Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017071.1 Corchorus olitorius cultivar O-4 contig17104, 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: 4100
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Found at i:1368 original size:39 final size:38
Alignment explanation
Indices: 1301--2150 Score: 203
Period size: 40 Copynumber: 21.8 Consensus size: 38
1291 ATTATGATTG
* * **
1301 ACTGACAAAGAAATGATCTTGAGCAGGATTCTGAAATCA
1 ACTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
*
1340 ACTAATAAAGAGATGATCCTGAATAGGATGT-TGAAATCA
1 ACTGATAAAGA-ATGATCCTGAATAGGAT-TCTGAAATCA
* ** * *
1379 A---A-AAGGCAACCATCCTGAATAGGATTTTGAAATTA
1 ACTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* * *
1414 ACTGAT-GACAATGATCCTGAATAGGATTCTGAAATCG
1 ACTGATAAAGAATGATCCTGAATAGGATTCTGAAATCA
** * * * **
1451 ACAAATAAAGATATGACCCTAAATAGGATTATG--ATTG
1 ACTGATAAAGA-ATGATCCTGAATAGGATTCTGAAATCA
* **
1488 ACTGATAACAAAATGATCCTGAGCAGGATTCTGAAATTC-
1 ACTGATAA-AGAATGATCCTGAATAGGATTCTGAAA-TCA
* * *
1527 ACTTGATAAAGCAATGATACTGAGTAGGATTCTGAAATTA
1 AC-TGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* * *
1567 ATTTGATAAAGCAATGATCCTGAGTAGGATTCTG--ATTA
1 A-CTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* * **
1605 ATTTGATAAAGCAATGATCCTGAGTAGGA-T-TGAAATTG
1 A-CTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* * ** **
1643 CCTGATAAAAAAAATTGATTTTGAGCAGGATTCTGAAATTCA
1 ACTGAT--AAAGAA-TGATCCTGAATAGGATTCTGAAA-TCA
** ** * *
1685 TTTGATAAATAAAGCAATGATCCTGAGCAGGATTGTG--ATTA
1 ACTG----ATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* ** *
1726 ATTTGATAAAGCAATGATCCTGAGCAGGATTCTGAAATTA
1 A-CTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* ** * * *
1766 ATTTGATAAAGCAATGATCCTGAGCAGGGTTTTGAAATTA
1 A-CTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* * ** * *
1806 ATTTGATAAAAATATGATCCTGAGCAGGATTGTG--ATTA
1 A-CTGATAAAGA-ATGATCCTGAATAGGATTCTGAAATCA
* ** * * *
1844 ATTTGATAAAGCAATGATCCTGAGCAGGGTTTTGAAATTA
1 A-CTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* * ** * * *
1884 ATTTAATAAAGAGATGATCCTGAGCAGGGTTTTGAAATTA
1 A-CTGATAAAGA-ATGATCCTGAATAGGATTCTGAAATCA
* ** * *
1924 ATTTGATAGGAAG-ATGATCCTGAGCAGGATTTTGAAATTA
1 A-CTGATA--AAGAATGATCCTGAATAGGATTCTGAAATCA
* *** * * *
1964 ATTTGATAGAA-AGATGATCCTGAGCCGGGTTTTGAAATTA
1 A-CTGATA-AAGA-ATGATCCTGAATAGGATTCTGAAATCA
* * ** * *
2004 ATTTGATAAAACAATGATCCTGAGCAGGGTTCTGAAATTA
1 A-CTGAT-AAAGAATGATCCTGAATAGGATTCTGAAATCA
* * * * **
2044 ATTTAATAAAGCAATGATCCTGAGTAGGATTGTG--ATTG
1 A-CTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* *** * *
2082 ACTGGTAAAGAAATGATCCTGTGCAGGATTCTGGAATCG
1 ACTGATAAAG-AATGATCCTGAATAGGATTCTGAAATCA
* *
2121 ACTAATAAAGCAATGATCATGAATAGGATT
1 ACTGATAAAG-AATGATCCTGAATAGGATT
2151 AAAACACATA
Statistics
Matches: 669, Mismatches: 94, Indels: 96
0.78 0.11 0.11
Matches are distributed among these distances:
34 1 0.00
35 26 0.04
36 4 0.01
37 82 0.12
38 109 0.16
39 104 0.16
40 300 0.45
41 9 0.01
42 10 0.01
44 20 0.03
45 2 0.00
46 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (38 bp):
ACTGATAAAGAATGATCCTGAATAGGATTCTGAAATCA
Found at i:1535 original size:40 final size:40
Alignment explanation
Indices: 1490--2114 Score: 627
Period size: 40 Copynumber: 15.8 Consensus size: 40
1480 TATGATTGAC
* *
1490 TGATAACA-AAATGATCCTGAGCAGGATTCTGAAATTCACT
1 TGATAA-AGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* * *
1530 TGATAAAGCAATGATACTGAGTAGGATTCTGAAATTAATT
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* *
1570 TGATAAAGCAATGATCCTGAGTAGGATTCTG--ATTAATT
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* * ***
1608 TGATAAAGCAATGATCCTGAGTAGGA-T-TGAAATT-GCC
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* ** *
1645 TGATAAAAAAAATTGATTTTGAGCAGGATTCTGAAATTCATT
1 TGAT-AAAGAAA-TGATCCTGAGCAGGATTCTGAAATTAATT
* *
1687 TGATAAATAAAGCAATGATCCTGAGCAGGATTGTG--ATTAATT
1 TG----ATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
*
1729 TGATAAAGCAATGATCCTGAGCAGGATTCTGAAATTAATT
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* * *
1769 TGATAAAGCAATGATCCTGAGCAGGGTTTTGAAATTAATT
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
*
1809 TGATAAA-AATATGATCCTGAGCAGGATTGTG--ATTAATT
1 TGATAAAGAA-ATGATCCTGAGCAGGATTCTGAAATTAATT
* * *
1847 TGATAAAGCAATGATCCTGAGCAGGGTTTTGAAATTAATT
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* * * *
1887 TAATAAAGAGATGATCCTGAGCAGGGTTTTGAAATTAATT
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* *
1927 TGAT-AGGAAGATGATCCTGAGCAGGATTTTGAAATTAATT
1 TGATAAAGAA-ATGATCCTGAGCAGGATTCTGAAATTAATT
* * * *
1967 TGATAGAA-AGATGATCCTGAGCCGGGTTTTGAAATTAATT
1 TGATA-AAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
*
2007 TGATAAA-ACAATGATCCTGAGCAGGGTTCTGAAATTAATT
1 TGATAAAGA-AATGATCCTGAGCAGGATTCTGAAATTAATT
* * * * * *
2047 TAATAAAGCAATGATCCTGAGTAGGATTGTG--ATTGA-C
1 TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
* *
2084 TGGTAAAGAAATGATCCTGTGCAGGATTCTG
1 TGATAAAGAAATGATCCTGAGCAGGATTCTG
2115 GAATCGACTA
Statistics
Matches: 503, Mismatches: 59, Indels: 49
0.82 0.10 0.08
Matches are distributed among these distances:
36 2 0.00
37 30 0.06
38 106 0.21
39 21 0.04
40 301 0.60
41 8 0.02
42 11 0.02
44 17 0.03
45 5 0.01
46 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (40 bp):
TGATAAAGAAATGATCCTGAGCAGGATTCTGAAATTAATT
Found at i:1634 original size:118 final size:118
Alignment explanation
Indices: 1499--2138 Score: 708
Period size: 118 Copynumber: 5.4 Consensus size: 118
1489 CTGATAACAA
* * *
1499 AATGATCCTGAGCAGGATTCTGAAATTCACTTGATAAAGCAATGATACTGAGTAGGATTCTGAAA
1 AATGATCCTGAGCAGGATTCTGAAATTAACTTGATAAAGCAATGATCCTGAGCAGGATTCTGAAA
* *
1564 TTAATTTGATAAAGCAATGATCCTGAGTAGGATTCTGATTAATTTGATAAAGC
66 TTAATTTGATAAAGCAATGATCCTGAGCAGGATTGTGATTAATTTGATAAAGC
* * * ** **
1617 AATGATCCTGAGTAGGA-T-TGAAATT-GCCTGATAAAAAAAATTGATTTTGAGCAGGATTCTGA
1 AATGATCCTGAGCAGGATTCTGAAATTAACTTGAT-AAAGCAA-TGATCCTGAGCAGGATTCTGA
*
1679 AATTCATTTGATAAATAAAGCAATGATCCTGAGCAGGATTGTGATTAATTTGATAAAGC
64 AATTAATTTG----ATAAAGCAATGATCCTGAGCAGGATTGTGATTAATTTGATAAAGC
* * *
1738 AATGATCCTGAGCAGGATTCTGAAATTAATTTGATAAAGCAATGATCCTGAGCAGGGTTTTGAAA
1 AATGATCCTGAGCAGGATTCTGAAATTAACTTGATAAAGCAATGATCCTGAGCAGGATTCTGAAA
*
1803 TTAATTTGATAAA-AATATGATCCTGAGCAGGATTGTGATTAATTTGATAAAGC
66 TTAATTTGATAAAGCA-ATGATCCTGAGCAGGATTGTGATTAATTTGATAAAGC
* * * * * *
1856 AATGATCCTGAGCAGGGTTTTGAAATTAATTTAATAAAG-AGATGATCCTGAGCAGGGTTTTGAA
1 AATGATCCTGAGCAGGATTCTGAAATTAACTTGATAAAGCA-ATGATCCTGAGCAGGATTCTGAA
*
1920 ATTAATTTGATAGGAAG--ATGATCCTGAGCAGGATTTTGAAATTAATTTGATAGAA--
65 ATTAATTTGATA--AAGCAATGATCCTGAGCAGGATTGTG--ATTAATTTGATA-AAGC
* * * * * *
1975 AGATGATCCTGAGCCGGGTTTTGAAATTAATTTGATAAAACAATGATCCTGAGCAGGGTTCTGAA
1 A-ATGATCCTGAGCAGGATTCTGAAATTAACTTGATAAAGCAATGATCCTGAGCAGGATTCTGAA
* * * * * *
2040 ATTAATTTAATAAAGCAATGATCCTGAGTAGGATTGTGATTGA-CTGGTAAAGA
65 ATTAATTTGATAAAGCAATGATCCTGAGCAGGATTGTGATTAATTTGATAAAGC
* * ** *
2093 AATGATCCTGTGCAGGATTCTGGAATCGAC-TAATAAAGCAATGATC
1 AATGATCCTGAGCAGGATTCTGAAATTAACTTGATAAAGCAATGATC
2139 ATGAATAGGA
Statistics
Matches: 452, Mismatches: 47, Indels: 48
0.83 0.09 0.09
Matches are distributed among these distances:
115 5 0.01
116 28 0.06
117 55 0.12
118 157 0.35
119 1 0.00
120 101 0.22
121 62 0.14
122 27 0.06
123 12 0.03
124 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (118 bp):
AATGATCCTGAGCAGGATTCTGAAATTAACTTGATAAAGCAATGATCCTGAGCAGGATTCTGAAA
TTAATTTGATAAAGCAATGATCCTGAGCAGGATTGTGATTAATTTGATAAAGC
Found at i:2515 original size:140 final size:138
Alignment explanation
Indices: 2213--2535 Score: 574
Period size: 140 Copynumber: 2.3 Consensus size: 138
2203 GGAGGACAAG
* * *
2213 TCAGAATTGATACCCGGAGGTTTCTGAAATTGTGCCCGGTGGTCTCACAAATGCAAACTCGACCT
1 TCAGAATTAATACCCGGAGGTTTCTGAAATTGTGCCCGGAGGTCTCACAAATGCAAACTCAACCT
2278 TGAGCAAGGTTTTGAAATTTAAACACAGCTTTGATTAAAACTTGATGAAATGAAATGATACCCGG
66 TGAGCAAGGTTTTGAAATTTAAACACAGCTTTGATTAAAACTTGATGAAATGAAATGATACCCGG
2343 AGGATTTA
131 AGGATTTA
* *
2351 TCAGAATTAATACTCGGAGGTTTCTGAAATTGTGCCCGGAGGTCTTACAAATGCAAACTCAACCT
1 TCAGAATTAATACCCGGAGGTTTCTGAAATTGTGCCCGGAGGTCTCACAAATGCAAACTCAACCT
*
2416 TGAGCAAGGTTTTTGAAATTTAAACGCAGCTTTGATTAAAAACTTGATGAAATGAAATGATACCC
66 TGAGCAAGG-TTTTGAAATTTAAACACAGCTTTGATT-AAAACTTGATGAAATGAAATGATACCC
2481 GGAGGATTTA
129 GGAGGATTTA
2491 TCAGAATTAATACCCGGAGGTTTCTGAAATTGTGCCCGGAGGTCT
1 TCAGAATTAATACCCGGAGGTTTCTGAAATTGTGCCCGGAGGTCT
2536 GAAATTGAAG
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
138 69 0.39
139 26 0.15
140 81 0.46
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (138 bp):
TCAGAATTAATACCCGGAGGTTTCTGAAATTGTGCCCGGAGGTCTCACAAATGCAAACTCAACCT
TGAGCAAGGTTTTGAAATTTAAACACAGCTTTGATTAAAACTTGATGAAATGAAATGATACCCGG
AGGATTTA
Found at i:2538 original size:20 final size:21
Alignment explanation
Indices: 2503--2542 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
2493 AGAATTAATA
2503 CCCGGAGGTTTCTGAAATTGTG
1 CCCGGAGG-TTCTGAAATTGTG
2525 CCCGGAGG-TCTGAAATTG
1 CCCGGAGGTTCTGAAATTG
2543 AAGACTCGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (21 bp):
CCCGGAGGTTCTGAAATTGTG
Found at i:2841 original size:69 final size:68
Alignment explanation
Indices: 2740--3282 Score: 752
Period size: 69 Copynumber: 7.9 Consensus size: 68
2730 AGGTCCTGAA
*
2740 TGCTTGGATGGAACCAAGGCTAAACTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCCC
1 TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCCC
2805 TGC
66 TGC
* * *
2808 TGCTTGGATGGAATCAAGGCTTGAACTGACTCGTATGGAAACAAGTTTGGCTTGT-AAGAAAGCC
1 TGCTTGGATGGAACCAAGGCTT-AACTGACTCGTATGGAAACGAGTTTGGCTTGTGGA-AAAGCC
2872 CCTGC
64 CCTGC
* * *
2877 TGCTTGGATGGAACCAAGGCTTAACT-AGCTCGTGTGGGAACGAGTTTGGCTTGGGAGAAAAGCC
1 TGCTTGGATGGAACCAAGGCTTAACTGA-CTCGTATGGAAACGAGTTTGGCTTGTG-GAAAAGCC
2941 CCTGC
64 CCTGC
* * * * *
2946 TGCTTGGATGGAACCAAGGCTTAACTGGCTCGTGTGGGAACAAGTTTGGCTTGTTGAAAAGCCCC
1 TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCCC
3011 TGC
66 TGC
* * *
3014 TACTTGGATGGAACCAAGGCTTAACTGGCTCATATGGAAACGAGTTTGGCTTGTGAGAAAAGCCC
1 TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTG-GAAAAGCCC
3079 CTGC
65 CTGC
*
3083 TGCTTGGATGGAACCAAGGCTTAACTGGCTCGTATGGAAACGAGTTTGGCTTGTGAGAAAAGCCC
1 TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTG-GAAAAGCCC
3148 CTGC
65 CTGC
* * * *
3152 TGCTTGGATGGAACCAAGGCTTAAACT-ACCCCGTATGGAAACGGGTCTGGCTTGTTGAAAAGCC
1 TGCTTGGATGGAACCAAGGCTT-AACTGA-CTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCC
3216 CCTGC
64 CCTGC
* * * *
3221 TGCTTGGATGGAACCAAGGCTTAAACT-ACCTCGTATGGAAACGGGTCTGACTTATGGAAAAG
1 TGCTTGGATGGAACCAAGGCTT-AACTGA-CTCGTATGGAAACGAGTTTGGCTTGTGGAAAAG
3283 TCAAAGCATT
Statistics
Matches: 435, Mismatches: 31, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
67 1 0.00
68 109 0.25
69 297 0.68
70 28 0.06
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (68 bp):
TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCCC
TGC
Found at i:2988 original size:137 final size:137
Alignment explanation
Indices: 2740--3262 Score: 766
Period size: 137 Copynumber: 3.8 Consensus size: 137
2730 AGGTCCTGAA
* *
2740 TGCTTGGATGGAACCAAGGCTAAACT-GACTCGTATGGAAACGAGTTTGGCTTGTG-GAAAAGCC
1 TGCTTGGATGGAACCAAGGCTTAACTAG-CTCGTATGGAAACGAGTTTGGCTTGGGAGAAAAGCC
* *
2803 CCTGCTGCTTGGATGGAATCAAGGCTTGAACTGACTCGTATGGAAACAAGTTTGGCTTGTA-AGA
65 CCTGCTGCTTGGATGGAACCAAGGCTT-AACTGGCTCGTATGGAAACAAGTTTGGCTTGTAGA-A
2867 AAGCCCCTGC
128 AAGCCCCTGC
* *
2877 TGCTTGGATGGAACCAAGGCTTAACTAGCTCGTGTGGGAACGAGTTTGGCTTGGGAGAAAAGCCC
1 TGCTTGGATGGAACCAAGGCTTAACTAGCTCGTATGGAAACGAGTTTGGCTTGGGAGAAAAGCCC
* * *
2942 CTGCTGCTTGGATGGAACCAAGGCTTAACTGGCTCGTGTGGGAACAAGTTTGGCTTGTTGAAAAG
66 CTGCTGCTTGGATGGAACCAAGGCTTAACTGGCTCGTATGGAAACAAGTTTGGCTTGTAGAAAAG
3007 CCCCTGC
131 CCCCTGC
* * * *
3014 TACTTGGATGGAACCAAGGCTTAACTGGCTCATATGGAAACGAGTTTGGCTTGTGAGAAAAGCCC
1 TGCTTGGATGGAACCAAGGCTTAACTAGCTCGTATGGAAACGAGTTTGGCTTGGGAGAAAAGCCC
*
3079 CTGCTGCTTGGATGGAACCAAGGCTTAACTGGCTCGTATGGAAACGAGTTTGGCTTGTGAGAAAA
66 CTGCTGCTTGGATGGAACCAAGGCTTAACTGGCTCGTATGGAAACAAGTTTGGCTTGT-AGAAAA
3144 GCCCCTGC
130 GCCCCTGC
* * * * **
3152 TGCTTGGATGGAACCAAGGCTTAAACTACCCCGTATGGAAACGGGTCTGGCTT-GTTGAAAAGCC
1 TGCTTGGATGGAACCAAGGCTT-AACTAGCTCGTATGGAAACGAGTTTGGCTTGGGAGAAAAGCC
**
3216 CCTGCTGCTTGGATGGAACCAAGGCTTAAACTACCTCGTATGGAAAC
65 CCTGCTGCTTGGATGGAACCAAGGCTT-AACTGGCTCGTATGGAAAC
3263 GGGTCTGACT
Statistics
Matches: 349, Mismatches: 31, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
137 203 0.58
138 105 0.30
139 41 0.12
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (137 bp):
TGCTTGGATGGAACCAAGGCTTAACTAGCTCGTATGGAAACGAGTTTGGCTTGGGAGAAAAGCCC
CTGCTGCTTGGATGGAACCAAGGCTTAACTGGCTCGTATGGAAACAAGTTTGGCTTGTAGAAAAG
CCCCTGC
Found at i:3094 original size:206 final size:206
Alignment explanation
Indices: 2740--3263 Score: 811
Period size: 206 Copynumber: 2.5 Consensus size: 206
2730 AGGTCCTGAA
* *
2740 TGCTTGGATGGAACCAAGGCTAAACTGACTCGTATGGAAACGAGTTTGGCTTGTGGAAAAGCCCC
1 TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTTGAAAAGCCCC
* * *
2805 TGCTGCTTGGATGGAATCAAGGCTTGAACTGACTCGTATGGAAACAAGTTTGGCTTGTAAGAAAG
66 TGCTGCTTGGATGGAACCAAGGCTTAAACTGACTCGTATGGAAACGAGTTTGGCTTGTAAGAAAG
* *
2870 CCCCTGCTGCTTGGATGGAACCAAGGCTTAACTAGCTCGTGTGGGAACGAGTTTGGCTTGGGAGA
131 CCCCTGCTGCTTGGATGGAACCAAGGCTTAACTAGCTCGTATGGAAACGAGTTTGGCTTGGGAGA
2935 AAAGCCCCTGC
196 AAAGCCCCTGC
* * * *
2946 TGCTTGGATGGAACCAAGGCTTAACTGGCTCGTGTGGGAACAAGTTTGGCTTGTTGAAAAGCCCC
1 TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTTGAAAAGCCCC
* * * *
3011 TGCTACTTGGATGGAACCAAGGCTT-AACTGGCTCATATGGAAACGAGTTTGGCTTGTGAGAAAA
66 TGCTGCTTGGATGGAACCAAGGCTTAAACTGACTCGTATGGAAACGAGTTTGGCTTGTAAG-AAA
* *
3075 GCCCCTGCTGCTTGGATGGAACCAAGGCTTAACTGGCTCGTATGGAAACGAGTTTGGCTTGTGAG
130 GCCCCTGCTGCTTGGATGGAACCAAGGCTTAACTAGCTCGTATGGAAACGAGTTTGGCTTGGGAG
3140 AAAAGCCCCTGC
195 AAAAGCCCCTGC
* * *
3152 TGCTTGGATGGAACCAAGGCTTAAACT-ACCCCGTATGGAAACGGGTCTGGCTTGTTGAAAAGCC
1 TGCTTGGATGGAACCAAGGCTT-AACTGA-CTCGTATGGAAACGAGTTTGGCTTGTTGAAAAGCC
3216 CCTGCTGCTTGGATGGAACCAAGGCTTAAACT-ACCTCGTATGGAAACG
64 CCTGCTGCTTGGATGGAACCAAGGCTTAAACTGA-CTCGTATGGAAACG
3264 GGTCTGACTT
Statistics
Matches: 287, Mismatches: 26, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
205 31 0.11
206 180 0.63
207 59 0.21
208 17 0.06
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (206 bp):
TGCTTGGATGGAACCAAGGCTTAACTGACTCGTATGGAAACGAGTTTGGCTTGTTGAAAAGCCCC
TGCTGCTTGGATGGAACCAAGGCTTAAACTGACTCGTATGGAAACGAGTTTGGCTTGTAAGAAAG
CCCCTGCTGCTTGGATGGAACCAAGGCTTAACTAGCTCGTATGGAAACGAGTTTGGCTTGGGAGA
AAAGCCCCTGC
Found at i:4049 original size:50 final size:50
Alignment explanation
Indices: 3944--4042 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
3934 AAAATGCCCT
* **
3944 TTGAAAAGCGAATTTTGATCTTGGACTCACAAATGGAATGCAATCTTATC
1 TTGAAAAGCGAATTTTGATATCAGACTCACAAATGGAATGCAATCTTATC
*
3994 TTGAAAATCGAATTTTGATATCAGACTCACAAATGGAATGCAATCTTAT
1 TTGAAAAGCGAATTTTGATATCAGACTCACAAATGGAATGCAATCTTAT
4043 TATGAAACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (50 bp):
TTGAAAAGCGAATTTTGATATCAGACTCACAAATGGAATGCAATCTTATC
Done.