Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015655.1 Corchorus olitorius cultivar O-4 contig15688, 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: 53227
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2251 original size:46 final size:46
Alignment explanation
Indices: 2193--2283 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
2183 AGATTTGTTG
2193 CAAATTTGGTGGAGGAGCTCATCCATTCATGAGGCAAAAAGACCAA
1 CAAATTTGGTGGAGGAGCTCATCCATTCATGAGGCAAAAAGACCAA
2239 CAAATTTGGTGGAGGAGCTCATCCATTCATGAGGCAAAAAGACCA
1 CAAATTTGGTGGAGGAGCTCATCCATTCATGAGGCAAAAAGACCA
2284 TCTGTGGGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (46 bp):
CAAATTTGGTGGAGGAGCTCATCCATTCATGAGGCAAAAAGACCAA
Found at i:5563 original size:22 final size:22
Alignment explanation
Indices: 5535--5580 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
5525 ATTAACATTG
5535 ACATTATATTACACAATATGTA
1 ACATTATATTACACAATATGTA
5557 ACATTATATTACACAATATGTA
1 ACATTATATTACACAATATGTA
5579 AC
1 AC
5581 TTAAGGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (22 bp):
ACATTATATTACACAATATGTA
Found at i:11098 original size:24 final size:24
Alignment explanation
Indices: 11066--11121 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
11056 ATGGCTTATA
*
11066 GGTGGTGGTGCGTAGGTTAAGAGC
1 GGTGGTGGTGCGTAGGATAAGAGC
*
11090 GGTGGTGGTGCGTAGGATAAGAGG
1 GGTGGTGGTGCGTAGGATAAGAGC
11114 GGTGGTGG
1 GGTGGTGG
11122 AAGTGTGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.16, C:0.05, G:0.55, T:0.23
Consensus pattern (24 bp):
GGTGGTGGTGCGTAGGATAAGAGC
Found at i:14622 original size:135 final size:135
Alignment explanation
Indices: 14380--14637 Score: 516
Period size: 135 Copynumber: 1.9 Consensus size: 135
14370 TTTTAATCCT
14380 ATTATGAGTATAATTTCAATCTCTGATCTGTATAAAATGTTGTGCACTGAAGACATCCTAGGGTT
1 ATTATGAGTATAATTTCAATCTCTGATCTGTATAAAATGTTGTGCACTGAAGACATCCTAGGGTT
14445 TAGAACAAATGAGCTAGTAAAGCTGTAAACTGTAATGAACTTATATTCCTTAGTTTCATGCAACT
66 TAGAACAAATGAGCTAGTAAAGCTGTAAACTGTAATGAACTTATATTCCTTAGTTTCATGCAACT
14510 AAGGA
131 AAGGA
14515 ATTATGAGTATAATTTCAATCTCTGATCTGTATAAAATGTTGTGCACTGAAGACATCCTAGGGTT
1 ATTATGAGTATAATTTCAATCTCTGATCTGTATAAAATGTTGTGCACTGAAGACATCCTAGGGTT
14580 TAGAACAAATGAGCTAGTAAAGCTGTAAACTGTAATGAACTTATATTCCTTAGTTTCA
66 TAGAACAAATGAGCTAGTAAAGCTGTAAACTGTAATGAACTTATATTCCTTAGTTTCA
14638 ACAATACTAG
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 123 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (135 bp):
ATTATGAGTATAATTTCAATCTCTGATCTGTATAAAATGTTGTGCACTGAAGACATCCTAGGGTT
TAGAACAAATGAGCTAGTAAAGCTGTAAACTGTAATGAACTTATATTCCTTAGTTTCATGCAACT
AAGGA
Found at i:19186 original size:39 final size:39
Alignment explanation
Indices: 19143--19224 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
19133 TGAATCCAAG
***
19143 AAGGAAGAAGAAGAAGCTTCTGCAATGAAGGCCAAGGCC
1 AAGGAAGAAGAAGAAGAAGCTGCAATGAAGGCCAAGGCC
*
19182 AAGGAGGAAGAAGAAGAAGCTGCAATGAAGGCCAAGGCC
1 AAGGAAGAAGAAGAAGAAGCTGCAATGAAGGCCAAGGCC
19221 AAGG
1 AAGG
19225 CCAAAGAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.34, T:0.07
Consensus pattern (39 bp):
AAGGAAGAAGAAGAAGAAGCTGCAATGAAGGCCAAGGCC
Found at i:19232 original size:39 final size:40
Alignment explanation
Indices: 19147--19235 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
19137 TCCAAGAAGG
**
19147 AAGAAGAAGAAGCTTCTGCAATGAAGGCCAAGGCCAAGGAGG
1 AAGAAGAAGAAG--TCTGCAATGAAGGCCAAGGCCAAGGACA
*
19189 AAGAAGAAGAAG-CTGCAATGAAGGCCAAGGCCAAGGCCA
1 AAGAAGAAGAAGTCTGCAATGAAGGCCAAGGCCAAGGACA
19228 AAGAAGAA
1 AAGAAGAA
19236 AAGGGTAAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 32 0.73
42 12 0.27
ACGTcount: A:0.45, C:0.17, G:0.31, T:0.07
Consensus pattern (40 bp):
AAGAAGAAGAAGTCTGCAATGAAGGCCAAGGCCAAGGACA
Found at i:22168 original size:13 final size:13
Alignment explanation
Indices: 22150--22175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22140 TTTTGAAGAA
22150 ATTTCATCATCCT
1 ATTTCATCATCCT
22163 ATTTCATCATCCT
1 ATTTCATCATCCT
22176 GCTTGGCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTCATCATCCT
Found at i:29636 original size:16 final size:16
Alignment explanation
Indices: 29615--29665 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
29605 ATTTCAGATG
29615 TGGGTTTGGGTTTATT
1 TGGGTTTGGGTTTATT
29631 TGGGTTAT---TTT-TT
1 TGGGTT-TGGGTTTATT
29644 TGGGTTTGGGTTTATT
1 TGGGTTTGGGTTTATT
29660 TGGGTT
1 TGGGTT
29666 ATTTTTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 1 0.03
13 8 0.27
14 3 0.10
15 3 0.10
16 14 0.47
17 1 0.03
ACGTcount: A:0.06, C:0.00, G:0.35, T:0.59
Consensus pattern (16 bp):
TGGGTTTGGGTTTATT
Found at i:29647 original size:13 final size:13
Alignment explanation
Indices: 29629--29678 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 13
29619 TTTGGGTTTA
29629 TTTGGGTTATTTT
1 TTTGGGTTATTTT
29642 TTTGGGTT-TGGGTTT
1 TTTGGGTTAT---TTT
29657 ATTTGGGTTATTTT
1 -TTTGGGTTATTTT
29671 TTTGGGTT
1 TTTGGGTT
29679 TGGGTCACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 1 0.03
13 16 0.50
14 3 0.09
15 3 0.09
16 8 0.25
17 1 0.03
ACGTcount: A:0.06, C:0.00, G:0.30, T:0.64
Consensus pattern (13 bp):
TTTGGGTTATTTT
Found at i:29652 original size:29 final size:29
Alignment explanation
Indices: 29615--29683 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
29605 ATTTCAGATG
29615 TGGGTTTGGGTTTATTTGGGTTATTTTTT
1 TGGGTTTGGGTTTATTTGGGTTATTTTTT
29644 TGGGTTTGGGTTTATTTGGGTTATTTTTT
1 TGGGTTTGGGTTTATTTGGGTTATTTTTT
29673 TGGGTTTGGGT
1 TGGGTTTGGGT
29684 CACCAATAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.06, C:0.00, G:0.35, T:0.59
Consensus pattern (29 bp):
TGGGTTTGGGTTTATTTGGGTTATTTTTT
Found at i:35800 original size:1 final size:1
Alignment explanation
Indices: 35752--35782 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
35742 AAAAATCAAG
35752 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
35783 GAGTAGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:36500 original size:2 final size:2
Alignment explanation
Indices: 36493--36527 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
36483 AATTTTAGTG
36493 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36528 CTATTGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:40977 original size:337 final size:327
Alignment explanation
Indices: 40293--41304 Score: 1092
Period size: 330 Copynumber: 3.0 Consensus size: 327
40283 AATGGCTAGG
* * * * * *
40293 ATTTGGTTAGAATGAATATAGATATTTCAAGGAGTCTCGGCACCAAAAATTATTCAAAACTGAAC
1 ATTTGATTAG-ATGAATATAGATATTTCAAGGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGC
* * * *
40358 CGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGATTATTACACGATTTCAACTAAAATTT
65 CGGGCCCCGAAACGCATTTTTAGCCAAAAACTGTGATGGTTATTACACGATTTCGACTAAAATTT
* ** * *
40423 TGC-AAAAATGGACCTGAAAGATATTTCCTCAATTTTTAGCCATAATACT-CAT-TAAAATATAT
130 TGCAAAAAAT-GACC-GAAAGATATTTCCTCAATTTTTGGTAAAAATACTATATATAAAATATAT
* * * * *
40485 AATTCGACGCCTGAAAGATTGAAGGGCTTTTCGA-GCTTTTAATATCGTTTTTCATATTTTTTCT
193 AATTCAACGCC-AAAAAATTGAA-GGCTTTT-GACGCTTTTAATATCATTTTTCATA--TTTCCT
*
40549 AAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAAAAAAATCTTTAAATGCA
253 AAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAAATC-TTAAATCCA
40613 ATGTGGCT-AA
317 ATGTGGCTGAA
* * * *
40623 GATTTTATTAGATGAATATAGATATTTCAAGGAGTGTCTACGCCGAAAATCATGCAAAACTGAGC
1 -ATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGC
* *
40688 CGGGGCCCCGAAACGCATTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTTGACTAAAATT
65 C-GGGCCCCGAAACGCATTTTTAGCCAAAAACTGTGATGGTTATTACACGATTTCGACTAAAATT
* * *
40753 TTGCAAAAAATGATCCGAAAAATTTTTCCTCAATTTTTGGATAAAAATTCATAATATATATATAT
129 TTGCAAAAAATGA-CCGAAAGATATTTCCTCAATTTTTGG-TAAAAATAC-T-ATATATA-A-A-
* * * *
40818 ATATATAATTTAACGCCAAAACAATTGGAGGAATTTTGACGCTTTTAATATTATTTTTCATATTT
187 ATATATAATTCAACGCCAAAA-AATTGAAGG-CTTTTGACGCTTTTAATATCATTTTTCATATTT
* * *
40883 CCTTAATTAATTTCTCATTAAATCGAAACAAGATTCAGATGCTTGTAAAAAAAAAATCTTAAATC
250 CCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAAATCTTAAATC
40948 CAATGTGGCTGAA
315 CAATGTGGCTGAA
* * * *
40961 ATTTGATTAGATGAATATGGATATCTCAAGGAGTCT-TGGCGCCAAAAATCAGGCAAAACTGAGA
1 ATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCT-GCGCCAAAAATCATGCAAAACTGAGC
* * ** * * * *
41025 CGAGTCCTAAAACTCATTTTTAACCAAAAACTATGATGGTTATTACACGATTTCGGCTAAAATTT
65 CGGGCCCCGAAACGCATTTTTAGCCAAAAACTGTGATGGTTATTACACGATTTCGACTAAAATTT
* * * * *
41090 TGTAAAAATTGACCCAAAGATGTTTCCTCAATTTTTGGTTAAAATACTCATA-A-AAAATATATA
130 TGCAAAAAATGACCGAAAGATATTTCCTCAATTTTTGGTAAAAATACT-ATATATAAAATATATA
* * *
41153 ATTCAATGCCAAAAAGATTGAATGGCTTTTGACG-TTTCTAATATCATTTTTCCTGTTTTTTCC-
194 ATTCAACGCCAAAAA-ATTGAA-GGCTTTTGACGCTTT-TAATATCATTTTT-C--ATATTTCCT
* * * * * *
41216 AAATTAATTTTTAATTAAATCGAAATAAGATTTAGATGCTCGTAAAAACAAATTCATAAATCCAA
253 AAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAAATCTTAAATCCAA
* *
41281 TGTTGCTGAG
318 TGTGGCTGAA
* *
41291 GTTTGTTTAGATGA
1 ATTTGATTAGATGA
41305 TGTAAAGTAT
Statistics
Matches: 575, Mismatches: 83, Indels: 47
0.82 0.12 0.07
Matches are distributed among these distances:
327 4 0.01
328 44 0.08
329 4 0.01
330 124 0.22
331 99 0.17
332 14 0.02
333 5 0.01
334 7 0.01
335 25 0.04
336 67 0.12
337 117 0.20
338 21 0.04
339 44 0.08
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (327 bp):
ATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGCC
GGGCCCCGAAACGCATTTTTAGCCAAAAACTGTGATGGTTATTACACGATTTCGACTAAAATTTT
GCAAAAAATGACCGAAAGATATTTCCTCAATTTTTGGTAAAAATACTATATATAAAATATATAAT
TCAACGCCAAAAAATTGAAGGCTTTTGACGCTTTTAATATCATTTTTCATATTTCCTAAATTAAT
TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAAAATCTTAAATCCAATGTGGCTG
AA
Found at i:41233 original size:667 final size:657
Alignment explanation
Indices: 39430--41304 Score: 1864
Period size: 667 Copynumber: 2.8 Consensus size: 657
39420 GATTTTTGCA
* * * *
39430 AAAATCTTGCAAAAAATGACCAAAAAAATTTTCCTCAATTTTTGACTAAAATAC-TCATGAAAAT
1 AAAATTTTGCAAAAAATGACC-AAAAATTTTTCCTCAATTTTTGA-TAAAATTCATCATAAAAAT
* * *
39494 ATATATAATTTAACGTCAAAAAGATTGGAAGACTTTTCATGCTTTTTATATCGTTTTTT-ATATT
64 ATATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCATGCTTTTAATAT--TTTTTTCATATT
* * * * * *
39558 TTTTTACTTAATTTGTAATTAAATCGAAACAAAATACAGATGCTCGTAAAAACAAATCATTAAAT
127 TTCTTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTGTAAAAA-AAATC-TTAAAT
* * * * * ** *
39623 GCAATGTGGATGAGATTTGATTAGATTAATATAGATATCTTAAAGATTCTTAACGACAAAAATCA
190 -CAATGTGGCTGAGATTTGATTAGATGAATATAGATATCTCAAGGAGTCTTGGCGCCAAAAATCA
* *
39688 TGCAAAACTGACCTGGGGCCCTGGAACGT-GTTTTTAACCAAAAACCGTGATGATTATTACACGA
254 TGCAAAACTGAAC--GGGCCCTGAAAC-TCGTTTTTAACCAAAAACCGTGATGATTATTACACGA
* * * ** * **
39752 TTTCGGCTATAATTTTGCAAAAATTGGCCGAAAAAAAATATTTGGTCAATTTTTGACTAACTTAC
316 TTTCGGCTAAAATTTTGCAAAAATTGACC--AAAAAGATATTTCCTCAATTTTTGGCTAAAATAC
* * * * * * *
39817 TCATAAAAAAAAATATAATTCATCACCAAAAATATTGAAGGGTTTTTTACGCTTCTAATATCTTT
379 TCAT-AAAAAATATATAATTCAT-GCCAAAAAGATTGAAGGGCTTTTGACGTTTCTAATATCATT
* * * *
39882 TTTCCTACTTTCTCCGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAAAGAA
442 TTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAAAAAA
* * * * * *
39947 AATCCTTAATTCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTGCATGATTTTTGGC
507 AATCCTTAAATCCAATGTGGCTAAGATTTGATTAGATGAATATAGATATTTGCAGGATGTCTGAC
* * *
40012 GCCAAAAATCATGCAAAACTGACCCGGGGCCTCGGAACGCAGTTTTGGCCCAAAAAAAAAAACCG
572 GCCAAAAATCATGCAAAACTGACCCGGGGCCCCGAAACGCAGTTTTAGCCCAAAAAAAAAAACCG
*
40077 TGATGTTACACGATTTCGGCT
637 TGATGTTACACGATTTCGACT
* * * * * ** * *
40098 AATATTTTGCAAAAATTAACTCAAAATATTTTTCCTCAACTTCTAGCCACAA-TAATCATAAAAA
1 AAAATTTTGCAAAAAATGAC-CAAAA-ATTTTTCCTCAA-TTTTTGATAAAATTCATCATAAAAA
* * * * *
40162 -ATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCTTGCTTCTAATACTGTTTTTTCTTAT
63 TATATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCATGCTTTTAATA-T-TTTTTTC--A-
* * * * *
40226 TTTTTTCTGAATTAATTTCTAATTAAAACGAAATATGATTCAGATGCTTGT------AA----AA
123 TATTTTCTTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTGTAAAAAAAATCTTAA
* * * *
40281 A-CAA--TGGCT-AGGATTTGGTTAGAATGAATATAGATATTTCAAGGAGTCTCGGCACCAAAAA
188 ATCAATGTGGCTGA-GATTTGATTAG-ATGAATATAGATATCTCAAGGAGTCTTGGCGCCAAAAA
* * * * *
40342 TTATTCAAAACTGAACCGGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGATTATTACACG
251 TCATGCAAAACTGAA-CGGGCCCTGAAACTCGTTTTTAACCAAAAACCGTGATGATTATTACACG
** * ** * * *
40407 ATTTCAACTAAAATTTTGCAAAAATGGACCTGAAAGATATTTCCTCAATTTTTAGCCATAATACT
315 ATTTCGGCTAAAATTTTGCAAAAATTGACCAAAAAGATATTTCCTCAATTTTTGGCTAAAATACT
* * ** *
40472 CAT-TAAAATATATAATTCGACGCCTGAAAGATTGAAGGGCTTTTCGA-GCTTT-TAATATCGTT
380 CATAAAAAATATATAATTC-ATGCCAAAAAGATTGAAGGGCTTTT-GACG-TTTCTAATATCATT
* * *
40534 TTTCATATTTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAA
442 TTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAAAAAA
* * *
40599 AATCTTTAAATGCAATGTGGCTAAGATTTTATTAGATGAATATAGATATTT-CAAGGAGTGTCT-
507 AATCCTTAAATCCAATGTGGCTAAGATTTGATTAGATGAATATAGATATTTGC-AGGA-TGTCTG
* * * ***** *
40662 ACGCCGAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCATTTTTAG-CCAAAAACTGTGAT
570 ACGCCAAAAATCATGCAAAACTGACCCGGGGCCCCGAAACGCAGTTTTAGCCCAAAAAAAAAAAC
* * *
40726 GGTTA-G-TACACGATTTTGACT
635 CGTGATGTTACACGATTTCGACT
*
40747 AAAATTTTGCAAAAAATGATCCGAAAAATTTTTCCTCAATTTTTGGATAAAAATTCATAATATAT
1 AAAATTTTGCAAAAAATGA-CC-AAAAATTTTTCCTCAATTTTT-GAT-AAAATTCATCATA-A-
* * *
40812 ATATATATATATAATTTAACGCCAAAACA-ATTGGAGGAATTTTGACGCTTTTAATATTATTTTT
60 A-A-ATATATATAATTTAACGCCAAAA-AGATTGGAGGACTTTTCATGCTTTTAATATT-TTTTT
* *
40876 CATATTTCCTTAATTAATTTCTCATTAAATCGAAACAAGATTCAGATGCTTGTAAAAAAAAAATC
121 CATATTTTCTTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTGT--AAAAAAAATC
* *
40941 TTAAATCCAATGTGGCTGAAATTTGATTAGATGAATATGGATATCTCAAGGAGTCTTGGCGCCAA
184 TTAAAT-CAATGTGGCTGAGATTTGATTAGATGAATATAGATATCTCAAGGAGTCTTGGCGCCAA
* * * * * ** *
41006 AAATCAGGCAAAACTGAGACGAGTCCTAAAACTCATTTTTAACCAAAAACTATGATGGTTATTAC
248 AAATCATGCAAAACTGA-ACGGGCCCTGAAACTCGTTTTTAACCAAAAACCGTGATGATTATTAC
* * * *
41071 ACGATTTCGGCTAAAATTTTGTAAAAATTGACC-CAAAGATGTTTCCTCAATTTTTGGTTAAAAT
312 ACGATTTCGGCTAAAATTTTGCAAAAATTGACCAAAAAGATATTTCCTCAATTTTTGGCTAAAAT
*
41135 ACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAATGGCTTTTGACGTTTCTAATATCAT
377 ACTCATAAAAAATATATAATTC-ATGCCAAAAAGATTGAAGGGCTTTTGACGTTTCTAATATCAT
* * * *
41200 TTTTCCTGTTTTTTCCAAATTAATTTTTAATTAAATCGAAATAAGATTTAGATGCTCGTAAAAAC
441 TTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAAAAA
* * * * * *
41265 AAATTCATAAATCCAATGTTGCTGAGGTTTGTTTAGATGA
506 AAATCCTTAAATCCAATGTGGCTAAGATTTGATTAGATGA
41305 TGTAAAGTAT
Statistics
Matches: 969, Mismatches: 187, Indels: 103
0.77 0.15 0.08
Matches are distributed among these distances:
648 3 0.00
649 43 0.04
650 9 0.01
651 18 0.02
652 236 0.24
653 9 0.01
654 29 0.03
655 9 0.01
656 122 0.13
657 41 0.04
658 4 0.00
660 5 0.01
664 3 0.00
665 2 0.00
666 39 0.04
667 243 0.25
668 84 0.09
669 25 0.03
670 4 0.00
671 1 0.00
672 40 0.04
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (657 bp):
AAAATTTTGCAAAAAATGACCAAAAATTTTTCCTCAATTTTTGATAAAATTCATCATAAAAATAT
ATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCATGCTTTTAATATTTTTTTCATATTTTCT
TAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTGTAAAAAAAATCTTAAATCAATGT
GGCTGAGATTTGATTAGATGAATATAGATATCTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAA
CTGAACGGGCCCTGAAACTCGTTTTTAACCAAAAACCGTGATGATTATTACACGATTTCGGCTAA
AATTTTGCAAAAATTGACCAAAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATA
TATAATTCATGCCAAAAAGATTGAAGGGCTTTTGACGTTTCTAATATCATTTTTCCTATTTTTTC
CAAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAAAAAAAATCCTTAAATCCA
ATGTGGCTAAGATTTGATTAGATGAATATAGATATTTGCAGGATGTCTGACGCCAAAAATCATGC
AAAACTGACCCGGGGCCCCGAAACGCAGTTTTAGCCCAAAAAAAAAAACCGTGATGTTACACGAT
TTCGACT
Found at i:45553 original size:22 final size:23
Alignment explanation
Indices: 45507--45562 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
45497 GGAATGTTAC
45507 AAAATTTCATAGGTTGGTTTATT
1 AAAATTTCATAGGTTGGTTTATT
*
45530 AAAATTTCATAGTTTGG-TTATT
1 AAAATTTCATAGGTTGGTTTATT
*
45552 AAAGTTTCATA
1 AAAATTTCATA
45563 TGAAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (23 bp):
AAAATTTCATAGGTTGGTTTATT
Found at i:45581 original size:22 final size:20
Alignment explanation
Indices: 45556--45632 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 20
45546 GTTATTAAAG
*
45556 TTTCATATGAAATTTATCACAA
1 TTTCATA-GAAA-TTATCAAAA
*
45578 TTTCATAGGTAATTATCAAAA
1 TTTCATA-GAAATTATCAAAA
* *
45599 TTTAATAGAATAGTTATTAAAA
1 TTTCATAGAA-A-TTATCAAAA
*
45621 TTTCATAAAAAT
1 TTTCATAGAAAT
45633 ATTCAATCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.07
21 16 0.36
22 26 0.58
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (20 bp):
TTTCATAGAAATTATCAAAA
Found at i:45694 original size:12 final size:12
Alignment explanation
Indices: 45677--45703 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45667 ATGTGAAAGC
45677 TAAAACTAGTAA
1 TAAAACTAGTAA
45689 TAAAACTAGTAA
1 TAAAACTAGTAA
45701 TAA
1 TAA
45704 GTGGTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (12 bp):
TAAAACTAGTAA
Found at i:49529 original size:8 final size:8
Alignment explanation
Indices: 49516--49541 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
49506 TGGTTTTCAA
49516 TATCTTAC
1 TATCTTAC
49524 TATCTTAC
1 TATCTTAC
49532 TATCTTAC
1 TATCTTAC
49540 TA
1 TA
49542 CTATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (8 bp):
TATCTTAC
Found at i:51499 original size:332 final size:329
Alignment explanation
Indices: 50894--53223 Score: 2046
Period size: 332 Copynumber: 7.0 Consensus size: 329
50884 AATTAATTCA
* * * * * * *
50894 AATTAGAAATTAATTTAGAAATATATGAAAAACGATATTAAAAATGTGAAAAGTCCTCCATTCTT
1 AATTAGAAATTAATTCAAAAAAATATGAAAAACGATATT-AAAAGGTGAAAAATCCTTCAATCTT
* * * ** *
50959 TTCGGCATTACATTATATATATTTTATGAGTATTTTATTCCAAAAATTG-AGAAAATATTTTTCG
65 TTTGGCATTAAATTATATATTTTTTATGAGTATTTT-GGCCAAAAATTGAAGAAAA-ATATTTCG
* * * *
51023 GGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAAT
128 GGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTTGGCTAAAAAC
* * * * *
51087 GCGTTTCAGGGCCCCAACTCAGTTTTGCAAGATTTTTGGCGCCGAGACTCCTTGAAATATCTATA
193 GCGTTCCGGGGCCCC-ACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAAATATCTATA
* * * *
51152 TTCATCTAATAAAATCTTAGTCACATTGCATTTAAGGATTT-TTTTTATGAGCATCTAAGTCTTG
257 TTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAA-TCTTG
51216 TTTCGATTT
321 TTTCGATTT
* *
51225 AATTAGAATTTATTTCAAAAAAAATATGAAAAACGATATTAAAAGGTTGAAAAATCCTTCAATCT
1 AATTAGAAATTAATTC-AAAAAAATATGAAAAACGATATTAAAAGG-TGAAAAATCCTTCAATCT
* * * * *
51290 TTTTGGCATTAAATTATATATTTTTTATAAGTATTGTGGCTAAAAATTTAAGAAATATATTTCGG
64 TTTTGGCATTAAATTATATATTTTTTATGAGTATTTTGGCCAAAAATTGAAGAAAAATATTTCGG
** * * * *
51355 GTCAGCTTTTCCAAAATTCTAGCTGAAATCGTGTAATAATCATCATGGTTTTTTGGCTAAAAACG
129 GTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTTGGCTAAAAACG
* * *
51420 CGTTCCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGCCGAGACTCTTTCAAATATCTATAT
194 CGTTCCGGGGCCCC-ACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAAATATCTATAT
* * * * * *
51485 TCATCTAATAAAATCTTAGCCACATTGCACTTAAGGATTTGTTTTTACAAGCATCTGAATCATAT
258 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-AATCTTGT
51550 TTCGATTT
322 TTCGATTT
* * * **
51558 AATTAGAAATTAATTC--GAAAATAGGAAAAACGATATTAGAAACGTGAAAAGCCCTTCAATCTT
1 AATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTA-AAAGGTGAAAAATCCTTCAATCTT
* *
51621 TTTGGCGTTAAATTATATATATATATTATGAGTATTTTGGCTC-AAAATT-AAGGAAAAATATTT
65 TTTGGCATTAAATTATATAT-T-TTTTATGAGTATTTTGGC-CAAAAATTGAA-GAAAAATATTT
*
51684 C-GGTCAATTTTTTTGCAAAA---T-----AAATCGTGTAATAATCATCTCGGTTTTTTTTTCTT
126 CGGGTC-A-TTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACGG-------TT-TT
* *** * *
51740 TTTGCTAAAAACGCGTTCCGGGGCCCTGGGTCAGTTTTGCATGATTTTTGGCACCAAAACTCCTT
181 TTGGCTAAAAACGCGTTCCGGGGCCC-CACTCAGTTTTGCATGATTTTTGGCGCCAAGACT-CTT
* * *
51805 T-AAATATCTATATTCATCTAATTAAAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTCACG
244 TGAAATATCTATATTCATCTAA-T-CAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACG
51869 AGCATCTCAATCTTGTTTCGATTT
307 AGCATCT-AATCTTGTTTCGATTT
* * * * * * * *
51893 AATTAGAAATTAATTCGGAAAGAGTAGGAAAAATGATATTAGAAGTGTAAAAAATCCTTCAATAT
1 AATTAGAAATTAATTC-AAAAAAATATGAAAAACGATATTAAAAG-GTGAAAAATCCTTCAATCT
* * ** * * * * * *
51958 TTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTATCCAAGAATTGATGAAATATCTTCCGA
64 TTTTGGCATTAAATTATATATTTTTTATGAGTATTTTGGCCAAAAATTGAAGAAAAATATTTCGG
* * * * *
52023 GTCAATTTTTGCATAATTTTAGCCGAAATCGAGTAATAATCACCACGATTTTTT-GCTAAAAACG
129 GTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTTGGCTAAAAACG
* * * * * * *
52087 TGTTCCAGGGCCTCAGGTCGGTTTTGCATGATTTTTGGCGCCAAGACT-TGTTGAGATATCCATA
194 CGTTCCGGGGCCCCA-CTCAGTTTTGCATGATTTTTGGCGCCAAGACTCT-TTGAAATATCTATA
**
52151 TTCATCTAATCAAATCTCAGCCACATTGCATTTTGGGATTTGTTTTTTACGAG---C--A-----
257 TTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTG-TTTTTACGAGCATCTAATCTTG
52206 -TTCGATTT
321 TTTCGATTT
* * * *
52214 AATTAGAAATTAATTCAGAAAAATATGAAAAA-TATATTAAAAGCGTGAAAAGTCCTCCAATCTT
1 AATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAG-GTGAAAAATCCTTCAATCTT
* * *
52278 TTTGGCATTAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAAT-TTT-GTT
65 TTTGGCATTAAATTATATATTTTTTATGAGTATTTTGGCCAAAAATTGAAGAAAAATATTTCG--
* * * *
52341 GGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAGTAACACCATCATGGTTTTTTTTTTGGTT
128 GGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAAT-A-ATCATCACGG----TTTTTTGGCT
* * * * *** *
52406 AAAAACGGGTTTCGGGGTCCCAGCTCAGTTTGGCATGATTTTTGGTATCAAGACTCCTTGAAATA
187 AAAAACGCGTTCCGGGGCCCCA-CTCAGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAAATA
* * * * *
52471 TCTATATTAATCTAATCAAATCTCAACCACAATGCATTTAAGGGTTTATTTTTACGAGCATCTGA
251 TCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-A
* *
52536 ATTTTGTTTAGATTT
315 ATCTTGTTTCGATTT
* * * *
52551 AATTAGAAATTAATTCAGAAAAATATGAAAAACTATATTAAAAGCGTGAATAATCCTCCAATCTT
1 AATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAG-GTGAAAAATCCTTCAATCTT
* * * * * * * * *
52616 TTTGG-AGTTGAATTATATA-TTTGTATAAGTATTCTAGACGAAAA-TGAGGAAAAATATTTCCG
65 TTTGGCA-TTAAATTATATATTTTTTATGAGTATTTTGGCCAAAAATTGAAGAAAAATATTTCGG
* * * * * *
52678 GTTAGTTTTTGCAAAATATTAGCCGAAATCGTGTATGTTAGTCGAAATCACAG-TTTTTGGCTAA
129 GTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTA--ATAATC---ATCACGGTTTTTTGGCTAA
* * * * **
52742 AAACGCGTTTCGGGGCCCCAGGTCAGTTTTGCA-GGTTTTTGGCGCTAAGACTCCTTAAAATATA
189 AAACGCGTTCCGGGGCCCCA-CTCAGTTTTGCATGATTTTTGGCGCCAAGACT-CTTTGAA-ATA
* * * *
52806 TCTATATTCATCTAACCAAATCTTAGCCACATTGTATTTAAGGATTTGTTTTTACGAGTATCTAA
251 TCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-A
52871 ATCTTGTTTCGATTT
315 ATCTTGTTTCGATTT
* * * * * * * * * *
52886 AATCAGCAATGAATTTGGAAATAAAATAGGGAAAACGATATTAGAAGCATGAAAAAGGCTTTCAA
1 AATTAGAAATTAA-TT-CAAA-AAAATATGAAAAACGATATTAAAAG-GTGAAAAA-TCCTTCAA
* * * * * * * * *
52951 T-TTTTTGGCGTTGAATTATATATTTTTTTATTATTATTTTCGCTAGAAATTGAGGAAAAATCTT
61 TCTTTTTGGCATTAAATTATATA-TTTTTTATGAGTATTTTGGCCAAAAATTGAAGAAAAATATT
** * * * * *
53015 TTTGGTCAATTTTTGCAAAATTTTAGCCGAAATAGTGTAGTAA-CTATCACAG-TTTTTGGTTAA
125 TCGGGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATC-ATCACGGTTTTTTGGCTAA
* * * * ** *
53078 AAACGCG-TCTCGAGGCCCAACTCAGTTTTGCATGATTTTCGGTGTTAAGACTCCTTGAAATATC
189 AAACGCGTTC-CGGGGCCCCACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAAATATC
* * * * *
53142 TATTTTCATATTACCAAATCTCAGCCACATTAG-ATTTAAGAATTTGTTTTTACGAGCATCTAAA
253 TATATTCATCTAATCAAATCTCAGCCACATT-GCATTTAAGGATTTGTTTTTACGAGCATCT-AA
*
53206 TCTTGTCTCGATTT
316 TCTTGTTTCGATTT
53220 AATT
1 AATT
53224 GTAA
Statistics
Matches: 1644, Mismatches: 267, Indels: 173
0.79 0.13 0.08
Matches are distributed among these distances:
317 1 0.00
318 2 0.00
319 108 0.07
320 12 0.01
321 30 0.02
325 37 0.02
326 93 0.06
327 1 0.00
328 1 0.00
330 58 0.04
331 85 0.05
332 248 0.15
333 148 0.09
334 194 0.12
335 185 0.11
336 126 0.08
337 72 0.04
338 149 0.09
339 13 0.01
340 16 0.01
341 46 0.03
343 19 0.01
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (329 bp):
AATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAGGTGAAAAATCCTTCAATCTTT
TTGGCATTAAATTATATATTTTTTATGAGTATTTTGGCCAAAAATTGAAGAAAAATATTTCGGGT
CATTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTTGGCTAAAAACGCG
TTCCGGGGCCCCACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAAATATCTATATTCA
TCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAATCTTGTTTCG
ATTT
Found at i:52836 original size:993 final size:983
Alignment explanation
Indices: 50237--53193 Score: 2760
Period size: 993 Copynumber: 3.0 Consensus size: 983
50227 TTTTACGAGC
* * * * * * *
50237 AAATAAGAAATACGATATTAAAAGTGTGGAAAACCCTCCAATGTTTTTGGCGTTCAATTGTA-A-
1 AAATATGAAAAACGATATTAAAAG-GT-GAAAATCCTCCAATCTTTTTGGCATTAAATTATATAT
* * *
50300 ATTTTACGAGTATATTAGCTAAAAATTGAGGAGAAATCTTTCGAT--TCAATTTTTGCAAAATTT
64 ATTTTATGAGTATTTTAGCTAAAAATTGAGGAAAAAT-TTT-G-TGGTCAATTTTTGCAAAATTT
* * * * * *
50363 TAGCCGAAATCAT-AAACTAACTAACCATCACGG-TTTTTGGCTAAAAACGTGTTGCGGAGACCC
126 TAGCCGAAATCGTGTAA-TAAC--ACCATCATGGTTTTTTGGCTAAAAACGCGTTCCGG-GGCCC
* * * * *
50426 GCCTCAATTTTGCATGATTTTTGGCTTTGAGACTACTTGAAAAATCTATATTCATCTAATCAAAT
187 GACTCAGTTTTGCATGATTTTTGG-TTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAAT
* * **
50491 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTTC
251 CTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * ** *
50556 TAATTAAATCGGAAAAAATAGGAAAAACGATATTAGAAACGAAAAAAGCCCTTCAATCTTTTTAG
316 AAATTAATTC-G-AAAAATAGGAAAAACGATATTAGAAACGTGAAAAGCCCTTCAATCTTTTTGG
* * * * *
50621 TGTTGAATTATATAATTTTTATAAGTATTTTAGCAAAAATTGAGGAAATATCTTTCGGGTCAATT
379 AGTTGAATTATAT-ATTTTTATAAGTA-TTTAGCAAAAATTGAGGAAAAATATTTCCGGTAAATT
* * * *
50686 TTTACAAAA-ATTTAGCTGAAATCGTGTA-ATA-ACTATCACGGTTTTTGGCT---AAGGCGTTC
442 TTTGCAAAATA-TTAGCTGAAATCGTGTATTTAGTCTATCAC-GTTTTTGGCTAAAAACGCGTTC
* ** * *
50745 CGGAGCCCCAACTCA-TATTTGCATGATTTTTGGCGCCT-AGACTCCTTGAGATAT-TC-ATATA
505 CGGGGCCCCAGGTCAGT-TTTGCATGATTTTTGGCG-CTAAGACTCCTT-AAATATATCTATATT
* * * *
50806 CATCTAATCAAATCTCAGCCACATTGGA-TTAAGAATTTGTTTTTATGAGCATCTGAATCTTGTT
567 CATCTAAACAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTT
* * * *
50870 TCGATTTAATTAAAAATTAATTCAAATTAGAAATTAATTTAGAAATATATGAAAAACGATATTAA
632 TCGATTTAATTAGAAATTAATTC------G----GAA--TAG--A-ATAGGAAAAACGATATTAG
* * * * *
50935 AAATGTGAAAAGTCC-TCCATTCTTTTCGGCATT-ACATTATATATATTTTATGAGTATTTTATT
682 AAGTGTAAAAAGTCCTTCAATT-TTTT-GGCGTTGA-ATTATATATTTTTTATGAGTATTTTA-T
* * * * * *
50998 CCAAAAATTGAGAAAATATTTTTCGGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAA
743 CCAAGAATTGAG-AAATATCTTTC-GGTCAATTTTTGCAAAATTTTAGCCGAAATCGAGTAATAA
* * * *
51063 CCATCACGGTTTTTGGCTAAAAATGCGTTTCAGGGCCCCAACTCAGTTTTGCAAGATTTTTGGCG
806 CCACCACGATTTTTGGCTAAAAACGCGTTCCAGGGCCCCAACTCAGTTTTGCAAGATTTTTGGCG
* * * *
51128 CCGAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGTCACATTGCATTTAAGGATTT
871 CCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATTGCATTTAAGGATTT
* * *
51193 TTTTTATGAGCATCTAAGTCTTGTTTCGATTTAATTAGAATTTATTTCAAAAA
936 TTTTTAT--G-ATCTAAGTC-T-ATTCGATTTAATTAGAAATTAATTCAAAAA
*
51246 AAATATGAAAAACGATATTAAAAGGTTGAAAAATCCTTCAATCTTTTTGGCATTAAATTATATAT
1 AAATATGAAAAACGATATTAAAAGG-TG-AAAATCCTCCAATCTTTTTGGCATTAAATTATATAT
* * * * * * * ** * *
51311 TTTTTATAAGTATTGTGGCTAAAAATTTAAGAAATATATTTCG-GGTCAGCTTTTCCAAAATTCT
64 ATTTTATGAGTATTTTAGCTAAAAATTGAGGAAA-A-ATTTTGTGGTCAATTTTTGCAAAATTTT
* *
51375 AGCTGAAATCGTGTAAT-A-ATCATCATGGTTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACT
127 AGCCGAAATCGTGTAATAACACCATCATGGTTTTTTGGCTAAAAACGCGTTCCGGGG-CCCGACT
* ** * * * *
51438 CAGTTTTACATGATTTTTGGCGCCGAGACTCTTTCAAATATCTATATTCATCTAATAAAATCTTA
191 CAGTTTTGCATGATTTTTGG-TTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCA
* * * *
51503 GCCACATTGCACTTAAGGATTTGTTTTTACAAGCATCTGAATCATATTTCGATTTAATTAGAAAT
255 GCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAT
* *
51568 TAATTCG-AAAATAGGAAAAACGATATTAGAAACGTGAAAAGCCCTTCAATCTTTTTGGCGTTAA
320 TAATTCGAAAAATAGGAAAAACGATATTAGAAACGTGAAAAGCCCTTCAATCTTTTTGGAGTTGA
* * * * *
51632 ATTATATATATATATTATGAGTATTTTGGCTCAAAATTAAGGAAAAATATTT-CGGTCAATTTTT
385 ATTATATAT-T-T-TTATAAGTA-TTTAGC-AAAAATTGAGGAAAAATATTTCCGGT-AA-ATTT
* * * * * * **
51696 TTGCAAAATA-AATCGTGTAATAATCATCTCGGTTT--T-TTTTTC-TTTTT-GCTAAAAACGCG
443 TTGCAAAATATTAGC-TG--A-AATCGTGT--ATTTAGTCTATCACGTTTTTGGCTAAAAACGCG
** * * * *
51755 TTCCGGGGCCCTGGGTCAGTTTTGCATGATTTTTGGCACCAAAACTCCTTTAA-ATATCTATATT
502 TTCCGGGGCCCCAGGTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTTAAATATATCTATATT
* * *
51819 CATCTAATTAAAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTCACGAGCATCTCAATCTTG
567 CATCTAA--ACAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTG
* * *
51884 TTTCGATTTAATTAGAAATTAATTCGGAA-AGAGTAGGAAAAATGATATTAGAAGTGTAAAAAAT
630 TTTCGATTTAATTAGAAATTAATTCGGAATAGAATAGGAAAAACGATATTAGAAGTGTAAAAAGT
51948 CCTTCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTATCCAAGAATTGATGAAA
695 CCTTCAAT-TTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTATCCAAGAATTGA-GAAA
* * * *
52013 TATCTTCCGAGTCAATTTTTGCATAATTTTAGCCGAAATCGAGTAATAATCACCACGATTTTTTG
758 TATCTTTCG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGAGTAATAACCACCACGATTTTTGG
* * ** * * ** *
52078 CTAAAAACGTGTTCCAGGGCCTCAGGTCGGTTTTGCATGATTTTTGGCGCCAAGACTTGTTGAGA
822 CTAAAAACGCGTTCCAGGGCCCCAACTCAGTTTTGCAAGATTTTTGGCGCCAAGACTCCTTGAAA
* ** *
52143 TATCCATATTCATCTAATCAAATCTCAGCCACATTGCATTTTGGGATTTGTTTTT-T-A-C-GAG
887 TATCCATATTCATCTAATAAAATCTCAGCCACATTGCATTTAAGGATTT-TTTTTATGATCTAAG
*
52204 -C-ATTCGATTTAATTAGAAATTAATTC-AGAA
951 TCTATTCGATTTAATTAGAAATTAATTCAAAAA
*
52234 AAATATGAAAAA-TATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCATTAAATTATATAT
1 AAATATGAAAAACGATATTAAAAG-GTGAAAA-TCCTCCAATCTTTTTGGCATTAAATTATATAT
* *
52298 ATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATTTTGTTGGTCATTTTTTGCAAAATTTTA
64 ATTTTATGAGTATTTTAGCTAAAAATTGAGGAAAAATTTTG-TGGTCAATTTTTGCAAAATTTTA
* * * *
52363 GCCGAAATCGTGTAGTAACACCATCATGGTTTTTTTTTTGGTTAAAAACGGGTTTCGGGGTCCC-
128 GCCGAAATCGTGTAATAACACCATCATGG----TTTTTTGGCTAAAAACGCGTTCCGGGG-CCCG
* * *
52427 AGCTCAGTTTGGCATGATTTTTGGTATCAAGACTCCTTGAAATATCTATATTAATCTAATCAAAT
188 A-CTCAGTTTTGCATGATTTTTGGT-TCGAGACTCCTTGAAATATCTATATTCATCTAATCAAAT
* * * * * *
52492 CTCAACCACAATGCATTTAAGGGTTTATTTTTACGAGCATCTGAATTTTGTTTAGATTTAATTAG
251 CTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * * *
52557 AAATTAATTCAGAAAAATATGAAAAACTATATTA-AAAGCGTGAATAA-TCCTCCAATCTTTTTG
316 AAATTAATTC-GAAAAATAGGAAAAACGATATTAGAAA-CGTGAA-AAGCCCTTCAATCTTTTTG
* * * *
52620 GAGTTGAATTATATATTTGTATAAGTATTCTAGACGAAAA-TGAGGAAAAATATTTCCGGTTAGT
378 GAGTTGAATTATATATTTTTATAAGTATT-TAG-CAAAAATTGAGGAAAAATATTTCCGGTAAAT
* *
52684 TTTTGCAAAATATTAGCCGAAATCGTGTATGTTAGTCGAAATCACAGTTTTTGGCTAAAAACGCG
441 TTTTGCAAAATATTAGCTGAAATCGTGTAT-TTAGTC--TATCAC-GTTTTTGGCTAAAAACGCG
* *
52749 TTTCGGGGCCCCAGGTCAGTTTTGCA-GGTTTTTGGCGCTAAGACTCCTTAAAATATATCTATAT
502 TTCCGGGGCCCCAGGTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCTT-AAATATATCTATAT
* * * *
52813 TCATCTAACCAAATCTTAGCCACATTGTATTTAAGGATTTGTTTTTACGAGTATCTAAATCTTGT
566 TCATCTAAACAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGT
* * * * * *
52878 TTCGATTTAATCAGCAATGAATTTGGAAATAAAATAGGGAAAACGATATTAGAAGCATG-AAAAA
631 TTCGATTTAATTAGAAATTAATTCGG-AATAGAATAGGAAAAACGATATTAGAAG--TGTAAAAA
* * * * *
52942 GGCTTTCAATTTTTTGGCGTTGAATTATATATTTTTT-T-ATTATTATTTTCGCTAGAAATTGAG
693 GTCCTTCAATTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT-TTATC-CAAG-AATTGA-
* * * * * * *
53005 GAAAAATCTTTTTGGTCAATTTTTGCAAAATTTTAGCCGAAATAGTGTAGTAACTATCAC-AGTT
754 GAAATATC-TTTCGGTCAATTTTTGCAAAATTTTAGCCGAAATCGAGTAATAACCACCACGA-TT
* * * * * **
53069 TTTGGTTAAAAACGCGTCTCGA-GG-CCCAACTCAGTTTTGCATGATTTTCGGTGTTAAGACTCC
817 TTTGGCTAAAAACGCGT-TCCAGGGCCCCAACTCAGTTTTGCAAGATTTTTGGCGCCAAGACTCC
* * * * ** *
53132 TTGAAATATCTATTTTCATATTACCAAATCTCAGCCACATTAG-ATTTAAGAATTTGTTTTTA
881 TTGAAATATCCATATTCATCTAATAAAATCTCAGCCACATT-GCATTTAAGGATTT-TTTTTA
53194 CGAGCATCTA
Statistics
Matches: 1595, Mismatches: 269, Indels: 181
0.78 0.13 0.09
Matches are distributed among these distances:
985 6 0.00
986 7 0.00
987 108 0.07
988 19 0.01
989 31 0.02
990 14 0.01
991 21 0.01
992 19 0.01
993 249 0.16
994 50 0.03
995 203 0.13
996 85 0.05
997 8 0.01
998 1 0.00
999 163 0.10
1000 63 0.04
1001 10 0.01
1002 1 0.00
1003 2 0.00
1004 2 0.00
1005 60 0.04
1006 3 0.00
1007 27 0.02
1008 165 0.10
1009 62 0.04
1010 7 0.00
1011 60 0.04
1012 15 0.01
1013 59 0.04
1014 1 0.00
1015 20 0.01
1016 54 0.03
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (983 bp):
AAATATGAAAAACGATATTAAAAGGTGAAAATCCTCCAATCTTTTTGGCATTAAATTATATATAT
TTTATGAGTATTTTAGCTAAAAATTGAGGAAAAATTTTGTGGTCAATTTTTGCAAAATTTTAGCC
GAAATCGTGTAATAACACCATCATGGTTTTTTGGCTAAAAACGCGTTCCGGGGCCCGACTCAGTT
TTGCATGATTTTTGGTTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACA
TTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC
GAAAAATAGGAAAAACGATATTAGAAACGTGAAAAGCCCTTCAATCTTTTTGGAGTTGAATTATA
TATTTTTATAAGTATTTAGCAAAAATTGAGGAAAAATATTTCCGGTAAATTTTTGCAAAATATTA
GCTGAAATCGTGTATTTAGTCTATCACGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCAGGTCAG
TTTTGCATGATTTTTGGCGCTAAGACTCCTTAAATATATCTATATTCATCTAAACAAATCTCAGC
CACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTA
ATTCGGAATAGAATAGGAAAAACGATATTAGAAGTGTAAAAAGTCCTTCAATTTTTTGGCGTTGA
ATTATATATTTTTTATGAGTATTTTATCCAAGAATTGAGAAATATCTTTCGGTCAATTTTTGCAA
AATTTTAGCCGAAATCGAGTAATAACCACCACGATTTTTGGCTAAAAACGCGTTCCAGGGCCCCA
ACTCAGTTTTGCAAGATTTTTGGCGCCAAGACTCCTTGAAATATCCATATTCATCTAATAAAATC
TCAGCCACATTGCATTTAAGGATTTTTTTTATGATCTAAGTCTATTCGATTTAATTAGAAATTAA
TTCAAAAA
Done.