Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010447.1 Kokia drynarioides strain JFW-HI SEQ_125342, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 147683
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 8 characters in sequence are not A, C, G, or T
Found at i:1846 original size:29 final size:29
Alignment explanation
Indices: 1785--2416 Score: 418
Period size: 29 Copynumber: 21.9 Consensus size: 29
1775 CTCTAGGGTG
* * **
1785 AAATGGTAATTTTGGGAAATTCGGGGTTAA
1 AAATGG-AATTTTTGGAAGTTTAGGGTTAA
*
1815 AAATGAAATTTTTGGAAGCTTTAGGGTTAA
1 AAATGGAATTTTTGGAAG-TTTAGGGTTAA
* *
1845 AAATTGG-ATTTTTGGGAGTTTAGGGGTAA
1 AAA-TGGAATTTTTGGAAGTTTAGGGTTAA
* * *
1874 AAATGGAATTTTTGAAAGTTTGGGGGT-A
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
*
1902 AAATGGAA--TTT-----TTTGGGGTTAA
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
* * ** *
1924 AAATGGGATTTTTTGAAAGTTCGGGGGTAA
1 AAAT-GGAATTTTTGGAAGTTTAGGGTTAA
*
1954 AAATGGAATTTTTGGAAGTTTCAGGGTAAA
1 AAATGGAATTTTTGGAAGTTT-AGGGTTAA
* *
1984 AAATGGGATTTTTGGAAATTCGT-GGG-TAA
1 AAATGGAATTTTTGGAAGTT--TAGGGTTAA
* * ** *
2013 AAATGGGATATTTGGAAGTTCGGGGGTAA
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
* *
2042 AAATGGAATTTTTGGAAGTTTTGGGGTAAA
1 AAATGGAATTTTTGGAAG-TTTAGGGTTAA
* * * *
2072 AAATGGTATTTTTGGAAATTTGGGGGTAA
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
* * *
2101 AAATGGGATTTTTGAAAGTTCGAGGG-TAA
1 AAATGGAATTTTTGGAAGTT-TAGGGTTAA
* * *
2130 AAATGGAATTTTTGGAATTTTTAAGGTAAA
1 AAATGGAATTTTTGGAA-GTTTAGGGTTAA
* * ** *
2160 AAATGGGATTTTAGGAAGTTCGGGGGTAA
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
* * *
2189 AAATGGGATTTTTGGAAGTTCAGGGGTAA
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
* * * *
2218 AAATGGAATTTTTTGATGTTTTGGGGTCAA
1 AAATGGAATTTTTGGAAG-TTTAGGGTTAA
* * * *
2248 AAA-GCG-ATTTTAGGAAATTTCGAGGTCAA
1 AAATG-GAATTTTTGGAAGTTTAG-GGTTAA
* * * * *
2277 AAGTGGGATTTTAGGAAGTTTGGGGGTAA
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
* * * *
2306 AAATGGGATTTTAGGAAGTTTGGGGGTAA
1 AAATGGAATTTTTGGAAGTTTAGGGTTAA
* *
2335 AAATGGATTTTTTGGAAGTTTTAGGG-TCA
1 AAATGGAATTTTTGGAAG-TTTAGGGTTAA
2364 AAAT-GAGATTTTTGGAAGTTTAAGGG-TAA
1 AAATGGA-ATTTTTGGAAGTTT-AGGGTTAA
*
2393 AAACGGAATTTTTGGAAG-TTAGGG
1 AAATGGAATTTTTGGAAGTTTAGGG
2417 ACCTCCAGGG
Statistics
Matches: 489, Mismatches: 83, Indels: 63
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.02
22 5 0.01
23 3 0.01
25 3 0.01
26 3 0.01
27 4 0.01
28 26 0.05
29 288 0.59
30 146 0.30
31 2 0.00
32 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.31, T:0.34
Consensus pattern (29 bp):
AAATGGAATTTTTGGAAGTTTAGGGTTAA
Found at i:1878 original size:59 final size:57
Alignment explanation
Indices: 1807--2412 Score: 532
Period size: 59 Copynumber: 10.5 Consensus size: 57
1797 TGGGAAATTC
* * * *
1807 GGGGTTAAAAATGAAATTTTTGGAAGCTTTAGGGTTAAAAATTGGATTTTTGGGAGTTTA
1 GGGG-TAAAAATGGAATTTTTGGAAG-TTTGGGGGTAAAAA-TGGATTTTTGGAAGTTTA
* *
1867 GGGGTAAAAATGGAATTTTTGAAAGTTTGGGGGT-AAAATGGA-ATTT-----TTT-
1 GGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGGATTTTTGGAAGTTTA
* * *
1916 GGGGTTAAAAATGGGATTTTTTGAAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCA
1 GGGG-TAAAAAT-GGAATTTTTGGAAGTTTGGGGGTAAAAATGG-ATTTTTGGAAGTTT-A
* * * * * **
1977 -GGGTAAAAAATGGGATTTTTGGAAATTCGTGGGTAAAAATGGGATATTTGGAAGTTCG
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAAT-GGATTTTTGGAAGTTTA
* * *
2035 GGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTAAAAAATGGTATTTTTGGAAATTTG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGT-AAAAATGG-ATTTTTGGAAGTTTA
* * * * *
2094 GGGGTAAAAATGGGATTTTTGAAAGTTCGAGGGTAAAAATGGAATTTTTGGAATTTTTA
1 GGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGG-ATTTTTGGAA-GTTTA
* * * * *
2153 -AGGTAAAAAATGGGATTTTAGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTCA
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAAT-GGATTTTTGGAAGTTTA
* * * * * *
2211 GGGGTAAAAATGGAATTTTTTGATGTTTTGGGGTCAAAAA-GCGATTTTAGGAAATTTC
1 GGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGT-AAAAATG-GATTTTTGGAAGTTTA
* * * * * *
2269 GAGGTCAAAAGTGGGATTTTAGGAAGTTTGGGGGTAAAAATGGGATTTTAGGAAGTTTG
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAAT-GGATTTTTGGAAGTTTA
* ** *
2328 GGGGTAAAAATGGATTTTTTGGAAGTTTTAGGGTCAAAATGAGATTTTTGGAAGTTTA
1 GGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATG-GATTTTTGGAAGTTTA
* *
2386 AGGGTAAAAACGGAATTTTTGGAAGTT
1 GGGGTAAAAATGGAATTTTTGGAAGTT
2413 AGGGACCTCC
Statistics
Matches: 448, Mismatches: 71, Indels: 56
0.78 0.12 0.10
Matches are distributed among these distances:
49 4 0.01
50 10 0.02
51 21 0.05
52 7 0.02
53 1 0.00
54 3 0.01
55 3 0.01
56 4 0.01
57 6 0.01
58 167 0.37
59 204 0.46
60 18 0.04
ACGTcount: A:0.32, C:0.02, G:0.31, T:0.34
Consensus pattern (57 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGGATTTTTGGAAGTTTA
Found at i:1904 original size:88 final size:88
Alignment explanation
Indices: 1785--2412 Score: 586
Period size: 88 Copynumber: 7.2 Consensus size: 88
1775 CTCTAGGGTG
* * * * * * *
1785 AAATGGTAATTTTGGGAA-ATTCGGGGTTAAAAATGAAATTTTTGGAAGCTTTAGGGTTAAAAAT
1 AAATGG-AATTTTTGGAAGTTTGGGGGTAAAAAATGGAATTTTTGGAA-ATTTGGGGTTAAAAAT
* *
1849 TGGATTTTTGGGAGTTTAGGGGTAA
64 GGGATTTTTGGAAGTTTAGGGGTAA
*
1874 AAATGGAATTTTTGAAAGTTTGGGGGT--AAAATGGAA--TTT-----TTTGGGGTTAAAAATGG
1 AAATGGAATTTTTGGAAGTTTGGGGGTAAAAAATGGAATTTTTGGAAATTTGGGGTTAAAAATGG
* **
1930 GATTTTTTGAAAGTTCGGGGGTAA
66 GA-TTTTTGGAAGTTTAGGGGTAA
** * *
1954 AAATGGAATTTTTGGAAGTTTCAGGGTAAAAAATGGGATTTTTGGAAATTCGTGGG-TAAAAATG
1 AAATGGAATTTTTGGAAGTTTGGGGGTAAAAAATGGAATTTTTGGAAATTTG-GGGTTAAAAATG
* **
2018 GGATATTTGGAAGTTCGGGGGTAA
65 GGATTTTTGGAAGTTTAGGGGTAA
* * *
2042 AAATGGAATTTTTGGAAGTTTTGGGGTAAAAAATGGTATTTTTGGAAATTTGGGGGTAAAAATGG
1 AAATGGAATTTTTGGAAGTTTGGGGGTAAAAAATGGAATTTTTGGAAATTTGGGGTTAAAAATGG
* *
2107 GATTTTTGAAAG-TTCGAGGGTAA
66 GATTTTTGGAAGTTTAG-GGGTAA
* *** * * * * *
2130 AAATGGAATTTTTGGAATTTTTAAGGTAAAAAATGGGATTTTAGGAAGTTCGGGGGTAAAAATGG
1 AAATGGAATTTTTGGAAGTTTGGGGGTAAAAAATGGAATTTTTGGAAATTTGGGGTTAAAAATGG
*
2195 GATTTTTGGAAGTTCAGGGGTAA
66 GATTTTTGGAAGTTTAGGGGTAA
* * * * * * * *
2218 AAATGGAATTTTTTGATGTTTTGGGGTCAAAAA-GCG-ATTTTAGGAAATTTCGAGGTCAAAAGT
1 AAATGGAATTTTTGGAAGTTTGGGGGTAAAAAATG-GAATTTTTGGAAATTT-GGGGTTAAAAAT
* *
2281 GGGATTTTAGGAAGTTTGGGGGTAA
64 GGGATTTTTGGAAGTTTAGGGGTAA
* * * * * *
2306 AAATGGGATTTTAGGAAGTTTGGGGGT-AAAAATGGATTTTTTGGAAGTTTTAGGG-TCAAAATG
1 AAATGGAATTTTTGGAAGTTTGGGGGTAAAAAATGGAATTTTTGGAA-ATTTGGGGTTAAAAATG
* *
2369 AGATTTTTGGAAGTTTAAGGGTAA
65 GGATTTTTGGAAGTTTAGGGGTAA
*
2393 AAACGGAATTTTTGGAAGTT
1 AAATGGAATTTTTGGAAGTT
2413 AGGGACCTCC
Statistics
Matches: 448, Mismatches: 71, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
79 17 0.04
80 41 0.09
82 8 0.02
84 3 0.01
85 3 0.01
87 74 0.17
88 267 0.60
89 32 0.07
90 3 0.01
ACGTcount: A:0.32, C:0.02, G:0.31, T:0.35
Consensus pattern (88 bp):
AAATGGAATTTTTGGAAGTTTGGGGGTAAAAAATGGAATTTTTGGAAATTTGGGGTTAAAAATGG
GATTTTTGGAAGTTTAGGGGTAA
Found at i:1918 original size:21 final size:22
Alignment explanation
Indices: 1892--1938 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1882 TTTTTGAAAG
1892 TTTGGGGGT-AAAATGGAATTT
1 TTTGGGGGTAAAAATGGAATTT
* *
1913 TTTGGGGTTAAAAATGGGATTT
1 TTTGGGGGTAAAAATGGAATTT
1935 TTTG
1 TTTG
1939 AAAGTTCGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.43
Consensus pattern (22 bp):
TTTGGGGGTAAAAATGGAATTT
Found at i:1947 original size:139 final size:139
Alignment explanation
Indices: 1800--2349 Score: 395
Period size: 146 Copynumber: 3.9 Consensus size: 139
1790 GTAATTTTGG
* * * **
1800 GAAATTCGGGGTTAAAAATGAAATTTTTGGAAGCTTT-AGGGTTAAAAATTGGATTTTTGGGAGT
1 GAAATTCGGGGGTAAAAATGAAATTTTTGGAAG-TTTCAGGGTAAAAAATGGGATTTTT-GGAAA
* *
1864 TTAG-GGGTAAAAATGGAATTTTTGAAAGTTTGGGGGT-AAAATGGAATTTTTTGGGGTTAAAAA
64 TTAGTGGGTAAAAATGGAATATTTGAAAGTTCGGGGGTAAAAATGGAATTTTTTGGGGTTAAAAA
1927 TGGGATTTTTT
129 TGGGATTTTTT
*
1938 GAAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCAGGGTAAAAAATGGGATTTTTGGAAAT
1 GAAA-TTCGGGGGTAAAAATGAAATTTTTGGAAGTTTCAGGGTAAAAAATGGGATTTTTGGAAAT
* * *
2003 TCGTGGGTAAAAATGGGATATTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGG
65 TAGTGGGTAAAAATGGAATATTTGAAAGTTCGGGGGTAAAAATGGAA---TT-----TTTTGGGG
* * *
2068 TAAAAAATGGTATTTTTG
122 TTAAAAATGGGATTTTTT
* ** * *
2086 GAAATTTGGGGGTAAAAATGGGATTTTTGAAAG-TTCGAGGGT-AAAAATGGAATTTTTGG-AAT
1 GAAATTCGGGGGTAAAAATGAAATTTTTGGAAGTTTC-AGGGTAAAAAATGGGATTTTTGGAAAT
** * * * *
2148 TTTTAAGGTAAAAAATGGGAT-TTTAGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTCAG
65 TAGT-GGGT-AAAAATGGAATATTT-GAAAGTTCGGGGGTAAAAAT-GGAATTTT-----TT--G
*
2212 GGG-TAAAAATGGAATTTTTT
119 GGGTTAAAAATGGGATTTTTT
** ** ** * * * * * *
2232 GATGTTTTGGGGTCAAAAA-GCGATTTTAGGAAATTTC-GAGGTCAAAAGTGGGATTTTAGGAAG
1 GAAATTCGGGGGT-AAAAATGAAATTTTTGGAAGTTTCAG-GGTAAAAAATGGGATTTTTGGAAA
* * * * *
2295 TTTGGGGGTAAAAATGGGAT-TTTAGGAAGTTTGGGGGTAAAAATGG-ATTTTTTGG
64 TTAGTGGGTAAAAATGGAATATTT-GAAAGTTCGGGGGTAAAAATGGAATTTTTTGG
2350 AAGTTTTAGG
Statistics
Matches: 342, Mismatches: 41, Indels: 59
0.77 0.09 0.13
Matches are distributed among these distances:
137 2 0.01
138 13 0.04
139 77 0.23
140 11 0.03
143 2 0.01
144 4 0.01
145 12 0.04
146 96 0.28
147 91 0.27
148 34 0.10
ACGTcount: A:0.32, C:0.02, G:0.31, T:0.34
Consensus pattern (139 bp):
GAAATTCGGGGGTAAAAATGAAATTTTTGGAAGTTTCAGGGTAAAAAATGGGATTTTTGGAAATT
AGTGGGTAAAAATGGAATATTTGAAAGTTCGGGGGTAAAAATGGAATTTTTTGGGGTTAAAAATG
GGATTTTTT
Found at i:2128 original size:117 final size:117
Alignment explanation
Indices: 1916--2412 Score: 477
Period size: 117 Copynumber: 4.2 Consensus size: 117
1906 GGAATTTTTT
* * * * **
1916 GGGGTTAAAAATGGGATTTTTTGAAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCAGGGT
1 GGGGGTAAAAAT-GGAATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTTGGGGGT
* * *
1981 AAAAAATGGGATTTTTGGAAA-TTCGTGGGTAAAAATGGGATATTTGGAAGTTC
65 -AAAAATGGGATTTTTTGAAAGTTCGAGGGTAAAAATGGGATTTTTGGAAGTTC
** * *
2034 GGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTAAAAAATGGTATTTTTGGAAATTTGGGGGT
1 GGGGGTAAAAATGGAATTTTTGGAAGTTCGGGGGT-AAAAATGGGATTTTTGGAAGTTTGGGGGT
* * *
2099 AAAAATGGGA-TTTTTGAAAGTTCGAGGGTAAAAATGGAATTTTTGGAATTTT
65 AAAAATGGGATTTTTTGAAAGTTCGAGGGTAAAAATGGGATTTTTGGAAGTTC
*** * * **
2151 TAAGGTAAAAAATGGGATTTTAGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTCAGGGGT
1 GGGGGT-AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTTGGGGGT
* * * * * *
2216 AAAAATGGAATTTTTTG-ATGTTTTG-GGGTCAAAAA-GCGATTTTAGGAAATTTC
65 AAAAATGGGATTTTTTGAAAG-TTCGAGGGT-AAAAATGGGATTTTTGG-AAGTTC
* * * * * *
2269 -GAGGTCAAAAGTGGGATTTTAGGAAGTTTGGGGGTAAAAATGGGATTTTAGGAAGTTTGGGGGT
1 GGGGGT-AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTTGGGGGT
* ** * * *
2333 AAAAAT-GGATTTTTTGGAAGTTTTAGGGTCAAAATGAGATTTTTGGAAGTTT
65 AAAAATGGGATTTTTTGAAAGTTCGAGGGTAAAAATGGGATTTTTGGAAGTTC
** *
2385 AAGGGTAAAAACGGAATTTTTGGAAGTT
1 GGGGGTAAAAATGGAATTTTTGGAAGTT
2413 AGGGACCTCC
Statistics
Matches: 314, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
116 46 0.15
117 188 0.60
118 80 0.25
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (117 bp):
GGGGGTAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGGGATTTTTGGAAGTTTGGGGGTA
AAAATGGGATTTTTTGAAAGTTCGAGGGTAAAAATGGGATTTTTGGAAGTTC
Found at i:3514 original size:11 final size:11
Alignment explanation
Indices: 3498--3552 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
3488 TTCGTATTAA
3498 ATAATAAATAG
1 ATAATAAATAG
3509 ATAATAAAT-G
1 ATAATAAATAG
* *
3519 ATCATATTAATAT
1 AT-A-ATAAATAG
3532 ATAATAAATA-
1 ATAATAAATAG
3542 ATAAGTAAATA
1 ATAA-TAAATA
3553 TATATTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 7 0.19
11 22 0.59
12 6 0.16
13 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (11 bp):
ATAATAAATAG
Found at i:3537 original size:34 final size:32
Alignment explanation
Indices: 3498--3560 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
3488 TTCGTATTAA
3498 ATAATAAATAGATAA-TAAATGATCATATTAATAT
1 ATAATAAATA-ATAAGTAAAT-AT-ATATTAATAT
3532 ATAATAAATAATAAGTAAATATATATTAA
1 ATAATAAATAATAAGTAAATATATATTAA
3561 CAATTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 7 0.25
33 6 0.21
34 15 0.54
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (32 bp):
ATAATAAATAATAAGTAAATATATATTAATAT
Found at i:4253 original size:11 final size:11
Alignment explanation
Indices: 4239--4290 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
4229 GACTTTTTTT
4239 AATTTAAATTA
1 AATTTAAATTA
* *
4250 AATTCAATTTA
1 AATTTAAATTA
*
4261 AATTTAAATCA
1 AATTTAAATTA
*
4272 AATTTAAAATA
1 AATTTAAATTA
4283 AATTTAAA
1 AATTTAAA
4291 AAAAGGCCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:4260 original size:16 final size:17
Alignment explanation
Indices: 4239--4286 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
4229 GACTTTTTTT
4239 AATTTAAATTAAATTC-
1 AATTTAAATTAAATTCA
4255 AATTTAAATTTAAA-TCA
1 AATTTAAA-TTAAATTCA
*
4272 AATTTAAAATAAATT
1 AATTTAAATTAAATT
4287 TAAAAAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAATTAAATTCA
Found at i:5764 original size:29 final size:28
Alignment explanation
Indices: 5693--5801 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
5683 AAAGGCATTT
* **
5693 AAAATATATTTTTAAGAAGTTCAAGGGA
1 AAAATATATTTTTTAGAAGTTCGGGGGA
* *
5721 AAAAAAGTAATTTTTTAGAAGTTCGGGGGC
1 AAAATA-T-ATTTTTTAGAAGTTCGGGGGA
* **
5751 AAAATATATTTTTTTGGAAGTTCGGGGTT
1 AAAATATA-TTTTTTAGAAGTTCGGGGGA
* *
5780 AAAATGTGATTTTTGAGAAGTT
1 AAAATAT-ATTTTTTAGAAGTT
5802 TGAGGGTCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
28 6 0.09
29 36 0.55
30 23 0.35
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (28 bp):
AAAATATATTTTTTAGAAGTTCGGGGGA
Found at i:5792 original size:30 final size:29
Alignment explanation
Indices: 5693--5903 Score: 140
Period size: 30 Copynumber: 7.1 Consensus size: 29
5683 AAAGGCATTT
* ** * **
5693 AAAATATATTTTTAAGAAGTTCAAGGGAA
1 AAAATGTATTTTTTGGAAGTTCGAGGGTC
* * *
5722 AAAAAGTAATTTTTTAGAAGTTCG-GGGGC
1 AAAATGT-ATTTTTTGGAAGTTCGAGGGTC
* *
5751 AAAATATATTTTTTTGGAAGTTCG-GGGTT
1 AAAATGTA-TTTTTTGGAAGTTCGAGGGTC
*
5780 AAAATGTGA-TTTTTGAGAAGTTTGAGGGTC
1 AAAATGT-ATTTTTTG-GAAGTTCGAGGGTC
* *
5810 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
1 AAAATGTATTTTTTGG-AAGTTCGAGGGTC
** *
5840 AAAATGTATTTTTTGGAAAGTTTAAGGGTT
1 AAAATGTATTTTTTGG-AAGTTCGAGGGTC
* * * **
5870 GAAATGTAATTTTTGAAAAGTTTAAGGGTC
1 AAAATGTATTTTTTG-GAAGTTCGAGGGTC
5900 AAAA
1 AAAA
5904 CATGATTTTT
Statistics
Matches: 152, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
28 7 0.05
29 45 0.30
30 100 0.66
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGTATTTTTTGGAAGTTCGAGGGTC
Found at i:5854 original size:60 final size:61
Alignment explanation
Indices: 5730--5913 Score: 184
Period size: 60 Copynumber: 3.1 Consensus size: 61
5720 AAAAAAAGTA
* * * * * *
5730 ATTTTTT-AGAAGTTCG-GGGGCAAAATATATTTTTTTGG-AAGTTCG-GGGTTAAAATGTG
1 ATTTTTTGAGAAGTTTGAGGGTCAAAATGTA-ATTTTTGGAAAGTTTGAGGGTCAAAATGTG
5788 A-TTTTTGAGAAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATGT-
1 ATTTTTTGAGAAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATGTG
* ** * * **
5847 ATTTTTTG-GAAAGTTTAAGGGTTGAAATGTAATTTTTGAAAAGTTTAAGGGTCAAAACATG
1 ATTTTTTGAG-AAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATGTG
5908 ATTTTT
1 ATTTTT
5914 GGAAAATTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
57 5 0.05
58 16 0.15
59 19 0.18
60 60 0.57
61 6 0.06
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (61 bp):
ATTTTTTGAGAAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATGTG
Found at i:5891 original size:90 final size:88
Alignment explanation
Indices: 5750--5926 Score: 221
Period size: 90 Copynumber: 2.0 Consensus size: 88
5740 AGTTCGGGGG
** * * * *
5750 CAAAATATATTTTTTTGGAAGTTCGGGGTTAAAATGTGATTTTTGAGAAGTTTGAGGGTCAAAAT
1 CAAAATATATTTTTTTGGAAGTTAAGGGTTAAAATGTAATTTTTGAAAAGTTTAAGGGTCAAAAC
* *
5815 GTAATTTTTGGAAAGTTTGAGGGT
66 ATAATTTTTGGAAAATTT-AGGGT
* *
5839 CAAAATGTA-TTTTTTGGAAAGTTTAAGGGTTGAAATGTAATTTTTGAAAAGTTTAAGGGTCAAA
1 CAAAATATATTTTTTTGG-AAG-TTAAGGGTTAAAATGTAATTTTTGAAAAGTTTAAGGGTCAAA
*
5903 ACATGATTTTTGGAAAATTTAGGG
64 ACATAATTTTTGGAAAATTTAGGG
5927 ACCTTCTGGG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
88 8 0.11
89 15 0.20
90 52 0.69
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.38
Consensus pattern (88 bp):
CAAAATATATTTTTTTGGAAGTTAAGGGTTAAAATGTAATTTTTGAAAAGTTTAAGGGTCAAAAC
ATAATTTTTGGAAAATTTAGGGT
Found at i:5912 original size:30 final size:30
Alignment explanation
Indices: 5775--5923 Score: 131
Period size: 30 Copynumber: 5.0 Consensus size: 30
5765 TGGAAGTTCG
* * * *
5775 GGGTTAAAATGTGATTTTTGAGAAGTTTGA
1 GGGTCAAAATATGATTTTTGAAAAGTTTAA
* * * *
5805 GGGTCAAAATGTAATTTTTGGAAAGTTTGA
1 GGGTCAAAATATGATTTTTGAAAAGTTTAA
* *
5835 GGGTCAAAATGT-ATTTTTTGGAAAGTTTAA
1 GGGTCAAAATATGA-TTTTTGAAAAGTTTAA
** * *
5865 GGGTTGAAATGTAATTTTTGAAAAGTTTAA
1 GGGTCAAAATATGATTTTTGAAAAGTTTAA
*
5895 GGGTCAAAACATGATTTTTGGAAAA-TTTA
1 GGGTCAAAATATGATTTTT-GAAAAGTTTA
5924 GGGACCTTCT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.01
30 96 0.93
31 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
GGGTCAAAATATGATTTTTGAAAAGTTTAA
Found at i:7037 original size:11 final size:12
Alignment explanation
Indices: 7019--7051 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7009 TTGTTAATAT
7019 TATATTTATTA-
1 TATATTTATTAC
*
7030 TGTATTTATTAC
1 TATATTTATTAC
7042 TATATTTATT
1 TATATTTATT
7052 TCTAACAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (12 bp):
TATATTTATTAC
Found at i:7619 original size:6 final size:6
Alignment explanation
Indices: 7608--7732 Score: 104
Period size: 6 Copynumber: 22.0 Consensus size: 6
7598 ATTTATTTAT
*
7608 TTTAAA TTTAAA TTT--A TTTAAA TTTAAA ATT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** *
7653 -ATAAA TTTTAAA -AAAAA TTTAAA CTT-AA TTTAAA TTTAAA TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
7699 -ATAAA TTTAAA CTTAAA -ATAAA TTTAAC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7733 AAATGGGTTT
Statistics
Matches: 93, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
4 4 0.04
5 23 0.25
6 62 0.67
7 4 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:7627 original size:16 final size:16
Alignment explanation
Indices: 7602--7652 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 16
7592 TTAGACATTT
7602 ATTTATTTTAAATTTAA
1 ATTTA-TTTAAATTTAA
7619 ATTTATTTAAATTTAAA
1 ATTTATTTAAATTT-AA
*
7636 ATTAATTTAAATTTAA
1 ATTTATTTAAATTTAA
7652 A
1 A
7653 ATAAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 12 0.38
17 20 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTATTTAAATTTAA
Found at i:7644 original size:11 final size:11
Alignment explanation
Indices: 7645--7733 Score: 61
Period size: 11 Copynumber: 7.8 Consensus size: 11
7635 AATTAATTTA
*
7645 AATTTAAAATA
1 AATTTAAAATT
**
7656 AATTTTAAAAAA
1 AA-TTTAAAATT
*
7668 AATTTAAACTT
1 AATTTAAAATT
*
7679 AATTTAAATTT
1 AATTTAAAATT
*
7690 AAATTTAAAATA
1 -AATTTAAAATT
*
7702 AATTTAAACTT
1 AATTTAAAATT
** *
7713 AAAATAAATTT
1 AATTTAAAATT
7724 AACTTTAAAA
1 AA-TTTAAAA
7734 AATGGGTTTT
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
11 37 0.62
12 23 0.38
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:7653 original size:17 final size:17
Alignment explanation
Indices: 7608--7733 Score: 129
Period size: 17 Copynumber: 7.8 Consensus size: 17
7598 ATTTATTTAT
**
7608 TTTAAATTT-AAATTTA
1 TTTAAATTTAAAATAAA
*
7624 TTTAAATTTAAAATTAA
1 TTTAAATTTAAAATAAA
7641 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
7658 --T---TTTAAAAAAAA
1 TTTAAATTTAAAATAAA
* **
7670 TTTAAACTTAATTTAAA
1 TTTAAATTTAAAATAAA
7687 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
7704 TTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
7721 TTTAACTTTAAAA
1 TTTAAATTTAAAA
7734 AATGGGTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
12 10 0.11
14 1 0.01
15 1 0.01
16 9 0.10
17 70 0.77
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:21936 original size:16 final size:15
Alignment explanation
Indices: 21895--21939 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
21885 CATAGAATCT
*
21895 AAAAAGAAACAAATA
1 AAAAAGAAATAAATA
21910 AAACAAGAAATAAAGTA
1 AAA-AAGAAATAAA-TA
21927 AAAAAGAAATAAA
1 AAAAAGAAATAAA
21940 CATAAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.11
16 19 0.70
17 5 0.19
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAAAGAAATAAATA
Found at i:29504 original size:3 final size:3
Alignment explanation
Indices: 29491--29559 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
29481 TTGGCCTCCT
*
29491 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
29538 TTA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
29560 ATTTTTGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31215 original size:103 final size:104
Alignment explanation
Indices: 31036--31245 Score: 377
Period size: 103 Copynumber: 2.0 Consensus size: 104
31026 AGTCATATTT
*
31036 TTAGTTAGTTTTGATTGCATCAAGTTTTTGGCATCGTTACCGAGGACTGAAATATTAGGAAAACT
1 TTAGTTAGTTTTGACTGCATCAAGTTTTTGGCATCGTTACCGAGGACTGAAATATTAGGAAAACT
31101 TTATTTCTATTACTTTAGCC-TTTTTTATTTTTGTTTTA
66 TTATTTCTATTACTTTAGCCATTTTTTATTTTTGTTTTA
** *
31139 TTAGTTAGTTTTGACTGCATCAAGTTTTTGGTGTCGTTACCGGGGACTGAAATATTAGGAAAACT
1 TTAGTTAGTTTTGACTGCATCAAGTTTTTGGCATCGTTACCGAGGACTGAAATATTAGGAAAACT
31204 TTATTTCTATTACTTTAGCCATTTTTTATTTTTGTTTTA
66 TTATTTCTATTACTTTAGCCATTTTTTATTTTTGTTTTA
31243 TTA
1 TTA
31246 TTTGCATTTT
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 81 0.79
104 21 0.21
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (104 bp):
TTAGTTAGTTTTGACTGCATCAAGTTTTTGGCATCGTTACCGAGGACTGAAATATTAGGAAAACT
TTATTTCTATTACTTTAGCCATTTTTTATTTTTGTTTTA
Found at i:35672 original size:21 final size:20
Alignment explanation
Indices: 35624--35675 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
35614 ATGCTAAAAC
35624 AAATAAATGCAAAGACAATA
1 AAATAAATGCAAAGACAATA
* * *
35644 AAAAAAATGTAATGACAATTA
1 AAATAAATGCAAAGACAA-TA
35665 AAATAAATGCA
1 AAATAAATGCA
35676 TGCAACTAGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.19
Consensus pattern (20 bp):
AAATAAATGCAAAGACAATA
Found at i:36096 original size:12 final size:12
Alignment explanation
Indices: 36065--36107 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
36055 TACTTTTTTC
*
36065 TTCTTTTTCCTT
1 TTCTTCTTCCTT
* *
36077 CTCCTCTTCCTT
1 TTCTTCTTCCTT
*
36089 TTCTTCTTTCTT
1 TTCTTCTTCCTT
36101 TTCTTCT
1 TTCTTCT
36108 CTTGCTCCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
TTCTTCTTCCTT
Found at i:42097 original size:5 final size:5
Alignment explanation
Indices: 42087--42126 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
42077 ATGAAACCCA
*
42087 AAAAT AAAAT AAAAT ATAATT AAAGAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT A-AAAT AAA-AT AAAAT AAAAT AAA
42127 TCTATAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.74
6 8 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:42102 original size:10 final size:10
Alignment explanation
Indices: 42087--42126 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
42077 ATGAAACCCA
42087 AAAATAAAAT
1 AAAATAAAAT
*
42097 AAAATATAATT
1 AAAATA-AAAT
42108 AAAGATAAAAT
1 AAA-ATAAAAT
42119 AAAATAAA
1 AAAATAAA
42127 TCTATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 11 0.42
11 12 0.46
12 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:50103 original size:18 final size:18
Alignment explanation
Indices: 50066--50099 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
50056 TATCACTTAC
50066 AAAAATAAATGAAAAAAT
1 AAAAATAAATGAAAAAAT
50084 AAAAA-AAATGAAAAAA
1 AAAAATAAATGAAAAAA
50100 ATAATTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAATAAATGAAAAAAT
Found at i:50669 original size:14 final size:14
Alignment explanation
Indices: 50650--50679 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50640 TTCTTTCTTT
50650 TTATTATATTATTA
1 TTATTATATTATTA
*
50664 TTATTATTTTATTA
1 TTATTATATTATTA
50678 TT
1 TT
50680 TCACATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:50768 original size:3 final size:3
Alignment explanation
Indices: 50755--50797 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
50745 TCTCTATGTA
50755 TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50798 AGACTTTCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:53584 original size:17 final size:17
Alignment explanation
Indices: 53559--53591 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53549 TACCATGACA
*
53559 AATGGAAATGCAATGAT
1 AATGCAAATGCAATGAT
53576 AATGCAAATGCAATGA
1 AATGCAAATGCAATGA
53592 CAACTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.21
Consensus pattern (17 bp):
AATGCAAATGCAATGAT
Found at i:53785 original size:17 final size:17
Alignment explanation
Indices: 53743--53787 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
53733 ACATGGTGTT
*
53743 TTTTCTTCATTCTCTTC
1 TTTTCTTCCTTCTCTTC
53760 TTTTCTTCCTTCTCTTC
1 TTTTCTTCCTTCTCTTC
53777 TTTTCTTCCTT
1 TTTTCTTCCTT
53788 TCGTCACTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTCTTCCTTCTCTTC
Found at i:53788 original size:9 final size:9
Alignment explanation
Indices: 53743--53788 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
53733 ACATGGTGTT
*
53743 TTTTCTTCA
1 TTTTCTTCC
*
53752 TTCTCTT-C
1 TTTTCTTCC
53760 TTTTCTTCC
1 TTTTCTTCC
*
53769 TTCTCTT-C
1 TTTTCTTCC
53777 TTTTCTTCC
1 TTTTCTTCC
53786 TTT
1 TTT
53789 CGTCACTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTCTTCC
Found at i:55462 original size:52 final size:52
Alignment explanation
Indices: 55223--55461 Score: 370
Period size: 52 Copynumber: 4.6 Consensus size: 52
55213 TTCTCATTTA
** * *
55223 ATACTCACGATGACACATAGTCATTAGACCTCATAATCTGAAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
55275 ATACTCACGATGACACATAGTCATCGAACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
55327 ATACTCACAACGACACATAGTCATCGAACCTCGTAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
55379 ATACTCACGATGACATATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
55431 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
55462 TTTGCATTTA
Statistics
Matches: 170, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 170 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:56453 original size:16 final size:16
Alignment explanation
Indices: 56429--56461 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56419 TCCTTACAAA
*
56429 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
56445 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
56461 T
1 T
56462 AAAATCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:66695 original size:23 final size:24
Alignment explanation
Indices: 66668--66712 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
66658 TGAAAGAAAA
66668 GAAAAG-AAAAGTAAAAAAAAGTT
1 GAAAAGAAAAAGTAAAAAAAAGTT
*
66691 GAAAAGAAAAAGTGAAAAAAAG
1 GAAAAGAAAAAGTAAAAAAAAG
66713 AAGAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (24 bp):
GAAAAGAAAAAGTAAAAAAAAGTT
Found at i:66726 original size:20 final size:20
Alignment explanation
Indices: 66658--66752 Score: 84
Period size: 20 Copynumber: 4.5 Consensus size: 20
66648 TTTATTGTTT
66658 TGAAAGAAAAGAAAAGAAAAG
1 TGAAA-AAAAGAAAAGAAAAG
*
66679 TAAAAAAAAGTTGAAAAGAAAAAG
1 TGAAAAAAA---GAAAAG-AAAAG
* *
66703 TGAAAAAAAGAAGAGAAAAT
1 TGAAAAAAAGAAAAGAAAAG
*
66723 TGAAAAGAAGAAGAAGAAAAG
1 TGAAAAAAAGAA-AAGAAAAG
66744 -GACAAAAAA
1 TGA-AAAAAA
66753 ATGTACTTGG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
20 21 0.35
21 20 0.33
23 6 0.10
24 13 0.22
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.07
Consensus pattern (20 bp):
TGAAAAAAAGAAAAGAAAAG
Found at i:69603 original size:13 final size:13
Alignment explanation
Indices: 69580--69612 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
69570 GGCTATGCAT
69580 AGAAA-AGAGGAA
1 AGAAAGAGAGGAA
*
69592 AGTAAGAGAGGAA
1 AGAAAGAGAGGAA
69605 AGAAAGAG
1 AGAAAGAG
69613 TGATAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (13 bp):
AGAAAGAGAGGAA
Found at i:82509 original size:26 final size:26
Alignment explanation
Indices: 82473--82524 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
82463 GATATGTATG
82473 TTTAAAACCTATAGATGCATGATTGA
1 TTTAAAACCTATAGATGCATGATTGA
*
82499 TTTAGAACCTATAGATGCATGATTGA
1 TTTAAAACCTATAGATGCATGATTGA
82525 GCATGACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (26 bp):
TTTAAAACCTATAGATGCATGATTGA
Found at i:89679 original size:15 final size:14
Alignment explanation
Indices: 89654--89690 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
89644 TCAGTCACTT
*
89654 GAAAAAAAAAAAGA
1 GAAAAAAAAAAAAA
89668 GAAAAGAAAAAAAAA
1 GAAAA-AAAAAAAAA
89683 GAAAAAAA
1 GAAAAAAA
89691 TAATATTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAAAAA
Found at i:89689 original size:17 final size:17
Alignment explanation
Indices: 89657--89689 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
89647 GTCACTTGAA
*
89657 AAAAAAAAAGAGAAAAG
1 AAAAAAAAAGAAAAAAG
89674 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
89690 ATAATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:91433 original size:13 final size:13
Alignment explanation
Indices: 91401--91439 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
91391 TATCTTTAAC
91401 TTAGATTAATTTAAT
1 TTAGATTAA--TAAT
*
91416 TTAGATTAATACT
1 TTAGATTAATAAT
91429 TTAGATTAATA
1 TTAGATTAATA
91440 TCCTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (13 bp):
TTAGATTAATAAT
Found at i:100381 original size:21 final size:21
Alignment explanation
Indices: 100355--100395 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100345 AAAATGGAAC
*
100355 TATTAAATTAAAAACAAAAAA
1 TATTAAAATAAAAACAAAAAA
*
100376 TATTAAAATAAAAATAAAAA
1 TATTAAAATAAAAACAAAAA
100396 TAAAAATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
TATTAAAATAAAAACAAAAAA
Found at i:101413 original size:34 final size:34
Alignment explanation
Indices: 101367--101431 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
101357 TTCGAAAATA
*
101367 AAGAAAAGAAAAAGAA-TGAAA-TAAACTAAAACCT
1 AAGAAAACAAAAA-AACT-AAACTAAACTAAAACCT
101401 AAGAAAACAAAAAAACTAAACTAAACTAAAA
1 AAGAAAACAAAAAAACTAAACTAAACTAAAA
101432 AGAGAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.71, C:0.11, G:0.08, T:0.11
Consensus pattern (34 bp):
AAGAAAACAAAAAAACTAAACTAAACTAAAACCT
Found at i:102775 original size:11 final size:11
Alignment explanation
Indices: 102759--102785 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
102749 AGGCACATTC
102759 AAAAAAACAAA
1 AAAAAAACAAA
102770 AAAAAAACAAA
1 AAAAAAACAAA
102781 AAAAA
1 AAAAA
102786 TACATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:103427 original size:17 final size:17
Alignment explanation
Indices: 103405--103442 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
103395 AAATAACGCT
*
103405 AAAAT-AAACACACACAA
1 AAAATAAAACA-AAACAA
103422 AAAATAAAACAAAACAA
1 AAAATAAAACAAAACAA
103439 AAAA
1 AAAA
103443 ATGTGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.79, C:0.16, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAATAAAACAAAACAA
Found at i:104328 original size:29 final size:30
Alignment explanation
Indices: 104286--104366 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
104276 GAGGCTCTCG
*
104286 AACTTCTCCT-AAATTACATTTTGA-CCTTA
1 AACTTCT-CTAAAATTACATTTTGACCCCTA
*
104315 AACTTCTCTAAAATTACAATTTGACCCCTA
1 AACTTCTCTAAAATTACATTTTGACCCCTA
* * *
104345 AACTTTTCCAAAATCACATTTT
1 AACTTCTCTAAAATTACATTTT
104367 TAACCCCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.05
29 20 0.45
30 22 0.50
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
AACTTCTCTAAAATTACATTTTGACCCCTA
Found at i:104349 original size:30 final size:29
Alignment explanation
Indices: 104286--104358 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
104276 GAGGCTCTCG
* *
104286 AACTTCTCCT-AAATTACATTTTGACCTTA
1 AACTTCT-CTAAAATTACAATTTGACCCTA
104315 AACTTCTCTAAAATTACAATTTGACCCCTA
1 AACTTCTCTAAAATTACAATTTGA-CCCTA
* *
104345 AACTTTTCCAAAAT
1 AACTTCTCTAAAAT
104359 CACATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.05
29 20 0.53
30 16 0.42
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
AACTTCTCTAAAATTACAATTTGACCCTA
Found at i:104385 original size:20 final size:19
Alignment explanation
Indices: 104352--104395 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
104342 CTAAACTTTT
104352 CCAAAATCACATTTTTAACC
1 CCAAAATCACA-TTTTAACC
* * *
104372 CCAAAATTATATTTTGACC
1 CCAAAATCACATTTTAACC
104391 CCAAA
1 CCAAA
104396 CTCATCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (19 bp):
CCAAAATCACATTTTAACC
Found at i:104512 original size:29 final size:29
Alignment explanation
Indices: 104453--104512 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
104443 TTTTCAACCT
* *
104453 CAAACTTTCCAAAAGTTCAATTTTTGTCC
1 CAAACTTTCCAAAAGTTCAATTTTAGACC
* *
104482 CAAATTTTCCAAACATTTCAA-TTTAGACC
1 CAAACTTTCCAAA-AGTTCAATTTTAGACC
104511 CA
1 CA
104513 TCAAATTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (29 bp):
CAAACTTTCCAAAAGTTCAATTTTAGACC
Found at i:110286 original size:42 final size:38
Alignment explanation
Indices: 110249--110347 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 38
110239 AAAAAAGGAG
*
110249 AAATTAAGATGAAAACCCGCAAAGGGTGTCTTAAAAAAAAAA
1 AAATTAAGATGAAAACCCGCAAAGGGCGT-TT---AAAAAAA
* * *
110291 AAATCAAGATGAAAACCCACAAAGGGCGTTT-CAAAAA
1 AAATTAAGATGAAAACCCGCAAAGGGCGTTTAAAAAAA
110328 AAATTCAAGATGAAAACCCG
1 AAATT-AAGATGAAAACCCG
110348 TAAAAGGGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
37 9 0.18
38 13 0.26
41 2 0.04
42 26 0.52
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.15
Consensus pattern (38 bp):
AAATTAAGATGAAAACCCGCAAAGGGCGTTTAAAAAAA
Found at i:110336 original size:38 final size:40
Alignment explanation
Indices: 110249--110346 Score: 121
Period size: 38 Copynumber: 2.5 Consensus size: 40
110239 AAAAAAGGAG
* *
110249 AAATT-AAGATGAAAACCCGCAAAGGGTGTCTTAAAAAAAAA
1 AAATTCAAGATGAAAACCCACAAAGGGCGTCTT--AAAAAAA
* *
110290 AAAATCAAGATGAAAACCCACAAAGGGCGT-TT-CAAAAA
1 AAATTCAAGATGAAAACCCACAAAGGGCGTCTTAAAAAAA
110328 AAATTCAAGATGAAAACCC
1 AAATTCAAGATGAAAACCC
110347 GTAAAAGGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 23 0.45
41 6 0.12
42 22 0.43
ACGTcount: A:0.53, C:0.16, G:0.15, T:0.15
Consensus pattern (40 bp):
AAATTCAAGATGAAAACCCACAAAGGGCGTCTTAAAAAAA
Found at i:111279 original size:49 final size:49
Alignment explanation
Indices: 111066--111289 Score: 202
Period size: 49 Copynumber: 4.6 Consensus size: 49
111056 CATGTTTGAT
* * * ** * *
111066 AGGG-AAGATTGAGGCCGCAACGGCAAATCTAATACCCTGGAGAGATGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGAGATGA
* * * ** *
111114 AGGGAAAGGTTGAGGCCACAACGGCGAACTCAATACCACAAAGATATGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGAGATGA
* * * *
111163 AGGGAAAGGTTGAGGCCGCAATGACAAACCCGATACCTAAGAAGATG-TGA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACC-ATGAAGA-GATGA
* * *
111213 TGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGAGATAA
1 AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGAGATGA
* *
111262 AGGG-AAGGATTGAGGCCGCGACGACGAA
1 AGGGAAAGG-TTGAGGCCGCAACGGCGAA
111290 TCTGGTACCT
Statistics
Matches: 141, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 9 0.06
49 92 0.65
50 40 0.28
ACGTcount: A:0.36, C:0.19, G:0.32, T:0.12
Consensus pattern (49 bp):
AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGAGATGA
Found at i:111299 original size:99 final size:99
Alignment explanation
Indices: 111115--111317 Score: 232
Period size: 99 Copynumber: 2.1 Consensus size: 99
111105 GAGAGATGAA
* * *
111115 GGGAAAGGTTGAGGCCACAACGGCGAACTCAATACCACAAAGATATGAAGGGAAAGGTTGAGGCC
1 GGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCACAAAGAGATAAAGGGAAAGGTTGAGGCC
*
111180 GCAATGACAAACCCGATACC-TAAGAAGATG-TGAT
66 GCAACGACAAACCCGATACCTTAA-AAGATGCT-AT
* ** **
111214 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGAGATAAAGGG-AAGGATTGAGGC
1 GGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCACAAAGAGATAAAGGGAAAGG-TTGAGGC
* * * * *
111278 CGCGACGACGAATCTGGTACCTTAAAAGATGCTAT
65 CGCAACGACAAACCCGATACCTTAAAAGATGCTAT
111313 GGGAA
1 GGGAA
111318 CTCGATACCG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
98 4 0.05
99 79 0.91
100 4 0.05
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.14
Consensus pattern (99 bp):
GGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCACAAAGAGATAAAGGGAAAGGTTGAGGCC
GCAACGACAAACCCGATACCTTAAAAGATGCTAT
Found at i:111431 original size:50 final size:50
Alignment explanation
Indices: 111340--111566 Score: 248
Period size: 50 Copynumber: 4.6 Consensus size: 50
111330 AAGATAAGAA
*
111340 GGGAAAGGTTGA-GCCGCAACGACAAACTCGATACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGACAAACCCGATACCTAAGAAGATGTGAT
* * * *
111389 GGGAAAGGTTGAGGCCACAACGGCGAACCCGATACCTAAGAAGATGAGAT
1 GGGAAAGGTTGAGGCCGCAACGACAAACCCGATACCTAAGAAGATGTGAT
* * * * *
111439 GGGAAAGGTTGAGGTCACAACGACGAACCCGGTACC-AAGAAGA-GATGAA
1 GGGAAAGGTTGAGGCCGCAACGACAAACCCGATACCTAAGAAGATG-TGAT
* * * * * *
111488 GGG-AAGGATTGAGGCCGTAACGGCAAATCCAATACGTTAGAAGATGTGAT
1 GGGAAAGG-TTGAGGCCGCAACGACAAACCCGATACCTAAGAAGATGTGAT
111538 GGGAAAGGTTGAGGCCGCAAC-AGCAAACC
1 GGGAAAGGTTGAGGCCGCAACGA-CAAACC
111567 TAGCACCTTA
Statistics
Matches: 147, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
48 5 0.03
49 43 0.29
50 94 0.64
51 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.32, T:0.14
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCGCAACGACAAACCCGATACCTAAGAAGATGTGAT
Found at i:111500 original size:99 final size:100
Alignment explanation
Indices: 111329--111566 Score: 261
Period size: 99 Copynumber: 2.4 Consensus size: 100
111319 TCGATACCGC
* * * * *
111329 GAAGATAAGAAGGGAAAGGTTGA-GCCGCAACGACAAACTCGATACCTAAGAAGATGTGATGGGA
1 GAAGATGAGATGGGAAAGGTTGAGGCCACAACGACAAACCCGATACCTAAGAAGATGTGAAGGGA
* *
111393 AAGGTTGAGGCCACAACGGCGAACCCGATACCTAA
66 AAGGTTGAGGCCACAACGGCAAACCCAATACCTAA
* * *
111428 GAAGATGAGATGGGAAAGGTTGAGGTCACAACGACGAACCCGGTACC-AAGAAGA-GATGAAGGG
1 GAAGATGAGATGGGAAAGGTTGAGGCCACAACGACAAACCCGATACCTAAGAAGATG-TGAAGGG
** * * *
111491 -AAGGATTGAGGCCGTAACGGCAAATCCAATACGTTA
65 AAAGG-TTGAGGCCACAACGGCAAACCCAATACCTAA
* *
111527 GAAGATGTGATGGGAAAGGTTGAGGCCGCAAC-AGCAAACC
1 GAAGATGAGATGGGAAAGGTTGAGGCCACAACGA-CAAACC
111567 TAGCACCTTA
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
98 6 0.05
99 92 0.79
100 18 0.16
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.13
Consensus pattern (100 bp):
GAAGATGAGATGGGAAAGGTTGAGGCCACAACGACAAACCCGATACCTAAGAAGATGTGAAGGGA
AAGGTTGAGGCCACAACGGCAAACCCAATACCTAA
Found at i:111542 original size:225 final size:225
Alignment explanation
Indices: 111112--111542 Score: 589
Period size: 225 Copynumber: 1.9 Consensus size: 225
111102 CTGGAGAGAT
* *
111112 GAAGGGAAAGGTTGAGGCCACAACGGCGAACTCAATACCACAAAGATATGAAGGGAAAGGTTGAG
1 GAAGGGAAAGGTTGAGGCCACAACGACAAACTCAATACCACAAAGATATGAAGGGAAAGGTTGAG
* * * * *
111177 GCCGCAATGACAAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAAC
66 GCCACAACGACAAACCCGATACCTAAGAAGATGAGATGGGAAAGGTTGAGGCCACAACGACGAAC
* * * ***
111242 CCGGTACCATGAAGAGATAAAGGGAAGGATTGAGGCCGCGACGACGAATCTGGTACCTTAAAAGA
131 CCGGTACCAAGAAGAGATAAAGGGAAGGATTGAGGCCGCAACGACAAATCCAATACCTTAAAAGA
111307 TGCTATGGGAACTCGATACCGCGAAGATAA
196 TGCTATGGGAACTCGATACCGCGAAGATAA
* * * *
111337 GAAGGGAAAGGTTGA-GCCGCAACGACAAACTCGATACCTA-AGAAGATGTGATGGGAAAGGTTG
1 GAAGGGAAAGGTTGAGGCCACAACGACAAACTCAATACC-ACA-AAGATATGAAGGGAAAGGTTG
* * *
111400 AGGCCACAACGGCGAACCCGATACCTAAGAAGATGAGATGGGAAAGGTTGAGGTCACAACGACGA
64 AGGCCACAACGACAAACCCGATACCTAAGAAGATGAGATGGGAAAGGTTGAGGCCACAACGACGA
* * * * *
111465 ACCCGGTACCAAGAAGAGATGAAGGGAAGGATTGAGGCCGTAACGGCAAATCCAATACGTTAGAA
129 ACCCGGTACCAAGAAGAGATAAAGGGAAGGATTGAGGCCGCAACGACAAATCCAATACCTTAAAA
111530 GATG-TGATGGGAA
194 GATGCT-ATGGGAA
111543 AGGTTGAGGC
Statistics
Matches: 178, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
224 21 0.12
225 157 0.88
ACGTcount: A:0.36, C:0.18, G:0.31, T:0.14
Consensus pattern (225 bp):
GAAGGGAAAGGTTGAGGCCACAACGACAAACTCAATACCACAAAGATATGAAGGGAAAGGTTGAG
GCCACAACGACAAACCCGATACCTAAGAAGATGAGATGGGAAAGGTTGAGGCCACAACGACGAAC
CCGGTACCAAGAAGAGATAAAGGGAAGGATTGAGGCCGCAACGACAAATCCAATACCTTAAAAGA
TGCTATGGGAACTCGATACCGCGAAGATAA
Found at i:111934 original size:39 final size:39
Alignment explanation
Indices: 111891--112260 Score: 267
Period size: 39 Copynumber: 9.5 Consensus size: 39
111881 CATAGCCATT
* *
111891 CAATCTTTTACCCCGAGCCTGAGGCAGATCACCATTAGC
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGC
* * * * *
111930 CAATCTCTTACCCCGAGCCTGAAGTAGATTA-CAGGCATC
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCACCA-TCAGC
* * * * *
111969 CGATCTTTTACCACGAGCCT-AGGGCAGATCACCGTCAGT
1 CAATCTCTTACCCCGAGCCTGA-GGCAGATCACCATCAGC
* ** * * *
112008 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATC
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGC
* * * * * * * * *
112047 CGATCTTTTATCTCGAGCCTGGGGCAAAGCACCATAAGT
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGC
* * *
112086 CAATCTCTTA-CCCGAGCTTGGGGCAGATTGCAGCCATCTG-
1 CAATCTCTTACCCCGAGCCTGAGGCAGA-T-CA-CCATCAGC
112126 --ATCTCTTACCCCGAGCCT-AGGGCAGATCACCATCAGC
1 CAATCTCTTACCCCGAGCCTGA-GGCAGATCACCATCAGC
*
112163 CAATCTCTTACCCCGAGCCTG-GGCAGATTGTAGCCATCAG-
1 CAATCTCTTACCCCGAGCCTGAGGCAGA-T-CA-CCATCAGC
* * * *
112203 --ATCTCTTACCCTGAGCCTGGGGCAGATCACCATTAAC
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGC
112240 CAATCTCTTACCCCGAGCCTG
1 CAATCTCTTACCCCGAGCCTG
112261 TCGCAGATTG
Statistics
Matches: 253, Mismatches: 58, Indels: 40
0.72 0.17 0.11
Matches are distributed among these distances:
36 11 0.04
37 3 0.01
38 51 0.20
39 172 0.68
40 4 0.02
41 12 0.05
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CAATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGC
Found at i:112141 original size:77 final size:78
Alignment explanation
Indices: 111854--112290 Score: 504
Period size: 78 Copynumber: 5.6 Consensus size: 78
111844 GAAGATTTTG
* * * *** * * *
111854 ATCTCTTACCCCGATCATGGGGCAAATCATAGCCATTCAATCTTTTACCCCGAGCCTGAGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
*
111919 TCACCATTAGCCA
66 TCACCATAAGCCA
** * * * * *
111932 ATCTCTTACCCCGAGCCTGAAGTAGATTACAGGCATCCGATCTTTTACCACGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
* * *
111997 TCACCGTCAGTCA
66 TCACCATAAGCCA
* * * *
112010 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATCCGATCTTTTATCTCGAGCCTGGGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
* *
112075 GCACCATAAGTCA
66 TCACCATAAGCCA
* * * *
112088 ATCTCTTA-CCCGAGCTTGGGGCAGATTGCAGCCATCTGATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
*
112152 TCACCATCAGCCA
66 TCACCATAAGCCA
* * * *
112165 ATCTCTTACCCCGAGCCT-GGGCAGATTGTAGCCATCAGATCTCTTACCCTGAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
112229 TCACCATTAA-CCA
66 TCACCA-TAAGCCA
**
112242 ATCTCTTACCCCGAGCCTGTCGCAGATTGCAGCCATCC-ATCTTTTACCC
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCC
112291 TCAAGTCAAG
Statistics
Matches: 304, Mismatches: 52, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
77 145 0.48
78 159 0.52
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
TCACCATAAGCCA
Found at i:113918 original size:30 final size:30
Alignment explanation
Indices: 113878--114220 Score: 221
Period size: 30 Copynumber: 11.7 Consensus size: 30
113868 CCACTTTGGT
113878 CTTTCGCAAAAATTACATTTTAACCCTCAAA
1 CTTT-GCAAAAATTACATTTTAACCCTCAAA
*
113909 CTTTGCAAAAATTATATTTTAACCCTCAAA
1 CTTTGCAAAAATTACATTTTAACCCTCAAA
**
113939 CTTTATAAAAATTACATTTTAA-CCTCAAA
1 CTTTGCAAAAATTACATTTTAACCCTCAAA
*** *
113968 CTTCATAAAAATTACATTTTGACCCTCAAA
1 CTTTGCAAAAATTACATTTTAACCCTCAAA
* *
113998 -TTT-CTTAAAAATCACATTTTAACCCTTAAA
1 CTTTGC--AAAAATTACATTTTAACCCTCAAA
* * *
114028 CTTCT-CAAAAATCATATTTTGA-CCTCTAAA
1 CTT-TGCAAAAATTACATTTTAACCCTC-AAA
* *
114058 CTTTGCAAAAATTACATTTGACCCCT-AAA
1 CTTTGCAAAAATTACATTTTAACCCTCAAA
* * * *
114087 -TTTCTCAAAAA-AACATTTTGACCCTAAAA
1 CTTT-GCAAAAATTACATTTTAACCCTCAAA
* * ** *
114116 CTTTTCCAAAATTGTATTTTAA-CC-CGAA
1 CTTTGCAAAAATTACATTTTAACCCTCAAA
* * *
114144 CTTTTCCAAAATTACCATTTT-A-CCTCGAA
1 CTTTGCAAAAATTA-CATTTTAACCCTCAAA
* * *
114173 -TATCCAAAAATTACCATTTT-ACCCCCAAA
1 CTTTGCAAAAATTA-CATTTTAACCCTCAAA
* * *
114202 -TTTCCAAAAGTCACATTTT
1 CTTTGCAAAAATTACATTTT
114221 CGACCTCACA
Statistics
Matches: 256, Mismatches: 41, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
28 55 0.21
29 77 0.30
30 113 0.44
31 9 0.04
32 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.35
Consensus pattern (30 bp):
CTTTGCAAAAATTACATTTTAACCCTCAAA
Found at i:113981 original size:59 final size:59
Alignment explanation
Indices: 113885--114119 Score: 239
Period size: 59 Copynumber: 4.0 Consensus size: 59
113875 GGTCTTTCGC
*
113885 AAAAATTACATTTTAACCCTCAAACTT-TGCAAAAATTATATTTTAACCCTCAAACTTTAT
1 AAAAATTACATTTTAACCCTCAAACTTCT--AAAAATTATATTTTGACCCTCAAACTTTAT
* *
113945 AAAAATTACATTTTAA-CCTCAAACTTCATAAAAATTACATTTTGACCCTCAAA-TTTCTT
1 AAAAATTACATTTTAACCCTCAAACTTC-TAAAAATTATATTTTGACCCTCAAACTTT-AT
* * * **
114004 AAAAATCACATTTTAACCCTTAAACTTCTCAAAAATCATATTTTGA-CCTCTAAACTTTGC
1 AAAAATTACATTTTAACCCTCAAACTTCT-AAAAATTATATTTTGACCCTC-AAACTTTAT
* * * * * *
114064 AAAAATTACATTTGACCCCT-AAATTTCTCAAAAA-AACATTTTGACCCTAAAACTTT
1 AAAAATTACATTTTAACCCTCAAACTTCT-AAAAATTATATTTTGACCCTCAAACTTT
114120 TCCAAAATTG
Statistics
Matches: 151, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
58 18 0.12
59 69 0.46
60 60 0.40
61 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACATTTTAACCCTCAAACTTCTAAAAATTATATTTTGACCCTCAAACTTTAT
Found at i:114126 original size:89 final size:88
Alignment explanation
Indices: 113878--114220 Score: 263
Period size: 89 Copynumber: 3.9 Consensus size: 88
113868 CCACTTTGGT
* * * * *
113878 CTTTCGCAAAAATTACATTTTAACCCTCAAACTTT-GCAAAAATTATATTTTAACCCTCAAACTT
1 CTTT-GCAAAAATTACA-TTTGACCCTCAAA-TTTCTCAAAAATAACATTTTAACCCTAAAACTT
*
113942 TAT-AAAAATTACATTTTAACCTCAAA
63 T-TCAAAAATCACATTTTAACCTCAAA
*** * * * *
113968 CTTCATAAAAATTACATTTTGACCCTCAAATTTCTTAAAAATCACATTTTAACCCTTAAACTTCT
1 CTTTGCAAAAATTACA-TTTGACCCTCAAATTTCTCAAAAATAACATTTTAACCCTAAAACTTTT
* *
114033 CAAAAATCATATTTTGACCTCTAAA
65 CAAAAATCACATTTTAACCTC-AAA
*
114058 CTTTGCAAAAATTACATTTGACCC-CTAAATTTCTCAAAAA-AACATTTTGACCCTAAAACTTTT
1 CTTTGCAAAAATTACATTTGACCCTC-AAATTTCTCAAAAATAACATTTTAACCCTAAAACTTTT
* *** *
114121 CCAAAATTGTATTTTAACC-CGAA
65 CAAAAATCACATTTTAACCTCAAA
* * * * * * **
114144 CTTTTCCAAAATTACCATTTTA-CCTCGAATATC-CAAAAATTACCATTTT-ACCCCCAAA-TTT
1 CTTTGCAAAAATTA-CATTTGACCCTCAAATTTCTCAAAAA-TAACATTTTAACCCTAAAACTTT
* *
114205 CCAAAAGTCACATTTT
64 TCAAAAATCACATTTT
114221 CGACCTCACA
Statistics
Matches: 205, Mismatches: 40, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
85 19 0.09
86 28 0.14
87 15 0.07
88 39 0.19
89 85 0.41
90 19 0.09
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.35
Consensus pattern (88 bp):
CTTTGCAAAAATTACATTTGACCCTCAAATTTCTCAAAAATAACATTTTAACCCTAAAACTTTTC
AAAAATCACATTTTAACCTCAAA
Found at i:114210 original size:28 final size:27
Alignment explanation
Indices: 114146--114210 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
114136 AACCCGAACT
* *
114146 TTTCCAAAATTACCATTTTACCTCGAA
1 TTTCCAAAATTACCATTTTACCCCAAA
*
114173 TATCCAAAAATTACCATTTTACCCCCAAA
1 TTTCC-AAAATTACCATTTTA-CCCCAAA
114202 TTTCCAAAA
1 TTTCCAAAA
114211 GTCACATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.12
28 19 0.59
29 9 0.28
ACGTcount: A:0.38, C:0.28, G:0.02, T:0.32
Consensus pattern (27 bp):
TTTCCAAAATTACCATTTTACCCCAAA
Found at i:119370 original size:30 final size:30
Alignment explanation
Indices: 119334--119415 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 30
119324 CAAATAATTT
119334 TAAAATTATTAAAATTATTTTTTAAGAAT-A
1 TAAAATTATTAAAATTATTTTTTAA-AATAA
* *
119364 TAAAATTATTAACATTATTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTAAAATAA
119394 TAAAATTATT-AAA-TATTTTTTA
1 TAAAATTATTAAAATTATTTTTTA
119416 TTTTTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 8 0.17
29 5 0.11
30 34 0.72
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTTTAAAATAA
Found at i:128627 original size:17 final size:17
Alignment explanation
Indices: 128599--128652 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
128589 ATATATATGG
128599 AAATGCAATGACAATGA
1 AAATGCAATGACAATGA
* *
128616 AGATGCAGTGACAA-GAA
1 AAATGCAATGACAATG-A
128633 AAATGCAATGACAAATGA
1 AAATGCAATGAC-AATGA
128651 AA
1 AA
128653 TGTGATGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.03
17 23 0.77
18 5 0.17
19 1 0.03
ACGTcount: A:0.54, C:0.11, G:0.20, T:0.15
Consensus pattern (17 bp):
AAATGCAATGACAATGA
Found at i:141999 original size:18 final size:17
Alignment explanation
Indices: 141957--142006 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
141947 TATTTAATCA
*
141957 TTGTATCATATAATTAG
1 TTGTATTATATAATTAG
*
141974 TT-TATTATATAATATAT
1 TTGTATTATATAAT-TAG
*
141991 TTGTATTATGTAATTA
1 TTGTATTATATAATTA
142007 TGCAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.36
17 8 0.29
18 10 0.36
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (17 bp):
TTGTATTATATAATTAG
Found at i:143834 original size:22 final size:23
Alignment explanation
Indices: 143809--143858 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
143799 TTTACACAAT
*
143809 AATCATACGAATA-TTAAGCATA
1 AATCATACGAACATTTAAGCATA
**
143831 AATCATATTAACATTTAAGCATA
1 AATCATACGAACATTTAAGCATA
143854 AATCA
1 AATCA
143859 CATTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.30
Consensus pattern (23 bp):
AATCATACGAACATTTAAGCATA
Found at i:143851 original size:23 final size:23
Alignment explanation
Indices: 143822--143879 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
143812 CATACGAATA
*
143822 TTAAGCATAAATCATATTAACAT
1 TTAAGCATAAATCACATTAACAT
*
143845 TTAAGCATAAATCACATTAATAT
1 TTAAGCATAAATCACATTAACAT
*
143868 TTAAGCACAAAT
1 TTAAGCATAAAT
143880 AGAGGTGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (23 bp):
TTAAGCATAAATCACATTAACAT
Found at i:144581 original size:23 final size:23
Alignment explanation
Indices: 144544--144687 Score: 218
Period size: 23 Copynumber: 6.3 Consensus size: 23
144534 TGAGTAGGTC
144544 TAAGCAC-AATCCACATTAATATT
1 TAAGCACAAAT-CACATTAATATT
*
144567 TAAGCATAAATCACATTAATATT
1 TAAGCACAAATCACATTAATATT
* *
144590 TAAGCACAAATTACATTAATACT
1 TAAGCACAAATCACATTAATATT
*
144613 TAAGCATAAATCACATTAATATT
1 TAAGCACAAATCACATTAATATT
144636 TAAGCACAAATCACATTAATATT
1 TAAGCACAAATCACATTAATATT
* *
144659 TAAGCACAAATCACCTTAATATC
1 TAAGCACAAATCACATTAATATT
144682 TAAGCA
1 TAAGCA
144688 TGTAATGCAT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
23 107 0.97
24 3 0.03
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.31
Consensus pattern (23 bp):
TAAGCACAAATCACATTAATATT
Found at i:146314 original size:59 final size:59
Alignment explanation
Indices: 146026--146550 Score: 443
Period size: 59 Copynumber: 8.9 Consensus size: 59
146016 TTCGGAGTCC
* * * * * *
146026 CGGGGGTGAAATGGTAATTTTGGGAAAATTTAG-GGTTAAAAATGGAATTTTTAGATA-TT
1 CGGGGGTAAAATGGTAATTTTAGG-AAGTTTCGAGGTCAAAAATGGAATTTTTGGA-AGTT
** * * * * * * *
146085 TAGGGGTAAAAGGGTAATTTTAGTAAGTTTCAAAGTCAAAAATGGAGTTTTTAGACA-TC
1 CGGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGA-AGTT
* * * *
146144 CGGGGGTAAAATGGTAATTTTAGGAAGTTTCAAAGTCGAAAATGGAGTTTTTGGACA-TT
1 CGGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGA-AGTT
* * *
146203 CGGGGGTAAAATGGTAATTTTAGGAAGTTTCGAAGTCGAAAATGGAGTTTTTGGACA--T
1 CGGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGA-AGTT
*
146261 CTGGGGGTAAAATGGTAATTTTAGGAAGTTTCGAAGTCAAAAATGGAATTTTTGGAAGTT
1 C-GGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTT
* * * * *
146321 CGGGGCTAAAAATGG-AATTTTGGGAAATTTTGGGGTCAAAAAT-GAGATTTTTGGAAGTT
1 CGGGGGT-AAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGA-ATTTTTGGAAGTT
* * * * *
146380 TGGGGCTAAAAATGG-AATTTTTGGAAGTTT-G-GGGCTAAAAATGGATTTTTTGGAAGTT
1 CGGGGGT-AAAATGGTAATTTTAGGAAGTTTCGAGGTC-AAAAATGGAATTTTTGGAAGTT
* * * * *
146438 CAGGGCTAAAAATGG-AATTTTGGGAAGTTTTGGGGTCAAAAATAGG-ATTTTTGGAAGTT
1 CGGGGGT-AAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAAT-GGAATTTTTGGAAGTT
* * *
146497 CGAGGCTAAAAATGG-AATTTTTGGAAG-TTCGAGGGT-AAAAATGGAATTTTTGGA
1 CGGGGGT-AAAATGGTAATTTTAGGAAGTTTCGA-GGTCAAAAATGGAATTTTTGGA
146551 CAGCTTAGGG
Statistics
Matches: 408, Mismatches: 45, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
57 5 0.01
58 74 0.18
59 315 0.77
60 14 0.03
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTT
Found at i:146332 original size:29 final size:28
Alignment explanation
Indices: 146182--146550 Score: 318
Period size: 29 Copynumber: 12.6 Consensus size: 28
146172 TTCAAAGTCG
*
146182 AAAATGGAGTTTTTGGACA-TTCGGGGGT-
1 AAAATGGAATTTTTGGA-AGTTC-GGGGTA
* ** *
146210 AAAATGGTAATTTTAGGAAGTTTCGAAGTCG
1 AAAATGG-AATTTTTGGAAG-TTCGGGGT-A
* *
146241 AAAATGGAGTTTTTGGACA-TCTGGGGGT-
1 AAAATGGAATTTTTGGA-AGT-TCGGGGTA
* **
146269 AAAATGGTAATTTTAGGAAGTTTCGAAGTCA
1 AAAATGG-AATTTTTGGAAG-TTCGGGGT-A
146300 AAAATGGAATTTTTGGAAGTTCGGGGCTA
1 AAAATGGAATTTTTGGAAGTTCGGGG-TA
* * *
146329 AAAATGGAATTTTGGGAAATTTTGGGGTCA
1 AAAATGGAATTTTTGG-AAGTTCGGGGT-A
*
146359 AAAAT-GAGATTTTTGGAAGTTTGGGGCTA
1 AAAATGGA-ATTTTTGGAAGTTCGGGG-TA
*
146388 AAAATGGAATTTTTGGAAGTTTGGGGCTA
1 AAAATGGAATTTTTGGAAGTTCGGGG-TA
* *
146417 AAAATGGATTTTTTGGAAGTTCAGGGCTA
1 AAAATGGAATTTTTGGAAGTTC-GGGGTA
* *
146446 AAAATGGAATTTTGGGAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGGAAG-TTCGGGGT-A
*
146476 AAAATAGG-ATTTTTGGAAGTTCGAGGCTA
1 AAAAT-GGAATTTTTGGAAGTTCG-GGGTA
146505 AAAATGGAATTTTTGGAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCG-GGGTA
146534 AAAATGGAATTTTTGGA
1 AAAATGGAATTTTTGGA
146551 CAGCTTAGGG
Statistics
Matches: 284, Mismatches: 33, Indels: 47
0.78 0.09 0.13
Matches are distributed among these distances:
28 18 0.06
29 173 0.61
30 76 0.27
31 17 0.06
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTTGGAAGTTCGGGGTA
Found at i:147606 original size:19 final size:19
Alignment explanation
Indices: 147582--147619 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
147572 GCTTTTTCTT
147582 TTATTAATAATATTATTAA
1 TTATTAATAATATTATTAA
* *
147601 TTATTATTATTATTATTAA
1 TTATTAATAATATTATTAA
147620 GAAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Done.