Multiple sequence alignment - TraesCS3B01G022100

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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 TraesCS3B01G022100 chr3B 100.000 4829 0 0 1 4829 9421607 9416779 0.000000e+00 8918.0
1 TraesCS3B01G022100 chr3B 91.379 58 3 2 230 286 729205929 729205873 1.440000e-10 78.7
2 TraesCS3B01G022100 chr3B 97.500 40 1 0 233 272 217984963 217985002 8.670000e-08 69.4
3 TraesCS3B01G022100 chr3B 97.500 40 1 0 233 272 217985089 217985128 8.670000e-08 69.4
4 TraesCS3B01G022100 chr3B 97.500 40 1 0 233 272 219483669 219483708 8.670000e-08 69.4
5 TraesCS3B01G022100 chr3D 94.104 4579 198 26 1 4563 7424850 7420328 0.000000e+00 6894.0
6 TraesCS3B01G022100 chr3D 77.451 510 82 22 4141 4628 381876117 381875619 1.710000e-69 274.0
7 TraesCS3B01G022100 chr3D 77.872 470 82 16 4199 4650 515225265 515224800 6.160000e-69 272.0
8 TraesCS3B01G022100 chr3D 73.487 347 50 23 4143 4458 532240166 532240501 5.150000e-15 93.5
9 TraesCS3B01G022100 chr5D 74.465 2103 483 36 1740 3815 565719865 565717790 0.000000e+00 859.0
10 TraesCS3B01G022100 chrUn 73.784 2365 532 64 1499 3809 18014174 18016504 0.000000e+00 852.0
11 TraesCS3B01G022100 chrUn 74.882 211 49 4 1277 1485 18013922 18014130 5.150000e-15 93.5
12 TraesCS3B01G022100 chr5B 72.531 2035 470 55 1113 3095 707408057 707410054 3.240000e-161 579.0
13 TraesCS3B01G022100 chr5B 77.863 655 133 12 3172 3820 707430566 707431214 3.500000e-106 396.0
14 TraesCS3B01G022100 chr5B 77.657 461 71 18 4203 4642 548315849 548316298 8.020000e-63 252.0
15 TraesCS3B01G022100 chr5B 73.091 799 178 26 1382 2163 707414682 707415460 2.890000e-62 250.0
16 TraesCS3B01G022100 chr5B 86.364 66 5 4 239 304 659412168 659412107 8.670000e-08 69.4
17 TraesCS3B01G022100 chr7D 80.410 439 76 8 4221 4650 100298976 100298539 4.660000e-85 326.0
18 TraesCS3B01G022100 chr7D 80.155 388 56 13 4270 4647 406911712 406912088 2.220000e-68 270.0
19 TraesCS3B01G022100 chr7D 76.095 548 84 26 4144 4647 597180523 597181067 4.830000e-60 243.0
20 TraesCS3B01G022100 chr4A 79.176 461 81 12 4201 4650 574911209 574910753 6.070000e-79 305.0
21 TraesCS3B01G022100 chr2A 81.375 349 57 8 4314 4654 171947598 171947250 1.320000e-70 278.0
22 TraesCS3B01G022100 chr7A 75.245 408 67 13 4207 4582 454060690 454060285 3.870000e-36 163.0
23 TraesCS3B01G022100 chr7A 78.199 211 28 9 4140 4334 158286863 158286655 8.490000e-23 119.0
24 TraesCS3B01G022100 chr6D 72.111 398 96 9 1099 1484 24357977 24357583 6.610000e-19 106.0
25 TraesCS3B01G022100 chr5A 97.778 45 1 0 232 276 496024702 496024746 1.440000e-10 78.7
26 TraesCS3B01G022100 chr4D 97.727 44 1 0 232 275 492602196 492602239 5.180000e-10 76.8
27 TraesCS3B01G022100 chr4D 91.837 49 2 2 227 274 312560263 312560310 3.120000e-07 67.6
28 TraesCS3B01G022100 chr6A 89.831 59 4 2 232 288 470102393 470102335 1.860000e-09 75.0


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 TraesCS3B01G022100 chr3B 9416779 9421607 4828 True 8918.00 8918 100.000 1 4829 1 chr3B.!!$R1 4828
1 TraesCS3B01G022100 chr3D 7420328 7424850 4522 True 6894.00 6894 94.104 1 4563 1 chr3D.!!$R1 4562
2 TraesCS3B01G022100 chr5D 565717790 565719865 2075 True 859.00 859 74.465 1740 3815 1 chr5D.!!$R1 2075
3 TraesCS3B01G022100 chrUn 18013922 18016504 2582 False 472.75 852 74.333 1277 3809 2 chrUn.!!$F1 2532
4 TraesCS3B01G022100 chr5B 707408057 707410054 1997 False 579.00 579 72.531 1113 3095 1 chr5B.!!$F2 1982
5 TraesCS3B01G022100 chr5B 707430566 707431214 648 False 396.00 396 77.863 3172 3820 1 chr5B.!!$F4 648
6 TraesCS3B01G022100 chr5B 707414682 707415460 778 False 250.00 250 73.091 1382 2163 1 chr5B.!!$F3 781
7 TraesCS3B01G022100 chr7D 597180523 597181067 544 False 243.00 243 76.095 4144 4647 1 chr7D.!!$F2 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
449 451 0.102663 TCTGCACCGTACGTTTCACA 59.897 50.000 15.21 4.21 0.00 3.58 F
857 864 0.528017 GAGTCCTGCATGACGTGAGA 59.472 55.000 15.27 0.00 40.26 3.27 F
1074 1081 0.546122 TCACACAAACCAGCTCCACT 59.454 50.000 0.00 0.00 0.00 4.00 F
1728 1789 0.825840 TTTCCTTCAACCTTGCCCCG 60.826 55.000 0.00 0.00 0.00 5.73 F
2230 2294 1.065126 ACCTACCAAGATTGCAGAGGC 60.065 52.381 0.00 0.00 41.68 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1728 1789 0.037232 AGTTGGGTGCTAGACGCTTC 60.037 55.000 0.00 0.0 40.11 3.86 R
2298 2362 0.175760 ACGACCGGAGTCCAATCATG 59.824 55.000 9.46 0.0 40.12 3.07 R
2511 2578 2.028420 TGGAACTGAGATCCATTGCG 57.972 50.000 7.43 0.0 41.98 4.85 R
2540 2607 3.054065 AGGAAGCTTAGGAATTGGACCAG 60.054 47.826 0.00 0.0 0.00 4.00 R
4093 4218 1.017177 TTGTATTGAGACGGCGGTGC 61.017 55.000 13.24 0.0 0.00 5.01 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
77 78 5.676532 TCGAAGAATCTCTATCGAAGTCC 57.323 43.478 3.36 0.00 40.92 3.85
123 124 4.216042 TGATGTTGATGTTTGGTACTGCAG 59.784 41.667 13.48 13.48 0.00 4.41
145 146 1.781025 CGTCGGTTGTTGCACCATGT 61.781 55.000 0.00 0.00 36.49 3.21
209 210 4.361420 TGTTGTTGTGTGCATCTTTGATG 58.639 39.130 0.00 3.42 0.00 3.07
216 217 4.763279 TGTGTGCATCTTTGATGTCTTGAT 59.237 37.500 8.98 0.00 0.00 2.57
234 235 9.624697 TGTCTTGATTAATTTTGACATTGTAGC 57.375 29.630 11.63 0.00 30.78 3.58
235 236 9.846248 GTCTTGATTAATTTTGACATTGTAGCT 57.154 29.630 0.00 0.00 0.00 3.32
265 266 8.904099 AAAAGTTCTTATATTATGGGACGGAG 57.096 34.615 0.00 0.00 0.00 4.63
266 267 6.607004 AGTTCTTATATTATGGGACGGAGG 57.393 41.667 0.00 0.00 0.00 4.30
267 268 5.484290 AGTTCTTATATTATGGGACGGAGGG 59.516 44.000 0.00 0.00 0.00 4.30
268 269 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
273 274 1.229131 TATGGGACGGAGGGAGTACT 58.771 55.000 0.00 0.00 0.00 2.73
284 285 3.898123 GGAGGGAGTACTTGATATCAGCA 59.102 47.826 5.39 0.00 0.00 4.41
367 368 3.562557 ACCGTGTTGTCAAGAAATACCAC 59.437 43.478 0.00 0.00 0.00 4.16
387 388 5.585047 ACCACAGCGAATCTAGGAATAAAAC 59.415 40.000 0.00 0.00 0.00 2.43
420 422 4.083110 CGAAGATGCAAAGAATGTCTGGTT 60.083 41.667 0.00 0.00 0.00 3.67
424 426 4.572985 TGCAAAGAATGTCTGGTTCAAG 57.427 40.909 0.00 0.00 0.00 3.02
426 428 4.402155 TGCAAAGAATGTCTGGTTCAAGTT 59.598 37.500 0.00 0.00 0.00 2.66
439 441 3.252458 GGTTCAAGTTAATTCTGCACCGT 59.748 43.478 0.00 0.00 0.00 4.83
446 448 4.151157 AGTTAATTCTGCACCGTACGTTTC 59.849 41.667 15.21 0.00 0.00 2.78
448 450 1.210870 TTCTGCACCGTACGTTTCAC 58.789 50.000 15.21 0.00 0.00 3.18
449 451 0.102663 TCTGCACCGTACGTTTCACA 59.897 50.000 15.21 4.21 0.00 3.58
450 452 1.144969 CTGCACCGTACGTTTCACAT 58.855 50.000 15.21 0.00 0.00 3.21
456 458 1.125384 CCGTACGTTTCACATGAACCG 59.875 52.381 15.21 9.66 43.97 4.44
565 567 3.308866 GCGTGTTGTACAGTTGAACTCTT 59.691 43.478 0.00 0.00 0.00 2.85
566 568 4.550255 GCGTGTTGTACAGTTGAACTCTTC 60.550 45.833 0.00 0.00 0.00 2.87
577 579 3.371102 TGAACTCTTCGACTCACTTGG 57.629 47.619 0.00 0.00 0.00 3.61
594 596 4.675114 CACTTGGAATTTCACGCACTTTAC 59.325 41.667 0.00 0.00 0.00 2.01
600 602 5.731263 GGAATTTCACGCACTTTACGTATTC 59.269 40.000 0.00 0.00 42.96 1.75
626 628 4.598062 GTGGAAGAAACAAAGAAACGGAG 58.402 43.478 0.00 0.00 0.00 4.63
707 713 6.017275 CCATGCAATTTGTTTGTGGTGTATTT 60.017 34.615 0.00 0.00 37.65 1.40
748 754 4.250464 GTGACGAACACTTGGGATAATCA 58.750 43.478 9.42 0.00 45.13 2.57
773 779 2.088104 TGTCTCACTCACCCAGACTT 57.912 50.000 0.00 0.00 37.93 3.01
794 800 4.253352 TGTCGAACGTTGAAACAAAGAG 57.747 40.909 5.00 0.00 0.00 2.85
795 801 3.927758 TGTCGAACGTTGAAACAAAGAGA 59.072 39.130 5.00 0.00 0.00 3.10
819 825 9.454859 AGAGTATTCATTAGGAAAAACTCAAGG 57.545 33.333 19.78 0.00 45.68 3.61
820 826 9.232473 GAGTATTCATTAGGAAAAACTCAAGGT 57.768 33.333 15.59 0.00 44.26 3.50
822 828 9.841880 GTATTCATTAGGAAAAACTCAAGGTTC 57.158 33.333 0.00 0.00 39.39 3.62
823 829 8.712228 ATTCATTAGGAAAAACTCAAGGTTCT 57.288 30.769 0.00 0.00 39.39 3.01
824 830 7.510549 TCATTAGGAAAAACTCAAGGTTCTG 57.489 36.000 0.00 0.00 37.12 3.02
825 831 5.767816 TTAGGAAAAACTCAAGGTTCTGC 57.232 39.130 0.00 0.00 37.12 4.26
857 864 0.528017 GAGTCCTGCATGACGTGAGA 59.472 55.000 15.27 0.00 40.26 3.27
866 873 1.872952 CATGACGTGAGACCAAAAGCA 59.127 47.619 0.00 0.00 0.00 3.91
867 874 2.254546 TGACGTGAGACCAAAAGCAT 57.745 45.000 0.00 0.00 0.00 3.79
868 875 1.872952 TGACGTGAGACCAAAAGCATG 59.127 47.619 0.00 0.00 0.00 4.06
869 876 0.593128 ACGTGAGACCAAAAGCATGC 59.407 50.000 10.51 10.51 0.00 4.06
888 895 2.787601 CATGCATGCATGTTACTCCC 57.212 50.000 40.30 9.65 46.20 4.30
901 908 2.552743 GTTACTCCCTCAACAGCAAACC 59.447 50.000 0.00 0.00 0.00 3.27
982 989 7.377131 GCAAAGAGATACAAAGTTGTTTCTGTC 59.623 37.037 18.12 8.20 45.31 3.51
990 997 6.512297 ACAAAGTTGTTTCTGTCACAAAGTT 58.488 32.000 0.00 0.00 38.47 2.66
991 998 7.653647 ACAAAGTTGTTTCTGTCACAAAGTTA 58.346 30.769 0.00 0.00 38.47 2.24
1032 1039 0.798159 TTAGATGCTTGTGCGTGCAG 59.202 50.000 0.00 0.00 42.74 4.41
1074 1081 0.546122 TCACACAAACCAGCTCCACT 59.454 50.000 0.00 0.00 0.00 4.00
1101 1108 3.216292 GCCAACAACACGGGCAGT 61.216 61.111 0.00 0.00 46.92 4.40
1166 1173 4.072088 GTCGGACGCTGCAAACCG 62.072 66.667 18.24 18.24 45.61 4.44
1215 1222 3.622826 CGGTGGAAGGGTGTCCGT 61.623 66.667 0.00 0.00 40.96 4.69
1227 1234 2.253758 TGTCCGTTGCAGCAAGAGC 61.254 57.895 8.49 0.00 42.56 4.09
1266 1273 4.749976 AGCTCGATCTTCAAGGTTCTTAC 58.250 43.478 0.00 0.00 0.00 2.34
1290 1321 3.661944 CAGCTATCTAGGAGGCAACATG 58.338 50.000 0.00 0.00 41.41 3.21
1317 1348 1.352156 CGTTGGCTGGTCTAGAACGC 61.352 60.000 13.91 13.91 33.75 4.84
1320 1351 1.153549 GGCTGGTCTAGAACGCCTG 60.154 63.158 26.40 15.18 35.72 4.85
1345 1376 3.288308 CTCGACCTCAGCGGCAACT 62.288 63.158 1.45 0.00 35.61 3.16
1347 1378 2.811317 GACCTCAGCGGCAACTCG 60.811 66.667 1.45 0.00 35.61 4.18
1392 1423 0.951040 CTTTGCCGTCTCTCCACCAC 60.951 60.000 0.00 0.00 0.00 4.16
1516 1577 3.667166 CGACACATACTCCACGGATATCG 60.667 52.174 0.00 0.00 45.88 2.92
1572 1633 2.289945 GGACATGAGCTCTGTGAACCTT 60.290 50.000 21.36 3.82 0.00 3.50
1728 1789 0.825840 TTTCCTTCAACCTTGCCCCG 60.826 55.000 0.00 0.00 0.00 5.73
1958 2019 3.758554 GCCGGTATCAATGGAAGCATAAT 59.241 43.478 1.90 0.00 0.00 1.28
2007 2068 8.366401 TCTTGTTCATGGAATAAATTTTCAGCA 58.634 29.630 0.00 0.00 0.00 4.41
2055 2119 1.454201 GAAGCCTACCAACCAAGCTC 58.546 55.000 0.00 0.00 32.19 4.09
2067 2131 1.707427 ACCAAGCTCCAAGAATCCTGT 59.293 47.619 0.00 0.00 0.00 4.00
2210 2274 9.967451 TGTTATACAGGAAGGTCATTTATCAAA 57.033 29.630 0.00 0.00 0.00 2.69
2215 2279 6.884836 ACAGGAAGGTCATTTATCAAACCTAC 59.115 38.462 0.00 0.00 41.25 3.18
2230 2294 1.065126 ACCTACCAAGATTGCAGAGGC 60.065 52.381 0.00 0.00 41.68 4.70
2278 2342 3.988379 TCACAGTGAATTCAACTTGGC 57.012 42.857 10.35 0.00 0.00 4.52
2298 2362 3.885901 GGCTTCCTCCATTTAATCTGACC 59.114 47.826 0.00 0.00 0.00 4.02
2347 2411 3.617284 GGACCTAAATTTCCGATGTGGT 58.383 45.455 0.00 0.00 39.52 4.16
2352 2416 4.632688 CCTAAATTTCCGATGTGGTTACGT 59.367 41.667 0.00 0.00 39.52 3.57
2511 2578 8.762645 TCTACAATGGAATATATGAGGACATCC 58.237 37.037 0.00 0.00 37.87 3.51
2540 2607 5.649395 TGGATCTCAGTTCCAATCAATTCAC 59.351 40.000 1.54 0.00 40.29 3.18
2690 2760 5.070981 TCTCTGGTACCATTCCATCATCTTC 59.929 44.000 16.75 0.00 34.26 2.87
2707 2777 3.402110 TCTTCGTGCAAGTTGACATCAT 58.598 40.909 7.16 0.00 33.27 2.45
2808 2878 8.421673 ACACAGAAAGTTTGAGTCTTAGTAAC 57.578 34.615 0.00 0.00 0.00 2.50
2871 2941 6.603940 TTATTCCTCAAAAATTGTCCCCAG 57.396 37.500 0.00 0.00 0.00 4.45
3059 3129 6.885952 TTCCAACAACGATATTTCAGGAAA 57.114 33.333 0.00 0.00 30.37 3.13
3072 3142 9.750125 GATATTTCAGGAAACATACCAAAATCC 57.250 33.333 0.00 0.00 32.51 3.01
3213 3331 1.882623 GTCACAAAAGGCCAAGAGAGG 59.117 52.381 5.01 0.00 0.00 3.69
3225 3343 4.593634 GGCCAAGAGAGGTTATATACAGGT 59.406 45.833 0.00 0.00 0.00 4.00
3895 4020 6.772233 TCATGTGTGGGGATTTTATGATGTAG 59.228 38.462 0.00 0.00 0.00 2.74
3985 4110 1.097232 CGTATGTACCCAGTCGACCA 58.903 55.000 13.01 1.73 0.00 4.02
3987 4112 2.733227 CGTATGTACCCAGTCGACCAAC 60.733 54.545 13.01 4.27 0.00 3.77
3992 4117 0.834612 ACCCAGTCGACCAACTTTGA 59.165 50.000 13.01 0.00 0.00 2.69
4136 4261 2.189342 CGAGCAGTTGTAGCTAGCTTC 58.811 52.381 24.88 18.92 43.58 3.86
4188 4313 2.421877 ATTAGCTCCGGCATCCGTCG 62.422 60.000 0.00 0.00 46.80 5.12
4230 4371 2.426023 GAGCCGGTCCAACACTGT 59.574 61.111 1.90 0.00 0.00 3.55
4236 4377 1.498865 CGGTCCAACACTGTCTGCAC 61.499 60.000 0.00 0.00 0.00 4.57
4326 4467 6.987386 ACCGGACAAAATTCATTACATTTCA 58.013 32.000 9.46 0.00 0.00 2.69
4375 4536 0.903942 TAAACCAATCCTACGGCGGT 59.096 50.000 13.24 1.39 0.00 5.68
4391 4552 2.434774 GTGGCCGTCTTCCCCTTT 59.565 61.111 0.00 0.00 0.00 3.11
4430 4592 0.247736 GACCACGTTCTCCATCTGCT 59.752 55.000 0.00 0.00 0.00 4.24
4505 4673 3.018149 ACGAGAGTAGAACATGGGAGAC 58.982 50.000 0.00 0.00 46.88 3.36
4579 4747 0.527600 TCGAAGGAATCCGCGACATG 60.528 55.000 8.23 0.00 32.40 3.21
4582 4750 0.537188 AAGGAATCCGCGACATGTCT 59.463 50.000 22.95 3.40 0.00 3.41
4593 4761 3.490759 CATGTCTGTCGCCGGTGC 61.491 66.667 11.05 6.30 0.00 5.01
4605 4773 4.293648 CGGTGCTGGTGGACGTGA 62.294 66.667 0.00 0.00 35.23 4.35
4607 4775 2.357517 GTGCTGGTGGACGTGAGG 60.358 66.667 0.00 0.00 0.00 3.86
4625 4793 0.174845 GGTCGATGATGGACGTGGAA 59.825 55.000 0.00 0.00 35.24 3.53
4626 4794 1.560923 GTCGATGATGGACGTGGAAG 58.439 55.000 0.00 0.00 0.00 3.46
4637 4805 2.642254 CGTGGAAGGTCCGGCACTA 61.642 63.158 0.00 0.00 40.17 2.74
4647 4815 2.584064 CGGCACTATCCACCTGCA 59.416 61.111 0.00 0.00 32.20 4.41
4648 4816 1.078497 CGGCACTATCCACCTGCAA 60.078 57.895 0.00 0.00 32.20 4.08
4649 4817 1.369091 CGGCACTATCCACCTGCAAC 61.369 60.000 0.00 0.00 32.20 4.17
4650 4818 1.032114 GGCACTATCCACCTGCAACC 61.032 60.000 0.00 0.00 32.20 3.77
4651 4819 0.322456 GCACTATCCACCTGCAACCA 60.322 55.000 0.00 0.00 0.00 3.67
4652 4820 1.742761 CACTATCCACCTGCAACCAG 58.257 55.000 0.00 0.00 38.85 4.00
4653 4821 1.003580 CACTATCCACCTGCAACCAGT 59.996 52.381 0.00 0.00 37.38 4.00
4654 4822 1.705186 ACTATCCACCTGCAACCAGTT 59.295 47.619 0.00 0.00 37.38 3.16
4655 4823 2.108250 ACTATCCACCTGCAACCAGTTT 59.892 45.455 0.00 0.00 37.38 2.66
4656 4824 2.086610 ATCCACCTGCAACCAGTTTT 57.913 45.000 0.00 0.00 37.38 2.43
4657 4825 1.110442 TCCACCTGCAACCAGTTTTG 58.890 50.000 0.00 0.00 37.38 2.44
4684 4852 5.948992 CCTTTTAGAAGGTTCAACTCTGG 57.051 43.478 3.82 0.00 46.16 3.86
4685 4853 5.377478 CCTTTTAGAAGGTTCAACTCTGGT 58.623 41.667 3.82 0.00 46.16 4.00
4686 4854 5.828328 CCTTTTAGAAGGTTCAACTCTGGTT 59.172 40.000 3.82 0.00 46.16 3.67
4687 4855 6.321435 CCTTTTAGAAGGTTCAACTCTGGTTT 59.679 38.462 3.82 0.00 46.16 3.27
4688 4856 7.147897 CCTTTTAGAAGGTTCAACTCTGGTTTT 60.148 37.037 3.82 0.00 46.16 2.43
4689 4857 7.712204 TTTAGAAGGTTCAACTCTGGTTTTT 57.288 32.000 0.00 0.00 32.73 1.94
4718 4886 9.778741 TCTGATTATGTTGTTTTCTTCTACTGT 57.221 29.630 0.00 0.00 0.00 3.55
4719 4887 9.817365 CTGATTATGTTGTTTTCTTCTACTGTG 57.183 33.333 0.00 0.00 0.00 3.66
4720 4888 8.289618 TGATTATGTTGTTTTCTTCTACTGTGC 58.710 33.333 0.00 0.00 0.00 4.57
4721 4889 7.801716 TTATGTTGTTTTCTTCTACTGTGCT 57.198 32.000 0.00 0.00 0.00 4.40
4722 4890 6.699575 ATGTTGTTTTCTTCTACTGTGCTT 57.300 33.333 0.00 0.00 0.00 3.91
4723 4891 6.509418 TGTTGTTTTCTTCTACTGTGCTTT 57.491 33.333 0.00 0.00 0.00 3.51
4724 4892 6.551736 TGTTGTTTTCTTCTACTGTGCTTTC 58.448 36.000 0.00 0.00 0.00 2.62
4725 4893 6.374333 TGTTGTTTTCTTCTACTGTGCTTTCT 59.626 34.615 0.00 0.00 0.00 2.52
4726 4894 6.363577 TGTTTTCTTCTACTGTGCTTTCTG 57.636 37.500 0.00 0.00 0.00 3.02
4727 4895 6.112734 TGTTTTCTTCTACTGTGCTTTCTGA 58.887 36.000 0.00 0.00 0.00 3.27
4728 4896 6.258727 TGTTTTCTTCTACTGTGCTTTCTGAG 59.741 38.462 0.00 0.00 0.00 3.35
4729 4897 4.527509 TCTTCTACTGTGCTTTCTGAGG 57.472 45.455 0.00 0.00 0.00 3.86
4730 4898 3.898123 TCTTCTACTGTGCTTTCTGAGGT 59.102 43.478 0.00 0.00 0.00 3.85
4731 4899 4.345257 TCTTCTACTGTGCTTTCTGAGGTT 59.655 41.667 0.00 0.00 0.00 3.50
4732 4900 4.689612 TCTACTGTGCTTTCTGAGGTTT 57.310 40.909 0.00 0.00 0.00 3.27
4733 4901 5.036117 TCTACTGTGCTTTCTGAGGTTTT 57.964 39.130 0.00 0.00 0.00 2.43
4734 4902 5.437060 TCTACTGTGCTTTCTGAGGTTTTT 58.563 37.500 0.00 0.00 0.00 1.94
4735 4903 4.639135 ACTGTGCTTTCTGAGGTTTTTC 57.361 40.909 0.00 0.00 0.00 2.29
4736 4904 3.381590 ACTGTGCTTTCTGAGGTTTTTCC 59.618 43.478 0.00 0.00 0.00 3.13
4737 4905 2.693074 TGTGCTTTCTGAGGTTTTTCCC 59.307 45.455 0.00 0.00 36.75 3.97
4738 4906 2.693074 GTGCTTTCTGAGGTTTTTCCCA 59.307 45.455 0.00 0.00 36.75 4.37
4739 4907 3.321968 GTGCTTTCTGAGGTTTTTCCCAT 59.678 43.478 0.00 0.00 36.75 4.00
4740 4908 3.966665 TGCTTTCTGAGGTTTTTCCCATT 59.033 39.130 0.00 0.00 36.75 3.16
4741 4909 4.408596 TGCTTTCTGAGGTTTTTCCCATTT 59.591 37.500 0.00 0.00 36.75 2.32
4742 4910 5.104569 TGCTTTCTGAGGTTTTTCCCATTTT 60.105 36.000 0.00 0.00 36.75 1.82
4743 4911 5.822519 GCTTTCTGAGGTTTTTCCCATTTTT 59.177 36.000 0.00 0.00 36.75 1.94
4744 4912 6.238456 GCTTTCTGAGGTTTTTCCCATTTTTG 60.238 38.462 0.00 0.00 36.75 2.44
4745 4913 5.948742 TCTGAGGTTTTTCCCATTTTTGT 57.051 34.783 0.00 0.00 36.75 2.83
4746 4914 5.912892 TCTGAGGTTTTTCCCATTTTTGTC 58.087 37.500 0.00 0.00 36.75 3.18
4747 4915 5.029807 TGAGGTTTTTCCCATTTTTGTCC 57.970 39.130 0.00 0.00 36.75 4.02
4748 4916 4.141597 TGAGGTTTTTCCCATTTTTGTCCC 60.142 41.667 0.00 0.00 36.75 4.46
4749 4917 4.044308 AGGTTTTTCCCATTTTTGTCCCT 58.956 39.130 0.00 0.00 36.75 4.20
4750 4918 4.476846 AGGTTTTTCCCATTTTTGTCCCTT 59.523 37.500 0.00 0.00 36.75 3.95
4751 4919 5.044476 AGGTTTTTCCCATTTTTGTCCCTTT 60.044 36.000 0.00 0.00 36.75 3.11
4752 4920 5.654650 GGTTTTTCCCATTTTTGTCCCTTTT 59.345 36.000 0.00 0.00 0.00 2.27
4753 4921 6.183360 GGTTTTTCCCATTTTTGTCCCTTTTC 60.183 38.462 0.00 0.00 0.00 2.29
4754 4922 5.966853 TTTCCCATTTTTGTCCCTTTTCT 57.033 34.783 0.00 0.00 0.00 2.52
4755 4923 5.966853 TTCCCATTTTTGTCCCTTTTCTT 57.033 34.783 0.00 0.00 0.00 2.52
4756 4924 5.966853 TCCCATTTTTGTCCCTTTTCTTT 57.033 34.783 0.00 0.00 0.00 2.52
4757 4925 6.320434 TCCCATTTTTGTCCCTTTTCTTTT 57.680 33.333 0.00 0.00 0.00 2.27
4758 4926 6.726379 TCCCATTTTTGTCCCTTTTCTTTTT 58.274 32.000 0.00 0.00 0.00 1.94
4801 4969 9.685276 ATTTTCCAAATTTCATAGGAATTTCCC 57.315 29.630 11.92 0.00 39.67 3.97
4802 4970 7.805083 TTCCAAATTTCATAGGAATTTCCCA 57.195 32.000 11.92 0.00 37.19 4.37
4803 4971 7.805083 TCCAAATTTCATAGGAATTTCCCAA 57.195 32.000 11.92 1.25 37.19 4.12
4804 4972 8.212259 TCCAAATTTCATAGGAATTTCCCAAA 57.788 30.769 11.92 6.83 37.19 3.28
4805 4973 8.664079 TCCAAATTTCATAGGAATTTCCCAAAA 58.336 29.630 11.92 7.91 37.19 2.44
4806 4974 9.294614 CCAAATTTCATAGGAATTTCCCAAAAA 57.705 29.630 11.92 8.21 37.19 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.179547 CACACACGCACAAGCTCCA 61.180 57.895 0.00 0.00 39.10 3.86
77 78 5.571784 ACTGCCATCTTTGACAACATATG 57.428 39.130 0.00 0.00 0.00 1.78
123 124 2.629763 GTGCAACAACCGACGACC 59.370 61.111 0.00 0.00 36.32 4.79
183 184 5.698089 TCAAAGATGCACACAACAACAAAAA 59.302 32.000 0.00 0.00 0.00 1.94
184 185 5.233225 TCAAAGATGCACACAACAACAAAA 58.767 33.333 0.00 0.00 0.00 2.44
185 186 4.814147 TCAAAGATGCACACAACAACAAA 58.186 34.783 0.00 0.00 0.00 2.83
186 187 4.446994 TCAAAGATGCACACAACAACAA 57.553 36.364 0.00 0.00 0.00 2.83
187 188 4.142204 ACATCAAAGATGCACACAACAACA 60.142 37.500 6.90 0.00 0.00 3.33
188 189 4.362279 ACATCAAAGATGCACACAACAAC 58.638 39.130 6.90 0.00 0.00 3.32
209 210 9.846248 AGCTACAATGTCAAAATTAATCAAGAC 57.154 29.630 0.00 7.00 0.00 3.01
239 240 9.338622 CTCCGTCCCATAATATAAGAACTTTTT 57.661 33.333 0.00 0.00 0.00 1.94
243 244 5.484290 CCCTCCGTCCCATAATATAAGAACT 59.516 44.000 0.00 0.00 0.00 3.01
245 246 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
246 247 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
247 248 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
248 249 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
249 250 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
250 251 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
251 252 3.400322 AGTACTCCCTCCGTCCCATAATA 59.600 47.826 0.00 0.00 0.00 0.98
252 253 2.179424 AGTACTCCCTCCGTCCCATAAT 59.821 50.000 0.00 0.00 0.00 1.28
253 254 1.572415 AGTACTCCCTCCGTCCCATAA 59.428 52.381 0.00 0.00 0.00 1.90
254 255 1.229131 AGTACTCCCTCCGTCCCATA 58.771 55.000 0.00 0.00 0.00 2.74
255 256 0.338814 AAGTACTCCCTCCGTCCCAT 59.661 55.000 0.00 0.00 0.00 4.00
256 257 0.613853 CAAGTACTCCCTCCGTCCCA 60.614 60.000 0.00 0.00 0.00 4.37
257 258 0.324091 TCAAGTACTCCCTCCGTCCC 60.324 60.000 0.00 0.00 0.00 4.46
258 259 1.777941 ATCAAGTACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
259 260 4.142790 TGATATCAAGTACTCCCTCCGTC 58.857 47.826 1.98 0.00 0.00 4.79
260 261 4.145807 CTGATATCAAGTACTCCCTCCGT 58.854 47.826 6.90 0.00 0.00 4.69
261 262 3.057174 GCTGATATCAAGTACTCCCTCCG 60.057 52.174 6.90 0.00 0.00 4.63
262 263 3.898123 TGCTGATATCAAGTACTCCCTCC 59.102 47.826 6.90 0.00 0.00 4.30
263 264 5.244851 TCATGCTGATATCAAGTACTCCCTC 59.755 44.000 6.90 0.00 0.00 4.30
264 265 5.011533 GTCATGCTGATATCAAGTACTCCCT 59.988 44.000 6.90 0.00 0.00 4.20
265 266 5.221521 TGTCATGCTGATATCAAGTACTCCC 60.222 44.000 6.90 0.00 0.00 4.30
266 267 5.847304 TGTCATGCTGATATCAAGTACTCC 58.153 41.667 6.90 0.00 0.00 3.85
267 268 7.959689 AATGTCATGCTGATATCAAGTACTC 57.040 36.000 6.90 0.00 27.67 2.59
319 320 1.497722 GCGCTTCTGTGTACCAAGC 59.502 57.895 0.00 6.08 39.38 4.01
324 325 1.004918 AGGTGGCGCTTCTGTGTAC 60.005 57.895 7.64 0.00 0.00 2.90
367 368 5.749109 ACTCGTTTTATTCCTAGATTCGCTG 59.251 40.000 0.00 0.00 0.00 5.18
405 407 9.185192 GAATTAACTTGAACCAGACATTCTTTG 57.815 33.333 0.00 0.00 0.00 2.77
420 422 3.676172 CGTACGGTGCAGAATTAACTTGA 59.324 43.478 7.57 0.00 0.00 3.02
424 426 4.084433 TGAAACGTACGGTGCAGAATTAAC 60.084 41.667 21.06 1.57 0.00 2.01
426 428 3.429543 GTGAAACGTACGGTGCAGAATTA 59.570 43.478 16.03 0.00 0.00 1.40
480 482 2.072298 CAAGTGCTCTAGAACTGCCAC 58.928 52.381 0.00 0.00 33.24 5.01
541 543 2.607635 AGTTCAACTGTACAACACGCAG 59.392 45.455 0.00 0.00 36.41 5.18
565 567 3.057019 CGTGAAATTCCAAGTGAGTCGA 58.943 45.455 0.00 0.00 0.00 4.20
566 568 2.411547 GCGTGAAATTCCAAGTGAGTCG 60.412 50.000 0.00 0.00 0.00 4.18
577 579 6.301108 TGAATACGTAAAGTGCGTGAAATTC 58.699 36.000 0.00 4.31 42.87 2.17
594 596 5.524511 TTGTTTCTTCCACGATGAATACG 57.475 39.130 0.00 0.00 0.00 3.06
600 602 4.670621 CGTTTCTTTGTTTCTTCCACGATG 59.329 41.667 0.00 0.00 0.00 3.84
626 628 1.604278 GGCCTTGAATAGATGCGTTCC 59.396 52.381 0.00 0.00 0.00 3.62
666 672 2.159170 GCATGGTCAGACCTGTAGACTC 60.159 54.545 20.82 0.04 39.58 3.36
707 713 3.054728 TCACCTTTGACAACTGACCTGAA 60.055 43.478 0.00 0.00 0.00 3.02
748 754 1.557269 GGGTGAGTGAGACATGGGCT 61.557 60.000 0.00 0.00 0.00 5.19
754 760 1.688735 CAAGTCTGGGTGAGTGAGACA 59.311 52.381 0.00 0.00 38.90 3.41
773 779 3.927758 TCTCTTTGTTTCAACGTTCGACA 59.072 39.130 0.00 0.43 0.00 4.35
794 800 9.232473 ACCTTGAGTTTTTCCTAATGAATACTC 57.768 33.333 0.00 0.00 41.15 2.59
795 801 9.588096 AACCTTGAGTTTTTCCTAATGAATACT 57.412 29.630 0.00 0.00 33.89 2.12
819 825 0.038892 CATGCTTGTGTGGGCAGAAC 60.039 55.000 0.00 0.00 41.88 3.01
820 826 0.178995 TCATGCTTGTGTGGGCAGAA 60.179 50.000 0.00 0.00 41.88 3.02
822 828 0.892358 ACTCATGCTTGTGTGGGCAG 60.892 55.000 6.51 0.00 41.88 4.85
823 829 0.890542 GACTCATGCTTGTGTGGGCA 60.891 55.000 11.52 0.00 42.80 5.36
824 830 1.589716 GGACTCATGCTTGTGTGGGC 61.590 60.000 11.52 0.00 30.04 5.36
825 831 0.037303 AGGACTCATGCTTGTGTGGG 59.963 55.000 11.52 0.00 30.04 4.61
881 888 2.173782 TGGTTTGCTGTTGAGGGAGTAA 59.826 45.455 0.00 0.00 0.00 2.24
884 891 1.915141 ATGGTTTGCTGTTGAGGGAG 58.085 50.000 0.00 0.00 0.00 4.30
886 893 2.489329 CAGTATGGTTTGCTGTTGAGGG 59.511 50.000 0.00 0.00 33.73 4.30
901 908 2.117156 GCACAGCCCAGCCAGTATG 61.117 63.158 0.00 0.00 0.00 2.39
931 938 3.331150 TGGCGACTTTGTTGTTCGATAT 58.669 40.909 0.00 0.00 0.00 1.63
963 970 7.968405 ACTTTGTGACAGAAACAACTTTGTATC 59.032 33.333 0.00 0.00 41.31 2.24
982 989 8.746922 ATGCTCATTGTGTTTATAACTTTGTG 57.253 30.769 0.00 0.00 0.00 3.33
990 997 5.670485 AGGACGATGCTCATTGTGTTTATA 58.330 37.500 7.44 0.00 35.64 0.98
991 998 4.517285 AGGACGATGCTCATTGTGTTTAT 58.483 39.130 7.44 0.00 35.64 1.40
1046 1053 1.400142 TGGTTTGTGTGAGCAAGAACG 59.600 47.619 0.00 0.00 0.00 3.95
1051 1058 1.024271 GAGCTGGTTTGTGTGAGCAA 58.976 50.000 0.00 0.00 33.67 3.91
1074 1081 1.137872 GTGTTGTTGGCATGGGTTTCA 59.862 47.619 0.00 0.00 0.00 2.69
1101 1108 2.610479 GGATCTCTCACTCGCAACACAA 60.610 50.000 0.00 0.00 0.00 3.33
1215 1222 2.979676 CCGGTGCTCTTGCTGCAA 60.980 61.111 15.16 15.16 42.41 4.08
1227 1234 1.996786 GCTTGATGACATGGCCGGTG 61.997 60.000 1.90 5.47 0.00 4.94
1266 1273 1.181741 TGCCTCCTAGATAGCTGCCG 61.182 60.000 0.00 0.00 0.00 5.69
1290 1321 2.125350 CCAGCCAACGAGGAGCTC 60.125 66.667 4.71 4.71 41.22 4.09
1392 1423 5.665459 CTGGACAGGTTTAGATACCTCAAG 58.335 45.833 0.00 0.00 45.44 3.02
1572 1633 1.153449 CCAGTTCGGAATGGCGCTA 60.153 57.895 7.64 0.00 36.56 4.26
1728 1789 0.037232 AGTTGGGTGCTAGACGCTTC 60.037 55.000 0.00 0.00 40.11 3.86
1912 1973 7.436080 GGCATCATGTATAAACAATGTTTCCAG 59.564 37.037 15.22 1.66 39.58 3.86
1958 2019 2.035321 GGCAACCGTTGAAAGAATTCCA 59.965 45.455 15.63 0.00 34.49 3.53
2007 2068 9.167311 GTCAAACTGTTGTTAGATAGATCCAAT 57.833 33.333 0.00 0.00 34.96 3.16
2055 2119 5.762218 GGTCAGATTGATACAGGATTCTTGG 59.238 44.000 0.55 0.00 0.00 3.61
2067 2131 8.646004 CCAAGATAGAGAAAGGTCAGATTGATA 58.354 37.037 0.00 0.00 0.00 2.15
2193 2257 6.184789 TGGTAGGTTTGATAAATGACCTTCC 58.815 40.000 9.34 9.34 45.05 3.46
2210 2274 1.065126 GCCTCTGCAATCTTGGTAGGT 60.065 52.381 0.00 0.00 37.47 3.08
2215 2279 1.201647 CAACAGCCTCTGCAATCTTGG 59.798 52.381 0.00 0.00 41.13 3.61
2230 2294 7.023575 GCTATTGAATTACCTGACAACAACAG 58.976 38.462 0.00 0.00 35.43 3.16
2278 2342 6.359804 TCATGGTCAGATTAAATGGAGGAAG 58.640 40.000 0.00 0.00 0.00 3.46
2298 2362 0.175760 ACGACCGGAGTCCAATCATG 59.824 55.000 9.46 0.00 40.12 3.07
2347 2411 5.816777 GGTATATAGGTGTTTGCCAACGTAA 59.183 40.000 0.00 0.00 35.24 3.18
2352 2416 4.406326 TCGAGGTATATAGGTGTTTGCCAA 59.594 41.667 0.00 0.00 0.00 4.52
2511 2578 2.028420 TGGAACTGAGATCCATTGCG 57.972 50.000 7.43 0.00 41.98 4.85
2540 2607 3.054065 AGGAAGCTTAGGAATTGGACCAG 60.054 47.826 0.00 0.00 0.00 4.00
2605 2672 4.881850 CGTTCCAAATTCTAATGGTAGCCT 59.118 41.667 0.00 0.00 37.94 4.58
2690 2760 3.541071 TCAATGATGTCAACTTGCACG 57.459 42.857 0.00 0.00 0.00 5.34
2808 2878 6.486993 AGAGGTTGTTGTTTCTTAAGCTTAGG 59.513 38.462 9.25 9.25 31.73 2.69
2871 2941 4.509230 TGTGCGAGATCAAGAAATATGAGC 59.491 41.667 0.00 0.00 33.51 4.26
3046 3116 9.750125 GGATTTTGGTATGTTTCCTGAAATATC 57.250 33.333 5.31 0.00 34.63 1.63
3051 3121 7.016072 ACAATGGATTTTGGTATGTTTCCTGAA 59.984 33.333 0.00 0.00 0.00 3.02
3059 3129 9.303116 TGTAGTTAACAATGGATTTTGGTATGT 57.697 29.630 8.61 0.00 34.29 2.29
3072 3142 6.662414 ATCATCCGTGTGTAGTTAACAATG 57.338 37.500 8.61 0.00 40.63 2.82
3083 3153 3.195610 TCTGCTTAGAATCATCCGTGTGT 59.804 43.478 0.00 0.00 0.00 3.72
3123 3193 9.739276 ACATCTTCAAAATTGAGTACTCCATTA 57.261 29.630 19.43 6.38 38.61 1.90
3126 3196 7.502226 ACAACATCTTCAAAATTGAGTACTCCA 59.498 33.333 20.11 9.92 38.61 3.86
3985 4110 9.257651 GTACATAGCGAAGGTAATATCAAAGTT 57.742 33.333 0.00 0.00 46.26 2.66
3987 4112 8.812147 TGTACATAGCGAAGGTAATATCAAAG 57.188 34.615 0.00 0.00 46.26 2.77
4065 4190 3.319198 AGGCCCGGACGACATTGT 61.319 61.111 0.73 0.00 0.00 2.71
4092 4217 1.447140 GTATTGAGACGGCGGTGCA 60.447 57.895 13.24 2.36 0.00 4.57
4093 4218 1.017177 TTGTATTGAGACGGCGGTGC 61.017 55.000 13.24 0.00 0.00 5.01
4100 4225 3.754955 TGCTCGTACTTGTATTGAGACG 58.245 45.455 13.48 0.00 0.00 4.18
4136 4261 2.237143 TGTTGGAGATGCCCTTAGTCAG 59.763 50.000 0.00 0.00 34.97 3.51
4255 4396 6.676950 TGCACGAATTTCATCATGTTAGTTT 58.323 32.000 0.00 0.00 0.00 2.66
4375 4536 1.423794 AAGAAAGGGGAAGACGGCCA 61.424 55.000 2.24 0.00 0.00 5.36
4387 4548 4.963276 TGATGCGGAATACAAAGAAAGG 57.037 40.909 0.00 0.00 0.00 3.11
4391 4552 3.369756 GTCGTTGATGCGGAATACAAAGA 59.630 43.478 6.46 6.46 0.00 2.52
4459 4626 2.907897 GAATCCGCACCTCCACCTCG 62.908 65.000 0.00 0.00 0.00 4.63
4568 4736 4.814900 GACAGACATGTCGCGGAT 57.185 55.556 19.85 5.24 46.01 4.18
4593 4761 1.595993 ATCGACCTCACGTCCACCAG 61.596 60.000 0.00 0.00 38.36 4.00
4596 4764 0.456221 ATCATCGACCTCACGTCCAC 59.544 55.000 0.00 0.00 38.36 4.02
4601 4769 0.592500 CGTCCATCATCGACCTCACG 60.593 60.000 0.00 0.00 0.00 4.35
4605 4773 0.683179 TCCACGTCCATCATCGACCT 60.683 55.000 0.00 0.00 0.00 3.85
4607 4775 1.560923 CTTCCACGTCCATCATCGAC 58.439 55.000 0.00 0.00 0.00 4.20
4625 4793 2.064581 GGTGGATAGTGCCGGACCT 61.065 63.158 5.05 1.13 0.00 3.85
4626 4794 2.064581 AGGTGGATAGTGCCGGACC 61.065 63.158 5.05 0.00 0.00 4.46
4630 4798 1.078497 TTGCAGGTGGATAGTGCCG 60.078 57.895 0.00 0.00 36.31 5.69
4632 4800 0.322456 TGGTTGCAGGTGGATAGTGC 60.322 55.000 0.00 0.00 37.73 4.40
4637 4805 1.688197 CAAAACTGGTTGCAGGTGGAT 59.312 47.619 0.00 0.00 0.00 3.41
4647 4815 6.860790 TCTAAAAGGTTTCCAAAACTGGTT 57.139 33.333 2.90 0.00 35.78 3.67
4648 4816 6.127168 CCTTCTAAAAGGTTTCCAAAACTGGT 60.127 38.462 2.90 0.00 46.10 4.00
4649 4817 6.280643 CCTTCTAAAAGGTTTCCAAAACTGG 58.719 40.000 2.90 0.00 46.10 4.00
4662 4830 5.828328 AACCAGAGTTGAACCTTCTAAAAGG 59.172 40.000 2.66 2.66 45.45 3.11
4663 4831 6.944234 AACCAGAGTTGAACCTTCTAAAAG 57.056 37.500 0.00 0.00 33.97 2.27
4664 4832 7.712204 AAAACCAGAGTTGAACCTTCTAAAA 57.288 32.000 0.00 0.00 35.97 1.52
4665 4833 7.712204 AAAAACCAGAGTTGAACCTTCTAAA 57.288 32.000 0.00 0.00 35.97 1.85
4692 4860 9.778741 ACAGTAGAAGAAAACAACATAATCAGA 57.221 29.630 0.00 0.00 0.00 3.27
4693 4861 9.817365 CACAGTAGAAGAAAACAACATAATCAG 57.183 33.333 0.00 0.00 0.00 2.90
4694 4862 8.289618 GCACAGTAGAAGAAAACAACATAATCA 58.710 33.333 0.00 0.00 0.00 2.57
4695 4863 8.507249 AGCACAGTAGAAGAAAACAACATAATC 58.493 33.333 0.00 0.00 0.00 1.75
4696 4864 8.396272 AGCACAGTAGAAGAAAACAACATAAT 57.604 30.769 0.00 0.00 0.00 1.28
4697 4865 7.801716 AGCACAGTAGAAGAAAACAACATAA 57.198 32.000 0.00 0.00 0.00 1.90
4698 4866 7.801716 AAGCACAGTAGAAGAAAACAACATA 57.198 32.000 0.00 0.00 0.00 2.29
4699 4867 6.699575 AAGCACAGTAGAAGAAAACAACAT 57.300 33.333 0.00 0.00 0.00 2.71
4700 4868 6.374333 AGAAAGCACAGTAGAAGAAAACAACA 59.626 34.615 0.00 0.00 0.00 3.33
4701 4869 6.688813 CAGAAAGCACAGTAGAAGAAAACAAC 59.311 38.462 0.00 0.00 0.00 3.32
4702 4870 6.597672 TCAGAAAGCACAGTAGAAGAAAACAA 59.402 34.615 0.00 0.00 0.00 2.83
4703 4871 6.112734 TCAGAAAGCACAGTAGAAGAAAACA 58.887 36.000 0.00 0.00 0.00 2.83
4704 4872 6.293135 CCTCAGAAAGCACAGTAGAAGAAAAC 60.293 42.308 0.00 0.00 0.00 2.43
4705 4873 5.760253 CCTCAGAAAGCACAGTAGAAGAAAA 59.240 40.000 0.00 0.00 0.00 2.29
4706 4874 5.163301 ACCTCAGAAAGCACAGTAGAAGAAA 60.163 40.000 0.00 0.00 0.00 2.52
4707 4875 4.345257 ACCTCAGAAAGCACAGTAGAAGAA 59.655 41.667 0.00 0.00 0.00 2.52
4708 4876 3.898123 ACCTCAGAAAGCACAGTAGAAGA 59.102 43.478 0.00 0.00 0.00 2.87
4709 4877 4.264460 ACCTCAGAAAGCACAGTAGAAG 57.736 45.455 0.00 0.00 0.00 2.85
4710 4878 4.689612 AACCTCAGAAAGCACAGTAGAA 57.310 40.909 0.00 0.00 0.00 2.10
4711 4879 4.689612 AAACCTCAGAAAGCACAGTAGA 57.310 40.909 0.00 0.00 0.00 2.59
4712 4880 5.278022 GGAAAAACCTCAGAAAGCACAGTAG 60.278 44.000 0.00 0.00 35.41 2.57
4713 4881 4.578928 GGAAAAACCTCAGAAAGCACAGTA 59.421 41.667 0.00 0.00 35.41 2.74
4714 4882 3.381590 GGAAAAACCTCAGAAAGCACAGT 59.618 43.478 0.00 0.00 35.41 3.55
4715 4883 3.243535 GGGAAAAACCTCAGAAAGCACAG 60.244 47.826 0.00 0.00 38.98 3.66
4716 4884 2.693074 GGGAAAAACCTCAGAAAGCACA 59.307 45.455 0.00 0.00 38.98 4.57
4717 4885 2.693074 TGGGAAAAACCTCAGAAAGCAC 59.307 45.455 0.00 0.00 38.98 4.40
4718 4886 3.025322 TGGGAAAAACCTCAGAAAGCA 57.975 42.857 0.00 0.00 38.98 3.91
4719 4887 4.607293 AATGGGAAAAACCTCAGAAAGC 57.393 40.909 0.00 0.00 38.98 3.51
4720 4888 6.823182 ACAAAAATGGGAAAAACCTCAGAAAG 59.177 34.615 0.00 0.00 38.98 2.62
4721 4889 6.716284 ACAAAAATGGGAAAAACCTCAGAAA 58.284 32.000 0.00 0.00 38.98 2.52
4722 4890 6.306643 ACAAAAATGGGAAAAACCTCAGAA 57.693 33.333 0.00 0.00 38.98 3.02
4723 4891 5.163353 GGACAAAAATGGGAAAAACCTCAGA 60.163 40.000 0.00 0.00 38.98 3.27
4724 4892 5.056480 GGACAAAAATGGGAAAAACCTCAG 58.944 41.667 0.00 0.00 38.98 3.35
4725 4893 4.141597 GGGACAAAAATGGGAAAAACCTCA 60.142 41.667 0.00 0.00 38.98 3.86
4726 4894 4.102524 AGGGACAAAAATGGGAAAAACCTC 59.897 41.667 0.00 0.00 38.98 3.85
4727 4895 4.044308 AGGGACAAAAATGGGAAAAACCT 58.956 39.130 0.00 0.00 38.98 3.50
4728 4896 4.431416 AGGGACAAAAATGGGAAAAACC 57.569 40.909 0.00 0.00 38.08 3.27
4729 4897 6.601613 AGAAAAGGGACAAAAATGGGAAAAAC 59.398 34.615 0.00 0.00 0.00 2.43
4730 4898 6.726379 AGAAAAGGGACAAAAATGGGAAAAA 58.274 32.000 0.00 0.00 0.00 1.94
4731 4899 6.320434 AGAAAAGGGACAAAAATGGGAAAA 57.680 33.333 0.00 0.00 0.00 2.29
4732 4900 5.966853 AGAAAAGGGACAAAAATGGGAAA 57.033 34.783 0.00 0.00 0.00 3.13
4733 4901 5.966853 AAGAAAAGGGACAAAAATGGGAA 57.033 34.783 0.00 0.00 0.00 3.97
4734 4902 5.966853 AAAGAAAAGGGACAAAAATGGGA 57.033 34.783 0.00 0.00 0.00 4.37
4775 4943 9.685276 GGGAAATTCCTATGAAATTTGGAAAAT 57.315 29.630 12.28 4.47 39.77 1.82
4776 4944 8.664079 TGGGAAATTCCTATGAAATTTGGAAAA 58.336 29.630 12.28 0.00 39.77 2.29
4777 4945 8.212259 TGGGAAATTCCTATGAAATTTGGAAA 57.788 30.769 12.28 0.00 39.77 3.13
4778 4946 7.805083 TGGGAAATTCCTATGAAATTTGGAA 57.195 32.000 12.28 9.45 40.32 3.53
4779 4947 7.805083 TTGGGAAATTCCTATGAAATTTGGA 57.195 32.000 12.28 0.00 36.57 3.53
4780 4948 8.860780 TTTTGGGAAATTCCTATGAAATTTGG 57.139 30.769 12.28 0.00 36.57 3.28


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

AutoCloner maintained by Alex Coulton.