Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168047.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_299, 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: 37135
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Found at i:5967 original size:100 final size:100
Alignment explanation
Indices: 5783--5972 Score: 278
Period size: 100 Copynumber: 1.9 Consensus size: 100
5773 TTTTTAGTTA
*
5783 TGAAAACAATTTATTCTTAGAAATATCTTTCAATATGTTGGTAAAATTTTTTGTCAAAAATTATC
1 TGAAAACAATTTATTCTCAGAAATATCTTTCAATATGTTGGTAAAATTTTTTGTCAAAAATTATC
* *
5848 CTCCAATATGTTTGTAGGATTTGAATTTTTTTTTG
66 CTCCAATATGATTGCAGGATTTGAATTTTTTTTTG
* * *
5883 TGAAAATAATTTATT-TCCAGAAATATCTTTCAATATGTTGGTAAGATTTTTTGTTC-AGAATTA
1 TGAAAACAATTTATTCT-CAGAAATATCTTTCAATATGTTGGTAAAATTTTTTG-TCAAAAATTA
5946 TCCTCCAATAT-ATTGACAGGATTTGAA
64 TCCTCCAATATGATTG-CAGGATTTGAA
5973 AATTTATTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
99 4 0.05
100 75 0.93
101 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (100 bp):
TGAAAACAATTTATTCTCAGAAATATCTTTCAATATGTTGGTAAAATTTTTTGTCAAAAATTATC
CTCCAATATGATTGCAGGATTTGAATTTTTTTTTG
Found at i:6089 original size:13 final size:14
Alignment explanation
Indices: 6062--6094 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6052 TTTGGTAAGA
*
6062 TTAAAAATCATTTT
1 TTAAAAACCATTTT
6076 TTAAAAACCATTTT
1 TTAAAAACCATTTT
6090 TTAAA
1 TTAAA
6095 TTTAAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAAACCATTTT
Found at i:6184 original size:34 final size:34
Alignment explanation
Indices: 6145--6248 Score: 130
Period size: 34 Copynumber: 3.2 Consensus size: 34
6135 ATGCAATATT
6145 ATGCAATAATATAGTATATCAATTACAAATTATC
1 ATGCAATAATATAGTATATCAATTACAAATTATC
* *
6179 ATGCAATTAAT-TAATA-ATC-A-TGC-AA-TATC
1 ATGCAA-TAATATAGTATATCAATTACAAATTATC
*
6208 ATGCAATAATATAGTATATCAATTATAAATTATC
1 ATGCAATAATATAGTATATCAATTACAAATTATC
6242 ATGCAAT
1 ATGCAAT
6249 TAATTAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
28 4 0.07
29 14 0.24
30 5 0.09
31 3 0.05
32 2 0.03
33 5 0.09
34 21 0.36
35 4 0.07
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.36
Consensus pattern (34 bp):
ATGCAATAATATAGTATATCAATTACAAATTATC
Found at i:6200 original size:19 final size:20
Alignment explanation
Indices: 6176--6262 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 20
6166 ATTACAAATT
6176 ATCATGCAATTAAT-TAATA
1 ATCATGCAATTAATATAATA
* **
6195 ATCATGCAATATCATGCAATA
1 ATCATGCAAT-TAATATAATA
* * *
6216 AT-ATAGTATATCAATTATAAATT
1 ATCAT-GCA-ATTAA-TAT-AATA
6239 ATCATGCAATTAAT-TAATA
1 ATCATGCAATTAATATAATA
6258 ATCAT
1 ATCAT
6263 AAAAAAATAA
Statistics
Matches: 50, Mismatches: 11, Indels: 14
0.67 0.15 0.19
Matches are distributed among these distances:
19 18 0.36
20 6 0.12
21 10 0.20
22 7 0.14
23 7 0.14
24 2 0.04
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (20 bp):
ATCATGCAATTAATATAATA
Found at i:6212 original size:63 final size:63
Alignment explanation
Indices: 6132--6262 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
6122 AACTAAAATT
*
6132 ATCATGCAATATTATGCAATAATATAGTATATCAATTACAAATTATCATGCAATTAATTAATA
1 ATCATGCAATATCATGCAATAATATAGTATATCAATTACAAATTATCATGCAATTAATTAATA
*
6195 ATCATGCAATATCATGCAATAATATAGTATATCAATTATAAATTATCATGCAATTAATTAATA
1 ATCATGCAATATCATGCAATAATATAGTATATCAATTACAAATTATCATGCAATTAATTAATA
6258 ATCAT
1 ATCAT
6263 AAAAAAATAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (63 bp):
ATCATGCAATATCATGCAATAATATAGTATATCAATTACAAATTATCATGCAATTAATTAATA
Found at i:6250 original size:18 final size:18
Alignment explanation
Indices: 6204--6250 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
6194 AATCATGCAA
* *
6204 TATCATGCAATAATATAG
1 TATCATGCAATTATAAAG
*
6222 TAT-AT-CAATTATAAAT
1 TATCATGCAATTATAAAG
6238 TATCATGCAATTA
1 TATCATGCAATTA
6251 ATTAATAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 11 0.46
17 4 0.17
18 9 0.38
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (18 bp):
TATCATGCAATTATAAAG
Found at i:6364 original size:3 final size:3
Alignment explanation
Indices: 6356--6413 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
6346 TTCCTTAATC
6356 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6404 TAA TAA TAA T
1 TAA TAA TAA T
6414 GAAAGACATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7339 original size:22 final size:24
Alignment explanation
Indices: 7314--7357 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7304 AAGATTTATT
7314 ATAACA-TTTTTT-GAAAATAAAA
1 ATAACACTTTTTTAGAAAATAAAA
*
7336 ATAACACTTTTTTAGAATATAA
1 ATAACACTTTTTTAGAAAATAA
7358 TTGTTGGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (24 bp):
ATAACACTTTTTTAGAAAATAAAA
Found at i:8093 original size:9 final size:9
Alignment explanation
Indices: 8079--8229 Score: 68
Period size: 9 Copynumber: 17.7 Consensus size: 9
8069 GAGTCTTAAA
8079 GGTTTTGAG
1 GGTTTTGAG
*
8088 GGTTTTGGG
1 GGTTTTGAG
*
8097 GGTTTTAAG
1 GGTTTTGAG
*
8106 GATTTTGA-
1 GGTTTTGAG
* *
8114 AGTTTT-AA
1 GGTTTTGAG
* *
8122 GATTTT-AA
1 GGTTTTGAG
**
8130 GGTTTCAAG
1 GGTTTTGAG
* *
8139 GATTTTAAG
1 GGTTTTGAG
8148 GGTTTT-AG
1 GGTTTTGAG
8156 GGATTTTGAG
1 GG-TTTTGAG
*
8166 GG-TTT-AA
1 GGTTTTGAG
8173 GGTTTTGAG
1 GGTTTTGAG
*
8182 AGTTTTGA-
1 GGTTTTGAG
*
8190 GATTTT-A-
1 GGTTTTGAG
*
8197 GGTTTTTAG
1 GGTTTTGAG
**
8206 GGTTTCAAG
1 GGTTTTGAG
*
8215 AGTTTTGAG
1 GGTTTTGAG
8224 GGTTTT
1 GGTTTT
8230 ACGATTTTAA
Statistics
Matches: 107, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
7 10 0.09
8 29 0.27
9 64 0.60
10 4 0.04
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (9 bp):
GGTTTTGAG
Found at i:8120 original size:17 final size:17
Alignment explanation
Indices: 8098--8187 Score: 80
Period size: 17 Copynumber: 5.3 Consensus size: 17
8088 GGTTTTGGGG
8098 GTTTTAAGGATTTTGAA
1 GTTTTAAGGATTTTGAA
8115 GTTTTAA-GATTTT-AA
1 GTTTTAAGGATTTTGAA
*
8130 GGTTTCAAGGATTTT-AA
1 -GTTTTAAGGATTTTGAA
* *
8147 GGGTTTTAGGGATTTTGAG
1 --GTTTTAAGGATTTTGAA
*
8166 GGTTTAAGG-TTTTGAGA
1 GTTTTAAGGATTTTGA-A
8183 GTTTT
1 GTTTT
8188 GAGATTTTAG
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.03
16 18 0.30
17 26 0.43
18 13 0.22
19 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (17 bp):
GTTTTAAGGATTTTGAA
Found at i:8127 original size:8 final size:8
Alignment explanation
Indices: 8099--8273 Score: 68
Period size: 8 Copynumber: 20.9 Consensus size: 8
8089 GTTTTGGGGG
8099 TTTTAAGGA
1 TTTTAA-GA
8108 TTTTGAAG-
1 TTTT-AAGA
8116 TTTTAAGA
1 TTTTAAGA
*
8124 TTTTAAGG
1 TTTTAAGA
*
8132 TTTCAAGGA
1 TTTTAA-GA
*
8141 TTTTAAGGG
1 TTTTAA-GA
*
8150 TTTTAGGGA
1 TTTTA-AGA
* *
8159 TTTTGAGG
1 TTTTAAGA
* *
8167 GTTTAAGG
1 TTTTAAGA
*
8175 TTTTGAGA
1 TTTTAAGA
*
8183 GTTTTGAGA
1 -TTTTAAGA
* *
8192 TTTTAGGT
1 TTTTAAGA
* *
8200 TTTTAGGG
1 TTTTAAGA
*
8208 TTTCAAGA
1 TTTTAAGA
* *
8216 GTTTTGAGGG
1 -TTTT-AAGA
*
8226 TTTTACGA
1 TTTTAAGA
8234 TTTTAAGCA
1 TTTTAAG-A
8243 TTTT-AG-
1 TTTTAAGA
8249 TGTTTAAGA
1 T-TTTAAGA
8258 TTTTAAAGA
1 TTTT-AAGA
8267 TTTTAAG
1 TTTTAAG
8274 GTTCGGAGTT
Statistics
Matches: 126, Mismatches: 28, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
6 1 0.01
7 6 0.05
8 63 0.50
9 52 0.41
10 4 0.03
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (8 bp):
TTTTAAGA
Found at i:8132 original size:51 final size:51
Alignment explanation
Indices: 8077--8204 Score: 134
Period size: 51 Copynumber: 2.5 Consensus size: 51
8067 GAGAGTCTTA
* ** *
8077 AAGGTTTTGAGGGTTTTGGGGGTTTTAAGGATTTTGAAGTTTTAAGATTTT
1 AAGGTTTTGAGGATTTTAAGGGTTTTAAGGATTTTGAAGGTTTAAGATTTT
** * * *
8128 AAGGTTTCAAGGATTTTAAGGGTTTTAGGGATTTTGAGGGTTTAAGGTTTT
1 AAGGTTTTGAGGATTTTAAGGGTTTTAAGGATTTTGAAGGTTTAAGATTTT
* *
8179 GAGAGTTTTGA-GATTTT-AGGTTTTTA
1 AAG-GTTTTGAGGATTTTAAGGGTTTTA
8205 GGGTTTCAAG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 8 0.13
51 50 0.79
52 5 0.08
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (51 bp):
AAGGTTTTGAGGATTTTAAGGGTTTTAAGGATTTTGAAGGTTTAAGATTTT
Found at i:8220 original size:42 final size:42
Alignment explanation
Indices: 8150--8261 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
8140 ATTTTAAGGG
8150 TTTTAGGGATTTTGAGGGTTTAAGGTTTTGAGAGTTTTGA-GA
1 TTTTAGGGATTTTGAGGGTTTAAGGTTTTGAGAGTTTT-ACGA
* *
8192 TTTTA-GG-TTTTTAGGGTTTCAAGAGTTTTGAGGGTTTTACGA
1 TTTTAGGGATTTTGAGGGTTT-AAG-GTTTTGAGAGTTTTACGA
* * * *
8234 TTTTAAGCATTTT-AGTGTTTAAGATTTT
1 TTTTAGGGATTTTGAGGGTTTAAGGTTTT
8262 AAAGATTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
40 11 0.18
41 10 0.17
42 28 0.47
43 7 0.12
44 4 0.07
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.49
Consensus pattern (42 bp):
TTTTAGGGATTTTGAGGGTTTAAGGTTTTGAGAGTTTTACGA
Found at i:10438 original size:12 final size:12
Alignment explanation
Indices: 10421--10471 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
10411 CTCTAATCCC
10421 ATTTTTTAATTA
1 ATTTTTTAATTA
* *
10433 ATTTTTTAGTTT
1 ATTTTTTAATTA
*
10445 TTTTTTTAATT-
1 ATTTTTTAATTA
*
10456 ATTATTTGAATTA
1 ATT-TTTTAATTA
10469 ATT
1 ATT
10472 AAGACAATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 2 0.06
12 26 0.84
13 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (12 bp):
ATTTTTTAATTA
Found at i:11219 original size:14 final size:15
Alignment explanation
Indices: 11202--11239 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
11192 GTTAATTTCA
**
11202 TTGATTTTTGGGA-T
1 TTGATTTTTGAAATT
11216 TTGATTTTTGAAATT
1 TTGATTTTTGAAATT
11231 TTGATTTTT
1 TTGATTTTT
11240 TGTATCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (15 bp):
TTGATTTTTGAAATT
Found at i:12207 original size:34 final size:34
Alignment explanation
Indices: 12151--12256 Score: 88
Period size: 34 Copynumber: 3.1 Consensus size: 34
12141 GGGATTCCAA
* **
12151 ATTCACAAAGGTTTCATGTTTTGCAAAGATTTCAG
1 ATTCAC-AAGGTTCCAACTTTTGCAAAGATTTCAG
* * * *
12186 ATTCGCAAGGTGT-CAACTTTTGCAGAGGTTTCAA
1 ATTCACAAGGT-TCCAACTTTTGCAAAGATTTCAG
* **
12220 ATTCACAAGGTTCCAAGTTTCACAAAGATTTTCAG
1 ATTCACAAGGTTCCAACTTTTGCAAAGA-TTTCAG
12255 AT
1 AT
12257 CTGCAAGAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
33 1 0.02
34 41 0.75
35 13 0.24
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (34 bp):
ATTCACAAGGTTCCAACTTTTGCAAAGATTTCAG
Found at i:13626 original size:16 final size:16
Alignment explanation
Indices: 13607--13638 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13597 AAGTTTTCTT
*
13607 TTTTTTTATTTTTTTG
1 TTTTTTCATTTTTTTG
13623 TTTTTTCATTTTTTTG
1 TTTTTTCATTTTTTTG
13639 CACATCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTTTTCATTTTTTTG
Found at i:14209 original size:81 final size:81
Alignment explanation
Indices: 14074--14231 Score: 246
Period size: 81 Copynumber: 2.0 Consensus size: 81
14064 AGTTTTCATC
* * ** * *
14074 TCAAATATGAATATTTTCAATGAAAAACATTCATTAACTAAGAAACAAATATCACATTTTGCATC
1 TCAAATATGAATACTCTCAAAAAAAAACATTCATTAACTAAGAAACAAAGATCACATTCTGCATC
14139 AAC-TCATCTTTTATA
66 AACTTCATCTTTTATA
14154 TCAAATATGAATACTCTCAACAAAAAAACATTCATTAACTAAGAAACAAAGATCACATTCTGCAT
1 TCAAATATGAATACTCTCAA-AAAAAAACATTCATTAACTAAGAAACAAAGATCACATTCTGCAT
14219 CAACTTCATCTTT
65 CAACTTCATCTTT
14232 CAGTGAATGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 18 0.26
81 44 0.63
82 8 0.11
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (81 bp):
TCAAATATGAATACTCTCAAAAAAAAACATTCATTAACTAAGAAACAAAGATCACATTCTGCATC
AACTTCATCTTTTATA
Found at i:18474 original size:13 final size:14
Alignment explanation
Indices: 18447--18476 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
18437 AAACAAAAAT
18447 TATCATGCAAATAA
1 TATCATGCAAATAA
18461 TATCATGC-AATAA
1 TATCATGCAAATAA
18474 TAT
1 TAT
18477 AATATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (14 bp):
TATCATGCAAATAA
Found at i:18480 original size:18 final size:18
Alignment explanation
Indices: 18457--18505 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
18447 TATCATGCAA
18457 ATAATATCATGCAATAAT
1 ATAATATCATGCAATAAT
*
18475 ATAATAT-AT-CAATTAT
1 ATAATATCATGCAATAAT
18491 A-AATTATCATGCAAT
1 ATAA-TATCATGCAAT
18506 CACATAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.07
16 10 0.37
17 4 0.15
18 11 0.41
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (18 bp):
ATAATATCATGCAATAAT
Found at i:18499 original size:34 final size:33
Alignment explanation
Indices: 18461--18552 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 33
18451 ATGCAAATAA
18461 TATCATGCAATAATATAATATATCAATTATAAAT
1 TATCATGCAATAATATAATA-ATCAATTATAAAT
* * * * *
18495 TATCATGCAATCACATAGTAAATTAGTTATAAAT
1 TATCATGCAATAATATAAT-AATCAATTATAAAT
*
18529 TATCATGCCATTAAT-TAATAATCA
1 TATCATG-CAATAATATAATAATCA
18553 TGCAAAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
33 4 0.09
34 37 0.80
35 5 0.11
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (33 bp):
TATCATGCAATAATATAATAATCAATTATAAAT
Found at i:18706 original size:3 final size:3
Alignment explanation
Indices: 18698--18724 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18688 TTTAATTAGC
18698 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
18725 GACATACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20569 original size:62 final size:62
Alignment explanation
Indices: 20497--20617 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
20487 TGTAATTTGT
* * *
20497 TAATAGTATTGTTATTTGTGATGACCAGTTCTATAGCAATTTCACCTTTTCAAGTGGGTCTC
1 TAATAATATTGCTATTTGTGATGACCAGTTCCATAGCAATTTCACCTTTTCAAGTGGGTCTC
** *
20559 TAATAATATTGCTATTTGTGATGATTAGTTCCATAGCAATTTCACCTTTTCAGGTGGGT
1 TAATAATATTGCTATTTGTGATGACCAGTTCCATAGCAATTTCACCTTTTCAAGTGGGT
20618 GGTGTGTGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (62 bp):
TAATAATATTGCTATTTGTGATGACCAGTTCCATAGCAATTTCACCTTTTCAAGTGGGTCTC
Found at i:22027 original size:43 final size:43
Alignment explanation
Indices: 21966--22049 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
21956 GATGGGGCCA
21966 TTGATTGCAAAGTATATGGGTTTTGATGGGTAGTTGACGCTCG
1 TTGATTGCAAAGTATATGGGTTTTGATGGGTAGTTGACGCTCG
*
22009 TTGATTGCAAAGTATATGGGTTTTGATGGGTTGTTGACGCT
1 TTGATTGCAAAGTATATGGGTTTTGATGGGTAGTTGACGCT
22050 GAATTCGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.39
Consensus pattern (43 bp):
TTGATTGCAAAGTATATGGGTTTTGATGGGTAGTTGACGCTCG
Found at i:30738 original size:34 final size:34
Alignment explanation
Indices: 30700--30769 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
30690 TCGAATATAC
* *
30700 ATTTTTAGTAAATTAAA-ATACTTATCATATATGT
1 ATTTTTAATAAATTAAATA-ACTTATCAAATATGT
*
30734 ATTTTTAATAAATTAAATAATTTATCAAATATGT
1 ATTTTTAATAAATTAAATAACTTATCAAATATGT
30768 AT
1 AT
30770 ATCTAAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (34 bp):
ATTTTTAATAAATTAAATAACTTATCAAATATGT
Done.