558 CTTGTTTCAT
62568 GAATAAATGTTACACTCATTTCTTAA
1 GAATAAATGTTACACTCATTTCTTAA
* *
62594 GAATAAATGTTGCACTTATTTCTTAA
1 GAATAAATGTTACACTCATTTCTTAA
62620 TGGTTTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (26 bp):
GAATAAATGTTACACTCATTTCTTAA
Found at i:64929 original size:10 final size:10
Alignment explanation
Indices: 64916--64943 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
64906 CTAAAATTAT
64916 TAAAAAAATA
1 TAAAAAAATA
64926 TAAAAAAATA
1 TAAAAAAATA
64936 TAAAAAAA
1 TAAAAAAA
64944 ACAGGGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:65241 original size:23 final size:22
Alignment explanation
Indices: 65198--65255 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
65188 AAAAGGTATC
* *
65198 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
65219 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
65242 TGCATATCATATCT
1 TACAAATCATATCT
65256 AAGACTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:65249 original size:17 final size:19
Alignment explanation
Indices: 65234--65305 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
65224 AATCATATCT
65234 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
65253 TCTAAGACTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
65271 TCTAATATT--ATATCATA
1 TCTAAGATTGCATATCATA
*
65288 TCTAAGATTACATATCAT
1 TCTAAGATTGCATATCAT
65306 TGAAGATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.30
18 13 0.28
19 18 0.39
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:65461 original size:20 final size:19
Alignment explanation
Indices: 65414--65461 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
65404 TGGACTGAAC
*
65414 TTGGACTT-TGTTTTTTTT
1 TTGGACTTATATTTTTTTT
**
65432 TTGGGTTTATATTTTTATTT
1 TTGGACTTATATTTTT-TTT
65452 TTGGACTTAT
1 TTGGACTTAT
65462 TTCTGGGCCC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 11 0.48
ACGTcount: A:0.12, C:0.04, G:0.17, T:0.67
Consensus pattern (19 bp):
TTGGACTTATATTTTTTTT
Found at i:65777 original size:44 final size:45
Alignment explanation
Indices: 65661--65928 Score: 285
Period size: 45 Copynumber: 5.9 Consensus size: 45
65651 CGATATCTAC
* * *
65661 TATCTTTGATCTGCTCCCCGTCTAATACAAAAATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
*
65706 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTG-T
* *
65752 T-T-TTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
65795 TATCTCCGATTTGCTCCCCGTCTAATACAGAGATGTCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * * * * *
65840 CATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGCT
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTG-T
*
65886 ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 -TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
65929 ATCTTGGATC
Statistics
Matches: 182, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
43 8 0.04
44 43 0.24
45 98 0.54
46 3 0.02
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:65820 original size:89 final size:89
Alignment explanation
Indices: 65669--65838 Score: 277
Period size: 89 Copynumber: 1.9 Consensus size: 89
65659 ACTATCTTTG
*
65669 ATCTGCTCCCCGTCTAATACAAAAATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAAAAATGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
65734 AGAGACGCCAAATCTGCTTTTTCA
66 AGAGACGCCAAATCTGCTTTTTCA
* * * *
65758 ATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAAAAATGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
* *
65823 AGAGATGTCAAATCTG
66 AGAGACGCCAAATCTG
65839 TCATCTTGGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAAAAATGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTTTTCA
Found at i:66004 original size:78 final size:78
Alignment explanation
Indices: 65868--66318 Score: 663
Period size: 78 Copynumber: 5.8 Consensus size: 78
65858 ATGTAAACAC
65868 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
65933 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
65946 ATAAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
66010 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
66024 ATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATAAACAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
66089 TGGATCAGCTTCA
66 TGGATCTGCTTCA
* * * * ** *
66102 ATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCTCAGTCGAATATGGAAATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
66167 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
66180 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCCGTATAATACAGATG-TGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGA-GATGCCAAATCATC
*
66244 TTGGATCTACTTCA
65 TTGGATCTGCTTCA
* * **
66258 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
66319 TGTTTCTTCG
Statistics
Matches: 331, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
77 3 0.01
78 326 0.98
79 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:66641 original size:220 final size:220
Alignment explanation
Indices: 66260--67069 Score: 1336
Period size: 220 Copynumber: 3.7 Consensus size: 220
66250 CTACTTCAAT
*
66260 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * * * *
66325 TTCGATTTGTTCTCTGATAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATCCGCTTCAGCGTAAACACC
* *
66390 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTCAACGCAATGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
* *
66455 GATCTACTTCGATGTGAAAACATCT
196 GATCTACTTCGATGTGAAGACATCC
* *
66480 GAAGGTTATATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
*
66545 TTCGATTTGTTCTCTGACAATACAGAGAT-TCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
66 TTCGATTTGTTCTCTGACAATACAGAGATGT-CAAATCATCTTAGATCCGCTTCAGCGTAAACAC
*
66609 GTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTT
130 CTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTT
66674 GGATCTACTTCGATGTGAAGACATCC
195 GGATCTACTTCGATGTGAAGACATCC
*
66700 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * *
66765 TTTGATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTTTGATCCGCTTCAGCGTAAACACC
66 TTCGATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATCCGCTTCAGCGTAAACACC
*
66830 TG-AAGACCAAATCTGCTATGTCTTCTATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTT
131 TGAAAG-CCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTT
*
66894 GGATTTACTTCGATGTGAAGACATCC
195 GGATCTACTTCGATGTGAAGACATCC
66920 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * * * *
66985 TTTGATTTGTTCTCTGAAAATACAGAGATGTTAAATCATCTTGGATCCGTTTCAGCGTAAACACC
66 TTCGATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATCCGCTTCAGCGTAAACACC
* * *
67050 TGAAGGTCAAATCTGTTATG
131 TGAAAGCCAAATCTGCTATG
67070 CTTTAGCCTG
Statistics
Matches: 559, Mismatches: 27, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
219 3 0.01
220 553 0.99
221 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTTAGATCCGCTTCAGCGTAAACACC
TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAGACATCC
Found at i:75058 original size:18 final size:19
Alignment explanation
Indices: 75035--75070 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75025 GATATGATAC
*
75035 TAAAAT-TATTAAAAAATT
1 TAAAATATATAAAAAAATT
75053 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
75071 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATATATAAAAAAATT
Found at i:75359 original size:22 final size:22
Alignment explanation
Indices: 75324--75381 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
75314 AAAAGGTATC
* *
75324 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
75345 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
75368 TGCATATCATATCT
1 TACAAATCATATCT
75382 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:75384 original size:19 final size:19
Alignment explanation
Indices: 75360--75415 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
75350 AATCATATCT
75360 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
75379 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
75398 TCTAAGTTTGCATATCAT
1 TCTAAGATTGCATATCAT
75416 TGAAGATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:75422 original size:36 final size:36
Alignment explanation
Indices: 75353--75423 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 36
75343 ATTACAAAAT
*
75353 CATATCTTCTAAGATTGCATATCATATCTAAGATTG
1 CATATCTTCTAAGATTGCATATCATATCGAAGATTG
*
75389 CATATCATATCTAAGTTTGCATATCAT-T-GAAGATT
1 CATATC-T-TCTAAGATTGCATATCATATCGAAGATT
75424 ATATTTCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 12 0.39
37 2 0.06
38 17 0.55
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (36 bp):
CATATCTTCTAAGATTGCATATCATATCGAAGATTG
Found at i:75571 original size:21 final size:20
Alignment explanation
Indices: 75534--75572 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
75524 TTGGACTTCG
**
75534 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
75554 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
75573 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:81162 original size:13 final size:12
Alignment explanation
Indices: 81133--81160 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
81123 AAATAATTAT
81133 AAAAGGGAAAAA
1 AAAAGGGAAAAA
81145 AAAAGGGAAAAA
1 AAAAGGGAAAAA
81157 AAAA
1 AAAA
81161 AGTAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAGGGAAAAA
Found at i:84536 original size:29 final size:30
Alignment explanation
Indices: 84493--84572 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
84483 TATTAAGAAT
84493 ACAATCAATTAAGCCCCTAATTGAAAATTG
1 ACAATCAATTAAGCCCCTAATTGAAAATTG
* ** *
84523 -CAATAAATTAAGCCATTAATTGAAAGTTG
1 ACAATCAATTAAGCCCCTAATTGAAAATTG
* *
84552 ACAATCAATTGAGCTCCTAAT
1 ACAATCAATTAAGCCCCTAAT
84573 ATATATATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.29
Consensus pattern (30 bp):
ACAATCAATTAAGCCCCTAATTGAAAATTG
Found at i:86620 original size:85 final size:86
Alignment explanation
Indices: 86469--86639 Score: 265
Period size: 85 Copynumber: 2.0 Consensus size: 86
86459 TTAGATAAAA
*
86469 ATATTTGCAATTATTGCCACTTGTTGTGAGTGCACAACATGATTGCAGATTAAACAAACTGCCAC
1 ATATTTGCAATTATTGCCACTTGTTATGAGTGCACAACATGATTGCAGATTAAACAAACTGCCAC
86534 TGG-GTTTGTGGACGAGCCAC
66 TGGAGTTTGTGGACGAGCCAC
* * * *
86554 ATATTTGCAGTTATTGCCGCTTGTTATGAGTGCACAACAT-ATTTGCAGATTAAACAAATTGTCA
1 ATATTTGCAATTATTGCCACTTGTTATGAGTGCACAACATGA-TTGCAGATTAAACAAACTGCCA
*
86618 CTGGATTTTGTGGACGAGCCAC
65 CTGGAGTTTGTGGACGAGCCAC
86640 CACTTGTTTG
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
84 1 0.01
85 61 0.78
86 16 0.21
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (86 bp):
ATATTTGCAATTATTGCCACTTGTTATGAGTGCACAACATGATTGCAGATTAAACAAACTGCCAC
TGGAGTTTGTGGACGAGCCAC
Found at i:88575 original size:14 final size:14
Alignment explanation
Indices: 88551--88592 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
88541 TGGTAATTCT
88551 AATATTATAAAAATA
1 AATATT-TAAAAATA
*
88566 ATTATTT-AAAATA
1 AATATTTAAAAATA
*
88579 AATATTCAAAAATA
1 AATATTTAAAAATA
88593 TATAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 11 0.48
14 7 0.30
15 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATTTAAAAATA
Found at i:93572 original size:24 final size:23
Alignment explanation
Indices: 93544--93616 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 23
93534 ACAGAGGTAA
93544 ACATAGTAATAAATAATTTATAAT
1 ACATAGTAATAAAT-ATTTATAAT
93568 ACATAAGT-ATAAATA-TTATGAAT
1 ACAT-AGTAATAAATATTTAT-AAT
* *
93591 AACATAATAATAAATTATATATAAT
1 -ACATAGTAATAAA-TATTTATAAT
93616 A
1 A
93617 TAAAAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
22 4 0.10
23 6 0.15
24 20 0.49
25 8 0.20
26 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
ACATAGTAATAAATATTTATAAT
Found at i:93607 original size:22 final size:23
Alignment explanation
Indices: 93582--93634 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
93572 AAGTATAAAT
*
93582 ATTATGA-ATAACATAATAATAA
1 ATTATGATATAACATAAAAATAA
*
93604 ATTAT-ATATAATATAAAAATAA
1 ATTATGATATAACATAAAAATAA
*
93626 ATAATGATA
1 ATTATGATA
93635 ATAGTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.85
23 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
ATTATGATATAACATAAAAATAA
Found at i:96203 original size:21 final size:21
Alignment explanation
Indices: 96179--96222 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
96169 TAAAATTTTG
*
96179 AAATGT-ATTTTTATATTATTT
1 AAATGTAATTTTTAT-TAATTT
*
96200 AAATTTAATTTTTATTAATTT
1 AAATGTAATTTTTATTAATTT
96221 AA
1 AA
96223 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AAATGTAATTTTTATTAATTT
Found at i:96232 original size:22 final size:22
Alignment explanation
Indices: 96184--96232 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
96174 TTTTGAAATG
*
96184 TATTTTTATATTATTTAAATTT
1 TATTTTTATATAATTTAAATTT
* *
96206 AATTTTTAT-TAATTTAATTTTT
1 TATTTTTATATAATTTAA-ATTT
96228 TATTT
1 TATTT
96233 ATTAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTATATAATTTAAATTT
Found at i:97231 original size:181 final size:181
Alignment explanation
Indices: 96922--97290 Score: 612
Period size: 181 Copynumber: 2.0 Consensus size: 181
96912 CAGTATGAAA
* *
96922 CAAACTTGTATTGCATTGTCCACAATGGAAGTTGAGTTTACGAGAACTTTTCTTGCAGTGCAAGA
1 CAAATTTGTATTGCATTGTCCACAATGGAAGTTGAGTTTACGAGAACTTTTATTGCAGTGCAAGA
* * * *
96987 GGTTGTCTAGCTTAAATAATTCTTGAATCATTTGGGATTCTGTAGCACTCCTCACCCAACCCGGT
66 GGTTGCCTAGCTTAAATAATTCTTAAATCATTTGGGATTCTATAGCACTCCTCACCCAACCCGGG
* *
97052 CACTGGGTCTGAGCTACAGGATGCTACATTTGTTGTCGGAGCACCCACCGT
131 CACTGGGTCCGAGCTACAGAATGCTACATTTGTTGTCGGAGCACCCACCGT
* ** *
97103 CAAATTTGTATTGTATTGTCCACAATGGAAGTTGAGTTTGTGAGAATTTTTATTGCAGTGCAAGA
1 CAAATTTGTATTGCATTGTCCACAATGGAAGTTGAGTTTACGAGAACTTTTATTGCAGTGCAAGA
*
97168 GGTTGCCTAGCTTAAATAATTCTTAAATCATTTGGGATTCTATAGCACTCCTCGCCCAACCCGGG
66 GGTTGCCTAGCTTAAATAATTCTTAAATCATTTGGGATTCTATAGCACTCCTCACCCAACCCGGG
*
97233 CACTGGGTCCGAGCTATAGAATGCTACATTTGTTGTCGGAGCACCCACCGT
131 CACTGGGTCCGAGCTACAGAATGCTACATTTGTTGTCGGAGCACCCACCGT
97284 CAAATTT
1 CAAATTT
97291 ACATAAAATA
Statistics
Matches: 174, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
181 174 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (181 bp):
CAAATTTGTATTGCATTGTCCACAATGGAAGTTGAGTTTACGAGAACTTTTATTGCAGTGCAAGA
GGTTGCCTAGCTTAAATAATTCTTAAATCATTTGGGATTCTATAGCACTCCTCACCCAACCCGGG
CACTGGGTCCGAGCTACAGAATGCTACATTTGTTGTCGGAGCACCCACCGT
Found at i:99414 original size:9 final size:9
Alignment explanation
Indices: 99400--99425 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
99390 GAAAAAATAA
99400 TAATTTTTT
1 TAATTTTTT
99409 TAATTTTTT
1 TAATTTTTT
99418 TAATTTTT
1 TAATTTTT
99426 AATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TAATTTTTT
Found at i:99605 original size:21 final size:20
Alignment explanation
Indices: 99565--99612 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
99555 TTAAATTAAA
99565 AAAAATTCAAAAAATTATTT
1 AAAAATTCAAAAAATTATTT
99585 AAAAATAT-AAAAAATTAATTT
1 AAAAAT-TCAAAAAATT-ATTT
*
99606 TAAAATT
1 AAAAATT
99613 TTAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAAAATTATTT
Found at i:100196 original size:138 final size:138
Alignment explanation
Indices: 100034--100311 Score: 547
Period size: 138 Copynumber: 2.0 Consensus size: 138
100024 AGGTTCAAAG
100034 TAATGAGAACTTAGGACTGAATTTTCAAAAGCCAAAAAAGTTGGATTGAGAATAAAAATAAAAAG
1 TAATGAGAACTTAGGACTGAATTTTCAAAAGCCAAAAAAGTTGGATTGAGAATAAAAATAAAAAG
100099 GAAAATACTTGGAAAAGTTGATGAACCTTCTAACCCAAGTAAACCCAAATTTCAGTTGTACTTTT
66 GAAAATACTTGGAAAAGTTGATGAACCTTCTAACCCAAGTAAACCCAAATTTCAGTTGTACTTTT
100164 TGATCTTA
131 TGATCTTA
*
100172 TAATGAGAACTTAGGACTGAATTTTCAAAAGCCAAAAAATTTGGATTGAGAATAAAAATAAAAAG
1 TAATGAGAACTTAGGACTGAATTTTCAAAAGCCAAAAAAGTTGGATTGAGAATAAAAATAAAAAG
100237 GAAAATACTTGGAAAAGTTGATGAACCTTCTAACCCAAGTAAACCCAAATTTCAGTTGTACTTTT
66 GAAAATACTTGGAAAAGTTGATGAACCTTCTAACCCAAGTAAACCCAAATTTCAGTTGTACTTTT
100302 TGATCTTA
131 TGATCTTA
100310 TA
1 TA
100312 TAGAAACAAC
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 139 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (138 bp):
TAATGAGAACTTAGGACTGAATTTTCAAAAGCCAAAAAAGTTGGATTGAGAATAAAAATAAAAAG
GAAAATACTTGGAAAAGTTGATGAACCTTCTAACCCAAGTAAACCCAAATTTCAGTTGTACTTTT
TGATCTTA
Found at i:104213 original size:17 final size:17
Alignment explanation
Indices: 104190--104237 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
104180 AGAAAATTTG
104190 ACTTTTTATAATTTATA
1 ACTTTTTATAATTTATA
*
104207 TCTTTTTA-AATTTTATA
1 ACTTTTTATAA-TTTATA
*
104224 AATTTTTATAATTT
1 ACTTTTTATAATTT
104238 TAAGGAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 22 0.85
18 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (17 bp):
ACTTTTTATAATTTATA
Found at i:104238 original size:25 final size:24
Alignment explanation
Indices: 104193--104240 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
104183 AAATTTGACT
**
104193 TTTTATAATTTATATCTTTTTAAA
1 TTTTATAATTTATATAATTTTAAA
*
104217 TTTTATAAATTTTTATAATTTTAA
1 TTTTAT-AATTTATATAATTTTAA
104241 GGAGTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATAATTTATATAATTTTAAA
Found at i:105939 original size:21 final size:22
Alignment explanation
Indices: 105914--105956 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
105904 TTAATTTCTA
105914 CAAATATTAAAATA-TTAATAT
1 CAAATATTAAAATATTTAATAT
*
105935 CAAATATTATAATATTTAATAT
1 CAAATATTAAAATATTTAATAT
105957 TATTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
CAAATATTAAAATATTTAATAT
Found at i:106107 original size:13 final size:13
Alignment explanation
Indices: 106082--106128 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
106072 AAAATTAACT
106082 ATAATAATT-TTAA
1 ATAAT-ATTATTAA
106095 ATAATATTATT-A
1 ATAATATTATTAA
106107 AT-ATATTATTAA
1 ATAATATTATTAA
*
106119 AAAATATTAT
1 ATAATATTAT
106129 GTTAACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 8 0.27
13 14 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATATTATTAA
Found at i:106124 original size:24 final size:22
Alignment explanation
Indices: 106083--106128 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
106073 AAATTAACTA
*
106083 TAATAATTTTAAATAATATTAT
1 TAATAATTTTAAAAAATATTAT
106105 TAATATATTATTAAAAAATATTAT
1 TAATA-ATT-TTAAAAAATATTAT
106129 GTTAACATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 3 0.14
24 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATTTTAAAAAATATTAT
Found at i:109432 original size:10 final size:10
Alignment explanation
Indices: 109419--109463 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
109409 TAAAACTTTT
109419 AAAAATTC-A
1 AAAAATTCAA
109428 AAAAATAT-ATA
1 AAAAAT-TCA-A
109439 AAAAATTCAA
1 AAAAATTCAA
109449 AAAAATTCAA
1 AAAAATTCAA
109459 AAAAA
1 AAAAA
109464 AGTAGAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.19
10 18 0.56
11 8 0.25
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAATTCAA
Found at i:113662 original size:12 final size:12
Alignment explanation
Indices: 113645--113677 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
113635 CAATCCGCCC
113645 ATATTAATTTTT
1 ATATTAATTTTT
113657 ATATT-ATTTTT
1 ATATTAATTTTT
113668 ATA-TAATTTT
1 ATATTAATTTT
113678 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:113834 original size:30 final size:30
Alignment explanation
Indices: 113799--113857 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
113789 CAATTTAACA
*
113799 AGCAAATGT-TTCTAAAATAATAACAAAATT
1 AGCAAATGTCTT-TAAAATAATAAAAAAATT
113829 AGCAAATGTCTTTAAAATAATAAAAAAAT
1 AGCAAATGTCTTTAAAATAATAAAAAAAT
113858 AACAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (30 bp):
AGCAAATGTCTTTAAAATAATAAAAAAATT
Found at i:113917 original size:22 final size:22
Alignment explanation
Indices: 113892--113934 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
113882 TATCAAAACA
113892 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* **
113914 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
113935 AATATAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:113938 original size:11 final size:11
Alignment explanation
Indices: 113899--113938 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
113889 ACAATAACAA
113899 CAAAATAGTAG
1 CAAAATAGTAG
* *
113910 CAATATAATAG
1 CAAAATAGTAG
*
113921 TAAAATAGTAG
1 CAAAATAGTAG
113932 CAAAATA
1 CAAAATA
113939 TAAGAAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.23
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:119451 original size:21 final size:22
Alignment explanation
Indices: 119414--119460 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
119404 GTGATAAACG
*
119414 AATAGATGAATAAATTAATAAT
1 AATAGATGAAAAAATTAATAAT
119436 AATAGAT-AAAAAATTAATAAT
1 AATAGATGAAAAAATTAATAAT
119457 AATA
1 AATA
119461 AAGGCGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (22 bp):
AATAGATGAAAAAATTAATAAT
Found at i:119565 original size:16 final size:16
Alignment explanation
Indices: 119541--119573 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
119531 AAGAATTAAA
119541 ATATATATATACATAT
1 ATATATATATACATAT
*
119557 ATATGTATATACATAT
1 ATATATATATACATAT
119573 A
1 A
119574 GCAAATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATATATATACATAT
Found at i:121377 original size:45 final size:45
Alignment explanation
Indices: 121237--121377 Score: 151
Period size: 45 Copynumber: 3.2 Consensus size: 45
121227 AGTCTACTCC
* * * *
121237 ACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACT-TGCCCT
1 ACTGCAACTTCAGGGGGATAAGGCTTGTAACTTTAACTCTGCCCT
* * *
121281 ACTGAAACTTCAGAGGGATAAGGACTCGTAACTTTAAC-CTGCCCT
1 ACTGCAACTTCAGGGGGATAAGG-CTTGTAACTTTAACTCTGCCCT
* * * * *
121326 ATTGCAACTTCAGGGGGATAAGGTTTATAGCTTTAACTCTGCTCT
1 ACTGCAACTTCAGGGGGATAAGGCTTGTAACTTTAACTCTGCCCT
121371 ACTGCAA
1 ACTGCAA
121378 TTTTAGAGAG
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
44 29 0.37
45 50 0.63
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (45 bp):
ACTGCAACTTCAGGGGGATAAGGCTTGTAACTTTAACTCTGCCCT
Found at i:121614 original size:88 final size:88
Alignment explanation
Indices: 121465--122364 Score: 1178
Period size: 88 Copynumber: 10.3 Consensus size: 88
121455 GCCCCACTGT
* * ** ** *
121465 AACTTCAGGGAGATAAGGTTTGTGGCTTC-AATCGCTCCAATGCCATTTCAGGCAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
*
121529 GTAGCTTCGATCTACTCCGTTGG
66 GTAGCTTCGATCTACTCCGCTGG
* * * *
121552 AACTTCAAGGAGATAAGAATTGTGGCTTTGAGCCGTTCCAATACCATTTCAGGGAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
* *
121617 GTAGCTTCGATCTACTCCACTAG
66 GTAGCTTCGATCTACTCCGCTGG
* *
121640 AACTTCAAGGAGATACAAATTGTGGCTTCGAGTCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
*
121705 GTAGCCTCGATCTACTCCGCAT-G
66 GTAGCTTCGATCTACTCCGC-TGG
** * * * * *
121728 AACTTCAAAAAGATACGAATTGCGGCTTCGAGCTGTTCCAATGCCATTTCAGGGAGAACAGTTTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
*
121793 GTAGCCTCGATCTACTCCGCTGG
66 GTAGCTTCGATCTACTCCGCTGG
*
121816 AACTTCAAGGAGATACGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
* * * *
121881 ATAGTTTCAATCTACTCCGCT-A
66 GTAGCTTCGATCTACTCCGCTGG
* ** * * *
121903 AACTTCAAAGAGATAAAAATTGTGGCTTCGAGCCGCTCTAATACCATTTCAAGGAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
* *
121968 GTAGCTTTGATCTACTCCGCTGA
66 GTAGCTTCGATCTACTCCGCTGG
* * * * * *
121991 AACTTCAAGGAGATACGAACTGTGGCTTCGAGCCGTTTCAATACAATATCAGGGAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
* * * *
122056 GTAGCCTCGATCTACTCTGATGA
66 GTAGCTTCGATCTACTCCGCTGG
* ** * * *
122079 AACTTCAAGGAGATACCAATTGTGGCTTCGAATCGCTCCAATGCCATTTTAAGGAGAAGGGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
* *
122144 GTAGCCTCGATCTACTCCACTGG
66 GTAGCTTCGATCTACTCCGCTGG
* *
122167 AACTTCAAAGAGATACGAACTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
*
122232 -TAGCTTCGATCTACTCTGCTGG
66 GTAGCTTCGATCTACTCCGCTGG
* *
122254 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTTCAATGTCATTTCAGGGAGAAGAGATTT
1 AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
* *
122319 GTAGCTTCAATCTCCTCCGCTGG
66 GTAGCTTCGATCTACTCCGCTGG
**
122342 AACTTCAATTAGATACGAATTGT
1 AACTTCAAGGAGATACGAATTGT
122365 TGATTTCAAC
Statistics
Matches: 705, Mismatches: 103, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
87 181 0.26
88 523 0.74
89 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (88 bp):
AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
GTAGCTTCGATCTACTCCGCTGG
Found at i:121670 original size:44 final size:45
Alignment explanation
Indices: 121527--122284 Score: 190
Period size: 44 Copynumber: 17.3 Consensus size: 45
121517 CAGAAGAGAT
** *
121527 TTGTAGCTTCGATCTACTCCGTTGGAACTTCAAGGAGATA-AGAA
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
* * * *** ** * * * *
121571 TTGTGGCTTTGAGCCGTTCCAATACCATTTCAGGGAGA-AGAGAT
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
*
121615 TTGTAGCTTCGATCTACTCCACTAGAACTTCAAGGAGATACA-AA
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
* * * * * * *
121659 TTGTGGCTTCGAGTC-GCTCCAAT-GCCATTTCAGGGAGA-AGAGAT
1 TTGTAGCTTCGA-TCTACTCCAATAG-AACTTCAAGGAGATACAGAA
* * **
121703 TTGTAGCCTCGATCTACTCCGCAT-GAACTTCAAAAAGATAC-GAA
1 TTGTAGCTTCGATCTACTCC-AATAGAACTTCAAGGAGATACAGAA
** * ** * * * **
121747 TTGCGGCTTCGAGCTGTTCCAAT-GCCATTTCAGGGAGA-ACAGTT
1 TTGTAGCTTCGATCTACTCCAATAG-AACTTCAAGGAGATACAGAA
* ** *
121791 TTGTAGCCTCGATCTACTCCGCTGGAACTTCAAGGAGATAC-GAA
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
* * * ** * * * * *
121835 TTGTGGCTTCAAGCCGCTCCAAT-GCCATTTCAGGGAGA-AGAGAT
1 TTGTAGCTTCGATCTACTCCAATAG-AACTTCAAGGAGATACAGAA
* * * ** * *
121879 TTATAGTTTCAATCTACTCCGCTA-AACTTCAAAGAGATA-AAAA
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
* * ** * ** * * *
121922 TTGTGGCTTCGAGCCGCTCTAATACCATTTCAAGGAGA-AGAGAT
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
* **
121966 TTGTAGCTTTGATCTACTCCGCT-GAAACTTCAAGGAGATAC-GAA
1 TTGTAGCTTCGATCTACTCCAATAG-AACTTCAAGGAGATACAGAA
* * * *** * * * * *
122010 CTGTGGCTTCGAGCCGTTTCAATACAA-TATCAGGGAGA-AGAGAT
1 TTGTAGCTTCGATCTACTCCAATAGAACT-TCAAGGAGATACAGAA
* ** *
122054 TTGTAGCCTCGATCTACTCTGAT-GAAACTTCAAGGAGATAC-CAA
1 TTGTAGCTTCGATCTACTCCAATAG-AACTTCAAGGAGATACAGAA
* * * * * ** *
122098 TTGTGGCTTCGAATC-GCTCCAAT-GCCATTTTAAGGAGA-AGGGAT
1 TTGTAGCTTCG-ATCTACTCCAATAG-AACTTCAAGGAGATACAGAA
* * * *
122142 TTGTAGCCTCGATCTACTCCACTGGAACTTCAAAGAGATAC-GAA
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
* * * ** * * * *
122186 CTGTGGCTTCGAGCCGCTCCAAT-GCCATTTCAGGGAGA-AGAG-A
1 TTGTAGCTTCGATCTACTCCAATAG-AACTTCAAGGAGATACAGAA
* *** *
122229 TTTTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAC-GAA
1 TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
*
122273 TTGTGGCTTCGA
1 TTGTAGCTTCGA
122285 GCCGCTTCAA
Statistics
Matches: 472, Mismatches: 206, Indels: 72
0.63 0.27 0.10
Matches are distributed among these distances:
43 73 0.15
44 380 0.81
45 19 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (45 bp):
TTGTAGCTTCGATCTACTCCAATAGAACTTCAAGGAGATACAGAA
Found at i:122045 original size:263 final size:261
Alignment explanation
Indices: 121508--122364 Score: 1169
Period size: 263 Copynumber: 3.3 Consensus size: 261
121498 GCTCCAATGC
* * * *
121508 CATTTCAGGCAGAAGAGATTTGTAGCTTCGATCTACTCCGTTGGAACTTCAAGGAGATAAGAATT
1 CATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
** * *
121573 GTGGCTTTGAGCCGTTCCAATACCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT
66 GTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT
* *
121638 AGAACTTCAAGGAGATACAAATTGTGGCTTCGAGTCGCTCCAATGCCATTTCAGGGAGAAGAGAT
131 A-AACTTCAAAGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGAT
* ** * * *
121703 TTGTAGCCTCGATCTACTCCGCATGAACTTCAAAAAGATACGAATTGCGGCTTCGAGCTGTTCCA
195 TTGTAGCTTCGATCTACTCCGC-TGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGTTTCA
*
121768 ATGC
259 AT-A
* *
121772 CATTTCAGGGAGAACAGTTTTGTAGCCTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
1 CATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
* * * *
121837 GTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGTTTCAATCTACTCCGCT
66 GTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT
* * * *
121902 AAACTTCAAAGAGATAAAAATTGTGGCTTCGAGCCGCTCTAATACCATTTCAAGGAGAAGAGATT
131 AAACTTCAAAGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATT
* *
121967 TGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAGATACGAACTGTGGCTTCGAGCCGTTTCAA
196 TGTAGCTTCGATCTACTCCGCTG-AACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGTTTCAA
122032 TA
260 TA
* * * * *
122034 CAATATCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCTGATGAAACTTCAAGGAGATACCAAT
1 C-ATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAAT
* * * * *
122099 TGTGGCTTCGAA-TCGCTCCAATGCCATTTTAAGGAGAAGGGATTTGTAGCCTCGATCTACTCCA
65 TGTGGCTTC-AAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCA
* * *
122163 CTGGAACTTCAAAGAGATACGAACTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAG
129 CT-AAACTTCAAAGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAG
* *
122228 ATTT-TAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTT
193 ATTTGTAGCTTCGATCTACTCCGCT-GAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGTTT
*
122292 CAATGT
257 CAAT-A
* * * **
122298 CATTTCAGGGAGAAGAGATTTGTAGCTTCAATCTCCTCCGCTGGAACTTCAATTAGATACGAATT
1 CATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
122363 GT
66 GT
122365 TGATTTCAAC
Statistics
Matches: 520, Mismatches: 67, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
262 3 0.01
263 337 0.65
264 180 0.35
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (261 bp):
CATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATT
GTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT
AAACTTCAAAGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATT
TGTAGCTTCGATCTACTCCGCTGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGTTTCAAT
A
Found at i:122108 original size:351 final size:351
Alignment explanation
Indices: 121458--122360 Score: 1242
Period size: 351 Copynumber: 2.6 Consensus size: 351
121448 TCTACCTGCC
* * * ** * *
121458 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCAA-TCGCTCCAATGCCATTTCAGGCAGAA
1 CCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAA
* *
121522 GAGATTTGTAGCTTCGATCTACTCCGTTGGAACTTCAAGGAGATAAGAATTGTGGCTTTGAGCCG
66 GAGATTT-TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAGCCG
* * *
121587 TTCCAATACCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT-AGAACTTCAAGGA
130 CTCTAATACCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGA-AACTTCAAGGA
* * * * * *
121651 GATACAAATTGTGGCTTCGAGTCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGAT
194 GATACGAACTGTGGCTTCGAGCCGCTCCAATACAATATCAGGGAGAAGAGATTTGTAGCCTCGAT
* * * *
121716 CTACTCCGCATGAACTTCAAAAAGATACGAATTGCGGCTTCG-AGCTGTTCCAATGCCATTTCAG
259 CTACTCCGCATGAACTTCAAAAAGATACCAATTGCGGCTTCGAATC-GCTCCAATGCCATTTCAA
*
121780 GGAGAACAGTTTTGTAGCCTCGATCTACT
323 GGAGAACAGATTTGTAGCCTCGATCTACT
*
121809 CCGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAA
1 CCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAA
* * * * *
121874 GAGATTTATAGTTTCAATCTACTCCGCT-AAACTTCAAAGAGATAAAAATTGTGGCTTCGAGCCG
66 GAGATTT-TAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAGCCG
* *
121938 CTCTAATACCATTTCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAACTTCAAGGAG
130 CTCTAATACCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAG
* *
122003 ATACGAACTGTGGCTTCGAGCCGTTTCAATACAATATCAGGGAGAAGAGATTTGTAGCCTCGATC
195 ATACGAACTGTGGCTTCGAGCCGCTCCAATACAATATCAGGGAGAAGAGATTTGTAGCCTCGATC
* ** * *
122068 TACTCTG-ATGAAACTTCAAGGAGATACCAATTGTGGCTTCGAATCGCTCCAATGCCATTTTAAG
260 TACTCCGCATG-AACTTCAAAAAGATACCAATTGCGGCTTCGAATCGCTCCAATGCCATTTCAAG
**
122132 GAGAAGGGATTTGTAGCCTCGATCTACT
324 GAGAACAGATTTGTAGCCTCGATCTACT
* * *
122160 CCACTGGAACTTCAAAGAGATACGAACTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAA
1 CCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAA
* *
122225 GAGATTTTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCGC
66 GAGATTTTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGC
** * * * **
122290 T-TCAATGTCATTTCAGGGAGAAGAGATTTGTAGCTTCAATCTCCTCCGCTGGAACTTCAATTAG
131 TCT-AATACCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAG
122354 ATACGAA
195 ATACGAA
122361 TTGTTGATTT
Statistics
Matches: 485, Mismatches: 61, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
350 21 0.04
351 413 0.85
352 51 0.11
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (351 bp):
CCACTGGAACTTCAAGGAGATACGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAA
GAGATTTTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGC
TCTAATACCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGA
TACGAACTGTGGCTTCGAGCCGCTCCAATACAATATCAGGGAGAAGAGATTTGTAGCCTCGATCT
ACTCCGCATGAACTTCAAAAAGATACCAATTGCGGCTTCGAATCGCTCCAATGCCATTTCAAGGA
GAACAGATTTGTAGCCTCGATCTACT
Found at i:122239 original size:43 final size:43
Alignment explanation
Indices: 122191--122326 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 43
122181 ACGAACTGTG
122191 GCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTTA
1 GCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTTA
* ** *** ** * * * *
122234 GCTTCGATCTACTCTGCTGGAACTTCAAGGAGATACGA-ATTGTG
1 GCTTCGAGCCGCTCCAATGCCATTTCAGGGAGA-A-GAGATTTTA
* *
122278 GCTTCGAGCCGCTTCAATGTCATTTCAGGGAGAAGAGATTTGTA
1 GCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT-TA
122322 GCTTC
1 GCTTC
122327 AATCTCCTCC
Statistics
Matches: 64, Mismatches: 25, Indels: 7
0.67 0.26 0.07
Matches are distributed among these distances:
42 2 0.03
43 27 0.42
44 33 0.52
45 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (43 bp):
GCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTTA
Found at i:122500 original size:44 final size:44
Alignment explanation
Indices: 122453--123104 Score: 227
Period size: 44 Copynumber: 14.9 Consensus size: 44
122443 AAATTTGTTA
* *
122453 TCTTCGATCTGCTCCACTACTGCTGAGGGAGATAAGATCTACAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAG
* * * * * **
122497 TCTT-TAGCTTACTCCACTACTGCTTAGGAAGATAGGA--TAGTG
1 TCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACAG
* * * ** * *
122539 GC-TCAAATCTGCTCCACTACTACTTAGGGAGGCAAGAT-TCGCCG
1 TCTTC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAG
* *
122583 TCTTCGAT-TAGCTCCACTACTGCTTAAGGAGATAAGATCTACAA
1 TCTTCGATCT-GCTCCACTACTGCTTAGGGAGATAAGATCTACAG
* * * *
122627 TCTTC-AGCTTACTCCACTACTGCTTAGGGAGATAGGATGGT---G
1 TCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGAT-CTACAG
* ** * *
122669 GCTTAAATCTACTCCACTACTGCTTAGGGAGACAAGATTCGT-C-G
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-TC-TACAG
* ** *
122713 TCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAG
* * * * * *
122757 TTTTCGGTCTGTTACC-CTACTACTTAGGG-GATTAAG-GCTCACGG
1 TCTTCGATCTGCT-CCACTACTGCTTAGGGAGA-TAAGATCT-ACAG
* * * ** *
122801 TCTTCGATCTACTCCGCTACTGCTTAAGGAGATAAGATCTGTAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAG
* * * * * * * *
122845 T-TTCCAGCCTGTTACC-CTACTGTTTAGGGGGTTAAG-GCTCACCG
1 TCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCT-ACAG
* * * * * *
122889 TCTTCTATCTGCTCCGCTACTGCATAAGGAGATAAGATCTATAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAG
** * * * * * * *
122933 T-TTTTAGCCTGTTACC-CTACTGCTTAAGGTGTTAAG-GCTCACCG
1 TCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCT-ACAG
* * * *
122977 TCTTCGATCTGCTTCACTACTGCATAGGGAGATAAGATCTATAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAG
** * * * * * *
123021 T-TTTTAGCTTGTTACC-CTACTGCTTAGGGGGTTAAG-GCTCACCG
1 TCTTCGATC-TGCT-CCACTACTGCTTAGGGAGATAAGATCT-ACAG
* **
123065 TCTTCAATCTGCTCTGCTACTGCTTAGGGAGATAAGATCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
123105 GTAATCTTCA
Statistics
Matches: 428, Mismatches: 139, Indels: 81
0.66 0.21 0.12
Matches are distributed among these distances:
41 1 0.00
42 55 0.13
43 41 0.10
44 299 0.70
45 32 0.07
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAG
Found at i:122554 original size:130 final size:130
Alignment explanation
Indices: 122378--122752 Score: 563
Period size: 130 Copynumber: 2.9 Consensus size: 130
122368 TTTCAACCTG
* * * *
122378 CTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATATGCTCCACTACTGCTTAGGAAAACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * ** * *
122443 AAATTTGTTATCTTCGATCTGCTCCACTACTGCTGAGGGAGATAAGATCTACAATCTTTAGCTTA
66 AGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCTTA
* * * * *
122508 CTCCACTACTGCTTAGGAAGATAGGATAGTGGCTCAAATCTGCTCCACTACTACTTAGGGAGGCA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* *
122573 AGATTCGCCGTCTTCGAT-TAGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAGCTT
66 AGATTCGTCGTCTTCGATCT-GCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCTT
122637 A
130 A
*
122638 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
*
122703 AGATTCGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCT
66 AGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
122753 GTAATTTTCG
Statistics
Matches: 217, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
129 1 0.00
130 215 0.99
131 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (130 bp):
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
AGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCTTA
Found at i:122695 original size:42 final size:44
Alignment explanation
Indices: 122378--122750 Score: 178
Period size: 44 Copynumber: 8.6 Consensus size: 44
122368 TTTCAACCTG
* * * * *
122378 CTCCACTACTGTTTAGGGAGATAGGA-TGGT-GGCTTAAATATG
1 CTCCACTACTGCTTAGGGAGATAAGATTCGTCGGCTTAAATCTA
* * * * * *** ** *
122420 CTCCACTACTGCTTAGGAAAACAAAATTTGTTATCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCGTCGGCTTAAATCTA
* ** * *
122464 CTCCACTACTGCTGAGGGAGATAAGA-TC-TACAATCTT-TAGCTTA
1 CTCCACTACTGCTTAGGGAGATAAGATTCGT-C-GGCTTAAATC-TA
* * * * *
122508 CTCCACTACTGCTTAGGAAGATAGGA-TAGT-GGCTCAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCGTCGGCTTAAATCTA
* ** * * **
122550 CTCCACTACTACTTAGGGAGGCAAGATTCGCCGTCTTCGAT-TA
1 CTCCACTACTGCTTAGGGAGATAAGATTCGTCGGCTTAAATCTA
* ** * *
122593 GCTCCACTACTGCTTAAGGAGATAAGA-TC-TACAATCTT-CAGCTTA
1 -CTCCACTACTGCTTAGGGAGATAAGATTCGT-C-GGCTTAAATC-TA
* *
122638 CTCCACTACTGCTTAGGGAGATAGGA-TGGT-GGCTTAAATCTA
1 CTCCACTACTGCTTAGGGAGATAAGATTCGTCGGCTTAAATCTA
* * ** *
122680 CTCCACTACTGCTTAGGGAGACAAGATTCGTCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATTCGTCGGCTTAAATCTA
*
122724 CTCTACTACTGCTTAGGGAGATAAGAT
1 CTCCACTACTGCTTAGGGAGATAAGAT
122751 CTGTAATTTT
Statistics
Matches: 245, Mismatches: 68, Indels: 34
0.71 0.20 0.10
Matches are distributed among these distances:
42 74 0.30
43 20 0.08
44 147 0.60
45 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATTCGTCGGCTTAAATCTA
Found at i:122806 original size:88 final size:87
Alignment explanation
Indices: 122711--123142 Score: 578
Period size: 88 Copynumber: 4.9 Consensus size: 87
122701 CAAGATTCGT
* *
122711 CGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTTCGGTCTGTTACCCTA
1 CGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG-CTGTTACCCTA
* *
122776 CTACTTAGGGGATTAAGGCTCAC
65 CTGCTTAGGGGGTTAAGGCTCAC
* * * * *
122799 GGTCTTCGATCTACTCCGCTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTACCCTA
1 CGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG-CTGTTACCCTA
*
122864 CTGTTTAGGGGGTTAAGGCTCAC
65 CTGCTTAGGGGGTTAAGGCTCAC
* * * * * *
122887 CGTCTTCTATCTGCTCCGCTACTGCATAAGGAGATAAGATCTATAATTTTTAGCCTGTTACCCTA
1 CGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG-CTGTTACCCTA
* *
122952 CTGCTTAAGGTGTTAAGGCTCAC
65 CTGCTTAGGGGGTTAAGGCTCAC
* * * *
122975 CGTCTTCGATCTGCT-TCACTACTGCATAGGGAGATAAGATCTATAATTTTTAGCTTGTTACCCT
1 CGTCTTCGATCTGCTCT-GCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGC-TGTTACCCT
123039 ACTGCTTAGGGGGTTAAGGCTCAC
64 ACTGCTTAGGGGGTTAAGGCTCAC
* *
123063 CGTCTTCAATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACCCTA
1 CGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGC-TGTTACCCTA
*
123128 TTGCTTAGGGGGTTA
65 CTGCTTAGGGGGTTA
123143 GGATGGTGGC
Statistics
Matches: 307, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.00
88 305 0.99
89 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (87 bp):
CGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTGTTACCCTAC
TGCTTAGGGGGTTAAGGCTCAC
Found at i:125698 original size:3 final size:3
Alignment explanation
Indices: 125623--125679 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
125613 TGTCTAACAC
* * *
125623 TAT TAT TTT TAT TTT TAT T-T T-T TA- TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125668 TAT TAT ATAT TA
1 TAT TAT -TAT TA
125680 GTGTATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:125713 original size:25 final size:25
Alignment explanation
Indices: 125667--125741 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
125657 ATTACTATTA
*
125667 TTATTATATATTAGTGTATATTTTT
1 TTATTATATATTAGTATATATTTTT
* *
125692 TTATTATATA-T-GTATATGTATTT
1 TTATTATATATTAGTATATATTTTT
* *
125715 ATATT-TATACATAGTAT-TATTTTT
1 TTATTATATA-TTAGTATATATTTTT
125739 TTA
1 TTA
125742 ATTACTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.10
23 13 0.32
24 9 0.22
25 14 0.35
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (25 bp):
TTATTATATATTAGTATATATTTTT
Found at i:125815 original size:149 final size:146
Alignment explanation
Indices: 125646--125919 Score: 367
Period size: 147 Copynumber: 1.8 Consensus size: 146
125636 TTTATTTTTT
* ** *
125646 ATATTATTATTATTACTATTATTATTATATATTAGTGT-ATATTTTTTTAT-TATATATGTATAT
1 ATATTATTACTATTACTATTATTATTAT-TATTA-T-TAATATTAGTGTATGTATATAT-TATAT
*
125709 -GTATTTATATTTATACATAGTATTATTTTTTTAATTACTTTATTTTAATATT-TCTATTATATT
62 AGTATATATATTTATACATAGTATTA--TTTTTAATTACTTTATTTTAATATTAT-TATTATATT
125772 ACATTTGCTTCTTTTGTATTTCA
124 ACATTTGCTTCTTTTGTATTTCA
* * *
125795 ATATTATTACTATTAGTATTATTATTATTATTATTAATATTAGTGTATGTTTTTATTATATAGGT
1 ATATTATTACTATTACTATTATTATTATTATTATTAATATTAGTGTATGTATATATTATATA-GT
*
125860 ATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTA
65 ATATATATTTATACATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTA
125920 TGTTTATGTT
Statistics
Matches: 111, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
146 1 0.01
147 50 0.45
148 11 0.10
149 49 0.44
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (146 bp):
ATATTATTACTATTACTATTATTATTATTATTATTAATATTAGTGTATGTATATATTATATAGTA
TATATATTTATACATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTACATTTG
CTTCTTTTGTATTTCA
Found at i:125817 original size:3 final size:3
Alignment explanation
Indices: 125796--126080 Score: 88
Period size: 3 Copynumber: 95.0 Consensus size: 3
125786 TGTATTTCAA
* * *
125796 TAT TAT TAC TAT TAG TAT TAT TAT TAT TAT TAT TAA TAT TAGT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT
* * *
125843 GT-T T-T TAT TAT ATAGG TA- TAT ATAT T-T ATAT ATAG TAT TAT TTT
1 -TAT TAT TAT TAT -TA-T TAT TAT -TAT TAT -TAT -TAT TAT TAT TAT
* *
125887 TAAT TAC T-T TAT T-T TAA TAT TAT TAT TA- TAT TAT GT-T TAT GT-T
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT
* * *
125930 TAT T-T TAT TTT TAT TAT T-T TAT T-T TTT GTAT T-T CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
125972 T-T CTAG TAT TAT TAT TAT TAT TAT TAG TA- TAT GTTT TAT TAT ATAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * *
126018 GTA- TAT ATAT T-T ATAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T
1 -TAT TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT
*
126061 TAA TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
126081 ATGCCTTCCT
Statistics
Matches: 213, Mismatches: 34, Indels: 70
0.67 0.11 0.22
Matches are distributed among these distances:
2 31 0.15
3 143 0.67
4 37 0.17
5 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:125962 original size:14 final size:14
Alignment explanation
Indices: 125929--125955 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
125919 ATGTTTATGT
125929 TTATTTTATTTTTA
1 TTATTTTATTTTTA
125943 TTATTTTATTTTT
1 TTATTTTATTTTT
125956 TGTATTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:126148 original size:160 final size:161
Alignment explanation
Indices: 125814--126157 Score: 443
Period size: 160 Copynumber: 2.1 Consensus size: 161
125804 CTATTAGTAT
* *
125814 TATTATTATTATTATTAATATTAGTGTATGTTTTTATTATATAGGTATATATATTTATATATAGT
1 TATTATTATTATTATTATTATTAGTATATGTTTTTATTATATAGGTATATATATTTATATATAGT
* ** * *
125879 ATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATGTTTATGTTTATTTTATTTTTAT
66 ATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATGCATGTCTATTTTATGTTTAT
* *
125944 TATTTTATTTTTTGTATTTCATTATTATTTC
131 TATTTTATTGTTTGTATTTCATTATAATTTC
* *
125975 TAGTATTATTATTATTATTATTAGTATATG-TTTTATTATATATGTATATATATTTATATATAGT
1 TATTATTATTATTATTATTATTAGTATATGTTTTTATTATATAGGTATATATATTTATATATAGT
* *
126039 ATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATGCCT-TCCT-TTTTGTGTTTA
66 ATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATGCATGT-CTATTTTATGTTTA
126102 TT-TATTTATTGTTT-TA-TT-ATTAACTAATTTAGC
130 TTAT-TTTATTGTTTGTATTTCATT-A-TAATTT--C
126135 -ATTATTAATTATTATTTATTATT
1 TATTATT-ATTATTA-TTATTATT
126158 GTCCTTGTTA
Statistics
Matches: 161, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
156 3 0.02
157 3 0.02
158 8 0.05
159 26 0.16
160 86 0.53
161 35 0.22
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (161 bp):
TATTATTATTATTATTATTATTAGTATATGTTTTTATTATATAGGTATATATATTTATATATAGT
ATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATGCATGTCTATTTTATGTTTAT
TATTTTATTGTTTGTATTTCATTATAATTTC
Found at i:126337 original size:14 final size:13
Alignment explanation
Indices: 126299--126328 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
126289 TATTGTTATT
*
126299 TTTTATTCTAATA
1 TTTTATTTTAATA
126312 TTTTATTTTAATA
1 TTTTATTTTAATA
126325 TTTT
1 TTTT
126329 TTCGTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTTAATA
Found at i:127985 original size:18 final size:19
Alignment explanation
Indices: 127962--128004 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
127952 ATATAATTTC
*
127962 TTTTTACCATTTGT-ATAT
1 TTTTTACCATTTCTAATAT
*
127980 TTTTTA-TATTTCTAATAT
1 TTTTTACCATTTCTAATAT
127998 TTTTTAC
1 TTTTTAC
128005 TAATTTCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTACCATTTCTAATAT
Found at i:129394 original size:21 final size:20
Alignment explanation
Indices: 129332--129398 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
129322 TCACACTGCT
* *
129332 GTGTGCCTCCTTTCACACGGGT
1 GTGTGCCT-C-TTCACATGGGC
* *
129354 GTGTGCTTCTTCAGATGGGC
1 GTGTGCCTCTTCACATGGGC
129374 GTGTGCCTCTTCCACATGGGC
1 GTGTGCCTCTT-CACATGGGC
129395 GTGT
1 GTGT
129399 AGACTTCCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 18 0.47
21 13 0.34
22 7 0.18
ACGTcount: A:0.09, C:0.27, G:0.31, T:0.33
Consensus pattern (20 bp):
GTGTGCCTCTTCACATGGGC
Found at i:131029 original size:17 final size:18
Alignment explanation
Indices: 131007--131041 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
130997 GTTTTTATAC
*
131007 CTTTTT-AATAATTTTTA
1 CTTTTTAAATAAATTTTA
131024 CTTTTTAAATAAATTTTA
1 CTTTTTAAATAAATTTTA
131042 TAATTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
CTTTTTAAATAAATTTTA
Found at i:131029 original size:18 final size:18
Alignment explanation
Indices: 130976--131041 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
130966 TGCAATTGAT
* *
130976 TAATTTTTAAATTTTTTTA
1 TAATTTTT-ACTTTTTTAA
* *
130995 TAGTTTTTATACCTTTTTAA
1 TA-ATTTT-TACTTTTTTAA
*
131015 TAATTTTTACTTTTTAAA
1 TAATTTTTACTTTTTTAA
*
131033 TAAATTTTA
1 TAATTTTTA
131042 TAATTTTTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
18 17 0.46
19 6 0.16
20 13 0.35
21 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (18 bp):
TAATTTTTACTTTTTTAA
Found at i:139851 original size:10 final size:10
Alignment explanation
Indices: 139838--139870 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
139828 ATTATTTTTA
139838 ATTATATATT
1 ATTATATATT
139848 ATTAT-TACTT
1 ATTATATA-TT
139858 ATTATATATT
1 ATTATATATT
139868 ATT
1 ATT
139871 TTTCTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATATATT
Found at i:139852 original size:20 final size:20
Alignment explanation
Indices: 139827--139887 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
139817 TTGTTATAAG
139827 TATTATTTTTAATTATATAT
1 TATTATTTTTAATTATATAT
*
139847 TATTATTACTT-ATTATATAT
1 TATTATT-TTTAATTATATAT
139867 TATT-TTTCTTAAATTAT-TAT
1 TATTATTT-TT-AATTATATAT
139887 T
1 T
139888 TTACATCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 4 0.11
20 24 0.69
21 7 0.20
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTATTTTTAATTATATAT
Found at i:139852 original size:37 final size:32
Alignment explanation
Indices: 139783--139890 Score: 87
Period size: 37 Copynumber: 3.2 Consensus size: 32
139773 TTTTATTCTA
*
139783 ATTTTACTTTTATATTATTTATTA-TAAA--ATT
1 ATTTTA-TTATATATTATTT-TTATTAAATTATT
*
139814 ATTTTGTTATAAGTATTATTTTTAATTATATATTATT
1 ATTTTATTAT-A-TATTATTTTT-ATTA-A-ATTATT
*
139851 ATTACTTATTATATATTATTTTTCTTAAATTATT
1 ATT--TTATTATATATTATTTTTATTAAATTATT
139885 ATTTTA
1 ATTTTA
139891 CATCTCTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
30 3 0.05
31 8 0.13
32 12 0.19
33 2 0.03
34 10 0.16
35 2 0.03
36 3 0.05
37 16 0.25
38 1 0.02
39 6 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (32 bp):
ATTTTATTATATATTATTTTTATTAAATTATT
Found at i:139948 original size:44 final size:43
Alignment explanation
Indices: 139837--139950 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
139827 TATTATTTTT
*
139837 AATTATATATTATT-ATTACTTAT-TATA-TATTATTTTTCTTA
1 AATTAT-TATTATTAATTACTTATATATATTATTATTTTTCATA
*
139878 AATTATTATT-TTACATCT-CTTTTATATATTATTATATTTTCATA
1 AATTATTATTATTA-AT-TACTTATATATATTATTAT-TTTTCATA
*
139922 TATTATGT-TTATTAATTACTTATATATAT
1 AATTAT-TATTATTAATTACTTATATATAT
139951 ATTGTTTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
39 2 0.03
40 4 0.07
41 12 0.20
42 5 0.08
43 7 0.12
44 26 0.43
45 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (43 bp):
AATTATTATTATTAATTACTTATATATATTATTATTTTTCATA
Found at i:140640 original size:16 final size:17
Alignment explanation
Indices: 140619--140652 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
140609 CATTTTTTTG
*
140619 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
140635 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
140652 C
1 C
140653 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:152255 original size:117 final size:117
Alignment explanation
Indices: 152011--152467 Score: 711
Period size: 115 Copynumber: 4.0 Consensus size: 117
152001 TTGAAGACAG
** *
152011 CAGATCTAGA-CTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTA
1 CAGATCTA-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTA
*
152075 CAA-GAAAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAAATA-A
65 CAAGGAAAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATA
152126 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
152191 AAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATA
66 AAGGAA-AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATA
152244 -AGATCTAACCTTCAGATGTTT-TACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
152307 AAGGAAAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAA
66 AAGGAAAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT-A
* * *
152360 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGAT--AAGATG-GTTGGCA-TCTTGTGCTTAC
1 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
* * *
152421 AAGGAACAAATCGA-GA-ATAGCAGATATGACTCTCAAATGTTCTCAAA
66 AAGGAA-AAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
152468 CAGACTCAAG
Statistics
Matches: 324, Mismatches: 10, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
113 28 0.09
114 20 0.06
115 119 0.37
116 58 0.18
117 85 0.26
118 14 0.04
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (117 bp):
CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
AAGGAAAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATA
Found at i:152514 original size:80 final size:80
Alignment explanation
Indices: 152396--152549 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 80
152386 TGAAGCAGAT
152396 AAGATGGTTGGCATCTTGTGCTTACAAGGAACAAATCGA-GA-ATAGCAGATATGACTCTCAAAT
1 AAGATGGTTGGCATCTTGT-CTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAT
152459 GTTCTCAAACAGACTC
65 GTTCTCAAACAGACTC
*
152475 AAGATGGATTTGGCATCCTTGT-TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAA
1 AAGATGG--TTGGCAT-CTTGTCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAA
152539 ATGTTCTCAAA
63 ATGTTCTCAAA
152550 TATAATGATT
Statistics
Matches: 69, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
79 7 0.10
80 18 0.26
81 9 0.13
82 35 0.51
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (80 bp):
AAGATGGTTGGCATCTTGTCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATG
TTCTCAAACAGACTC
Found at i:152697 original size:113 final size:115
Alignment explanation
Indices: 152474--152775 Score: 415
Period size: 113 Copynumber: 2.6 Consensus size: 115
152464 CAAACAGACT
*
152474 CAAGATGGATTTGGCATCC-T-TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTC
1 CAAGATAG-TTTGGCATCCTTGTGTTTACAAGGAACAAAT-GAGGACATAGCAGA-TTGACTCTC
*
152537 AAATGTTCTCAAATATAATGATTTAACCTTCAGATGTTTATACTGAAGCAGATC
63 -AATGTTCTCAAATATAATGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
* *
152591 CAAGAT-GATTTGGTATTCTTGTGTTTACAAGGAA-AAATAGAGGACAT-GCAGATTGACTCTCA
1 CAAGATAG-TTTGGCATCCTTGTGTTTACAAGGAACAAAT-GAGGACATAGCAGATTGACTCTCA
152653 GATGTTCTCAAATAT-A-GATCTAACCTTCAGATGTTTATACTGAAGCAGATC
64 -ATGTTCTCAAATATAATGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
* * *
152704 CAAGATAGTTTGGCATCCTTGTGCTTACAAGGAACAAATTAGGACGTAGCAGATTGACTCT-AAT
1 CAAGATAGTTTGGCATCCTTGTGTTTACAAGGAACAAATGAGGACATAGCAGATTGACTCTCAAT
152768 GTT-TCAAA
66 GTTCTCAAA
152776 ACAGATCAAA
Statistics
Matches: 170, Mismatches: 9, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
111 5 0.03
112 5 0.03
113 70 0.41
114 20 0.12
115 23 0.14
116 15 0.09
117 19 0.11
118 13 0.08
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (115 bp):
CAAGATAGTTTGGCATCCTTGTGTTTACAAGGAACAAATGAGGACATAGCAGATTGACTCTCAAT
GTTCTCAAATATAATGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
Found at i:152917 original size:78 final size:78
Alignment explanation
Indices: 152698--152918 Score: 285
Period size: 78 Copynumber: 2.8 Consensus size: 78
152688 TATACTGAAG
*
152698 CAGATCCAAGATAGTTTGGCATCCTTGTGCTTACAAGGAACAAAT-TAGGACGTAGCAGA-TTGA
1 CAGAT-CAAGAT-GTTTGGCAT-CTTGTGCTTACAAGGAACAAATCAAGGACGTAGCAGATTTGA
152761 CTCTAATGTTTCAAAA
63 CTCTAATGTTTCAAAA
* * *
152777 CAGATCAA-ATGATTGGCATCTTGTGCTTAAAAGGAACAAATCGAA-GACGTAGCAGATATGACT
1 CAGATCAAGATGTTTGGCATCTTGTGCTTACAAGGAACAAATC-AAGGACGTAGCAGATTTGACT
*
152840 CTCAATG-TTCTAAA
65 CT-AATGTTTCAAAA
152854 CAGACTCAAGATGGTTTGGC-TCTTGTGCTTACAAGGAAC-AATCAAGGACGTAGCAGATTTGAC
1 CAGA-TCAAGAT-GTTTGGCATCTTGTGCTTACAAGGAACAAATCAAGGACGTAGCAGATTTGAC
152917 TC
64 TC
152919 ACAGATATTC
Statistics
Matches: 126, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
75 21 0.17
76 19 0.15
77 22 0.17
78 33 0.26
79 25 0.20
80 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (78 bp):
CAGATCAAGATGTTTGGCATCTTGTGCTTACAAGGAACAAATCAAGGACGTAGCAGATTTGACTC
TAATGTTTCAAAA
Done.