Multiple sequence alignment - TraesCS2B01G610500

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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 TraesCS2B01G610500 chr2B 100.000 3620 0 0 1 3620 790103505 790107124 0.000000e+00 6685.0
1 TraesCS2B01G610500 chr2B 81.266 1185 159 35 1504 2644 789790958 789792123 0.000000e+00 900.0
2 TraesCS2B01G610500 chr2B 80.499 1123 164 34 1499 2587 790229052 790227951 0.000000e+00 809.0
3 TraesCS2B01G610500 chr2B 81.804 632 70 28 525 1133 790230040 790229431 4.200000e-134 488.0
4 TraesCS2B01G610500 chr2B 79.273 550 65 28 595 1133 789790111 789790622 4.480000e-89 339.0
5 TraesCS2B01G610500 chr2B 89.474 247 26 0 2383 2629 788993278 788993524 2.710000e-81 313.0
6 TraesCS2B01G610500 chr2B 88.333 120 10 4 504 619 789982002 789982121 1.360000e-29 141.0
7 TraesCS2B01G610500 chr2B 87.629 97 9 1 3297 3393 790115199 790115292 3.820000e-20 110.0
8 TraesCS2B01G610500 chr2A 90.245 2204 104 44 1470 3620 771074016 771071871 0.000000e+00 2776.0
9 TraesCS2B01G610500 chr2A 89.667 1742 89 43 1475 3183 771126634 771124951 0.000000e+00 2135.0
10 TraesCS2B01G610500 chr2A 86.704 1805 124 52 1563 3293 771345712 771347474 0.000000e+00 1897.0
11 TraesCS2B01G610500 chr2A 80.899 1068 147 30 1615 2644 771501458 771500410 0.000000e+00 789.0
12 TraesCS2B01G610500 chr2A 85.845 763 74 18 660 1399 771127384 771126633 0.000000e+00 780.0
13 TraesCS2B01G610500 chr2A 82.394 869 77 38 588 1421 771074948 771074121 0.000000e+00 688.0
14 TraesCS2B01G610500 chr2A 79.304 575 69 22 580 1147 771502306 771501775 1.240000e-94 357.0
15 TraesCS2B01G610500 chr2A 89.637 193 20 0 802 994 771345336 771345528 2.790000e-61 246.0
16 TraesCS2B01G610500 chr2A 89.815 108 7 4 1465 1569 771074124 771074018 6.300000e-28 135.0
17 TraesCS2B01G610500 chr2A 95.833 48 1 1 1482 1529 771345667 771345713 3.880000e-10 76.8
18 TraesCS2B01G610500 chr2A 95.652 46 2 0 1433 1478 750586520 750586565 1.390000e-09 75.0
19 TraesCS2B01G610500 chr2A 95.652 46 2 0 1433 1478 750740060 750740015 1.390000e-09 75.0
20 TraesCS2B01G610500 chr2A 100.000 30 0 0 438 467 771127501 771127472 5.050000e-04 56.5
21 TraesCS2B01G610500 chr2D 88.190 2210 142 45 1470 3620 645613004 645610855 0.000000e+00 2525.0
22 TraesCS2B01G610500 chr2D 80.763 1180 164 31 1505 2644 645816225 645815069 0.000000e+00 863.0
23 TraesCS2B01G610500 chr2D 80.697 1119 163 32 1499 2584 645723557 645724655 0.000000e+00 821.0
24 TraesCS2B01G610500 chr2D 79.780 1182 173 32 1510 2644 645791852 645793014 0.000000e+00 798.0
25 TraesCS2B01G610500 chr2D 80.178 787 113 27 1505 2265 645560222 645559453 1.900000e-152 549.0
26 TraesCS2B01G610500 chr2D 80.622 707 90 30 604 1284 645788455 645789140 1.500000e-138 503.0
27 TraesCS2B01G610500 chr2D 83.162 487 52 15 962 1421 645613814 645613331 5.590000e-113 418.0
28 TraesCS2B01G610500 chr2D 76.748 701 98 34 610 1284 645817089 645816428 7.490000e-87 331.0
29 TraesCS2B01G610500 chr2D 81.884 138 15 2 569 697 645614368 645614232 1.370000e-19 108.0
30 TraesCS2B01G610500 chr2D 90.909 55 3 2 1432 1485 451974368 451974421 5.010000e-09 73.1
31 TraesCS2B01G610500 chr2D 95.000 40 2 0 422 461 645614757 645614718 3.020000e-06 63.9
32 TraesCS2B01G610500 chr5D 93.878 49 1 2 1430 1477 565059402 565059355 5.010000e-09 73.1
33 TraesCS2B01G610500 chr3D 93.750 48 2 1 1433 1479 502889207 502889254 1.800000e-08 71.3
34 TraesCS2B01G610500 chr3B 93.750 48 2 1 1433 1479 663972455 663972502 1.800000e-08 71.3
35 TraesCS2B01G610500 chr5B 92.000 50 2 2 1433 1480 689895747 689895698 6.490000e-08 69.4
36 TraesCS2B01G610500 chr3A 90.566 53 1 4 1434 1484 1704468 1704518 2.330000e-07 67.6
37 TraesCS2B01G610500 chr1B 88.679 53 4 1 1414 1466 72614678 72614728 3.020000e-06 63.9


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 TraesCS2B01G610500 chr2B 790103505 790107124 3619 False 6685.000000 6685 100.000000 1 3620 1 chr2B.!!$F3 3619
1 TraesCS2B01G610500 chr2B 790227951 790230040 2089 True 648.500000 809 81.151500 525 2587 2 chr2B.!!$R1 2062
2 TraesCS2B01G610500 chr2B 789790111 789792123 2012 False 619.500000 900 80.269500 595 2644 2 chr2B.!!$F5 2049
3 TraesCS2B01G610500 chr2A 771071871 771074948 3077 True 1199.666667 2776 87.484667 588 3620 3 chr2A.!!$R2 3032
4 TraesCS2B01G610500 chr2A 771124951 771127501 2550 True 990.500000 2135 91.837333 438 3183 3 chr2A.!!$R3 2745
5 TraesCS2B01G610500 chr2A 771345336 771347474 2138 False 739.933333 1897 90.724667 802 3293 3 chr2A.!!$F2 2491
6 TraesCS2B01G610500 chr2A 771500410 771502306 1896 True 573.000000 789 80.101500 580 2644 2 chr2A.!!$R4 2064
7 TraesCS2B01G610500 chr2D 645723557 645724655 1098 False 821.000000 821 80.697000 1499 2584 1 chr2D.!!$F2 1085
8 TraesCS2B01G610500 chr2D 645610855 645614757 3902 True 778.725000 2525 87.059000 422 3620 4 chr2D.!!$R2 3198
9 TraesCS2B01G610500 chr2D 645788455 645793014 4559 False 650.500000 798 80.201000 604 2644 2 chr2D.!!$F3 2040
10 TraesCS2B01G610500 chr2D 645815069 645817089 2020 True 597.000000 863 78.755500 610 2644 2 chr2D.!!$R3 2034
11 TraesCS2B01G610500 chr2D 645559453 645560222 769 True 549.000000 549 80.178000 1505 2265 1 chr2D.!!$R1 760

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
931 1463 0.107800 TGCAGATGAGGAGCTTGAGC 60.108 55.0 0.0 0.0 42.49 4.26 F
1354 2036 0.037975 TTCCTACCGTCAAGGCGTTC 60.038 55.0 0.0 0.0 46.52 3.95 F
1467 2387 0.115745 TTTGGGACGGAGGGAGTACT 59.884 55.0 0.0 0.0 0.00 2.73 F
2191 5837 0.538287 AGCAGTCCAAGCCACTTTCC 60.538 55.0 0.0 0.0 0.00 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2151 5797 0.038251 CACGGTACAGCTTCTGCAGA 60.038 55.000 13.74 13.74 42.74 4.26 R
2160 5806 1.446272 GACTGCTCCACGGTACAGC 60.446 63.158 0.00 4.02 38.28 4.40 R
2320 5987 1.747355 CATCTTCCCACCAGCACAATC 59.253 52.381 0.00 0.00 0.00 2.67 R
3448 7225 2.400399 TCAACTGACGCCGTAAAAGAG 58.600 47.619 0.00 0.00 0.00 2.85 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
293 294 9.974980 ATTAAAATACATGGACGTTTTTCAAGT 57.025 25.926 0.00 0.00 0.00 3.16
294 295 9.804758 TTAAAATACATGGACGTTTTTCAAGTT 57.195 25.926 0.00 0.00 0.00 2.66
296 297 8.791355 AAATACATGGACGTTTTTCAAGTTAC 57.209 30.769 0.00 0.00 0.00 2.50
297 298 4.839796 ACATGGACGTTTTTCAAGTTACG 58.160 39.130 0.00 0.00 39.71 3.18
299 300 4.261736 TGGACGTTTTTCAAGTTACGTG 57.738 40.909 5.55 0.00 46.02 4.49
300 301 3.931468 TGGACGTTTTTCAAGTTACGTGA 59.069 39.130 5.55 0.00 46.02 4.35
301 302 4.391216 TGGACGTTTTTCAAGTTACGTGAA 59.609 37.500 9.48 9.48 46.02 3.18
302 303 4.725280 GGACGTTTTTCAAGTTACGTGAAC 59.275 41.667 12.81 2.85 46.02 3.18
303 304 5.280328 ACGTTTTTCAAGTTACGTGAACA 57.720 34.783 12.81 4.62 44.56 3.18
304 305 5.687828 ACGTTTTTCAAGTTACGTGAACAA 58.312 33.333 12.81 10.30 44.56 2.83
305 306 6.316319 ACGTTTTTCAAGTTACGTGAACAAT 58.684 32.000 12.81 0.00 44.56 2.71
306 307 6.802834 ACGTTTTTCAAGTTACGTGAACAATT 59.197 30.769 12.81 3.09 44.56 2.32
307 308 7.326547 ACGTTTTTCAAGTTACGTGAACAATTT 59.673 29.630 12.81 2.79 44.56 1.82
308 309 8.157183 CGTTTTTCAAGTTACGTGAACAATTTT 58.843 29.630 12.81 0.00 40.86 1.82
363 364 9.449719 TTTCTTAAAATATCGAAAAGGAGAGCT 57.550 29.630 0.00 0.00 0.00 4.09
364 365 8.425577 TCTTAAAATATCGAAAAGGAGAGCTG 57.574 34.615 0.00 0.00 0.00 4.24
365 366 7.495934 TCTTAAAATATCGAAAAGGAGAGCTGG 59.504 37.037 0.00 0.00 0.00 4.85
366 367 5.359194 AAATATCGAAAAGGAGAGCTGGA 57.641 39.130 0.00 0.00 0.00 3.86
367 368 5.359194 AATATCGAAAAGGAGAGCTGGAA 57.641 39.130 0.00 0.00 0.00 3.53
368 369 3.703001 ATCGAAAAGGAGAGCTGGAAA 57.297 42.857 0.00 0.00 0.00 3.13
369 370 3.485463 TCGAAAAGGAGAGCTGGAAAA 57.515 42.857 0.00 0.00 0.00 2.29
370 371 3.815809 TCGAAAAGGAGAGCTGGAAAAA 58.184 40.909 0.00 0.00 0.00 1.94
427 428 4.883006 AGATGGTTCTAGTTAGAGTCCGAC 59.117 45.833 0.00 0.00 33.74 4.79
430 431 3.377798 GGTTCTAGTTAGAGTCCGACCAG 59.622 52.174 0.00 0.00 31.59 4.00
467 468 2.351244 TAGCTGGGCTGTCCGACTG 61.351 63.158 0.00 0.24 40.10 3.51
468 469 4.008933 GCTGGGCTGTCCGACTGT 62.009 66.667 7.20 0.00 38.76 3.55
469 470 2.047844 CTGGGCTGTCCGACTGTG 60.048 66.667 7.20 0.00 38.76 3.66
471 472 2.099652 CTGGGCTGTCCGACTGTGAA 62.100 60.000 7.20 0.00 38.76 3.18
472 473 1.070786 GGGCTGTCCGACTGTGAAA 59.929 57.895 7.20 0.00 0.00 2.69
473 474 0.951040 GGGCTGTCCGACTGTGAAAG 60.951 60.000 7.20 0.00 0.00 2.62
475 476 0.951040 GCTGTCCGACTGTGAAAGGG 60.951 60.000 7.20 0.00 0.00 3.95
476 477 0.951040 CTGTCCGACTGTGAAAGGGC 60.951 60.000 0.00 0.00 0.00 5.19
477 478 2.027625 GTCCGACTGTGAAAGGGCG 61.028 63.158 0.00 0.00 0.00 6.13
478 479 2.204461 TCCGACTGTGAAAGGGCGA 61.204 57.895 0.00 0.00 31.70 5.54
481 482 2.357517 ACTGTGAAAGGGCGAGCG 60.358 61.111 0.00 0.00 0.00 5.03
483 484 1.667830 CTGTGAAAGGGCGAGCGAA 60.668 57.895 0.00 0.00 0.00 4.70
484 485 1.901650 CTGTGAAAGGGCGAGCGAAC 61.902 60.000 0.00 0.00 0.00 3.95
485 486 1.959226 GTGAAAGGGCGAGCGAACA 60.959 57.895 0.00 0.00 0.00 3.18
486 487 1.003839 TGAAAGGGCGAGCGAACAT 60.004 52.632 0.00 0.00 0.00 2.71
488 489 1.338294 TGAAAGGGCGAGCGAACATAA 60.338 47.619 0.00 0.00 0.00 1.90
489 490 1.735571 GAAAGGGCGAGCGAACATAAA 59.264 47.619 0.00 0.00 0.00 1.40
490 491 1.369625 AAGGGCGAGCGAACATAAAG 58.630 50.000 0.00 0.00 0.00 1.85
491 492 1.090052 AGGGCGAGCGAACATAAAGC 61.090 55.000 0.00 0.00 0.00 3.51
494 495 1.418342 GCGAGCGAACATAAAGCGGA 61.418 55.000 0.00 0.00 35.78 5.54
495 496 0.996462 CGAGCGAACATAAAGCGGAA 59.004 50.000 0.00 0.00 35.78 4.30
496 497 1.005975 CGAGCGAACATAAAGCGGAAG 60.006 52.381 0.00 0.00 35.78 3.46
524 525 1.656652 CGGCAGTTCTGGTCCATAAG 58.343 55.000 0.00 0.00 0.00 1.73
525 526 1.383523 GGCAGTTCTGGTCCATAAGC 58.616 55.000 0.00 0.00 0.00 3.09
527 528 1.656652 CAGTTCTGGTCCATAAGCGG 58.343 55.000 0.00 0.00 0.00 5.52
529 530 1.153449 TTCTGGTCCATAAGCGGCG 60.153 57.895 0.51 0.51 0.00 6.46
565 841 3.004839 GCGGTGAGTATAGCAATCTCAGA 59.995 47.826 0.00 0.00 38.60 3.27
566 842 4.793071 CGGTGAGTATAGCAATCTCAGAG 58.207 47.826 0.00 0.00 38.60 3.35
567 843 4.517075 CGGTGAGTATAGCAATCTCAGAGA 59.483 45.833 1.54 1.54 38.60 3.10
568 844 5.009110 CGGTGAGTATAGCAATCTCAGAGAA 59.991 44.000 3.63 0.00 38.60 2.87
569 845 6.460261 CGGTGAGTATAGCAATCTCAGAGAAA 60.460 42.308 3.63 0.00 38.60 2.52
578 854 4.376819 GCAATCTCAGAGAAACAGTCAACG 60.377 45.833 3.63 0.00 0.00 4.10
640 926 1.286260 GGCGAGTATAGCGGTCTGG 59.714 63.158 0.00 0.00 37.72 3.86
645 931 2.098607 CGAGTATAGCGGTCTGGACAAA 59.901 50.000 0.00 0.00 0.00 2.83
702 988 3.384532 GGCGGGGAAGACGTGGTA 61.385 66.667 0.00 0.00 0.00 3.25
703 989 2.125793 GCGGGGAAGACGTGGTAC 60.126 66.667 0.00 0.00 0.00 3.34
705 991 2.334946 CGGGGAAGACGTGGTACGA 61.335 63.158 8.48 0.00 46.05 3.43
706 992 1.509923 GGGGAAGACGTGGTACGAG 59.490 63.158 8.48 0.00 46.05 4.18
707 993 1.246737 GGGGAAGACGTGGTACGAGT 61.247 60.000 8.48 0.00 46.05 4.18
708 994 1.453155 GGGAAGACGTGGTACGAGTA 58.547 55.000 8.48 0.00 46.05 2.59
709 995 1.812571 GGGAAGACGTGGTACGAGTAA 59.187 52.381 8.48 0.00 46.05 2.24
775 1277 1.977412 GTACGAGTTCAGTTGACGCTC 59.023 52.381 0.00 3.95 0.00 5.03
834 1366 0.264359 AGATGGAGGTGGAGGAGGAG 59.736 60.000 0.00 0.00 0.00 3.69
839 1371 1.557371 GGAGGTGGAGGAGGAGAAAAG 59.443 57.143 0.00 0.00 0.00 2.27
840 1372 2.541466 GAGGTGGAGGAGGAGAAAAGA 58.459 52.381 0.00 0.00 0.00 2.52
853 1385 3.873952 GGAGAAAAGATCCATTGAGTCGG 59.126 47.826 0.00 0.00 36.79 4.79
858 1390 0.815615 GATCCATTGAGTCGGTGGCC 60.816 60.000 0.00 0.00 33.01 5.36
925 1457 0.809241 CGAGGTTGCAGATGAGGAGC 60.809 60.000 0.00 0.00 0.00 4.70
928 1460 1.093159 GGTTGCAGATGAGGAGCTTG 58.907 55.000 0.00 0.00 0.00 4.01
931 1463 0.107800 TGCAGATGAGGAGCTTGAGC 60.108 55.000 0.00 0.00 42.49 4.26
949 1493 1.556911 AGCAGGACAAGATGAACGGAT 59.443 47.619 0.00 0.00 0.00 4.18
986 1542 1.993370 GATCAAGAACAAGACGACCCG 59.007 52.381 0.00 0.00 0.00 5.28
1006 1568 1.395826 GGAGGAGGTGGAGATGGACG 61.396 65.000 0.00 0.00 0.00 4.79
1016 1578 2.238646 TGGAGATGGACGTAGGCAAAAT 59.761 45.455 0.00 0.00 0.00 1.82
1224 1828 3.231965 CAAGCTCAAATCGCAACTGAAG 58.768 45.455 0.00 0.00 0.00 3.02
1354 2036 0.037975 TTCCTACCGTCAAGGCGTTC 60.038 55.000 0.00 0.00 46.52 3.95
1368 2050 7.527457 GTCAAGGCGTTCAATCTAAAGTTAAT 58.473 34.615 0.00 0.00 0.00 1.40
1369 2051 8.021396 GTCAAGGCGTTCAATCTAAAGTTAATT 58.979 33.333 0.00 0.00 0.00 1.40
1370 2052 8.020819 TCAAGGCGTTCAATCTAAAGTTAATTG 58.979 33.333 0.00 0.00 0.00 2.32
1424 2110 4.760204 GCCAACACTGGTTCATTACTACTT 59.240 41.667 0.00 0.00 45.53 2.24
1425 2111 5.106673 GCCAACACTGGTTCATTACTACTTC 60.107 44.000 0.00 0.00 45.53 3.01
1426 2112 5.411669 CCAACACTGGTTCATTACTACTTCC 59.588 44.000 0.00 0.00 38.00 3.46
1428 2114 6.038997 ACACTGGTTCATTACTACTTCCTC 57.961 41.667 0.00 0.00 0.00 3.71
1429 2115 5.780793 ACACTGGTTCATTACTACTTCCTCT 59.219 40.000 0.00 0.00 0.00 3.69
1430 2116 6.102663 CACTGGTTCATTACTACTTCCTCTG 58.897 44.000 0.00 0.00 0.00 3.35
1432 2118 6.952358 ACTGGTTCATTACTACTTCCTCTGTA 59.048 38.462 0.00 0.00 0.00 2.74
1433 2119 7.453752 ACTGGTTCATTACTACTTCCTCTGTAA 59.546 37.037 0.00 0.00 0.00 2.41
1434 2120 7.837863 TGGTTCATTACTACTTCCTCTGTAAG 58.162 38.462 0.00 0.00 0.00 2.34
1435 2121 7.453752 TGGTTCATTACTACTTCCTCTGTAAGT 59.546 37.037 0.00 0.00 40.25 2.24
1443 2363 5.203060 ACTTCCTCTGTAAGTTGAGACAC 57.797 43.478 0.00 0.00 33.39 3.67
1444 2364 4.896482 ACTTCCTCTGTAAGTTGAGACACT 59.104 41.667 0.00 0.00 33.39 3.55
1450 2370 8.429641 TCCTCTGTAAGTTGAGACACTTATTTT 58.570 33.333 0.00 0.00 40.55 1.82
1451 2371 8.499162 CCTCTGTAAGTTGAGACACTTATTTTG 58.501 37.037 0.00 0.00 40.55 2.44
1467 2387 0.115745 TTTGGGACGGAGGGAGTACT 59.884 55.000 0.00 0.00 0.00 2.73
1468 2388 1.002069 TTGGGACGGAGGGAGTACTA 58.998 55.000 0.00 0.00 0.00 1.82
1472 2436 2.022934 GGACGGAGGGAGTACTAGTTG 58.977 57.143 0.00 0.00 0.00 3.16
1520 5011 3.127721 GCAGATTCCTTCCTTGTAGCAAC 59.872 47.826 0.00 0.00 0.00 4.17
1561 5057 3.470709 AGGATCCATCGCATGTTAACTG 58.529 45.455 15.82 4.14 0.00 3.16
1831 5448 2.553028 GGCAACTTCCAAGAGATCACCA 60.553 50.000 0.00 0.00 0.00 4.17
1895 5515 1.546923 TCCTCTTTGTTGCATGCATGG 59.453 47.619 27.34 14.20 0.00 3.66
1901 5521 1.340088 TGTTGCATGCATGGGTCTTT 58.660 45.000 27.34 0.00 0.00 2.52
1913 5533 5.163513 GCATGGGTCTTTAGTTTGTTGATG 58.836 41.667 0.00 0.00 0.00 3.07
1934 5563 2.995258 GCATCGGTTTGTTGCAATTCAT 59.005 40.909 0.59 0.00 41.87 2.57
1936 5565 4.434593 GCATCGGTTTGTTGCAATTCATTC 60.435 41.667 0.59 0.00 41.87 2.67
1937 5566 4.313277 TCGGTTTGTTGCAATTCATTCA 57.687 36.364 0.59 0.00 0.00 2.57
1938 5567 4.880759 TCGGTTTGTTGCAATTCATTCAT 58.119 34.783 0.59 0.00 0.00 2.57
1940 5569 5.404968 TCGGTTTGTTGCAATTCATTCATTC 59.595 36.000 0.59 0.00 0.00 2.67
1941 5570 5.177142 CGGTTTGTTGCAATTCATTCATTCA 59.823 36.000 0.59 0.00 0.00 2.57
1942 5571 6.128499 CGGTTTGTTGCAATTCATTCATTCAT 60.128 34.615 0.59 0.00 0.00 2.57
1943 5572 7.571613 CGGTTTGTTGCAATTCATTCATTCATT 60.572 33.333 0.59 0.00 0.00 2.57
1945 5574 6.971527 TGTTGCAATTCATTCATTCATTCC 57.028 33.333 0.59 0.00 0.00 3.01
1946 5575 5.875910 TGTTGCAATTCATTCATTCATTCCC 59.124 36.000 0.59 0.00 0.00 3.97
2151 5797 4.941263 TGTCTTTGCACAACAGAGTTAAGT 59.059 37.500 0.00 0.00 32.34 2.24
2160 5806 5.050499 CACAACAGAGTTAAGTCTGCAGAAG 60.050 44.000 31.47 21.07 46.90 2.85
2191 5837 0.538287 AGCAGTCCAAGCCACTTTCC 60.538 55.000 0.00 0.00 0.00 3.13
2207 5859 4.465512 CCTGCGTGTCGGCATTGC 62.466 66.667 9.92 9.92 42.99 3.56
2316 5983 3.383761 CCAAGTTGTGTTGCTTGATTCC 58.616 45.455 1.45 0.00 43.29 3.01
2320 5987 0.950836 TGTGTTGCTTGATTCCCGTG 59.049 50.000 0.00 0.00 0.00 4.94
2343 6010 2.825836 GCTGGTGGGAAGATGCCG 60.826 66.667 0.00 0.00 0.00 5.69
2431 6098 7.387122 CAGTGAGTGAAGATTCTGAAGAATTGA 59.613 37.037 6.98 0.00 44.14 2.57
2568 6268 5.301555 GGCTCTAAGGTGAAGATTACCATC 58.698 45.833 0.00 0.00 40.74 3.51
2670 6372 9.481340 TGTATTTGATCAGCTATGTAAGATGTC 57.519 33.333 0.00 0.00 42.45 3.06
2688 6390 4.729227 TGTCAACCTATTGCTGTATCGA 57.271 40.909 0.00 0.00 35.63 3.59
2689 6391 5.276461 TGTCAACCTATTGCTGTATCGAT 57.724 39.130 2.16 2.16 35.63 3.59
2690 6392 5.289595 TGTCAACCTATTGCTGTATCGATC 58.710 41.667 0.00 0.00 35.63 3.69
2691 6393 5.069119 TGTCAACCTATTGCTGTATCGATCT 59.931 40.000 0.00 0.00 35.63 2.75
2692 6394 5.403766 GTCAACCTATTGCTGTATCGATCTG 59.596 44.000 0.00 0.00 35.63 2.90
2693 6395 3.919216 ACCTATTGCTGTATCGATCTGC 58.081 45.455 0.00 10.09 0.00 4.26
2694 6396 3.576118 ACCTATTGCTGTATCGATCTGCT 59.424 43.478 19.35 9.27 0.00 4.24
2695 6397 4.767409 ACCTATTGCTGTATCGATCTGCTA 59.233 41.667 19.35 15.17 0.00 3.49
2696 6398 5.420421 ACCTATTGCTGTATCGATCTGCTAT 59.580 40.000 19.35 18.82 32.69 2.97
2697 6399 5.747675 CCTATTGCTGTATCGATCTGCTATG 59.252 44.000 20.77 14.92 31.28 2.23
2698 6400 4.590850 TTGCTGTATCGATCTGCTATGT 57.409 40.909 19.35 0.00 0.00 2.29
2699 6401 5.705609 TTGCTGTATCGATCTGCTATGTA 57.294 39.130 19.35 4.91 0.00 2.29
2700 6402 5.705609 TGCTGTATCGATCTGCTATGTAA 57.294 39.130 19.35 4.43 0.00 2.41
2701 6403 6.272822 TGCTGTATCGATCTGCTATGTAAT 57.727 37.500 19.35 0.00 0.00 1.89
2702 6404 7.391148 TGCTGTATCGATCTGCTATGTAATA 57.609 36.000 19.35 3.46 0.00 0.98
2703 6405 8.000780 TGCTGTATCGATCTGCTATGTAATAT 57.999 34.615 19.35 0.00 0.00 1.28
2704 6406 7.917505 TGCTGTATCGATCTGCTATGTAATATG 59.082 37.037 19.35 0.00 0.00 1.78
2705 6407 7.918033 GCTGTATCGATCTGCTATGTAATATGT 59.082 37.037 0.00 0.00 0.00 2.29
2706 6408 9.794685 CTGTATCGATCTGCTATGTAATATGTT 57.205 33.333 0.00 0.00 0.00 2.71
2710 6412 8.520835 TCGATCTGCTATGTAATATGTTTGAC 57.479 34.615 0.00 0.00 0.00 3.18
2711 6413 8.360390 TCGATCTGCTATGTAATATGTTTGACT 58.640 33.333 0.00 0.00 0.00 3.41
2749 6453 5.441709 TGTTTGACTGTGTGTATCGACTA 57.558 39.130 0.00 0.00 0.00 2.59
2750 6454 6.020971 TGTTTGACTGTGTGTATCGACTAT 57.979 37.500 0.00 0.00 0.00 2.12
2751 6455 7.148355 TGTTTGACTGTGTGTATCGACTATA 57.852 36.000 0.00 0.00 0.00 1.31
2810 6517 7.787725 ACTTACATTACTGCTATAACTTGCC 57.212 36.000 0.00 0.00 0.00 4.52
2863 6570 2.942376 CCGTTAAGCAGCCACATTATGA 59.058 45.455 0.00 0.00 0.00 2.15
2873 6580 5.991606 GCAGCCACATTATGAATAGTGTCTA 59.008 40.000 0.00 0.00 31.87 2.59
3005 6712 8.056710 GCGAAATGCTTAGTTTTCTTTTTGTA 57.943 30.769 0.00 0.00 41.73 2.41
3075 6782 1.948508 TTCACTGGTGAATGTGCGC 59.051 52.632 11.53 0.00 43.90 6.09
3085 6792 1.275010 TGAATGTGCGCTCAGGAGTAA 59.725 47.619 17.93 0.00 0.00 2.24
3136 6843 5.866633 CCTGAACTACTGATCAGTCTTGTTC 59.133 44.000 33.75 33.75 40.23 3.18
3245 7010 5.877564 CCAATAGGTGGTTGTTTGTTTGTTT 59.122 36.000 0.00 0.00 43.20 2.83
3511 7288 6.619852 TGCCCTCCTATTTTATTTCCTAGACT 59.380 38.462 0.00 0.00 0.00 3.24
3548 7325 9.332502 TCAGTTTAGCTAACTATGTTTTTCACA 57.667 29.630 5.45 0.00 45.29 3.58
3594 7371 6.786967 TGAGAATCTGAATGTGAGATCTCA 57.213 37.500 21.67 21.67 34.85 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
267 268 9.974980 ACTTGAAAAACGTCCATGTATTTTAAT 57.025 25.926 0.00 0.00 0.00 1.40
268 269 9.804758 AACTTGAAAAACGTCCATGTATTTTAA 57.195 25.926 0.00 0.00 0.00 1.52
270 271 9.240159 GTAACTTGAAAAACGTCCATGTATTTT 57.760 29.630 0.00 0.00 0.00 1.82
271 272 7.588488 CGTAACTTGAAAAACGTCCATGTATTT 59.412 33.333 0.00 0.00 0.00 1.40
272 273 7.073265 CGTAACTTGAAAAACGTCCATGTATT 58.927 34.615 0.00 0.00 0.00 1.89
273 274 6.203338 ACGTAACTTGAAAAACGTCCATGTAT 59.797 34.615 0.00 0.00 44.60 2.29
274 275 5.523188 ACGTAACTTGAAAAACGTCCATGTA 59.477 36.000 0.00 0.00 44.60 2.29
275 276 4.333372 ACGTAACTTGAAAAACGTCCATGT 59.667 37.500 0.00 0.00 44.60 3.21
276 277 4.668837 CACGTAACTTGAAAAACGTCCATG 59.331 41.667 0.00 0.00 45.95 3.66
277 278 4.571580 TCACGTAACTTGAAAAACGTCCAT 59.428 37.500 0.00 0.00 45.95 3.41
278 279 3.931468 TCACGTAACTTGAAAAACGTCCA 59.069 39.130 0.00 0.00 45.95 4.02
279 280 4.519191 TCACGTAACTTGAAAAACGTCC 57.481 40.909 0.00 0.00 45.95 4.79
280 281 5.315195 TGTTCACGTAACTTGAAAAACGTC 58.685 37.500 0.00 0.00 45.95 4.34
282 283 6.784068 ATTGTTCACGTAACTTGAAAAACG 57.216 33.333 0.00 0.00 33.87 3.60
337 338 9.449719 AGCTCTCCTTTTCGATATTTTAAGAAA 57.550 29.630 0.00 0.00 0.00 2.52
338 339 8.883731 CAGCTCTCCTTTTCGATATTTTAAGAA 58.116 33.333 0.00 0.00 0.00 2.52
339 340 7.495934 CCAGCTCTCCTTTTCGATATTTTAAGA 59.504 37.037 0.00 0.00 0.00 2.10
340 341 7.495934 TCCAGCTCTCCTTTTCGATATTTTAAG 59.504 37.037 0.00 0.00 0.00 1.85
341 342 7.335627 TCCAGCTCTCCTTTTCGATATTTTAA 58.664 34.615 0.00 0.00 0.00 1.52
342 343 6.884832 TCCAGCTCTCCTTTTCGATATTTTA 58.115 36.000 0.00 0.00 0.00 1.52
343 344 5.745227 TCCAGCTCTCCTTTTCGATATTTT 58.255 37.500 0.00 0.00 0.00 1.82
344 345 5.359194 TCCAGCTCTCCTTTTCGATATTT 57.641 39.130 0.00 0.00 0.00 1.40
345 346 5.359194 TTCCAGCTCTCCTTTTCGATATT 57.641 39.130 0.00 0.00 0.00 1.28
346 347 5.359194 TTTCCAGCTCTCCTTTTCGATAT 57.641 39.130 0.00 0.00 0.00 1.63
347 348 4.819105 TTTCCAGCTCTCCTTTTCGATA 57.181 40.909 0.00 0.00 0.00 2.92
348 349 3.703001 TTTCCAGCTCTCCTTTTCGAT 57.297 42.857 0.00 0.00 0.00 3.59
349 350 3.485463 TTTTCCAGCTCTCCTTTTCGA 57.515 42.857 0.00 0.00 0.00 3.71
400 401 7.039223 TCGGACTCTAACTAGAACCATCTTTTT 60.039 37.037 0.00 0.00 37.10 1.94
401 402 6.436532 TCGGACTCTAACTAGAACCATCTTTT 59.563 38.462 0.00 0.00 37.10 2.27
402 403 5.950549 TCGGACTCTAACTAGAACCATCTTT 59.049 40.000 0.00 0.00 37.10 2.52
403 404 5.357596 GTCGGACTCTAACTAGAACCATCTT 59.642 44.000 0.00 0.00 37.10 2.40
404 405 4.883006 GTCGGACTCTAACTAGAACCATCT 59.117 45.833 0.00 0.00 39.82 2.90
405 406 4.036616 GGTCGGACTCTAACTAGAACCATC 59.963 50.000 8.23 0.00 31.59 3.51
406 407 3.952967 GGTCGGACTCTAACTAGAACCAT 59.047 47.826 8.23 0.00 31.59 3.55
407 408 3.245016 TGGTCGGACTCTAACTAGAACCA 60.245 47.826 8.23 3.98 36.42 3.67
408 409 3.350833 TGGTCGGACTCTAACTAGAACC 58.649 50.000 8.23 0.00 31.80 3.62
409 410 3.377798 CCTGGTCGGACTCTAACTAGAAC 59.622 52.174 8.23 0.00 33.16 3.01
410 411 3.265221 TCCTGGTCGGACTCTAACTAGAA 59.735 47.826 8.23 0.00 36.69 2.10
411 412 2.842496 TCCTGGTCGGACTCTAACTAGA 59.158 50.000 8.23 0.00 36.69 2.43
412 413 3.278668 TCCTGGTCGGACTCTAACTAG 57.721 52.381 8.23 0.00 36.69 2.57
413 414 3.350833 GTTCCTGGTCGGACTCTAACTA 58.649 50.000 8.23 0.00 42.97 2.24
414 415 2.169330 GTTCCTGGTCGGACTCTAACT 58.831 52.381 8.23 0.00 42.97 2.24
415 416 1.135460 CGTTCCTGGTCGGACTCTAAC 60.135 57.143 8.23 7.02 42.97 2.34
416 417 1.171308 CGTTCCTGGTCGGACTCTAA 58.829 55.000 8.23 0.00 42.97 2.10
417 418 0.037303 ACGTTCCTGGTCGGACTCTA 59.963 55.000 8.23 0.00 42.97 2.43
418 419 1.228490 ACGTTCCTGGTCGGACTCT 60.228 57.895 8.23 0.00 42.97 3.24
419 420 1.080705 CACGTTCCTGGTCGGACTC 60.081 63.158 8.23 0.00 42.97 3.36
420 421 1.529948 TCACGTTCCTGGTCGGACT 60.530 57.895 8.23 0.00 42.97 3.85
427 428 1.063469 GTTGTTGTGTCACGTTCCTGG 59.937 52.381 0.00 0.00 0.00 4.45
430 431 0.722848 ACGTTGTTGTGTCACGTTCC 59.277 50.000 0.00 0.00 32.90 3.62
467 468 1.298859 ATGTTCGCTCGCCCTTTCAC 61.299 55.000 0.00 0.00 0.00 3.18
468 469 0.248012 TATGTTCGCTCGCCCTTTCA 59.752 50.000 0.00 0.00 0.00 2.69
469 470 1.365699 TTATGTTCGCTCGCCCTTTC 58.634 50.000 0.00 0.00 0.00 2.62
471 472 1.369625 CTTTATGTTCGCTCGCCCTT 58.630 50.000 0.00 0.00 0.00 3.95
472 473 1.090052 GCTTTATGTTCGCTCGCCCT 61.090 55.000 0.00 0.00 0.00 5.19
473 474 1.352056 GCTTTATGTTCGCTCGCCC 59.648 57.895 0.00 0.00 0.00 6.13
475 476 1.012234 CCGCTTTATGTTCGCTCGC 60.012 57.895 0.00 0.00 0.00 5.03
476 477 0.996462 TTCCGCTTTATGTTCGCTCG 59.004 50.000 0.00 0.00 0.00 5.03
477 478 1.267582 GCTTCCGCTTTATGTTCGCTC 60.268 52.381 0.00 0.00 0.00 5.03
478 479 0.727398 GCTTCCGCTTTATGTTCGCT 59.273 50.000 0.00 0.00 0.00 4.93
481 482 4.497507 GGTTATGGCTTCCGCTTTATGTTC 60.498 45.833 0.00 0.00 36.09 3.18
483 484 2.949644 GGTTATGGCTTCCGCTTTATGT 59.050 45.455 0.00 0.00 36.09 2.29
484 485 2.293399 GGGTTATGGCTTCCGCTTTATG 59.707 50.000 0.00 0.00 36.09 1.90
485 486 2.583143 GGGTTATGGCTTCCGCTTTAT 58.417 47.619 0.00 0.00 36.09 1.40
486 487 1.744456 CGGGTTATGGCTTCCGCTTTA 60.744 52.381 0.00 0.00 35.95 1.85
488 489 1.451387 CGGGTTATGGCTTCCGCTT 60.451 57.895 0.00 0.00 35.95 4.68
489 490 2.189521 CGGGTTATGGCTTCCGCT 59.810 61.111 0.00 0.00 35.95 5.52
490 491 2.900337 CCGGGTTATGGCTTCCGC 60.900 66.667 0.00 0.00 41.02 5.54
497 498 2.780595 CAGAACTGCCGGGTTATGG 58.219 57.895 2.18 0.00 35.54 2.74
498 499 0.035439 ACCAGAACTGCCGGGTTATG 60.035 55.000 2.18 7.43 37.92 1.90
499 500 0.252197 GACCAGAACTGCCGGGTTAT 59.748 55.000 2.18 0.00 34.78 1.89
500 501 1.675219 GACCAGAACTGCCGGGTTA 59.325 57.895 2.18 0.00 34.78 2.85
501 502 2.430367 GACCAGAACTGCCGGGTT 59.570 61.111 2.18 0.00 34.78 4.11
502 503 3.637273 GGACCAGAACTGCCGGGT 61.637 66.667 2.18 0.00 37.33 5.28
503 504 1.622607 TATGGACCAGAACTGCCGGG 61.623 60.000 2.18 0.00 0.00 5.73
504 505 0.251916 TTATGGACCAGAACTGCCGG 59.748 55.000 0.00 0.00 0.00 6.13
505 506 1.656652 CTTATGGACCAGAACTGCCG 58.343 55.000 0.00 0.00 0.00 5.69
506 507 1.383523 GCTTATGGACCAGAACTGCC 58.616 55.000 0.00 0.00 0.00 4.85
507 508 1.009829 CGCTTATGGACCAGAACTGC 58.990 55.000 0.00 1.52 0.00 4.40
508 509 1.656652 CCGCTTATGGACCAGAACTG 58.343 55.000 0.00 0.00 0.00 3.16
509 510 0.107654 GCCGCTTATGGACCAGAACT 60.108 55.000 0.00 0.00 0.00 3.01
544 820 4.517075 TCTCTGAGATTGCTATACTCACCG 59.483 45.833 2.58 0.00 36.04 4.94
551 827 7.410120 TGACTGTTTCTCTGAGATTGCTATA 57.590 36.000 8.42 0.00 0.00 1.31
552 828 6.291648 TGACTGTTTCTCTGAGATTGCTAT 57.708 37.500 8.42 0.00 0.00 2.97
565 841 1.228154 GGGGGCGTTGACTGTTTCT 60.228 57.895 0.00 0.00 0.00 2.52
566 842 0.893727 ATGGGGGCGTTGACTGTTTC 60.894 55.000 0.00 0.00 0.00 2.78
567 843 0.893727 GATGGGGGCGTTGACTGTTT 60.894 55.000 0.00 0.00 0.00 2.83
568 844 1.303317 GATGGGGGCGTTGACTGTT 60.303 57.895 0.00 0.00 0.00 3.16
569 845 2.351276 GATGGGGGCGTTGACTGT 59.649 61.111 0.00 0.00 0.00 3.55
634 920 0.323451 GGGATGGGTTTGTCCAGACC 60.323 60.000 0.00 0.00 40.56 3.85
635 921 0.323451 GGGGATGGGTTTGTCCAGAC 60.323 60.000 0.00 0.00 40.56 3.51
640 926 1.306633 GGGAGGGGATGGGTTTGTC 59.693 63.158 0.00 0.00 0.00 3.18
645 931 4.779486 GTGGGGGAGGGGATGGGT 62.779 72.222 0.00 0.00 0.00 4.51
702 988 3.723245 GGGCTCCCCTTTACTCGT 58.277 61.111 0.00 0.00 41.34 4.18
750 1225 0.389426 CAACTGAACTCGTACCCGGG 60.389 60.000 22.25 22.25 41.55 5.73
775 1277 1.129917 ATGGCCTCACTCTGATCCTG 58.870 55.000 3.32 0.00 0.00 3.86
815 1317 0.264359 CTCCTCCTCCACCTCCATCT 59.736 60.000 0.00 0.00 0.00 2.90
834 1366 3.375299 CCACCGACTCAATGGATCTTTTC 59.625 47.826 0.00 0.00 35.33 2.29
839 1371 0.815615 GGCCACCGACTCAATGGATC 60.816 60.000 0.00 0.00 35.33 3.36
840 1372 1.224592 GGCCACCGACTCAATGGAT 59.775 57.895 0.00 0.00 35.33 3.41
866 1398 0.250038 CTCTGTATCCACATGCCCGG 60.250 60.000 0.00 0.00 33.14 5.73
925 1457 2.414481 CGTTCATCTTGTCCTGCTCAAG 59.586 50.000 0.00 0.00 42.25 3.02
928 1460 1.066858 TCCGTTCATCTTGTCCTGCTC 60.067 52.381 0.00 0.00 0.00 4.26
931 1463 4.123497 TGTATCCGTTCATCTTGTCCTG 57.877 45.455 0.00 0.00 0.00 3.86
949 1493 9.102757 GTTCTTGATCTGCTGATTAGATTTGTA 57.897 33.333 7.59 0.00 35.14 2.41
986 1542 1.051556 GTCCATCTCCACCTCCTCCC 61.052 65.000 0.00 0.00 0.00 4.30
1006 1568 5.767168 AGATGATGGAGCTTATTTTGCCTAC 59.233 40.000 0.00 0.00 0.00 3.18
1016 1578 1.615883 GCTCGGAGATGATGGAGCTTA 59.384 52.381 9.69 0.00 46.33 3.09
1069 1637 5.985530 TGTATCTCATTAAAGACGCCATCTG 59.014 40.000 0.00 0.00 37.88 2.90
1152 1756 2.413351 CGGATGCCGTCGATCACT 59.587 61.111 0.00 0.00 42.73 3.41
1368 2050 7.759489 AATCTTACTTGTGTATCCAAAGCAA 57.241 32.000 0.00 0.00 0.00 3.91
1369 2051 7.759489 AAATCTTACTTGTGTATCCAAAGCA 57.241 32.000 0.00 0.00 0.00 3.91
1410 2096 7.838884 ACTTACAGAGGAAGTAGTAATGAACC 58.161 38.462 0.00 0.00 35.36 3.62
1424 2110 7.540474 AATAAGTGTCTCAACTTACAGAGGA 57.460 36.000 0.00 0.00 43.53 3.71
1425 2111 8.499162 CAAAATAAGTGTCTCAACTTACAGAGG 58.501 37.037 0.00 0.00 43.53 3.69
1426 2112 8.499162 CCAAAATAAGTGTCTCAACTTACAGAG 58.501 37.037 0.00 0.00 43.53 3.35
1428 2114 7.444183 TCCCAAAATAAGTGTCTCAACTTACAG 59.556 37.037 0.00 0.00 43.53 2.74
1429 2115 7.227910 GTCCCAAAATAAGTGTCTCAACTTACA 59.772 37.037 0.00 0.00 43.53 2.41
1430 2116 7.570691 CGTCCCAAAATAAGTGTCTCAACTTAC 60.571 40.741 0.00 0.00 43.53 2.34
1432 2118 5.238650 CGTCCCAAAATAAGTGTCTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
1433 2119 4.755123 CGTCCCAAAATAAGTGTCTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
1434 2120 4.083484 CCGTCCCAAAATAAGTGTCTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
1435 2121 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
1443 2363 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
1444 2364 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
1450 2370 0.549950 CTAGTACTCCCTCCGTCCCA 59.450 60.000 0.00 0.00 0.00 4.37
1451 2371 0.550432 ACTAGTACTCCCTCCGTCCC 59.450 60.000 0.00 0.00 0.00 4.46
1468 2388 9.282569 GATAGGAATCATAGAAAGCAATCAACT 57.717 33.333 0.00 0.00 31.93 3.16
1546 5042 6.142139 TGAGAAAAACAGTTAACATGCGATG 58.858 36.000 8.61 0.00 0.00 3.84
1561 5057 6.177822 CACGCAGAATTTTGTTGAGAAAAAC 58.822 36.000 0.00 0.00 29.78 2.43
1768 5385 3.067601 ACGTTGCGTCTATGATCCACATA 59.932 43.478 0.00 0.00 36.53 2.29
1831 5448 1.202770 ACGGCAGGCACTTACTTCTTT 60.203 47.619 0.00 0.00 34.60 2.52
1895 5515 5.088739 CGATGCATCAACAAACTAAAGACC 58.911 41.667 25.70 0.00 0.00 3.85
1901 5521 4.277174 ACAAACCGATGCATCAACAAACTA 59.723 37.500 25.70 0.00 0.00 2.24
1913 5533 2.402305 TGAATTGCAACAAACCGATGC 58.598 42.857 0.00 0.00 43.41 3.91
1934 5563 4.834496 AGCACAGAAAAGGGAATGAATGAA 59.166 37.500 0.00 0.00 0.00 2.57
1936 5565 4.796038 AGCACAGAAAAGGGAATGAATG 57.204 40.909 0.00 0.00 0.00 2.67
1937 5566 4.834496 TCAAGCACAGAAAAGGGAATGAAT 59.166 37.500 0.00 0.00 0.00 2.57
1938 5567 4.037923 GTCAAGCACAGAAAAGGGAATGAA 59.962 41.667 0.00 0.00 0.00 2.57
1940 5569 3.571401 AGTCAAGCACAGAAAAGGGAATG 59.429 43.478 0.00 0.00 0.00 2.67
1941 5570 3.571401 CAGTCAAGCACAGAAAAGGGAAT 59.429 43.478 0.00 0.00 0.00 3.01
1942 5571 2.951642 CAGTCAAGCACAGAAAAGGGAA 59.048 45.455 0.00 0.00 0.00 3.97
1943 5572 2.575532 CAGTCAAGCACAGAAAAGGGA 58.424 47.619 0.00 0.00 0.00 4.20
1945 5574 1.000938 GCCAGTCAAGCACAGAAAAGG 60.001 52.381 0.00 0.00 0.00 3.11
1946 5575 1.000938 GGCCAGTCAAGCACAGAAAAG 60.001 52.381 0.00 0.00 0.00 2.27
2044 5690 0.512518 TTGATCAACGCGCTGTCTTG 59.487 50.000 5.73 2.43 0.00 3.02
2054 5700 1.869767 GGCCTCTGCTATTGATCAACG 59.130 52.381 11.07 6.25 37.74 4.10
2151 5797 0.038251 CACGGTACAGCTTCTGCAGA 60.038 55.000 13.74 13.74 42.74 4.26
2160 5806 1.446272 GACTGCTCCACGGTACAGC 60.446 63.158 0.00 4.02 38.28 4.40
2191 5837 1.634757 TTAGCAATGCCGACACGCAG 61.635 55.000 0.00 0.00 43.26 5.18
2207 5859 2.519013 AAGGGCTTTGACTGCCTTTAG 58.481 47.619 4.72 0.00 45.93 1.85
2316 5983 2.334946 CCCACCAGCACAATCACGG 61.335 63.158 0.00 0.00 0.00 4.94
2320 5987 1.747355 CATCTTCCCACCAGCACAATC 59.253 52.381 0.00 0.00 0.00 2.67
2343 6010 4.039366 AGGTAACCATCTTCTTCGCCTATC 59.961 45.833 0.00 0.00 37.17 2.08
2431 6098 7.060421 TCTATGACAACTTTCAGGGTTTCTTT 58.940 34.615 0.00 0.00 0.00 2.52
2568 6268 2.351726 GCTAACAATAGGTGACCAAGCG 59.648 50.000 3.63 0.00 0.00 4.68
2601 6301 6.261435 TCCCTCTCACAGAATAACCTTTCTA 58.739 40.000 0.00 0.00 34.21 2.10
2670 6372 4.151335 GCAGATCGATACAGCAATAGGTTG 59.849 45.833 0.00 0.00 38.39 3.77
2691 6393 9.208022 GCAGATAGTCAAACATATTACATAGCA 57.792 33.333 0.00 0.00 0.00 3.49
2692 6394 9.429359 AGCAGATAGTCAAACATATTACATAGC 57.571 33.333 0.00 0.00 0.00 2.97
2750 6454 9.778741 CCATCTAGACTTGGCTTATAAAACATA 57.221 33.333 0.00 0.00 0.00 2.29
2751 6455 8.275040 ACCATCTAGACTTGGCTTATAAAACAT 58.725 33.333 11.62 0.00 36.41 2.71
2810 6517 6.257411 CAGAAATACTTCCTACAGCATGACTG 59.743 42.308 13.46 13.46 41.39 3.51
3005 6712 4.923415 ACTAGGCAGAGGTTTTAAGCAAT 58.077 39.130 0.00 0.00 0.00 3.56
3035 6742 6.484977 TGAAAATTGAGCGCACATACCATATA 59.515 34.615 11.47 0.00 0.00 0.86
3075 6782 4.437239 CCTGCATACTGTTTACTCCTGAG 58.563 47.826 0.00 0.00 0.00 3.35
3085 6792 2.489329 GTTGACATGCCTGCATACTGTT 59.511 45.455 3.98 0.00 34.91 3.16
3245 7010 7.490079 CGATATACACACAAAGCTTGGTACTTA 59.510 37.037 6.06 0.00 34.12 2.24
3389 7166 8.860088 AGCTTCTACAACATAAAAGGAACAAAT 58.140 29.630 0.00 0.00 0.00 2.32
3448 7225 2.400399 TCAACTGACGCCGTAAAAGAG 58.600 47.619 0.00 0.00 0.00 2.85
3548 7325 3.685756 TGAAACGTTCAAGAAAACCGAGT 59.314 39.130 0.00 0.00 36.59 4.18


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

AutoCloner maintained by Alex Coulton.