Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01021456.1 Corchorus olitorius cultivar O-4 contig21489, 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: 16106
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Found at i:1108 original size:41 final size:41
Alignment explanation
Indices: 1010--1625 Score: 501
Period size: 41 Copynumber: 14.8 Consensus size: 41
1000 TGCTTTTCCT
* *
1010 AATTTGCCCTTCCTCACCGGAAGGTGTTGTTTAGGTCGGCTTTACCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTG-TTA-G-C--ATTTA-CC
* *
1057 GATTTGCCCTTCCTCATCGGAAGGTGTTGTCAGCATTTACC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTAGCATTTACC
* * *
1098 AATTTGCCCTTCCTCGTCGGAAGGTATTGTCAGCATTTACC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTAGCATTTACC
* * * *
1139 AATTTGCCCTTCCTCATCGGGAGGTGTTATT-GCCTTTGTCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTAGCATTT-ACC
* ***
1180 AGTTTG-TAATCCTCATCGGAAGGTGTT-TTCAGCATTTACC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTT-AGCATTTACC
* * * *
1220 GATTTGCCCTTCCTCATCGGGAGGTGTTGTT-GCCTTTGTCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTAGCATTT-ACC
* * * *
1261 AATTTGCCCTTCCTTATCGGGAGGTGTTGTT-GCCTTTGCCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTAGCATTT-ACC
*
1302 AATTTGCCCTTTCTCATCGGAAGGTGTTGTTA--AGTTTACC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTAGCA-TTTACC
* * * * *
1342 -AGTTGCCCTTCCCCACCGGAAGATGTTGTTTA-CA-TTCCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTG-TTAGCATTTACC
* * * *
1381 AGTTTGGCCTTCCTCATTGGAAGGTGTTGTTTA-CA-TTCCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTG-TTAGCATTTACC
* *
1421 AGTTTGTCCC-TCCTCATTGGAAGGTGTTGTTTAAGTCTACTTTACCC
1 AATTTG-CCCTTCCTCATCGGAAGGTGTTG-TT-AG-C-A-TTTA-CC
* *
1468 AATTTGCCCTTCCCCACCGGAAGGTGTTGTCTA--ATTTACC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGT-TAGCATTTACC
1508 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTACCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTG-TT-AG-C-A-TTTA-CC
*
1555 AATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAG-A-TTCCC
1 AATTTGCCCTTCCTCATCGGAAGGTGTTG-TTAGCATTTACC
* *
1595 AGTTTGCCCTTCCTCGTCGGAAGGTGTTGTT
1 AATTTGCCCTTCCTCATCGGAAGGTGTTGTT
1626 TAAGTCTGCT
Statistics
Matches: 479, Mismatches: 61, Indels: 66
0.79 0.10 0.11
Matches are distributed among these distances:
39 31 0.06
40 157 0.33
41 178 0.37
42 7 0.01
43 2 0.00
44 2 0.00
45 2 0.00
46 15 0.03
47 85 0.18
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (41 bp):
AATTTGCCCTTCCTCATCGGAAGGTGTTGTTAGCATTTACC
Found at i:1219 original size:81 final size:82
Alignment explanation
Indices: 1058--1329 Score: 291
Period size: 81 Copynumber: 3.3 Consensus size: 82
1048 GCTTTACCCG
* * * * * ** *
1058 ATTTGCCCTTCCTCATCGGAAGGTGTTGTCAGCATTT-ACCAATTTGCCCTTCCTCGTCGGAAGG
1 ATTTGCCCTTCCTCATCGGGAGGTGTTAT-TGCCTTTGTCCAATTTGCCAATCCTCATCGGAAGG
* *
1122 TATTGTCAGCATTTACCA
65 TGTTTTCAGCATTTACCA
* *
1140 ATTTGCCCTTCCTCATCGGGAGGTGTTATTGCCTTTGTCCAGTTTG-TAATCCTCATCGGAAGGT
1 ATTTGCCCTTCCTCATCGGGAGGTGTTATTGCCTTTGTCCAATTTGCCAATCCTCATCGGAAGGT
*
1204 GTTTTCAGCATTTACCG
66 GTTTTCAGCATTTACCA
* ** * *
1221 ATTTGCCCTTCCTCATCGGGAGGTGTTGTTGCCTTTGTCCAATTTGCCCTTCCTTATCGGGAGGT
1 ATTTGCCCTTCCTCATCGGGAGGTGTTATTGCCTTTGTCCAATTTGCCAATCCTCATCGGAAGGT
* *
1286 GTTGTT--GCCTTTGCCCA
66 GTT-TTCAGCATTT-ACCA
* *
1303 ATTTGCCCTTTCTCATCGGAAGGTGTT
1 ATTTGCCCTTCCTCATCGGGAGGTGTT
1330 GTTAAGTTTA
Statistics
Matches: 161, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
81 82 0.51
82 77 0.48
83 2 0.01
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (82 bp):
ATTTGCCCTTCCTCATCGGGAGGTGTTATTGCCTTTGTCCAATTTGCCAATCCTCATCGGAAGGT
GTTTTCAGCATTTACCA
Found at i:1234 original size:122 final size:121
Alignment explanation
Indices: 1067--1538 Score: 452
Period size: 122 Copynumber: 3.8 Consensus size: 121
1057 GATTTGCCCT
* * * ** *
1067 TCCTCATCGGAAGGTGTTGTCAGCATTTACCAATTTGCCCTTCCTCGTCGGAAGGTATTGTCAGC
1 TCCTCATCGGAAGGTGTTTTAAGCATTTACCAATTTGCCCTTCCCCACCGGAAGGTGTTGTCA-C
* * * *
1132 ATTTACCAATTTGCCCTTCCTCATCGGGAGGTGTTATTGCCTTTGTCCAGTTTGTAA
65 ATTTACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTGCCTTTGCCCAGTTTGTCA
* * * * * ** *
1189 TCCTCATCGGAAGGTGTTTTCAGCATTTACCGATTTGCCCTTCCTCATCGGGAGGTGTTGTTGCC
1 TCCTCATCGGAAGGTGTTTTAAGCATTTACCAATTTGCCCTTCCCCACCGGAAGGTGTTGTCACA
* * * * * *
1254 TTTGTCCAATTTGCCCTTCCTTATCGGGAGGTGTTGTTGCCTTTGCCCAATTTGCCCT
66 TTT-ACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTGCCTTTGCCCAGTTTG-TCA
* * * *
1312 TTCTCATCGGAAGGTGTTGTTAAG--TTTACC-AGTTGCCCTTCCCCACCGGAAGATGTTGTTTA
1 TCCTCATCGGAAGGTGTT-TTAAGCATTTACCAATTTGCCCTTCCCCACCGGAAGGTGTTG-TCA
* * * * ** * *
1374 CA-TTCCCAGTTTGGCCTTCCTCATTGGAAGGTGTTGTTTACATT-CCCAGTTTGTCCC
64 CATTTACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTGCCTTTGCCCAGTTTGT-CA
*
1431 TCCTCATTGGAAGGTGTTGTTTAAGTCTACTTTACCCAATTTGCCCTTCCCCACCGGAAGGTGTT
1 TCCTCATCGGAAGGTG-T-TTTAAG-C-A-TTTA-CCAATTTGCCCTTCCCCACCGGAAGGTGTT
1496 GTCTA-ATTTACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTT
60 GTC-ACATTTACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTT
1539 TAAGTCTACT
Statistics
Matches: 288, Mismatches: 46, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
119 23 0.08
120 37 0.13
121 30 0.10
122 110 0.38
123 17 0.06
124 4 0.01
125 4 0.01
126 4 0.01
127 59 0.20
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.37
Consensus pattern (121 bp):
TCCTCATCGGAAGGTGTTTTAAGCATTTACCAATTTGCCCTTCCCCACCGGAAGGTGTTGTCACA
TTTACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTGCCTTTGCCCAGTTTGTCA
Found at i:1493 original size:47 final size:47
Alignment explanation
Indices: 1418--1654 Score: 279
Period size: 47 Copynumber: 5.3 Consensus size: 47
1408 TGTTTACATT
* *
1418 CCCAGTTTGTCCC-TCCTCATTGGAAGGTGTTGTTTAAGTCTACTTTA
1 CCCAATTTG-CCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA
* * *
1465 CCCAATTTGCCCTTCCCCACCGGAA-G-G-TG-TT--GTCTAATTTA
1 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA
1506 -CCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA
1 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA
1552 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTT-AG---A--TT-
1 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA
* * * *
1592 CCCAGTTTGCCCTTCCTCGTCGGAAGGTGTTGTTTAAGTCTGCTCTA
1 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA
1639 CCCAATTTGCCCTTCC
1 CCCAATTTGCCCTTCC
1655 CTACCGAAAG
Statistics
Matches: 162, Mismatches: 13, Indels: 30
0.79 0.06 0.15
Matches are distributed among these distances:
40 55 0.34
41 14 0.09
42 1 0.01
43 5 0.03
44 4 0.02
45 1 0.01
46 16 0.10
47 66 0.41
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.37
Consensus pattern (47 bp):
CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA
Found at i:1534 original size:87 final size:87
Alignment explanation
Indices: 1399--1713 Score: 402
Period size: 87 Copynumber: 3.6 Consensus size: 87
1389 CTTCCTCATT
* *
1399 GGAAGGTGTTGTTTACATTCCCAGTTTGTCCC-TCCTCATTGGAAGGTGTTGTTTAAGTCTACTT
1 GGAAGGTGTTGTCTACATTCCCAGTTTG-CCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTT
1463 TACCCAATTTGCCCTTCCCCACC
65 TACCCAATTTGCCCTTCCCCACC
* *
1486 GGAAGGTGTTGTCTA-ATTTACCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTT
1 GGAAGGTGTTGTCTACA-TTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTT
* *
1550 TACCCAATTTGCCCTTCCTCATC
65 TACCCAATTTGCCCTTCCCCACC
* * * * *
1573 GGAAGGTGTTGTTTAGATTCCCAGTTTGCCCTTCCTCGTCGGAAGGTGTTGTTTAAGTCTGCTCT
1 GGAAGGTGTTGTCTACATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTT
*
1638 ACCCAATTTGCCCTTCCCTACC
66 ACCCAATTTGCCCTTCCCCACC
* * * ** * * *
1660 GAAAGTTGTTGTCTAAATTCCTGGCTTGCCCTTCCT-AACTGGAAGGCGTTGTTT
1 GGAAGGTGTTGTCTACATTCCCAGTTTGCCCTTCCTCATC-GGAAGGTGTTGTTT
1714 GAATTCCCAG
Statistics
Matches: 199, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
86 5 0.03
87 193 0.97
88 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (87 bp):
GGAAGGTGTTGTCTACATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTT
ACCCAATTTGCCCTTCCCCACC
Found at i:1691 original size:174 final size:174
Alignment explanation
Indices: 1378--1713 Score: 471
Period size: 174 Copynumber: 1.9 Consensus size: 174
1368 TGTTTACATT
* * * *
1378 CCCAGTTTGGCCTTCCTCATTGGAAGGTGTTGTTTACATTCCCAGTTTGTCCCTCCTCATTGGAA
1 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTACATTCCCAGTTTGTCCCTCCTCATCGGAA
* * *
1443 GGTGTTGTTTAAGTCTACTTTACCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTCTAATTTACC
66 GGTGTTGTTTAAGTCTACTCTACCCAATTTGCCCTTCCCCACCGAAAGGTGTTGTCTAAATTACC
* * *
1508 AATTTGCCCTTCCTCA-TCGGAAGGTGTTGTTTAAGTCTACTTTA
131 AACTTGCCCTTCCTAACT-GGAAGGCGTTGTTTAAGTCTACTTTA
* *
1552 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAGATTCCCAGTTTG-CCCTTCCTCGTCGGA
1 CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTACATTCCCAGTTTGTCCC-TCCTCATCGGA
* * *
1616 AGGTGTTGTTTAAGTCTGCTCTACCCAATTTGCCCTTCCCTACCGAAAGTTGTTGTCTAAATT-C
65 AGGTGTTGTTTAAGTCTACTCTACCCAATTTGCCCTTCCCCACCGAAAGGTGTTGTCTAAATTAC
**
1680 CTGGCTTGCCCTTCCTAACTGGAAGGCGTTGTTT
130 C-AACTTGCCCTTCCTAACTGGAAGGCGTTGTTT
1714 GAATTCCCAG
Statistics
Matches: 142, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
173 5 0.04
174 136 0.96
175 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (174 bp):
CCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTACATTCCCAGTTTGTCCCTCCTCATCGGAA
GGTGTTGTTTAAGTCTACTCTACCCAATTTGCCCTTCCCCACCGAAAGGTGTTGTCTAAATTACC
AACTTGCCCTTCCTAACTGGAAGGCGTTGTTTAAGTCTACTTTA
Found at i:4465 original size:35 final size:35
Alignment explanation
Indices: 4425--4499 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
4415 AGTTCGTTTA
*
4425 TGTTCACGAACAAACTCGTTTATTATTCATTTAAG
1 TGTTCACGAACAAACTCGTTTATTATTCATTAAAG
** *
4460 TGTTCACGAACAGGCTCGTTTATTGTTCATTAAAG
1 TGTTCACGAACAAACTCGTTTATTATTCATTAAAG
4495 TGTTC
1 TGTTC
4500 GTTTATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (35 bp):
TGTTCACGAACAAACTCGTTTATTATTCATTAAAG
Found at i:7250 original size:17 final size:18
Alignment explanation
Indices: 7225--7266 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
7215 ACTCAACGTC
*
7225 CCGAACCCGA-CTCGAGA
1 CCGAGCCCGATCTCGAGA
*
7242 CCGAGCCCGATCTTGAGA
1 CCGAGCCCGATCTCGAGA
7260 -CGAGCCC
1 CCGAGCCC
7267 AAACCCGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.24, C:0.40, G:0.26, T:0.10
Consensus pattern (18 bp):
CCGAGCCCGATCTCGAGA
Found at i:7890 original size:176 final size:173
Alignment explanation
Indices: 7607--7931 Score: 429
Period size: 173 Copynumber: 1.9 Consensus size: 173
7597 GTAATTTAAG
* * * *
7607 TGTCTATTAAAAGATTGTTTCATGATCTATAATTTTCATGAAGGACTCGAAAACTAAATTAATAT
1 TGTCTATTAAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTCGAAAACTAAATTAATAG
* ** * ** *
7672 TTCAAGTATCAAAAATGCTTCCGAAATTTTTTTGTTTCAGTTAACGGGAATAGACGGTCCACTTA
66 TTCAAGTATAAAAAATGCTTCAAAAAATTAGTTGTTTCAGTTAACGGAAATAGACGGTCCACTTA
*
7737 ATATTATATAACTTT-TGCTACAGATGTCTGATTGAGATTCAAT
131 ATATTACATAA-TTTGTGCTACAGATGTCTGATTGAGATTCAAT
* * * * *
7780 TGTCTCTTGAAAGGTTGTTCCATGATTTACAACTTTCATGGAGGACTCGAAAACTAAATTTAAT-
1 TGTCTATTAAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTCGAAAACTAAA-TTAATA
*
7844 GTTCAAGGTATAAAAAAATGCTTCAAAAGAATTAGTTGTTTCAGTTAACGGAAATAGACGGTCTA
65 GTTCAA-GTAT-AAAAAATGCTTCAAAA-AATTAGTTGTTTCAGTTAACGGAAATAGACGGTCCA
7909 CTTAATATTACATAATTTGTGCT
127 CTTAATATTACATAATTTGTGCT
7932 TATGGTGGAA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
173 55 0.43
174 9 0.07
175 16 0.12
176 49 0.38
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (173 bp):
TGTCTATTAAAAGATTGTTCCATGATCTACAACTTTCATGAAGGACTCGAAAACTAAATTAATAG
TTCAAGTATAAAAAATGCTTCAAAAAATTAGTTGTTTCAGTTAACGGAAATAGACGGTCCACTTA
ATATTACATAATTTGTGCTACAGATGTCTGATTGAGATTCAAT
Found at i:10044 original size:14 final size:14
Alignment explanation
Indices: 10025--10052 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10015 ACAATACTGA
10025 AATCTTGTTACAAT
1 AATCTTGTTACAAT
10039 AATCTTGTTACAAT
1 AATCTTGTTACAAT
10053 GATCAGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
AATCTTGTTACAAT
Found at i:10840 original size:32 final size:32
Alignment explanation
Indices: 10799--10869 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
10789 AATTGATGTA
10799 AAGTTAATAAAAAAAAGAAGG-GTAAATTAGAG
1 AAGTTAATAAAAAAAA-AAGGAGTAAATTAGAG
* *
10831 AAGTTAATAAAAAATATAGGAGTAAATTAGAG
1 AAGTTAATAAAAAAAAAAGGAGTAAATTAGAG
*
10863 AAATTAA
1 AAGTTAA
10870 GTGTGAGTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.23
Consensus pattern (32 bp):
AAGTTAATAAAAAAAAAAGGAGTAAATTAGAG
Found at i:11119 original size:14 final size:14
Alignment explanation
Indices: 11100--11127 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11090 TGAAGTTCAC
11100 ATTTATAATTGGTG
1 ATTTATAATTGGTG
11114 ATTTATAATTGGTG
1 ATTTATAATTGGTG
11128 GACCTTCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
ATTTATAATTGGTG
Found at i:11293 original size:28 final size:25
Alignment explanation
Indices: 11265--11313 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
11255 ATTTCTACTA
*
11265 CTACTAAATTATGATTGATAATTGT
1 CTACAAAATTATGATTGATAATTGT
*
11290 CTACAAAATTATGATTGGTAATTG
1 CTACAAAATTATGATTGATAATTG
11314 CTGTGTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (25 bp):
CTACAAAATTATGATTGATAATTGT
Found at i:15477 original size:45 final size:47
Alignment explanation
Indices: 15413--15541 Score: 208
Period size: 45 Copynumber: 2.8 Consensus size: 47
15403 AGCAACAATT
15413 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGA-T-TAG
1 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTATAG
* *
15458 AATATTAGATTTATTTTGATGAATTACCTAGAGATGGAGGAGTACTAT
1 AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTA-TAG
*
15506 AATATTAGCTTTATTTTGATGAATTACATAGAGATG
1 AATATTAGCTTTATTTTGATGAATTACCTAGAGATG
15542 AAGTAGAATT
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
45 40 0.52
46 1 0.01
48 36 0.47
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (47 bp):
AATATTAGCTTTATTTTGATGAATTACCTAGAGATGGAGGAGTATAG
Found at i:15745 original size:114 final size:114
Alignment explanation
Indices: 15545--15774 Score: 451
Period size: 114 Copynumber: 2.0 Consensus size: 114
15535 AGAGATGAAG
15545 TAGAATTTAGGTAATACACTTTTAGAATGAAAGAGAAGCCATGTGTTTTGCTTTATATATGCGAA
1 TAGAATTTAGGTAATACACTTTTAGAATGAAAGAGAAGCCATGTGTTTTGCTTTATATATGCGAA
*
15610 TTTTCGATGTATGAGTTTCTCCTAACTGATTAAATTACAGCTAATGCAA
66 TTTTCGATGTATGAGTTTCTCCTAACTGATTAAATTACAACTAATGCAA
15659 TAGAATTTAGGTAATACACTTTTAGAATGAAAGAGAAGCCATGTGTTTTGCTTTATATATGCGAA
1 TAGAATTTAGGTAATACACTTTTAGAATGAAAGAGAAGCCATGTGTTTTGCTTTATATATGCGAA
15724 TTTTCGATGTATGAGTTTCTCCTAACTGATTAAATTACAACTAATGCAA
66 TTTTCGATGTATGAGTTTCTCCTAACTGATTAAATTACAACTAATGCAA
15773 TA
1 TA
15775 TCTGTTTACT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (114 bp):
TAGAATTTAGGTAATACACTTTTAGAATGAAAGAGAAGCCATGTGTTTTGCTTTATATATGCGAA
TTTTCGATGTATGAGTTTCTCCTAACTGATTAAATTACAACTAATGCAA
Done.