Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013868.1 Corchorus olitorius cultivar O-4 contig13901, 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: 27931
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:1876 original size:15 final size:15
Alignment explanation
Indices: 1856--1887 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1846 CCTTGGGGGT
1856 TCAAAATCAACAAGC
1 TCAAAATCAACAAGC
1871 TCAAAATCAACAAGC
1 TCAAAATCAACAAGC
1886 TC
1 TC
1888 CACTTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (15 bp):
TCAAAATCAACAAGC
Found at i:2585 original size:66 final size:66
Alignment explanation
Indices: 2479--2605 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
2469 AGTAATTCTG
* *
2479 AACCTGATTTGAGTGTTGTTTGCAATGACATGAAATTTGTTTTAGATGTTGTTAGTGATGATACT
1 AACCTAATTTAAGTGTTGTTTGCAATGACATGAAATTTGTTTTAGATGTTGTTAGTGATGATACT
2544 A
66 A
** * *
2545 AACCTAATTTAAGTGTTGTTTGTGATGACACT-AAATTTGTTTTAGGTGTTGTTTGTGATGA
1 AACCTAATTTAAGTGTTGTTTGCAATGACA-TGAAATTTGTTTTAGATGTTGTTAGTGATGA
2606 AACAAATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 53 0.98
67 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (66 bp):
AACCTAATTTAAGTGTTGTTTGCAATGACATGAAATTTGTTTTAGATGTTGTTAGTGATGATACT
A
Found at i:2594 original size:33 final size:33
Alignment explanation
Indices: 2491--2620 Score: 129
Period size: 33 Copynumber: 3.9 Consensus size: 33
2481 CCTGATTTGA
**
2491 GTGTTGTTTGCAATGACA-TGAAATTTGTTTTAG
1 GTGTTGTTTGTGATGACACT-AAATTTGTTTTAG
* * * ** ** *
2524 ATGTTGTTAGTGATGATACTAAACCTAATTTAA
1 GTGTTGTTTGTGATGACACTAAATTTGTTTTAG
2557 GTGTTGTTTGTGATGACACTAAATTTGTTTTAG
1 GTGTTGTTTGTGATGACACTAAATTTGTTTTAG
*
2590 GTGTTGTTTGTGATGAAAC-AAATTCTGTTTT
1 GTGTTGTTTGTGATGACACTAAATT-TGTTTT
2621 GGATGCTAAT
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
32 5 0.07
33 70 0.92
34 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (33 bp):
GTGTTGTTTGTGATGACACTAAATTTGTTTTAG
Found at i:4120 original size:21 final size:21
Alignment explanation
Indices: 4094--4135 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4084 TAAGGAAGAA
4094 GTTTCAAGCTCATCGGAGTTG
1 GTTTCAAGCTCATCGGAGTTG
4115 GTTTCAAGCTCATCGGAGTTG
1 GTTTCAAGCTCATCGGAGTTG
4136 CCTAAGATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (21 bp):
GTTTCAAGCTCATCGGAGTTG
Found at i:8828 original size:69 final size:69
Alignment explanation
Indices: 8676--9187 Score: 761
Period size: 69 Copynumber: 7.5 Consensus size: 69
8666 CCAAAGCAGA
* * *
8676 GGCTTTTCCACAAGCCAAACTCATTTCCATACGAGTCTG-TTAAGCCTTGGTTCCATCTAAG-CA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
*
8739 GCAAG
66 -CAGG
* * *
8744 CGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTTCATCCAAG-CA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
8808 GCAGG
66 -CAGG
8813 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAG--T--GCCTTGGTTCCATCCAAG-CA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
8873 GCAGG
66 -CAGG
* *
8878 GGCTTTTCCACAAGCCAAACTCGTTTCCATAGGAGTCAGTTCAAGCCTTGGTTCCATCCAAGCCA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
8943 CAGG
66 CAGG
* * *
8947 GGCTTTTCCACAAGGCAAACTTGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCTAAGCCA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
**
9012 CATA
66 CAGG
*
9016 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTTAGTTTAAGCCTTGGTTCCATCCAAGCCA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
9081 CAAGG
66 C-AGG
*
9086 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTTCATCCAAGCCA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
**
9151 CATA
66 CAGG
*
9155 GGCTTTTCCACAAGCCAAATTCGTTTCCATACG
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACG
9188 GTGCATTACC
Statistics
Matches: 407, Mismatches: 30, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
65 62 0.15
68 36 0.09
69 242 0.59
70 67 0.16
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (69 bp):
GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCAAGCCA
CAGG
Found at i:8914 original size:134 final size:136
Alignment explanation
Indices: 8676--9187 Score: 766
Period size: 134 Copynumber: 3.7 Consensus size: 136
8666 CCAAAGCAGA
* * *
8676 GGCTTTTCCACAAGCCAAACTCATTTCCATACGAGTCTGTTAAGCCTTGGTTCCATCTAAG-CAG
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTT-AGCCTTGGTTCCATCCAAGCCA-
*
8740 CA-AGCGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTTCATCCA
64 CATAG-GCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCATCCA
8804 AG-CAGCAGG
128 AGCCA-CAGG
8813 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAG-T-GCCTTGGTTCCATCCAAG-CAGC
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTAGCCTTGGTTCCATCCAAGCCA-C
** *
8875 AGGGGCTTTTCCACAAGCCAAACTCGTTTCCATAGGAGTCAGTTCAAGCCTTGGTTCCATCCAAG
65 ATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCATCCAAG
8940 CCACAGG
130 CCACAGG
* * *
8947 GGCTTTTCCACAAGGCAAACTTGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCTAAGCCA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAG-TT-AGCCTTGGTTCCATCCAAGCCA
* *
9012 CATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTTAGTTTAAGCCTTGGTTCCATCCAA
64 CATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCATCCAA
9077 GCCACAAGG
129 GCCAC-AGG
*
9086 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTTCATCCAAGCCA
1 GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAG-TT-AGCCTTGGTTCCATCCAAGCCA
*
9151 CATAGGCTTTTCCACAAGCCAAATTCGTTTCCATACG
64 CATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACG
9188 GTGCATTACC
Statistics
Matches: 348, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
134 122 0.35
135 3 0.01
136 2 0.01
137 37 0.11
138 82 0.24
139 102 0.29
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (136 bp):
GGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTAGCCTTGGTTCCATCCAAGCCACA
TAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCATCCAAGC
CACAGG
Found at i:9024 original size:203 final size:205
Alignment explanation
Indices: 8670--9187 Score: 755
Period size: 203 Copynumber: 2.5 Consensus size: 205
8660 TATTTTCCAA
* * * *
8670 AGCAGAGGCTTTTCCACAAGCCAAACTCATTTCCATACGAGTCTGTTAAGCCTTGGTTCCATCTA
1 AGCAGGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTAAGCCTTGGTTCCATCCA
* * *
8735 AG-CAGCAAGCGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAGCCTTGGTTTC
66 AGCCA-CAAGGGCTTTTCCACAAGCCAAACTTGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCC
*
8799 ATCCAAGCAGCAGGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAG-T-GCCTTGGTT
130 ATCCAAGCAGCAGAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTAGCCTTGGTT
8862 CCATCCAAG-C
195 CCATCCAAGCC
*
8872 AGCAGGGGCTTTTCCACAAGCCAAACTCGTTTCCATAGGAGTCAGTTCAAGCCTTGGTTCCATCC
1 AGCAGGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTT-AAGCCTTGGTTCCATCC
* * *
8937 AAGCCACAGGGGCTTTTCCACAAGGCAAACTTGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCC
65 AAGCCACAAGGGCTTTTCCACAAGCCAAACTTGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCC
* * *
9002 ATCTAAGCCA-CATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTTAGTTTAAGCCTTG
130 ATCCAAG-CAGCAGAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAG-TT-AGCCTTG
9066 GTTCCATCCAAGCC
192 GTTCCATCCAAGCC
*
9080 A-CAAGGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTTCATC
1 AGC-AGGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAG-TTAAGCCTTGGTTCCATC
9144 CAAGCCACATA-GGCTTTTCCACAAGCCAAA-TTCGTTTCCATACG
64 CAAGCCACA-AGGGCTTTTCCACAAGCCAAACTT-GTTTCCATACG
9188 GTGCATTACC
Statistics
Matches: 285, Mismatches: 19, Indels: 18
0.89 0.06 0.06
Matches are distributed among these distances:
202 43 0.15
203 118 0.41
204 4 0.01
205 1 0.00
207 21 0.07
208 96 0.34
209 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (205 bp):
AGCAGGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTAAGCCTTGGTTCCATCCA
AGCCACAAGGGCTTTTCCACAAGCCAAACTTGTTTCCATACGAGTCAGTTCAAGCCTTGGTTCCA
TCCAAGCAGCAGAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTAGCCTTGGTTC
CATCCAAGCC
Found at i:9360 original size:91 final size:88
Alignment explanation
Indices: 9200--9405 Score: 297
Period size: 91 Copynumber: 2.3 Consensus size: 88
9190 GCATTACCTT
* * *
9200 TCGGACTCGGTGAGCTCGATGCAGCAAATCTTCAAATAGATCAGGGTGATTCGGTGAATCAAGTT
1 TCGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAATAGATCAGGATGATTCGGTGAATCAAGTC
*
9265 AATGCGGTGCATCACCATTTTC-AAGA
66 AATGCGGTGCAT---C-TCTTCAAAGA
* *
9291 TTGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAATAGATCCGGATGATTCGGTGAATCAAGTC
1 TCGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAATAGATCAGGATGATTCGGTGAATCAAGTC
9356 AATGCGGTGCATCTCTTCAAAGA
66 AATGCGGTGCATCTCTTCAAAGA
*
9379 TCGGAATTCGGTGAGCTCGGTGCAGCA
1 TCGG-ACTCGGTGAGCTCGGTGCAGCA
9406 CGTTTTCAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
87 4 0.04
88 8 0.08
89 21 0.20
91 72 0.69
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (88 bp):
TCGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAATAGATCAGGATGATTCGGTGAATCAAGTC
AATGCGGTGCATCTCTTCAAAGA
Found at i:9431 original size:89 final size:89
Alignment explanation
Indices: 9200--9455 Score: 257
Period size: 91 Copynumber: 2.9 Consensus size: 89
9190 GCATTACCTT
* * * * *
9200 TCGGACTCGGTGAGCTCGATGCAGCAAATCTTCAAATAGATCAGGGTGATTCGGTGAATCAAGTT
1 TCGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAACAGATAAAGATGATTCGGTGAATCAAGTT
*
9265 AATGCGGTGCATCACCATTTTCAAGA
66 AATGCGGTGCAT--CCATCTTCAAGA
* * *** *
9291 TTGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAATAGATCCGGATGATTCGGTGAATCAAGTC
1 TCGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAACAGATAAAGATGATTCGGTGAATCAAGTT
9356 AATGCGGTGCAT-C-TCTTCAAAGA
66 AATGCGGTGCATCCATCTTC-AAGA
* ** * * * * *
9379 TCGGAATTCGGTGAGCTCGGTGCAGCACGTTTTCAAACAGTTAAAG-TCGATTCAGTAAATTAAG
1 TCGG-ACTCGGTGAGCTCGGTGCAGCAAATCTTCAAACAGATAAAGAT-GATTCGGTGAATCAAG
*
9443 TTACTGCGGTGCA
64 TTAATGCGGTGCA
9456 GTGTTTCTTC
Statistics
Matches: 141, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
87 4 0.03
88 9 0.06
89 56 0.40
91 72 0.51
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (89 bp):
TCGGACTCGGTGAGCTCGGTGCAGCAAATCTTCAAACAGATAAAGATGATTCGGTGAATCAAGTT
AATGCGGTGCATCCATCTTCAAGA
Found at i:19492 original size:82 final size:81
Alignment explanation
Indices: 19306--19747 Score: 550
Period size: 82 Copynumber: 5.4 Consensus size: 81
19296 TGAATAAGGA
* * * * * * *
19306 AAATT-TTTTCGAAATTCATTAGGAAATAAGAAATGAAACAAAGGGCTACTCCGAAATCG---CA
1 AAATTATTTTCAAAATTCATAAGGAAATAAAAAAAGAAACAAATGGCAACTCCAAAATCGCAACA
*
19367 AACAAAGCTAAACCCAA
66 AACAAAGCTAAA-CCAG
* * * * *
19384 AAAATAATTTCAAAATTCACAAGGAAATAAAAAAAGAAACAAATGGTAACTCCAGAATCGCAACA
1 AAATTATTTTCAAAATTCATAAGGAAATAAAAAAAGAAACAAATGGCAACTCCAAAATCGCAACA
19449 AACAAAGCTAAAGCCAG
66 AACAAAGCTAAA-CCAG
* ***
19466 AAATTATTTTCGAAATTCATAAGGAAATAAAAAAAGAAACAAATGGCAACTCCAAAATTATAACA
1 AAATTATTTTCAAAATTCATAAGGAAATAAAAAAAGAAACAAATGGCAACTCCAAAATCGCAACA
19531 AACAAAGCTAAACCAAG
66 AACAAAGCTAAACC-AG
* ** * *
19548 AAATTATTTTCAAAATTCATAAGGAAATAAGAAATCAAACAAATGGCAACTCCAAAATTGTAACA
1 AAATTATTTTCAAAATTCATAAGGAAATAAAAAAAGAAACAAATGGCAACTCCAAAATCGCAACA
19613 AACAAAGCTAAACCAAG
66 AACAAAGCTAAACC-AG
* **
19630 AAATTATTTTCAAAATTCATAAGGAAATAAGAAATCAAACAAATGGCAACTCCAAAATCGCAACA
1 AAATTATTTTCAAAATTCATAAGGAAATAAAAAAAGAAACAAATGGCAACTCCAAAATCGCAACA
* *
19695 AAGAAAGCTAAGCCCAG
66 AACAAAGCTAA-ACCAG
*
19712 AAATTATTTTCGAAATTCATAAGGAAATAATAAAAA
1 AAATTATTTTCAAAATTCATAAGGAAATAA-AAAAA
19748 CAAATGATGG
Statistics
Matches: 322, Mismatches: 35, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
78 4 0.01
79 43 0.13
81 2 0.01
82 268 0.83
83 5 0.02
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.20
Consensus pattern (81 bp):
AAATTATTTTCAAAATTCATAAGGAAATAAAAAAAGAAACAAATGGCAACTCCAAAATCGCAACA
AACAAAGCTAAACCAG
Found at i:21387 original size:2 final size:2
Alignment explanation
Indices: 21380--21415 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
21370 TTGTTTGTGA
*
21380 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21416 TGTGTAGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25396 original size:35 final size:35
Alignment explanation
Indices: 25350--25421 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
25340 TAAAGTCTCC
25350 AGGCACAAATCAAGACTTGTGACTAGACTGTACAT
1 AGGCACAAATCAAGACTTGTGACTAGACTGTACAT
*
25385 AGGCACAAATCAAGACTTGTGACTGGACTGTACAT
1 AGGCACAAATCAAGACTTGTGACTAGACTGTACAT
25420 AG
1 AG
25422 AACTGGCAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (35 bp):
AGGCACAAATCAAGACTTGTGACTAGACTGTACAT
Found at i:25559 original size:15 final size:15
Alignment explanation
Indices: 25539--25567 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25529 TCGGGTTGGG
25539 TTGGGTTCAGGTCAT
1 TTGGGTTCAGGTCAT
25554 TTGGGTTCAGGTCA
1 TTGGGTTCAGGTCA
25568 ATTCTGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (15 bp):
TTGGGTTCAGGTCAT
Found at i:26676 original size:27 final size:26
Alignment explanation
Indices: 26627--26687 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
26617 AATCAGAAAT
* *
26627 TTATTTT-TTAAAAAATATAAAATTG
1 TTATTTTCTTAAAAAAAATAAAATAG
*
26652 TTATTTTCTTAAAAAAAATTGAAATAG
1 TTATTTTCTTAAAAAAAA-TAAAATAG
*
26679 TTTTTTTCT
1 TTATTTTCT
26688 CCTACAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 7 0.23
26 9 0.30
27 14 0.47
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (26 bp):
TTATTTTCTTAAAAAAAATAAAATAG
Found at i:27572 original size:131 final size:131
Alignment explanation
Indices: 27362--27623 Score: 479
Period size: 131 Copynumber: 2.0 Consensus size: 131
27352 GTCCATGTTT
27362 TTGTCCCTGTTTTGATTTTAATCGGAGGCAGAGGAGGAAGGCACGATTCGTTATTGGAAAGATCT
1 TTGTCCCTGTTTTGATTTTAATCGGAGGCAGAGGAGGAAGGCACGATTCGTTATTGGAAAGATCT
* * *
27427 GCTTTCGTGTACCTAATTATAGTTACCATTGTTTTAATTAGTTTGTGTTTTGTCTACAGATTTTA
66 GCTTCCGTGTACCTAATTATAGTTACCATTGTTTTAATTAATTTGTGTTTTGTCTACAGACTTTA
27492 A
131 A
*
27493 TTGTCCCTGTTTTGATTTTAATCGGAGGCAGAGGAGGAAGGCACGATTCGTTATTGGAAAGTTCT
1 TTGTCCCTGTTTTGATTTTAATCGGAGGCAGAGGAGGAAGGCACGATTCGTTATTGGAAAGATCT
*
27558 GCTTCCGTGTACCTAGTTATAGTTACCATTGTTTTAATTAATTTGTGTTTTGTCTACAGACTTTA
66 GCTTCCGTGTACCTAATTATAGTTACCATTGTTTTAATTAATTTGTGTTTTGTCTACAGACTTTA
27623 A
131 A
27624 GTAATGGAAG
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 126 1.00
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (131 bp):
TTGTCCCTGTTTTGATTTTAATCGGAGGCAGAGGAGGAAGGCACGATTCGTTATTGGAAAGATCT
GCTTCCGTGTACCTAATTATAGTTACCATTGTTTTAATTAATTTGTGTTTTGTCTACAGACTTTA
A
Done.