Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016368.1 Corchorus olitorius cultivar O-4 contig16401, 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: 17442
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Found at i:1623 original size:35 final size:35
Alignment explanation
Indices: 1584--1859 Score: 340
Period size: 35 Copynumber: 7.8 Consensus size: 35
1574 TATCTTTTTA
* *
1584 TGACTTACTTAATTACCCAGAATTAAGTTGATTAC
1 TGACTTACTTAATTACCCTGAATTAAGTTGATTAT
* *
1619 TGACTTACTTAATTA-CCTAGAATTACGTTAATTAT
1 TGACTTACTTAATTACCCT-GAATTAAGTTGATTAT
*
1654 TGACTTGCTTAATTACCCTGAATTAAGTT-ATTTAT
1 TGACTTACTTAATTACCCTGAATTAAGTTGA-TTAT
* *
1689 TGACTTACTTAATTACCCTGAATTAAGTTGACTAC
1 TGACTTACTTAATTACCCTGAATTAAGTTGATTAT
** * * *
1724 CAACCTACTTTTAATTATCCTAAATTAAGTTGATTAT
1 TGACTTAC--TTAATTACCCTGAATTAAGTTGATTAT
* * * *
1761 TGACCTACTTAATTACCTTGAATTAAGTTGACTAC
1 TGACTTACTTAATTACCCTGAATTAAGTTGATTAT
*
1796 CGACTTACTTAATTACCCTGAATTAAGTTGATTAT
1 TGACTTACTTAATTACCCTGAATTAAGTTGATTAT
*
1831 TGACTTACTTAATTACCCCGAATTAAGTT
1 TGACTTACTTAATTACCCTGAATTAAGTT
1860 ACTTAGGGGT
Statistics
Matches: 205, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.01
35 169 0.82
36 4 0.02
37 29 0.14
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (35 bp):
TGACTTACTTAATTACCCTGAATTAAGTTGATTAT
Found at i:1651 original size:19 final size:18
Alignment explanation
Indices: 1588--1652 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
1578 TTTTTATGAC
*
1588 TTACTTAATTACCCAGAA
1 TTACTTAATTACCTAGAA
* * *
1606 TTAAGTTGATTA-CT-GAC
1 TT-ACTTAATTACCTAGAA
1623 TTACTTAATTACCTAGAA
1 TTACTTAATTACCTAGAA
1641 TTACGTTAATTA
1 TTAC-TTAATTA
1653 TTGACTTGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
16 7 0.19
17 6 0.17
18 9 0.25
19 14 0.39
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (18 bp):
TTACTTAATTACCTAGAA
Found at i:1756 original size:142 final size:142
Alignment explanation
Indices: 1604--1859 Score: 406
Period size: 142 Copynumber: 1.8 Consensus size: 142
1594 AATTACCCAG
* * * ** *
1604 AATTAAGTTGATTACTGACTTACTTAATTACCTAGAATTACGTTAATTATTGACTTGCTTAATTA
1 AATTAAGTTGATTACTGACCTACTTAATTACCTAGAATTAAGTTAACTACCGACTTACTTAATTA
*
1669 CCCTGAATTAAGTT-ATTTATTGACTTACTTAATTACCCTGAATTAAGTTGACTACCAACCTACT
66 CCCTGAATTAAGTTGA-TTATTGACTTACTTAATTACCCCGAATTAAGTTGACTACCAACCTACT
1733 TTTAATTATCCTA
130 TTTAATTATCCTA
* * *
1746 AATTAAGTTGATTATTGACCTACTTAATTACCTTGAATTAAGTTGACTACCGACTTACTTAATTA
1 AATTAAGTTGATTACTGACCTACTTAATTACCTAGAATTAAGTTAACTACCGACTTACTTAATTA
1811 CCCTGAATTAAGTTGATTATTGACTTACTTAATTACCCCGAATTAAGTT
66 CCCTGAATTAAGTTGATTATTGACTTACTTAATTACCCCGAATTAAGTT
1860 ACTTAGGGGT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
142 102 0.99
143 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (142 bp):
AATTAAGTTGATTACTGACCTACTTAATTACCTAGAATTAAGTTAACTACCGACTTACTTAATTA
CCCTGAATTAAGTTGATTATTGACTTACTTAATTACCCCGAATTAAGTTGACTACCAACCTACTT
TTAATTATCCTA
Found at i:1783 original size:107 final size:105
Alignment explanation
Indices: 1580--1860 Score: 325
Period size: 107 Copynumber: 2.7 Consensus size: 105
1570 TTATTATCTT
* * ** * *
1580 TTTATGACTTACTTAATTACCCAGAATTAAGTTGATTACTGACTTACTTAATTACCTAGAATTAC
1 TTTATGACTTACTTAATTACCCTGAATTAAGTTGACTACCAACCTACTTAATTACCTAGAATTAA
* *
1645 GTTAATTATTGACTTGCTTAATTACCCTGAATTAAGTT-A
66 GTTAATTATTGACCTACTTAATTACCCTGAATTAAGTTGA
1684 TTTATTGACTTACTTAATTACCCTGAATTAAGTTGACTACCAACCTACTTTTAATTATCCTA-AA
1 TTTA-TGACTTACTTAATTACCCTGAATTAAGTTGACTACCAACCTAC--TTAATTA-CCTAGAA
* *
1748 TTAAGTTGATTATTGACCTACTTAATTACCTTGAATTAAGTTGA
62 TTAAGTTAATTATTGACCTACTTAATTACCCTGAATTAAGTTGA
* * * *** * **
1792 -CTACCGACTTACTTAATTACCCTGAATTAAGTTGATTATTGACTTACTTAATTACCCCGAATTA
1 TTTA-TGACTTACTTAATTACCCTGAATTAAGTTGACTACCAACCTACTTAATTACCTAGAATTA
1856 AGTTA
65 AGTTA
1861 CTTAGGGGTC
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
104 6 0.04
105 54 0.36
107 85 0.57
108 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (105 bp):
TTTATGACTTACTTAATTACCCTGAATTAAGTTGACTACCAACCTACTTAATTACCTAGAATTAA
GTTAATTATTGACCTACTTAATTACCCTGAATTAAGTTGA
Found at i:2332 original size:38 final size:37
Alignment explanation
Indices: 2248--2355 Score: 150
Period size: 38 Copynumber: 2.9 Consensus size: 37
2238 TTATACTGAC
*
2248 TTACTTAATTACCCTGAATTAAGTT-AT-TTACTAAT
1 TTACTTAATTACCCTGAATTAAGTTGTTATTACTAAT
*
2283 TTAATTAATTACCCTGAATTAAGTTGCTTATTAC-ATAT
1 TTACTTAATTACCCTGAATTAAGTTG-TTATTACTA-AT
2321 TTACTTAATTACCCTGAATTAAGTTGTTTATTACT
1 TTACTTAATTACCCTGAATTAAGTTG-TTATTACT
2356 GATTCGCCTT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
35 24 0.38
37 2 0.03
38 38 0.59
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (37 bp):
TTACTTAATTACCCTGAATTAAGTTGTTATTACTAAT
Found at i:2887 original size:52 final size:51
Alignment explanation
Indices: 2822--2963 Score: 166
Period size: 55 Copynumber: 2.7 Consensus size: 51
2812 TTTTGCTCTT
*
2822 AACTTTCACAAGATCTAATCTTTTTTAAACTAAAGATCACATTTTTATTTC-A
1 AACTTT-ACAAGATTTAATCTTTTTTAAACTAAAGATCACA-TTTTATTTCGA
*
2874 AACTTTACGAAGATTTAATCTTTCTTAACTAAACTAAAGATCATATTTTATTTCGA
1 AACTTTAC-AAGATTTAATCTTT-TT---TAAACTAAAGATCACATTTTATTTCGA
2930 AA-TTTACCAAGATTTAAT-TTTTTT-AACTAAAGAT
1 AACTTTA-CAAGATTTAATCTTTTTTAAACTAAAGAT
2964 ATATTTTGGA
Statistics
Matches: 81, Mismatches: 2, Indels: 17
0.81 0.02 0.17
Matches are distributed among these distances:
49 10 0.12
50 1 0.01
51 2 0.02
52 19 0.23
53 4 0.05
54 3 0.04
55 23 0.28
56 19 0.23
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (51 bp):
AACTTTACAAGATTTAATCTTTTTTAAACTAAAGATCACATTTTATTTCGA
Found at i:2942 original size:55 final size:55
Alignment explanation
Indices: 2847--2960 Score: 169
Period size: 55 Copynumber: 2.1 Consensus size: 55
2837 TAATCTTTTT
*
2847 TAAACTAAAGATCACATTTTTATTTCAAACTTTACGAAGATTTAATCTTTCTTAAC
1 TAAACTAAAGATCACATTTTTATTTCAAACTTTACCAAGATTTAAT-TTTCTTAAC
* *
2903 TAAACTAAAGATCATA-TTTTATTTCGAAA-TTTACCAAGATTTAATTTTTTTAAC
1 TAAACTAAAGATCACATTTTTATTTC-AAACTTTACCAAGATTTAATTTTCTTAAC
2957 TAAA
1 TAAA
2961 GATATATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
54 12 0.22
55 24 0.44
56 18 0.33
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (55 bp):
TAAACTAAAGATCACATTTTTATTTCAAACTTTACCAAGATTTAATTTTCTTAAC
Found at i:6176 original size:25 final size:24
Alignment explanation
Indices: 6136--6184 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
6126 AGTTTAGTTT
6136 GTAATTTTTTATTTGTGTATTTAG
1 GTAATTTTTTATTTGTGTATTTAG
6160 GTAATTTGTTTATTTGTGTATTTAG
1 GTAATTT-TTTATTTGTGTATTTAG
6185 TAGTTAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.61
Consensus pattern (24 bp):
GTAATTTTTTATTTGTGTATTTAG
Found at i:6358 original size:21 final size:21
Alignment explanation
Indices: 6334--6375 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6324 AAGTTTCACC
6334 CAATACCAAAAACTAAAACTT
1 CAATACCAAAAACTAAAACTT
*
6355 CAATCCCAAAAACTAAAACTT
1 CAATACCAAAAACTAAAACTT
6376 GACACGGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (21 bp):
CAATACCAAAAACTAAAACTT
Found at i:12438 original size:6 final size:6
Alignment explanation
Indices: 12427--12492 Score: 75
Period size: 6 Copynumber: 11.5 Consensus size: 6
12417 TATCTTACTG
* *
12427 TATTAC TATTAC TA-T-- TATTAC TATTAC TATTAC TATTAC TACTAT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
* *
12472 TACTAC TATTAC TACTAC TAT
1 TATTAC TATTAC TATTAC TAT
12493 ATAAAATCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
3 2 0.04
4 1 0.02
5 1 0.02
6 47 0.92
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (6 bp):
TATTAC
Found at i:12447 original size:9 final size:9
Alignment explanation
Indices: 12430--12488 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
12420 CTTACTGTAT
12430 TACTATTAC
1 TACTATTAC
*
12439 TATTATTAC
1 TACTATTAC
* * *
12448 TATTACTAT
1 TACTATTAC
12457 TACTATTAC
1 TACTATTAC
12466 TACTATTAC
1 TACTATTAC
12475 TACTATTAC
1 TACTATTAC
12484 TACTA
1 TACTA
12489 CTATATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (9 bp):
TACTATTAC
Found at i:12447 original size:15 final size:15
Alignment explanation
Indices: 12430--12491 Score: 88
Period size: 15 Copynumber: 4.1 Consensus size: 15
12420 CTTACTGTAT
*
12430 TACTATTACTATTAT
1 TACTATTACTATTAC
12445 TACTATTACTATTAC
1 TACTATTACTATTAC
* *
12460 TATTACTACTATTAC
1 TACTATTACTATTAC
*
12475 TACTATTACTACTAC
1 TACTATTACTATTAC
12490 TA
1 TA
12492 TATAAAATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (15 bp):
TACTATTACTATTAC
Found at i:12452 original size:21 final size:21
Alignment explanation
Indices: 12427--12492 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
12417 TATCTTACTG
*
12427 TATTACTATTACTATTATTAC
1 TATTACTATTACTATTACTAC
12448 TATTACTATTACTATTACTAC
1 TATTACTATTACTATTACTAC
* * *
12469 TATTACTACTATTACTACTAC
1 TATTACTATTACTATTACTAC
12490 TAT
1 TAT
12493 ATAAAATCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTACTATTACTATTACTAC
Found at i:14361 original size:332 final size:331
Alignment explanation
Indices: 13229--16962 Score: 3732
Period size: 332 Copynumber: 11.3 Consensus size: 331
13219 TATGATAATA
* * *
13229 AATCTTTTTGACATTGAATTATATA-TTTTTATGAGTATTTTAGCTAAAAATTGAGGAGAAATCC
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTGA-CTAAAAATTGAGGAAAAAT-C
* * * **
13293 TTT-GTGTCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACAAACCATCACACTTTTTGG
64 TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTG---TAA-TAACCATCACGGTTTTTGG
* ** * * * ** * *
13357 CTAAAAACGCGTTCCTGGTACCCGACTCAATTTTGTATGATTTTTGGCTTCGAGACTACTTGAAA
125 CTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAA
* * *
13422 TATTTATATTCATCTAATCAAATCTTAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCT
190 TATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCT
* ** *
13487 GAATCTTGTTTCGTTTTAATTAGAAATTAATTTGGAAAAAAATAGGAAAAAACGATATTAGAAA-
255 GAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAAATATG-AAAAACGATATTA-AAAG
*
13551 CGTCAAAAGCCCTTC
317 CGTGAAAAGCCCTTC
* * * * *
13566 AATCTTTTTGGCGTTGAATTATATATTTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATATT
1 AATCTTTTTGACGTTGAATTATATA-TTTTTTATGAGTATTTGA-CTAAAAATTGAGGAAAAATC
*** * * *
13631 TTTCTAATCAATTTTTACAGAAATTTTAGCCAAAATCGTGTAATAACCATCACAGTTTTTGGCTA
64 TTTCGGGTCAATTTTTGCA-AAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTA
* * * ** * * * * *
13696 AAAAAGTGTTCTGGGGCTTCAGCTCAGTTTTGCATGATTTTTGACGCCAACACTCCTTGAGATTT
128 AAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATAT
* * * *
13761 CCATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAAGCATCTGAA
193 CTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
* *
13826 TTTTGTTTCGATTTAATTAAAAATTAATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAA
258 TCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAA
* *
13890 AAGTCCTCC
323 AAGCCCTTC
* * * * * * * * * * *
13899 AATATTTTTGGC-TATAAATTATATATATTTTCTGAGTATTTTATCCATAAATAGGGGAAAAATT
1 AATCTTTTTGACGT-TGAATTATATATTTTTTATGAGTATTTGA-CTAAAAATTGAGGAAAAATC
* * * * * * *
13963 TTTCGGGTTATTTTTTGCAAAGTTTTAGCCAAAATCGTGTACTAACCATCACAGTTTTTTGCTAA
64 TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAA
* * * * * * * * * *
14028 AAATGTGTTTCGGGGCCCCGGCTCAATTTTGCGTGGTTTTTTGCGCCGACATTCCTTGAAATATC
129 AAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATC
* * * * *
14093 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCACCTAAAT
194 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
*
14158 CTTGTTTCGATTGAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAA
259 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAA
*
14223 AGTCCTTC
324 AGCCCTTC
* * * *
14231 AATCTTTTTGGCGTTGAATAATATATTTTTTATGAGTATTATGACTAAAAATTGAGGAGATATCT
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATT-TGACTAAAAATTGAGGAAAAATCT
* * *
14296 TTCGGGTAAATTTTTGCAAAATTTTAGCCGAAATCATGTAATAATCATCACGGTTTTTGGCTAAA
65 TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAAA
** * * * **
14361 AACGCGTTCC-GGGATCCGGTTCAATTTTG-AGTGATTTTTGGCGCCGAGAC-AATTGAAATATC
130 AACGCGTTCCGGGGCCCCGGCTCAGTTTTGCA-TGATTTTTGGCGCCAAGACTCCTTGAAATATC
* * * ** * *
14423 TATACTCATCTAACCGAA--T---CC-C---------AACCA-TTGTTTTTACAAACATCTGAAT
194 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
* * *
14472 CATGTTTC-ATTTTAATTTGAAATTAATTCAGAAAAAA-ATAGAAAAAACGATATTAAAAGCTTG
259 CTTGTTTCGA-TTTAATTAGAAATTAATTCAGAAAAAATAT-G-AAAAACGATATTAAAAGCGTG
14535 AAAAGCCCTTC
321 AAAAGCCCTTC
* * * * * *
14546 AATTTTTTTGACGTTGAATTATATATTTTTGATGAGCATTGTGGCTAAAAATTGA-GAGAATATT
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATT-TGACTAAAAATTGAGGA-AAAATC
* * * * * * *
14610 TTTCTGGTCATTTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACAATCACAGTTTTTTTTTGC
64 TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCAC-G--GTTTTTGGC
* * * * * *
14675 TAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGTATGATTTTTGACGTCAAGACTCCTCGAAAT
126 TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAAT
** * * *
14740 AT-T-TA-T-A--T--T-AAATCTCAGCCACATTTTATTTAAGAATTTGTTTTTACGTGCATTTG
191 ATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTG
* * *
14796 AATCTTGTTTCGATTTAATTAGAAATTAATTTAG-AAAAATATGAAAAACGATATTAAAAGTGAG
256 AATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTG
*
14860 AAAAGTCCC-CC
321 AAAAG-CCCTTC
* * *
14871 AAT-TTTTTGA-GTTGAATTATATATATCTTATGAGTATTTTAGA-TAAAAATTGAGGAAAAATA
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTA-TTT-GACTAAAAATTGAGGAAAAATC
* * * * * *
14933 TTTCTGGTCAATTTTTGCAAAATATTAGCCGAAATTGTGTATGTTAGTCGAAATCACGGTTTTTG
64 TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA--ATA-AC--CATCACGGTTTTTG
* * * ** *
14998 GCTAAAAACGCGTTCCGGGACCACGGTTCAGTTTTGCATGATTTTTTTACGCCAAGACTCCTTCA
124 GCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGA-TTTTTGGCGCCAAGACTCCTTGA
** * * * *** *
15063 AATATCTACGTTCATCCAACCAAATCTCAGCCATATTGGATTTAAGGATTTG-TAAAACAAGCAT
188 AATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
* * * * *
15127 CTGAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAATAATAGGAAAAATGATATTAGAAG
253 CTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAA-AATATGAAAAACGATATTAAAAG
* *
15192 CATGAAAAACCCTTC
317 CGTGAAAAGCCCTTC
* * * * *
15207 AATATTTTTGGCGTTGAATTATTTAATTTTTATGAGTATTGCGGA-TAAAAATTGAGGAAATAA-
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATT--TGACTAAAAATTGAGGAAA-AAT
* * * * *
15270 CTTTCGAGTCAATTTTTGTAAAATTCTAGCCGAAATCGTATAATAATCATCACGGTTTTTGGCTA
63 CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTA
* * * * * *
15335 AAAATGCGTTTCAGGGCACCGGCT-AGGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAGATA
128 AAAACGCGTTCCGGGGCCCCGGCTCA-GTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATA
* * * * * *
15399 TCCATATTCATTTAATCTAATCTCAGCTACATTGGATTGAAGAATTTGTTTTTACGAGCATCTGA
192 TCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGA
*
15464 ATCTTGTTTCGATTTAATTAGAAATTAATTCA-AAAAAATATGAAAAACGATATTGAAAGCGTGA
257 ATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGA
* *
15528 AAAGTCCTCC
322 AAAGCCCTTC
* * * * *
15538 AATCTTTTTGACATTAAATTATATA--TTTTATGAGTATTTTAGCCAAAAATTGATGGAAAAATA
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTGA-CTAAAAATTGA-GGAAAAATC
* * *
15601 TTTCGTGTCAATTTTTGCAAAATTTTAGTCGAAATCGTGTACACTAACCATCACGGTTTTCGGCT
64 TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA-A-TAACCATCACGGTTTTTGGCT
* * *
15666 AAAAACGCATTCCGGGG-CCCGGCTCAGTTTTGCATGATTTTTGGGGCCGAGACTCCTTGAAATA
127 AAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATA
* * * * *
15730 TTTATATTCATCTAATCAAATCTCAGCCACACTGAATTTAATGATTTGTTTTTACAAGCATCTGA
192 TCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGA
15795 ATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAAACGATATTAAAAGCGTG
257 ATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATG-AAAAACGATATTAAAAGCGTG
* *
15860 AAAAAGGCTTTC
321 -AAAAGCCCTTC
* ** * * *
15872 AATTTTTTTGGTGTTGAATTATATA-TTTTTATGAGTATTTTCG-CTAGAAATCGAGGAAAATTC
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTA-TTT-GACTAAAAATTGAGGAAAAATC
* * * * *
15935 TTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTAGTAACCATCACTGTTTTCGGCTAA
64 TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAA
* ** * *
16000 AACCGCGTTCCGGGG-TTCTGCTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATC
129 AAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATC
* * * * *
16064 GATATTTATCTAACCAAATCTCAGCCACATTGGGTTTAAGGATTTGTTTCTACGAGCATCTGAAT
194 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
* * * * *
16129 CTTGTTTCGATTTAATTAGAAAATTAATT-TGAAAAAAT-TGGAAAAACAATATTAGATGCGTTA
259 CTTGTTTCGATTTAATTAG-AAATTAATTCAGAAAAAATAT-GAAAAACGATATTAAAAGCGTGA
16192 AAAGCCCTTC
322 AAAGCCCTTC
* * * * * *
16202 AATATTTTTGATGTCGAATTATATATTTTTTATGAGTATTTTAGCCAAAAAATTGAGGAAATATC
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTA-TTT-GACTAAAAATTGAGGAAAAATC
* * *
16267 TTTCGGATCAA-TTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTGACTA
64 TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGG-TTTTTGGCTA
* * ** ** * * * *
16331 AAAACGCGTTCCAGGGCCACAACTTTGTTTTGCATGATTTTTTGCACCGATACTCCTTGAAATAT
128 AAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATAT
* * * * * *
16396 CTTTCTTCATCTAATCAAATCTCAAG-CACATTAGATTTAAGGATTTG-TTTTATGTGAATCTGA
193 CTATATTCATCTAATCAAATCTC-AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGA
* *
16459 ATGTTGTTTCGATTTAATTAGAAATT-A-T---AAAAAATATGAGAAACGATATTAAAAGCGTGA
257 ATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGA
* *
16519 AAAGTCCTCC
322 AAAGCCCTTC
* * ** * *
16529 AGTCCTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTCTCTAGAAATCGAGGAAAAATCT
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTA-TTTGACTAAAAATTGAGGAAAAATCT
* * *
16594 TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGGCT-AA
65 TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAAA
** ** * * *
16658 AACTGTATTCCGGGG-TTCGGGTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATC
130 AAC-GCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATC
* ** *
16722 TATATTCATCTAACCAAATCTCAGCCACATTAAATTTAACGATTT-TTTTTACGAGCATCTGAAT
194 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
* * * * *
16786 CTTGTTTCGATTTTATTAGAAATTAATT-TGAAAAAATAGGAAAAA-GTATATTAGAAGCGTTAA
259 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACG-ATATTAAAAGCGTGAA
16849 AAGCCCTTC
323 AAGCCCTTC
* * * * * * * * *
16858 AATTTTTTTTATGTCGAATTATATATTTTTTAGGAGTATTTTAGCCAAAAATTGAGGAAATATTT
1 AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTGA-CTAAAAATTGAGGAAAAATCT
* *
16923 TTTGGGTCAATTTTTGCAAAATTTTAGTCGAAATCGTGTA
65 TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA
16963 CGCTCCAGGG
Statistics
Matches: 2810, Mismatches: 489, Indels: 204
0.80 0.14 0.06
Matches are distributed among these distances:
311 2 0.00
313 4 0.00
314 54 0.02
315 129 0.05
316 4 0.00
317 2 0.00
318 22 0.01
319 31 0.01
320 9 0.00
323 74 0.03
324 15 0.01
325 186 0.07
326 79 0.03
327 161 0.06
328 13 0.00
329 144 0.05
330 98 0.03
331 464 0.17
332 546 0.19
333 239 0.09
334 123 0.04
335 52 0.02
336 184 0.07
337 34 0.01
338 76 0.03
339 46 0.02
340 19 0.01
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (331 bp):
AATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTGACTAAAAATTGAGGAAAAATCTT
TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAAAA
ACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTA
TATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT
TGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAG
CCCTTC
Done.