Multiple sequence alignment - TraesCS1D01G050100

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1D01G050100 chr1D 100.000 2721 0 0 1 2721 30241419 30238699 0.000000e+00 5025
1 TraesCS1D01G050100 chr1D 86.187 514 48 8 2219 2721 222591107 222591608 3.990000e-148 534
2 TraesCS1D01G050100 chr1D 84.848 528 41 9 2209 2721 335396945 335397448 1.880000e-136 496
3 TraesCS1D01G050100 chr1B 91.382 1462 76 20 489 1907 48905452 48903998 0.000000e+00 1956
4 TraesCS1D01G050100 chr1B 87.226 501 36 12 1 484 48909051 48908562 1.840000e-151 545
5 TraesCS1D01G050100 chr1B 84.783 506 35 10 1 489 48905982 48905502 1.140000e-128 470
6 TraesCS1D01G050100 chr1B 86.469 303 15 10 289 568 48907099 48906800 2.630000e-80 309
7 TraesCS1D01G050100 chr1B 92.398 171 11 2 579 748 48908564 48908395 2.710000e-60 243
8 TraesCS1D01G050100 chr1A 90.856 1378 53 29 603 1927 30295453 30294096 0.000000e+00 1779
9 TraesCS1D01G050100 chr1A 87.234 564 49 13 6 569 30297983 30297443 2.980000e-174 621
10 TraesCS1D01G050100 chr1A 90.708 226 17 4 2224 2449 506497130 506496909 5.700000e-77 298
11 TraesCS1D01G050100 chr1A 95.425 153 6 1 603 754 30296637 30296485 2.710000e-60 243
12 TraesCS1D01G050100 chr3A 87.984 516 39 10 2219 2721 701920290 701919785 3.020000e-164 588
13 TraesCS1D01G050100 chr3A 87.189 523 41 13 2220 2721 8227895 8227378 3.040000e-159 571
14 TraesCS1D01G050100 chr3A 86.654 517 51 10 2219 2721 208743116 208742604 8.510000e-155 556
15 TraesCS1D01G050100 chr3A 82.027 523 65 15 2216 2721 20831650 20831140 4.190000e-113 418
16 TraesCS1D01G050100 chr3D 87.023 524 40 16 2220 2721 1081576 1082093 1.410000e-157 566
17 TraesCS1D01G050100 chr3D 83.654 520 55 22 2221 2721 461570169 461569661 1.910000e-126 462
18 TraesCS1D01G050100 chrUn 84.749 518 47 19 2216 2721 27687825 27687328 8.760000e-135 490
19 TraesCS1D01G050100 chr2D 84.321 523 52 16 2217 2721 144433326 144433836 4.070000e-133 484
20 TraesCS1D01G050100 chr5D 83.748 523 57 15 2219 2721 79270100 79269586 1.140000e-128 470
21 TraesCS1D01G050100 chr3B 80.561 535 54 36 2219 2721 822095336 822095852 1.540000e-97 366
22 TraesCS1D01G050100 chr2B 80.115 523 71 18 2220 2719 59040861 59040349 2.580000e-95 359
23 TraesCS1D01G050100 chr6A 78.937 527 80 20 2216 2719 598018384 598018902 2.020000e-86 329


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G050100 chr1D 30238699 30241419 2720 True 5025.0 5025 100.000000 1 2721 1 chr1D.!!$R1 2720
1 TraesCS1D01G050100 chr1D 222591107 222591608 501 False 534.0 534 86.187000 2219 2721 1 chr1D.!!$F1 502
2 TraesCS1D01G050100 chr1D 335396945 335397448 503 False 496.0 496 84.848000 2209 2721 1 chr1D.!!$F2 512
3 TraesCS1D01G050100 chr1B 48903998 48909051 5053 True 704.6 1956 88.451600 1 1907 5 chr1B.!!$R1 1906
4 TraesCS1D01G050100 chr1A 30294096 30297983 3887 True 881.0 1779 91.171667 6 1927 3 chr1A.!!$R2 1921
5 TraesCS1D01G050100 chr3A 701919785 701920290 505 True 588.0 588 87.984000 2219 2721 1 chr3A.!!$R4 502
6 TraesCS1D01G050100 chr3A 8227378 8227895 517 True 571.0 571 87.189000 2220 2721 1 chr3A.!!$R1 501
7 TraesCS1D01G050100 chr3A 208742604 208743116 512 True 556.0 556 86.654000 2219 2721 1 chr3A.!!$R3 502
8 TraesCS1D01G050100 chr3A 20831140 20831650 510 True 418.0 418 82.027000 2216 2721 1 chr3A.!!$R2 505
9 TraesCS1D01G050100 chr3D 1081576 1082093 517 False 566.0 566 87.023000 2220 2721 1 chr3D.!!$F1 501
10 TraesCS1D01G050100 chr3D 461569661 461570169 508 True 462.0 462 83.654000 2221 2721 1 chr3D.!!$R1 500
11 TraesCS1D01G050100 chr2D 144433326 144433836 510 False 484.0 484 84.321000 2217 2721 1 chr2D.!!$F1 504
12 TraesCS1D01G050100 chr5D 79269586 79270100 514 True 470.0 470 83.748000 2219 2721 1 chr5D.!!$R1 502
13 TraesCS1D01G050100 chr3B 822095336 822095852 516 False 366.0 366 80.561000 2219 2721 1 chr3B.!!$F1 502
14 TraesCS1D01G050100 chr2B 59040349 59040861 512 True 359.0 359 80.115000 2220 2719 1 chr2B.!!$R1 499
15 TraesCS1D01G050100 chr6A 598018384 598018902 518 False 329.0 329 78.937000 2216 2719 1 chr6A.!!$F1 503

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
944 5175 0.101399 CCACTCGCGCTGTCTCTTAT 59.899 55.0 5.56 0.0 0.0 1.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2073 6354 0.107116 AACCAAGGTGTGCGTTACCA 60.107 50.0 6.61 0.0 40.74 3.25 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 8.433126 CACGTAGGTTCTGAAACTAACAAATAG 58.567 37.037 16.28 5.65 35.61 1.73
50 51 7.173390 GGTTCTGAAACTAACAAATAGCTCAGT 59.827 37.037 0.00 0.00 41.41 3.41
56 58 8.451908 AAACTAACAAATAGCTCAGTGAAAGT 57.548 30.769 0.00 0.00 34.78 2.66
61 63 5.701290 ACAAATAGCTCAGTGAAAGTGGTAC 59.299 40.000 0.00 0.00 38.01 3.34
65 67 3.006967 AGCTCAGTGAAAGTGGTACGAAT 59.993 43.478 0.00 0.00 38.01 3.34
101 103 9.349713 TGGTGCTTTCTAAAATCTAGAAAAAGA 57.650 29.630 0.00 0.00 41.35 2.52
229 231 6.713450 TGGAAAACTTACTAGAATGTGGGAAC 59.287 38.462 0.00 0.00 0.00 3.62
235 237 3.926616 ACTAGAATGTGGGAACGAACAG 58.073 45.455 0.00 0.00 0.00 3.16
250 252 2.995258 CGAACAGAATGCAATTTTGGGG 59.005 45.455 0.00 0.00 42.25 4.96
267 269 3.536570 TGGGGCTGCAAAAGTTTAAAAC 58.463 40.909 0.50 0.00 0.00 2.43
374 377 9.781834 TCTTGATTGTTGCTAAATTATTTACCG 57.218 29.630 0.00 0.00 0.00 4.02
484 3049 8.581263 CATGTCATTTTCATCTGATTTCGAAAC 58.419 33.333 13.81 8.03 0.00 2.78
517 3179 2.814336 GGTGAGTGGAATTGGAGTTCAC 59.186 50.000 0.00 0.00 34.30 3.18
525 3187 1.892209 ATTGGAGTTCACGGACCAAC 58.108 50.000 0.00 0.00 43.60 3.77
531 3193 2.225727 GAGTTCACGGACCAACAAATCC 59.774 50.000 0.00 0.00 0.00 3.01
654 4873 9.411801 GATCACTAGATAGCATCGATTTGTTTA 57.588 33.333 0.00 0.00 33.72 2.01
810 5035 2.005266 AGCACTGGGAGCATGGGAT 61.005 57.895 0.00 0.00 0.00 3.85
944 5175 0.101399 CCACTCGCGCTGTCTCTTAT 59.899 55.000 5.56 0.00 0.00 1.73
945 5176 1.333931 CCACTCGCGCTGTCTCTTATA 59.666 52.381 5.56 0.00 0.00 0.98
948 5181 4.152526 CACTCGCGCTGTCTCTTATATAC 58.847 47.826 5.56 0.00 0.00 1.47
962 5199 7.122948 GTCTCTTATATACATACCCCACTCCAG 59.877 44.444 0.00 0.00 0.00 3.86
964 5201 2.190398 ATACATACCCCACTCCAGCA 57.810 50.000 0.00 0.00 0.00 4.41
1116 5353 2.126580 GAGTTCGTCCGGTCCGTG 60.127 66.667 11.06 1.77 0.00 4.94
1297 5540 0.803117 CAGCTACACCTTCTCGACGA 59.197 55.000 0.00 0.00 0.00 4.20
1445 5691 3.062466 CTCGAGTGGCGGTGGAGA 61.062 66.667 3.62 0.00 41.33 3.71
1515 5764 2.603776 AACGGGAGGAGGAAGCGT 60.604 61.111 0.00 0.00 0.00 5.07
1687 5936 0.546122 TGCATGCCGGACTTATCCTT 59.454 50.000 16.68 0.00 43.73 3.36
1688 5937 1.765904 TGCATGCCGGACTTATCCTTA 59.234 47.619 16.68 0.00 43.73 2.69
1692 5941 1.679680 TGCCGGACTTATCCTTAGTCG 59.320 52.381 5.05 0.00 43.73 4.18
1693 5942 1.952296 GCCGGACTTATCCTTAGTCGA 59.048 52.381 5.05 0.00 43.73 4.20
1698 5947 5.462398 CCGGACTTATCCTTAGTCGATTTTG 59.538 44.000 0.00 0.00 43.73 2.44
1699 5948 5.462398 CGGACTTATCCTTAGTCGATTTTGG 59.538 44.000 0.00 0.00 43.73 3.28
1700 5949 5.236695 GGACTTATCCTTAGTCGATTTTGGC 59.763 44.000 0.00 0.00 42.31 4.52
1701 5950 5.741011 ACTTATCCTTAGTCGATTTTGGCA 58.259 37.500 0.00 0.00 0.00 4.92
1713 5967 6.708054 AGTCGATTTTGGCATCTATTTCCTAG 59.292 38.462 0.00 0.00 0.00 3.02
1714 5968 6.483640 GTCGATTTTGGCATCTATTTCCTAGT 59.516 38.462 0.00 0.00 0.00 2.57
1717 5974 9.003658 CGATTTTGGCATCTATTTCCTAGTAAT 57.996 33.333 0.00 0.00 0.00 1.89
1789 6050 6.864360 ACAGTAGTAGCTTCTATTCGTAGG 57.136 41.667 3.17 0.00 0.00 3.18
1797 6058 6.716934 AGCTTCTATTCGTAGGAAATGAGA 57.283 37.500 1.37 3.33 35.40 3.27
1878 6159 6.237915 CGGTATGGTTACTTATTCGGTGTTTC 60.238 42.308 0.00 0.00 0.00 2.78
1885 6166 7.767659 GGTTACTTATTCGGTGTTTCTTATCCT 59.232 37.037 0.00 0.00 0.00 3.24
1894 6175 4.083484 GGTGTTTCTTATCCTTCAACCGTG 60.083 45.833 0.00 0.00 0.00 4.94
1907 6188 5.121768 CCTTCAACCGTGGAATAACAGTTAG 59.878 44.000 0.00 0.00 0.00 2.34
1908 6189 5.217978 TCAACCGTGGAATAACAGTTAGT 57.782 39.130 0.00 0.00 0.00 2.24
1909 6190 6.343716 TCAACCGTGGAATAACAGTTAGTA 57.656 37.500 0.00 0.00 0.00 1.82
1952 6233 6.814506 ACCTAATAATACTAGACGATGCGT 57.185 37.500 0.00 0.00 45.10 5.24
1953 6234 7.211966 ACCTAATAATACTAGACGATGCGTT 57.788 36.000 0.00 0.00 41.37 4.84
1954 6235 7.655490 ACCTAATAATACTAGACGATGCGTTT 58.345 34.615 0.00 0.00 41.37 3.60
1955 6236 8.139989 ACCTAATAATACTAGACGATGCGTTTT 58.860 33.333 0.00 0.00 41.37 2.43
1956 6237 9.616634 CCTAATAATACTAGACGATGCGTTTTA 57.383 33.333 0.00 0.00 41.37 1.52
1958 6239 8.861033 AATAATACTAGACGATGCGTTTTACA 57.139 30.769 0.00 0.00 41.37 2.41
1959 6240 6.564854 AATACTAGACGATGCGTTTTACAC 57.435 37.500 0.00 0.00 41.37 2.90
1960 6241 4.170292 ACTAGACGATGCGTTTTACACT 57.830 40.909 0.00 0.00 41.37 3.55
1961 6242 4.553323 ACTAGACGATGCGTTTTACACTT 58.447 39.130 0.00 0.00 41.37 3.16
1962 6243 4.620184 ACTAGACGATGCGTTTTACACTTC 59.380 41.667 0.00 0.00 41.37 3.01
1963 6244 3.650139 AGACGATGCGTTTTACACTTCT 58.350 40.909 0.00 0.00 41.37 2.85
1964 6245 3.428870 AGACGATGCGTTTTACACTTCTG 59.571 43.478 0.00 0.00 41.37 3.02
1965 6246 3.128349 ACGATGCGTTTTACACTTCTGT 58.872 40.909 0.00 0.00 36.35 3.41
1966 6247 4.300803 ACGATGCGTTTTACACTTCTGTA 58.699 39.130 0.00 0.00 36.35 2.74
1967 6248 4.927425 ACGATGCGTTTTACACTTCTGTAT 59.073 37.500 0.00 0.00 36.35 2.29
1968 6249 5.407387 ACGATGCGTTTTACACTTCTGTATT 59.593 36.000 0.00 0.00 36.35 1.89
1969 6250 6.073440 ACGATGCGTTTTACACTTCTGTATTT 60.073 34.615 0.00 0.00 36.35 1.40
1970 6251 6.795114 CGATGCGTTTTACACTTCTGTATTTT 59.205 34.615 0.00 0.00 32.70 1.82
1971 6252 7.006210 CGATGCGTTTTACACTTCTGTATTTTC 59.994 37.037 0.00 0.00 32.70 2.29
1972 6253 6.130723 TGCGTTTTACACTTCTGTATTTTCG 58.869 36.000 0.00 0.00 32.70 3.46
1973 6254 6.131389 GCGTTTTACACTTCTGTATTTTCGT 58.869 36.000 0.00 0.00 32.70 3.85
1974 6255 6.630045 GCGTTTTACACTTCTGTATTTTCGTT 59.370 34.615 0.00 0.00 32.70 3.85
1975 6256 7.164662 GCGTTTTACACTTCTGTATTTTCGTTT 59.835 33.333 0.00 0.00 32.70 3.60
1976 6257 8.458328 CGTTTTACACTTCTGTATTTTCGTTTG 58.542 33.333 0.00 0.00 32.70 2.93
1977 6258 7.901874 TTTACACTTCTGTATTTTCGTTTGC 57.098 32.000 0.00 0.00 32.70 3.68
1978 6259 4.523813 ACACTTCTGTATTTTCGTTTGCG 58.476 39.130 0.00 0.00 39.92 4.85
1979 6260 3.906008 CACTTCTGTATTTTCGTTTGCGG 59.094 43.478 0.00 0.00 38.89 5.69
1980 6261 3.562557 ACTTCTGTATTTTCGTTTGCGGT 59.437 39.130 0.00 0.00 38.89 5.68
1981 6262 3.799137 TCTGTATTTTCGTTTGCGGTC 57.201 42.857 0.00 0.00 38.89 4.79
1982 6263 2.481185 TCTGTATTTTCGTTTGCGGTCC 59.519 45.455 0.00 0.00 38.89 4.46
1983 6264 2.482721 CTGTATTTTCGTTTGCGGTCCT 59.517 45.455 0.00 0.00 38.89 3.85
1984 6265 2.224549 TGTATTTTCGTTTGCGGTCCTG 59.775 45.455 0.00 0.00 38.89 3.86
1985 6266 0.596082 ATTTTCGTTTGCGGTCCTGG 59.404 50.000 0.00 0.00 38.89 4.45
1986 6267 0.748729 TTTTCGTTTGCGGTCCTGGT 60.749 50.000 0.00 0.00 38.89 4.00
1987 6268 1.161563 TTTCGTTTGCGGTCCTGGTC 61.162 55.000 0.00 0.00 38.89 4.02
1988 6269 2.030562 CGTTTGCGGTCCTGGTCT 59.969 61.111 0.00 0.00 0.00 3.85
1989 6270 1.180456 TCGTTTGCGGTCCTGGTCTA 61.180 55.000 0.00 0.00 38.89 2.59
1990 6271 0.320073 CGTTTGCGGTCCTGGTCTAA 60.320 55.000 0.00 0.00 0.00 2.10
1991 6272 1.674817 CGTTTGCGGTCCTGGTCTAAT 60.675 52.381 0.00 0.00 0.00 1.73
1992 6273 2.007608 GTTTGCGGTCCTGGTCTAATC 58.992 52.381 0.00 0.00 0.00 1.75
1993 6274 1.271856 TTGCGGTCCTGGTCTAATCA 58.728 50.000 0.00 0.00 0.00 2.57
1994 6275 1.496060 TGCGGTCCTGGTCTAATCAT 58.504 50.000 0.00 0.00 0.00 2.45
1995 6276 1.412710 TGCGGTCCTGGTCTAATCATC 59.587 52.381 0.00 0.00 0.00 2.92
1996 6277 1.412710 GCGGTCCTGGTCTAATCATCA 59.587 52.381 0.00 0.00 0.00 3.07
1997 6278 2.803492 GCGGTCCTGGTCTAATCATCAC 60.803 54.545 0.00 0.00 0.00 3.06
1998 6279 2.695666 CGGTCCTGGTCTAATCATCACT 59.304 50.000 0.00 0.00 0.00 3.41
1999 6280 3.243569 CGGTCCTGGTCTAATCATCACTC 60.244 52.174 0.00 0.00 0.00 3.51
2000 6281 3.243569 GGTCCTGGTCTAATCATCACTCG 60.244 52.174 0.00 0.00 0.00 4.18
2001 6282 2.362397 TCCTGGTCTAATCATCACTCGC 59.638 50.000 0.00 0.00 0.00 5.03
2002 6283 2.389059 CTGGTCTAATCATCACTCGCG 58.611 52.381 0.00 0.00 0.00 5.87
2003 6284 1.749063 TGGTCTAATCATCACTCGCGT 59.251 47.619 5.77 0.00 0.00 6.01
2004 6285 2.946990 TGGTCTAATCATCACTCGCGTA 59.053 45.455 5.77 0.00 0.00 4.42
2005 6286 3.242969 TGGTCTAATCATCACTCGCGTAC 60.243 47.826 5.77 0.00 0.00 3.67
2006 6287 3.298317 GTCTAATCATCACTCGCGTACC 58.702 50.000 5.77 0.00 0.00 3.34
2007 6288 3.003482 GTCTAATCATCACTCGCGTACCT 59.997 47.826 5.77 0.00 0.00 3.08
2008 6289 2.961526 AATCATCACTCGCGTACCTT 57.038 45.000 5.77 0.00 0.00 3.50
2009 6290 4.818005 TCTAATCATCACTCGCGTACCTTA 59.182 41.667 5.77 0.00 0.00 2.69
2010 6291 4.585955 AATCATCACTCGCGTACCTTAT 57.414 40.909 5.77 0.00 0.00 1.73
2011 6292 3.349488 TCATCACTCGCGTACCTTATG 57.651 47.619 5.77 4.40 0.00 1.90
2012 6293 2.946990 TCATCACTCGCGTACCTTATGA 59.053 45.455 5.77 6.75 0.00 2.15
2013 6294 3.003378 TCATCACTCGCGTACCTTATGAG 59.997 47.826 5.77 0.00 0.00 2.90
2014 6295 1.065102 TCACTCGCGTACCTTATGAGC 59.935 52.381 5.77 0.00 0.00 4.26
2015 6296 1.100510 ACTCGCGTACCTTATGAGCA 58.899 50.000 5.77 0.00 0.00 4.26
2016 6297 1.475280 ACTCGCGTACCTTATGAGCAA 59.525 47.619 5.77 0.00 0.00 3.91
2017 6298 2.120232 CTCGCGTACCTTATGAGCAAG 58.880 52.381 5.77 0.00 0.00 4.01
2018 6299 0.577269 CGCGTACCTTATGAGCAAGC 59.423 55.000 0.00 0.00 0.00 4.01
2019 6300 1.651987 GCGTACCTTATGAGCAAGCA 58.348 50.000 0.00 0.00 0.00 3.91
2020 6301 2.006888 GCGTACCTTATGAGCAAGCAA 58.993 47.619 0.00 0.00 0.00 3.91
2021 6302 2.614057 GCGTACCTTATGAGCAAGCAAT 59.386 45.455 0.00 0.00 0.00 3.56
2022 6303 3.546815 GCGTACCTTATGAGCAAGCAATG 60.547 47.826 0.00 0.00 0.00 2.82
2023 6304 3.002656 CGTACCTTATGAGCAAGCAATGG 59.997 47.826 0.00 0.00 0.00 3.16
2024 6305 3.091633 ACCTTATGAGCAAGCAATGGT 57.908 42.857 0.00 0.00 43.97 3.55
2025 6306 2.756760 ACCTTATGAGCAAGCAATGGTG 59.243 45.455 0.00 0.00 40.59 4.17
2026 6307 3.018856 CCTTATGAGCAAGCAATGGTGA 58.981 45.455 0.00 0.00 40.59 4.02
2027 6308 3.066342 CCTTATGAGCAAGCAATGGTGAG 59.934 47.826 0.00 0.00 40.59 3.51
2028 6309 0.815734 ATGAGCAAGCAATGGTGAGC 59.184 50.000 0.00 2.52 40.59 4.26
2029 6310 0.537828 TGAGCAAGCAATGGTGAGCA 60.538 50.000 11.60 0.00 40.59 4.26
2030 6311 0.599558 GAGCAAGCAATGGTGAGCAA 59.400 50.000 11.60 0.00 40.59 3.91
2031 6312 1.203994 GAGCAAGCAATGGTGAGCAAT 59.796 47.619 11.60 0.00 40.59 3.56
2032 6313 2.424601 GAGCAAGCAATGGTGAGCAATA 59.575 45.455 11.60 0.00 40.59 1.90
2033 6314 2.827322 AGCAAGCAATGGTGAGCAATAA 59.173 40.909 11.60 0.00 38.62 1.40
2034 6315 2.925563 GCAAGCAATGGTGAGCAATAAC 59.074 45.455 5.46 0.00 0.00 1.89
2035 6316 3.367703 GCAAGCAATGGTGAGCAATAACT 60.368 43.478 5.46 0.00 0.00 2.24
2036 6317 4.418392 CAAGCAATGGTGAGCAATAACTC 58.582 43.478 0.00 0.00 37.19 3.01
2037 6318 3.689347 AGCAATGGTGAGCAATAACTCA 58.311 40.909 0.00 0.00 44.32 3.41
2049 6330 6.986817 TGAGCAATAACTCATTCCTACTAAGC 59.013 38.462 0.00 0.00 41.72 3.09
2050 6331 7.130681 AGCAATAACTCATTCCTACTAAGCT 57.869 36.000 0.00 0.00 0.00 3.74
2051 6332 7.213678 AGCAATAACTCATTCCTACTAAGCTC 58.786 38.462 0.00 0.00 0.00 4.09
2052 6333 6.144724 GCAATAACTCATTCCTACTAAGCTCG 59.855 42.308 0.00 0.00 0.00 5.03
2053 6334 3.719173 ACTCATTCCTACTAAGCTCGC 57.281 47.619 0.00 0.00 0.00 5.03
2054 6335 2.033550 ACTCATTCCTACTAAGCTCGCG 59.966 50.000 0.00 0.00 0.00 5.87
2055 6336 1.132588 CATTCCTACTAAGCTCGCGC 58.867 55.000 0.00 0.00 0.00 6.86
2056 6337 0.032267 ATTCCTACTAAGCTCGCGCC 59.968 55.000 0.00 0.00 36.60 6.53
2057 6338 2.012902 TTCCTACTAAGCTCGCGCCC 62.013 60.000 0.00 0.00 36.60 6.13
2058 6339 2.491022 CCTACTAAGCTCGCGCCCT 61.491 63.158 0.00 0.00 36.60 5.19
2059 6340 1.170919 CCTACTAAGCTCGCGCCCTA 61.171 60.000 0.00 0.00 36.60 3.53
2060 6341 0.666913 CTACTAAGCTCGCGCCCTAA 59.333 55.000 0.00 0.00 36.60 2.69
2061 6342 1.269998 CTACTAAGCTCGCGCCCTAAT 59.730 52.381 0.00 0.00 36.60 1.73
2062 6343 0.032267 ACTAAGCTCGCGCCCTAATC 59.968 55.000 0.00 0.00 36.60 1.75
2063 6344 0.315568 CTAAGCTCGCGCCCTAATCT 59.684 55.000 0.00 0.00 36.60 2.40
2064 6345 0.750850 TAAGCTCGCGCCCTAATCTT 59.249 50.000 0.00 0.00 36.60 2.40
2065 6346 0.530870 AAGCTCGCGCCCTAATCTTC 60.531 55.000 0.00 0.00 36.60 2.87
2066 6347 1.068250 GCTCGCGCCCTAATCTTCT 59.932 57.895 0.00 0.00 0.00 2.85
2067 6348 0.941936 GCTCGCGCCCTAATCTTCTC 60.942 60.000 0.00 0.00 0.00 2.87
2068 6349 0.671251 CTCGCGCCCTAATCTTCTCT 59.329 55.000 0.00 0.00 0.00 3.10
2069 6350 1.067821 CTCGCGCCCTAATCTTCTCTT 59.932 52.381 0.00 0.00 0.00 2.85
2070 6351 1.480954 TCGCGCCCTAATCTTCTCTTT 59.519 47.619 0.00 0.00 0.00 2.52
2071 6352 2.093658 TCGCGCCCTAATCTTCTCTTTT 60.094 45.455 0.00 0.00 0.00 2.27
2072 6353 3.131577 TCGCGCCCTAATCTTCTCTTTTA 59.868 43.478 0.00 0.00 0.00 1.52
2073 6354 4.058817 CGCGCCCTAATCTTCTCTTTTAT 58.941 43.478 0.00 0.00 0.00 1.40
2074 6355 4.084328 CGCGCCCTAATCTTCTCTTTTATG 60.084 45.833 0.00 0.00 0.00 1.90
2075 6356 4.214332 GCGCCCTAATCTTCTCTTTTATGG 59.786 45.833 0.00 0.00 0.00 2.74
2076 6357 5.368989 CGCCCTAATCTTCTCTTTTATGGT 58.631 41.667 0.00 0.00 0.00 3.55
2077 6358 6.522054 CGCCCTAATCTTCTCTTTTATGGTA 58.478 40.000 0.00 0.00 0.00 3.25
2078 6359 6.990349 CGCCCTAATCTTCTCTTTTATGGTAA 59.010 38.462 0.00 0.00 0.00 2.85
2079 6360 7.041984 CGCCCTAATCTTCTCTTTTATGGTAAC 60.042 40.741 0.00 0.00 0.00 2.50
2080 6361 7.041984 GCCCTAATCTTCTCTTTTATGGTAACG 60.042 40.741 0.00 0.00 42.51 3.18
2081 6362 7.041984 CCCTAATCTTCTCTTTTATGGTAACGC 60.042 40.741 0.00 0.00 42.51 4.84
2082 6363 7.494625 CCTAATCTTCTCTTTTATGGTAACGCA 59.505 37.037 0.00 0.00 42.51 5.24
2083 6364 6.663944 ATCTTCTCTTTTATGGTAACGCAC 57.336 37.500 0.00 0.00 42.51 5.34
2084 6365 5.543714 TCTTCTCTTTTATGGTAACGCACA 58.456 37.500 0.00 0.00 42.51 4.57
2085 6366 5.407387 TCTTCTCTTTTATGGTAACGCACAC 59.593 40.000 0.00 0.00 42.51 3.82
2086 6367 3.998341 TCTCTTTTATGGTAACGCACACC 59.002 43.478 0.00 0.00 42.51 4.16
2087 6368 4.000988 CTCTTTTATGGTAACGCACACCT 58.999 43.478 2.78 0.00 42.51 4.00
2088 6369 4.391155 TCTTTTATGGTAACGCACACCTT 58.609 39.130 2.78 0.00 42.51 3.50
2089 6370 4.214545 TCTTTTATGGTAACGCACACCTTG 59.785 41.667 2.78 0.00 42.51 3.61
2090 6371 2.102070 TATGGTAACGCACACCTTGG 57.898 50.000 2.78 0.00 42.51 3.61
2091 6372 0.109723 ATGGTAACGCACACCTTGGT 59.890 50.000 2.78 0.00 42.51 3.67
2092 6373 0.107116 TGGTAACGCACACCTTGGTT 60.107 50.000 2.78 0.00 42.51 3.67
2093 6374 0.589708 GGTAACGCACACCTTGGTTC 59.410 55.000 0.00 0.00 32.98 3.62
2094 6375 0.589708 GTAACGCACACCTTGGTTCC 59.410 55.000 0.00 0.00 0.00 3.62
2095 6376 0.180642 TAACGCACACCTTGGTTCCA 59.819 50.000 0.00 0.00 0.00 3.53
2096 6377 1.381165 AACGCACACCTTGGTTCCAC 61.381 55.000 0.00 0.00 0.00 4.02
2097 6378 1.821759 CGCACACCTTGGTTCCACA 60.822 57.895 0.00 0.00 0.00 4.17
2098 6379 1.733526 GCACACCTTGGTTCCACAC 59.266 57.895 0.00 0.00 0.00 3.82
2130 6411 9.781633 AGAGGTGGTACTAATATATATAGCTCG 57.218 37.037 0.00 0.00 35.85 5.03
2131 6412 8.921353 AGGTGGTACTAATATATATAGCTCGG 57.079 38.462 0.00 0.00 0.00 4.63
2132 6413 8.501070 AGGTGGTACTAATATATATAGCTCGGT 58.499 37.037 0.00 0.00 0.00 4.69
2133 6414 8.782144 GGTGGTACTAATATATATAGCTCGGTC 58.218 40.741 0.00 0.00 0.00 4.79
2134 6415 9.558396 GTGGTACTAATATATATAGCTCGGTCT 57.442 37.037 0.00 0.00 0.00 3.85
2141 6422 8.596781 AATATATATAGCTCGGTCTTGAAGGT 57.403 34.615 0.00 0.00 0.00 3.50
2142 6423 2.969628 ATAGCTCGGTCTTGAAGGTG 57.030 50.000 0.00 0.00 0.00 4.00
2143 6424 1.629043 TAGCTCGGTCTTGAAGGTGT 58.371 50.000 0.00 0.00 0.00 4.16
2144 6425 0.759346 AGCTCGGTCTTGAAGGTGTT 59.241 50.000 0.00 0.00 0.00 3.32
2145 6426 1.141053 AGCTCGGTCTTGAAGGTGTTT 59.859 47.619 0.00 0.00 0.00 2.83
2146 6427 1.947456 GCTCGGTCTTGAAGGTGTTTT 59.053 47.619 0.00 0.00 0.00 2.43
2147 6428 3.135994 GCTCGGTCTTGAAGGTGTTTTA 58.864 45.455 0.00 0.00 0.00 1.52
2148 6429 3.059120 GCTCGGTCTTGAAGGTGTTTTAC 60.059 47.826 0.00 0.00 0.00 2.01
2149 6430 4.124238 CTCGGTCTTGAAGGTGTTTTACA 58.876 43.478 0.00 0.00 0.00 2.41
2150 6431 4.124238 TCGGTCTTGAAGGTGTTTTACAG 58.876 43.478 0.00 0.00 0.00 2.74
2151 6432 3.875134 CGGTCTTGAAGGTGTTTTACAGT 59.125 43.478 0.00 0.00 0.00 3.55
2152 6433 5.051816 CGGTCTTGAAGGTGTTTTACAGTA 58.948 41.667 0.00 0.00 0.00 2.74
2153 6434 5.699458 CGGTCTTGAAGGTGTTTTACAGTAT 59.301 40.000 0.00 0.00 0.00 2.12
2154 6435 6.204108 CGGTCTTGAAGGTGTTTTACAGTATT 59.796 38.462 0.00 0.00 0.00 1.89
2155 6436 7.255001 CGGTCTTGAAGGTGTTTTACAGTATTT 60.255 37.037 0.00 0.00 0.00 1.40
2156 6437 8.410912 GGTCTTGAAGGTGTTTTACAGTATTTT 58.589 33.333 0.00 0.00 0.00 1.82
2157 6438 9.447040 GTCTTGAAGGTGTTTTACAGTATTTTC 57.553 33.333 0.00 0.00 0.00 2.29
2158 6439 9.179909 TCTTGAAGGTGTTTTACAGTATTTTCA 57.820 29.630 0.00 0.00 0.00 2.69
2159 6440 9.450807 CTTGAAGGTGTTTTACAGTATTTTCAG 57.549 33.333 0.00 0.00 0.00 3.02
2160 6441 8.514330 TGAAGGTGTTTTACAGTATTTTCAGT 57.486 30.769 0.00 0.00 0.00 3.41
2161 6442 8.962679 TGAAGGTGTTTTACAGTATTTTCAGTT 58.037 29.630 0.00 0.00 0.00 3.16
2162 6443 9.797556 GAAGGTGTTTTACAGTATTTTCAGTTT 57.202 29.630 0.00 0.00 0.00 2.66
2179 6460 9.545105 TTTTCAGTTTAAGCAATTTCATCATGT 57.455 25.926 0.00 0.00 0.00 3.21
2180 6461 8.746922 TTCAGTTTAAGCAATTTCATCATGTC 57.253 30.769 0.00 0.00 0.00 3.06
2181 6462 8.114331 TCAGTTTAAGCAATTTCATCATGTCT 57.886 30.769 0.00 0.00 0.00 3.41
2182 6463 8.579006 TCAGTTTAAGCAATTTCATCATGTCTT 58.421 29.630 0.00 0.00 0.00 3.01
2183 6464 9.199982 CAGTTTAAGCAATTTCATCATGTCTTT 57.800 29.630 0.00 0.00 0.00 2.52
2184 6465 9.199982 AGTTTAAGCAATTTCATCATGTCTTTG 57.800 29.630 0.00 0.00 0.00 2.77
2185 6466 8.981647 GTTTAAGCAATTTCATCATGTCTTTGT 58.018 29.630 0.00 0.00 0.00 2.83
2186 6467 9.545105 TTTAAGCAATTTCATCATGTCTTTGTT 57.455 25.926 0.00 0.00 0.00 2.83
2187 6468 9.545105 TTAAGCAATTTCATCATGTCTTTGTTT 57.455 25.926 0.00 0.00 0.00 2.83
2188 6469 8.441312 AAGCAATTTCATCATGTCTTTGTTTT 57.559 26.923 0.00 0.00 0.00 2.43
2189 6470 7.857569 AGCAATTTCATCATGTCTTTGTTTTG 58.142 30.769 0.00 0.00 0.00 2.44
2190 6471 7.041644 AGCAATTTCATCATGTCTTTGTTTTGG 60.042 33.333 0.00 0.00 0.00 3.28
2191 6472 6.790285 ATTTCATCATGTCTTTGTTTTGGC 57.210 33.333 0.00 0.00 0.00 4.52
2192 6473 4.933505 TCATCATGTCTTTGTTTTGGCA 57.066 36.364 0.00 0.00 0.00 4.92
2193 6474 5.273674 TCATCATGTCTTTGTTTTGGCAA 57.726 34.783 0.00 0.00 0.00 4.52
2194 6475 5.668471 TCATCATGTCTTTGTTTTGGCAAA 58.332 33.333 8.93 8.93 36.93 3.68
2205 6486 8.599876 CTTTGTTTTGGCAAAGTAAAATGTTC 57.400 30.769 13.04 0.00 46.00 3.18
2206 6487 6.670077 TGTTTTGGCAAAGTAAAATGTTCC 57.330 33.333 13.04 0.00 0.00 3.62
2207 6488 6.410540 TGTTTTGGCAAAGTAAAATGTTCCT 58.589 32.000 13.04 0.00 0.00 3.36
2387 6691 3.068165 AGCCAGAAACTAAAACCAGCAAC 59.932 43.478 0.00 0.00 0.00 4.17
2398 6703 2.311124 ACCAGCAACGTAAGATAGCC 57.689 50.000 0.00 0.00 43.62 3.93
2416 6737 1.447489 CAGCAGCGCTAGAGCACTT 60.447 57.895 20.99 2.11 42.21 3.16
2417 6738 1.018226 CAGCAGCGCTAGAGCACTTT 61.018 55.000 20.99 0.00 42.21 2.66
2475 6806 6.530019 AATGAACAGGGCTAAAAGGTATTG 57.470 37.500 0.00 0.00 0.00 1.90
2513 6844 2.674380 GGCCACAGCAACAGAGGG 60.674 66.667 0.00 0.00 42.56 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.002586 CTACGTGTCAAAGATGCCCAG 58.997 52.381 0.00 0.00 0.00 4.45
44 45 2.433868 TCGTACCACTTTCACTGAGC 57.566 50.000 0.00 0.00 0.00 4.26
50 51 4.594123 TCTCACATTCGTACCACTTTCA 57.406 40.909 0.00 0.00 0.00 2.69
56 58 4.021229 ACCACTATCTCACATTCGTACCA 58.979 43.478 0.00 0.00 0.00 3.25
61 63 3.170791 AGCACCACTATCTCACATTCG 57.829 47.619 0.00 0.00 0.00 3.34
65 67 5.738619 TTAGAAAGCACCACTATCTCACA 57.261 39.130 0.00 0.00 0.00 3.58
148 150 6.676990 ATTTCAATTTTCCAGCTTTCCTCT 57.323 33.333 0.00 0.00 0.00 3.69
211 213 5.475719 TGTTCGTTCCCACATTCTAGTAAG 58.524 41.667 0.00 0.00 0.00 2.34
229 231 2.995258 CCCCAAAATTGCATTCTGTTCG 59.005 45.455 0.00 0.00 0.00 3.95
235 237 1.089112 GCAGCCCCAAAATTGCATTC 58.911 50.000 0.00 0.00 36.59 2.67
250 252 8.079809 TCCATAGTAGTTTTAAACTTTTGCAGC 58.920 33.333 15.83 0.00 42.81 5.25
280 282 7.379750 TCTGAGCCTTTTCTTTAGTTCTCTAC 58.620 38.462 0.00 0.00 0.00 2.59
283 285 6.483640 TGTTCTGAGCCTTTTCTTTAGTTCTC 59.516 38.462 0.00 0.00 0.00 2.87
484 3049 1.137086 CCACTCACCTCCGGTCATAAG 59.863 57.143 0.00 0.00 31.02 1.73
517 3179 3.081061 TGATTCTGGATTTGTTGGTCCG 58.919 45.455 0.00 0.00 37.32 4.79
525 3187 8.355169 CCTATGTTATTGGTGATTCTGGATTTG 58.645 37.037 0.00 0.00 0.00 2.32
531 3193 5.132502 TGCCCTATGTTATTGGTGATTCTG 58.867 41.667 0.00 0.00 0.00 3.02
695 4915 0.542938 AGCACCAGCCTGAGTGAGTA 60.543 55.000 14.90 0.00 43.56 2.59
756 4981 3.537874 GGATCCTGGTCGGGTCGG 61.538 72.222 3.84 0.00 44.43 4.79
757 4982 2.758327 TGGATCCTGGTCGGGTCG 60.758 66.667 14.23 0.00 44.43 4.79
758 4983 2.901042 GTGGATCCTGGTCGGGTC 59.099 66.667 14.23 0.00 42.62 4.46
759 4984 3.075005 CGTGGATCCTGGTCGGGT 61.075 66.667 14.23 0.00 0.00 5.28
760 4985 2.758327 TCGTGGATCCTGGTCGGG 60.758 66.667 14.23 0.00 0.00 5.14
810 5035 0.816421 CGGCATCATCATCACCTGCA 60.816 55.000 0.00 0.00 34.56 4.41
944 5175 3.338110 TGCTGGAGTGGGGTATGTATA 57.662 47.619 0.00 0.00 0.00 1.47
945 5176 2.190398 TGCTGGAGTGGGGTATGTAT 57.810 50.000 0.00 0.00 0.00 2.29
948 5181 0.749454 GCTTGCTGGAGTGGGGTATG 60.749 60.000 0.00 0.00 0.00 2.39
962 5199 0.656785 GCTAGCTGATCTGTGCTTGC 59.343 55.000 18.90 18.90 46.40 4.01
964 5201 2.224018 GCTAGCTAGCTGATCTGTGCTT 60.224 50.000 33.71 0.00 45.62 3.91
986 5223 2.658593 CCATCGATCACCGGCGAC 60.659 66.667 9.30 0.00 39.56 5.19
1297 5540 3.003763 GGGCACGGTCTCCTTCCT 61.004 66.667 0.00 0.00 0.00 3.36
1445 5691 0.861155 ATCCCTCCCGGAGTACTGAT 59.139 55.000 13.62 6.88 46.60 2.90
1515 5764 0.116541 ACCCCTTCTTCTTCCTCCGA 59.883 55.000 0.00 0.00 0.00 4.55
1687 5936 6.591935 AGGAAATAGATGCCAAAATCGACTA 58.408 36.000 0.00 0.00 0.00 2.59
1688 5937 5.440610 AGGAAATAGATGCCAAAATCGACT 58.559 37.500 0.00 0.00 0.00 4.18
1730 5987 9.646336 CGAGTAGAAAAATGATTAAAATACGGG 57.354 33.333 0.00 0.00 0.00 5.28
1857 6138 9.106070 GATAAGAAACACCGAATAAGTAACCAT 57.894 33.333 0.00 0.00 0.00 3.55
1878 6159 5.878116 TGTTATTCCACGGTTGAAGGATAAG 59.122 40.000 1.06 0.00 0.00 1.73
1882 6163 3.071892 ACTGTTATTCCACGGTTGAAGGA 59.928 43.478 1.06 0.00 31.81 3.36
1885 6166 5.613329 ACTAACTGTTATTCCACGGTTGAA 58.387 37.500 8.06 0.00 44.45 2.69
1927 6208 8.503458 ACGCATCGTCTAGTATTATTAGGTAT 57.497 34.615 0.00 0.00 33.69 2.73
1929 6210 6.814506 ACGCATCGTCTAGTATTATTAGGT 57.185 37.500 0.00 0.00 33.69 3.08
1930 6211 8.516811 AAAACGCATCGTCTAGTATTATTAGG 57.483 34.615 0.00 0.00 39.99 2.69
1932 6213 9.949174 TGTAAAACGCATCGTCTAGTATTATTA 57.051 29.630 0.00 0.00 39.99 0.98
1933 6214 8.749499 GTGTAAAACGCATCGTCTAGTATTATT 58.251 33.333 0.00 0.00 39.99 1.40
1934 6215 8.133627 AGTGTAAAACGCATCGTCTAGTATTAT 58.866 33.333 0.00 0.00 39.99 1.28
1935 6216 7.475015 AGTGTAAAACGCATCGTCTAGTATTA 58.525 34.615 0.00 0.00 39.99 0.98
1936 6217 6.327934 AGTGTAAAACGCATCGTCTAGTATT 58.672 36.000 0.00 0.00 39.99 1.89
1937 6218 5.888105 AGTGTAAAACGCATCGTCTAGTAT 58.112 37.500 0.00 0.00 39.99 2.12
1938 6219 5.300969 AGTGTAAAACGCATCGTCTAGTA 57.699 39.130 0.00 0.00 39.99 1.82
1939 6220 4.170292 AGTGTAAAACGCATCGTCTAGT 57.830 40.909 0.00 0.00 39.99 2.57
1940 6221 4.857588 AGAAGTGTAAAACGCATCGTCTAG 59.142 41.667 0.00 0.00 39.99 2.43
1941 6222 4.619760 CAGAAGTGTAAAACGCATCGTCTA 59.380 41.667 0.00 0.00 39.99 2.59
1942 6223 3.428870 CAGAAGTGTAAAACGCATCGTCT 59.571 43.478 0.00 0.00 39.99 4.18
1943 6224 3.183775 ACAGAAGTGTAAAACGCATCGTC 59.816 43.478 0.00 0.00 35.08 4.20
1944 6225 3.128349 ACAGAAGTGTAAAACGCATCGT 58.872 40.909 0.00 0.00 37.00 3.73
1945 6226 3.788434 ACAGAAGTGTAAAACGCATCG 57.212 42.857 0.00 0.00 34.05 3.84
1946 6227 7.006210 CGAAAATACAGAAGTGTAAAACGCATC 59.994 37.037 0.00 0.00 42.54 3.91
1947 6228 6.795114 CGAAAATACAGAAGTGTAAAACGCAT 59.205 34.615 0.00 0.00 42.54 4.73
1948 6229 6.130723 CGAAAATACAGAAGTGTAAAACGCA 58.869 36.000 0.00 0.00 42.54 5.24
1949 6230 6.131389 ACGAAAATACAGAAGTGTAAAACGC 58.869 36.000 0.00 0.00 42.54 4.84
1950 6231 8.458328 CAAACGAAAATACAGAAGTGTAAAACG 58.542 33.333 0.00 0.00 42.54 3.60
1951 6232 8.257166 GCAAACGAAAATACAGAAGTGTAAAAC 58.743 33.333 0.00 0.00 42.54 2.43
1952 6233 7.164498 CGCAAACGAAAATACAGAAGTGTAAAA 59.836 33.333 0.00 0.00 41.48 1.52
1953 6234 6.629649 CGCAAACGAAAATACAGAAGTGTAAA 59.370 34.615 0.00 0.00 41.48 2.01
1954 6235 6.130723 CGCAAACGAAAATACAGAAGTGTAA 58.869 36.000 0.00 0.00 41.48 2.41
1955 6236 5.333492 CCGCAAACGAAAATACAGAAGTGTA 60.333 40.000 0.00 0.00 42.03 2.90
1956 6237 4.523813 CGCAAACGAAAATACAGAAGTGT 58.476 39.130 0.00 0.00 43.93 3.55
1957 6238 3.906008 CCGCAAACGAAAATACAGAAGTG 59.094 43.478 0.00 0.00 43.93 3.16
1958 6239 3.562557 ACCGCAAACGAAAATACAGAAGT 59.437 39.130 0.00 0.00 43.93 3.01
1959 6240 4.141855 ACCGCAAACGAAAATACAGAAG 57.858 40.909 0.00 0.00 43.93 2.85
1960 6241 3.058777 GGACCGCAAACGAAAATACAGAA 60.059 43.478 0.00 0.00 43.93 3.02
1961 6242 2.481185 GGACCGCAAACGAAAATACAGA 59.519 45.455 0.00 0.00 43.93 3.41
1962 6243 2.482721 AGGACCGCAAACGAAAATACAG 59.517 45.455 0.00 0.00 43.93 2.74
1963 6244 2.224549 CAGGACCGCAAACGAAAATACA 59.775 45.455 0.00 0.00 43.93 2.29
1964 6245 2.413634 CCAGGACCGCAAACGAAAATAC 60.414 50.000 0.00 0.00 43.93 1.89
1965 6246 1.807742 CCAGGACCGCAAACGAAAATA 59.192 47.619 0.00 0.00 43.93 1.40
1966 6247 0.596082 CCAGGACCGCAAACGAAAAT 59.404 50.000 0.00 0.00 43.93 1.82
1967 6248 0.748729 ACCAGGACCGCAAACGAAAA 60.749 50.000 0.00 0.00 43.93 2.29
1968 6249 1.153127 ACCAGGACCGCAAACGAAA 60.153 52.632 0.00 0.00 43.93 3.46
1969 6250 1.595929 GACCAGGACCGCAAACGAA 60.596 57.895 0.00 0.00 43.93 3.85
1970 6251 1.180456 TAGACCAGGACCGCAAACGA 61.180 55.000 0.00 0.00 43.93 3.85
1971 6252 0.320073 TTAGACCAGGACCGCAAACG 60.320 55.000 0.00 0.00 39.67 3.60
1972 6253 2.007608 GATTAGACCAGGACCGCAAAC 58.992 52.381 0.00 0.00 0.00 2.93
1973 6254 1.626321 TGATTAGACCAGGACCGCAAA 59.374 47.619 0.00 0.00 0.00 3.68
1974 6255 1.271856 TGATTAGACCAGGACCGCAA 58.728 50.000 0.00 0.00 0.00 4.85
1975 6256 1.412710 GATGATTAGACCAGGACCGCA 59.587 52.381 0.00 0.00 0.00 5.69
1976 6257 1.412710 TGATGATTAGACCAGGACCGC 59.587 52.381 0.00 0.00 0.00 5.68
1977 6258 2.695666 AGTGATGATTAGACCAGGACCG 59.304 50.000 0.00 0.00 0.00 4.79
1978 6259 3.243569 CGAGTGATGATTAGACCAGGACC 60.244 52.174 0.00 0.00 0.00 4.46
1979 6260 3.797184 GCGAGTGATGATTAGACCAGGAC 60.797 52.174 0.00 0.00 0.00 3.85
1980 6261 2.362397 GCGAGTGATGATTAGACCAGGA 59.638 50.000 0.00 0.00 0.00 3.86
1981 6262 2.748605 GCGAGTGATGATTAGACCAGG 58.251 52.381 0.00 0.00 0.00 4.45
1982 6263 2.223595 ACGCGAGTGATGATTAGACCAG 60.224 50.000 15.93 0.00 46.97 4.00
1983 6264 1.749063 ACGCGAGTGATGATTAGACCA 59.251 47.619 15.93 0.00 46.97 4.02
1984 6265 2.493713 ACGCGAGTGATGATTAGACC 57.506 50.000 15.93 0.00 46.97 3.85
1997 6278 2.120232 CTTGCTCATAAGGTACGCGAG 58.880 52.381 15.93 0.00 0.00 5.03
1998 6279 1.801395 GCTTGCTCATAAGGTACGCGA 60.801 52.381 15.93 0.00 0.00 5.87
1999 6280 0.577269 GCTTGCTCATAAGGTACGCG 59.423 55.000 3.53 3.53 0.00 6.01
2000 6281 1.651987 TGCTTGCTCATAAGGTACGC 58.348 50.000 0.00 0.00 0.00 4.42
2001 6282 3.002656 CCATTGCTTGCTCATAAGGTACG 59.997 47.826 0.00 0.00 0.00 3.67
2002 6283 3.947834 ACCATTGCTTGCTCATAAGGTAC 59.052 43.478 0.00 0.00 0.00 3.34
2003 6284 3.947196 CACCATTGCTTGCTCATAAGGTA 59.053 43.478 0.00 0.00 0.00 3.08
2004 6285 2.756760 CACCATTGCTTGCTCATAAGGT 59.243 45.455 0.00 0.00 0.00 3.50
2005 6286 3.018856 TCACCATTGCTTGCTCATAAGG 58.981 45.455 0.00 0.00 0.00 2.69
2006 6287 3.488721 GCTCACCATTGCTTGCTCATAAG 60.489 47.826 0.00 0.00 0.00 1.73
2007 6288 2.424601 GCTCACCATTGCTTGCTCATAA 59.575 45.455 0.00 0.00 0.00 1.90
2008 6289 2.019249 GCTCACCATTGCTTGCTCATA 58.981 47.619 0.00 0.00 0.00 2.15
2009 6290 0.815734 GCTCACCATTGCTTGCTCAT 59.184 50.000 0.00 0.00 0.00 2.90
2010 6291 0.537828 TGCTCACCATTGCTTGCTCA 60.538 50.000 0.00 0.00 0.00 4.26
2011 6292 0.599558 TTGCTCACCATTGCTTGCTC 59.400 50.000 0.00 0.00 0.00 4.26
2012 6293 1.263356 ATTGCTCACCATTGCTTGCT 58.737 45.000 0.00 0.00 0.00 3.91
2013 6294 2.925563 GTTATTGCTCACCATTGCTTGC 59.074 45.455 0.00 0.00 0.00 4.01
2014 6295 4.082625 TGAGTTATTGCTCACCATTGCTTG 60.083 41.667 0.00 0.00 40.23 4.01
2015 6296 4.081406 TGAGTTATTGCTCACCATTGCTT 58.919 39.130 0.00 0.00 40.23 3.91
2016 6297 3.689347 TGAGTTATTGCTCACCATTGCT 58.311 40.909 0.00 0.00 40.23 3.91
2017 6298 4.644103 ATGAGTTATTGCTCACCATTGC 57.356 40.909 0.00 0.00 46.72 3.56
2018 6299 5.359009 AGGAATGAGTTATTGCTCACCATTG 59.641 40.000 0.00 0.00 43.03 2.82
2019 6300 5.513233 AGGAATGAGTTATTGCTCACCATT 58.487 37.500 0.00 0.00 43.03 3.16
2020 6301 5.121380 AGGAATGAGTTATTGCTCACCAT 57.879 39.130 0.00 0.00 43.03 3.55
2021 6302 4.574674 AGGAATGAGTTATTGCTCACCA 57.425 40.909 0.00 0.00 43.03 4.17
2022 6303 5.675538 AGTAGGAATGAGTTATTGCTCACC 58.324 41.667 4.89 0.00 43.03 4.02
2023 6304 7.042389 GCTTAGTAGGAATGAGTTATTGCTCAC 60.042 40.741 4.89 3.60 43.03 3.51
2024 6305 6.986817 GCTTAGTAGGAATGAGTTATTGCTCA 59.013 38.462 4.89 0.00 43.03 4.26
2025 6306 7.213678 AGCTTAGTAGGAATGAGTTATTGCTC 58.786 38.462 4.89 0.00 43.03 4.26
2027 6308 6.144724 CGAGCTTAGTAGGAATGAGTTATTGC 59.855 42.308 0.00 0.00 37.38 3.56
2028 6309 6.144724 GCGAGCTTAGTAGGAATGAGTTATTG 59.855 42.308 0.00 0.00 0.00 1.90
2029 6310 6.217294 GCGAGCTTAGTAGGAATGAGTTATT 58.783 40.000 0.00 0.00 0.00 1.40
2030 6311 5.563085 CGCGAGCTTAGTAGGAATGAGTTAT 60.563 44.000 0.00 0.00 0.00 1.89
2031 6312 4.261072 CGCGAGCTTAGTAGGAATGAGTTA 60.261 45.833 0.00 0.00 0.00 2.24
2032 6313 3.489398 CGCGAGCTTAGTAGGAATGAGTT 60.489 47.826 0.00 0.00 0.00 3.01
2033 6314 2.033550 CGCGAGCTTAGTAGGAATGAGT 59.966 50.000 0.00 0.00 0.00 3.41
2034 6315 2.656085 CGCGAGCTTAGTAGGAATGAG 58.344 52.381 0.00 0.00 0.00 2.90
2035 6316 2.776312 CGCGAGCTTAGTAGGAATGA 57.224 50.000 0.00 0.00 0.00 2.57
2049 6330 0.671251 AGAGAAGATTAGGGCGCGAG 59.329 55.000 12.10 0.00 0.00 5.03
2050 6331 1.112113 AAGAGAAGATTAGGGCGCGA 58.888 50.000 12.10 0.00 0.00 5.87
2051 6332 1.941325 AAAGAGAAGATTAGGGCGCG 58.059 50.000 0.00 0.00 0.00 6.86
2052 6333 4.214332 CCATAAAAGAGAAGATTAGGGCGC 59.786 45.833 0.00 0.00 0.00 6.53
2053 6334 5.368989 ACCATAAAAGAGAAGATTAGGGCG 58.631 41.667 0.00 0.00 34.66 6.13
2054 6335 7.041984 CGTTACCATAAAAGAGAAGATTAGGGC 60.042 40.741 0.00 0.00 34.66 5.19
2055 6336 7.041984 GCGTTACCATAAAAGAGAAGATTAGGG 60.042 40.741 0.00 0.00 36.73 3.53
2056 6337 7.494625 TGCGTTACCATAAAAGAGAAGATTAGG 59.505 37.037 0.00 0.00 0.00 2.69
2057 6338 8.328864 GTGCGTTACCATAAAAGAGAAGATTAG 58.671 37.037 0.00 0.00 0.00 1.73
2058 6339 7.820386 TGTGCGTTACCATAAAAGAGAAGATTA 59.180 33.333 0.00 0.00 0.00 1.75
2059 6340 6.653320 TGTGCGTTACCATAAAAGAGAAGATT 59.347 34.615 0.00 0.00 0.00 2.40
2060 6341 6.092259 GTGTGCGTTACCATAAAAGAGAAGAT 59.908 38.462 0.00 0.00 0.00 2.40
2061 6342 5.407387 GTGTGCGTTACCATAAAAGAGAAGA 59.593 40.000 0.00 0.00 0.00 2.87
2062 6343 5.390567 GGTGTGCGTTACCATAAAAGAGAAG 60.391 44.000 0.00 0.00 38.12 2.85
2063 6344 4.453136 GGTGTGCGTTACCATAAAAGAGAA 59.547 41.667 0.00 0.00 38.12 2.87
2064 6345 3.998341 GGTGTGCGTTACCATAAAAGAGA 59.002 43.478 0.00 0.00 38.12 3.10
2065 6346 4.000988 AGGTGTGCGTTACCATAAAAGAG 58.999 43.478 6.61 0.00 40.74 2.85
2066 6347 4.010667 AGGTGTGCGTTACCATAAAAGA 57.989 40.909 6.61 0.00 40.74 2.52
2067 6348 4.472286 CAAGGTGTGCGTTACCATAAAAG 58.528 43.478 6.61 0.00 40.74 2.27
2068 6349 3.253677 CCAAGGTGTGCGTTACCATAAAA 59.746 43.478 6.61 0.00 40.74 1.52
2069 6350 2.814919 CCAAGGTGTGCGTTACCATAAA 59.185 45.455 6.61 0.00 40.74 1.40
2070 6351 2.224572 ACCAAGGTGTGCGTTACCATAA 60.225 45.455 6.61 0.00 40.74 1.90
2071 6352 1.348366 ACCAAGGTGTGCGTTACCATA 59.652 47.619 6.61 0.00 40.74 2.74
2072 6353 0.109723 ACCAAGGTGTGCGTTACCAT 59.890 50.000 6.61 0.00 40.74 3.55
2073 6354 0.107116 AACCAAGGTGTGCGTTACCA 60.107 50.000 6.61 0.00 40.74 3.25
2074 6355 0.589708 GAACCAAGGTGTGCGTTACC 59.410 55.000 0.00 0.00 38.52 2.85
2075 6356 0.589708 GGAACCAAGGTGTGCGTTAC 59.410 55.000 0.00 0.00 0.00 2.50
2076 6357 0.180642 TGGAACCAAGGTGTGCGTTA 59.819 50.000 0.00 0.00 0.00 3.18
2077 6358 1.077357 TGGAACCAAGGTGTGCGTT 60.077 52.632 0.00 0.00 0.00 4.84
2078 6359 1.822186 GTGGAACCAAGGTGTGCGT 60.822 57.895 0.00 0.00 0.00 5.24
2079 6360 1.821759 TGTGGAACCAAGGTGTGCG 60.822 57.895 0.00 0.00 34.36 5.34
2080 6361 1.733526 GTGTGGAACCAAGGTGTGC 59.266 57.895 0.00 0.00 34.36 4.57
2104 6385 9.781633 CGAGCTATATATATTAGTACCACCTCT 57.218 37.037 0.00 0.00 0.00 3.69
2105 6386 9.001542 CCGAGCTATATATATTAGTACCACCTC 57.998 40.741 0.00 0.00 0.00 3.85
2106 6387 8.501070 ACCGAGCTATATATATTAGTACCACCT 58.499 37.037 0.00 0.00 0.00 4.00
2107 6388 8.688747 ACCGAGCTATATATATTAGTACCACC 57.311 38.462 0.00 0.00 0.00 4.61
2108 6389 9.558396 AGACCGAGCTATATATATTAGTACCAC 57.442 37.037 0.00 0.00 0.00 4.16
2115 6396 9.696572 ACCTTCAAGACCGAGCTATATATATTA 57.303 33.333 0.00 0.00 0.00 0.98
2116 6397 8.470805 CACCTTCAAGACCGAGCTATATATATT 58.529 37.037 0.00 0.00 0.00 1.28
2117 6398 7.616150 ACACCTTCAAGACCGAGCTATATATAT 59.384 37.037 0.00 0.00 0.00 0.86
2118 6399 6.946583 ACACCTTCAAGACCGAGCTATATATA 59.053 38.462 0.00 0.00 0.00 0.86
2119 6400 5.775701 ACACCTTCAAGACCGAGCTATATAT 59.224 40.000 0.00 0.00 0.00 0.86
2120 6401 5.138276 ACACCTTCAAGACCGAGCTATATA 58.862 41.667 0.00 0.00 0.00 0.86
2121 6402 3.961408 ACACCTTCAAGACCGAGCTATAT 59.039 43.478 0.00 0.00 0.00 0.86
2122 6403 3.362706 ACACCTTCAAGACCGAGCTATA 58.637 45.455 0.00 0.00 0.00 1.31
2123 6404 2.180276 ACACCTTCAAGACCGAGCTAT 58.820 47.619 0.00 0.00 0.00 2.97
2124 6405 1.629043 ACACCTTCAAGACCGAGCTA 58.371 50.000 0.00 0.00 0.00 3.32
2125 6406 0.759346 AACACCTTCAAGACCGAGCT 59.241 50.000 0.00 0.00 0.00 4.09
2126 6407 1.594331 AAACACCTTCAAGACCGAGC 58.406 50.000 0.00 0.00 0.00 5.03
2127 6408 4.124238 TGTAAAACACCTTCAAGACCGAG 58.876 43.478 0.00 0.00 0.00 4.63
2128 6409 4.124238 CTGTAAAACACCTTCAAGACCGA 58.876 43.478 0.00 0.00 0.00 4.69
2129 6410 3.875134 ACTGTAAAACACCTTCAAGACCG 59.125 43.478 0.00 0.00 0.00 4.79
2130 6411 7.506328 AATACTGTAAAACACCTTCAAGACC 57.494 36.000 0.00 0.00 0.00 3.85
2131 6412 9.447040 GAAAATACTGTAAAACACCTTCAAGAC 57.553 33.333 0.00 0.00 0.00 3.01
2132 6413 9.179909 TGAAAATACTGTAAAACACCTTCAAGA 57.820 29.630 0.00 0.00 0.00 3.02
2133 6414 9.450807 CTGAAAATACTGTAAAACACCTTCAAG 57.549 33.333 0.00 0.00 0.00 3.02
2134 6415 8.962679 ACTGAAAATACTGTAAAACACCTTCAA 58.037 29.630 0.00 0.00 0.00 2.69
2135 6416 8.514330 ACTGAAAATACTGTAAAACACCTTCA 57.486 30.769 0.00 0.00 0.00 3.02
2136 6417 9.797556 AAACTGAAAATACTGTAAAACACCTTC 57.202 29.630 0.00 0.00 0.00 3.46
2153 6434 9.545105 ACATGATGAAATTGCTTAAACTGAAAA 57.455 25.926 0.00 0.00 0.00 2.29
2154 6435 9.195411 GACATGATGAAATTGCTTAAACTGAAA 57.805 29.630 0.00 0.00 0.00 2.69
2155 6436 8.579006 AGACATGATGAAATTGCTTAAACTGAA 58.421 29.630 0.00 0.00 0.00 3.02
2156 6437 8.114331 AGACATGATGAAATTGCTTAAACTGA 57.886 30.769 0.00 0.00 0.00 3.41
2157 6438 8.752766 AAGACATGATGAAATTGCTTAAACTG 57.247 30.769 0.00 0.00 0.00 3.16
2158 6439 9.199982 CAAAGACATGATGAAATTGCTTAAACT 57.800 29.630 0.00 0.00 0.00 2.66
2159 6440 8.981647 ACAAAGACATGATGAAATTGCTTAAAC 58.018 29.630 0.00 0.00 0.00 2.01
2160 6441 9.545105 AACAAAGACATGATGAAATTGCTTAAA 57.455 25.926 0.00 0.00 0.00 1.52
2161 6442 9.545105 AAACAAAGACATGATGAAATTGCTTAA 57.455 25.926 0.00 0.00 0.00 1.85
2162 6443 9.545105 AAAACAAAGACATGATGAAATTGCTTA 57.455 25.926 0.00 0.00 0.00 3.09
2163 6444 8.339714 CAAAACAAAGACATGATGAAATTGCTT 58.660 29.630 0.00 0.00 0.00 3.91
2164 6445 7.041644 CCAAAACAAAGACATGATGAAATTGCT 60.042 33.333 0.00 0.00 0.00 3.91
2165 6446 7.073265 CCAAAACAAAGACATGATGAAATTGC 58.927 34.615 0.00 0.00 0.00 3.56
2166 6447 7.073265 GCCAAAACAAAGACATGATGAAATTG 58.927 34.615 0.00 3.59 0.00 2.32
2167 6448 6.766944 TGCCAAAACAAAGACATGATGAAATT 59.233 30.769 0.00 0.00 0.00 1.82
2168 6449 6.289834 TGCCAAAACAAAGACATGATGAAAT 58.710 32.000 0.00 0.00 0.00 2.17
2169 6450 5.668471 TGCCAAAACAAAGACATGATGAAA 58.332 33.333 0.00 0.00 0.00 2.69
2170 6451 5.273674 TGCCAAAACAAAGACATGATGAA 57.726 34.783 0.00 0.00 0.00 2.57
2171 6452 4.933505 TGCCAAAACAAAGACATGATGA 57.066 36.364 0.00 0.00 0.00 2.92
2172 6453 5.987777 TTTGCCAAAACAAAGACATGATG 57.012 34.783 0.00 0.00 34.68 3.07
2181 6462 7.391833 AGGAACATTTTACTTTGCCAAAACAAA 59.608 29.630 0.00 0.00 37.20 2.83
2182 6463 6.881602 AGGAACATTTTACTTTGCCAAAACAA 59.118 30.769 0.00 0.00 0.00 2.83
2183 6464 6.410540 AGGAACATTTTACTTTGCCAAAACA 58.589 32.000 0.00 0.00 0.00 2.83
2184 6465 6.918892 AGGAACATTTTACTTTGCCAAAAC 57.081 33.333 0.00 0.00 0.00 2.43
2185 6466 9.620259 AAATAGGAACATTTTACTTTGCCAAAA 57.380 25.926 0.00 0.00 0.00 2.44
2186 6467 9.620259 AAAATAGGAACATTTTACTTTGCCAAA 57.380 25.926 0.00 0.00 36.56 3.28
2187 6468 9.267084 GAAAATAGGAACATTTTACTTTGCCAA 57.733 29.630 0.00 0.00 38.04 4.52
2188 6469 8.646900 AGAAAATAGGAACATTTTACTTTGCCA 58.353 29.630 0.00 0.00 38.04 4.92
2189 6470 9.489084 AAGAAAATAGGAACATTTTACTTTGCC 57.511 29.630 0.00 0.00 38.04 4.52
2334 6621 4.435651 GCTGTAGATTTGTGACGCTTTACC 60.436 45.833 0.00 0.00 0.00 2.85
2387 6691 1.552348 GCGCTGCTGGCTATCTTACG 61.552 60.000 0.00 0.00 39.13 3.18
2416 6737 7.121020 TGCATGTAGCTTCATTCTGTTGAATAA 59.879 33.333 2.64 0.00 45.94 1.40
2417 6738 6.598850 TGCATGTAGCTTCATTCTGTTGAATA 59.401 34.615 2.64 0.00 45.94 1.75
2454 6784 3.761752 GCAATACCTTTTAGCCCTGTTCA 59.238 43.478 0.00 0.00 0.00 3.18


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.