Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017560.1 Corchorus olitorius cultivar O-4 contig17593, 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: 24774
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:3277 original size:16 final size:15
Alignment explanation
Indices: 3233--3277 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
3223 TTAGGGGAAG
3233 AAATTTTGGTTTTTT
1 AAATTTTGGTTTTTT
**
3248 AAATTAAGGGTTTTTT
1 AAATT-TTGGTTTTTT
3264 AAATTTTGGTTTTT
1 AAATTTTGGTTTTT
3278 CGGCTTGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (15 bp):
AAATTTTGGTTTTTT
Found at i:4310 original size:30 final size:30
Alignment explanation
Indices: 4274--4333 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
4264 TTAAGGTTCG
* *
4274 GGTTCGGGTTCTTCGTGTACCCCACCTAAA
1 GGTTCGGGCTCTTCGTGCACCCCACCTAAA
* *
4304 GGTTCGGGCTCTTTGTGCACTCCACCTAAA
1 GGTTCGGGCTCTTCGTGCACCCCACCTAAA
4334 TTCGAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.30
Consensus pattern (30 bp):
GGTTCGGGCTCTTCGTGCACCCCACCTAAA
Found at i:5336 original size:6 final size:6
Alignment explanation
Indices: 5325--5363 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
5315 GTCATGTGGC
5325 ATATTT ATATTT A-A-TT ATATTT A-A-TT ATATTT ATATTT A
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT A
5364 AAATATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
4 6 0.21
5 4 0.14
6 19 0.66
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:5344 original size:10 final size:10
Alignment explanation
Indices: 5329--5357 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
5319 TGTGGCATAT
5329 TTATATTTAA
1 TTATATTTAA
5339 TTATATTTAA
1 TTATATTTAA
5349 TTATATTTA
1 TTATATTTA
5358 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATTTAA
Found at i:5346 original size:16 final size:15
Alignment explanation
Indices: 5325--5364 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
5315 GTCATGTGGC
5325 ATATTTATATTTAATT
1 ATATTTA-ATTTAATT
*
5341 ATATTTAATTATATTT
1 ATATTTAATT-TAATT
5357 ATATTTAA
1 ATATTTAA
5365 AATATGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTTAATTTAATT
Found at i:5412 original size:94 final size:92
Alignment explanation
Indices: 5254--5422 Score: 320
Period size: 94 Copynumber: 1.8 Consensus size: 92
5244 AAAATAGAGG
5254 TAATTAATTATATTTAAAATATGTTTCATACATTCTCACAAAATTAACAAATTAAGGAGTTGTCA
1 TAATTAATTATATTTAAAATATGTTTCATACATTCTCACAAAATTAACAAATTAAGGAGTTGTCA
5319 TGTGGCATATTTATATTTAATTATATT
66 TGTGGCATATTTATATTTAATTATATT
5346 TAATTATATTTATATTTAAAATATGTTTCATACATTCTCACAAAATTAACAAATTAAGGAGTTGT
1 TAATTA-A-TTATATTTAAAATATGTTTCATACATTCTCACAAAATTAACAAATTAAGGAGTTGT
5411 CATGTGGCATAT
64 CATGTGGCATAT
5423 ATTTTATGTC
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
92 6 0.08
93 1 0.01
94 68 0.91
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (92 bp):
TAATTAATTATATTTAAAATATGTTTCATACATTCTCACAAAATTAACAAATTAAGGAGTTGTCA
TGTGGCATATTTATATTTAATTATATT
Found at i:6574 original size:42 final size:42
Alignment explanation
Indices: 6498--6581 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
6488 ATGACATTTT
* * ** *
6498 CATGACATATCATCATGTCAGGTGATATTTTAGATGATATGA
1 CATGACATATCATCATGTCACGTGACATGATAGATGACATGA
*
6540 CATGTCATATCATCATGTCACGTGACATGATAGATGACATGA
1 CATGACATATCATCATGTCACGTGACATGATAGATGACATGA
6582 ACGTGCCACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (42 bp):
CATGACATATCATCATGTCACGTGACATGATAGATGACATGA
Found at i:20137 original size:325 final size:325
Alignment explanation
Indices: 18730--21155 Score: 3868
Period size: 325 Copynumber: 7.5 Consensus size: 325
18720 AAATTTTCCC
* *
18730 TATATTTTTTATGAGTATTCTGGGGAAAAATTGAGGACAAATCTTTCGGGTCAATTTTTGCAAAA
1 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
** * * * * * * *
18795 TTTTAAACGAAATCGTGTACTGTTACC-TCATGGTTTTTGGGTAAAAACGCGTATTGGGGGTCCG
66 TTTTAGCCGTAATCGTGTAC--TAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCG
**
18859 ACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCCTTGAGTTATCCATATTCATCTAACCAAAT
129 ACTCAGTTTTGCATGATTTTTGGCGCCAAGATT-CCTTGAGACATCCATATTCATCTAACCAAAT
* * *
18924 CTCTGCAACGATGAATTTAAGGATTT-TTTTCTATGAGCATCTAAATCTTGCTTCGATTAAATTA
193 CTCTGCAACGATGGATTTAAGGATTTGTTTT-TACGAGCATCTAAATCTTGTTTCGATTAAATTA
* * *
18988 GAAATTACTTCAGCAAAAAAATGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTAGCGTTGA
257 GAAATTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGA
19053 ATTA
322 ATTA
* *
19057 TATAATTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCAGGTCAATTTTTGCAAAA
1 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
* * *
19122 TTTTAGTCGTAATCGTGTATTAACCATCACGG-TTTTGGCTAAAAACGCGTTTTGGGGGCCCGAC
66 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGAC
*
19186 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGATATCCATATTCATCTAACCAAATCTC
131 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
* * *
19251 TGCAAAGATGGATTTAAGGA-TT-TTTTTACGAGCATCAAAATCCTGTTTCGATTAAATTAGAAA
196 TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
* *
19314 TTACTTTAGAAAAAAAAACGGTATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATT
261 TTACTTCAG-AAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATT
*
19379 T
325 A
* * *
19380 TATGTTTTTTATGAGTATTCTGGGAAAAAATTGAGGACAAATCTTTCGGGTCAATTTTTGTAAAA
1 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
* *
19445 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAATCACGTTTTAGGGGCCCGAC
66 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGAC
*
19510 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTAAGACATCCATATTCATCTAACCAAATCTC
131 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
*
19575 TGCAACGATGGATTAAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
196 TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
* * *
19640 TTAATTCAG-AAAAAAATGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGACGTTGAATTA
261 TTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATTA
* * **
19704 TATATTTTTTATGAGAATTCTGGGAAAAAATTGAGGACAAATCTTTCTTGTCAATTTTTGCAAAA
1 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
19769 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGAC
66 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGAC
*
19834 TCAGTTCTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
131 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
19899 TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
196 TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
19964 TTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATTA
261 TTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATTA
*
20029 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGTGTCAATTTTTGCAAAA
1 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
*
20094 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTGGGGGCCCGAC
66 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGAC
20159 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
131 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
* *
20224 TGCAACGATGGATTTAAGGATTTGTTTTTAAGAGAATCTAAATCTTGTTTCGATTAAATTAGAAA
196 TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
20289 TTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATTA
261 TTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATTA
* *
20354 TATATTTTTTATGAGTATTCTTGGG-AAAAATTGAGGAAAATTCTTTCAGGTCAATTTTTGCAAA
1 TATATTTTTTATGAGTATTC-TGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAA
*
20418 ATTTTAGCCGTAATCGTGTACTAACCATCGCGGTTTTTGGCTAAAAACGCGTTTT-GGAGGCCCG
65 ATTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGG-GGCCCG
*
20482 ACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGATATCCATATTCATCTAACCAAATC
129 ACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATC
* *
20547 TCTGCAACGATGGATTTAAGGATTT-TTTTTACGATCATCTAAATCTTGTTTCTATTAAATTAGA
194 TCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGA
* *
20611 AATTACTTCAGAAAAAAAAACGATATTAGAAGCGTGAAAAGCGCTCCAATCTTTTTGGCATTGAA
259 AATTACTTCAG-AAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAA
20676 TTA
323 TTA
* *
20679 TATATTTTTTATGAGTATTCTAGGAAAAAATAGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
1 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
* * * *
20744 TTTTAGCCGTAATCGTGTACTAACCATCACGATTTTTGGCTAAAAACGCGTATAAGGGGCTCGAC
66 TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGAC
* * * *
20809 TCAGTTTTGCATTATTTTTTGCACCAAGATTCATTGAGACATCCATATTCATCTAACCAAATCTC
131 TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
*
20874 TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATT--ATCAGAAA
196 TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
* * * *
20937 --A---AATAAAAAAAACGATATTAGAAGCGTGAAAAGCTCTCCAATCTTTTTGGCGTTGAATTT
261 TTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATTA
* *
20997 TATATTTTTTATGAGTATTC-----------TG-GGAAAAATCTTTCGGGTCAAATTTTACAAAA
1 TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
* *
21050 TTTTAGCCGTAATCGTGTACGTTA-CATCACGGTTTTTGGCTAAAAACGGGTTTT-GGGGCCCGA
66 TTTTAGCCGTAATCGTGTAC-TAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGA
21113 CTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACAT
130 CTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACAT
21156 ATTGGTTAAT
Statistics
Matches: 1972, Mismatches: 114, Indels: 48
0.92 0.05 0.02
Matches are distributed among these distances:
305 47 0.02
306 75 0.04
307 3 0.00
318 73 0.04
319 1 0.00
322 42 0.02
323 147 0.07
324 528 0.27
325 893 0.45
326 86 0.04
327 77 0.04
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (325 bp):
TATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAA
TTTTAGCCGTAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTTAGGGGCCCGAC
TCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGACATCCATATTCATCTAACCAAATCTC
TGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAA
TTACTTCAGAAAAAAAACGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAATTA
Found at i:22060 original size:14 final size:14
Alignment explanation
Indices: 22051--22077 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22041 AATAAATTTT
22051 ACTAAATAAATAAC
1 ACTAAATAAATAAC
22065 ACTAAATAAATAA
1 ACTAAATAAATAA
22078 TATATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (14 bp):
ACTAAATAAATAAC
Found at i:22087 original size:25 final size:23
Alignment explanation
Indices: 22056--22102 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
22046 ATTTTACTAA
22056 ATAAATAACACTA-AATAAATAATAT
1 ATAAAT-ACA-TAGAATAAA-AATAT
22081 ATAAATACATAGAATAAAAATA
1 ATAAATACATAGAATAAAAATA
22103 AATATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 9 0.43
25 6 0.29
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAAATACATAGAATAAAAATAT
Found at i:23503 original size:325 final size:326
Alignment explanation
Indices: 22459--24742 Score: 3079
Period size: 325 Copynumber: 7.0 Consensus size: 326
22449 GTCGATGTAG
22459 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
1 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* *
22524 CTTGTTTCAATTAATTTAGAAATTACTTCAG-AAAAAAAACGATATTAGAAGCGTGAAAAGCCCT
66 CTTGTTTCGATTAAATTAGAAATTACTTCAGAAAAAAAAACGATATTAGAAGCGTGAAAAGCCCT
*
22588 CCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAAT
131 CCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAAT
** * * *
22653 CTTTCGGGTCAATTTTTGCAAAATTTTAAACGAAATTGTGTACTGTTA-CATCACGGTTTTTGGG
196 CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC--TAACCATCACGGTTTTTGGC
** *
22717 TAAAAACGCGTTTTGGGGGCTTGACTCAGTTTTGCATGATTTTTGGCGCAAAGATTCCTTGAGAT
259 TAAAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGAT
22782 ATC
324 ATC
* * *
22785 CATGTTCATCTAACCAAATCTCAGCAACGATGGATTTAAAGATTT-TTTTTACGAGCATCTAAAT
1 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* *
22849 CTTGTTTCGATTAAATTAGAAATTACTTCAG--AAAAAAATGATATTAGAAGCTTGAAAAGCCCT
66 CTTGTTTCGATTAAATTAGAAATTACTTCAGAAAAAAAAACGATATTAGAAGCGTGAAAAGCCCT
* * *
22912 CCAATCATTTTAGCGTTGAATTATATATTTTTTATGATTATTCTGGGAAAAAATTGAGGAAAAAT
131 CCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAAT
*
22977 CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGTAATCGTGTACTAAACCATCACGGTTTTTGGCT
196 CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACT-AACCATCACGGTTTTTGGCT
* * *
23042 AAAAACGCGTTTTGGGGGCCCGATTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGGGACA
260 AAAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGATA
23107 TC
325 TC
* *
23109 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTAAGAGAATCTAAAT
1 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* * *
23174 CTTGTTTCGATTAAATTAGAAATTACTTTAGAAAAAAAAACGATATTAGAAACGTGAAAAGCGCT
66 CTTGTTTCGATTAAATTAGAAATTACTTCAGAAAAAAAAACGATATTAGAAGCGTGAAAAGCCCT
* * *
23239 CCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTCTAGGAAAAAATTGAGGAAAATT
131 CCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAAT
* * * *
23304 CTTTCAGATCAATTTTTGCAAAATTTTAGCCGTAATCGTGTACTAACCATCGCGGTTTTTGGCTA
196 CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* * *
23369 AAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTCGGCGTCAAGATTCATT-AGATAT
261 AAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGATAT
23433 C
326 C
*
23434 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTTTTTTTACGAGCATCTAAAT
1 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* *
23499 CTTGTTTCGATTAAATTAGAAATTACTTCAGAAAAAAAAATGATATTAGAAGCATGAAAAGCCCT
66 CTTGTTTCGATTAAATTAGAAATTACTTCAGAAAAAAAAACGATATTAGAAGCGTGAAAAGCCCT
* *
23564 CCAATCTTTTTTGGCGTTGAATTATAAATTTTTTATGAGTATTCTGGG-AAAAATTGAAGAAAAA
131 CCAATC-TTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAA
* * *
23628 TATTTCGGGTCAATTTTTGCAAAATTTTAGCCGTAATCGTGTACGTTA-CATCACGGTTTTTGGC
195 TCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC-TAACCATCACGGTTTTTGGC
* * * *
23692 TAAAATCGCGTTTTGGGTG-CCGACTCAGTTTTGCATGATTTTTGGTGCCAAGATTCCTTGAGAC
259 TAAAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGAT
23756 ATC
324 ATC
* * * * *
23759 CATATTCATCTAACCAAATCTCTTC-ACGGATGGATATAAGGATTTGTTTTTACAAGCATTTGAA
1 CATATTCATCTAACCAAATCTCTGCAAC-GATGGATTTAAGGATTTGTTTTTACGAGCATCTAAA
* * * *
23823 TCTTTTTTCGATTAAATTAGAATTTAGTTCTAAAAAAAAATAAAAACGATATTAGAAGCGTGAAA
65 TCTTGTTTCGATTAAATTAGAAATTACTTC----AGAAAA-AAAAACGATATTAGAAGCGTGAAA
* * * *
23888 AGCCCTCCAATCTTTCTGGCGCTGAATTATATATTTTTTTATGAGTGTTCTGGGAAAAAATTTAG
125 AGCCCTCCAATCTTTTTGGCGTTGAATTATATA-TTTTTTATGAGTATTCTGGGAAAAAATTGAG
* * * * *
23953 GAAAAATCTTTCAGGTTAATTTTTGCATAATTTTAGCCGAAATCATATACTAACCATCACGGTTT
189 GAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTT
* * * * * *
24018 TACGG-TAAAAACGC-TTTCTGGCGGCCTGACTAAGTTTTGCATGAGTTTTT-GCACCAAGACTC
254 T-TGGCTAAAAACGCGTTT-TGGGGGCCCGACTCAGTTTTGCATGA-TTTTTGGCGCCAAGATTC
*
24080 CTTGAAATATC
316 CTTGAGATATC
* * * * * *
24091 TATTTTAATCTAACCAAATCTCAGCAACGATGGATTTAAGGATTCGTTTTTACGAGCATCTGAAT
1 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* * * * * * *
24156 CTTGATCCTATTAAATTATAAATTACTTTTAAAAGAAAAAGAAAAACAATATTAGAAGGGTGAAA
66 CTTGTTTCGATTAAATTAGAAATTAC--TT--CAG-AAAA-AAAAACGATATTAGAAGCGTGAAA
* *
24221 AGCCCTCCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTCTAGGAAAAAATTGAGG
125 AGCCCTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGG
* * * *
24286 AAAAATCTTTCGGGTCATTTTTTGCAATATTTTAGCCGAAATCATGTACTAACCATCACCGTTTT
190 AAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTT
* * * * * *
24351 AGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTGACGCCAACACTT-CTT
255 TGGCTAAAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGA-TTCCTT
* *
24415 GAAATGTC
319 GAGATATC
* * * * * * *
24423 TATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGATTTGTTTTAATGACCATCTTAAT
1 CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* * * *
24488 CTTCTTTCAATTAAATTAGAAATTAATTCAGAAAAAAAAAAACGATATTAGAAGCTTGAAAAGCC
66 CTTGTTTCGATTAAATTAGAAATTACTTCAG--AAAAAAAAACGATATTAGAAGCGTGAAAAGCC
* * *
24553 CTCCAATCTTTTTGGCATTGAGTTATATA-TTTTTATGAGTATTTTGGGAAAAAATTGAGGAAAA
129 CTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAA
* * * *
24617 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACTATCGCGGTTTTAGAC
194 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGC
* * * * ** * *
24682 TAAAAAGGCATTCTGGCGGCCCGAC-CAAGTTTTGCATGCCTTTTGGCACCAAGACTCCTTG
259 TAAAAACGCGTTTTGGGGGCCCGACTC-AGTTTTGCATGATTTTTGGCGCCAAGATTCCTTG
24743 GAGTATTTAT
Statistics
Matches: 1735, Mismatches: 189, Indels: 67
0.87 0.09 0.03
Matches are distributed among these distances:
322 1 0.00
323 1 0.00
324 287 0.17
325 403 0.23
326 157 0.09
327 269 0.16
328 53 0.03
329 28 0.02
330 60 0.03
331 82 0.05
332 326 0.19
333 66 0.04
334 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (326 bp):
CATATTCATCTAACCAAATCTCTGCAACGATGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
CTTGTTTCGATTAAATTAGAAATTACTTCAGAAAAAAAAACGATATTAGAAGCGTGAAAAGCCCT
CCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTGGGAAAAAATTGAGGAAAAAT
CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
AAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGATTCCTTGAGATAT
C
Done.