Multiple sequence alignment - TraesCS4B01G138200

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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 TraesCS4B01G138200 chr4B 100.000 3715 0 0 1 3715 182239958 182243672 0.000000e+00 6861.0
1 TraesCS4B01G138200 chr4D 95.472 2893 92 12 831 3715 119749808 119752669 0.000000e+00 4580.0
2 TraesCS4B01G138200 chr4D 89.384 471 29 10 1 461 119748752 119749211 1.160000e-159 573.0
3 TraesCS4B01G138200 chr4D 85.052 194 18 4 414 602 119749211 119749398 1.760000e-43 187.0
4 TraesCS4B01G138200 chr4D 74.494 247 44 13 400 636 43054306 43054543 5.110000e-14 89.8
5 TraesCS4B01G138200 chr4D 93.750 48 3 0 2863 2910 119751926 119751879 5.150000e-09 73.1
6 TraesCS4B01G138200 chr4A 95.582 2037 79 7 831 2864 450341128 450343156 0.000000e+00 3253.0
7 TraesCS4B01G138200 chr4A 87.273 605 46 11 3056 3648 450343311 450343896 0.000000e+00 662.0
8 TraesCS4B01G138200 chr4A 89.726 292 12 9 1 282 450340078 450340361 1.270000e-94 357.0
9 TraesCS4B01G138200 chr4A 82.991 341 28 11 413 728 450340795 450341130 7.860000e-72 281.0
10 TraesCS4B01G138200 chr4A 88.360 189 15 5 273 459 450340611 450340794 1.740000e-53 220.0
11 TraesCS4B01G138200 chr4A 97.101 69 2 0 2985 3053 450343157 450343225 2.340000e-22 117.0
12 TraesCS4B01G138200 chr2B 94.545 110 6 0 725 834 701182300 701182191 1.770000e-38 171.0
13 TraesCS4B01G138200 chr2B 86.316 95 3 3 2870 2964 406085495 406085579 1.100000e-15 95.3
14 TraesCS4B01G138200 chr7B 94.444 108 6 0 726 833 261055920 261056027 2.290000e-37 167.0
15 TraesCS4B01G138200 chr7B 93.023 43 2 1 586 627 741664771 741664729 1.110000e-05 62.1
16 TraesCS4B01G138200 chr5B 94.444 108 6 0 726 833 281433786 281433893 2.290000e-37 167.0
17 TraesCS4B01G138200 chr5B 93.636 110 7 0 726 835 195739513 195739404 8.250000e-37 165.0
18 TraesCS4B01G138200 chr5B 93.443 61 4 0 2903 2963 683526696 683526636 1.420000e-14 91.6
19 TraesCS4B01G138200 chr3D 93.636 110 7 0 723 832 435646740 435646849 8.250000e-37 165.0
20 TraesCS4B01G138200 chr3D 92.308 52 3 1 2859 2910 454235682 454235632 5.150000e-09 73.1
21 TraesCS4B01G138200 chr3D 85.507 69 7 3 2923 2989 17441451 17441384 6.660000e-08 69.4
22 TraesCS4B01G138200 chr6B 92.857 112 8 0 725 836 333551441 333551552 2.970000e-36 163.0
23 TraesCS4B01G138200 chr3A 93.578 109 7 0 726 834 576567375 576567267 2.970000e-36 163.0
24 TraesCS4B01G138200 chr3A 92.593 54 0 3 2854 2907 581375861 581375910 1.430000e-09 75.0
25 TraesCS4B01G138200 chr3A 92.308 52 3 1 2859 2910 596367674 596367624 5.150000e-09 73.1
26 TraesCS4B01G138200 chr1B 92.857 112 7 1 721 832 661509423 661509313 1.070000e-35 161.0
27 TraesCS4B01G138200 chr1B 86.087 115 8 3 2863 2977 370729982 370729876 2.340000e-22 117.0
28 TraesCS4B01G138200 chr1B 80.000 100 11 5 527 621 302014629 302014724 8.610000e-07 65.8
29 TraesCS4B01G138200 chr5A 90.244 123 11 1 724 846 16500063 16499942 3.840000e-35 159.0
30 TraesCS4B01G138200 chr5D 83.221 149 23 2 398 545 487944591 487944738 6.470000e-28 135.0
31 TraesCS4B01G138200 chr5D 79.839 124 13 9 2862 2984 472997541 472997429 3.080000e-11 80.5
32 TraesCS4B01G138200 chr5D 97.222 36 1 0 586 621 447140537 447140572 1.110000e-05 62.1
33 TraesCS4B01G138200 chr7D 76.991 226 37 10 403 619 627876410 627876191 8.430000e-22 115.0
34 TraesCS4B01G138200 chr7D 76.419 229 40 9 400 621 62160390 62160611 1.090000e-20 111.0
35 TraesCS4B01G138200 chr7D 76.444 225 39 9 403 619 627700538 627700320 3.920000e-20 110.0
36 TraesCS4B01G138200 chr7D 82.787 122 20 1 403 523 627760038 627759917 1.410000e-19 108.0
37 TraesCS4B01G138200 chr7D 82.787 122 20 1 403 523 627815221 627815100 1.410000e-19 108.0
38 TraesCS4B01G138200 chrUn 82.857 105 8 3 2876 2979 77900051 77899956 6.610000e-13 86.1
39 TraesCS4B01G138200 chr3B 94.231 52 3 0 2926 2977 828438924 828438975 3.080000e-11 80.5
40 TraesCS4B01G138200 chr3B 94.231 52 3 0 2926 2977 828743311 828743260 3.080000e-11 80.5
41 TraesCS4B01G138200 chr1D 80.342 117 14 6 2866 2982 353028795 353028688 3.080000e-11 80.5
42 TraesCS4B01G138200 chr1D 97.778 45 1 0 2863 2907 305589044 305589088 1.110000e-10 78.7
43 TraesCS4B01G138200 chr2A 80.172 116 14 6 2863 2978 62724923 62724817 1.110000e-10 78.7
44 TraesCS4B01G138200 chr1A 97.727 44 1 0 2863 2906 384334593 384334636 3.980000e-10 76.8


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 TraesCS4B01G138200 chr4B 182239958 182243672 3714 False 6861 6861 100.000000 1 3715 1 chr4B.!!$F1 3714
1 TraesCS4B01G138200 chr4D 119748752 119752669 3917 False 1780 4580 89.969333 1 3715 3 chr4D.!!$F2 3714
2 TraesCS4B01G138200 chr4A 450340078 450343896 3818 False 815 3253 90.172167 1 3648 6 chr4A.!!$F1 3647

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
71 72 1.204941 GACGGCTCAAGGATGTACAGT 59.795 52.381 0.33 0.0 0.0 3.55 F
833 1437 1.719529 TTTGGAACGGAGGGAGTACA 58.280 50.000 0.00 0.0 0.0 2.90 F
1709 2316 0.461693 GCCAGCCTTCTCTAGCACAG 60.462 60.000 0.00 0.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1709 2316 0.169009 GCATCTCGGTGAAAAGGTGC 59.831 55.000 0.0 0.0 41.96 5.01 R
2159 2766 0.178973 TCTCCGGCTCGATCCCATAA 60.179 55.000 0.0 0.0 0.00 1.90 R
2888 3495 1.781429 CGAGATACATCCGTTTGAGCG 59.219 52.381 0.0 0.0 0.00 5.03 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
71 72 1.204941 GACGGCTCAAGGATGTACAGT 59.795 52.381 0.33 0.00 0.00 3.55
74 75 2.427453 CGGCTCAAGGATGTACAGTACT 59.573 50.000 12.07 0.00 0.00 2.73
75 76 3.630769 CGGCTCAAGGATGTACAGTACTA 59.369 47.826 12.07 0.00 0.00 1.82
76 77 4.261238 CGGCTCAAGGATGTACAGTACTAG 60.261 50.000 12.07 0.00 0.00 2.57
96 97 3.660865 AGTAGCTTGTAAAACGGTCTGG 58.339 45.455 0.00 0.00 0.00 3.86
191 195 7.805071 CACACCAAGAGTATAAAGCAAAGAAAG 59.195 37.037 0.00 0.00 0.00 2.62
236 247 3.006940 GGTTGTCAGTGTGTGTTTCTGA 58.993 45.455 0.00 0.00 36.12 3.27
237 248 3.627577 GGTTGTCAGTGTGTGTTTCTGAT 59.372 43.478 0.00 0.00 39.77 2.90
252 263 7.282901 TGTGTTTCTGATGTCTGAATCTGAAAA 59.717 33.333 21.41 15.03 46.76 2.29
253 264 8.131100 GTGTTTCTGATGTCTGAATCTGAAAAA 58.869 33.333 21.41 17.78 46.76 1.94
254 265 8.347771 TGTTTCTGATGTCTGAATCTGAAAAAG 58.652 33.333 21.41 0.00 46.76 2.27
256 267 8.455903 TTCTGATGTCTGAATCTGAAAAAGTT 57.544 30.769 13.89 0.00 39.86 2.66
257 268 8.455903 TCTGATGTCTGAATCTGAAAAAGTTT 57.544 30.769 0.00 0.00 33.23 2.66
258 269 9.559732 TCTGATGTCTGAATCTGAAAAAGTTTA 57.440 29.630 0.00 0.00 33.23 2.01
261 272 9.780413 GATGTCTGAATCTGAAAAAGTTTATCC 57.220 33.333 0.00 0.00 0.00 2.59
262 273 8.924511 TGTCTGAATCTGAAAAAGTTTATCCT 57.075 30.769 0.00 0.00 0.00 3.24
263 274 9.354673 TGTCTGAATCTGAAAAAGTTTATCCTT 57.645 29.630 0.00 0.00 0.00 3.36
285 554 9.868160 TCCTTAGAATAGAGAGTGATGTATCAA 57.132 33.333 0.00 0.00 38.75 2.57
308 577 9.354673 TCAAGTAAAGGAAGAATTCTTGTCATT 57.645 29.630 25.12 12.73 46.56 2.57
342 614 6.923012 TCATTGTTTGTGACCAATAAGGATG 58.077 36.000 0.00 0.00 41.22 3.51
374 646 6.494893 TCTGAAGTTAAAATGATTCCGTGG 57.505 37.500 0.00 0.00 0.00 4.94
388 660 2.766313 TCCGTGGTTGTTTCAGAGATG 58.234 47.619 0.00 0.00 0.00 2.90
406 678 9.647918 TCAGAGATGAAATGATTACTAGTACCT 57.352 33.333 0.91 0.00 0.00 3.08
407 679 9.906660 CAGAGATGAAATGATTACTAGTACCTC 57.093 37.037 0.91 3.57 0.00 3.85
409 681 7.887381 AGATGAAATGATTACTAGTACCTCCG 58.113 38.462 0.91 0.00 0.00 4.63
410 682 7.506261 AGATGAAATGATTACTAGTACCTCCGT 59.494 37.037 0.91 0.00 0.00 4.69
411 683 7.414222 TGAAATGATTACTAGTACCTCCGTT 57.586 36.000 0.91 0.44 0.00 4.44
431 746 6.207221 TCCGTTTTGGTTTATTAGTCCCTTTC 59.793 38.462 0.00 0.00 39.52 2.62
442 757 8.851541 TTATTAGTCCCTTTCGTATTTTGTGT 57.148 30.769 0.00 0.00 0.00 3.72
451 766 9.733219 CCCTTTCGTATTTTGTGTTAAACTTTA 57.267 29.630 0.00 0.00 0.00 1.85
511 826 8.682710 TGCTACAAAATTACATTGGTAGATTCC 58.317 33.333 5.91 0.00 35.03 3.01
565 1057 9.950680 CATTTTCGTTGCATATAAATTAGGAGT 57.049 29.630 0.00 0.00 0.00 3.85
607 1104 8.301002 TCTAAAAATTTGACCCAAAATACGAGG 58.699 33.333 0.00 0.00 36.90 4.63
615 1112 4.432980 CCCAAAATACGAGGGGACTAAT 57.567 45.455 0.00 0.00 44.43 1.73
629 1126 3.117776 GGGACTAATAAACCCGGGTGAAT 60.118 47.826 31.05 21.05 34.03 2.57
630 1127 3.881089 GGACTAATAAACCCGGGTGAATG 59.119 47.826 31.05 17.59 0.00 2.67
633 1130 5.677567 ACTAATAAACCCGGGTGAATGTAG 58.322 41.667 31.05 24.70 0.00 2.74
637 1134 1.941377 ACCCGGGTGAATGTAGTACA 58.059 50.000 29.69 5.24 0.00 2.90
638 1135 1.829222 ACCCGGGTGAATGTAGTACAG 59.171 52.381 29.69 0.00 0.00 2.74
639 1136 1.829222 CCCGGGTGAATGTAGTACAGT 59.171 52.381 14.18 5.98 0.00 3.55
640 1137 3.025978 CCCGGGTGAATGTAGTACAGTA 58.974 50.000 14.18 0.00 0.00 2.74
641 1138 3.181483 CCCGGGTGAATGTAGTACAGTAC 60.181 52.174 14.18 2.05 0.00 2.73
643 1140 3.698040 CGGGTGAATGTAGTACAGTACCT 59.302 47.826 22.42 1.57 32.96 3.08
645 1142 4.430908 GGTGAATGTAGTACAGTACCTGC 58.569 47.826 18.82 3.71 34.37 4.85
651 1255 5.130292 TGTAGTACAGTACCTGCAAAGAC 57.870 43.478 7.13 0.00 34.37 3.01
684 1288 5.684704 TCTGTCACAAGTCTTTCAGGATTT 58.315 37.500 0.00 0.00 0.00 2.17
729 1333 9.925268 TTCAAAGAAACGTGTTTTTATCTACTC 57.075 29.630 0.00 0.00 32.11 2.59
730 1334 8.553696 TCAAAGAAACGTGTTTTTATCTACTCC 58.446 33.333 0.00 0.00 32.11 3.85
731 1335 7.430992 AAGAAACGTGTTTTTATCTACTCCC 57.569 36.000 0.00 0.00 32.11 4.30
732 1336 6.766429 AGAAACGTGTTTTTATCTACTCCCT 58.234 36.000 0.00 0.00 32.11 4.20
733 1337 6.872547 AGAAACGTGTTTTTATCTACTCCCTC 59.127 38.462 0.00 0.00 32.11 4.30
734 1338 5.082251 ACGTGTTTTTATCTACTCCCTCC 57.918 43.478 0.00 0.00 0.00 4.30
735 1339 4.110482 CGTGTTTTTATCTACTCCCTCCG 58.890 47.826 0.00 0.00 0.00 4.63
736 1340 4.381292 CGTGTTTTTATCTACTCCCTCCGT 60.381 45.833 0.00 0.00 0.00 4.69
737 1341 5.485620 GTGTTTTTATCTACTCCCTCCGTT 58.514 41.667 0.00 0.00 0.00 4.44
738 1342 5.936372 GTGTTTTTATCTACTCCCTCCGTTT 59.064 40.000 0.00 0.00 0.00 3.60
739 1343 6.091849 GTGTTTTTATCTACTCCCTCCGTTTC 59.908 42.308 0.00 0.00 0.00 2.78
740 1344 6.168389 GTTTTTATCTACTCCCTCCGTTTCA 58.832 40.000 0.00 0.00 0.00 2.69
741 1345 6.363167 TTTTATCTACTCCCTCCGTTTCAA 57.637 37.500 0.00 0.00 0.00 2.69
742 1346 6.363167 TTTATCTACTCCCTCCGTTTCAAA 57.637 37.500 0.00 0.00 0.00 2.69
743 1347 6.555463 TTATCTACTCCCTCCGTTTCAAAT 57.445 37.500 0.00 0.00 0.00 2.32
744 1348 4.903045 TCTACTCCCTCCGTTTCAAATT 57.097 40.909 0.00 0.00 0.00 1.82
745 1349 6.555463 ATCTACTCCCTCCGTTTCAAATTA 57.445 37.500 0.00 0.00 0.00 1.40
746 1350 5.727434 TCTACTCCCTCCGTTTCAAATTAC 58.273 41.667 0.00 0.00 0.00 1.89
747 1351 4.635699 ACTCCCTCCGTTTCAAATTACT 57.364 40.909 0.00 0.00 0.00 2.24
748 1352 4.576879 ACTCCCTCCGTTTCAAATTACTC 58.423 43.478 0.00 0.00 0.00 2.59
749 1353 3.592059 TCCCTCCGTTTCAAATTACTCG 58.408 45.455 0.00 0.00 0.00 4.18
750 1354 3.007182 TCCCTCCGTTTCAAATTACTCGT 59.993 43.478 0.00 0.00 0.00 4.18
751 1355 3.370061 CCCTCCGTTTCAAATTACTCGTC 59.630 47.826 0.00 0.00 0.00 4.20
752 1356 3.060363 CCTCCGTTTCAAATTACTCGTCG 59.940 47.826 0.00 0.00 0.00 5.12
753 1357 2.409378 TCCGTTTCAAATTACTCGTCGC 59.591 45.455 0.00 0.00 0.00 5.19
754 1358 2.410730 CCGTTTCAAATTACTCGTCGCT 59.589 45.455 0.00 0.00 0.00 4.93
755 1359 3.609373 CCGTTTCAAATTACTCGTCGCTA 59.391 43.478 0.00 0.00 0.00 4.26
756 1360 4.090354 CCGTTTCAAATTACTCGTCGCTAA 59.910 41.667 0.00 0.00 0.00 3.09
757 1361 5.388682 CCGTTTCAAATTACTCGTCGCTAAA 60.389 40.000 0.00 0.00 0.00 1.85
758 1362 6.066410 CGTTTCAAATTACTCGTCGCTAAAA 58.934 36.000 0.00 0.00 0.00 1.52
759 1363 6.735063 CGTTTCAAATTACTCGTCGCTAAAAT 59.265 34.615 0.00 0.00 0.00 1.82
760 1364 7.252543 CGTTTCAAATTACTCGTCGCTAAAATG 60.253 37.037 0.00 0.00 0.00 2.32
761 1365 6.102006 TCAAATTACTCGTCGCTAAAATGG 57.898 37.500 0.00 0.00 0.00 3.16
762 1366 5.870433 TCAAATTACTCGTCGCTAAAATGGA 59.130 36.000 0.00 0.00 0.00 3.41
763 1367 6.537301 TCAAATTACTCGTCGCTAAAATGGAT 59.463 34.615 0.00 0.00 0.00 3.41
764 1368 5.907197 ATTACTCGTCGCTAAAATGGATG 57.093 39.130 0.00 0.00 0.00 3.51
765 1369 3.247006 ACTCGTCGCTAAAATGGATGT 57.753 42.857 0.00 0.00 0.00 3.06
766 1370 4.380841 ACTCGTCGCTAAAATGGATGTA 57.619 40.909 0.00 0.00 0.00 2.29
767 1371 4.945246 ACTCGTCGCTAAAATGGATGTAT 58.055 39.130 0.00 0.00 0.00 2.29
768 1372 4.982916 ACTCGTCGCTAAAATGGATGTATC 59.017 41.667 0.00 0.00 0.00 2.24
769 1373 5.196341 TCGTCGCTAAAATGGATGTATCT 57.804 39.130 0.00 0.00 0.00 1.98
770 1374 6.016527 ACTCGTCGCTAAAATGGATGTATCTA 60.017 38.462 0.00 0.00 0.00 1.98
771 1375 6.379386 TCGTCGCTAAAATGGATGTATCTAG 58.621 40.000 0.00 0.00 0.00 2.43
772 1376 6.206048 TCGTCGCTAAAATGGATGTATCTAGA 59.794 38.462 0.00 0.00 0.00 2.43
773 1377 6.861572 CGTCGCTAAAATGGATGTATCTAGAA 59.138 38.462 0.00 0.00 0.00 2.10
774 1378 7.061210 CGTCGCTAAAATGGATGTATCTAGAAG 59.939 40.741 0.00 0.00 0.00 2.85
775 1379 7.868415 GTCGCTAAAATGGATGTATCTAGAAGT 59.132 37.037 0.00 0.00 0.00 3.01
776 1380 9.074576 TCGCTAAAATGGATGTATCTAGAAGTA 57.925 33.333 0.00 0.00 0.00 2.24
777 1381 9.692749 CGCTAAAATGGATGTATCTAGAAGTAA 57.307 33.333 0.00 0.00 0.00 2.24
807 1411 9.880064 ACATCTATATATATTCATACGTGCGAC 57.120 33.333 0.00 0.00 0.00 5.19
808 1412 9.878599 CATCTATATATATTCATACGTGCGACA 57.121 33.333 0.00 0.00 0.00 4.35
810 1414 9.931210 TCTATATATATTCATACGTGCGACAAG 57.069 33.333 0.00 0.00 0.00 3.16
811 1415 9.717892 CTATATATATTCATACGTGCGACAAGT 57.282 33.333 0.00 0.00 0.00 3.16
814 1418 8.981724 ATATATTCATACGTGCGACAAGTAAT 57.018 30.769 0.00 4.62 32.82 1.89
815 1419 7.709269 ATATTCATACGTGCGACAAGTAATT 57.291 32.000 0.00 0.00 32.82 1.40
816 1420 5.849357 TTCATACGTGCGACAAGTAATTT 57.151 34.783 0.00 0.00 32.82 1.82
817 1421 5.198116 TCATACGTGCGACAAGTAATTTG 57.802 39.130 0.00 4.97 42.68 2.32
818 1422 2.961522 ACGTGCGACAAGTAATTTGG 57.038 45.000 0.00 0.00 41.25 3.28
819 1423 2.485903 ACGTGCGACAAGTAATTTGGA 58.514 42.857 0.00 0.00 41.25 3.53
820 1424 2.873472 ACGTGCGACAAGTAATTTGGAA 59.127 40.909 0.00 0.00 41.25 3.53
821 1425 3.223157 CGTGCGACAAGTAATTTGGAAC 58.777 45.455 0.00 0.00 41.25 3.62
822 1426 3.223157 GTGCGACAAGTAATTTGGAACG 58.777 45.455 0.00 0.00 41.25 3.95
823 1427 2.224549 TGCGACAAGTAATTTGGAACGG 59.775 45.455 0.00 0.00 41.25 4.44
824 1428 2.481185 GCGACAAGTAATTTGGAACGGA 59.519 45.455 0.00 0.00 41.25 4.69
825 1429 3.424433 GCGACAAGTAATTTGGAACGGAG 60.424 47.826 0.00 0.00 41.25 4.63
826 1430 3.124636 CGACAAGTAATTTGGAACGGAGG 59.875 47.826 0.00 0.00 41.25 4.30
827 1431 3.418047 ACAAGTAATTTGGAACGGAGGG 58.582 45.455 0.00 0.00 41.25 4.30
828 1432 3.073356 ACAAGTAATTTGGAACGGAGGGA 59.927 43.478 0.00 0.00 41.25 4.20
829 1433 3.629142 AGTAATTTGGAACGGAGGGAG 57.371 47.619 0.00 0.00 0.00 4.30
830 1434 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
831 1435 4.098894 AGTAATTTGGAACGGAGGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
832 1436 3.345508 AATTTGGAACGGAGGGAGTAC 57.654 47.619 0.00 0.00 0.00 2.73
833 1437 1.719529 TTTGGAACGGAGGGAGTACA 58.280 50.000 0.00 0.00 0.00 2.90
834 1438 1.719529 TTGGAACGGAGGGAGTACAA 58.280 50.000 0.00 0.00 0.00 2.41
835 1439 1.719529 TGGAACGGAGGGAGTACAAA 58.280 50.000 0.00 0.00 0.00 2.83
836 1440 2.262637 TGGAACGGAGGGAGTACAAAT 58.737 47.619 0.00 0.00 0.00 2.32
837 1441 3.443052 TGGAACGGAGGGAGTACAAATA 58.557 45.455 0.00 0.00 0.00 1.40
838 1442 3.196254 TGGAACGGAGGGAGTACAAATAC 59.804 47.826 0.00 0.00 0.00 1.89
849 1453 8.252624 AGGGAGTACAAATACTAGAAAGGATC 57.747 38.462 0.00 0.00 41.98 3.36
867 1471 2.113860 TCCATTTGCCACTAGACTGC 57.886 50.000 0.00 0.00 0.00 4.40
896 1500 8.840321 GGATTCAGAATAAATGAGGAATTCGAA 58.160 33.333 0.00 0.00 35.30 3.71
962 1566 8.224720 ACTAGCTCTATCTTACCTTCTTCTCAT 58.775 37.037 0.00 0.00 0.00 2.90
965 1569 6.016610 GCTCTATCTTACCTTCTTCTCATCGT 60.017 42.308 0.00 0.00 0.00 3.73
1116 1720 2.750237 GCCGGCGAGTTCCCATTT 60.750 61.111 12.58 0.00 0.00 2.32
1425 2029 4.980805 GCCTGCACCGTCACCGAA 62.981 66.667 0.00 0.00 35.63 4.30
1517 2121 9.736023 CAGCTATACCAATCAAATTTTCCTTAC 57.264 33.333 0.00 0.00 0.00 2.34
1610 2217 9.479549 AAAATGAATGGATATGTGTAGGTCTTT 57.520 29.630 0.00 0.00 0.00 2.52
1619 2226 3.930336 TGTGTAGGTCTTTGAGATGCTG 58.070 45.455 0.00 0.00 0.00 4.41
1709 2316 0.461693 GCCAGCCTTCTCTAGCACAG 60.462 60.000 0.00 0.00 0.00 3.66
1730 2337 1.879380 CACCTTTTCACCGAGATGCAA 59.121 47.619 0.00 0.00 0.00 4.08
1754 2361 4.115199 GGATGCCGGCCAACTCCT 62.115 66.667 26.77 0.00 0.00 3.69
1827 2434 1.277557 AGGCACTCAAGCTTCTCGAAT 59.722 47.619 0.00 0.00 34.17 3.34
1943 2550 3.808728 TGCTATGTACAAAGAGATGGCC 58.191 45.455 0.00 0.00 0.00 5.36
2048 2655 1.066587 GCTACTCTCGGCGATGCTT 59.933 57.895 11.27 0.00 0.00 3.91
2061 2668 3.500982 GCGATGCTTGAAAGTGCAAATA 58.499 40.909 0.00 0.00 42.74 1.40
2159 2766 2.094338 GTGGTACGAGAAATTCCGAGGT 60.094 50.000 10.02 0.00 0.00 3.85
2285 2892 0.604073 TAGCGTTTCCATGGACGACA 59.396 50.000 25.47 11.66 41.53 4.35
2291 2898 0.172578 TTCCATGGACGACAGCTACG 59.827 55.000 15.91 10.25 0.00 3.51
2402 3009 2.280628 CCGGATACAAAGACCTTCTGC 58.719 52.381 0.00 0.00 0.00 4.26
2414 3021 5.690464 AGACCTTCTGCTGTCTCATAAAT 57.310 39.130 0.00 0.00 37.24 1.40
2426 3033 6.509418 TGTCTCATAAATGGGTTTAGCAAC 57.491 37.500 0.00 0.00 33.57 4.17
2666 3273 2.353889 GACCGACAAGATGTACGCTCTA 59.646 50.000 0.00 0.00 0.00 2.43
2704 3311 0.944386 TTGGTTTCGACTGAGCTTGC 59.056 50.000 0.00 0.00 0.00 4.01
2756 3363 4.422073 TGGTGTTGAGTTCATCTGACTT 57.578 40.909 0.00 0.00 0.00 3.01
2796 3403 5.667172 TCCTCTTCATGTCTGGAATCCATAA 59.333 40.000 0.87 0.00 30.82 1.90
2830 3437 5.289434 GCAAATTAACTACTGCCAGAATTGC 59.711 40.000 0.00 0.00 0.00 3.56
2888 3495 3.744426 CCGTCCGTCCCATATTAATTGAC 59.256 47.826 0.00 0.00 0.00 3.18
2907 3514 2.789893 GACGCTCAAACGGATGTATCTC 59.210 50.000 0.00 0.00 37.37 2.75
2908 3515 1.781429 CGCTCAAACGGATGTATCTCG 59.219 52.381 0.00 0.00 0.00 4.04
2909 3516 2.540973 CGCTCAAACGGATGTATCTCGA 60.541 50.000 8.87 0.00 0.00 4.04
2910 3517 2.789893 GCTCAAACGGATGTATCTCGAC 59.210 50.000 8.87 0.00 0.00 4.20
2911 3518 3.036633 CTCAAACGGATGTATCTCGACG 58.963 50.000 8.87 0.00 0.00 5.12
2912 3519 2.421073 TCAAACGGATGTATCTCGACGT 59.579 45.455 0.00 0.00 35.95 4.34
2913 3520 3.622612 TCAAACGGATGTATCTCGACGTA 59.377 43.478 0.00 0.00 33.85 3.57
2914 3521 4.274214 TCAAACGGATGTATCTCGACGTAT 59.726 41.667 0.00 0.00 33.85 3.06
2915 3522 4.825546 AACGGATGTATCTCGACGTATT 57.174 40.909 0.00 0.00 33.85 1.89
2916 3523 4.825546 ACGGATGTATCTCGACGTATTT 57.174 40.909 0.00 0.00 32.30 1.40
2917 3524 4.781071 ACGGATGTATCTCGACGTATTTC 58.219 43.478 0.00 0.00 32.30 2.17
2918 3525 4.274214 ACGGATGTATCTCGACGTATTTCA 59.726 41.667 0.00 0.00 32.30 2.69
2919 3526 4.846677 CGGATGTATCTCGACGTATTTCAG 59.153 45.833 0.00 0.00 0.00 3.02
2920 3527 5.333875 CGGATGTATCTCGACGTATTTCAGA 60.334 44.000 0.00 0.00 0.00 3.27
2921 3528 5.852229 GGATGTATCTCGACGTATTTCAGAC 59.148 44.000 0.00 0.00 0.00 3.51
2922 3529 6.293516 GGATGTATCTCGACGTATTTCAGACT 60.294 42.308 0.00 0.00 0.00 3.24
2923 3530 6.432607 TGTATCTCGACGTATTTCAGACTT 57.567 37.500 0.00 0.00 0.00 3.01
2924 3531 6.849502 TGTATCTCGACGTATTTCAGACTTT 58.150 36.000 0.00 0.00 0.00 2.66
2925 3532 6.965500 TGTATCTCGACGTATTTCAGACTTTC 59.035 38.462 0.00 0.00 0.00 2.62
2926 3533 5.366829 TCTCGACGTATTTCAGACTTTCA 57.633 39.130 0.00 0.00 0.00 2.69
2927 3534 5.391449 TCTCGACGTATTTCAGACTTTCAG 58.609 41.667 0.00 0.00 0.00 3.02
2928 3535 5.048921 TCTCGACGTATTTCAGACTTTCAGT 60.049 40.000 0.00 0.00 0.00 3.41
2929 3536 4.915667 TCGACGTATTTCAGACTTTCAGTG 59.084 41.667 0.00 0.00 0.00 3.66
2930 3537 4.433022 CGACGTATTTCAGACTTTCAGTGC 60.433 45.833 0.00 0.00 0.00 4.40
2931 3538 4.632153 ACGTATTTCAGACTTTCAGTGCT 58.368 39.130 0.00 0.00 0.00 4.40
2949 3556 4.402793 AGTGCTAGATACATCCGTTTGAGT 59.597 41.667 0.00 0.00 0.00 3.41
2966 3573 7.013274 CCGTTTGAGTGTCAATTAATATGGGAT 59.987 37.037 0.00 0.00 36.11 3.85
3375 4071 2.201921 TCTCGTAGGTCTGCAGTCTT 57.798 50.000 14.67 7.26 0.00 3.01
3452 4151 3.323979 TCTCTACCGCCCTTAAATCATCC 59.676 47.826 0.00 0.00 0.00 3.51
3455 4154 1.226746 CCGCCCTTAAATCATCCGAC 58.773 55.000 0.00 0.00 0.00 4.79
3519 4221 9.841880 GAATGGTTTCAGGAACTAGAAAAATAC 57.158 33.333 0.00 0.00 37.28 1.89
3520 4222 8.934023 ATGGTTTCAGGAACTAGAAAAATACA 57.066 30.769 0.00 0.00 37.28 2.29
3567 4269 1.494721 TCTGGAACTGGAATATGGGGC 59.505 52.381 0.00 0.00 0.00 5.80
3586 4288 5.147330 GGGCTAAAAAGCACCTTATGTTT 57.853 39.130 0.00 0.00 36.33 2.83
3703 4407 5.549742 TCTGAAATTTCCATTTGGTTGCT 57.450 34.783 15.48 0.00 32.35 3.91
3708 4412 6.705381 TGAAATTTCCATTTGGTTGCTGTAAG 59.295 34.615 15.48 0.00 32.35 2.34
3711 4415 7.716799 ATTTCCATTTGGTTGCTGTAAGATA 57.283 32.000 0.00 0.00 33.60 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 6.349611 CCAGACCGTTTTACAAGCTACTAGTA 60.350 42.308 1.89 1.89 0.00 1.82
74 75 4.523943 TCCAGACCGTTTTACAAGCTACTA 59.476 41.667 0.00 0.00 0.00 1.82
75 76 3.322828 TCCAGACCGTTTTACAAGCTACT 59.677 43.478 0.00 0.00 0.00 2.57
76 77 3.656559 TCCAGACCGTTTTACAAGCTAC 58.343 45.455 0.00 0.00 0.00 3.58
96 97 0.673022 CACACCAGCTGAGAGCCTTC 60.673 60.000 17.39 0.00 43.77 3.46
157 161 9.326413 GCTTTATACTCTTGGTGTGTACAATAT 57.674 33.333 0.00 0.00 0.00 1.28
206 210 0.880278 CACTGACAACCACCCACGAG 60.880 60.000 0.00 0.00 0.00 4.18
236 247 9.525826 AGGATAAACTTTTTCAGATTCAGACAT 57.474 29.630 0.00 0.00 0.00 3.06
237 248 8.924511 AGGATAAACTTTTTCAGATTCAGACA 57.075 30.769 0.00 0.00 0.00 3.41
259 270 9.868160 TTGATACATCACTCTCTATTCTAAGGA 57.132 33.333 0.00 0.00 36.36 3.36
267 278 9.647918 TCCTTTACTTGATACATCACTCTCTAT 57.352 33.333 0.00 0.00 36.36 1.98
268 279 9.475620 TTCCTTTACTTGATACATCACTCTCTA 57.524 33.333 0.00 0.00 36.36 2.43
269 280 7.962995 TCCTTTACTTGATACATCACTCTCT 57.037 36.000 0.00 0.00 36.36 3.10
270 281 8.470805 TCTTCCTTTACTTGATACATCACTCTC 58.529 37.037 0.00 0.00 36.36 3.20
285 554 9.354673 TCAAATGACAAGAATTCTTCCTTTACT 57.645 29.630 17.91 0.00 33.11 2.24
308 577 6.127507 TGGTCACAAACAATGATCAAAGTCAA 60.128 34.615 0.00 0.00 34.24 3.18
342 614 7.865706 TCATTTTAACTTCAGAAGGATAGCC 57.134 36.000 14.90 0.00 0.00 3.93
355 627 6.399639 ACAACCACGGAATCATTTTAACTT 57.600 33.333 0.00 0.00 0.00 2.66
370 642 4.811555 TTTCATCTCTGAAACAACCACG 57.188 40.909 0.00 0.00 44.46 4.94
388 660 8.601476 CAAAACGGAGGTACTAGTAATCATTTC 58.399 37.037 3.61 0.00 41.55 2.17
401 673 6.092670 GGACTAATAAACCAAAACGGAGGTAC 59.907 42.308 0.00 0.00 37.07 3.34
402 674 6.172630 GGACTAATAAACCAAAACGGAGGTA 58.827 40.000 0.00 0.00 37.07 3.08
403 675 5.005740 GGACTAATAAACCAAAACGGAGGT 58.994 41.667 0.00 0.00 40.61 3.85
406 678 5.245584 AGGGACTAATAAACCAAAACGGA 57.754 39.130 0.00 0.00 36.02 4.69
407 679 5.970317 AAGGGACTAATAAACCAAAACGG 57.030 39.130 0.00 0.00 38.49 4.44
409 681 6.973843 ACGAAAGGGACTAATAAACCAAAAC 58.026 36.000 0.00 0.00 38.49 2.43
410 682 8.866970 ATACGAAAGGGACTAATAAACCAAAA 57.133 30.769 0.00 0.00 38.49 2.44
411 683 8.866970 AATACGAAAGGGACTAATAAACCAAA 57.133 30.769 0.00 0.00 38.49 3.28
539 1031 9.950680 ACTCCTAATTTATATGCAACGAAAATG 57.049 29.630 0.00 0.00 0.00 2.32
602 1099 1.758862 CGGGTTTATTAGTCCCCTCGT 59.241 52.381 0.00 0.00 38.09 4.18
607 1104 1.839354 TCACCCGGGTTTATTAGTCCC 59.161 52.381 27.83 0.00 37.98 4.46
615 1112 3.837146 TGTACTACATTCACCCGGGTTTA 59.163 43.478 27.83 15.96 0.00 2.01
643 1140 4.460263 ACAGATAAACACCTGTCTTTGCA 58.540 39.130 0.00 0.00 0.00 4.08
645 1142 5.527214 TGTGACAGATAAACACCTGTCTTTG 59.473 40.000 19.19 0.00 44.45 2.77
651 1255 5.300752 AGACTTGTGACAGATAAACACCTG 58.699 41.667 0.00 0.00 34.18 4.00
715 1319 5.750352 AACGGAGGGAGTAGATAAAAACA 57.250 39.130 0.00 0.00 0.00 2.83
716 1320 6.168389 TGAAACGGAGGGAGTAGATAAAAAC 58.832 40.000 0.00 0.00 0.00 2.43
728 1332 3.007182 ACGAGTAATTTGAAACGGAGGGA 59.993 43.478 0.00 0.00 0.00 4.20
729 1333 3.332034 ACGAGTAATTTGAAACGGAGGG 58.668 45.455 0.00 0.00 0.00 4.30
730 1334 3.060363 CGACGAGTAATTTGAAACGGAGG 59.940 47.826 0.00 0.00 0.00 4.30
731 1335 3.481467 GCGACGAGTAATTTGAAACGGAG 60.481 47.826 0.00 0.00 0.00 4.63
732 1336 2.409378 GCGACGAGTAATTTGAAACGGA 59.591 45.455 0.00 0.00 0.00 4.69
733 1337 2.410730 AGCGACGAGTAATTTGAAACGG 59.589 45.455 0.00 0.00 0.00 4.44
734 1338 3.700130 AGCGACGAGTAATTTGAAACG 57.300 42.857 0.00 0.00 0.00 3.60
735 1339 7.007099 CCATTTTAGCGACGAGTAATTTGAAAC 59.993 37.037 0.00 0.00 0.00 2.78
736 1340 7.018826 CCATTTTAGCGACGAGTAATTTGAAA 58.981 34.615 0.00 0.00 0.00 2.69
737 1341 6.369340 TCCATTTTAGCGACGAGTAATTTGAA 59.631 34.615 0.00 0.00 0.00 2.69
738 1342 5.870433 TCCATTTTAGCGACGAGTAATTTGA 59.130 36.000 0.00 0.00 0.00 2.69
739 1343 6.102006 TCCATTTTAGCGACGAGTAATTTG 57.898 37.500 0.00 0.00 0.00 2.32
740 1344 6.315393 ACATCCATTTTAGCGACGAGTAATTT 59.685 34.615 0.00 0.00 0.00 1.82
741 1345 5.815740 ACATCCATTTTAGCGACGAGTAATT 59.184 36.000 0.00 0.00 0.00 1.40
742 1346 5.357257 ACATCCATTTTAGCGACGAGTAAT 58.643 37.500 0.00 0.00 0.00 1.89
743 1347 4.751060 ACATCCATTTTAGCGACGAGTAA 58.249 39.130 0.00 0.00 0.00 2.24
744 1348 4.380841 ACATCCATTTTAGCGACGAGTA 57.619 40.909 0.00 0.00 0.00 2.59
745 1349 3.247006 ACATCCATTTTAGCGACGAGT 57.753 42.857 0.00 0.00 0.00 4.18
746 1350 5.223382 AGATACATCCATTTTAGCGACGAG 58.777 41.667 0.00 0.00 0.00 4.18
747 1351 5.196341 AGATACATCCATTTTAGCGACGA 57.804 39.130 0.00 0.00 0.00 4.20
748 1352 6.379386 TCTAGATACATCCATTTTAGCGACG 58.621 40.000 0.00 0.00 0.00 5.12
749 1353 7.868415 ACTTCTAGATACATCCATTTTAGCGAC 59.132 37.037 0.00 0.00 0.00 5.19
750 1354 7.952671 ACTTCTAGATACATCCATTTTAGCGA 58.047 34.615 0.00 0.00 0.00 4.93
751 1355 9.692749 TTACTTCTAGATACATCCATTTTAGCG 57.307 33.333 0.00 0.00 0.00 4.26
781 1385 9.880064 GTCGCACGTATGAATATATATAGATGT 57.120 33.333 0.00 0.00 0.00 3.06
782 1386 9.878599 TGTCGCACGTATGAATATATATAGATG 57.121 33.333 0.00 0.00 0.00 2.90
784 1388 9.931210 CTTGTCGCACGTATGAATATATATAGA 57.069 33.333 0.00 0.00 0.00 1.98
785 1389 9.717892 ACTTGTCGCACGTATGAATATATATAG 57.282 33.333 0.00 0.00 0.00 1.31
789 1393 8.981724 ATTACTTGTCGCACGTATGAATATAT 57.018 30.769 0.00 0.00 0.00 0.86
790 1394 8.806177 AATTACTTGTCGCACGTATGAATATA 57.194 30.769 0.00 0.00 0.00 0.86
791 1395 7.709269 AATTACTTGTCGCACGTATGAATAT 57.291 32.000 0.00 0.00 0.00 1.28
792 1396 7.395645 CAAATTACTTGTCGCACGTATGAATA 58.604 34.615 0.00 0.00 0.00 1.75
793 1397 6.247903 CAAATTACTTGTCGCACGTATGAAT 58.752 36.000 0.00 0.00 0.00 2.57
794 1398 5.390040 CCAAATTACTTGTCGCACGTATGAA 60.390 40.000 0.00 0.00 32.65 2.57
795 1399 4.092237 CCAAATTACTTGTCGCACGTATGA 59.908 41.667 0.00 0.00 32.65 2.15
796 1400 4.092237 TCCAAATTACTTGTCGCACGTATG 59.908 41.667 0.00 0.00 32.65 2.39
797 1401 4.247258 TCCAAATTACTTGTCGCACGTAT 58.753 39.130 0.00 0.00 32.65 3.06
798 1402 3.651206 TCCAAATTACTTGTCGCACGTA 58.349 40.909 0.00 0.00 32.65 3.57
799 1403 2.485903 TCCAAATTACTTGTCGCACGT 58.514 42.857 0.00 0.00 32.65 4.49
800 1404 3.223157 GTTCCAAATTACTTGTCGCACG 58.777 45.455 0.00 0.00 32.65 5.34
801 1405 3.223157 CGTTCCAAATTACTTGTCGCAC 58.777 45.455 0.00 0.00 32.65 5.34
802 1406 2.224549 CCGTTCCAAATTACTTGTCGCA 59.775 45.455 0.00 0.00 32.65 5.10
803 1407 2.481185 TCCGTTCCAAATTACTTGTCGC 59.519 45.455 0.00 0.00 32.65 5.19
804 1408 3.124636 CCTCCGTTCCAAATTACTTGTCG 59.875 47.826 0.00 0.00 32.65 4.35
805 1409 3.439129 CCCTCCGTTCCAAATTACTTGTC 59.561 47.826 0.00 0.00 32.65 3.18
806 1410 3.073356 TCCCTCCGTTCCAAATTACTTGT 59.927 43.478 0.00 0.00 32.65 3.16
807 1411 3.681593 TCCCTCCGTTCCAAATTACTTG 58.318 45.455 0.00 0.00 34.52 3.16
808 1412 3.329814 ACTCCCTCCGTTCCAAATTACTT 59.670 43.478 0.00 0.00 0.00 2.24
809 1413 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
810 1414 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
811 1415 3.839490 TGTACTCCCTCCGTTCCAAATTA 59.161 43.478 0.00 0.00 0.00 1.40
812 1416 2.640826 TGTACTCCCTCCGTTCCAAATT 59.359 45.455 0.00 0.00 0.00 1.82
813 1417 2.262637 TGTACTCCCTCCGTTCCAAAT 58.737 47.619 0.00 0.00 0.00 2.32
814 1418 1.719529 TGTACTCCCTCCGTTCCAAA 58.280 50.000 0.00 0.00 0.00 3.28
815 1419 1.719529 TTGTACTCCCTCCGTTCCAA 58.280 50.000 0.00 0.00 0.00 3.53
816 1420 1.719529 TTTGTACTCCCTCCGTTCCA 58.280 50.000 0.00 0.00 0.00 3.53
817 1421 3.450096 AGTATTTGTACTCCCTCCGTTCC 59.550 47.826 0.00 0.00 0.00 3.62
818 1422 4.732672 AGTATTTGTACTCCCTCCGTTC 57.267 45.455 0.00 0.00 0.00 3.95
819 1423 5.513233 TCTAGTATTTGTACTCCCTCCGTT 58.487 41.667 0.00 0.00 0.00 4.44
820 1424 5.121380 TCTAGTATTTGTACTCCCTCCGT 57.879 43.478 0.00 0.00 0.00 4.69
821 1425 6.461110 TTTCTAGTATTTGTACTCCCTCCG 57.539 41.667 0.00 0.00 0.00 4.63
822 1426 6.610425 TCCTTTCTAGTATTTGTACTCCCTCC 59.390 42.308 0.00 0.00 0.00 4.30
823 1427 7.657023 TCCTTTCTAGTATTTGTACTCCCTC 57.343 40.000 0.00 0.00 0.00 4.30
824 1428 7.290481 GGATCCTTTCTAGTATTTGTACTCCCT 59.710 40.741 3.84 0.00 0.00 4.20
825 1429 7.070821 TGGATCCTTTCTAGTATTTGTACTCCC 59.929 40.741 14.23 0.00 0.00 4.30
826 1430 8.019656 TGGATCCTTTCTAGTATTTGTACTCC 57.980 38.462 14.23 0.00 0.00 3.85
830 1434 9.120538 GCAAATGGATCCTTTCTAGTATTTGTA 57.879 33.333 21.57 0.00 36.90 2.41
831 1435 7.068716 GGCAAATGGATCCTTTCTAGTATTTGT 59.931 37.037 21.57 1.63 36.90 2.83
832 1436 7.068593 TGGCAAATGGATCCTTTCTAGTATTTG 59.931 37.037 14.23 17.07 37.34 2.32
833 1437 7.068716 GTGGCAAATGGATCCTTTCTAGTATTT 59.931 37.037 14.23 5.01 0.00 1.40
834 1438 6.547510 GTGGCAAATGGATCCTTTCTAGTATT 59.452 38.462 14.23 0.00 0.00 1.89
835 1439 6.064717 GTGGCAAATGGATCCTTTCTAGTAT 58.935 40.000 14.23 0.00 0.00 2.12
836 1440 5.191722 AGTGGCAAATGGATCCTTTCTAGTA 59.808 40.000 14.23 0.00 0.00 1.82
837 1441 4.018050 AGTGGCAAATGGATCCTTTCTAGT 60.018 41.667 14.23 0.61 0.00 2.57
838 1442 4.530875 AGTGGCAAATGGATCCTTTCTAG 58.469 43.478 14.23 7.96 0.00 2.43
849 1453 2.119801 AGCAGTCTAGTGGCAAATGG 57.880 50.000 0.00 0.00 0.00 3.16
867 1471 9.962783 GAATTCCTCATTTATTCTGAATCCAAG 57.037 33.333 6.10 0.00 0.00 3.61
906 1510 9.436957 GATAATTCCAAAAGAGACTAGTGACAA 57.563 33.333 0.00 0.00 0.00 3.18
907 1511 8.816894 AGATAATTCCAAAAGAGACTAGTGACA 58.183 33.333 0.00 0.00 0.00 3.58
962 1566 3.583276 AATGCGGAGGCGAACACGA 62.583 57.895 0.00 0.00 44.10 4.35
965 1569 3.430862 GCAATGCGGAGGCGAACA 61.431 61.111 0.00 0.00 44.10 3.18
1116 1720 4.348495 GAGGGGGAGGTGGTGGGA 62.348 72.222 0.00 0.00 0.00 4.37
1272 1876 4.792804 GCCCTCCAGTGCCTCTGC 62.793 72.222 1.15 0.00 42.38 4.26
1525 2129 6.481644 TGCGATGCAAAGTAAAAGGAAAATTT 59.518 30.769 0.00 0.00 34.76 1.82
1531 2135 2.227865 GGTGCGATGCAAAGTAAAAGGA 59.772 45.455 0.00 0.00 41.47 3.36
1587 2194 7.805163 TCAAAGACCTACACATATCCATTCAT 58.195 34.615 0.00 0.00 0.00 2.57
1593 2200 5.698545 GCATCTCAAAGACCTACACATATCC 59.301 44.000 0.00 0.00 0.00 2.59
1594 2201 6.423302 CAGCATCTCAAAGACCTACACATATC 59.577 42.308 0.00 0.00 0.00 1.63
1629 2236 4.965200 CCTCTTTGGGATAGTAGAAGGG 57.035 50.000 0.00 0.00 0.00 3.95
1709 2316 0.169009 GCATCTCGGTGAAAAGGTGC 59.831 55.000 0.00 0.00 41.96 5.01
1744 2351 1.271379 TGTAAAGCTCAGGAGTTGGCC 60.271 52.381 0.00 0.00 0.00 5.36
1754 2361 0.394938 TCAAGGCCGTGTAAAGCTCA 59.605 50.000 18.61 0.00 0.00 4.26
1827 2434 2.124901 CGGGGCGGCTTTCATGTA 60.125 61.111 9.56 0.00 0.00 2.29
1956 2563 2.326550 CGTGACCGTGTTTGGTGC 59.673 61.111 0.00 0.00 44.01 5.01
1961 2568 0.741574 TGTTCTGCGTGACCGTGTTT 60.742 50.000 0.00 0.00 36.15 2.83
2003 2610 1.686325 TATCGTCCAGCCTTCCTGCC 61.686 60.000 0.00 0.00 40.36 4.85
2048 2655 5.064558 TCCGGTTTACTATTTGCACTTTCA 58.935 37.500 0.00 0.00 0.00 2.69
2061 2668 1.553704 GGTCCAGACATCCGGTTTACT 59.446 52.381 0.00 0.00 0.00 2.24
2159 2766 0.178973 TCTCCGGCTCGATCCCATAA 60.179 55.000 0.00 0.00 0.00 1.90
2270 2877 2.000447 GTAGCTGTCGTCCATGGAAAC 59.000 52.381 18.20 17.92 0.00 2.78
2291 2898 1.389106 GCCTCGATCACGTTGTTGTAC 59.611 52.381 0.00 0.00 40.69 2.90
2402 3009 6.555315 GTTGCTAAACCCATTTATGAGACAG 58.445 40.000 0.00 0.00 29.85 3.51
2414 3021 2.265182 GGCTGCGTTGCTAAACCCA 61.265 57.895 0.00 0.00 32.23 4.51
2426 3033 1.286880 CTTGTGGAAAAGGGCTGCG 59.713 57.895 0.00 0.00 0.00 5.18
2666 3273 3.023832 CAAACTTGGGTTCTCCTGTTGT 58.976 45.455 0.00 0.00 34.81 3.32
2704 3311 3.055167 TCATGAGGTCAGTTACACCATGG 60.055 47.826 11.19 11.19 38.71 3.66
2756 3363 5.767665 TGAAGAGGAACGGATTTTTCATTCA 59.232 36.000 0.00 0.00 0.00 2.57
2796 3403 6.158598 CAGTAGTTAATTTGCTTGGTTGCAT 58.841 36.000 0.00 0.00 42.96 3.96
2830 3437 7.678947 ATCTTGTAGGTCAACAGAAATGAAG 57.321 36.000 0.00 0.00 32.18 3.02
2888 3495 1.781429 CGAGATACATCCGTTTGAGCG 59.219 52.381 0.00 0.00 0.00 5.03
2921 3528 4.938080 ACGGATGTATCTAGCACTGAAAG 58.062 43.478 0.00 0.00 42.29 2.62
2922 3529 5.339008 AACGGATGTATCTAGCACTGAAA 57.661 39.130 0.00 0.00 0.00 2.69
2923 3530 5.105513 TCAAACGGATGTATCTAGCACTGAA 60.106 40.000 0.00 0.00 0.00 3.02
2924 3531 4.401202 TCAAACGGATGTATCTAGCACTGA 59.599 41.667 0.00 0.00 0.00 3.41
2925 3532 4.682787 TCAAACGGATGTATCTAGCACTG 58.317 43.478 0.00 0.00 0.00 3.66
2926 3533 4.402793 ACTCAAACGGATGTATCTAGCACT 59.597 41.667 0.00 0.00 0.00 4.40
2927 3534 4.504461 CACTCAAACGGATGTATCTAGCAC 59.496 45.833 0.00 0.00 0.00 4.40
2928 3535 4.159693 ACACTCAAACGGATGTATCTAGCA 59.840 41.667 0.00 0.00 0.00 3.49
2929 3536 4.683832 ACACTCAAACGGATGTATCTAGC 58.316 43.478 0.00 0.00 0.00 3.42
2930 3537 5.891451 TGACACTCAAACGGATGTATCTAG 58.109 41.667 0.00 0.00 0.00 2.43
2931 3538 5.907866 TGACACTCAAACGGATGTATCTA 57.092 39.130 0.00 0.00 0.00 1.98
2949 3556 6.529084 ACCTCCATCCCATATTAATTGACA 57.471 37.500 0.00 0.00 0.00 3.58
3065 3757 5.384063 AATGACTATGACTGCTAGGATCG 57.616 43.478 0.00 0.00 0.00 3.69
3452 4151 4.266976 ACAAGAAACAAACAGAGTACGTCG 59.733 41.667 0.00 0.00 0.00 5.12
3455 4154 5.963586 GGAAACAAGAAACAAACAGAGTACG 59.036 40.000 0.00 0.00 0.00 3.67
3519 4221 3.857052 TCGCTACAAGAATACAGGGTTG 58.143 45.455 0.00 0.00 0.00 3.77
3520 4222 4.504858 CTTCGCTACAAGAATACAGGGTT 58.495 43.478 0.00 0.00 0.00 4.11


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

AutoCloner maintained by Alex Coulton.