Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold903
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: 100214
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Found at i:97 original size:13 final size:13
Alignment explanation
Indices: 79--104 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69 CATTTTTCTG
79 TGTATCGATACAT
1 TGTATCGATACAT
92 TGTATCGATACAT
1 TGTATCGATACAT
105 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:101 original size:33 final size:33
Alignment explanation
Indices: 59--125 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49 GCCAAGGAAA
***
59 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
92 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
125 T
1 T
126 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2636 original size:52 final size:53
Alignment explanation
Indices: 2548--2720 Score: 185
Period size: 52 Copynumber: 3.3 Consensus size: 53
2538 CCCGTTAATC
* * * *
2548 ATCGGGGATACTCCAACTCCGGTTTGA-TCACTAAAACACTAATTTTTCCACA
1 ATCGGGGATACTCCAACTCCGGTTTTATTTACAAAAACACCAATTTTTCCACA
* * **
2600 ATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTA
1 ATCGGGGATACTCCAACTCC-GGTTTTATTTACAAAAACACCAATTTTTCC-ACA
* * *
2652 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACA
1 ATCGGGGATACTCCAACTCCGGTTTTATTTACAAAAACACCAATTTTTCCACA
*
2704 ATCGAGGATACTCCAAC
1 ATCGGGGATACTCCAAC
2721 CTCGTTATTT
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
51 9 0.09
52 74 0.73
53 14 0.14
54 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (53 bp):
ATCGGGGATACTCCAACTCCGGTTTTATTTACAAAAACACCAATTTTTCCACA
Found at i:2740 original size:28 final size:28
Alignment explanation
Indices: 2704--2780 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2694 ATTTTTCACA
* * *
2704 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2732 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2760 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2781 GCTTTGTTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2913 original size:78 final size:79
Alignment explanation
Indices: 2734--2935 Score: 237
Period size: 78 Copynumber: 2.6 Consensus size: 79
2724 GTTATTTCAT
* * * *
2734 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTGTTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTGTTCCCAAAATAT
* * *
2799 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** * *
2813 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCC-GATTTTTTTTCTAATTAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTGTTCCCAAAATAT
2877 CGATTTCTCACAAC
66 CGATTTCTCACAAC
* *
2891 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
2936 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
77 5 0.05
78 58 0.56
79 41 0.39
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTGTTCCCAAAATAT
CGATTTCTCACAAC
Found at i:8688 original size:51 final size:51
Alignment explanation
Indices: 8633--8749 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
8623 ATTTAACTAG
* * *
8633 ATGTATCGATACATTGAAGAATGTATCAATATATTTAGGTCAAAACCCAAA
1 ATGTATTGATACATTGAACAATGTATCAATACATTTAGGTCAAAACCCAAA
* * * * *
8684 ATGTATTGATATAATGAACAATGTATCGATACATTTGGGTCAAAACCCAGA
1 ATGTATTGATACATTGAACAATGTATCAATACATTTAGGTCAAAACCCAAA
8735 ATGTATTGATACATT
1 ATGTATTGATACATT
8750 TTCATTCCAG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (51 bp):
ATGTATTGATACATTGAACAATGTATCAATACATTTAGGTCAAAACCCAAA
Found at i:16930 original size:51 final size:50
Alignment explanation
Indices: 16856--16952 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 50
16846 TCATTCATGT
* *
16856 TTTTATTTTCAAAACACCAATTTTTTA-CAATCGGGGATACTCAAACCTCGG
1 TTTTATTTCCAAAACACCAATTTTTCATC-ATC-GGGATACTCAAACCTCGG
** *
16907 TTTTATTTCCAAAACACTGATTTTTCATCATCGGGATACTCTAACC
1 TTTTATTTCCAAAACACCAATTTTTCATCATCGGGATACTCAAACC
16953 CCGTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
50 13 0.32
51 26 0.65
52 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (50 bp):
TTTTATTTCCAAAACACCAATTTTTCATCATCGGGATACTCAAACCTCGG
Found at i:17054 original size:50 final size:51
Alignment explanation
Indices: 16968--17083 Score: 162
Period size: 50 Copynumber: 2.3 Consensus size: 51
16958 ATTTCTAAGA
* * * *
16968 GGATACTCTAACCCCAGTTTTGTTTCTAAAACATCAATTTTTCACAATCGG
1 GGATACTCTAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATCAG
* *
17019 GGGTACTC-AACTCCAATTTTATTTCCAAAACATCAATTTTTCACAATCAG
1 GGATACTCTAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATCAG
*
17069 GGATACTCCAACCCC
1 GGATACTCTAACCCC
17084 GTTATTTCTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 44 0.79
51 12 0.21
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
GGATACTCTAACCCCAATTTTATTTCCAAAACATCAATTTTTCACAATCAG
Found at i:17146 original size:129 final size:127
Alignment explanation
Indices: 16884--17278 Score: 371
Period size: 129 Copynumber: 3.1 Consensus size: 127
16874 AATTTTTTAC
* **
16884 AATCGGGGATACTCAAACCTCGGTTTTATTTCCAAAACA-CTGATTTTTCATC-ATCGGGATACT
1 AATCGGGGATACTC-AACCCCAATTTTATTTCCAAAACATC-GATTTTTCA-CAATCGGGATACT
* * * * * * *
16947 CTAACCCCGTTATTTCT-AAGAGGATACTCTAACCCC-AGTTTTGTTTCTAAAACATCAATTTTT
63 CCAACCCCGTTATTTCTGAGGA-GATACTCCAACCCCGA-TTTTATTTCCAAAATATCGA-TTTT
*
17010 CAC
125 CAT
* * *
17013 AATCGGGGGTACTCAACTCCAATTTTATTTCCAAAACATCAATTTTTCACAATCAGGGATACTCC
1 AATCGGGGATACTCAACCCCAATTTTATTTCCAAAACATCGATTTTTCACAATC-GGGATACTCC
* *
17078 AACCCCGTTATTTCTGAGGAGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCAT
65 AACCCCGTTATTTCTGAGGAGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTT-TCAT
* **** * *
17142 AATCGGGGATAATCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATC-----ACTCC
1 AATCGGGGATACT-CAACCCCAATTTTATTTCCAAAACATCGATTTTTCACAATCGGGATACTCC
* * *
17202 AACCCCGTTATTT-TCGAGGGGATACT-CAACCCCGATTTTATTTTCAAAATACCGATTTTCTAT
65 AACCCCGTTATTTCT-GAGGAGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTC-AT
*
17265 AATCAGGGATACTC
1 AATCGGGGATACTC
17279 CAGCCTCGTT
Statistics
Matches: 224, Mismatches: 33, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
122 3 0.01
123 42 0.19
124 28 0.12
127 1 0.00
128 34 0.15
129 79 0.35
130 37 0.17
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (127 bp):
AATCGGGGATACTCAACCCCAATTTTATTTCCAAAACATCGATTTTTCACAATCGGGATACTCCA
ACCCCGTTATTTCTGAGGAGATACTCCAACCCCGATTTTATTTCCAAAATATCGATTTTCAT
Found at i:17187 original size:51 final size:51
Alignment explanation
Indices: 17098--17196 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
17088 TTTCTGAGGA
* * * * *
17098 GATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCATAATCGGG
1 GATAATCCAACCCCGACCTTATTTCCAAAACATCGATTTCTCACAATCGGG
* * * *
17149 GATAATCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATC
1 GATAATCCAACCCCGACCTTATTTCCAAAACATCGATTTCTCACAATC
17197 ACTCCAACCC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
GATAATCCAACCCCGACCTTATTTCCAAAACATCGATTTCTCACAATCGGG
Found at i:18334 original size:13 final size:13
Alignment explanation
Indices: 18316--18340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18306 CATAAAATGT
18316 TGTATCGATACAA
1 TGTATCGATACAA
18329 TGTATCGATACA
1 TGTATCGATACA
18341 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18356 original size:32 final size:33
Alignment explanation
Indices: 18296--18361 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
18286 TTCAACGATT
18296 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
18329 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
18361 T
1 T
18362 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:18423 original size:13 final size:13
Alignment explanation
Indices: 18405--18429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18395 ATTACTCACA
18405 TGTATCGATACAT
1 TGTATCGATACAT
18418 TGTATCGATACA
1 TGTATCGATACA
18430 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18531 original size:52 final size:52
Alignment explanation
Indices: 18438--18565 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
18428 CACTGATCTT
*
18438 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
18489 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
18541 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
18566 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:23226 original size:26 final size:27
Alignment explanation
Indices: 23190--23265 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
23180 TAAAAATTAG
* * *
23190 CCACCAATTTTGACAAACAACAAG-AA
1 CCACCATTTTTAACAAACAAAAAGAAA
* * *
23216 CCACTATTTTTTACAAATAAAAAGAAA
1 CCACCATTTTTAACAAACAAAAAGAAA
*
23243 TCACCATTTTTAACAAACAAAAA
1 CCACCATTTTTAACAAACAAAAA
23266 AAGTAGCTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 19 0.47
27 21 0.52
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (27 bp):
CCACCATTTTTAACAAACAAAAAGAAA
Found at i:24332 original size:32 final size:32
Alignment explanation
Indices: 24290--24374 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
24280 GTTGTTTTGG
24290 ATTCGAATTATTTC-AGTTTTGAATCATTTTAA
1 ATTCGAATTATTTCGAG-TTTGAATCATTTTAA
* * *
24322 ATTCGGATTATTTCGAGTTTGAATTATTTTAG
1 ATTCGAATTATTTCGAGTTTGAATCATTTTAA
* * *
24354 ATTCGAGTCATTTCGATTTTG
1 ATTCGAATTATTTCGAGTTTG
24375 GATTATTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 43 0.96
33 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.49
Consensus pattern (32 bp):
ATTCGAATTATTTCGAGTTTGAATCATTTTAA
Found at i:24397 original size:32 final size:32
Alignment explanation
Indices: 24331--24407 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 32
24321 AATTCGGATT
* * *
24331 ATTTCGAGTTTGAATTATTTTAGATTCGAGTC
1 ATTTCGATTTTGGATTATTTAAGATTCGAGTC
24363 ATTTCGATTTTGGATTATTTCAAG-TTCGTA-TC
1 ATTTCGATTTTGGATTATTT-AAGATTCG-AGTC
**
24395 ATTTTAATTTTGG
1 ATTTCGATTTTGG
24408 TCGTTTCAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 35 0.92
33 3 0.08
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (32 bp):
ATTTCGATTTTGGATTATTTAAGATTCGAGTC
Found at i:24951 original size:17 final size:16
Alignment explanation
Indices: 24931--24982 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
24921 TTATTTTTTC
24931 TAAAATTATATTATAAA
1 TAAAATTAT-TTATAAA
* *
24948 TAAAGTTATTTTTAAAA
1 TAAAATTATTTAT-AAA
* *
24965 TATAATTATTCATAAA
1 TAAAATTATTTATAAA
24981 TA
1 TA
24983 TTTATTTTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TAAAATTATTTATAAA
Found at i:27163 original size:23 final size:25
Alignment explanation
Indices: 27129--27186 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
27119 CAAACATCCA
* *
27129 AAAAATGA-TTAGTACAATA-TC-T
1 AAAAATTAGTTAGTAAAATATTCAT
27151 AAAAATTAGTTAGTAAAATATTCAT
1 AAAAATTAGTTAGTAAAATATTCAT
27176 AAACAATTAGT
1 AAA-AATTAGT
27187 AAAATAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 7 0.23
23 10 0.33
24 2 0.07
25 4 0.13
26 7 0.23
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (25 bp):
AAAAATTAGTTAGTAAAATATTCAT
Found at i:38116 original size:21 final size:22
Alignment explanation
Indices: 38078--38118 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38068 CAAAAAAAGG
* *
38078 ATTTTTTACTATTATCATTTTA
1 ATTTTTTAATAATATCATTTTA
38100 ATTTTTTAATAAT-TCATTT
1 ATTTTTTAATAATATCATTT
38119 CTCATTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTTAATAATATCATTTTA
Found at i:38465 original size:21 final size:20
Alignment explanation
Indices: 38437--38477 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
38427 ATTTAATATT
*
38437 ATAATTGAATGTTATAAAAA
1 ATAATTGAATATTATAAAAA
38457 ATAAGTTGAATATTATGAAAA
1 ATAA-TTGAATATTAT-AAAA
38478 TAACAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (20 bp):
ATAATTGAATATTATAAAAA
Found at i:42186 original size:9 final size:9
Alignment explanation
Indices: 42172--42218 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
42162 TACTACCTTA
42172 TTTTAATTT
1 TTTTAATTT
42181 TTTTAATTT
1 TTTTAATTT
* *
42190 TATGAA-TT
1 TTTTAATTT
42198 TTTT-ATTT
1 TTTTAATTT
*
42206 TTTTTATTT
1 TTTTAATTT
42215 TTTT
1 TTTT
42219 CATATTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 1 0.03
8 10 0.31
9 21 0.66
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:42573 original size:32 final size:34
Alignment explanation
Indices: 42522--42588 Score: 120
Period size: 32 Copynumber: 2.0 Consensus size: 34
42512 GGCAAAGCAT
42522 TTGGTTTTTTGCATGTTGTCAAAGAGTTGAACAA
1 TTGGTTTTTTGCATGTTGTCAAAGAGTTGAACAA
42556 TTGG-TTTTT-CATGTTGTCAAAGAGTTGAACAA
1 TTGGTTTTTTGCATGTTGTCAAAGAGTTGAACAA
42588 T
1 T
42589 GAAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 24 0.73
33 5 0.15
34 4 0.12
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (34 bp):
TTGGTTTTTTGCATGTTGTCAAAGAGTTGAACAA
Found at i:43734 original size:13 final size:13
Alignment explanation
Indices: 43716--43744 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43706 GATACATTTC
43716 ACAATGTATCGAT
1 ACAATGTATCGAT
43729 ACAATGTATCGAT
1 ACAATGTATCGAT
43742 ACA
1 ACA
43745 CTGATTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:49686 original size:10 final size:10
Alignment explanation
Indices: 49671--49710 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
49661 CAAAAAGTAC
*
49671 TAATAATTAT
1 TAATAATTAA
49681 TAATAAATTAA
1 TAAT-AATTAA
49692 TAATAATTAA
1 TAATAATTAA
*
49702 TAAAAATTA
1 TAATAATTA
49711 TTGGACCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATAATTAA
Found at i:49694 original size:18 final size:18
Alignment explanation
Indices: 49671--49705 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49661 CAAAAAGTAC
*
49671 TAATAATTATTAATAAAT
1 TAATAATAATTAATAAAT
49689 TAATAATAATTAATAAA
1 TAATAATAATTAATAAA
49706 AATTATTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATAATAATTAATAAAT
Found at i:49992 original size:18 final size:19
Alignment explanation
Indices: 49949--50004 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 19
49939 CGATTTTTAA
49949 TTATTTTTATATTAAAAAT
1 TTATTTTTATATTAAAAAT
* *
49968 ATGTTTTTATATT-AAAAT
1 TTATTTTTATATTAAAAAT
49986 TTATTTTT-TA--AAAAAT
1 TTATTTTTATATTAAAAAT
50002 TTA
1 TTA
50005 AATAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 11 0.34
19 11 0.34
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATTTTTATATTAAAAAT
Found at i:52717 original size:12 final size:13
Alignment explanation
Indices: 52693--52725 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
52683 TCTATATATT
52693 TATTATATTTTTA
1 TATTATATTTTTA
52706 TATTAT-TTTTTA
1 TATTATATTTTTA
*
52718 TATCATAT
1 TATTATAT
52726 CATATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATATTTTTA
Found at i:52946 original size:21 final size:24
Alignment explanation
Indices: 52923--52979 Score: 89
Period size: 25 Copynumber: 2.4 Consensus size: 24
52913 CATTTCTCTT
*
52923 TATT-TTTTTTCATATCGTATTTA
1 TATTGTTTATTCATATCGTATTTA
52946 TATTGTTTAATTCATATCGTATTTA
1 TATTGTTT-ATTCATATCGTATTTA
52971 TATTGTTTA
1 TATTGTTTA
52980 ATTATCAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 23 0.74
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (24 bp):
TATTGTTTATTCATATCGTATTTA
Found at i:52959 original size:25 final size:25
Alignment explanation
Indices: 52931--52982 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
52921 TTTATTTTTT
52931 TTCATATCGTATTTATATTGTTTAA
1 TTCATATCGTATTTATATTGTTTAA
52956 TTCATATCGTATTTATATTGTTTAA
1 TTCATATCGTATTTATATTGTTTAA
52981 TT
1 TT
52983 ATCAAGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (25 bp):
TTCATATCGTATTTATATTGTTTAA
Found at i:55641 original size:2 final size:2
Alignment explanation
Indices: 55634--55660 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55624 GTACATCACC
55634 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
55661 ACGGCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59494 original size:18 final size:19
Alignment explanation
Indices: 59459--59500 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
59449 CCATGCTCCC
59459 GAGAACAAAGAACAG-AAA
1 GAGAACAAAGAACAGAAAA
** *
59477 GAGAACAATTAACGGAAAA
1 GAGAACAAAGAACAGAAAA
59496 GAGAA
1 GAGAA
59501 ATATGCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.62, C:0.10, G:0.24, T:0.05
Consensus pattern (19 bp):
GAGAACAAAGAACAGAAAA
Found at i:61515 original size:20 final size:19
Alignment explanation
Indices: 61489--61562 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 19
61479 AAAATTTCTG
61489 TATTTATATTTTATTTATA
1 TATTTATATTTTATTTATA
*
61508 TAATTTATAATTAAAATATTT-TA
1 T-ATTTAT-ATT---TTATTTATA
61531 TATTTATATTTATATTTATA
1 TATTTATATTT-TATTTATA
*
61551 TTTTTATATTTT
1 TATTTATATTTT
61563 TATATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
19 7 0.16
20 18 0.40
21 6 0.13
22 6 0.13
23 3 0.07
24 5 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTATATTTTATTTATA
Found at i:61538 original size:6 final size:6
Alignment explanation
Indices: 61489--61553 Score: 61
Period size: 6 Copynumber: 11.8 Consensus size: 6
61479 AAAATTTCTG
* **
61489 TATTTA TATTT- TATTTA TA--TA -ATTTA TAATTA -AAATA T-TTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
61531 TATTTA TATTTA TATTTA TATTT
1 TATTTA TATTTA TATTTA TATTT
61554 TTATATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 14 0.29
6 32 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATTTA
Found at i:63695 original size:79 final size:79
Alignment explanation
Indices: 63516--63857 Score: 395
Period size: 79 Copynumber: 4.3 Consensus size: 79
63506 AAAAATGGGA
* * * * * * *
63516 TTGGAGTATCCCCGATGGTGAAAAGTCGATATTTT-GAAAATAAAATCGAAGTTGGGGTAT-CCC
1 TTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAG-AAATAAAATCGGAGTTGGAGTATCCCC
* **
63579 TCGGAAATAATGGGG
65 TCGAAAATAACAGGG
* *
63594 TTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCT
1 TTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCT
63659 CGAAAATAACAGGG
66 CGAAAATAACAGGG
* * * * * *
63673 TTGGAATATCCTCGTTGGTGAAAAATTGATGTTTTAAAAATAAAAT-TGAGGTTGGAATATCCCC
1 TTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA-GTTGGAGTATCCCC
*
63737 TCGAAAATAACGGGG
65 TCGAAAATAACAGGG
* *
63752 TTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCT
1 TTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCT
* *
63817 CAGAAAAAAACAAGG
66 C-GAAAATAACAGGG
* *
63832 -TGGAGCATCCCCGATGGTAGAAAAAT
1 TTGGAGTATCCTCGATGGT-GAAAAAT
63858 GGAGTATCCC
Statistics
Matches: 226, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
78 53 0.23
79 155 0.69
80 18 0.08
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCT
CGAAAATAACAGGG
Found at i:63810 original size:158 final size:158
Alignment explanation
Indices: 63516--63857 Score: 463
Period size: 158 Copynumber: 2.2 Consensus size: 158
63506 AAAAATGGGA
* * * **
63516 TTGGAGTATCCCCGATGGTGAAAAGTCGATATTTTGAAAATAAAATCGAAGTTGGGGTATCCCTC
1 TTGGAATATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCGAAGTTGGAATATCCCTC
* *
63581 GGAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAGT
66 GAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAGT
* *
63646 TGGAGTATCCCCTC-GAAAATAACAGGG
131 TAGAGTATCCCCTCAGAAAAAAACAGGG
* * * * * *
63673 TTGGAATATCCTCGTTGGTGAAAAATTGATGTTTTAAAAATAAAATTGAGGTTGGAATATCCCCT
1 TTGGAATATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCGAAGTTGGAATAT-CCCT
* * *
63738 CGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGGGG
65 CGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAG
*
63803 TTAGAGTATCCCCTCAGAAAAAAACAAGG
130 TTAGAGTATCCCCTCAGAAAAAAACAGGG
**
63832 -TGGAGCATCCCCGATGGTAGAAAAAT
1 TTGGAATATCCCCGATGGT-GAAAAAT
63858 GGAGTATCCC
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
157 49 0.31
158 92 0.58
159 18 0.11
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (158 bp):
TTGGAATATCCCCGATGGTGAAAAATCGATATTTTAAAAATAAAATCGAAGTTGGAATATCCCTC
GAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAGT
TAGAGTATCCCCTCAGAAAAAAACAGGG
Found at i:63894 original size:132 final size:131
Alignment explanation
Indices: 63725--63988 Score: 368
Period size: 132 Copynumber: 2.0 Consensus size: 131
63715 AAATTGAGGT
** * * * *
63725 TGGAATATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTAGA
1 TGGAATATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATCGGTATTTTAGA
*
63790 AATAAAATCGGGGTTAGAGTATCCCCTCAGAAAAAAACAAGG-TGGAGCATCCCCGATGGTAGAA
66 AATAAAATCGAGGTTAGAGTATCCCCTCAG-AAAAAACAAGGTTGGAGCATCCCCGATGG-AGAA
63854 AAA
129 AAA
* *
63857 TGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCGGTATTTTAGA
1 TGGAATATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATCGGTATTTTAGA
* * * * * *
63922 AATAAAATCGAGGTTGGAGTATCCCTTCAGAAATAACAAGGTTGGAGTATCCCTGATGGAGGAAA
66 AATAAAATCGAGGTTAGAGTATCCCCTCAGAAAAAACAAGGTTGGAGCATCCCCGATGGAGAAAA
63987 A
131 A
63988 T
1 T
63989 CGATATTTTA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
131 17 0.15
132 99 0.85
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (131 bp):
TGGAATATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATCGGTATTTTAGA
AATAAAATCGAGGTTAGAGTATCCCCTCAGAAAAAACAAGGTTGGAGCATCCCCGATGGAGAAAA
A
Found at i:63957 original size:79 final size:79
Alignment explanation
Indices: 63857--64007 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
63847 GGTAGAAAAA
** * *
63857 TGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGAT-TATGAAAAATCGGTATTTTAG
1 TGGAGTATCCCCTAAAAAATAACAAGGTTGGAGTATCCCCGATGGA-GAAAAATCGATATTTTAG
63921 AAATAAAATCGAGGT
65 AAATAAAATCGAGGT
* * * * *
63936 TGGAGTATCCCTTCAGAAATAACAAGGTTGGAGTATCCCTGATGGAGGAAAATCGATATTTTAGA
1 TGGAGTATCCCCTAAAAAATAACAAGGTTGGAGTATCCCCGATGGAGAAAAATCGATATTTTAGA
64001 AATAAAA
66 AATAAAA
64008 ACATAAATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 61 0.98
80 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (79 bp):
TGGAGTATCCCCTAAAAAATAACAAGGTTGGAGTATCCCCGATGGAGAAAAATCGATATTTTAGA
AATAAAATCGAGGT
Found at i:66433 original size:20 final size:21
Alignment explanation
Indices: 66407--66464 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
66397 GTCAAAACCC
66407 AAAATGTATCGATACAATGAT
1 AAAATGTATCGATACAATGAT
* * *
66428 -AAATGTATCAATATAATTAT
1 AAAATGTATCGATACAATGAT
66448 AAATATGTATCGATACA
1 AAA-ATGTATCGATACA
66465 TTTACTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 17 0.57
21 2 0.07
22 11 0.37
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAATGTATCGATACAATGAT
Found at i:66555 original size:13 final size:13
Alignment explanation
Indices: 66533--66570 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
66523 ATTTTAGGCA
*
66533 TGTATTGATACAT
1 TGTATCGATACAT
66546 TGTATCGATACA-
1 TGTATCGATACAT
66558 T-TATCGATACAT
1 TGTATCGATACAT
66570 T
1 T
66571 TACTGTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 2 0.09
13 11 0.48
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:69327 original size:16 final size:17
Alignment explanation
Indices: 69294--69329 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
69284 TCTAGATTTA
69294 ATTTTCTTAATGGTGAT
1 ATTTTCTTAATGGTGAT
*
69311 ATTTTTTTAAT-GTGAT
1 ATTTTCTTAATGGTGAT
69327 ATT
1 ATT
69330 ATTTAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (17 bp):
ATTTTCTTAATGGTGAT
Found at i:72765 original size:32 final size:32
Alignment explanation
Indices: 72729--72806 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
72719 AGGGTAGCTT
72729 TGTATCGATACATTGTATCAATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
*
72761 TGTATCGATACATTGTATCTATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
*
72793 TGTATCAATACATT
1 TGTATCGATACATT
72807 TACTGTTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATTGTATCAATACAACACTTA
Found at i:72766 original size:19 final size:19
Alignment explanation
Indices: 72742--72804 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
72732 ATCGATACAT
72742 TGTATCAATACAACACTTA
1 TGTATCAATACAACACTTA
*
72761 TGTATCGAT---ACA--T-
1 TGTATCAATACAACACTTA
*
72774 TGTATCTATACAACACTTA
1 TGTATCAATACAACACTTA
72793 TGTATCAATACA
1 TGTATCAATACA
72805 TTTACTGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 8 0.23
14 1 0.03
16 6 0.17
18 1 0.03
19 19 0.54
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (19 bp):
TGTATCAATACAACACTTA
Found at i:73879 original size:24 final size:24
Alignment explanation
Indices: 73852--73912 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
73842 GTTATGGGTT
* *
73852 GAAAAAAAAAAG-TTAGGTAAAAAA
1 GAAAAAAAAAAGATGAAG-AAAAAA
* * *
73876 GAAAGAAAGAAGATGAAGAAGAAA
1 GAAAAAAAAAAGATGAAGAAAAAA
73900 GAAAAAAAAAAGA
1 GAAAAAAAAAAGA
73913 AAAAAATATG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAAAGATGAAGAAAAAA
Found at i:81794 original size:27 final size:27
Alignment explanation
Indices: 81754--82683 Score: 1484
Period size: 27 Copynumber: 34.0 Consensus size: 27
81744 GTGGTATTTT
*
81754 CTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
81782 CTTTTAAGTCCACAACTCTGTGG-ACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
81808 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
81836 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
81863 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
81890 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
81917 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
81944 CTTTTAAGTCCACAACTCTGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
81971 CTTTTAAAGACCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
81999 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
82026 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
82054 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82081 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
82109 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82136 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82163 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
82190 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
82217 CTTTTAAAGACCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
82245 CTTTTAAGTCCACAACTCCAGTGGCACC
1 CTTTTAAGTCCACAACTCC-GTGGCACC
82273 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
82300 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
82328 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82355 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* **
82383 CTTTTTAGTCCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82410 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
82437 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82464 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
82491 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
82519 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82546 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
82574 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82601 CTTTTAAGTCCACAAACTCCGTGGCACC
1 CTTTTAAGTCCAC-AACTCCGTGGCACC
*
82629 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
82656 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
82683 C
1 C
82684 ATTTCAAAGC
Statistics
Matches: 837, Mismatches: 53, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
26 7 0.01
27 565 0.68
28 265 0.32
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:81814 original size:54 final size:54
Alignment explanation
Indices: 81754--82683 Score: 1484
Period size: 55 Copynumber: 17.0 Consensus size: 54
81744 GTGGTATTTT
* *
81754 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGG-ACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
81808 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
81863 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
81917 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
81971 CTTTTAAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
82026 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
82081 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
82136 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
82190 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
82245 CTTTTAAGTCCACAACTCCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCC-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
82300 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* **
82355 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
82410 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
82464 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
82519 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
82574 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCAC-AACTCCGTGGCACC
* * *
82629 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
82683 C
1 C
82684 ATTTCAAAGC
Statistics
Matches: 818, Mismatches: 47, Indels: 22
0.92 0.05 0.02
Matches are distributed among these distances:
54 371 0.45
55 377 0.46
56 70 0.09
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:82149 original size:246 final size:245
Alignment explanation
Indices: 81754--82683 Score: 1535
Period size: 246 Copynumber: 3.8 Consensus size: 245
81744 GTGGTATTTT
* *
81754 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGG-ACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
* *
81818 CCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTG
65 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCG
81883 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
130 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
*
81948 TAAGTCCACAACTCTGTGACACCCTTTTAAAGACCACAACTCCGTGGCACC
195 TAAGTCCACAACTCTGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACC
* *
81999 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTT-AAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAAGT
* * *
82063 CCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCC
65 CCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCC
82128 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
129 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
82193 TTAAGTCCACAACTCTGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACC
194 TTAAGTCCACAACTCTGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACC
82245 CTTTTAAGTCCACAACTCCAGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
1 CTTTTAAGTCCACAACTCC-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
* *
82309 CCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTC
65 CCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTC
* **
82374 CGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT
128 CGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCT
* * *
82439 TTTAAGACCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
193 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACC
* * *
82491 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
*
82556 CCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAAACTCC
65 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCAC-AACTCC
* * *
82621 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCTGTGGCACCC
129 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
82684 ATTTCAAAGC
Statistics
Matches: 641, Mismatches: 35, Indels: 17
0.92 0.05 0.02
Matches are distributed among these distances:
244 42 0.07
245 46 0.07
246 394 0.61
247 159 0.25
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (245 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGT
GGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
AAGTCCACAACTCTGTGGCACCCTTTTAAAGACCACAACTCCGTGGCACC
Found at i:82721 original size:32 final size:32
Alignment explanation
Indices: 82666--83646 Score: 1624
Period size: 32 Copynumber: 30.8 Consensus size: 32
82656 CTTTTAAATC
* *
82666 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82697 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82729 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
82760 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
82792 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82824 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82855 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82887 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82919 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82951 CACAAGTC-GTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82982 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
83014 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
83046 CACAAGTCGGTGGCAA-CCTTTTTAAAGCCC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
83076 CAGAAGTTGGTGGCAACCCATTTCAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83107 CACAAGTCGGTGGCAACCCATTTCACAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTT--CAAAGCCCA
83141 CACAAGTCGGTGGCAAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGC-AACCCATTTCAAAGCCCA
*
83174 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
83206 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
83238 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83270 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83302 CACAA-TCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83333 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83365 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83397 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83429 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83461 CACAAGTCGG-GGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
83492 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
83524 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
83556 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
83588 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
83620 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
83647 TCACCATTTT
Statistics
Matches: 901, Mismatches: 33, Indels: 31
0.93 0.03 0.03
Matches are distributed among these distances:
30 19 0.02
31 206 0.23
32 616 0.68
33 34 0.04
34 17 0.02
35 9 0.01
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:82791 original size:95 final size:96
Alignment explanation
Indices: 82666--83646 Score: 1624
Period size: 95 Copynumber: 10.3 Consensus size: 96
82656 CTTTTAAATC
* *
82666 CACAACTCTGTGGC-ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
82730 ACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
82760 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
82825 ACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82855 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
82920 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82951 CACAAGTC-GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
83014 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
65 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
83046 CACAAGTCGGTGGCAA-CCTTTTTAAAGCCC-CAGAAGTTGGTGGCAACCCATTTCAAAG-CCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
83108 ACAAGTCGGTGGCAACCCATTTCACAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTT--CAAAGCCCA
*
83141 CACAAGTCGGTGGCAAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGC-AACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
83206 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
65 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
83238 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
83303 ACAA-TCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83333 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
83398 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83429 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG-GGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
83492 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
65 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * * * *
83524 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCCCAGAAGTTGGTGGCAACCCATTTAAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
83589 GCAAGTCGGTGGCAACCCATTTAAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
83620 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
83647 TCACCATTTT
Statistics
Matches: 837, Mismatches: 35, Indels: 28
0.93 0.04 0.03
Matches are distributed among these distances:
93 25 0.03
94 40 0.05
95 466 0.56
96 219 0.26
97 37 0.04
98 25 0.03
99 25 0.03
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (96 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:82831 original size:127 final size:128
Alignment explanation
Indices: 82666--83646 Score: 1624
Period size: 127 Copynumber: 7.7 Consensus size: 128
82656 CTTTTAAATC
* *
82666 CACAACTCTGTGGC-ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
82730 ACAAGTCGGTGGCAACCCA-TTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
82792 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCA-TTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
82856 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
82919 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTC-GTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
82983 ACAAGTCGGTGGCAACCCA-TTCTAAAGCCCACACAAGTAGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTC-AAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
83046 CACAAGTCGGTGGCAA-CCTTTTTAAAGCCC-CAGAAGTTGGTGGCAACCCATTTCAAAG-CCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
83108 ACAAGTCGGTGGCAACCCATTTCACAAAGCCCACACAAGTCGGTGGCAAACCCATTTCAAAGCCC
66 ACAAGTCGGTGGCAACCCATTT--CAAAGCCCACACAAGTCGGTGGC-AACCCATTTCAAAGCCC
83173 A
128 A
* *
83174 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
83239 ACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83302 CACAA-TCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
83366 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
83429 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG-GGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
* ** *
83492 CACAAGTAGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
65 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * * *
83556 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCACGCAAGTCGGTGGCAACCCATTTAAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
83621 GCAAGTCAGTGGCAACCCTTTTCAAA
66 ACAAGTCGGTGGCAACCCATTTCAAA
83647 TCACCATTTT
Statistics
Matches: 805, Mismatches: 34, Indels: 30
0.93 0.04 0.03
Matches are distributed among these distances:
125 29 0.04
126 93 0.12
127 463 0.58
128 134 0.17
129 36 0.04
130 25 0.03
131 25 0.03
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (128 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
ACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:83726 original size:45 final size:47
Alignment explanation
Indices: 83667--83797 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 47
83657 TGTCATCTTA
* * *
83667 AAGTCCGATATCGCTGGCCTTGAATCAGCATATTGG-CACCTTT-CT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCCT
* *
83712 AAGTCCAATGTCGCTGGCCTTGAGTCAGCACATTGGTCCACTTTTCCCT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CCT
* * * *
83761 TAGTCCAATGTCGTTGACCTTGAAAT-GGCACATTGGC
1 AAGTCCAATGTCGCTGGCCTTG-AATCAGCACATTGGC
83798 ACTCCTCTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 32 0.45
47 6 0.08
48 1 0.01
49 30 0.42
50 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (47 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCCT
Found at i:88033 original size:17 final size:18
Alignment explanation
Indices: 88011--88048 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88001 CATGTAAGAA
88011 TTAATA-ATT-ATATATTT
1 TTAATATATTGATA-ATTT
88028 TTAATATATTGATAATTT
1 TTAATATATTGATAATTT
88046 TTA
1 TTA
88049 TGTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 10 0.53
19 3 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTAATATATTGATAATTT
Found at i:88437 original size:21 final size:21
Alignment explanation
Indices: 88412--88453 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
88402 ATATTAACAT
88412 ATTTTAAATATTAAATAAATA
1 ATTTTAAATATTAAATAAATA
* * *
88433 ATTTTACATGTTAACTAAATA
1 ATTTTAAATATTAAATAAATA
88454 TAATAATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTTAAATATTAAATAAATA
Found at i:91772 original size:20 final size:20
Alignment explanation
Indices: 91689--91772 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 20
91679 ATTATGTGTT
*
91689 TATATTTATATTT-TTTTATT
1 TATATTTAT-TTTATTTTATA
* * *
91709 TA-AATTATTATAGTTTT-TG
1 TATATTTATTTTA-TTTTATA
*
91728 TATATTT-TTTATATATTA-A
1 TATATTTATTT-TATTTTATA
91747 TA-ATTTATTTTATTTTATA
1 TATATTTATTTTATTTTATA
91766 TATATTT
1 TATATTT
91773 TTATATATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
18 12 0.25
19 21 0.44
20 15 0.31
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATATTTATTTTATTTTATA
Found at i:91784 original size:43 final size:43
Alignment explanation
Indices: 91737--91823 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 43
91727 GTATATTTTT
* * *
91737 TATATA-TT-AATAATTTATTTTA-TTTTATATATATTTTTATA
1 TATATATTTGAATAATATATATTATTTTTATAT-TATTTTTAAA
* *
91778 TATATATTTGTATTATATATATTATTTTTATATTATTTTTAAA
1 TATATATTTGAATAATATATATTATTTTTATATTATTTTTAAA
91821 TAT
1 TAT
91824 TTTGTAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
41 6 0.16
42 2 0.05
43 22 0.58
44 8 0.21
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (43 bp):
TATATATTTGAATAATATATATTATTTTTATATTATTTTTAAA
Found at i:91809 original size:11 final size:11
Alignment explanation
Indices: 91688--91818 Score: 69
Period size: 11 Copynumber: 11.8 Consensus size: 11
91678 CATTATGTGT
*
91688 TTATATTTATA
1 TTATTTTTATA
91699 TT-TTTTTAT-
1 TTATTTTTATA
*
91708 TTAAATTATTATA
1 TT--ATTTTTATA
*
91721 GTT-TTTGTATA
1 -TTATTTTTATA
91732 TT-TTTTATATA
1 TTATTTT-TATA
* *
91743 TTAATAATTTATT
1 TT-AT-TTTTATA
91756 TTA-TTTTATA
1 TTATTTTTATA
91766 TATATTTTTATA
1 T-TATTTTTATA
* *
91778 TATATATTTGTA
1 T-TATTTTTATA
*
91790 TTA--TATATA
1 TTATTTTTATA
91799 TTATTTTTATA
1 TTATTTTTATA
91810 TTATTTTTA
1 TTATTTTTA
91819 AATATTTTGT
Statistics
Matches: 93, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
9 9 0.10
10 17 0.18
11 32 0.34
12 25 0.27
13 6 0.06
14 4 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:92847 original size:25 final size:26
Alignment explanation
Indices: 92817--92885 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
92807 CTTTTAATTT
92817 ATTTATTTAAAATAAA-AACAT-AAAA
1 ATTTATTT-AAATAAATAACATAAAAA
92842 ATTTATTTAAATAAATAACATAAAAA
1 ATTTATTTAAATAAATAACATAAAAA
92868 ATTTATTTAAATAAATAA
1 ATTTATTTAAATAAATAA
92886 TTATTATGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
24 7 0.17
25 13 0.31
26 22 0.52
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (26 bp):
ATTTATTTAAATAAATAACATAAAAA
Found at i:92952 original size:26 final size:26
Alignment explanation
Indices: 92900--92953 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
92890 TATGTAATAT
* * *
92900 AATTTAATTTAAATTATATAATTTTA
1 AATTTAATTAAAATTATAAAATATTA
92926 AATTTAATTAAAATT-TAAAAATATTA
1 AATTTAATTAAAATTAT-AAAATATTA
92952 AA
1 AA
92954 AATCTCCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATTTAATTAAAATTATAAAATATTA
Found at i:98916 original size:27 final size:27
Alignment explanation
Indices: 98885--98940 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
98875 AAAAGATAAT
* *
98885 GCATGTTAATATAATTTGAATAACATA
1 GCATGTCAATACAATTTGAATAACATA
*
98912 GCATGTCAATACGATTTGAATAACATA
1 GCATGTCAATACAATTTGAATAACATA
98939 GC
1 GC
98941 TAGAAAACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (27 bp):
GCATGTCAATACAATTTGAATAACATA
Done.