Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168039.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_291, 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: 38386
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Found at i:1676 original size:31 final size:31
Alignment explanation
Indices: 1651--1709 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1641 TTCCGGTGAA
*
1651 AATTCCGGCGAA-ATTTGAATTTTCCGGCAAC
1 AATTCCGGCGAACA-TTGAAGTTTCCGGCAAC
1682 AATTCCGGCGAACATTGAAGTTTCCGGC
1 AATTCCGGCGAACATTGAAGTTTCCGGC
1710 GACCTACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTCCGGCAAC
Found at i:1791 original size:19 final size:19
Alignment explanation
Indices: 1763--1805 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1753 TCCGGCCAAC
*
1763 TTCCGGCGAAATTTCCAGA
1 TTCCGACGAAATTTCCAGA
1782 TTCCGACGAAATTTCCAGA
1 TTCCGACGAAATTTCCAGA
*
1801 ATCCG
1 TTCCG
1806 GCACCGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (19 bp):
TTCCGACGAAATTTCCAGA
Found at i:2133 original size:18 final size:16
Alignment explanation
Indices: 2106--2160 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 16
2096 CCGCTCCAGG
2106 TTTT-TTTTTTTTTTT
1 TTTTGTTTTTTTTTTT
2121 TTTTGAATTTTTTTTATTT
1 TTTTG--TTTTTTTT-TTT
*
2140 ATTTGTTTTTTTTTATT
1 TTTTGTTTTTTTTT-TT
2157 TTTT
1 TTTT
2161 ATTATAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 4 0.12
16 1 0.03
17 13 0.39
18 8 0.24
19 7 0.21
ACGTcount: A:0.09, C:0.00, G:0.04, T:0.87
Consensus pattern (16 bp):
TTTTGTTTTTTTTTTT
Found at i:2209 original size:11 final size:10
Alignment explanation
Indices: 2187--2227 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
2177 ATTAATATTC
*
2187 TTTTTATTTA
1 TTTTTTTTTA
2197 TTTTATTTTTA
1 TTTT-TTTTTA
2208 TTTTTTTTTA
1 TTTTTTTTTA
2218 TTTTCTTTTT
1 TTTT-TTTTT
2228 TTATTATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:2215 original size:10 final size:11
Alignment explanation
Indices: 2193--2227 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2183 ATTCTTTTTA
2193 TTTATTTTATT
1 TTTATTTTATT
2204 TTTATTTT-TT
1 TTTATTTTATT
*
2214 TTTATTTTCTT
1 TTTATTTTATT
2225 TTT
1 TTT
2228 TTATTATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:2216 original size:16 final size:16
Alignment explanation
Indices: 2187--2235 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2177 ATTAATATTC
*
2187 TTTTTA-TTTATTTTA
1 TTTTTATTTTTTTTTA
2202 TTTTTATTTTTTTTTA
1 TTTTTATTTTTTTTTA
*
2218 TTTTCT-TTTTTTATTA
1 TTTT-TATTTTTTTTTA
2234 TT
1 TT
2236 CTATTTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 6 0.20
16 23 0.77
17 1 0.03
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTTTTTTA
Found at i:2217 original size:21 final size:21
Alignment explanation
Indices: 2187--2242 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
2177 ATTAATATTC
2187 TTTTTATTTATTTTATTTTTA
1 TTTTTATTTATTTTATTTTTA
* *
2208 TTTTTTTTTATTTTCTTTTT-
1 TTTTTATTTATTTTATTTTTA
*
2228 TTATTATTCTATTTT
1 TTTTTATT-TATTTT
2243 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTATTTATTTTATTTTTA
Found at i:2242 original size:15 final size:13
Alignment explanation
Indices: 2106--2235 Score: 58
Period size: 13 Copynumber: 10.0 Consensus size: 13
2096 CCGCTCCAGG
2106 TTTTTTT-TT-TT
1 TTTTTTTATTATT
* *
2117 TTTTTTT-TGAAT
1 TTTTTTTATTATT
2129 TTTTTTTATTTATT
1 TTTTTTTA-TTATT
*
2143 TGTTTTTTTTTATT
1 T-TTTTTTATTATT
* *
2157 TTTTATTA-TAGAT
1 TTTTTTTATTA-TT
***
2170 TAGGTTTATTAATAT
1 TTTTTTTATT-AT-T
*
2185 TCTTTTTATT-TAT
1 TTTTTTTATTAT-T
*
2198 TTTATTT-TTATT
1 TTTTTTTATTATT
2210 TTTTTTTATT-TT
1 TTTTTTTATTATT
2222 CTTTTTTTATTATT
1 -TTTTTTTATTATT
2236 CTATTTTCTT
Statistics
Matches: 88, Mismatches: 19, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
11 8 0.09
12 21 0.24
13 31 0.35
14 13 0.15
15 15 0.17
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTTTTTATTATT
Found at i:2242 original size:16 final size:15
Alignment explanation
Indices: 2189--2247 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 15
2179 TAATATTCTT
2189 TTTATTTATTTTATT-
1 TTTATTT-TTTTATTA
2204 TTTATTTTTTT-TTA
1 TTTATTTTTTTATTA
*
2218 TTTTCTTTTTTTATTA
1 -TTTATTTTTTTATTA
2234 TTCTATTTTCTTTA
1 TT-TATTTT-TTTA
2248 AATAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 2 0.05
14 4 0.11
15 19 0.51
16 8 0.22
17 4 0.11
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTTTTTATTA
Found at i:2442 original size:54 final size:56
Alignment explanation
Indices: 2254--2583 Score: 498
Period size: 54 Copynumber: 6.0 Consensus size: 56
2244 TTTAAATAAA
* *
2254 AAAAAAAATTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
*
2310 GAAATAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATAAATTTC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
2367 AAAATAAATTTC-AAAAAA-ATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
2420 AAAATAAATTTCAAAAAAA-ATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
*
2474 ---ATAAATTTTCAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCG
1 AAAATAAA-TTTCAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT-T
* *
2529 AAATTAAAATTTCAAGAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAT-AAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
2584 CTGAACAAAA
Statistics
Matches: 256, Mismatches: 7, Indels: 20
0.90 0.02 0.07
Matches are distributed among these distances:
51 5 0.02
52 11 0.04
53 48 0.19
54 74 0.29
55 6 0.02
56 9 0.04
57 55 0.21
58 44 0.17
59 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (56 bp):
AAAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:6502 original size:10 final size:10
Alignment explanation
Indices: 6487--6531 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
6477 AAGATGATAA
*
6487 AAAAAAAAAC
1 AAAAAAAAAG
6497 AAAAAAAAAG
1 AAAAAAAAAG
**
6507 ACCAAAAAAG
1 AAAAAAAAAG
6517 AAAAAAAAAAG
1 -AAAAAAAAAG
6528 AAAA
1 AAAA
6532 GAAATGAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:6502 original size:11 final size:12
Alignment explanation
Indices: 6485--6531 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
6475 AGAAGATGAT
*
6485 AAAAAAAAAAAC
1 AAAAAAGAAAAC
6497 AAAAAA-AAAGACC
1 AAAAAAGAAA-A-C
6510 AAAAAAGAAAA-
1 AAAAAAGAAAAC
6521 AAAAAAGAAAA
1 AAAAAAGAAAA
6532 GAAATGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 14 0.44
12 7 0.22
13 8 0.25
14 3 0.09
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAC
Found at i:6513 original size:21 final size:21
Alignment explanation
Indices: 6488--6528 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6478 AGATGATAAA
*
6488 AAAAAAAACAAAAAAAAAGACC
1 AAAAAAGA-AAAAAAAAAGACC
6510 AAAAAAGAAAAAAAAAAGA
1 AAAAAAGAAAAAAAAAAGA
6529 AAAGAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAAGACC
Found at i:7803 original size:41 final size:41
Alignment explanation
Indices: 7727--8256 Score: 957
Period size: 41 Copynumber: 13.0 Consensus size: 41
7717 GTCTAGGAGT
7727 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
7767 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
7808 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
7849 ATTTACTTTTCAAAGTCGTGGT-CCTCTGTTGTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTT-TAGAGGAGCA
7890 ATTTACTTTTCAAAGTCGTGGT-CCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
7930 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
7971 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8012 ATTTACTTTTCCAAAGT--TGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8052 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8093 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8135 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8176 ATTTACTTTTCAAAGTCGTGGT-CCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8216 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8257 TCTGTAGAGG
Statistics
Matches: 478, Mismatches: 3, Indels: 17
0.96 0.01 0.03
Matches are distributed among these distances:
39 10 0.02
40 128 0.27
41 294 0.62
42 46 0.10
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:7919 original size:122 final size:123
Alignment explanation
Indices: 7727--8430 Score: 1097
Period size: 122 Copynumber: 5.7 Consensus size: 123
7717 GTCTAGGAGT
7727 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
7790 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
7849 ATTTACTTTTCAAAGTCGTGGT-CCTCTGTTGTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT-
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTT-TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
7912 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
7971 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT--TGGTG
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTG
8034 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8093 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
8158 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT-CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8216 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCATCTGTAGAGGAGCAATTTACTTTT
1 ATTTACTTTTCAAAGTCGTGGTGCCTC---T-------G--T-T-TAGAGGAGCAATTTACTTTT
* * *
8281 CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
52 CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
8346 AGGAGCA
117 AGGAGCA
* *
8353 ATTTAC-TTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAG
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTG
*
8414 TCTCTGTTTAGAGGAGC
65 CCTCTGTTTAGAGGAGC
8431 TTCGGCAAAA
Statistics
Matches: 548, Mismatches: 9, Indels: 52
0.90 0.01 0.09
Matches are distributed among these distances:
119 4 0.01
120 41 0.07
121 9 0.02
122 216 0.39
123 115 0.21
124 46 0.08
125 1 0.00
131 1 0.00
132 1 0.00
134 7 0.01
135 1 0.00
136 83 0.15
137 23 0.04
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (123 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:7932 original size:81 final size:82
Alignment explanation
Indices: 7727--8256 Score: 957
Period size: 81 Copynumber: 6.5 Consensus size: 82
7717 GTCTAGGAGT
7727 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
7790 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
7808 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT-C
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
7872 CTCTGTTGTAGAGGAGCA
66 CTCTGTT-TAGAGGAGCA
7890 ATTTACTTTTCAAAGTCGTGGT-CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
7954 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
7971 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT--TGGTG
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTG
8034 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
*
8052 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTG
8117 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
8135 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT-C
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
8199 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
*
8216 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
8257 TCTGTAGAGG
Statistics
Matches: 439, Mismatches: 2, Indels: 16
0.96 0.00 0.04
Matches are distributed among these distances:
80 4 0.01
81 234 0.53
82 122 0.28
83 79 0.18
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (82 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCA
Found at i:8286 original size:55 final size:55
Alignment explanation
Indices: 8206--8311 Score: 212
Period size: 55 Copynumber: 1.9 Consensus size: 55
8196 GTCCTCTGTT
8206 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCATCTG
1 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCATCTG
8261 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
8312 ATTTACTTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (55 bp):
TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCATCTG
Found at i:8312 original size:41 final size:40
Alignment explanation
Indices: 8262--8430 Score: 252
Period size: 41 Copynumber: 4.2 Consensus size: 40
8252 GAGCATCTGT
8262 AGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTG
1 AGAGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTG
8303 AGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTG
1 AGAGGAGCAATTTACTTT-CAAAGTCGTGGTGCCTCTGTTG
*
8344 AGAGGAGCAATTTACTTTCAAAGTCGT--TGCCTCTGTTT
1 AGAGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTG
* * * *
8382 AGAGGAGCAATTTACTTTCAAAAGTCGTTGAGTCTCTGTTT
1 AGAGGAGCAATTTACTTTC-AAAGTCGTGGTGCCTCTGTTG
8423 AGAGGAGC
1 AGAGGAGC
8431 TTCGGCAAAA
Statistics
Matches: 121, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
38 29 0.24
39 8 0.07
40 12 0.10
41 72 0.60
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
AGAGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTG
Found at i:8329 original size:96 final size:95
Alignment explanation
Indices: 8166--8352 Score: 347
Period size: 96 Copynumber: 2.0 Consensus size: 95
8156 TGCCTCTGTT
* *
8166 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
1 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAG
8231 TCGTGGTGCCTCTGTTGAGAGGAGCATCTG
66 TCGTGGTGCCTCTGTTGAGAGGAGCATCTG
8261 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAA
1 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGT-CCTCTGTTGAGAGGAGCAATTTACTTTCCAAA
8326 GTCGTGGTGCCTCTGTTGAGAGGAGCA
65 GTCGTGGTGCCTCTGTTGAGAGGAGCA
8353 ATTTACTTTC
Statistics
Matches: 89, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 32 0.36
96 57 0.64
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (95 bp):
TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAG
TCGTGGTGCCTCTGTTGAGAGGAGCATCTG
Found at i:8369 original size:136 final size:134
Alignment explanation
Indices: 8125--8390 Score: 462
Period size: 136 Copynumber: 2.0 Consensus size: 134
8115 TACCTCTGTT
* *
8125 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAA
1 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAA
*
8190 GTCGTGGTCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAG
66 GTCGTGGTCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAGAGGAG
8255 CATCTG
129 CATCTG
8261 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAA
1 TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAA
*
8326 GTCGTGGTGCCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAGTCGTTGCCTCTGTTTAGAGGAGC
66 GTCGTGGT-CCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTGAGAGGAGC
8390 A
130 A
8391 ATTTACTTTC
Statistics
Matches: 125, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
134 19 0.15
136 83 0.66
137 23 0.18
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (134 bp):
TAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAA
GTCGTGGTCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTGAGAGGAGCA
TCTG
Found at i:8396 original size:79 final size:81
Alignment explanation
Indices: 8262--8430 Score: 261
Period size: 79 Copynumber: 2.1 Consensus size: 81
8252 GAGCATCTGT
*
8262 AGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAG
1 AGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAAG
*
8327 TCGTGGTGCCTCTGTTG
65 TCGTGGAGCCTCTGTTG
*
8344 AGAGGAGCAATTTAC-TTTCAAAGTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGT
1 AGAGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAAGT
* * *
8407 CGTTGAGTCTCTGTTT
66 CGTGGAGCCTCTGTTG
8423 AGAGGAGC
1 AGAGGAGC
8431 TTCGGCAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 54 0.67
81 12 0.15
82 15 0.19
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (81 bp):
AGAGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTGAGAGGAGCAATTTACTTTCAAAAGT
CGTGGAGCCTCTGTTG
Found at i:8443 original size:1 final size:1
Alignment explanation
Indices: 8437--8576 Score: 154
Period size: 1 Copynumber: 140.0 Consensus size: 1
8427 GAGCTTCGGC
* * * *
8437 AAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAACAAAAAAAACAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** ** * **
8502 ATCAAAAAAAAAAAAATCAAAAAAAAAAAAAAATCAAAAAAAAAAAACAAAAAAAAAAAAATCAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
8567 AAAATAAAAA
1 AAAAAAAAAA
8577 TGTTGAGTTG
Statistics
Matches: 115, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 115 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:8457 original size:15 final size:15
Alignment explanation
Indices: 8437--8576 Score: 171
Period size: 15 Copynumber: 9.4 Consensus size: 15
8427 GAGCTTCGGC
8437 AAAAAAAA-AAAAAA
1 AAAAAAAACAAAAAA
8451 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
8466 AAAAAAAA-AAACAAA
1 AAAAAAAACAAA-AAA
*
8481 AAAAACAAA-AAACAA
1 AAAAA-AAACAAAAAA
*
8496 AAAAAAATCAAAAAA
1 AAAAAAAACAAAAAA
*
8511 AAAAAAATCAAAAAA
1 AAAAAAAACAAAAAA
*
8526 AAAAAAAA-ATCAAAA
1 AAAAAAAACA-AAAAA
8541 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
*
8556 AAAAAAATCAAAAAA
1 AAAAAAAACAAAAAA
*
8571 TAAAAA
1 AAAAAA
8577 TGTTGAGTTG
Statistics
Matches: 112, Mismatches: 8, Indels: 11
0.85 0.06 0.08
Matches are distributed among these distances:
14 14 0.12
15 91 0.81
16 7 0.06
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (15 bp):
AAAAAAAACAAAAAA
Found at i:8530 original size:60 final size:59
Alignment explanation
Indices: 8436--8576 Score: 207
Period size: 59 Copynumber: 2.4 Consensus size: 59
8426 GGAGCTTCGG
*
8436 CAAAAAAAAA--AAAAAAAAAAAAACAAAAAAAAAAAAAAAAACAAAAAAAACAAA-AAA
1 CAAAAAAAAATCAAAAAAAAAAAAAC-AAAAAAAAAAAAAAAACAAAAAAAAAAAACAAA
*
8493 CAAAAAAAAATCAAAAAAAAAAAAATCAAAAAAAAAAAAAAATCAAAAAAAAAAAACAAA
1 CAAAAAAAAATCAAAAAAAAAAAAA-CAAAAAAAAAAAAAAAACAAAAAAAAAAAACAAA
* *
8553 AAAAAAAAAATCAAAAAATAAAAA
1 CAAAAAAAAATCAAAAAAAAAAAA
8577 TGTTGAGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
57 10 0.13
59 40 0.53
60 26 0.34
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.04
Consensus pattern (59 bp):
CAAAAAAAAATCAAAAAAAAAAAAACAAAAAAAAAAAAAAAACAAAAAAAAAAAACAAA
Found at i:8782 original size:26 final size:26
Alignment explanation
Indices: 8749--8802 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
8739 TTCTTGTATT
8749 TTATGTAT-TCTATTATTA-TTATTATA
1 TTATGTATATCT-TTATTATTTATT-TA
8775 TTATGTATATCTTTATTATTTATTTA
1 TTATGTATATCTTTATTATTTATTTA
8801 TT
1 TT
8803 TTTATTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (26 bp):
TTATGTATATCTTTATTATTTATTTA
Found at i:9297 original size:25 final size:25
Alignment explanation
Indices: 9268--9321 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
9258 CTGGGAGGGA
*
9268 GAAAAAATTTT-TAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
* *
9292 CGAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
9318 GAAA
1 GAAA
9322 TTTCCAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:9366 original size:31 final size:32
Alignment explanation
Indices: 9331--9400 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
9321 ATTTCCAGAA
* *
9331 TCCGGCGAA-AATTCAGGCGAA-ATTTGAATTT
1 TCCGGCGAACAATTCAGACGAACA-TTGAAGTT
*
9362 TCCGGC-AACAATTCCGACGAACATTGAAGTT
1 TCCGGCGAACAATTCAGACGAACATTGAAGTT
9393 TCCGGCGA
1 TCCGGCGA
9401 CATACCCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 29 0.88
32 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (32 bp):
TCCGGCGAACAATTCAGACGAACATTGAAGTT
Found at i:9481 original size:19 final size:20
Alignment explanation
Indices: 9453--9498 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
9443 TCCGGCTAAC
*
9453 TTCCGACGAAATTT-CCAGA
1 TTCCGGCGAAATTTCCCAGA
9472 TTCCGGCGAAATTTCCCAGA
1 TTCCGGCGAAATTTCCCAGA
*
9492 ATCCGGC
1 TTCCGGC
9499 ACCGGTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAATTTCCCAGA
Found at i:9871 original size:18 final size:18
Alignment explanation
Indices: 9838--9894 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
9828 TTTAATATTC
* *
9838 TTTTTATCTTTATTTTAT
1 TTTTTATTTTTTTTTTAT
9856 TTTTTATTTTTTTTTTTACT
1 TTTTTA-TTTTTTTTTTA-T
*
9876 TTTCTT-TTTTTTTATTAT
1 TTT-TTATTTTTTTTTTAT
9894 T
1 T
9895 CTATTTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.24
19 19 0.58
20 4 0.12
21 2 0.06
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTTTTTTTAT
Found at i:9872 original size:19 final size:18
Alignment explanation
Indices: 9850--9894 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
9840 TTTATCTTTA
*
9850 TTTTATTTTTTATTTTTTT
1 TTTTATTTTCT-TTTTTTT
9869 TTTTACTTTTCTTTTTTTT
1 TTTTA-TTTTCTTTTTTTT
*
9888 TATTATT
1 TTTTATT
9895 CTATTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 16 0.70
20 5 0.22
ACGTcount: A:0.11, C:0.04, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTATTTTCTTTTTTTT
Found at i:9888 original size:23 final size:24
Alignment explanation
Indices: 9856--9905 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
9846 TTTATTTTAT
* *
9856 TTTTTATTTT-TTTTTTTACTTTTC
1 TTTTTATTTTATTATTCTA-TTTTC
9880 TTTTT-TTTTATTATTCTATTTTC
1 TTTTTATTTTATTATTCTATTTTC
9903 TTT
1 TTT
9906 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTATTTTATTATTCTATTTTC
Found at i:10024 original size:58 final size:57
Alignment explanation
Indices: 9934--10149 Score: 283
Period size: 58 Copynumber: 3.7 Consensus size: 57
9924 AGTTCCAAAA
*
9934 AAAATAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAA-AAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAAATTTC
* * *
9993 AAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCT--AATAAATTTTC
1 AAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTC
* * * *
10048 AAAAAATAAGGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTC
1 -AAAAA-AAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAAATTTC
* *
10108 AAGAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
10150 CTGAACAAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
55 10 0.07
56 5 0.04
57 36 0.26
58 71 0.51
59 8 0.06
60 9 0.06
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (57 bp):
AAAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTC
Found at i:10069 original size:115 final size:115
Alignment explanation
Indices: 9944--10151 Score: 353
Period size: 115 Copynumber: 1.8 Consensus size: 115
9934 AAAATAAACA
* *
9944 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGATTTTTGG
1 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTCAAAAAAAGATTTTTAG
10009 GGAAAAGTTGAAAGTATCAATTTTCCCTAATAAATTTTCAAAAAATAAGG
66 GGAAAAGTTGAAAGTATCAATTTTCCCTAATAAATTTTCAAAAAATAAGG
* * * * *
10059 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCAAGAAAATATTTTTAG
1 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTCAAAAAAAGATTTTTAG
10124 GGAAAAGTTGAAAGTATCAATTTTCCCT
66 GGAAAAGTTGAAAGTATCAATTTTCCCT
10152 GAACAAAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 86 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (115 bp):
TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTCAAAAAAAGATTTTTAG
GGAAAAGTTGAAAGTATCAATTTTCCCTAATAAATTTTCAAAAAATAAGG
Found at i:12162 original size:25 final size:26
Alignment explanation
Indices: 12122--12184 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
12112 CTAGAAAAAT
12122 ATAATTTTAATTAAAAAAG-ATATTA
1 ATAATTTTAATTAAAAAAGAATATTA
12147 ATAA-TTTAATTAAAAAAAGAATATTA
1 ATAATTTTAATT-AAAAAAGAATATTA
12173 ATAATTTTAATT
1 ATAATTTTAATT
12185 GTTTCAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.20
25 11 0.31
26 10 0.29
27 7 0.20
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
ATAATTTTAATTAAAAAAGAATATTA
Found at i:12742 original size:170 final size:171
Alignment explanation
Indices: 12512--12859 Score: 547
Period size: 170 Copynumber: 2.0 Consensus size: 171
12502 ATTTTAACTC
**
12512 ACATGTTGAATCTTATAAATATATCAAATTTAAAAAATAATCAATATACTATAATTACGTTTTTG
1 ACAT-TTGAATCTTATAAATATATCAAAACTAAAAAATAATCAATATACTATAATTACGTTTTTG
*
12577 TTGTTGG-TTTGTTTTTTGGTATGAAGTGAACTTTTATTTTTTATTTTCAAATTTATAAACTATT
65 TTGTTGGCTTT-TTTTGTGGTATGAAGTGAACTTTTATTTTTTATTTTCAAATTTATAAACTATT
12641 TGATCAAATCTATGACGTTTTTTCAATTTATTTTAAATTATAA
129 TGATCAAATCTATGACGTTTTTTCAATTTATTTTAAATTATAA
* * * *
12684 ACATTTGAATCTTATAAATATGTCAAAACT-AAAAATAATTAATATATTATGATTACGTTTTTGT
1 ACATTTGAATCTTATAAATATATCAAAACTAAAAAATAATCAATATACTATAATTACGTTTTTGT
* * * * *
12748 TGTTGGCTTTTTTTGTGTTATGATGTGAACTTTTATTTTTTATTTTTAAATTTATAGATTATTTG
66 TGTTGGCTTTTTTTGTGGTATGAAGTGAACTTTTATTTTTTATTTTCAAATTTATAAACTATTTG
*
12813 ATCAAATCTATGATGTTTTTTCAATTTATTTTAAATTATAA
131 ATCAAATCTATGACGTTTTTTCAATTTATTTTAAATTATAA
12854 ACATTT
1 ACATTT
12860 TAAAAACTTT
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
170 132 0.81
171 26 0.16
172 4 0.02
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.50
Consensus pattern (171 bp):
ACATTTGAATCTTATAAATATATCAAAACTAAAAAATAATCAATATACTATAATTACGTTTTTGT
TGTTGGCTTTTTTTGTGGTATGAAGTGAACTTTTATTTTTTATTTTCAAATTTATAAACTATTTG
ATCAAATCTATGACGTTTTTTCAATTTATTTTAAATTATAA
Found at i:16639 original size:20 final size:20
Alignment explanation
Indices: 16601--16639 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16591 TTAGAAAAGA
* *
16601 GAAAAAATATAAATAAAAAT
1 GAAAAAATAGAAAAAAAAAT
*
16621 GAAAATATAGAAAAAAAAA
1 GAAAAAATAGAAAAAAAAA
16640 ACTACAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (20 bp):
GAAAAAATAGAAAAAAAAAT
Found at i:23337 original size:30 final size:30
Alignment explanation
Indices: 23294--23370 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
23284 TTTTCGTCCA
* * *
23294 ATAAAGAGCTTAATTGAATGAAAACAGATGT
1 ATAAA-AGTTTAATTGAATGAAAAAAGATAT
* *
23325 ATAAAAGTTTAATTGAGTGAAAAAATATAT
1 ATAAAAGTTTAATTGAATGAAAAAAGATAT
* *
23355 GTAAAGGTTTAATTGA
1 ATAAAAGTTTAATTGA
23371 TTTGAAATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 34 0.87
31 5 0.13
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (30 bp):
ATAAAAGTTTAATTGAATGAAAAAAGATAT
Found at i:23488 original size:13 final size:14
Alignment explanation
Indices: 23472--23500 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23462 CCTTATCCCT
23472 AAAAAATT-CATAA
1 AAAAAATTACATAA
23485 AAAAAATTACATAA
1 AAAAAATTACATAA
23499 AA
1 AA
23501 TTTAGAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATTACATAA
Found at i:24147 original size:11 final size:11
Alignment explanation
Indices: 24133--24164 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
24123 AGAAATGAGA
24133 AAAAAATTTAC
1 AAAAAATTTAC
*
24144 AAAAAAATTAC
1 AAAAAATTTAC
24155 AAAAAATTTA
1 AAAAAATTTA
24165 GAGAAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAAATTTAC
Found at i:26832 original size:13 final size:14
Alignment explanation
Indices: 26816--26844 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26806 CCTTATCCCT
26816 AAAAAATT-CATAA
1 AAAAAATTACATAA
26829 AAAAAATTACATAA
1 AAAAAATTACATAA
26843 AA
1 AA
26845 TTTAGAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAAATTACATAA
Found at i:27877 original size:14 final size:16
Alignment explanation
Indices: 27858--27892 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
27848 AAAAGATTCC
27858 TTTTTGTT-TA-TTAT
1 TTTTTGTTATAGTTAT
27872 TTTTTGTTATAGTTAT
1 TTTTTGTTATAGTTAT
27888 TTTTT
1 TTTTT
27893 TTTTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 2 0.11
16 9 0.47
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (16 bp):
TTTTTGTTATAGTTAT
Found at i:32542 original size:43 final size:43
Alignment explanation
Indices: 32484--32568 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
32474 AGAAAAAGAG
* *
32484 AAAGAAAAATGCGACTAAATTTTTTTATGATAATTTAGATTTA
1 AAAGAAAAATACGACTAAAATTTTTTATGATAATTTAGATTTA
*
32527 AAAGAAAAATACGACTAAAATTTTTTATGATGATTTAGATTT
1 AAAGAAAAATACGACTAAAATTTTTTATGATAATTTAGATTT
32569 GCGTTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.39
Consensus pattern (43 bp):
AAAGAAAAATACGACTAAAATTTTTTATGATAATTTAGATTTA
Found at i:37316 original size:16 final size:16
Alignment explanation
Indices: 37282--37324 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
37272 ATTAATTCAA
**
37282 ATATAAAACATGATTTT
1 ATATAAAA-ATGAAGTT
37299 ATATAAAAATGAAGTT
1 ATATAAAAATGAAGTT
37315 ATATAAAAAT
1 ATATAAAAAT
37325 CTATGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (16 bp):
ATATAAAAATGAAGTT
Done.