Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 1 of 221
Found at i:9780 original size:9 final size:9
Alignment explanation
Indices: 9758--9838 Score: 126
Period size: 9 Copynumber: 8.9 Consensus size: 9
9748 ATTATGTAGT
*
9758 GGTTCAATTT
1 GGTT-AATTC
9768 GGTTAATTC
1 GGTTAATTC
9777 GGTTAATTC
1 GGTTAATTC
*
9786 GGGTAATTC
1 GGTTAATTC
*
9795 GGGTAATTC
1 GGTTAATTC
9804 GGTTAATTC
1 GGTTAATTC
9813 GGTTAATTC
1 GGTTAATTC
9822 GGTTAATTC
1 GGTTAATTC
9831 GGTTAATT
1 GGTTAATT
9839 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
9 64 0.94
10 4 0.06
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (9 bp):
GGTTAATTC
Found at i:30253 original size:1 final size:1
Alignment explanation
Indices: 30247--30298 Score: 104
Period size: 1 Copynumber: 52.0 Consensus size: 1
30237 ATAGAAAACG
30247 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30299 AAGGCCAGCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:30394 original size:17 final size:17
Alignment explanation
Indices: 30369--30401 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30359 TACTTATTAT
*
30369 TGGGTTTTTTTTTTTTC
1 TGGGGTTTTTTTTTTTC
30386 TGGGGTTTTTTTTTTT
1 TGGGGTTTTTTTTTTT
30402 GTGCCTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.21, T:0.76
Consensus pattern (17 bp):
TGGGGTTTTTTTTTTTC
Found at i:43307 original size:31 final size:31
Alignment explanation
Indices: 43270--43340 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
43260 CCTTAAAATG
* *
43270 GGATATCCTCCAACCGG-AT-ACCCCTCGAATA
1 GGATATCC-CAAACCGGCATAACCCAT-GAATA
43301 GGATATCCCAAACCGGCATAACCCATGAATA
1 GGATATCCCAAACCGGCATAACCCATGAATA
43332 GGATATCCC
1 GGATATCCC
43341 TCCTCGGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 7 0.19
31 24 0.67
32 5 0.14
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.18
Consensus pattern (31 bp):
GGATATCCCAAACCGGCATAACCCATGAATA
Found at i:43407 original size:21 final size:22
Alignment explanation
Indices: 43381--43421 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43371 TCCATACATA
43381 CAAAAAAACTGAACC-GGACTC
1 CAAAAAAACTGAACCAGGACTC
**
43402 CAAAAATTCTGAACCAGGAC
1 CAAAAAAACTGAACCAGGAC
43422 GGAATATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (22 bp):
CAAAAAAACTGAACCAGGACTC
Found at i:43872 original size:16 final size:16
Alignment explanation
Indices: 43851--43883 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43841 TCAAAACCCT
43851 CCTACTTTCCCTTTTG
1 CCTACTTTCCCTTTTG
43867 CCTACTTTCCCTTTTG
1 CCTACTTTCCCTTTTG
43883 C
1 C
43884 TTTGCTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.39, G:0.06, T:0.48
Consensus pattern (16 bp):
CCTACTTTCCCTTTTG
Found at i:44413 original size:47 final size:47
Alignment explanation
Indices: 44346--44511 Score: 248
Period size: 47 Copynumber: 3.6 Consensus size: 47
44336 CATACCAAAC
* * *
44346 AACCCCCTAATCAAGCTTTATTACA-AGGAATATCTCTACATGATTCA
1 AACCACCTAATCAAGCTTTATTACATA-CAATATCTCTACCTGATTCA
44393 AACCACCTAATCAAGCTTTATTACATACAATATCTCTACCTGATTCA
1 AACCACCTAATCAAGCTTTATTACATACAATATCTCTACCTGATTCA
*
44440 AACCACCTAATCAAGCTTTATTACATACAATATCGCTACCTGATTC-
1 AACCACCTAATCAAGCTTTATTACATACAATATCTCTACCTGATTCA
*
44486 AGCTCACCTAATCAAGCTTTA-TACAT
1 AAC-CACCTAATCAAGCTTTATTACAT
44512 TAGGTCTAAT
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
46 7 0.06
47 104 0.93
48 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (47 bp):
AACCACCTAATCAAGCTTTATTACATACAATATCTCTACCTGATTCA
Found at i:47926 original size:21 final size:22
Alignment explanation
Indices: 47900--47946 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47890 CTCTGCTCAA
*
47900 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
47921 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
47943 ACTC
1 ACTC
47947 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:52610 original size:94 final size:94
Alignment explanation
Indices: 52449--52622 Score: 321
Period size: 94 Copynumber: 1.9 Consensus size: 94
52439 AGAAAAACTA
52449 GAACACAGAGTTCCATCTCGTAACATGTTTCAAGCTGAAGGAATGGCTAGCCAAGGTTGCAATAG
1 GAACACAGAGTTCCATCTCGTAACATGTTTCAAGCTGAAGGAATGGCTAGCCAAGGTTGCAATAG
52514 GTCCAGAAATACGGATGCACGGTGAGAAG
66 GTCCAGAAATACGGATGCACGGTGAGAAG
* **
52543 GAACACAGAGTTCCATCTTGTAACATGTTTCAAGCTGAAGGAATGGCTAGCCAAGGTTGCGGTAG
1 GAACACAGAGTTCCATCTCGTAACATGTTTCAAGCTGAAGGAATGGCTAGCCAAGGTTGCAATAG
52608 GTCCAGAAATACGGA
66 GTCCAGAAATACGGA
52623 GTCAGCCAAC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (94 bp):
GAACACAGAGTTCCATCTCGTAACATGTTTCAAGCTGAAGGAATGGCTAGCCAAGGTTGCAATAG
GTCCAGAAATACGGATGCACGGTGAGAAG
Found at i:66418 original size:16 final size:15
Alignment explanation
Indices: 66397--66453 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
66387 ACCCCAAGCC
66397 GGGATATCCCAAAAGT
1 GGGATATCCC-AAAGT
*
66413 GGGATATCCC-AAGCC
1 GGGATATCCCAAAG-T
66428 GGGATATCCCCAGAA-T
1 GGGATAT-CCCA-AAGT
66444 GGGATATCCC
1 GGGATATCCC
66454 TCGCTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 20 0.57
18 2 0.06
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (15 bp):
GGGATATCCCAAAGT
Found at i:66427 original size:31 final size:31
Alignment explanation
Indices: 66389--66453 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
66379 ACCCCTAGAC
66389 CCCAAGCCGGGATAT-CCCAAAAGTGGGATAT
1 CCCAAGCCGGGATATCCCCAAAA-TGGGATAT
*
66420 CCCAAGCCGGGATATCCCCAGAATGGGATAT
1 CCCAAGCCGGGATATCCCCAAAATGGGATAT
66451 CCC
1 CCC
66454 TCGCTGGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.15
Consensus pattern (31 bp):
CCCAAGCCGGGATATCCCCAAAATGGGATAT
Found at i:66433 original size:15 final size:15
Alignment explanation
Indices: 66389--66437 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
66379 ACCCCTAGAC
66389 CCCAAGCCGGGATAT
1 CCCAAGCCGGGATAT
*
66404 CCCAAAAG-TGGGATAT
1 CCC--AAGCCGGGATAT
66420 CCCAAGCCGGGATAT
1 CCCAAGCCGGGATAT
66435 CCC
1 CCC
66438 CAGAATGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 13 0.45
16 10 0.34
17 3 0.10
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (15 bp):
CCCAAGCCGGGATAT
Found at i:66526 original size:21 final size:21
Alignment explanation
Indices: 66496--66550 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
66486 CAAACACGTT
* *
66496 AAAAAT-CTGAACCGGTCACC
1 AAAAATACTGAACCGGCCACA
* *
66516 AAAACTGCTGAACCGGCCACA
1 AAAAATACTGAACCGGCCACA
66537 AAAAATACTGAACC
1 AAAAATACTGAACC
66551 AGGACGGGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAAATACTGAACCGGCCACA
Found at i:66960 original size:25 final size:24
Alignment explanation
Indices: 66912--66961 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
66902 TTAGATTATT
*
66912 ATTTTTTAAAAAACTAAAGTACAG
1 ATTTTTTAAAAAACTAAAGAACAG
66936 ATTTTTTAAGAAAACT-AAGAAACAG
1 ATTTTTTAA-AAAACTAAAG-AACAG
66961 A
1 A
66962 ATGTCACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (24 bp):
ATTTTTTAAAAAACTAAAGAACAG
Found at i:70098 original size:78 final size:78
Alignment explanation
Indices: 69969--70119 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
69959 GTAAACAAAG
* * *
69969 TCCATGGTGATCGCTATCAACATGATCACCAACTCTCCTAGCTGATGAGATCAAGGGATCATGGT
1 TCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATAAGATCAAGGGATCATGGT
70034 TTAATGGTCGAAC
66 TTAATGGTCGAAC
* * *
70047 TCCATGGTGATCATTATCAACATGATCACCGACTCTCCCAGCTGGTAAGATCAAGGGATCATGGT
1 TCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATAAGATCAAGGGATCATGGT
70112 TTAATGGT
66 TTAATGGT
70120 AGAATCTGAG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (78 bp):
TCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATAAGATCAAGGGATCATGGT
TTAATGGTCGAAC
Found at i:71723 original size:13 final size:15
Alignment explanation
Indices: 71705--71736 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
71695 TCCATCATCA
71705 GAAAAAGG-TC-ATT
1 GAAAAAGGTTCTATT
71718 GAAAAAGGTTCTATT
1 GAAAAAGGTTCTATT
71733 GAAA
1 GAAA
71737 CCTTGATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (15 bp):
GAAAAAGGTTCTATT
Found at i:76212 original size:31 final size:31
Alignment explanation
Indices: 76176--76240 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
76166 TGAAGGTTAG
76176 AATATCATTCACAAATCTCAAAATAAGTAGA
1 AATATCATTCACAAATCTCAAAATAAGTAGA
*
76207 AATATCATTCACAAATCTGAAAATAAGTAGA
1 AATATCATTCACAAATCTCAAAATAAGTAGA
76238 AAT
1 AAT
76241 CACAACTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.26
Consensus pattern (31 bp):
AATATCATTCACAAATCTCAAAATAAGTAGA
Found at i:77158 original size:158 final size:159
Alignment explanation
Indices: 76913--77260 Score: 644
Period size: 158 Copynumber: 2.2 Consensus size: 159
76903 AAAAATTCAA
76913 AATAAATTATAATTATTCAAAAATTTCAAATTAAAAATATATAAAAATTTCAAATAAATATTCAG
1 AATAAATTATAATTATTCAAAAATTTCAAATTAAAAATATATAAAAATTTCAAATAAATATTCAG
76978 AAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATAAAAAATGTGTTTTTTATTGTTC
66 AAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATAAAAAATGTGTTTTTTATTGTTC
*
77043 AGGTCATGTTTGGATTGAATTTAAATTTG
131 AGGTCATGTTTGGATTAAATTTAAATTTG
* * *
77072 ATTAAATTATAATTATTCAAAAATTTCAAATTAAAAATATGT-AAAATTTCAAATATATATTCAG
1 AATAAATTATAATTATTCAAAAATTTCAAATTAAAAATATATAAAAATTTCAAATAAATATTCAG
77136 AAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATAAAAAATGTGTTTTTTATTGTTC
66 AAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATAAAAAATGTGTTTTTTATTGTTC
*
77201 GGGTCATGTTTGGATTAAATTTAAATTTG
131 AGGTCATGTTTGGATTAAATTTAAATTTG
77230 AATAAATTATAATTATTCAAAAATTTCAAAT
1 AATAAATTATAATTATTCAAAAATTTCAAAT
77261 ATATATTCAG
Statistics
Matches: 183, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
158 143 0.78
159 40 0.22
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (159 bp):
AATAAATTATAATTATTCAAAAATTTCAAATTAAAAATATATAAAAATTTCAAATAAATATTCAG
AAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATAAAAAATGTGTTTTTTATTGTTC
AGGTCATGTTTGGATTAAATTTAAATTTG
Found at i:77171 original size:26 final size:26
Alignment explanation
Indices: 77121--77171 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
77111 TGTAAAATTT
*
77121 CAAATATATATTCAGAAATATAAAAG
1 CAAATATATATTCAAAAATATAAAAG
*
77147 CAAATATATGTTACAAAAATA-AAAA
1 CAAATATATATT-CAAAAATATAAAA
77172 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (26 bp):
CAAATATATATTCAAAAATATAAAAG
Found at i:77177 original size:26 final size:26
Alignment explanation
Indices: 77122--77178 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
77112 GTAAAATTTC
* *
77122 AAATATATATTCAGAAATATAAAAGC
1 AAATATATATTCAAAAATATAAAAGA
* *
77148 AAATATATGTTACAAAAATA-AAAATA
1 AAATATATATT-CAAAAATATAAAAGA
77174 AAATA
1 AAATA
77179 AAAAATGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (26 bp):
AAATATATATTCAAAAATATAAAAGA
Found at i:77261 original size:135 final size:135
Alignment explanation
Indices: 77114--77365 Score: 486
Period size: 135 Copynumber: 1.9 Consensus size: 135
77104 AAAAATATGT
77114 AAAATTTCAAATATATATTCAGAAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATA
1 AAAATTTCAAATATATATTCAGAAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATA
*
77179 AAAAATGTGTTTTTTATTGTTCGGGTCATGTTTGGATTAAATTTAAATTTGAATAAATTATAATT
66 AAAAATGTATTTTTTATTGTTCGGGTCATGTTTGGATTAAATTTAAATTTGAATAAATTATAATT
77244 ATTCA
131 ATTCA
77249 AAAATTTCAAATATATATTCAGAAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATA
1 AAAATTTCAAATATATATTCAGAAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATA
*
77314 AAAAATGTATTTTTTATTGTTCGGGTCATGTTTGGATTGAATTTAAATTTGA
66 AAAAATGTATTTTTTATTGTTCGGGTCATGTTTGGATTAAATTTAAATTTGA
77366 TGTTTTCTAT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 115 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (135 bp):
AAAATTTCAAATATATATTCAGAAATATAAAAGCAAATATATGTTACAAAAATAAAAATAAAATA
AAAAATGTATTTTTTATTGTTCGGGTCATGTTTGGATTAAATTTAAATTTGAATAAATTATAATT
ATTCA
Found at i:77306 original size:26 final size:26
Alignment explanation
Indices: 77256--77306 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
77246 TCAAAAATTT
*
77256 CAAATATATATTCAGAAATATAAAAG
1 CAAATATATATTCAAAAATATAAAAG
*
77282 CAAATATATGTTACAAAAATA-AAAA
1 CAAATATATATT-CAAAAATATAAAA
77307 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (26 bp):
CAAATATATATTCAAAAATATAAAAG
Found at i:77312 original size:26 final size:26
Alignment explanation
Indices: 77257--77313 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
77247 CAAAAATTTC
* *
77257 AAATATATATTCAGAAATATAAAAGC
1 AAATATATATTCAAAAATATAAAAGA
* *
77283 AAATATATGTTACAAAAATA-AAAATA
1 AAATATATATT-CAAAAATATAAAAGA
77309 AAATA
1 AAATA
77314 AAAAATGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (26 bp):
AAATATATATTCAAAAATATAAAAGA
Found at i:82683 original size:6 final size:6
Alignment explanation
Indices: 82674--82724 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
82664 TATAATAATA
** *
82674 AATATT AATATT AATATT AAATAAA AATAATT -ATATT AATATT AATTTT
1 AATATT AATATT AATATT -AATATT AAT-ATT AATATT AATATT AATATT
82723 AA
1 AA
82725 AAAAAACTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
5 3 0.08
6 29 0.78
7 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
AATATT
Found at i:82696 original size:31 final size:30
Alignment explanation
Indices: 82665--82730 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
82655 TTCAAAAAAT
*
82665 ATAATAATAA-ATATTAATATTAATATTAA
1 ATAAAAATAATATATTAATATTAATATTAA
*
82694 ATAAAAATAATTATATTAATATTAATTTTAA
1 ATAAAAATAA-TATATTAATATTAATATTAA
82725 A-AAAAA
1 ATAAAAA
82731 CTTCCCACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 9 0.27
30 5 0.15
31 19 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAAAAATAATATATTAATATTAATATTAA
Found at i:82701 original size:25 final size:26
Alignment explanation
Indices: 82667--82718 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
82657 CAAAAAATAT
82667 AATAATAAAT-ATTAATATTAATATTA
1 AATAATAAATAATT-ATATTAATATTA
82693 AATAA-AAATAATTATATTAATATTA
1 AATAATAAATAATTATATTAATATTA
82718 A
1 A
82719 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATAATAAATAATTATATTAATATTA
Found at i:92909 original size:14 final size:15
Alignment explanation
Indices: 92876--92910 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
92866 AAATTTAAGA
92876 AAAAATGAATATTGT
1 AAAAATGAATATTGT
* *
92891 AAAAATGAATGTTTT
1 AAAAATGAATATTGT
92906 AAAAA
1 AAAAA
92911 AACTTAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:98149 original size:9 final size:9
Alignment explanation
Indices: 98127--98207 Score: 126
Period size: 9 Copynumber: 8.9 Consensus size: 9
98117 ATTATGTAGT
*
98127 GGTTCAATTT
1 GGTT-AATTC
98137 GGTTAATTC
1 GGTTAATTC
98146 GGTTAATTC
1 GGTTAATTC
*
98155 GGGTAATTC
1 GGTTAATTC
*
98164 GGGTAATTC
1 GGTTAATTC
98173 GGTTAATTC
1 GGTTAATTC
98182 GGTTAATTC
1 GGTTAATTC
98191 GGTTAATTC
1 GGTTAATTC
98200 GGTTAATT
1 GGTTAATT
98208 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
9 64 0.94
10 4 0.06
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (9 bp):
GGTTAATTC
Found at i:126375 original size:73 final size:74
Alignment explanation
Indices: 126256--126398 Score: 189
Period size: 73 Copynumber: 1.9 Consensus size: 74
126246 CAAATAAGTT
* * * * * * * *
126256 TAACTTTGAACCTCGACTCTCATAGGTGTCAAGGTTCGTTTAATATTTTTATTATTTTC-TTCTT
1 TAACTTTGAACATCGACTCTCAAAGATGTCAAGGTCCATTTAATATTTTTACTACTTTCTTTATT
126320 TTTAATGTC
66 TTTAATGTC
* *
126329 TAACTTTGAACATTGACTCTCAAAGATGTCGAGGTCCATTTAATATTTTTACTACTTTCTTTATT
1 TAACTTTGAACATCGACTCTCAAAGATGTCAAGGTCCATTTAATATTTTTACTACTTTCTTTATT
126394 TTTAA
66 TTTAA
126399 GTTTGACTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
73 50 0.85
74 9 0.15
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (74 bp):
TAACTTTGAACATCGACTCTCAAAGATGTCAAGGTCCATTTAATATTTTTACTACTTTCTTTATT
TTTAATGTC
Found at i:138376 original size:57 final size:57
Alignment explanation
Indices: 138308--138419 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
138298 AATAAGAACC
* * * *
138308 ATTGGTAGAGGCTATCATGGTTTGGTTTTGTTCAGTTAGAAGGTCTACCTTCGTAAG
1 ATTGGTAGAGGCTATCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACATTCGTAAG
*
138365 ATTGGTAGAGGCTGTCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACATTCGTA
1 ATTGGTAGAGGCTATCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACATTCGTA
138420 TCTACCAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (57 bp):
ATTGGTAGAGGCTATCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACATTCGTAAG
Found at i:143701 original size:16 final size:16
Alignment explanation
Indices: 143680--143712 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
143670 AATAAAAGGG
143680 TAAAAGAAAGTCAAGA
1 TAAAAGAAAGTCAAGA
143696 TAAAAGAAAGTCAAGA
1 TAAAAGAAAGTCAAGA
143712 T
1 T
143713 CTACTTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (16 bp):
TAAAAGAAAGTCAAGA
Found at i:144446 original size:17 final size:17
Alignment explanation
Indices: 144421--144460 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
144411 CATTTTCTAG
*
144421 TTTTCCTTTCTCCTTTT
1 TTTTTCTTTCTCCTTTT
* *
144438 TTTTTCTTTTTTCTTTT
1 TTTTTCTTTCTCCTTTT
144455 TTTTTC
1 TTTTTC
144461 CTGATGACGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTCTCCTTTT
Found at i:150743 original size:40 final size:41
Alignment explanation
Indices: 150681--150757 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 41
150671 AGACTAAAAT
*
150681 ATGTGTAAGTTTATTATATATATTATAAT-ATAAAATCGTA
1 ATGTGTAAGTATATTATATATATTATAATAATAAAATCGTA
*
150721 ATGTTTAAGTATA-TATATTATATTATAATAATAAAAT
1 ATGTGTAAGTATATTATA-TATATTATAATAATAAAAT
150758 AAGTAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 4 0.12
40 22 0.67
41 7 0.21
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (41 bp):
ATGTGTAAGTATATTATATATATTATAATAATAAAATCGTA
Found at i:155638 original size:17 final size:17
Alignment explanation
Indices: 155616--155668 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
155606 TTTTTATGCT
*
155616 TTATATATATTATTTTA
1 TTATATATATTATTATA
155633 TTATATATTATATATTATA
1 TTATATA-TAT-TATTATA
155652 TTATAT-TA-TATTATA
1 TTATATATATTATTATA
155667 TT
1 TT
155669 GTATTCTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.27
17 9 0.27
18 3 0.09
19 12 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATATATTATTATA
Found at i:155643 original size:24 final size:24
Alignment explanation
Indices: 155619--155662 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
155609 TTATGCTTTA
155619 TATATATTAT-TT-TATTATATAT
1 TATATATTATATTATATTATATAT
155641 TATATATTATATTATATTATAT
1 TATATATTATATTATATTATAT
155663 TATATTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATATTATATTATATTATATAT
Found at i:155644 original size:5 final size:5
Alignment explanation
Indices: 155616--155682 Score: 72
Period size: 5 Copynumber: 14.2 Consensus size: 5
155606 TTTTTATGCT
155616 TTATA -TATA TTAT- TT-TA TTATA -TAT- TATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
* *
155662 TTATA TTGTA TTCTA TTATA T
1 TTATA TTATA TTATA TTATA T
155683 AAGTAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
3 1 0.02
4 11 0.21
5 40 0.75
6 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:157742 original size:30 final size:31
Alignment explanation
Indices: 157705--157771 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
157695 TTTTATTTAC
*
157705 TTAAGTTGTTATGTCTATATGTCAAGTAGGA
1 TTAAGTTGTTATGTCTACATGTCAAGTAGGA
157736 -TAAGTTGTTATGTCTACATGTCAAGTAGGA
1 TTAAGTTGTTATGTCTACATGTCAAGTAGGA
157766 TTAAGT
1 TTAAGT
157772 ATATAAATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.40
Consensus pattern (31 bp):
TTAAGTTGTTATGTCTACATGTCAAGTAGGA
Found at i:158284 original size:25 final size:25
Alignment explanation
Indices: 158256--158304 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
158246 TTATTTTGGC
*
158256 TTTTA-TTCTCCTAGTTAAACTCTAT
1 TTTTAGTTCTCC-ACTTAAACTCTAT
*
158281 TTTTAGTTTTCCACTTAAACTCTA
1 TTTTAGTTCTCCACTTAAACTCTA
158305 ATTAACCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTTAGTTCTCCACTTAAACTCTAT
Found at i:159058 original size:18 final size:17
Alignment explanation
Indices: 158983--159064 Score: 69
Period size: 18 Copynumber: 4.8 Consensus size: 17
158973 TCCATATGTT
158983 TTTTTATACACATTTATAA
1 TTTTTATA-A-ATTTATAA
* *
159002 -CTTTATAAATTTGTAA
1 TTTTTATAAATTTATAA
* * *
159018 TTTTTTTATATTTATGGA
1 TTTTTATAAATTTAT-AA
159036 TTTTTATAAATTTATAA
1 TTTTTATAAATTTATAA
*
159053 TGTTT-TAAATTT
1 TTTTTATAAATTT
159065 TAAAAACATA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
16 14 0.28
17 16 0.32
18 20 0.40
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTTTATAAATTTATAA
Found at i:160206 original size:25 final size:25
Alignment explanation
Indices: 160178--160225 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
160168 AATTGGACAA
* * *
160178 CCAAAATTTCAGCTTCATCATCACC
1 CCAAAACTTCACCTTCAACATCACC
*
160203 CCAAAGCTTCACCTTCAACATCA
1 CCAAAACTTCACCTTCAACATCA
160226 TTAGGAAGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.38, G:0.04, T:0.25
Consensus pattern (25 bp):
CCAAAACTTCACCTTCAACATCACC
Found at i:162555 original size:30 final size:31
Alignment explanation
Indices: 162519--162577 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
162509 GGATGAAAAT
* *
162519 TTTAACAGA-AAGGACTATTTTGCTCTTTGA
1 TTTAACAGATAAGGACTAATTTCCTCTTTGA
*
162549 TTTAACATATAAGGACTAATTTCCTCTTT
1 TTTAACAGATAAGGACTAATTTCCTCTTT
162578 TTTCGAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (31 bp):
TTTAACAGATAAGGACTAATTTCCTCTTTGA
Found at i:166315 original size:51 final size:51
Alignment explanation
Indices: 166239--166339 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
166229 AAATGGGAGA
166239 AAAAAAAAACAACTTAGGACTATCAAAACATGCCTTGTTCTTCAAGGCATT
1 AAAAAAAAACAACTTAGGACTATCAAAACATGCCTTGTTCTTCAAGGCATT
*
166290 AAAAAACAACAACTTAGGACTATCAAAACATGCCTTGTTCTTCAAGGCAT
1 AAAAAAAAACAACTTAGGACTATCAAAACATGCCTTGTTCTTCAAGGCAT
166340 ATTCAAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.25
Consensus pattern (51 bp):
AAAAAAAAACAACTTAGGACTATCAAAACATGCCTTGTTCTTCAAGGCATT
Found at i:167488 original size:4 final size:4
Alignment explanation
Indices: 167481--167512 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
167471 ATCAAATAAA
*
167481 TATG TATG TATG TATG TATG TAAG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
167513 ACCTATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:170575 original size:4 final size:4
Alignment explanation
Indices: 170566--170590 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
170556 ATTTCAGTAG
170566 ATGA ATGA ATGA ATGA ATGA ATGA A
1 ATGA ATGA ATGA ATGA ATGA ATGA A
170591 CGGTCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
ATGA
Found at i:171695 original size:17 final size:17
Alignment explanation
Indices: 171673--171708 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
171663 GATAGACTAC
171673 TTAAATTAAATATCAAA
1 TTAAATTAAATATCAAA
171690 TTAAATTAAATATCAAA
1 TTAAATTAAATATCAAA
171707 TT
1 TT
171709 TTAGCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATTAAATATCAAA
Found at i:181967 original size:30 final size:28
Alignment explanation
Indices: 181898--181976 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 28
181888 ATTGACATGA
* *
181898 AAGGTTTAATTGATTTTTTATATTTTAC
1 AAGGATTAATTGATTTTTAATATTTTAC
*
181926 AATGATCTAATTGATTTTTAATTATTTTA-
1 AAGGAT-TAATTGATTTTTAA-TATTTTAC
*
181955 AGAGGACTTAATTGACTTTTAA
1 A-AGGA-TTAATTGATTTTTAA
181977 AATGGTATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 4 0.10
29 14 0.33
30 23 0.55
31 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (28 bp):
AAGGATTAATTGATTTTTAATATTTTAC
Found at i:182055 original size:31 final size:32
Alignment explanation
Indices: 182020--182089 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
182010 TTTTAATTTT
*
182020 TAATTGTTTTT-AATAATTTGTAT-ATA-TTTCA
1 TAATTGTTTTTGAA-AATTT-TATAATATTTTAA
182051 TAATT-TTTTTGAAAATTTTATAATATTTTAA
1 TAATTGTTTTTGAAAATTTTATAATATTTTAA
182082 TAATTGTT
1 TAATTGTT
182090 AAAACTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 3 0.09
30 13 0.38
31 16 0.47
32 2 0.06
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (32 bp):
TAATTGTTTTTGAAAATTTTATAATATTTTAA
Found at i:183643 original size:5 final size:5
Alignment explanation
Indices: 183628--183682 Score: 83
Period size: 5 Copynumber: 10.8 Consensus size: 5
183618 AGAATAATGC
* *
183628 TTATCA TTATA TTATA TTATA TTATA TTATA TTATA TTACA TTACA TTATA
1 TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
183679 TTAT
1 TTAT
183683 TTAAATATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 43 0.91
6 4 0.09
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (5 bp):
TTATA
Found at i:183838 original size:52 final size:52
Alignment explanation
Indices: 183777--183885 Score: 218
Period size: 52 Copynumber: 2.1 Consensus size: 52
183767 TCATAGTATG
183777 ACAAATCAAAGATAACGATATGAAGAAAATTAACATAAAAATAAGAAAACTA
1 ACAAATCAAAGATAACGATATGAAGAAAATTAACATAAAAATAAGAAAACTA
183829 ACAAATCAAAGATAACGATATGAAGAAAATTAACATAAAAATAAGAAAACTA
1 ACAAATCAAAGATAACGATATGAAGAAAATTAACATAAAAATAAGAAAACTA
183881 ACAAA
1 ACAAA
183886 CAATTGGATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.64, C:0.10, G:0.09, T:0.17
Consensus pattern (52 bp):
ACAAATCAAAGATAACGATATGAAGAAAATTAACATAAAAATAAGAAAACTA
Found at i:189660 original size:16 final size:16
Alignment explanation
Indices: 189639--189669 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
189629 CGAAAGTGGT
189639 ACTGTGTATATCTATC
1 ACTGTGTATATCTATC
189655 ACTGTGTATATCTAT
1 ACTGTGTATATCTAT
189670 TTGAGGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (16 bp):
ACTGTGTATATCTATC
Found at i:196998 original size:22 final size:22
Alignment explanation
Indices: 196946--196998 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
196936 TTCGCTTCAT
*
196946 TTCATTGAAAAACACTGAAAAA
1 TTCATAGAAAAACACTGAAAAA
* * * * *
196968 TTGAGAGAAAAACATTGTAAGA
1 TTCATAGAAAAACACTGAAAAA
196990 TTCATAGAA
1 TTCATAGAA
196999 TTTTGCTCTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (22 bp):
TTCATAGAAAAACACTGAAAAA
Found at i:203779 original size:16 final size:17
Alignment explanation
Indices: 203758--203790 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
203748 ATTGATTGAT
*
203758 AAAATT-ATTTAGTTAA
1 AAAATTAATTTAATTAA
203774 AAAATTAATTTAATTAA
1 AAAATTAATTTAATTAA
203791 TTAAATCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:210370 original size:6 final size:6
Alignment explanation
Indices: 210361--210404 Score: 61
Period size: 6 Copynumber: 6.8 Consensus size: 6
210351 CAGAAAACAG
210361 ATAAAA ATAAAA ATAAAA ATAAAA ATAATAAA ATCAAAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA AT-A-AAA AT-AAAA ATAAA
210405 TTACAAACCC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
6 23 0.66
7 6 0.17
8 6 0.17
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:220751 original size:157 final size:157
Alignment explanation
Indices: 220465--220780 Score: 632
Period size: 157 Copynumber: 2.0 Consensus size: 157
220455 CATATTCCTT
220465 GCAATCAAATACATACAAATCAGGAGATTTCATACTGCAGTGGTGATGACAGTAGGGGCTTGTGA
1 GCAATCAAATACATACAAATCAGGAGATTTCATACTGCAGTGGTGATGACAGTAGGGGCTTGTGA
220530 TGGAGATAAGGCCAAGAAGAGGAGAAGAATCATGATCAGAACCGGTACGAAAAGAAGCATCGATG
66 TGGAGATAAGGCCAAGAAGAGGAGAAGAATCATGATCAGAACCGGTACGAAAAGAAGCATCGATG
220595 GCGGAGGCGGAAGCGACGGCAGAAGCA
131 GCGGAGGCGGAAGCGACGGCAGAAGCA
220622 GCAATCAAATACATACAAATCAGGAGATTTCATACTGCAGTGGTGATGACAGTAGGGGCTTGTGA
1 GCAATCAAATACATACAAATCAGGAGATTTCATACTGCAGTGGTGATGACAGTAGGGGCTTGTGA
220687 TGGAGATAAGGCCAAGAAGAGGAGAAGAATCATGATCAGAACCGGTACGAAAAGAAGCATCGATG
66 TGGAGATAAGGCCAAGAAGAGGAGAAGAATCATGATCAGAACCGGTACGAAAAGAAGCATCGATG
220752 GCGGAGGCGGAAGCGACGGCAGAAGCA
131 GCGGAGGCGGAAGCGACGGCAGAAGCA
220779 GC
1 GC
220781 GGCAAAACCA
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 159 1.00
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.15
Consensus pattern (157 bp):
GCAATCAAATACATACAAATCAGGAGATTTCATACTGCAGTGGTGATGACAGTAGGGGCTTGTGA
TGGAGATAAGGCCAAGAAGAGGAGAAGAATCATGATCAGAACCGGTACGAAAAGAAGCATCGATG
GCGGAGGCGGAAGCGACGGCAGAAGCA
Found at i:223343 original size:7 final size:7
Alignment explanation
Indices: 223331--223369 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
223321 TCTTGCATTT
223331 TTTAAAA
1 TTTAAAA
223338 TTTAAAA
1 TTTAAAA
223345 TTTAAAA
1 TTTAAAA
*
223352 TTCAAAA
1 TTTAAAA
*
223359 TTCAAAA
1 TTTAAAA
223366 TTTA
1 TTTA
223370 TTTTTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (7 bp):
TTTAAAA
Found at i:226414 original size:17 final size:17
Alignment explanation
Indices: 226380--226422 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
226370 TAAAATAAAC
*
226380 TAAAATTATTTAATTTA
1 TAAAATTATATAATTTA
226397 TAAATATTATATAA-TTA
1 TAAA-ATTATATAATTTA
226414 TAATAATTA
1 TAA-AATTA
226423 ATTAGCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAAATTATATAATTTA
Found at i:229762 original size:24 final size:24
Alignment explanation
Indices: 229714--229765 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
229704 TTTTTAGAAG
* ** *
229714 ATTTAGTATTTATTAGTATAGTAT
1 ATTTAGCATTTATTAACATAATAT
229738 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
229762 ATTT
1 ATTT
229766 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:239420 original size:21 final size:21
Alignment explanation
Indices: 239383--239422 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
239373 ATATATTTTT
*
239383 TAAAATTTTAAAGATTTAACA
1 TAAAATTTTAAAAATTTAACA
239404 TAAAA-TTTAACAAATTTAA
1 TAAAATTTTAA-AAATTTAA
239423 TTTAATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAAATTTTAAAAATTTAACA
Found at i:245459 original size:20 final size:20
Alignment explanation
Indices: 245434--245483 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
245424 TGGCTTAAAA
245434 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
245454 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
245471 GTGGTAGTGGATT
1 TTGGTAGTGGATT
245484 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:250098 original size:20 final size:20
Alignment explanation
Indices: 250073--250122 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
250063 TGGCTTAAAA
250073 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
250093 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
250110 GTGGTAGTGGATT
1 TTGGTAGTGGATT
250123 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:264243 original size:3 final size:3
Alignment explanation
Indices: 264237--264271 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
264227 CTCATTCTCT
264237 TTC TTC TTC TTC TTC TTC TTC TTC TT- TGTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TT
264272 TTCAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 28 0.93
4 1 0.03
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:264243 original size:9 final size:8
Alignment explanation
Indices: 264231--264274 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
264221 AGCCTCCTCA
264231 TTCTCTTTC
1 TTCT-TTTC
264240 TTCTTCTTC
1 TTCTT-TTC
264249 TTCTTCTTC
1 TTCTT-TTC
264258 TTCTTTGTC
1 TTCTTT-TC
264267 TTCTTTTC
1 TTCTTTTC
264275 AATTTCATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 4 0.12
9 29 0.88
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (8 bp):
TTCTTTTC
Found at i:264275 original size:105 final size:104
Alignment explanation
Indices: 264133--266196 Score: 1965
Period size: 96 Copynumber: 20.7 Consensus size: 104
264123 GCTGCATCTT
* * *
264133 TTCTTTTTCTT-TTCTTCTTTTTCTTCTTTTCAGTTTCATC-CTCAGCCCCTGCATCAATTGCAC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCA-ATTCATCACT----CCCTACATCAATTGCAC
*
264196 CGTCAACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
61 CATCAACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
*
264240 TTCTTCTTCTTCTTCTTCTTCTTTGTCTTCTTTTCAATTTCATCACTCTCTACATCAATTGCACC
1 TTCTTCTTCTTCTTCTTC-T-TTT-TCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACC
* * *
264305 ATCAACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGC
62 ATCAACAACAGCAATAGCCTCAATAGCCTCCTCATTCTC-TTTC
264349 -TCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
264413 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTG
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
264453 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCACTATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
264518 AACAACAGCAACAG---CAATAGCCTCCTCA-T-TC--TC
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
*
264551 -T-TTGTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
* * *
264614 AACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGC
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTC-TTTC
*
264655 -TCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTTCATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
* * * *
264719 AACAACAGCAATAGCCTCAACAGCATCCTCATTTTCATTGC
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTC-TTTC
264760 -TCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
264824 AAC-A-A-C----G---CAATAGCCTCCTCATTCTCTTTG
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
264854 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCACTATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
* * ** *
264919 AACAACAGCAACAG---CAATAGCCTCAAT-AGCCTC-GTC
65 AACAACAGCAATAGCCTCAATAGCCTC-CTCATTCTCTTTC
* * ** * *
264955 ATTC-TC-T-TTGTTCTTCTTCTTC-T-TTTCAATTTCATCACTCCCTACACCAATTGCACCATC
1 -TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTCATCACTCCCTACATCAATTGCACCATC
*
265015 AACAACAGCAATAGCCTCAATAGCATCCTCA------TT-
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
265048 TTCAT-TGC-TCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
265111 AACAACAGCAATAGCCTCAATAGCATCCTCA------TT-
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
265144 TTCAT-TGC-TCTTCTTC---TTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
* * *
265204 AACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGC
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTC-TTTC
*
265245 -TCTTCTTCTTCTTCTTCTTTTTCTTC-TTTCAATTTCATCACTCCCTTCATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
* * *
265308 AACAACAGCAATAGCCTCAACAGCATCCTCATTTTCATTGCTC
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTC-TT--TC
265351 TTCTTCTTCTTCTTCTTC-TTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
265415 AACAAC-G-----G---CAATAGCCTCCTCATTCTCTTTG
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
265446 TTCTTCTTCTTCTTCTTC-TTTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCACTATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
* * ** *
265510 AACAACAGCAACAG---CAATAGCCTCAAT-AGCCTC-GTC
65 AACAACAGCAATAGCCTCAATAGCCTC-CTCATTCTCTTTC
* * ** * *
265546 ATTC-TC-T-TTGTTCTTCTTCTTC-T-TTTCAATTTCATCACTCCCTACACCAATTGCACCATC
1 -TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTCATCACTCCCTACATCAATTGCACCATC
*
265606 AACAACAGCAATAGCCTCAATAGCATCCTCA------TT-
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
265639 TTCAT-TGC-TCTTCTTC-TTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
265701 AACAACAGCAATAGCCTCAATAGCATCCTCA------TT-
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
265734 TTCAT-TGC-TCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
265797 AACAACAGCAATAGCCTCAATAGCATCCTCA------TT-
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
265830 TTCAT-TGC-TCTTCTTC---TTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
265890 AACAACAGCAATAGCCTCAATAGCATCCTCA------TT-
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* *
265923 TTCAT-TGC-TCTTCTTC---TTCTTCTTTTCAAGTTCATCACTCCCTACATCAATTGCACCATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCACCATC
*
265983 AACAACAGCAATAGCCTCAATAGCATCCTCA------TT-
65 AACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
* * *
266016 TTCAT-TGC-TCTTCTTC---TTCTTCTTTTCAATTTCATTACTCCCTACATCAATTGCACTATC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAA-TTCATCACTCCCTACATCAATTGCAC---C
* * *
266076 AACAACAGCAACAGCAATAGCCTCAATAGCAT-CTACATTCTCATTGC
62 ATC-A-A-CAACAGCAATAGCCTCAATAGCCTCCT-CATTCTC-TTTC
* **
266123 -TCTTCTTCTTCTTCTTATTTTTCTT-TGTTTCAATTTCATCAGC-CCCTATGTC-ATTAGCACC
1 TTCTTCTTCTTCTTCTTCTTTTTCTTCT-TTTCAA-TTCATCA-CTCCCTACATCAATT-GCACC
*
266184 ATCAACAGCAGCA
62 ATCAACAACAGCA
266197 GCAACAGCCT
Statistics
Matches: 1752, Mismatches: 108, Indels: 196
0.85 0.05 0.10
Matches are distributed among these distances:
92 10 0.01
93 320 0.18
94 9 0.01
95 232 0.13
96 330 0.19
97 13 0.01
98 34 0.02
99 77 0.04
100 11 0.01
101 27 0.02
102 42 0.02
103 2 0.00
104 79 0.05
105 330 0.19
106 18 0.01
107 73 0.04
108 85 0.05
109 4 0.00
110 7 0.00
111 46 0.03
112 3 0.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (104 bp):
TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTCATCACTCCCTACATCAATTGCACCATCA
ACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTC
Found at i:265357 original size:3 final size:3
Alignment explanation
Indices: 265349--265378 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
265339 TTTTCATTGC
265349 TCT TCT TCT TCT TCT TCT TCT T-T TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
265379 TTCAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:265372 original size:107 final size:106
Alignment explanation
Indices: 265152--265520 Score: 550
Period size: 104 Copynumber: 3.6 Consensus size: 106
265142 TTTTCATTGC
265152 TCTTCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATA
1 TCTTCTT-TTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATA
*
265217 GCCTCAATAGCATCCTCATTTTCATTG-C-TCTTCTTCTTCT
65 GCCTCAACAGCATCCTCATTTTCATTGTCTTCTTCTTCTTCT
*
265257 TCTTCTTTTTCTTC-TTTCAATTTCATCACTCCCTTCATCAATTGCACCATCAACAACAGCAATA
1 TCTTC-TTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATA
265321 GCCTCAACAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCT
65 GCCTCAACAGCATCCTCATTTTCATTG-TCTTCTTCTTCTTCT
*
265364 TCTTCTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACGGCAATAG
1 TCTTCTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAG
* *
265429 ------C--C-TCCTCATTCTC-TT-TGTTCTTCTTCTTCT
66 CCTCAACAGCATCCTCATTTTCATTGTCTTCTTCTTCTTCT
* *
265459 TCTTCTTTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCACTATCAACAACAGCAA
1 TCTTCTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAA
265521 CAGCAATAGC
Statistics
Matches: 250, Mismatches: 9, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
95 73 0.29
97 2 0.01
98 10 0.04
99 1 0.00
101 1 0.00
104 75 0.30
105 11 0.04
106 11 0.04
107 66 0.26
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (106 bp):
TCTTCTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAG
CCTCAACAGCATCCTCATTTTCATTGTCTTCTTCTTCTTCT
Found at i:266127 original size:93 final size:93
Alignment explanation
Indices: 265367--266135 Score: 709
Period size: 93 Copynumber: 8.1 Consensus size: 93
265357 TTCTTCTTCT
* *
265367 TCTT-TTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACGGCAATAGC-
1 TCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCA-CATCAACAACAGCAACAGCA
* * ** * * *
265430 CT--CCTCATTCTCTTTGTTC-TTCTTC-TTCT
65 ATAGCCTCAATAGC-AT-CTCATTC-TCATT-G
*
265459 TCTTCTTTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCACTATCAACAACAGCAACAG
1 TCTTC--TTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC-ATCAACAACAGCAACAG
* *
265524 CAATAGCCTCAATAGCCTCGTCATTCTCTTTG
63 CAATAGCCTCAATAGCATC-TCATTCTCATTG
* *
265556 TTCTTCTTCTTCTTTTCAATTTCATCACTCCCTACACCAATTGCAC--CATC-A-A-CAACAGCA
1 -TCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACATCAACAACAGCAACAGCA
*
265616 ATAGCCTCAATAGCATCCTCATTTTCATTG
65 ATAGCCTCAATAGCAT-CTCATTCTCATTG
*
265646 CTCTTCTTCTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC--CATC-A-A-CAA
1 ----TCTTC--TTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACATCAACAACAGCAA
*
265706 CAGCAATAGCCTCAATAGCATCCTCATTTTCATTG
60 CAGCAATAGCCTCAATAGCAT-CTCATTCTCATTG
*
265741 CTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC--CATC-A-A-CA
1 ----TCTTC---TTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACATCAACAACAGCA
*
265801 ACAGCAATAGCCTCAATAGCATCCTCATTTTCATTG
59 ACAGCAATAGCCTCAATAGCAT-CTCATTCTCATTG
*
265837 CTCTTCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC--CATC-A-A-CAACA
1 ----TCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACATCAACAACAGCAACA
*
265897 GCAATAGCCTCAATAGCATCCTCATTTTCATTG
62 GCAATAGCCTCAATAGCAT-CTCATTCTCATTG
* *
265930 CTCTTCTTCTTCTTCTTTTCAAGTTCATCACTCCCTACATCAATTGCAC--CATC-A-A-CAACA
1 ----TCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACATCAACAACAGCAACA
*
265990 GCAATAGCCTCAATAGCATCCTCATTTTCATTG
62 GCAATAGCCTCAATAGCAT-CTCATTCTCATTG
*
266023 CTCTTCTTCTTCTTCTTTTCAATTTCATTACTCCCTACATCAATTGCACTATCAACAACAGCAAC
1 ----TCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC-ATCAACAACAGCAAC
266088 AGCAATAGCCTCAATAGCATCTACATTCTCATTG
61 AGCAATAGCCTCAATAGCATCT-CATTCTCATTG
266122 CTCTTCTTCTTCTT
1 -TCTTCTTCTTCTT
266136 CTTATTTTTC
Statistics
Matches: 629, Mismatches: 23, Indels: 46
0.90 0.03 0.07
Matches are distributed among these distances:
90 33 0.05
91 2 0.00
92 5 0.01
93 232 0.37
94 1 0.00
95 146 0.23
96 150 0.24
97 6 0.01
98 20 0.03
99 34 0.05
ACGTcount: A:0.25, C:0.32, G:0.06, T:0.38
Consensus pattern (93 bp):
TCTTCTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACATCAACAACAGCAACAGCAA
TAGCCTCAATAGCATCTCATTCTCATTG
Found at i:266331 original size:3 final size:3
Alignment explanation
Indices: 266323--266369 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
266313 ATCCTCTTTA
* * *
266323 TTC TTC TTC TTC TTC TTC TT- TTC TTT TTC TTT TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
266370 ACTTGAACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:266352 original size:17 final size:17
Alignment explanation
Indices: 266326--266369 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
266316 CTCTTTATTC
266326 TTCTTCTTCTTCTTCTT
1 TTCTTCTTCTTCTTCTT
* *
266343 TTCTTTTTCTTTTTCTTT
1 TTCTTCTTCTTCTTC-TT
266361 TTCTTCTTC
1 TTCTTCTTC
266370 ACTTGAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTCTTCTTCTTCTT
Found at i:267294 original size:14 final size:15
Alignment explanation
Indices: 267270--267298 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
267260 TAGTGTCGCT
267270 AATAGATTTTTTTTA
1 AATAGATTTTTTTTA
267285 AATA-ATTTTTTTTA
1 AATAGATTTTTTTTA
267299 TTTCAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
AATAGATTTTTTTTA
Found at i:269025 original size:15 final size:14
Alignment explanation
Indices: 269006--269035 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
268996 AGTATAACTT
*
269006 ATTTTTAAATAAAA
1 ATTTTTTAATAAAA
269020 ATTTTTTAATAAAA
1 ATTTTTTAATAAAA
269034 AT
1 AT
269036 AATTTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTTTAATAAAA
Found at i:270973 original size:235 final size:233
Alignment explanation
Indices: 270621--271284 Score: 839
Period size: 235 Copynumber: 2.9 Consensus size: 233
270611 CAACAATTTC
* * *
270621 AATTC-AATTCATTTTCAGCAACTTTTCATTCACTTTCTCACCAACCAAAAAACAGATCAAACCA
1 AATTCAAATTCATTTTCCGCAACTTTTCCTTCACTTTCTCACCAACCAAACAACAGATCAAACCA
* * * * *
270685 AAAAGAAAAGCAGATGAAATTTTGACTTCGCAAAAACATGACCATGCAAGCTTAAGGATCTTTAA
66 AAAAGAAAAACAGATGAAATTTAGACTTCACAAATACATGA-CATGTAAGCTTAAGGATCTTTAA
*
270750 GATCAAATTCCCGTTTGTTGACCGAGAAAACGGATGACAAGAAGTATTTACTACTCATACATGTA
130 GATCAAATTCCCGTTTGTT-ACCGAGAAAACGGATGAAAAGAAGT-TTTACTACTCATACATGTA
* *
270815 AACCTAACATCGTAATTCATATTTTAATTTTACATC-AATA
193 AACCTAACATCATAATTCATATTTTAATGTTACATCAAATA
** *
270855 AATTCAAATTCAAATTCCGCAACTTTCCCTTCACTTTCTCACCAACCAAACAACAGATCAAACCA
1 AATTCAAATTCATTTTCCGCAACTTTTCCTTCACTTTCTCACCAACCAAACAACAGATCAAACCA
* * * * *
270920 AAAAGAAAAACAGATGAAATTTAGACTTTACAAATACATAATCATATAAGCTTAAAGACCTTTAA
66 AAAAGAAAAACAGATGAAATTTAGACTTCACAAATACATGA-CATGTAAGCTTAAGGATCTTTAA
* *
270985 GATCAAATTCCCGTTTATTTATCGAGAAAACGGATGAAAAGAAGCTTTTACTACTCATACATGTA
130 GATCAAATTCCCGTTT-GTTACCGAGAAAACGGATGAAAAGAAG-TTTTACTACTCATACATGTA
*
271050 AACCTAACATCATAATTTATATTTTAATGTTACATCAATTAATA
193 AACCTAACATCATAATTCATATTTTAATGTTACATC-A--AATA
* *
271094 AATTCAAATTCATTTTCCGCAACTTTTCCTTCACTTTTTCACCAACC-AACAACAGATC-AAGCA
1 AATTCAAATTCATTTTCCGCAACTTTTCCTTCACTTTCTCACCAACCAAACAACAGATCAAACCA
* ** * * ** *
271157 AAAA-AAAAA-A-AGGAAA-ACAGA--TGA-AACT-TTTGACTTGTAAGCTTAAGGATCTTTAAG
66 AAAAGAAAAACAGATGAAATTTAGACTTCACAAATACATGACATGTAAGCTTAAGGATCTTTAAG
* *
271214 ATCAAATTCCCGTTTGCTTACCGAGAAAATGGATGAAAAGAAGTTTTTACTCCTCATACATGTAA
131 ATCAAATTCCCGTTTG-TTACCGAGAAAACGGATGAAAAGAAG-TTTTACTACTCATACATGTAA
271279 ACCTAA
194 ACCTAA
271285 TAAATTCAAA
Statistics
Matches: 377, Mismatches: 45, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
228 85 0.23
229 2 0.01
230 3 0.01
231 2 0.01
233 3 0.01
234 10 0.03
235 198 0.53
236 8 0.02
237 8 0.02
238 11 0.03
239 47 0.12
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (233 bp):
AATTCAAATTCATTTTCCGCAACTTTTCCTTCACTTTCTCACCAACCAAACAACAGATCAAACCA
AAAAGAAAAACAGATGAAATTTAGACTTCACAAATACATGACATGTAAGCTTAAGGATCTTTAAG
ATCAAATTCCCGTTTGTTACCGAGAAAACGGATGAAAAGAAGTTTTACTACTCATACATGTAAAC
CTAACATCATAATTCATATTTTAATGTTACATCAAATA
Found at i:273647 original size:17 final size:17
Alignment explanation
Indices: 273622--273654 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
273612 ATATATTTTA
*
273622 TTTTTAATCAAATATAC
1 TTTTCAATCAAATATAC
273639 TTTTCAATCAAATATA
1 TTTTCAATCAAATATA
273655 TATTAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTCAATCAAATATAC
Found at i:274287 original size:13 final size:13
Alignment explanation
Indices: 274269--274300 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
274259 TCGTGGGCCC
274269 TTCTTTTTTCTTT
1 TTCTTTTTTCTTT
274282 TTCTTTTTTCTTT
1 TTCTTTTTTCTTT
*
274295 GTCTTT
1 TTCTTT
274301 CAGCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTCTTT
Found at i:276828 original size:48 final size:48
Alignment explanation
Indices: 276761--276852 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
276751 GATAAAAAAG
276761 AAGAGGGAAAGGAGGTTAATGGGCTAAAAACACAAATAGGAAATATAA
1 AAGAGGGAAAGGAGGTTAATGGGCTAAAAACACAAATAGGAAATATAA
* * * *
276809 AAGAGGGGAAGGGGGTTAATGGGCTAAAAACACTAATTGGAAAT
1 AAGAGGGAAAGGAGGTTAATGGGCTAAAAACACAAATAGGAAAT
276853 GGGCTAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.47, C:0.07, G:0.30, T:0.16
Consensus pattern (48 bp):
AAGAGGGAAAGGAGGTTAATGGGCTAAAAACACAAATAGGAAATATAA
Found at i:278552 original size:20 final size:20
Alignment explanation
Indices: 278499--278554 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
278489 GCTTTTACCA
*
278499 ATTGGT-AAATTTATTTTTT
1 ATTGGTAAAATTAATTTTTT
278518 ATT-GTATGAATATTAATTTTTT
1 ATTGGTA--AA-ATTAATTTTTT
278540 ATTGGTAAAATTAAT
1 ATTGGTAAAATTAAT
278555 ATATGATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
19 3 0.10
20 6 0.19
21 4 0.13
22 13 0.42
23 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
ATTGGTAAAATTAATTTTTT
Found at i:282281 original size:18 final size:18
Alignment explanation
Indices: 282258--282296 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
282248 TTTATACGAG
282258 AAAATATATAATAAAAAT
1 AAAATATATAATAAAAAT
* *
282276 AAAATATATATTTAAAAT
1 AAAATATATAATAAAAAT
282294 AAA
1 AAA
282297 TGATAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATATAATAAAAAT
Found at i:282365 original size:21 final size:21
Alignment explanation
Indices: 282341--282381 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
282331 TAAACTTTAA
282341 TTTTGTACAAATTTATATATGT
1 TTTTGTA-AAATTTATATATGT
*
282363 TTTTTTAAAATTTATATAT
1 TTTTGTAAAATTTATATAT
282382 ATGAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTGTAAAATTTATATATGT
Found at i:284369 original size:3 final size:3
Alignment explanation
Indices: 284361--284386 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
284351 AAGGGTCGCT
284361 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
284387 TTTCCTCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:290109 original size:14 final size:14
Alignment explanation
Indices: 290090--290123 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
290080 GGACCACTTC
290090 GCAGCCGGCGGCCA
1 GCAGCCGGCGGCCA
290104 GCAGCCGGCGGCCA
1 GCAGCCGGCGGCCA
290118 GCAGCC
1 GCAGCC
290124 ATTAATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.15, C:0.44, G:0.41, T:0.00
Consensus pattern (14 bp):
GCAGCCGGCGGCCA
Found at i:296473 original size:22 final size:22
Alignment explanation
Indices: 296447--296493 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
296437 AATTTCAATG
* * *
296447 TTCAATTTGGTACTTGATCTTT
1 TTCAATTTGATACATGAGCTTT
296469 TTCAATTTGATACATGAGCTTT
1 TTCAATTTGATACATGAGCTTT
296491 TTC
1 TTC
296494 TTTTTGTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (22 bp):
TTCAATTTGATACATGAGCTTT
Found at i:297015 original size:8 final size:8
Alignment explanation
Indices: 296999--297100 Score: 52
Period size: 8 Copynumber: 12.1 Consensus size: 8
296989 ATGAAAAATT
*
296999 ATTAAAAA
1 ATTATAAA
297007 ATTATAAA
1 ATTATAAA
297015 A--ATAAA
1 ATTATAAA
*
297021 A-TATTAA
1 ATTATAAA
297028 A-TATTAAA
1 ATTA-TAAA
297036 ATTGATATAA
1 ATT-ATA-AA
297046 ACTTATTAAA
1 A-TTA-TAAA
297056 ATTATAAA
1 ATTATAAA
297064 AGTATATAAA
1 A-T-TATAAA
*
297074 AATATAAAA
1 ATTAT-AAA
297083 ATCTA-ATAA
1 AT-TATA-AA
297092 ATTATAAA
1 ATTATAAA
297100 A
1 A
297101 AGAATTATAA
Statistics
Matches: 76, Mismatches: 5, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
6 6 0.08
7 7 0.09
8 26 0.34
9 16 0.21
10 17 0.22
11 4 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
ATTATAAA
Found at i:297097 original size:18 final size:17
Alignment explanation
Indices: 297003--297101 Score: 57
Period size: 18 Copynumber: 5.8 Consensus size: 17
296993 AAAATTATTA
297003 AAAAATTAT-AAAA-AT
1 AAAAATTATAAAAATAT
*
297018 -AAAA-TAT-TAAATAT
1 AAAAATTATAAAAATAT
* *
297032 TAAAATTGATATAAACTTAT
1 AAAAATT-ATA-AAA-ATAT
*
297052 TAAAATTATAAAAGTATAT
1 AAAAATTATAAAA--ATAT
*
297071 AAAAA-TATAAAAATCT
1 AAAAATTATAAAAATAT
297087 AATAAATTATAAAAA
1 AA-AAATTATAAAAA
297102 GAATTATAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
13 6 0.09
14 6 0.09
15 4 0.06
16 6 0.09
17 5 0.07
18 18 0.27
19 12 0.18
20 10 0.15
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAATTATAAAAATAT
Found at i:297130 original size:38 final size:37
Alignment explanation
Indices: 297030--297130 Score: 86
Period size: 37 Copynumber: 2.7 Consensus size: 37
297020 AATATTAAAT
* *
297030 ATTA-AAATTGATATAAACTTAT-TAAAATTATAAAAGT
1 ATTATAAATTAATA-AAACTTATAT-AAATTATAAAAGA
* *
297067 A-TATAAA-AATATAAAAATCTA-ATAAATTATAAAAAGA
1 ATTATAAATTA-ATAAAACT-TATATAAATTAT-AAAAGA
297104 ATTATAAATTAATAAAACTTATATAAA
1 ATTATAAATTAATAAAACTTATATAAA
297131 ATATTTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
36 13 0.26
37 18 0.36
38 18 0.36
39 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (37 bp):
ATTATAAATTAATAAAACTTATATAAATTATAAAAGA
Found at i:297141 original size:29 final size:28
Alignment explanation
Indices: 297051--297172 Score: 83
Period size: 29 Copynumber: 4.3 Consensus size: 28
297041 TATAAACTTA
297051 TTAAAATT-ATAAAAGTATATAAAA-AT
1 TTAAAATTAATAAAAGTATATAAAATAT
* * * *
297077 ATAAAAATCTAAT-AAATTATA-AAAAGAA
1 -TTAAAAT-TAATAAAAGTATATAAAATAT
*
297105 TTATAAATTAATAAAACTTATATAAAATAT
1 TTA-AAATTAATAAAA-GTATATAAAATAT
* * *
297135 TTAAAATTAAAAAAACGTAT-TAGAATTT
1 TTAAAATTAATAAAA-GTATATAAAATAT
297163 TTATAAATTA
1 TTA-AAATTA
297173 TGAAATATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
27 16 0.21
28 25 0.32
29 28 0.36
30 8 0.10
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
TTAAAATTAATAAAAGTATATAAAATAT
Found at i:306088 original size:28 final size:28
Alignment explanation
Indices: 306035--306088 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
306025 TTTCAAAATT
*
306035 TAAAAAAATAGGACTAAATTTCTAAAAA
1 TAAAAAAATAGGACTAAATTTATAAAAA
*
306063 TAAAAATATAGAGACTAAA-TTATAAA
1 TAAAAAAATAG-GACTAAATTTATAAA
306089 TTTATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (28 bp):
TAAAAAAATAGGACTAAATTTATAAAAA
Found at i:307585 original size:5 final size:5
Alignment explanation
Indices: 307577--307603 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
307567 CCCTTAAATT
307577 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
307604 AATTATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:308152 original size:3 final size:3
Alignment explanation
Indices: 308138--308190 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
308128 AGGAGACTCA
* * * *
308138 GAT GAG GAT GAT GAT GAT GAT AAT GAT GAT GAT GAT GGT GAT GAT GGT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
308186 GAT GA
1 GAT GA
308191 AGGTGAGGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:308195 original size:9 final size:9
Alignment explanation
Indices: 308144--308196 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
308134 CTCAGATGAG
*
308144 GATGATGAT
1 GATGGTGAT
* *
308153 GATGATAAT
1 GATGGTGAT
*
308162 GATGATGAT
1 GATGGTGAT
308171 GATGGTGAT
1 GATGGTGAT
308180 GATGGTGAT
1 GATGGTGAT
*
308189 GAAGGTGA
1 GATGGTGA
308197 GGCTATGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (9 bp):
GATGGTGAT
Found at i:311938 original size:19 final size:19
Alignment explanation
Indices: 311914--311950 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
311904 AAGATAAGAT
311914 TTTTTTGAGATAATATCTG
1 TTTTTTGAGATAATATCTG
*
311933 TTTTTTTAGATAATATCT
1 TTTTTTGAGATAATATCT
311951 AAAATTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTTTGAGATAATATCTG
Found at i:313833 original size:6 final size:6
Alignment explanation
Indices: 313831--313858 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
313821 TTAAAAATAA
313831 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
313859 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:318062 original size:3 final size:3
Alignment explanation
Indices: 318054--318081 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
318044 GCCTAAAATT
318054 GCA GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA G
318082 GTCTGATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:332477 original size:41 final size:40
Alignment explanation
Indices: 332430--332579 Score: 182
Period size: 41 Copynumber: 3.7 Consensus size: 40
332420 CCAAAAAATT
*
332430 TATTTTAAAAATTAAAAAAAAATAAAAAATTTATTTTAAAA
1 TATTTT-AAAATTAAAAAAAAATAAAAAATGTATTTTAAAA
*
332471 TATTTTAAAATT--AAAAAAAT-TAAAA-GTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAATAAAAAATGTATTTT-AAAA
** *
332508 TATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAAAATAAAAAATGTATTTTAAAA
332548 GTATTTTAAAATTTAAAAAATAAATAAAAAAT
1 -TATTTTAAAA-TTAAAAAA-AAATAAAAAAT
332580 AAAAAAATTT
Statistics
Matches: 93, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
36 6 0.06
37 20 0.22
38 8 0.09
39 6 0.06
40 14 0.15
41 23 0.25
42 8 0.09
43 8 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAAATAAAAAATGTATTTTAAAA
Found at i:332523 original size:28 final size:30
Alignment explanation
Indices: 332486--332547 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
332476 TAAAATTAAA
** *
332486 AAAATTAAAAGTATTT-TAAAAA-TATTTT
1 AAAATTAAAAAAATTTAAAAAAAGTATTTT
332514 AAAATTAAAAAAATTTAAAAAAAGTATTTT
1 AAAATTAAAAAAATTTAAAAAAAGTATTTT
332544 AAAA
1 AAAA
332548 GTATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 14 0.48
29 5 0.17
30 10 0.34
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTAAAAAAATTTAAAAAAAGTATTTT
Found at i:332583 original size:77 final size:78
Alignment explanation
Indices: 332430--332589 Score: 191
Period size: 77 Copynumber: 2.1 Consensus size: 78
332420 CCAAAAAATT
**
332430 TATTTTAAAAATTAAAAAAAAATAAAAAATTTATTTTAAAATATTTTAAAATTAAAAAAATTAAA
1 TATTTTAAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAATATTTTAAAATTAAAAAAATTAAA
* ***
332495 AGTATTTTAAAAA
66 AGAAAAATAAAAA
** *
332508 TATTTT-AAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAA-TAA
1 TATTTTAAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAA-TATTTTAAAATTAAAAAAATTAA
332571 ATA-AAAAATAAAAA
65 A-AGAAAAATAAAAA
*
332585 AATTT
1 TATTT
332590 ATTGTATTCG
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 45 0.64
78 25 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (78 bp):
TATTTTAAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAATATTTTAAAATTAAAAAAATTAAA
AGAAAAATAAAAA
Found at i:336499 original size:31 final size:29
Alignment explanation
Indices: 336446--336507 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
336436 TTATCAAAAT
336446 GACTAATTTACTCTTTAATTTAACGTATAAG
1 GACTAATTTACTCTTTAATTTAA-GTA-AAG
* *
336477 GACTAATTTGCTCATTT-TTTTAAGTAAAG
1 GACTAATTTACTC-TTTAATTTAAGTAAAG
336506 GA
1 GA
336508 AGAAAATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.18
30 3 0.11
31 17 0.61
32 3 0.11
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (29 bp):
GACTAATTTACTCTTTAATTTAAGTAAAG
Found at i:338560 original size:30 final size:30
Alignment explanation
Indices: 338504--338576 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
338494 ATTTGACTTG
*
338504 AATTTTGAAATATAACAAATAAAGAGACTA
1 AATTTTGAAATATAAAAAATAAAGAGACTA
* *
338534 AATTCTTGAAA-ATAAAAAATAGAGAGATTA
1 AATT-TTGAAATATAAAAAATAAAGAGACTA
*
338564 AA-TTTCAAATATA
1 AATTTTGAAATATA
338577 TGAAGAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.14
29 4 0.11
30 22 0.59
31 6 0.16
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (30 bp):
AATTTTGAAATATAAAAAATAAAGAGACTA
Found at i:342331 original size:3 final size:3
Alignment explanation
Indices: 342323--342380 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
342313 TTTAGCAACT
342323 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
342371 TTA TTA TTA T
1 TTA TTA TTA T
342381 CATTGCTACT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:343814 original size:55 final size:57
Alignment explanation
Indices: 343751--343863 Score: 160
Period size: 56 Copynumber: 2.0 Consensus size: 57
343741 CTGAATCTGC
* *
343751 AAAACTATAAATATCCA-TTT-TCATGAGACTCTTCTCTTTCATCAATC-ACCTTCTT
1 AAAACTATAAATATCCATTTTCTCAT-AAACTCTTCTCATTCATCAATCGACCTTCTT
* *
343806 AAAACTATAAATATCCATTTTCTCATAAATTCTTCTCATTCATCAATCGACTTTCTT
1 AAAACTATAAATATCCATTTTCTCATAAACTCTTCTCATTCATCAATCGACCTTCTT
343863 A
1 A
343864 CCAAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
55 17 0.33
56 22 0.43
57 12 0.24
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.41
Consensus pattern (57 bp):
AAAACTATAAATATCCATTTTCTCATAAACTCTTCTCATTCATCAATCGACCTTCTT
Found at i:356165 original size:18 final size:18
Alignment explanation
Indices: 356142--356234 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
356132 CCCAACTACT
*
356142 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
356160 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
356178 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
* *
356196 GTATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
356214 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
356232 GTA
1 GTA
356235 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:356194 original size:36 final size:36
Alignment explanation
Indices: 356142--356234 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
356132 CCCAACTACT
* *
356142 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
*
356178 GTATACATGAATAGTACCGTATACATGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
356214 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
356235 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGCC
Found at i:360423 original size:27 final size:27
Alignment explanation
Indices: 360393--360451 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
360383 TTATTGAGGA
* *
360393 GGAGTGTATTGATGCTACTACTAAGGG
1 GGAGTCTATTGATGCTACAACTAAGGG
* * *
360420 GGAGTCTGTTGATGCTACAATTATGGG
1 GGAGTCTATTGATGCTACAACTAAGGG
360447 GGAGT
1 GGAGT
360452 TTTCTTCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.36, T:0.31
Consensus pattern (27 bp):
GGAGTCTATTGATGCTACAACTAAGGG
Found at i:364389 original size:21 final size:21
Alignment explanation
Indices: 364363--364403 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
364353 ATCTGCTCAA
* *
364363 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
364384 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
364404 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:370543 original size:15 final size:16
Alignment explanation
Indices: 370517--370546 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
370507 TTGATAAATT
370517 GAAAAGTTAAGTACTG
1 GAAAAGTTAAGTACTG
370533 GAAAA-TTAAGTACT
1 GAAAAGTTAAGTACT
370547 AAATTTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (16 bp):
GAAAAGTTAAGTACTG
Found at i:377621 original size:21 final size:20
Alignment explanation
Indices: 377583--377626 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
377573 AACTTTGCTT
* *
377583 AAATTTAAGATAACAAAGCA
1 AAATTTAAGATAAAAAAGAA
*
377603 AAATTTATGAATAAAAAAGAA
1 AAATTTAAG-ATAAAAAAGAA
377624 AAA
1 AAA
377627 GAGTCCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (20 bp):
AAATTTAAGATAAAAAAGAA
Found at i:377625 original size:20 final size:20
Alignment explanation
Indices: 377583--377625 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
377573 AACTTTGCTT
*
377583 AAATTTAAGATAACAAAGCA
1 AAATTTAAGATAAAAAAGCA
*
377603 AAATTTATGAATAAAAAAG-A
1 AAATTTAAG-ATAAAAAAGCA
377623 AAA
1 AAA
377626 AGAGTCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (20 bp):
AAATTTAAGATAAAAAAGCA
Found at i:382090 original size:2 final size:2
Alignment explanation
Indices: 382083--382111 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
382073 CAAACAAACA
382083 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
382112 TATACATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:390187 original size:12 final size:12
Alignment explanation
Indices: 390164--390198 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
390154 AAAAAGGGTA
390164 AGATATAATAAAT
1 AGATA-AATAAAT
390177 AGATAAATAAAT
1 AGATAAATAAAT
*
390189 AAATAAATAA
1 AGATAAATAA
390199 TATATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (12 bp):
AGATAAATAAAT
Found at i:393077 original size:13 final size:14
Alignment explanation
Indices: 393053--393101 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
393043 TCCAAAGGCT
393053 CTTTTATTTTCCAC
1 CTTTTATTTTCCAC
393067 CTTTT-TTTTCCAC
1 CTTTTATTTTCCAC
*
393080 ATTTTATGTATTCCAC
1 CTTTTAT-T-TTCCAC
*
393096 TTTTTA
1 CTTTTA
393102 ATGAAAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.40
14 6 0.20
15 1 0.03
16 11 0.37
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.59
Consensus pattern (14 bp):
CTTTTATTTTCCAC
Found at i:393397 original size:18 final size:17
Alignment explanation
Indices: 393369--393407 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
393359 TTCTTTTCTT
*
393369 ATTAGATTAAAGTAGAA
1 ATTAGATTAAAATAGAA
*
393386 ATTAGTATTAAAATAGAG
1 ATTAG-ATTAAAATAGAA
393404 ATTA
1 ATTA
393408 TGCACAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (17 bp):
ATTAGATTAAAATAGAA
Found at i:401233 original size:20 final size:20
Alignment explanation
Indices: 401210--401247 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
401200 TGTAACTTTA
401210 TAATA-ATTTTATAATTTTTT
1 TAATATATTTTA-AATTTTTT
401230 TAATATATTTTAAATTTT
1 TAATATATTTTAAATTTT
401248 AAAAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TAATATATTTTAAATTTTTT
Found at i:401550 original size:23 final size:21
Alignment explanation
Indices: 401524--401579 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
401514 CCGGCCCATT
* *
401524 TTTTAATAAATACCAAAAATTTA
1 TTTTAA-AAATA-AAAAAATATA
401547 TTTTAAAAATTAAAAAAATATA
1 TTTTAAAAA-TAAAAAAATATA
401569 TTTTAAAAATA
1 TTTTAAAAATA
401580 TTTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 2 0.07
22 20 0.67
23 8 0.27
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTTAAAAATAAAAAAATATA
Found at i:401582 original size:11 final size:11
Alignment explanation
Indices: 401561--401648 Score: 53
Period size: 11 Copynumber: 8.4 Consensus size: 11
401551 AAAAATTAAA
401561 AAAATATATTTT
1 AAAA-ATATTTT
401573 AAAAATATTTT
1 AAAAATATTTT
401584 --AAA-A--TT
1 AAAAATATTTT
* *
401590 AAAAAAAATTT
1 AAAAATATTTT
401601 AAAAATATTTT
1 AAAAATATTTT
* ***
401612 AAAATTA-AAA
1 AAAAATATTTT
401622 AAAAAGTATTTT
1 AAAAA-TATTTT
*
401634 GAAAATATTTT
1 AAAAATATTTT
401645 AAAA
1 AAAA
401649 TTAAAAAAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
6 2 0.04
8 4 0.07
9 4 0.07
10 4 0.07
11 35 0.61
12 8 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:401583 original size:33 final size:32
Alignment explanation
Indices: 401545--401658 Score: 164
Period size: 33 Copynumber: 3.6 Consensus size: 32
401535 ACCAAAAATT
401545 TATTTTAAAAATTAAAAAAATATATTTTAAAAA
1 TATTTT-AAAATTAAAAAAATATATTTTAAAAA
401578 TATTTTAAAATT-AAAAAA-A-A-TTTAAAAA
1 TATTTTAAAATTAAAAAAATATATTTTAAAAA
* *
401606 TATTTTAAAATTAAAAAAAAAGTATTTTGAAAA
1 TATTTTAAAATTAAAAAAATA-TATTTTAAAAA
401639 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
401659 TTAAAAATAA
Statistics
Matches: 74, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
28 20 0.27
29 7 0.09
30 2 0.03
31 6 0.08
32 7 0.09
33 32 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (32 bp):
TATTTTAAAATTAAAAAAATATATTTTAAAAA
Found at i:401623 original size:61 final size:60
Alignment explanation
Indices: 401545--401667 Score: 196
Period size: 61 Copynumber: 2.0 Consensus size: 60
401535 ACCAAAAATT
401545 TATTTTAAAAATTAAAAAAATA-TATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAA
1 TATTTTAAAAATTAAAAAAA-AGTATTTTAAAAATATTTTAAAATT-AAAAAAATTTAAAAA
*
401606 TATTTT-AAAATTAAAAAAAAAGTATTTTGAAAATATTTTAAAATTAAAAAAATTTAAAAA
1 TATTTTAAAAATT-AAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAA
401666 TA
1 TA
401668 AATATATTTA
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
60 24 0.41
61 35 0.59
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (60 bp):
TATTTTAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAA
Found at i:401677 original size:16 final size:16
Alignment explanation
Indices: 401636--401677 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
401626 AGTATTTTGA
*
401636 AAATAT-TTTAAAATT
1 AAATATATTTAAAAAT
* *
401651 AAAAAAATTTAAAAAT
1 AAATATATTTAAAAAT
401667 AAATATATTTA
1 AAATATATTTA
401678 TTATATCGGG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATTTAAAAAT
Found at i:404529 original size:24 final size:24
Alignment explanation
Indices: 404502--404551 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
404492 AATAACTAAC
404502 AAAA-AGACGATAAT-GCCAACTTTT
1 AAAATAGAC-ATAATAG-CAACTTTT
*
404526 AAAATTGACATAATAGCAACTTTT
1 AAAATAGACATAATAGCAACTTTT
404550 AA
1 AA
404552 CCCTCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (24 bp):
AAAATAGACATAATAGCAACTTTT
Found at i:411917 original size:56 final size:56
Alignment explanation
Indices: 411855--411966 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
411845 CTCAATCACG
411855 ATACTATAGTAGAATGACTTCGTGACTAAATGAGATTATAATTAATAGGCGAAAAA
1 ATACTATAGTAGAATGACTTCGTGACTAAATGAGATTATAATTAATAGGCGAAAAA
411911 ATACTATAGTAGAATGACTTCGTGACTAAATGAGATTATAATTAATAGGCGAAAAA
1 ATACTATAGTAGAATGACTTCGTGACTAAATGAGATTATAATTAATAGGCGAAAAA
411967 CTGGAACTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.29
Consensus pattern (56 bp):
ATACTATAGTAGAATGACTTCGTGACTAAATGAGATTATAATTAATAGGCGAAAAA
Found at i:425453 original size:12 final size:12
Alignment explanation
Indices: 425436--425460 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
425426 ATTTTATAAC
425436 ATAAATATTGTT
1 ATAAATATTGTT
425448 ATAAATATTGTT
1 ATAAATATTGTT
425460 A
1 A
425461 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:429832 original size:23 final size:24
Alignment explanation
Indices: 429798--429850 Score: 83
Period size: 23 Copynumber: 2.2 Consensus size: 24
429788 TCAAGGTTCG
429798 TTTC-TTTTCTACCAAACA-GGTT
1 TTTCTTTTTCTACCAAACAGGGTT
429820 TTTCTTTTTCTACCAAACAGGGTT
1 TTTCTTTTTCTACCAAACAGGGTT
429844 TGTTCTT
1 T-TTCTT
429851 ATACTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 4 0.14
23 14 0.50
24 5 0.18
25 5 0.18
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTCTTTTTCTACCAAACAGGGTT
Found at i:431914 original size:22 final size:22
Alignment explanation
Indices: 431867--431919 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
431857 AATAATATTA
* * *
431867 ATAAATCATAATATTAATATGC
1 ATAAATAATAATATGAAAATGC
431889 ATAAATAATAATTATGAAAATG-
1 ATAAATAATAA-TATGAAAATGC
431911 ATAATATAA
1 ATAA-ATAA
431920 ATAACAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAAATAATAATATGAAAATGC
Done.