Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1446
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: 105818
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Found at i:1279 original size:28 final size:28
Alignment explanation
Indices: 1246--1307 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
1236 TCAGGCTTGA
* *
1246 AGTATCCCCTCAAAAATAATGGGGTCGG
1 AGTATCCCCACAAAAATAACGGGGTCGG
* *
1274 AGTATCCCCACGAAAATAACGGGGTTGG
1 AGTATCCCCACAAAAATAACGGGGTCGG
1302 AGTATC
1 AGTATC
1308 TCCAATTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (28 bp):
AGTATCCCCACAAAAATAACGGGGTCGG
Found at i:1469 original size:79 final size:79
Alignment explanation
Indices: 1267--1471 Score: 302
Period size: 79 Copynumber: 2.6 Consensus size: 79
1257 AAAAATAATG
* * * * * * *
1267 GGGTCGGAGTATCCCCACGAAAATAACGGGGTTGGAGTATCTCCAATTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAATT
*
1332 TAGGAATAAAACCG
66 TAGGAATAAAACCA
*
1346 GGGTTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAATT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAATT
*
1411 TAGGAATAAAGCCA
66 TAGGAATAAAACCA
* *
1425 GGGTTGGAGTATCCCTTCGGAAATAACGGGGTTTGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1472 GATTAACGGG
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 113 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAATT
TAGGAATAAAACCA
Found at i:1544 original size:51 final size:50
Alignment explanation
Indices: 1478--1650 Score: 188
Period size: 51 Copynumber: 3.4 Consensus size: 50
1468 CGATGATTAA
* *
1478 CGGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTGAAAATAAAAC
* * *
1529 CGGGGTTGGAGTATCCCCGGTTGTGGAAAATTGGTGTTTCGAAAAT-AAAT
1 CGGGGTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTGAAAATAAAAC
* * ** *
1579 CAGAGTTGTTGTATCCCCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTGA-AAATAAAAC
* *
1630 CGGGGTTAGAGTACCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1651 AATGAAAAAT
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.02
50 38 0.38
51 59 0.60
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTGAAAATAAAAC
Found at i:4101 original size:13 final size:13
Alignment explanation
Indices: 4063--4101 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
4053 GCAGTAGCTT
* *
4063 TGTAGCGATACAT
1 TGTATCGATACAA
4076 TGTATCGATACAA
1 TGTATCGATACAA
4089 TGTATCGATACAA
1 TGTATCGATACAA
4102 CATTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4782 original size:40 final size:42
Alignment explanation
Indices: 4738--4835 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
4728 TCCACTTTTC
*
4738 GAGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCCTT
1 GAGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCTTGCTCCTT
* * * *
4778 GAGGACCAAGGAAGAGAAGAAAAGGAAAGTGTCTTGCTTCTT
1 GAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCTTGCTCCTT
4820 GAGGACAAAGTGAAAA
1 GAGGACAAAG-GAAAA
4836 AGAGTACATC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 14 0.30
41 4 0.09
42 25 0.53
43 4 0.09
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (42 bp):
GAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCTTGCTCCTT
Found at i:5016 original size:61 final size:57
Alignment explanation
Indices: 4928--5287 Score: 432
Period size: 55 Copynumber: 6.3 Consensus size: 57
4918 ATAAAGTGCA
* * *
4928 TCCTGCTCTTTGAGGACT-AAAATGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT---AA-GAAAGGCG
* * * **
4989 TCCTGTTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGAA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---AAGA-AAGGCG
*
5050 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAG--AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
*
5105 TCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* * * *
5160 TCCTTCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAG--AGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* *
5215 TCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-A-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
5270 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
5288 AAAGGGTGAA
Statistics
Matches: 264, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 163 0.62
57 1 0.00
58 3 0.01
60 2 0.01
61 91 0.34
62 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (57 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
Found at i:5211 original size:110 final size:110
Alignment explanation
Indices: 4995--6359 Score: 719
Period size: 116 Copynumber: 11.9 Consensus size: 110
4985 GGTGTCCTGT
* *
4995 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGAATCCTGCTCTT
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-G--CG--TCCTGCTCTT
* *
5060 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTAC
60 TGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAGAGGCATCCTAC
*
5111 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTTCTCTTTGAGGA
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
*
5176 CTGGAAAATGCCACCAACTTATGTGGGCTTTAAGAGGCATCCTGC
66 CTGGAAAATGCCACCAACTTATGTGGGCTTTAAGAGGCATCCTAC
* * *
5221 TCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
** ** ** * *
5286 CT--AAAGGGTGA--AA-GGA-G-GGAGCGTCTT-----GC-TCTTTGAGG
66 CTGGAAAATGCCACCAACTTATGTGG-GC-T-TTAAGAGGCATC-CT-A-C
* * ** ***** * *** ** * *
5324 AC--TG-GGA-AGCGCCA---CCA-ATTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTCT
1 TCTTTGAGGACTG-GAAAGTGCCACCAACTTGTGTGGGCT---TTG-AAAGGCGTCCTGCTCTTT
* *** * * * * * *
5381 AAGGACT-GAAGGCGCCGCCAGCTTATATGGGCTTTAAAAGAAAAAGGCGTCATGC
61 GAGGACTGGAAAATGCCACCAACTTATGTGGGCTTT--AAG----AGGCATCCTAC
* ** * * *
5436 TCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTC
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTT
*** * * * * * * *
5501 TGAGGACT-GAAGGCGCCGCCAGCTTATATTGGCTTTAAAAGAAAAAGGCGTCATGC
60 TGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTT--AAG----AGGCATCCTAC
* ** * * *
5557 TCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTC
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTT
*** * * * * *
5622 TGAGGACT-GAAGGCGCCGCCAGCTTATATGGGCTTTAAAAGAAAAAGGCGTCCTGC
60 TGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTT--AAG----AGGCATCCTAC
** * *
5678 TCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
*
5743 CT-GAAAAGTGCCACCAAC-TAGTGTGGGCTTTGAAAAGAAAAGGCATCCTGC
66 CTGGAAAA-TGCCACCAACTTA-TGTGGGCTTT---AAG---AGGCATCCTAC
* *
5794 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTT
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCCTGCTCTT
* * * * *
5859 GGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
60 TGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAGAGGCATCCTAC
* * *
5910 TCTTGGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
1 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
* * * * * *
5975 GTGGAAAATGCCACCAACTTGTGTAGGCTTTGAA-AGGCGTCTTGC
66 CTGGAAAATGCCACCAACTTATGTGGGCTTT-AAGAGGCATCCTAC
6020 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCT
1 TCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCT
* * * * *
6084 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-ATGCGTCCTGC
59 TTGAGGACTGGAAA-ATGCCACCAACTTATGTGGGCTTT-AAGAGGCATCCTAC
6136 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCT
1 TCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCT
* *
6200 TTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGC
59 TTGAGGACTGGAAAA-TGCCACCAACTTATGTGGGCTTT--AA-G---AGGCATCCTAC
6258 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCT
1 TCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCT
* *
6322 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
59 TTGAGGACTGGAAA-ATGCCACCAACTTATGTGGGCTTT
6360 GAAAGGAAAA
Statistics
Matches: 1065, Mismatches: 114, Indels: 134
0.81 0.09 0.10
Matches are distributed among these distances:
96 6 0.01
97 3 0.00
99 1 0.00
100 29 0.03
101 8 0.01
103 6 0.01
104 5 0.00
105 4 0.00
106 6 0.01
108 5 0.00
109 4 0.00
110 210 0.20
111 2 0.00
112 2 0.00
114 6 0.01
115 46 0.04
116 315 0.30
117 11 0.01
118 3 0.00
119 7 0.01
121 232 0.22
122 148 0.14
123 6 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (110 bp):
TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
CTGGAAAATGCCACCAACTTATGTGGGCTTTAAGAGGCATCCTAC
Found at i:5520 original size:121 final size:119
Alignment explanation
Indices: 5306--6394 Score: 1210
Period size: 116 Copynumber: 9.2 Consensus size: 119
5296 AAAGGAGGGA
* * * *
5306 GCGTCTTGCTCTTTGAGGACTGGGAA-GCGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * * *
5370 TCCTGCTCTCTAAGGACTGAAGGCGCCGCCAGCTTATATGGGCTTTAAAAGAAAAAG
64 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAG
* * * *
5427 GCGTCATGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* * * * * * *
5492 CCTGCTCTCTGAGGACTGAAGGCGCCGCCAGCTTATATTGGCTTTAAAAGAAAAAG
65 CCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAG
* * * *
5548 GCGTCATGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* * * * * *
5613 CCTGCTCTCTGAGGACTGAAGGCGCCGCCAGCTTATATGGGCTTTAAAAGAAAAAG
65 CCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAG
* *
5669 GCGTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTT------AAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
5728 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAG
65 CCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* ** * *
5785 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCA
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* **
5849 TCCTGCTCTTGGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAG
64 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* **
5901 GCGTCCTGCTCTTGGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* ** *
5960 CCTGCTCTTTGAGGAGTGGAAAATGCCACCAACTTGTGTAGGCTTT----G-AAAG
65 CCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* *
6011 GCGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
*
6076 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAT
65 CCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
*
6127 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
6192 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
65 CCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* *
6249 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
*
6314 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
65 CCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
* *
6371 GCGTCTTGCTCTTTGAGGGCTGAA
1 GCGTCCTGCTCTTTGAGGACTGAA
6395 AAGTGAAAGG
Statistics
Matches: 889, Mismatches: 54, Indels: 50
0.90 0.05 0.05
Matches are distributed among these distances:
109 1 0.00
110 98 0.11
115 26 0.03
116 285 0.32
117 5 0.01
120 2 0.00
121 281 0.32
122 190 0.21
123 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (119 bp):
GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
Found at i:5954 original size:27 final size:27
Alignment explanation
Indices: 5869--5954 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
5859 GGAGGACTGG
5869 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
* ** ** **
5896 AAAAGGCGTCCTGCTCT-TG-GAGGACTGG
1 AAAATGCCACCAACT-TGTGTG-GG-CTTT
5924 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
5951 AAAA
1 AAAA
5955 GGCGTCCTGC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 17 0.43
29 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (27 bp):
AAAATGCCACCAACTTGTGTGGGCTTT
Found at i:6238 original size:36 final size:36
Alignment explanation
Indices: 6198--6300 Score: 84
Period size: 36 Copynumber: 3.2 Consensus size: 36
6188 GCGTCCTGCT
6198 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGG
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGG
** * *
6234 CTTTGA--AAGGAAAAG-G-CATC--C-TG-CT---
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGG
*
6259 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG
1 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGG
6295 CTTTGA
1 CTTTGA
6301 AAGGAAAAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 22
0.60 0.12 0.28
Matches are distributed among these distances:
25 6 0.13
27 6 0.13
28 2 0.04
29 5 0.11
30 1 0.02
31 1 0.02
32 5 0.11
33 2 0.04
34 7 0.15
36 12 0.26
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (36 bp):
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGG
Found at i:6395 original size:61 final size:61
Alignment explanation
Indices: 5306--6395 Score: 1243
Period size: 61 Copynumber: 18.4 Consensus size: 61
5296 AAAGGAGGGA
* * * * *
5306 GCGTCTTGCTCTTTGAGGACTGGGAA-GCGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * * * * * * * *
5367 GCATCCTGCTCTCTAAGGACTG-AAGGCGCCGCCAGCTTATATGGGCTTTAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * *
5427 GCGTCATGCTCTTTGAGGACT-AGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * * * * * * * *
5488 GCATCCTGCTCTCTGAGGACTG-AAGGCGCCGCCAGCTTATATTGGCTTTAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * *
5548 GCGTCATGCTCTTTGAGGACT-AGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * * * * * * *
5609 GCATCCTGCTCTCTGAGGACTG-AAGGCGCCGCCAGCTTATATGGGCTTTAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * *
5669 GCGTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * *
5724 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * * *
5785 GCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * *
5846 GCATCCTGCTCTTGGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* *
5901 GCGTCCTGCTCTTGGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* * *
5956 GCGTCCTGCTCTTTGAGGAGTGGAAA-ATGCCACCAACTTGTGTAGGCTTT-----G-AAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
*
6011 GCGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
*
6072 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
6127 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
*
6188 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
*
6249 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
6310 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
* *
6371 GCGTCTTGCTCTTTGAGGGCTGAAA
1 GCGTCCTGCTCTTTGAGGACTGAAA
6396 AGTGAAAGGA
Statistics
Matches: 907, Mismatches: 93, Indels: 58
0.86 0.09 0.05
Matches are distributed among these distances:
54 4 0.00
55 254 0.28
56 1 0.00
59 2 0.00
60 146 0.16
61 496 0.55
62 4 0.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
Found at i:19916 original size:28 final size:28
Alignment explanation
Indices: 19882--19953 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
19872 AATAAAATCA
*
19882 GGGTTGGAGTATCCCCTCAAAAATAACG
1 GGGTTGGAGTATCCCCGCAAAAATAACG
*
19910 GGGTTGGAGTATCCCCGCGAAAATAACG
1 GGGTTGGAGTATCCCCGCAAAAATAACG
19938 GGGTTGGA-TATCCCCG
1 GGGTTGGAGTATCCCCG
19954 ATTGTGAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
27 8 0.19
28 34 0.81
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGCAAAAATAACG
Found at i:19995 original size:78 final size:79
Alignment explanation
Indices: 19908--20162 Score: 329
Period size: 79 Copynumber: 3.2 Consensus size: 79
19898 TCAAAAATAA
* *
19908 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGA-TATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
19972 TTTTGGAATAAAAC
66 TTTTGGAATAAAAC
* * *
19986 CGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCTGATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
* *
20051 TTTAGGAATAAAGC
66 TTTTGGAATAAAAC
* * * * *
20065 CAGGGTTGGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATCCTCGATTAT-AGAAA--ATTGA
1 CGGGGTTGGAGTATCCCCGCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
* *
20127 TGTTTTGAAAATAAAAT
65 T-TTTTG-GAATAAAAC
20144 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
20163 GTTGTGGAAA
Statistics
Matches: 153, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
76 2 0.01
77 2 0.01
78 44 0.29
79 105 0.69
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTTTGGAATAAAAC
Found at i:20173 original size:51 final size:51
Alignment explanation
Indices: 20093--20279 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 51
20083 TCGGAAATAA
* * *
20093 CGGGGTTGGAGTATCCTCGATTATAGAAAATTGATGTTTTGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAAT
* * *
20144 CGGGGTTGGAGTATCCCCGGTTGTGGAAAATTGGTGTTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAAT
* *
20195 CGGAGTTGGAGTATCCCCGATTGTGGAAAATT-AGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGA-TGTTTTGA-AAATAAAAT
* * * *
20246 CGAGGTTGGAATA-CCCTCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCC-CGATTGTGGAAAATTGA
20280 GAAACTTAAC
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 4 0.03
51 111 0.96
52 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAAT
Found at i:22718 original size:19 final size:19
Alignment explanation
Indices: 22694--22779 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
22684 AGCGATACAT
22694 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
22713 TGTATCGATAC---A---A
1 TGTATCGATACAAAACTTA
*
22726 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
22745 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
22766 TGTATCGATACAAA
1 TGTATCGATACAAA
22780 TTATTGAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 12 0.22
16 2 0.04
19 24 0.44
20 3 0.06
21 13 0.24
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:22730 original size:32 final size:32
Alignment explanation
Indices: 22681--22756 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
22671 GCAGTAGCTT
* *
22681 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACAATGTATCGATACAAAACTTA
*
22713 TGTATCGATACAATGTATCGATACAACACTTA
1 TGTATCGATACAATGTATCGATACAAAACTTA
22745 TGTATCGATACA
1 TGTATCGATACA
22757 TTTACTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAATGTATCGATACAAAACTTA
Found at i:22738 original size:13 final size:13
Alignment explanation
Indices: 22712--22738 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22702 TACAAAACTT
22712 ATGTATCGATACA
1 ATGTATCGATACA
22725 ATGTATCGATACA
1 ATGTATCGATACA
22738 A
1 A
22739 CACTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25009 original size:16 final size:17
Alignment explanation
Indices: 24985--25020 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
24975 AAAGGCTTTC
24985 AAAACTTTTAATAGA-A
1 AAAACTTTTAATAGAGA
*
25001 AAAAGTTTTAATAGAGA
1 AAAACTTTTAATAGAGA
25018 AAA
1 AAA
25021 TGTTGATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (17 bp):
AAAACTTTTAATAGAGA
Found at i:29007 original size:167 final size:165
Alignment explanation
Indices: 28812--29481 Score: 672
Period size: 166 Copynumber: 4.0 Consensus size: 165
28802 ATGGAAGTTT
* ** * * *
28812 AATAACAATA-TTAGATGAATTTTAAAAATTTCAAATCGAGAAAAATCTCTCCAAAAATATTTAT
1 AATAATAATATTTA-ATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CTCCAAAAACATTTAT
* * * * **
28876 GGAATAGAAAACAT-AGTATTTTAAAAATAGGAAAATTTTAAAGAAAAATATTCAAAACTTGTGA
64 AGAGTAGAAAACTTCA-TATTTTAAAAATAGGAAAATTTTAAAGAAAAA-ATTAAAAACTCATGA
*
28940 AAATAAATTAATTTTTCAAAACTGATTTAATATGAATTA
127 AAATAAATGAATTTTTCAAAACTGATTTAATATGAATTA
* * *
28979 AATGATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCTTTCCGAAAACATTTATA
1 AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CTCCAAAAACATTTATA
* *
29044 GAGTAGAAAACTTCATATTTTAAAAATAGGAAAATTTT-TAGAAAAAAATAAAAATCTCATGAAA
65 GAGTAGAAAACTTCATATTTTAAAAATAGGAAAATTTTAAAGAAAAAATTAAAAA-CTCATGAAA
* * * *
29108 ATGAATGCATTTTTGAAAATTGATTTAATATGAATTA
129 ATAAATGAATTTTTCAAAACTGATTTAATATGAATTA
* * *
29145 AATAATAATATTTAAAGAA-TTTAAAAATTAAAAACCAAGAAAAATCCTTCTAAAAACATTTCTA
1 AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-TCCAAAAACATTTATA
* * * * * * * * *
29209 GAGTAAAAAACTCCGTATTTCGAAAATTA-GAGAATTTTTAAGGAAAAAATGAAAAA-TGAATGA
65 GAGTAGAAAACTTCATATTT-TAAAAATAGGA-AAATTTTAAAGAAAAAATTAAAAACT-CATGA
* * *
29272 AAATAAATGAATTTTTAAAAATTGATTTAATATAAATTA
127 AAATAAATGAATTTTTCAAAACTGATTTAATATGAATTA
* * ** * *
29311 AATAATAATATTTGATAAATTTTAAAAAATTAAAAATTAAGAAAAATCCTCCCGAAAATATTTAT
1 AATAATAATATTTAATGAATTTT-AAAAATTAAAAACCAAGAAAAATCCT-CCAAAAACATTTAT
* * * * * * * * *
29376 GGAGTATAAAACTTCATATTTCAGAAACAAGAGAATTTTAAGGAAAAAAATGAAAAACTCATG-A
64 AGAGTAGAAAACTTCATATTTTAAAAATAGGAAAATTTTAAAG-AAAAAATTAAAAACTCATGAA
*
29440 AATAAAAGGAATTTTTCAAAACTGATTTAATA-GTAATTA
128 AAT-AAATGAATTTTTCAAAACTGATTTAATATG-AATTA
29479 AAT
1 AAT
29482 GATTTTGATG
Statistics
Matches: 420, Mismatches: 67, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
165 66 0.16
166 130 0.31
167 118 0.28
168 105 0.25
169 1 0.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (165 bp):
AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCAAAAACATTTATAG
AGTAGAAAACTTCATATTTTAAAAATAGGAAAATTTTAAAGAAAAAATTAAAAACTCATGAAAAT
AAATGAATTTTTCAAAACTGATTTAATATGAATTA
Found at i:30452 original size:40 final size:40
Alignment explanation
Indices: 30368--30510 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 40
30358 GATAAAACAG
** * * *
30368 ACAAGTCAACGGATGAGAAAGATTGACTAGGACAAAATTA
1 ACAAGTCAACAAATAAGAAAGGTTGACTAGGACAAAACTA
* * * *
30408 ACAAGTTAATAGATAAGAAAGGTTGACTGGGACAAAACCT-
1 ACAAGTCAACAAATAAGAAAGGTTGACTAGGACAAAA-CTA
* * ** **
30448 ACAAGTCAACAAATGAGAAAGGTTGACCAATACAAGCCT-
1 ACAAGTCAACAAATAAGAAAGGTTGACTAGGACAAAACTA
*
30487 ACAAGTCAACCAATAAGAAGAGGT
1 ACAAGTCAACAAATAAGAA-AGGT
30511 AAAATAACAT
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 19 0.23
40 62 0.76
41 1 0.01
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (40 bp):
ACAAGTCAACAAATAAGAAAGGTTGACTAGGACAAAACTA
Found at i:30957 original size:36 final size:35
Alignment explanation
Indices: 30879--30971 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 35
30869 CAACACTATC
* *
30879 TTTC-AAGGCTAAGATAGAA--AC-CTCCCTATCT
1 TTTCAAAGGCTAAGATAGAACCTCTCTCCCTAGCT
**
30910 TTTCACGGGCTAAGATAGAACCTCTCTCCCTAGCTT
1 TTTCAAAGGCTAAGATAGAACCTCTCTCCCTAGC-T
*
30946 TTTCAAAGGCTAAGGTAGAACCTCTC
1 TTTCAAAGGCTAAGATAGAACCTCTC
30972 AATCACTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.08
32 13 0.26
34 1 0.02
35 8 0.16
36 24 0.48
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (35 bp):
TTTCAAAGGCTAAGATAGAACCTCTCTCCCTAGCT
Found at i:34273 original size:13 final size:13
Alignment explanation
Indices: 34255--34279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34245 CATAAAGTGT
34255 TGTATCGATACAA
1 TGTATCGATACAA
34268 TGTATCGATACA
1 TGTATCGATACA
34280 TAAGTTTTGT
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:34295 original size:32 final size:33
Alignment explanation
Indices: 34235--34303 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
34225 TTCAACGATT
34235 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
34268 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
34300 TGTA
1 TGTA
34304 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:34359 original size:13 final size:13
Alignment explanation
Indices: 34341--34365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34331 ATTACTCAAA
34341 TGTATCGATACAT
1 TGTATCGATACAT
34354 TGTATCGATACA
1 TGTATCGATACA
34366 CTGATCTTTT
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:40874 original size:36 final size:36
Alignment explanation
Indices: 40827--40899 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
40817 AAACATACAT
40827 TTTGAGAACTTAAAACATCTAAATGTACAACGTAAA
1 TTTGAGAACTTAAAACATCTAAATGTACAACGTAAA
40863 TTTGAGAACTTAAAACATCTAAATGTACAACGTAAA
1 TTTGAGAACTTAAAACATCTAAATGTACAACGTAAA
40899 T
1 T
40900 ATTCCCTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.29
Consensus pattern (36 bp):
TTTGAGAACTTAAAACATCTAAATGTACAACGTAAA
Found at i:43504 original size:36 final size:33
Alignment explanation
Indices: 43422--43516 Score: 115
Period size: 36 Copynumber: 2.9 Consensus size: 33
43412 CCTTGCAACA
**
43422 CTATC-TTTC-AAGGCTAAGATAGAA-AGCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCC
*
43452 CTATCTTTTCATAGGCTAAGATAGAACCTCTCTC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTC-C
43486 TCTATCTTTTTCAAAGGCTAAGATAGAACCT
1 -CTATC-TTTTCAAAGGCTAAGATAGAACCT
43517 TTTAATCACT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 14 0.25
33 3 0.05
34 1 0.02
35 5 0.09
36 23 0.42
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (33 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCC
Found at i:44061 original size:13 final size:13
Alignment explanation
Indices: 44043--44067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44033 ACCAAGATCA
44043 TGTATCGATACAG
1 TGTATCGATACAG
44056 TGTATCGATACA
1 TGTATCGATACA
44068 AAGCAATATA
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:46757 original size:51 final size:54
Alignment explanation
Indices: 46701--47034 Score: 186
Period size: 52 Copynumber: 6.3 Consensus size: 54
46691 AATTCTCCAA
* * * *
46701 AATCGGGGATATTCCAACTCCGATTTTATTT-TCAAA-ACACTAA-TT-TTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTC-AC
*
46752 AATCGGGGATACTCTAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTCAC
* * * **** * *
46806 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTAT-TTC-C
1 AATCGGGGATACTCCAACTCCGATTTTAT-TTCTAAAAGACACCAA-----TT-TCTTCAC
* * ** *
46863 GA--GGGGATACTCCAACTCCGGTTTTATCGCT-AAA-ACACTAATTT-TTCCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAGACACCAATTTCTT-CAC
* * * *
46913 AATCGGGGATACTCCAA-TCCTGGTTTTATTT-TCAAA-ACGCCAATTTTCCTT--T
1 AATCGGGGATACTCCAACTCC-GATTTTATTTCTAAAAGACACCAA-TTT-CTTCAC
* *
46965 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-ATACCAATTT-TTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTCAC
*
47017 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
47035 CTCGTTATTT
Statistics
Matches: 219, Mismatches: 38, Indels: 51
0.71 0.12 0.17
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 4 0.02
51 33 0.15
52 83 0.38
53 29 0.13
54 28 0.13
55 23 0.11
56 1 0.00
57 6 0.03
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (54 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTCAC
Found at i:46877 original size:28 final size:27
Alignment explanation
Indices: 46810--46878 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
46800 CTTCACAATC
**
46810 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
46837 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
46865 GGGGATACTCCAAC
1 GGGGATACTCCAAC
46879 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:47018 original size:104 final size:103
Alignment explanation
Indices: 46701--47033 Score: 291
Period size: 104 Copynumber: 3.2 Consensus size: 103
46691 AATTCTCCAA
* * * *
46701 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGATACT
1 AATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* *
46765 CTAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTCAC
65 CCAACTCCGATTTTATTTCCAAAA-ACACCAATTT-TTCAC
* * * ** * * * ** * *
46806 AATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGAGGG
1 AATCGGGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--GGG
* * *
46868 GATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTTCCAC
59 GATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT-CAC
*
46913 AATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
*
46978 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAC
65 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
*
47017 AATCGAGGATACTCCAA
1 AATCGGGGATACTCCAA
47034 CCTCGTTATT
Statistics
Matches: 174, Mismatches: 38, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
103 6 0.03
104 44 0.25
105 33 0.19
106 19 0.11
107 35 0.20
108 9 0.05
109 28 0.16
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (103 bp):
AATCGGGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
Found at i:47053 original size:27 final size:29
Alignment explanation
Indices: 47018--47093 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
47008 ATTTTTCACA
* *
47018 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCG-GGATACTCCAACCCCGTTACTTCCG
47046 ATCGGGATACTCCAACCCCGTTACTTCCG
1 ATCGGGATACTCCAACCCCGTTACTTCCG
*
47075 A-GGGGATACTCCAACCCCG
1 ATCGGGATACTCCAACCCCG
47094 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 18 0.42
28 24 0.56
29 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (29 bp):
ATCGGGATACTCCAACCCCGTTACTTCCG
Found at i:47076 original size:211 final size:212
Alignment explanation
Indices: 46696--47100 Score: 620
Period size: 211 Copynumber: 1.9 Consensus size: 212
46686 TTATCAATTC
* *
46696 TCCAAAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCAAAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* * *
46761 TACTCTAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAGACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
46826 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
46891 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
46908 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCAAAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
46972 GATACTCCAACTCCGATTTTATTTCCAAAA-ATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAGACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
47035 CTCGTTATTTCATC-GGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
47099 AT
193 AT
47101 TCCCAAAATA
Statistics
Matches: 175, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
211 80 0.46
212 57 0.33
213 38 0.22
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCAAAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAGACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:47100 original size:107 final size:106
Alignment explanation
Indices: 46756--47172 Score: 345
Period size: 107 Copynumber: 3.9 Consensus size: 106
46746 TTCTATAATC
* *
46756 GGGGATACTCTAACTCCGATTTTATTTCTAAAAGACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAA-ACACCAATTT-TTCACAATCGGGGATACTCC
*
46821 AACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTCCGA
64 AACCCCGTTATTTCATC-GGGATACTCCAACCCCGTTA-TTCCGA
* * *
46865 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCC
** * * * ** * *
46928 AATCCTGGTTTTATTT--TC--AAAACGCCAATTTTCCTTTAAT-C--
64 AA-CCCCG--TTATTTCATCGGGATACTCCAA--CCCCGTTATTCCGA
* *
46969 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
*
47034 CCTCGTTATTTCATCGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCATCGGGATACTCCAACCCCGTTA-TTCCGA
* ** * * *** * * *
47076 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATGGGGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
47140 CCCCGTTATTTTCGA-AGGGATACTCCAATCCCG
66 CCCCGTTA-TTTC-ATCGGGATACTCCAACCCCG
47173 ATTTTTTTTT
Statistics
Matches: 246, Mismatches: 42, Indels: 42
0.75 0.13 0.13
Matches are distributed among these distances:
101 6 0.02
103 11 0.04
104 43 0.17
105 22 0.09
106 51 0.21
107 73 0.30
108 12 0.05
109 24 0.10
110 3 0.01
111 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (106 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
CCCCGTTATTTCATCGGGATACTCCAACCCCGTTATTCCGA
Found at i:47196 original size:79 final size:79
Alignment explanation
Indices: 47049--47249 Score: 226
Period size: 79 Copynumber: 2.5 Consensus size: 79
47039 TTATTTCATC
* * * * *
47049 GGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATCG
* **
47114 ATTTCTCATAATGG
66 ATTTCTCACAACCG
* * * ** *
47128 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-ATC
47192 GATTTCTCACAACCG
65 GATTTCTCACAACCG
* *
47207 GGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 GGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
47250 TGTTATTATC
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 8 0.08
79 95 0.92
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATCG
ATTTCTCACAACCG
Found at i:50202 original size:96 final size:97
Alignment explanation
Indices: 50028--50256 Score: 388
Period size: 96 Copynumber: 2.4 Consensus size: 97
50018 CCTCGGCGAT
* * *
50028 ACTCTAACCCTATTCCTCCGAGGGGATACTCCAACCTTGCTTTTAAACTTGTCAAGATTCAAATC
1 ACTCCAACCTTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTTGTCAAGATTCAAATC
*
50093 TTATTCTCGCTTAAATTGTCATCATC-GGGAC
66 TTATTCTAGCTTAAATTGTCATCATCGGGGAC
* *
50124 ACTCCAACCTTATTCCTCCGAAGGGATACTCCAACCTCGCTTTTAAATTTGTCAAGATTCAAATC
1 ACTCCAACCTTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTTGTCAAGATTCAAATC
50189 TTATTCTAGCTTAAATTGTCATCATCGGGGAC
66 TTATTCTAGCTTAAATTGTCATCATCGGGGAC
*
50221 ACTCCAACCTCATTCCTCCGAGGGGATACTCCAACC
1 ACTCCAACCTTATTCCTCCGAGGGGATACTCCAACC
50257 CCCTTTTTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
96 85 0.69
97 39 0.31
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (97 bp):
ACTCCAACCTTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTTGTCAAGATTCAAATC
TTATTCTAGCTTAAATTGTCATCATCGGGGAC
Found at i:53309 original size:509 final size:510
Alignment explanation
Indices: 52343--53369 Score: 1804
Period size: 509 Copynumber: 2.0 Consensus size: 510
52333 GCATTAGTCA
* * * *
52343 TGGAGCAGCAAACTGTTACTACCCTTGAGTCATTCGAGAACATCAAAGCATGGTCAGAAAATCGC
1 TGGAGTAGAAAACTGTTACTACCCTTGAGTCATTCGAGAACATCAAACCATGGTCAGAAAATCAC
* * *
52408 CAACGCCAAGATGGAGATATCTTGAAGCTCGGCTATGTCTTTACAATGCATGAAAAGGTCAAAAT
66 CAACGCCAAGATGGAGATATCTTGAAGCCCGGCTATGTCTCTACAATCCATGAAAAGGTCAAAAT
* *
52473 TGGGTTTCGACAGAATGATTGGCGAGAGCTAAAGTGTATTTGGGATAGTTGGGATAATAGTGAGA
131 TGGGTTCCGACAGAATGATTGGCGAGAGCTAAAGTGTATTTGGGACAGTTGGGATAATAGTGAGA
* *
52538 AATACGCGTTCACCGAAAGGTATGGCGACATTGCCCTCTTGCTCTAAGTAGAGATAAAAGAGGGT
196 AAGACGCGTTCACCGAAAGGTATGGCGACATTGCCCTCTTGCTCCAAGTAGAGATAAAAGAGGGT
*
52603 TTATTACGGGCAGTAGCACAGTTTTGGAACCCAGCCTAACGATGTTTTACTTTTAACTAAGAAGA
261 TTATTACGGGCAGTAGCACAGTTTTGGAACCCAGCCTAACGATGTTTTACTTTTAACCAAGAAGA
52668 CTTGACTCCTTCCATTGATGAATACACAATGTTGCTCAACATAGAAAAAGCCAAGTTTGACAGAG
326 CTTGACTCCTTCCATTGATGAATACACAATGTTGCTCAACATAGAAAAAGCCAAGTTTGACAGAG
* *
52733 TATATTGCAAGGCCTCGCAGCTCCCACCATTTAAGAAAATATTGGTGCAAATCACCGGGGCTACT
391 TATATTGCAAGGCCTCGCAGCCCCCACCATTTAAGAAAAGATTGGTGCAAATCACCGGGGCTACT
* *
52798 GAGGCTTGGATAC-TAGAACACATTAAGGTCAAAGGGAATCATGAGTGTATTTCT
456 GAGGCTTGGATACAAAAAACACATTAAGGTCAAAGGGAATCATGAGTGTATTTCT
* *
52852 TGGAGTAGAAAACTGTTACTACCTTTGAGTCATTCGAGAAGATCAAACCATGGTCAGAAAATCAC
1 TGGAGTAGAAAACTGTTACTACCCTTGAGTCATTCGAGAACATCAAACCATGGTCAGAAAATCAC
52917 CAACGCCAAGATGGAGATATCTTGAAGCCCGGCTATGTCTCTACAATCCATGAAAAGGTCAAAAT
66 CAACGCCAAGATGGAGATATCTTGAAGCCCGGCTATGTCTCTACAATCCATGAAAAGGTCAAAAT
*
52982 TGGGTTCCGACAGAATGATTGGTGAGAGCTAAAGTGTATTTGGGACAGTTGGGATAATAGTGAGA
131 TGGGTTCCGACAGAATGATTGGCGAGAGCTAAAGTGTATTTGGGACAGTTGGGATAATAGTGAGA
* * *
53047 AAGACGCGTTCACTGAAAGGTATGGCGACATTGCCTTCTTGCTCCAAGTAGAGATAGAAGAGGGT
196 AAGACGCGTTCACCGAAAGGTATGGCGACATTGCCCTCTTGCTCCAAGTAGAGATAAAAGAGGGT
*
53112 TTATTACGGGCAGTAGCACAGTTTTGGAACCCAGCTTAACGATGTTTTACTTTTAACCAAGAAGA
261 TTATTACGGGCAGTAGCACAGTTTTGGAACCCAGCCTAACGATGTTTTACTTTTAACCAAGAAGA
* *
53177 CTTGACTCTTTCTATTGATGAATACACAATGTTGCTCAACATAGAAAAAGCCAAGTTTGACAGAG
326 CTTGACTCCTTCCATTGATGAATACACAATGTTGCTCAACATAGAAAAAGCCAAGTTTGACAGAG
* *
53242 TATATTGCAAGGCCTCTCAGCCCCCACCATTTAAGAAAAGATTGGTGCAAATGACCGGGGCTACT
391 TATATTGCAAGGCCTCGCAGCCCCCACCATTTAAGAAAAGATTGGTGCAAATCACCGGGGCTACT
53307 GAGGCTTGGATACAAAAAACACATTAAGGTCAAAGGGAATCATGAGTGTATTTCT
456 GAGGCTTGGATACAAAAAACACATTAAGGTCAAAGGGAATCATGAGTGTATTTCT
53362 TGGAGTAG
1 TGGAGTAG
53370 TTTGAAGGAA
Statistics
Matches: 490, Mismatches: 27, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
509 443 0.90
510 47 0.10
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (510 bp):
TGGAGTAGAAAACTGTTACTACCCTTGAGTCATTCGAGAACATCAAACCATGGTCAGAAAATCAC
CAACGCCAAGATGGAGATATCTTGAAGCCCGGCTATGTCTCTACAATCCATGAAAAGGTCAAAAT
TGGGTTCCGACAGAATGATTGGCGAGAGCTAAAGTGTATTTGGGACAGTTGGGATAATAGTGAGA
AAGACGCGTTCACCGAAAGGTATGGCGACATTGCCCTCTTGCTCCAAGTAGAGATAAAAGAGGGT
TTATTACGGGCAGTAGCACAGTTTTGGAACCCAGCCTAACGATGTTTTACTTTTAACCAAGAAGA
CTTGACTCCTTCCATTGATGAATACACAATGTTGCTCAACATAGAAAAAGCCAAGTTTGACAGAG
TATATTGCAAGGCCTCGCAGCCCCCACCATTTAAGAAAAGATTGGTGCAAATCACCGGGGCTACT
GAGGCTTGGATACAAAAAACACATTAAGGTCAAAGGGAATCATGAGTGTATTTCT
Found at i:56746 original size:747 final size:747
Alignment explanation
Indices: 55308--56803 Score: 2886
Period size: 747 Copynumber: 2.0 Consensus size: 747
55298 ATTATGTTGC
55308 CATCCCTAAGAGAAAAAGGGCAAACTAGCAACGCCGAAACAAAAAATGAGCAAATTAATGTTGAA
1 CATCCCTAAGAGAAAAAGGGCAAACTAGCAACGCCGAAACAAAAAATGAGCAAATTAATGTTGAA
55373 AGCAACCCCTCCGGAAATGCTCCGGCTGCTCCAAGAGAAACTTTTCAGGAGCCACAGTCCAACAC
66 AGCAACCCCTCCGGAAATGCTCCGGCTGCTCCAAGAGAAACTTTTCAGGAGCCACAGTCCAACAC
*
55438 CACACTAAATTCACCTGTGACTCCGGTGATCTACTTGAACCCCATGGCATCGAATTAATTTATTC
131 CACACTAAATCCACCTGTGACTCCGGTGATCTACTTGAACCCCATGGCATCGAATTAATTTATTC
55503 CTGGCTCTCAAGGGGTAGATGTAGGAGCCTCACCAACCGACCCCATAATTGTCGACCATGAGAAT
196 CTGGCTCTCAAGGGGTAGATGTAGGAGCCTCACCAACCGACCCCATAATTGTCGACCATGAGAAT
*
55568 CAAGAAAAAGTAGAGAGTCAAAAGACCACATCAGCGACTGAGGAAATAAGCAAGTACCAGCTATT
261 CAAGAAAAAGTAGAGAGTCAAAAGACCACATCAACGACTGAGGAAATAAGCAAGTACCAGCTATT
*
55633 GGAGAAGTGCCTATGAGCTATCGAAGGGAATGACAAGTTCGGAGCTATGGATGCGGAATCACTAT
326 GGAGAAGTGCCTACGAGCTATCGAAGGGAATGACAAGTTCGGAGCTATGGATGCGGAATCACTAT
55698 CTTTGGTGTCCAACCTTGTAATCCCCCCGAAGTTCAAGGCTCCAAAATTTGAAAAGTTCAACGGC
391 CTTTGGTGTCCAACCTTGTAATCCCCCCGAAGTTCAAGGCTCCAAAATTTGAAAAGTTCAACGGC
55763 ACTACTAACCCCTCTGTACATATTCGGATGTATTTGAGGAAGATGGTCGGGTATGAGAAGGATGA
456 ACTACTAACCCCTCTGTACATATTCGGATGTATTTGAGGAAGATGGTCGGGTATGAGAAGGATGA
* *
55828 GAAACTCTTCGTTCACTATTTTCAACATAGTTTGATTGGGGCAGCTGCTTGTTGGTATATAGAGT
521 GAAACTCCTCATTCACTATTTTCAACATAGTTTGATTGGGGCAGCTGCTTGTTGGTATATAGAGT
55893 TAGATAATGTCAAAATCTAATCGTGGGCCGATTTGGCTAAAGCTTTCCTTAATCAATATAAAAAT
586 TAGATAATGTCAAAATCTAATCGTGGGCCGATTTGGCTAAAGCTTTCCTTAATCAATATAAAAAT
55958 GTCTTGGATTGGGCCCCGAATCGCCTTACTCTGAAGAATTTAGAAAAAAAACCCACTGAGAGTTT
651 GTCTTGGATTGGGCCCCGAATCGCCTTACTCTGAAGAATTTAGAAAAAAAACCCACTGAGAGTTT
56023 TAAGCAATATGCCCAATGATGGAGGGAGGGGG
716 TAAGCAATATGCCCAATGATGGAGGGAGGGGG
56055 CATCCCTAAGAGAAAAAGGGCAAACTAGCAACGCCGAAACAAAAAATGAGCAAATTAATGTTGAA
1 CATCCCTAAGAGAAAAAGGGCAAACTAGCAACGCCGAAACAAAAAATGAGCAAATTAATGTTGAA
*
56120 AGCAACCCCTCCGGAAATGCTTCGGCTGCTCCAAGAGAAACTTTTCAGGAGCCACAGTCCAACAC
66 AGCAACCCCTCCGGAAATGCTCCGGCTGCTCCAAGAGAAACTTTTCAGGAGCCACAGTCCAACAC
56185 CACACTAAATCCACCTGTGACTCCGGTGATCTACTTGAACCCCATGGCATCGAATTAATTTATTC
131 CACACTAAATCCACCTGTGACTCCGGTGATCTACTTGAACCCCATGGCATCGAATTAATTTATTC
*
56250 CTGGCTCTCAAGGGGTAGATGTAGGAGCTTCACCAACCGACCCCATAATTGTCGACCATGAGAAT
196 CTGGCTCTCAAGGGGTAGATGTAGGAGCCTCACCAACCGACCCCATAATTGTCGACCATGAGAAT
*
56315 CAAGAAAACGTAGAGAGTCAAAAGACCACATCAACGACTGAGGAAATAAGCAAGTACCAGCTATT
261 CAAGAAAAAGTAGAGAGTCAAAAGACCACATCAACGACTGAGGAAATAAGCAAGTACCAGCTATT
*
56380 GGAGAAGTGCCTACGAGCTATCGAAGGGAATGACAAGTTCGGAGCTATGGATGCGGAATCGCTAT
326 GGAGAAGTGCCTACGAGCTATCGAAGGGAATGACAAGTTCGGAGCTATGGATGCGGAATCACTAT
*
56445 CTTTGGTGTCCAACCTTGTAATCCCCCCGAAGTTCAAGGTTCCAAAATTTGAAAAGTTCAACGGC
391 CTTTGGTGTCCAACCTTGTAATCCCCCCGAAGTTCAAGGCTCCAAAATTTGAAAAGTTCAACGGC
56510 ACTACTAACCCCTCTGTACATATTCGGATGTATTTGAGGAAGATGGTCGGGTATGAGAAGGATGA
456 ACTACTAACCCCTCTGTACATATTCGGATGTATTTGAGGAAGATGGTCGGGTATGAGAAGGATGA
56575 GAAACTCCTCATTCACTATTTTCAACATAGTTTGATTGGGGCAGCTGCTTGTTGGTATATAGAGT
521 GAAACTCCTCATTCACTATTTTCAACATAGTTTGATTGGGGCAGCTGCTTGTTGGTATATAGAGT
56640 TAGATAATGTCAAAATCTAATCGTGGGCCGATTTGGCTAAAGCTTTCCTTAATCAATATAAAAAT
586 TAGATAATGTCAAAATCTAATCGTGGGCCGATTTGGCTAAAGCTTTCCTTAATCAATATAAAAAT
56705 GTCTTGGATTGGGCCCCGAATCGCCTTACTCT-AATGAATTTAGAAAAAAAACCCACTGAGAGTT
651 GTCTTGGATTGGGCCCCGAATCGCCTTACTCTGAA-GAATTTAGAAAAAAAACCCACTGAGAGTT
56769 TTAAGCAATATGCCCAATGATGGAGGGAGGGGG
715 TTAAGCAATATGCCCAATGATGGAGGGAGGGGG
56802 CA
1 CA
56804 GCTTTGGTTC
Statistics
Matches: 738, Mismatches: 10, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
746 2 0.00
747 736 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (747 bp):
CATCCCTAAGAGAAAAAGGGCAAACTAGCAACGCCGAAACAAAAAATGAGCAAATTAATGTTGAA
AGCAACCCCTCCGGAAATGCTCCGGCTGCTCCAAGAGAAACTTTTCAGGAGCCACAGTCCAACAC
CACACTAAATCCACCTGTGACTCCGGTGATCTACTTGAACCCCATGGCATCGAATTAATTTATTC
CTGGCTCTCAAGGGGTAGATGTAGGAGCCTCACCAACCGACCCCATAATTGTCGACCATGAGAAT
CAAGAAAAAGTAGAGAGTCAAAAGACCACATCAACGACTGAGGAAATAAGCAAGTACCAGCTATT
GGAGAAGTGCCTACGAGCTATCGAAGGGAATGACAAGTTCGGAGCTATGGATGCGGAATCACTAT
CTTTGGTGTCCAACCTTGTAATCCCCCCGAAGTTCAAGGCTCCAAAATTTGAAAAGTTCAACGGC
ACTACTAACCCCTCTGTACATATTCGGATGTATTTGAGGAAGATGGTCGGGTATGAGAAGGATGA
GAAACTCCTCATTCACTATTTTCAACATAGTTTGATTGGGGCAGCTGCTTGTTGGTATATAGAGT
TAGATAATGTCAAAATCTAATCGTGGGCCGATTTGGCTAAAGCTTTCCTTAATCAATATAAAAAT
GTCTTGGATTGGGCCCCGAATCGCCTTACTCTGAAGAATTTAGAAAAAAAACCCACTGAGAGTTT
TAAGCAATATGCCCAATGATGGAGGGAGGGGG
Found at i:61011 original size:10 final size:10
Alignment explanation
Indices: 60996--61039 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
60986 TTCATACCCC
*
60996 AAAAAAATAA
1 AAAAAAACAA
61006 AAAAAAACCAA
1 AAAAAAA-CAA
61017 AAAAAAAC--
1 AAAAAAACAA
61025 AAAAAAACAA
1 AAAAAAACAA
61035 AAAAA
1 AAAAA
61040 CCAAGGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:61018 original size:19 final size:19
Alignment explanation
Indices: 60994--61039 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
60984 CCTTCATACC
60994 CCAAAAAAATAA-AAAAAAA
1 CCAAAAAAA-AACAAAAAAA
61013 CCAAAAAAAAACAAAAAAA
1 CCAAAAAAAAACAAAAAAA
61032 -CAAAAAAA
1 CCAAAAAAA
61040 CCAAGGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (19 bp):
CCAAAAAAAAACAAAAAAA
Found at i:62325 original size:28 final size:28
Alignment explanation
Indices: 62281--62948 Score: 650
Period size: 28 Copynumber: 23.1 Consensus size: 28
62271 TGTTCATCTC
* *
62281 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* * *
62309 TTCAAAGCCCACGAGTCAAT-GCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
62336 TTCAAAGCCCACAAGCCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
62365 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CTT
* *
62397 TTCAAACCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
62425 CTCAAAGCCCACAAGTCAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
62453 TTCAAATCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
62481 TTCAAAGCCCACAAGTCTGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
62510 TTCAAAG-CCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
62538 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
* *
62570 TTCAAAACCCACAAGTCTA-TGGCATCTT
1 TTCAAAGCCCACAAGTC-AGTGGCACCTT
*
62598 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* * *
62626 TTCAAAGCCTATAAGTGAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
**
62655 TTCAAAGCCCACACGAGTGGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
*
62687 TTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
*
62715 TTCAAAGCCCACAAGTTAGTGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
62743 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* * * *
62771 TTCAAAGCCCATAGGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
62799 TTCAAAGCCGACAAGTC-GATGGCATTCTT
1 TTCAAAGCCCACAAGTCAG-TGGCA-CCTT
* *
62828 TTCAAAGCCCACAAGTCAGAGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
62856 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
62885 TTCAAAGCACGCACGAGTTAGTGGCAACTCTT
1 TTCAAAGC-C-CACAAGTCAGTGGC-AC-CTT
*
62917 TTCAAAGCCCACATAAGTTAGTGGCACCTT
1 TTCAAAGCCCAC--AAGTCAGTGGCACCTT
62947 TT
1 TT
62949 TTAAAAAAAA
Statistics
Matches: 551, Mismatches: 60, Indels: 56
0.83 0.09 0.08
Matches are distributed among these distances:
27 31 0.06
28 286 0.52
29 74 0.13
30 42 0.08
31 45 0.08
32 73 0.13
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:62581 original size:145 final size:143
Alignment explanation
Indices: 62281--62948 Score: 792
Period size: 145 Copynumber: 4.6 Consensus size: 143
62271 TGTTCATCTC
* * * *
62281 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAAT-GCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
62345 CACAAGCCAATGGCACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAACCCCACA
66 CACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCGGTGGCAACTCTTTTCAAAGCCCACA
*
62410 AGTTAGTGGCATCCT
129 AGTCAGTGGCATCCT
* *
62425 CTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAATCCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
62490 CACAAGTCTGTAGCACTCTTTTCAAAG-CCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACACG
66 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACA--
* *
62553 AGTCGGTGGCAACTCTT
129 AGTCAGTGGC-A-TCCT
* *
62570 TTCAAAACCCACAAGTCTA-TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTC-AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
62634 CTATAAGTGAGTGGCACTCTTTTCAAAGCCCACACGAGTGGGTGGCAACTCTTTTCAAAGCCCAC
65 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCGGTGGCAACTCTTTTCAAAGCCCAC
*
62699 AAGTTAGTGGCATCCT
128 AAGTCAGTGGCATCCT
* *
62715 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * * * * * *
62780 CATAGGTTAGTGGCAC-CCTTTCAAAGCCGACAAGTCGATGGC-ATTCTTTTCAAAGCCCACAAG
66 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAG
* *
62843 TCAGAGGCATCTT
131 TCAGTGGCATCCT
* * * * *
62856 TTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCACGCACGAGTTAGTGGCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGC-C-CACAAGTCAGTGGC-AC-CCTTTCA
*
62921 AAGCCCACATAAGTTAGTGGCAC-CTTTT
61 AAGCCCAC--AAGTCAGTGGCACTCTTTT
62949 TTAAAAAAAA
Statistics
Matches: 452, Mismatches: 54, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
141 70 0.15
142 32 0.07
143 10 0.02
144 69 0.15
145 200 0.44
146 20 0.04
147 8 0.02
148 24 0.05
149 19 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (143 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAG
TCAGTGGCATCCT
Found at i:62583 original size:173 final size:174
Alignment explanation
Indices: 62281--62947 Score: 793
Period size: 173 Copynumber: 3.9 Consensus size: 174
62271 TGTTCATCTC
* * * *
62281 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAAT-GCAC-CCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGC
* * * * *
62344 CCACAAGCCAATGGCACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAACCCCAC
66 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCCCAC
* *
62409 AAGTTAGTGGCATCCTCTCAAAGCCCACAAGTCAGTGGCATCCT
131 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
62453 TTCAAATCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCTGTAGCACTCTTTTCAAAG-
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGC
* *
62517 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAACCCAC
66 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCCCAC
*
62582 AAGTCTA-TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
131 AAGT-TAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * ** *
62626 TTCAAAGCCTATAAGTGAGTGGCACTCTTTTCAAAGCCCACACGAGTGGGTGGCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTAGC-ACTCTTTTCA
* * * *
62691 AAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACA--AGTTAGTGGC-A-TCCTTTCAAAGC
62 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGC
* * * * * *
62751 CCACAAGTCAATGGCACCCTTTCAAAGCCCATAGGTTAGTGGCACCCT
127 CCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
62799 TTCAAAGCCGACAAGTC-GATGGCATTCTTTTCAAAGCCCACAAGTCAG-AGGCA-TCTTTTCAA
1 TTCAAAGCCCACAAGTCAG-TGGCA-CCCTTTCAAAGCCCACAAGTCAGTA-GCACTCTTTTCAA
* * * *
62861 AGCCCATAAGTCAGTGGCACTCTTTTCAAAGCACGCACGAGTTAGTGGCAACTCTTTTCAAAGCC
63 AGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCC
62926 CACATAAGTTAGTGGCA-CCTTT
128 CAC--AAGTTAGTGGCATCCTTT
62948 TTTAAAAAAA
Statistics
Matches: 428, Mismatches: 48, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
169 26 0.06
170 15 0.04
171 6 0.01
172 55 0.13
173 210 0.49
174 42 0.10
175 13 0.03
176 17 0.04
177 29 0.07
178 15 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (174 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGC
CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAAGCCCAC
AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:63079 original size:45 final size:47
Alignment explanation
Indices: 63019--63130 Score: 129
Period size: 49 Copynumber: 2.4 Consensus size: 47
63009 TCGCTAGTAC
* *
63019 TGAATCAGCATATTGG-AACCTTT-ATTAGCCCAATGTCGCTGGCCT
1 TGAATTAGCACATTGGCAACCTTTCATTAGCCCAATGTCGCTGGCCT
* * *
63064 TGAATTAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCGCTGGCCT
1 TGAATTAGCACATTGG-CAACCTTT-CATTAGCCCAATGTCGCTGGCCT
* *
63113 TGAATTGGCACGTTGGCA
1 TGAATTAGCACATTGGCA
63131 CTCCTCTCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
45 14 0.25
47 5 0.09
48 1 0.02
49 35 0.64
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (47 bp):
TGAATTAGCACATTGGCAACCTTTCATTAGCCCAATGTCGCTGGCCT
Found at i:63815 original size:20 final size:20
Alignment explanation
Indices: 63790--63864 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
63780 AAGTACCCAG
*
63790 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
63810 ATGTATTGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
63830 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
63850 ATGTATCGATACATT
1 ATGTATCGATACATT
63865 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:66225 original size:97 final size:97
Alignment explanation
Indices: 66059--66304 Score: 386
Period size: 97 Copynumber: 2.5 Consensus size: 97
66049 TTTTTATTCC
* * * * *
66059 TCGGGGATACTCCAACCCCATTTCTCCGAGGGAATACTCCAACCCTGCTTTTAAACTTGTCAAGA
1 TCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGA
* *
66124 TTCAAATCTTATTCTCGTTTAAATTGTCATCA
66 TTCAAATCTTATTCTCGCTTAAATTATCATCA
66156 TCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGA
1 TCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGA
66221 TTCAAATCTTATTCTCGCTTAAATTATCATCA
66 TTCAAATCTTATTCTCGCTTAAATTATCATCA
* * *
66253 TCGGAGACACTCCAACTCCATTCC-TCTGAGGGGATACTCCAACCCCGTTTTT
1 TCGGGGACACTCCAACCCCATTCCTTC-GAGGGGATACTCCAACCCCGCTTTT
66305 TTTTCAATCA
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 2 0.01
97 136 0.99
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (97 bp):
TCGGGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGA
TTCAAATCTTATTCTCGCTTAAATTATCATCA
Found at i:67663 original size:150 final size:153
Alignment explanation
Indices: 67253--67697 Score: 413
Period size: 150 Copynumber: 2.9 Consensus size: 153
67243 AAATCATCAG
** * * ** ** * *
67253 AAAAGGATGAACCTATCCTAAATATAT-ATCTTTGGCATAAAAGTGACCCGGCAACTACTTGGGA
1 AAAAGGATGAACCTATCCTAAATATATCA-C-TTGAAATAAAAGCGATCTAGTGACTACATAGGA
* * ** * * * *
67317 CTCGATTCTAAAACAAATTACTTAAATGCCCTTAG-GTATACATTCAAAGTGAAAGTA-CCTCGA
64 TTCAATT-TAAAA-AAATTACCAAAATACCCATAGAGTATACCTTCAACGTGAAAGTATCCTCGA
* **
67380 TAACTCTAAAAGACAGGAAAATATTAT
127 TAACCCTAAAAGACACAAAAATATTAT
* * * * *
67407 AAAAGGCTGAACCTATCCTAAATATATCCCTTTGAAATAAAAGCGATTTGGTGACTATATAGGAT
1 AAAAGGATGAACCTATCCTAAATATATCAC-TTGAAATAAAAGCGATCTAGTGACTACATAGGAT
* * *
67472 TCAATTTAAAAAAATTACCAAAATACCCCTAGAGTATACCTTCGACGTGAAAGTATCCT-AATAA
65 TCAATTTAAAAAAATTACCAAAATACCCATAGAGTATACCTTCAACGTGAAAGTATCCTCGATAA
67536 CCCTAAAAGACACAAAAATATTAT
130 CCCTAAAAGACACAAAAATATTAT
* ** *
67560 AAAAGGATGAATCCTATCCTAAATGTAT-AC-TGGCATAAAAGTGA-CTAGTGACTACATAGGAT
1 AAAAGGATGAA-CCTATCCTAAATATATCACTTGAAATAAAAGCGATCTAGTGACTACATAGGAT
** * * * *
67622 TTTATTTTAAAAAATTACCAAAATACCTATA-AGATATACCTTCAACGTGAAATTAT-ATCGATA
65 TCAATTTAAAAAAATTACCAAAATACCCATAGAG-TATACCTTCAACGTGAAAGTATCCTCGATA
67685 ACCCTAAAAGACA
129 ACCCTAAAAGACA
67698 TGAAAATGAT
Statistics
Matches: 241, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
149 3 0.01
150 77 0.32
151 11 0.05
152 17 0.07
153 60 0.25
154 73 0.30
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (153 bp):
AAAAGGATGAACCTATCCTAAATATATCACTTGAAATAAAAGCGATCTAGTGACTACATAGGATT
CAATTTAAAAAAATTACCAAAATACCCATAGAGTATACCTTCAACGTGAAAGTATCCTCGATAAC
CCTAAAAGACACAAAAATATTAT
Found at i:67734 original size:150 final size:149
Alignment explanation
Indices: 67232--67697 Score: 336
Period size: 154 Copynumber: 3.1 Consensus size: 149
67222 TTAGTGATCT
* * * *
67232 TAAAAGACAC-GAAATCATCAGAAAAGGATGAA-CCTATCCTAAATATATATCTTTGGCATAAAA
1 TAAAAGACACAAAAAT-ATCA-TAAAGGATGAATCCTACCCTAAATGTATA-C--TGGCATAAAA
** * * * * ** * *
67295 GTGACCCG-GCAACTACTTGGGACTCGATTCTAAAACAAATTACTTAAATGCCCTTAG-GTATAC
61 GTGACTAGTG--ACTACATAGGATTCAATT-TAAAA-AAATTACCAAAATACCCATAGAGTATAC
* * * *
67358 ATTCAAAGTGAAAGTA-CCTCGATAACTC
122 CTTCAACGTGAAAGTATCCT-AATAACCC
** * * * * * **
67386 TAAAAGACAGGAAAATATTATAAAAGGCTGAA-CCTATCCTAAATATATCCCTTTGAAATAAAAG
1 TAAAAGACACAAAAATATCAT-AAAGGATGAATCCTACCCTAAATGTAT-AC--TGGCATAAAAG
* * * * *
67450 CGATTTGGTGACTATATAGGATTCAATTTAAAAAAATTACCAAAATACCCCTAGAGTATACCTTC
62 TGA-CTAGTGACTACATAGGATTCAATTTAAAAAAATTACCAAAATACCCATAGAGTATACCTTC
*
67515 GACGTGAAAGTATCCTAATAACCC
126 AACGTGAAAGTATCCTAATAACCC
* *
67539 TAAAAGACACAAAAATATTATAAAAGGATGAATCCTATCCTAAATGTATACTGGCATAAAAGTGA
1 TAAAAGACACAAAAATATCAT-AAAGGATGAATCCTACCCTAAATGTATACTGGCATAAAAGTGA
** * *
67604 CTAGTGACTACATAGGATTTTATTTTAAAAAATTACCAAAATACCTATA-AGATATACCTTCAAC
65 CTAGTGACTACATAGGATTCAATTTAAAAAAATTACCAAAATACCCATAGAG-TATACCTTCAAC
* * *
67668 GTGAAATTAT-ATCGATAACCC
129 GTGAAAGTATCCT-AATAACCC
67689 TAAAAGACA
1 TAAAAGACA
67698 TGAAAATGAT
Statistics
Matches: 256, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
149 3 0.01
150 77 0.30
151 11 0.04
152 17 0.07
153 60 0.23
154 82 0.32
155 5 0.02
156 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (149 bp):
TAAAAGACACAAAAATATCATAAAGGATGAATCCTACCCTAAATGTATACTGGCATAAAAGTGAC
TAGTGACTACATAGGATTCAATTTAAAAAAATTACCAAAATACCCATAGAGTATACCTTCAACGT
GAAAGTATCCTAATAACCC
Found at i:68396 original size:166 final size:167
Alignment explanation
Indices: 68064--68448 Score: 464
Period size: 166 Copynumber: 2.3 Consensus size: 167
68054 GGCCAATCTT
* * *
68064 CTTTGGCCTTAGAGCAAATTTTTTTA-ATATTTACAAATAAACCCCTAAACTTTTTAAAAATTAC
1 CTTTGGCCTTGGAACAAA-ATTTTTACATATTTACAAATAAACCCCTAAACTTTTTAAAAATTAC
* * * *
68128 ACAATCGTTCTTACATAGTTAAAACAACAAGTTAAATGTCAAATATATTCAAATCAACATAAAAA
65 ACAATCGGTCTTACATAATTAAAACAACAAGTTAAATATCAAATATAGTCAAATCAACATAAAAA
*
68193 TTAGATTAAAAAAATACAAGAAATATTCATCCAAGTAC
130 TTAGATTAAAAAAATACAAGAAAGATTCATCCAAGTAC
* *
68231 CTTTGGCCTTGGAACAAAATTTTTGCATATTTACAAATAAACCCCTAAACTTTTT-AACATTACA
1 CTTTGGCCTTGGAACAAAATTTTTACATATTTACAAATAAACCCCTAAACTTTTTAAAAATTACA
* **
68295 -AATTGGTCATTGTATAATTGAAACACAA-AA-TT-AATCATCAAATAT-GTCAAGATCAACATA
66 CAATCGGTC-TTACATAATT-AAA-ACAACAAGTTAAAT-ATCAAATATAGTCAA-ATCAACATA
* **
68355 AAAATTAGATTAAAAAATTGTAAGAAAGATT-AGGT-CAAGTAC
126 AAAATTAGATTAAAAAAATACAAGAAAGATTCA--TCCAAGTAC
* * *
68397 CTTTGGCCTTGGAACAAAGTTTTCACATATTTACAAAGAAACCCCTAAACTT
1 CTTTGGCCTTGGAACAAAATTTTTACATATTTACAAATAAACCCCTAAACTT
68449 CTAAATTTAC
Statistics
Matches: 190, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
165 14 0.07
166 121 0.64
167 51 0.27
168 4 0.02
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (167 bp):
CTTTGGCCTTGGAACAAAATTTTTACATATTTACAAATAAACCCCTAAACTTTTTAAAAATTACA
CAATCGGTCTTACATAATTAAAACAACAAGTTAAATATCAAATATAGTCAAATCAACATAAAAAT
TAGATTAAAAAAATACAAGAAAGATTCATCCAAGTAC
Found at i:68950 original size:140 final size:140
Alignment explanation
Indices: 68792--69085 Score: 554
Period size: 140 Copynumber: 2.1 Consensus size: 140
68782 AACTAAAAAA
68792 AACATGAAATCAACACCAACAACACAATCACATAATGCGACTAAAGCATAAATATTACCAAAATA
1 AACATGAAATCAACACCAACAACACAATCACATAATGCGACTAAAGCATAAATATTACCAAAATA
68857 AAGTTTTTTACATCATGAAATTTCATAAATAATATAATAATTAAGCTTAAAAATGCATGAAATCA
66 AAGTTTTTTACATCATGAAATTTCATAAATAATATAATAATTAAGCTTAAAAATGCATGAAATCA
68922 CTAATATTTC
131 CTAATATTTC
* *
68932 AACATGAAATCAACACCAACAACACAATCACATAATTCGGCTAAAGCATAAATATTACCAAAATA
1 AACATGAAATCAACACCAACAACACAATCACATAATGCGACTAAAGCATAAATATTACCAAAATA
*
68997 AAGTTTTTTACATCATGAAATTTCATAAATAATATAATACTTAAGCTTAAAAATGCATGAAATCA
66 AAGTTTTTTACATCATGAAATTTCATAAATAATATAATAATTAAGCTTAAAAATGCATGAAATCA
69062 CTAATATTTC
131 CTAATATTTC
69072 AACATG-AATCAACA
1 AACATGAAATCAACA
69086 TAAACATGAA
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
139 8 0.05
140 143 0.95
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (140 bp):
AACATGAAATCAACACCAACAACACAATCACATAATGCGACTAAAGCATAAATATTACCAAAATA
AAGTTTTTTACATCATGAAATTTCATAAATAATATAATAATTAAGCTTAAAAATGCATGAAATCA
CTAATATTTC
Found at i:69524 original size:14 final size:13
Alignment explanation
Indices: 69505--69551 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
69495 GTTGCCTTCC
69505 TTTTTATCTTTATT
1 TTTTTAT-TTTATT
69519 TTTTTATTTT-TT
1 TTTTTATTTTATT
*
69531 ATTTTATTATTATT
1 TTTTTATT-TTATT
*
69545 ATTTTAT
1 TTTTTAT
69552 AATTAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 9 0.30
13 5 0.17
14 16 0.53
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:69531 original size:15 final size:15
Alignment explanation
Indices: 69513--69551 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
69503 CCTTTTTATC
*
69513 TTTATTTTTTTATTT
1 TTTATTTTATTATTT
69528 TTTATTTTATTA-TT
1 TTTATTTTATTATTT
*
69542 ATTATTTTAT
1 TTTATTTTAT
69552 AATTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTATTATTT
Found at i:74791 original size:9 final size:9
Alignment explanation
Indices: 74777--74801 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
74767 TGATTGAAGA
74777 TAACTTGCT
1 TAACTTGCT
74786 TAACTTGCT
1 TAACTTGCT
74795 TAACTTG
1 TAACTTG
74802 GGGGAGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (9 bp):
TAACTTGCT
Found at i:76675 original size:48 final size:48
Alignment explanation
Indices: 76609--76786 Score: 225
Period size: 48 Copynumber: 3.8 Consensus size: 48
76599 AGAGGAGTGC
* * * * *
76609 CAATGTGCCAATTTAAGGCCAACGACATCGAGCTAAGGGAAAAGTAGA
1 CAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
76657 CAATGTGCTAATTCAAGGCTAGTGACATTAAGCTAAGGGAAAAGTGGA
1 CAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
76705 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGTGGA
1 CAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
76751 CAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAA
1 CAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAA
76787 TAAAGGTGCC
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 43 0.37
48 72 0.63
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (48 bp):
CAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:76731 original size:25 final size:24
Alignment explanation
Indices: 76702--76777 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
76692 AGGGAAAAGT
76702 GGACAATGTGCTGATTCAAGGCCA
1 GGACAATGTGCTGATTCAAGGCCA
* * * * *
76726 GCGACATTGAGCT-AATAAAGG--T
1 G-GACAATGTGCTGATTCAAGGCCA
76748 GGACAATGTGCTGATTCAAGGCCA
1 GGACAATGTGCTGATTCAAGGCCA
76772 GTGACA
1 G-GACA
76778 TTGAGCTAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 9
0.66 0.18 0.16
Matches are distributed among these distances:
21 9 0.24
22 7 0.19
24 8 0.22
25 13 0.35
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (24 bp):
GGACAATGTGCTGATTCAAGGCCA
Found at i:76746 original size:24 final size:23
Alignment explanation
Indices: 76719--76792 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
76709 GTGCTGATTC
76719 AAGGCCAGCGACATTGAGCTAATA
1 AAGGCCAG-GACATTGAGCTAATA
* * * * *
76743 AAGG--TGGACAATGTGCTGATTC
1 AAGGCCAGGACATTGAGCT-AATA
76765 AAGGCCAGTGACATTGAGCTAATA
1 AAGGCCAG-GACATTGAGCTAATA
76789 AAGG
1 AAGG
76793 TGCCAATATG
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 9 0.25
22 7 0.19
24 11 0.31
25 9 0.25
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.20
Consensus pattern (23 bp):
AAGGCCAGGACATTGAGCTAATA
Found at i:76752 original size:21 final size:22
Alignment explanation
Indices: 76728--76794 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
76718 CAAGGCCAGC
76728 GACATTGAGCTAATAAAGGTG-
1 GACATTGAGCTAATAAAGGTGT
* * * * *
76749 GACAATGTGCTGATTCAAGGCCAGT
1 GACATTGAGCT-AATAAAGG--TGT
76774 GACATTGAGCTAATAAAGGTG
1 GACATTGAGCTAATAAAGGTG
76795 CCAATATGCT
Statistics
Matches: 32, Mismatches: 10, Indels: 7
0.65 0.20 0.14
Matches are distributed among these distances:
21 9 0.28
22 7 0.22
24 7 0.22
25 9 0.28
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.24
Consensus pattern (22 bp):
GACATTGAGCTAATAAAGGTGT
Found at i:76766 original size:46 final size:47
Alignment explanation
Indices: 76609--76820 Score: 214
Period size: 48 Copynumber: 4.5 Consensus size: 47
76599 AGAGGAGTGC
** * * * *
76609 CAATGTGCCAATTTAAGGCCAACGACATCGAGCTAAGGGAAAAGTAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-GGAAAAGTGGA
* * * *
76657 CAATGTGCTAATTCAAGGCTAGTGACATTAAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-GGAAAAGTGGA
* *
76705 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-TAAAGGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGAAAAGTGGA
* * * *
76751 CAATGTGCTGATTCAAGGCCAGTGACATTGAGCTAA-TAAAGGT-GC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGAAAAGTGGA
* * *
76796 CAATATGCTGATTCAATGCTAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
76821 TATCGGACTT
Statistics
Matches: 144, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
45 22 0.15
46 50 0.35
48 72 0.50
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (47 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGAAAAGTGGA
Found at i:76778 original size:94 final size:95
Alignment explanation
Indices: 76609--76786 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 95
76599 AGAGGAGTGC
*
76609 CAATGTGCCAATTTAAGGCCAACGACATCGAGCTAAGGGAAAAGTAGACAATGTGCTAATTCAAG
1 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAA-GGAAAAGTAGACAATGTGCTAATTCAAG
*
76674 GCTAGTGACATTAAGCTAAGGGAAAAGTGGA
65 GCCAGTGACATTAAGCTAAGGGAAAAGTGGA
** * * * * * *
76705 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA-TAAAGGTGGACAATGTGCTGATTCAAGG
1 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGAAAAGTAGACAATGTGCTAATTCAAGG
*
76769 CCAGTGACATTGAGCTAA
66 CCAGTGACATTAAGCTAA
76787 TAAAGGTGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 40 0.56
96 31 0.44
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (95 bp):
CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGAAAAGTAGACAATGTGCTAATTCAAGG
CCAGTGACATTAAGCTAAGGGAAAAGTGGA
Found at i:77546 original size:28 final size:28
Alignment explanation
Indices: 76934--77540 Score: 781
Period size: 28 Copynumber: 21.5 Consensus size: 28
76924 CACCGACTTG
76934 TGTGGGCTTTGAAAGGGGATGCCACTGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* *
76964 TGTGGGTTTTGAAGGGGTATGCCACTGACT
1 TGTGGGCTTTGAA-AGG-ATGCCACTGACT
*
76994 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
77022 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
77050 TGTGGGCTTTGCAAA-TATGCCATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
77078 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
77106 TGTGGGCTCTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* *
77136 TGTGGGCTTTGAAGAGG-TACCACTAACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
* *
77164 TGTGGGCTTT-AAAGAGGTACCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* *
77192 TATGGGCTTTGAAAGGATGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
77220 TGGGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
77248 TGTGGCCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
77276 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
77304 TATTGGTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
77332 TGTGGGCTTTAAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77360 TGTGGGCTTTGAAAAGATACCACTGACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
77388 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77416 TATGGGTTTTGAAAGGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
77444 TGTGGGCTTTGAAAAGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
77472 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
77500 TGTGGGCTTTGAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
77528 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
77541 GAGATGAACG
Statistics
Matches: 503, Mismatches: 63, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.00
27 6 0.01
28 419 0.83
29 15 0.03
30 60 0.12
31 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:78983 original size:13 final size:13
Alignment explanation
Indices: 78965--78990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78955 CAATTTTTTG
78965 TGTATCGATACAT
1 TGTATCGATACAT
78978 TGTATCGATACAT
1 TGTATCGATACAT
78991 ACTTGCTGTA
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:79074 original size:20 final size:20
Alignment explanation
Indices: 79049--79101 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
79039 ACATCTTTTT
79049 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
79069 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
79089 CATGTATCGATAC
1 CATGTATCGATAC
79102 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:80000 original size:12 final size:11
Alignment explanation
Indices: 79983--80042 Score: 84
Period size: 11 Copynumber: 5.3 Consensus size: 11
79973 TGCTTGCTTG
79983 TTTTTTGTTTGT
1 TTTTTTGTTT-T
79995 TTTTTTGTTTT
1 TTTTTTGTTTT
80006 TTTTTTGTTTT
1 TTTTTTGTTTT
* *
80017 TTTCTTGGTTT
1 TTTTTTGTTTT
80028 TTTTTTGTCTTT
1 TTTTTTGT-TTT
80040 TTT
1 TTT
80043 GGTACGAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
11 27 0.63
12 16 0.37
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:80002 original size:19 final size:19
Alignment explanation
Indices: 79980--80019 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
79970 TTTTGCTTGC
79980 TTGTTTTTTGTTTGTTTTT
1 TTGTTTTTTGTTTGTTTTT
*
79999 TTGTTTTTTTTTTGTTTTT
1 TTGTTTTTTGTTTGTTTTT
80018 TT
1 TT
80020 CTTGGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTGTTTTTTGTTTGTTTTT
Found at i:80013 original size:23 final size:22
Alignment explanation
Indices: 79968--80042 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
79958 TTTGGACCTC
* * *
79968 TTTTTTGCTTGCTTGTTTTTTG
1 TTTTTTTCTTGGTTTTTTTTTG
* *
79990 TTTGTTTTTTTGTTTTTTTTTTG
1 TTT-TTTTCTTGGTTTTTTTTTG
80013 TTTTTTTCTTGGTTTTTTTTTG
1 TTTTTTTCTTGGTTTTTTTTTG
80035 TCTTTTTT
1 T-TTTTTT
80043 GGTACGAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 21 0.47
23 24 0.53
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.81
Consensus pattern (22 bp):
TTTTTTTCTTGGTTTTTTTTTG
Found at i:80028 original size:19 final size:19
Alignment explanation
Indices: 79990--80030 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
79980 TTGTTTTTTG
* **
79990 TTTGTTTTTTTGTTTTTTT
1 TTTGTTTTTTTCTTGGTTT
80009 TTTGTTTTTTTCTTGGTTT
1 TTTGTTTTTTTCTTGGTTT
80028 TTT
1 TTT
80031 TTTGTCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.85
Consensus pattern (19 bp):
TTTGTTTTTTTCTTGGTTT
Found at i:92394 original size:52 final size:52
Alignment explanation
Indices: 92316--92464 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
92306 CGAAATATGA
*
92316 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTAGGC
** *
92368 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTAGGC
**
92420 AAATTTGCCTGCATGTATCGATACAAAG-ATCAATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAAT-AATGTATCGATACA
92465 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTAGGC
Found at i:92468 original size:13 final size:13
Alignment explanation
Indices: 92450--92477 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92440 ATACAAAGAT
92450 CAATGTATCGATA
1 CAATGTATCGATA
92463 CAATGTATCGATA
1 CAATGTATCGATA
92476 CA
1 CA
92478 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:92557 original size:13 final size:13
Alignment explanation
Indices: 92539--92563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92529 ACAAAAAATA
92539 TGTATCGATACAT
1 TGTATCGATACAT
92552 TGTATCGATACA
1 TGTATCGATACA
92564 ACACTTTATG
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:92561 original size:32 final size:33
Alignment explanation
Indices: 92518--92583 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
92508 AGTAGCTTAA
92518 ATTGTACCGATACAA-AAAATATGTATCGATAC
1 ATTGTACCGATACAACAAAATATGTATCGATAC
* ***
92550 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTACCGATACAACAAAATATGTATCGATAC
92583 A
1 A
92584 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
ATTGTACCGATACAACAAAATATGTATCGATAC
Found at i:93300 original size:48 final size:49
Alignment explanation
Indices: 93221--93846 Score: 608
Period size: 48 Copynumber: 12.7 Consensus size: 49
93211 AAAAAGGATG
* * * * *
93221 TGCTGATTCAAGGTCGGCGACACTGGTCTTAAAGACT-AGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
* * * * *
93269 TGCTAATTCAAGGCCAGCGATATTGGGCTTAAAG-GTGAGGTACCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
* *
93317 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTG-AGGTGCCAATA
* *
93366 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGA-TGCCAAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTG----AGGTGCCAATA
* * *
93418 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGA-TGAAGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
* * * *
93466 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TGCCAAAGGCGCCGATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTG----AGGTGCCAATA
* * * *
93518 TGTTGATTCAAGGCCAACGATATTGGACTTAAAGA-TGAAGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
* * ** *
93566 TGCTGATTGAAGGCCAGCTACGTTGGACTTAAAGA-TGCCAAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTG----AGGTGCCAATA
* * *
93618 TGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AATGAAGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
* * * * *
93666 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCGAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAA-G-ACTG-AGGTGCCAATA
* * *
93718 TGCTGATTCAAGGCCAGCGATATTGGACTTATAGA-TGAAGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
* * * *
93766 TGCTGATTCGAGGCCAGCTACATTGGACTTAAAGAC-AAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
* *
93814 TGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAA
93847 AGAAGACGCC
Statistics
Matches: 477, Mismatches: 81, Indels: 40
0.80 0.14 0.07
Matches are distributed among these distances:
47 1 0.00
48 266 0.56
49 44 0.09
51 3 0.01
52 163 0.34
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACTGAGGTGCCAATA
Found at i:93503 original size:100 final size:100
Alignment explanation
Indices: 93221--93846 Score: 856
Period size: 100 Copynumber: 6.3 Consensus size: 100
93211 AAAAAGGATG
* * * * * * * *
93221 TGCTGATTCAAGGTCGGCGACACTGGTCTTAAAGACT-AGGTGCCAATATGCTAATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-TGAAGTGCCAATGTGCTGATTCAAGGCCA
* * * * ** *
93285 GCGATATTGGGCTTAAAGGTG----AGGTACCAATG
65 GCTACATTGGACTTAAAGATGCCAAAGGCGCCAATA
* * *
93317 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCA
* * *
93382 GCGATATTAGACTTAAAGATGCCAAAGGCGCCAATA
65 GCTACATTGGACTTAAAGATGCCAAAGGCGCCAATA
*
93418 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAG
*
93483 CTACATTGGACTTAAAGATGCCAAAGGCGCCGATA
66 CTACATTGGACTTAAAGATGCCAAAGGCGCCAATA
* * *
93518 TGTTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTGAAGGCCAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAG
*
93583 CTACGTTGGACTTAAAGATGCCAAAGGCGCCAATA
66 CTACATTGGACTTAAAGATGCCAAAGGCGCCAATA
*
93618 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAAGTGCCAATGTGCTGATTCAAGGCCAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAG
* *
93683 CTACATTGGACTTAAAGGTGCCGAAGGCGCCAATA
66 CTACATTGGACTTAAAGATGCCAAAGGCGCCAATA
* *
93718 TGCTGATTCAAGGCCAGCGATATTGGACTTATAGATGAAGTGCCAATGTGCTGATTCGAGGCCAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAG
*
93783 CTACATTGGACTTAAAGA---C-AAGGTGCCAATA
66 CTACATTGGACTTAAAGATGCCAAAGGCGCCAATA
* *
93814 TGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAA
93847 AGAAGACGCC
Statistics
Matches: 484, Mismatches: 40, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
95 1 0.00
96 72 0.15
97 43 0.09
100 324 0.67
101 44 0.09
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (100 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAG
CTACATTGGACTTAAAGATGCCAAAGGCGCCAATA
Found at i:93922 original size:28 final size:28
Alignment explanation
Indices: 93866--94017 Score: 173
Period size: 28 Copynumber: 5.3 Consensus size: 28
93856 CACCAACTTG
93866 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTTG-AAGG-TTGCCACT-AACT
*
93895 TGTGTGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* * * *
93923 TGTGGGCTTTTAAAGATTGCTACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* *
93951 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
*
93979 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTAACT
94009 TGTGGGCTT
1 TGTGGGCTT
94018 AAAAGAAAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
27 3 0.03
28 70 0.65
29 12 0.11
30 23 0.21
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.37
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTAACT
Found at i:94002 original size:30 final size:30
Alignment explanation
Indices: 93866--94085 Score: 165
Period size: 28 Copynumber: 7.5 Consensus size: 30
93856 CACCAACTTG
*
93866 TGTGGGCTTTTG-AAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTTGAAAAGG-TTGCCACT-GACT
* *
93895 TGTGTGCTTTTG--AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
* *
93923 TGTGGGCTTTT--AAAGATTGCTACTGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
93951 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
* *
93979 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
** * * *
94009 TGTGGGCTTAAAAGAAAAAAGAG-TGCTACGGAGT
1 TGTGGGCTT--TTG--AAAAG-GTTGCCACTGACT
* * *
94043 TGTGAGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
94072 TGTGGGCTTTTGAA
1 TGTGGGCTTTTGAA
94086 GGGTAAGGAA
Statistics
Matches: 156, Mismatches: 23, Indels: 23
0.77 0.11 0.11
Matches are distributed among these distances:
27 3 0.02
28 71 0.46
29 30 0.19
30 30 0.19
31 1 0.01
32 1 0.01
33 1 0.01
34 18 0.12
35 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAGGTTGCCACTGACT
Found at i:94020 original size:84 final size:84
Alignment explanation
Indices: 93866--94023 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 84
93856 CACCAACTTG
* *
93866 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAGGGTGCCACTAACTTGTGGGC-
93931 TTTAAAGATTGCTACTGACT
65 TTTAAAGATTGCTACTGACT
*
93951 TGTGGGCTTTT-AAAGG-TTGCCA-CTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTG
1 TGTGGGCTTTTGAAAGGTTTG-CATC-AACTTGTGGGCTTTTG--AAGGGTGCCACTAACTTGTG
*
94013 GGCTTAAAAGA
62 GGCTTTAAAGA
94024 AAAAAGAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
83 4 0.06
84 21 0.32
85 18 0.28
86 22 0.34
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (84 bp):
TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAGGGTGCCACTAACTTGTGGGCT
TTAAAGATTGCTACTGACT
Found at i:94598 original size:28 final size:28
Alignment explanation
Indices: 94573--94628 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
94563 TACAATTTGT
94573 CATGATCCCTTTGGATATCAGCATTTTC
1 CATGATCCCTTTGGATATCAGCATTTTC
*
94601 CTTGATCCCTTTGGATATCAGCATTTTC
1 CATGATCCCTTTGGATATCAGCATTTTC
94629 TGATTGCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (28 bp):
CATGATCCCTTTGGATATCAGCATTTTC
Done.