Multiple sequence alignment - TraesCS3B01G258700

Loading Multiple Alignment...

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 TraesCS3B01G258700 chr3B 100.000 6223 0 0 1 6223 416287495 416281273 0.000000e+00 11492.0
1 TraesCS3B01G258700 chr3B 91.667 48 3 1 372 419 189772266 189772220 1.450000e-06 65.8
2 TraesCS3B01G258700 chr3D 93.329 4587 197 41 1707 6223 305446802 305451349 0.000000e+00 6674.0
3 TraesCS3B01G258700 chr3D 96.154 884 25 8 792 1669 305445921 305446801 0.000000e+00 1435.0
4 TraesCS3B01G258700 chr3A 91.737 3316 160 46 2829 6074 423482596 423485867 0.000000e+00 4501.0
5 TraesCS3B01G258700 chr3A 95.522 1965 64 14 835 2794 423480657 423482602 0.000000e+00 3120.0
6 TraesCS3B01G258700 chr3A 92.623 366 19 5 421 779 580459707 580459343 2.570000e-143 520.0
7 TraesCS3B01G258700 chr3A 84.715 386 33 8 29 392 580460091 580459710 4.590000e-96 363.0
8 TraesCS3B01G258700 chr3A 95.395 152 7 0 6072 6223 423486104 423486255 6.230000e-60 243.0
9 TraesCS3B01G258700 chr3A 91.667 60 5 0 2691 2750 218471178 218471119 4.000000e-12 84.2
10 TraesCS3B01G258700 chr5A 86.556 781 45 23 28 779 599336409 599337158 0.000000e+00 806.0
11 TraesCS3B01G258700 chr5A 90.435 345 32 1 29 373 641061194 641061537 2.640000e-123 453.0
12 TraesCS3B01G258700 chr5A 91.429 175 14 1 606 779 641062754 641062928 8.060000e-59 239.0
13 TraesCS3B01G258700 chr5A 85.586 111 14 2 3442 3550 593329736 593329626 1.420000e-21 115.0
14 TraesCS3B01G258700 chr2A 86.556 781 45 23 28 779 467114927 467115676 0.000000e+00 806.0
15 TraesCS3B01G258700 chr2D 86.770 771 43 17 38 777 6925273 6924531 0.000000e+00 804.0
16 TraesCS3B01G258700 chr2D 84.625 774 66 19 29 779 552936129 552935386 0.000000e+00 721.0
17 TraesCS3B01G258700 chr2D 79.932 294 41 12 490 775 388919135 388919418 3.800000e-47 200.0
18 TraesCS3B01G258700 chr2D 90.196 51 5 0 2418 2468 599210978 599211028 4.030000e-07 67.6
19 TraesCS3B01G258700 chr2B 84.278 776 65 22 28 779 192470350 192469608 0.000000e+00 704.0
20 TraesCS3B01G258700 chr2B 96.226 53 2 0 2698 2750 198998568 198998620 3.090000e-13 87.9
21 TraesCS3B01G258700 chr6B 93.939 363 17 3 27 389 57326025 57326382 1.530000e-150 544.0
22 TraesCS3B01G258700 chr6B 90.489 368 14 8 422 782 57326664 57327017 3.400000e-127 466.0
23 TraesCS3B01G258700 chr6B 100.000 35 0 0 385 419 684886612 684886646 1.450000e-06 65.8
24 TraesCS3B01G258700 chr6B 100.000 28 0 0 2418 2445 497349429 497349402 1.100000e-02 52.8
25 TraesCS3B01G258700 chr6D 92.916 367 22 2 23 389 311623827 311624189 1.190000e-146 531.0
26 TraesCS3B01G258700 chr6D 92.717 357 22 3 420 773 311624193 311624548 4.300000e-141 512.0
27 TraesCS3B01G258700 chr1B 94.236 347 16 2 46 392 669187503 669187161 1.540000e-145 527.0
28 TraesCS3B01G258700 chr1B 90.710 366 20 9 420 779 669187160 669186803 5.640000e-130 475.0
29 TraesCS3B01G258700 chr4D 92.521 361 14 4 29 389 116286252 116286599 7.200000e-139 505.0
30 TraesCS3B01G258700 chr4D 91.349 289 22 2 494 779 116286782 116287070 5.850000e-105 392.0
31 TraesCS3B01G258700 chr4D 98.684 76 1 0 420 495 116286603 116286678 1.090000e-27 135.0
32 TraesCS3B01G258700 chr4D 86.765 68 7 2 2698 2764 4344644 4344578 2.410000e-09 75.0
33 TraesCS3B01G258700 chr4D 97.297 37 1 0 3458 3494 1347831 1347867 5.210000e-06 63.9
34 TraesCS3B01G258700 chr5B 86.486 111 13 2 3442 3550 580835521 580835411 3.050000e-23 121.0
35 TraesCS3B01G258700 chr5B 86.538 104 13 1 3442 3545 212631108 212631006 5.100000e-21 113.0
36 TraesCS3B01G258700 chr5B 89.583 48 3 2 371 416 444190930 444190977 6.740000e-05 60.2
37 TraesCS3B01G258700 chr5B 96.970 33 1 0 387 419 468103850 468103818 8.710000e-04 56.5
38 TraesCS3B01G258700 chr7B 89.189 74 8 0 2593 2666 425361726 425361653 6.640000e-15 93.5
39 TraesCS3B01G258700 chr7B 90.909 44 2 2 375 416 172490194 172490237 2.420000e-04 58.4
40 TraesCS3B01G258700 chr7B 90.909 44 2 2 375 416 386911344 386911387 2.420000e-04 58.4
41 TraesCS3B01G258700 chr4B 90.411 73 4 3 2698 2769 7028521 7028451 6.640000e-15 93.5
42 TraesCS3B01G258700 chr4B 95.652 46 2 0 3499 3544 640475676 640475631 2.410000e-09 75.0
43 TraesCS3B01G258700 chr4B 97.368 38 1 0 382 419 262781035 262780998 1.450000e-06 65.8
44 TraesCS3B01G258700 chr4B 100.000 35 0 0 385 419 612361965 612361999 1.450000e-06 65.8
45 TraesCS3B01G258700 chr4B 89.362 47 1 3 372 416 450254624 450254668 8.710000e-04 56.5
46 TraesCS3B01G258700 chr4A 89.706 68 5 2 2698 2764 599354217 599354283 1.110000e-12 86.1
47 TraesCS3B01G258700 chr4A 91.667 60 5 0 2692 2751 548568944 548569003 4.000000e-12 84.2
48 TraesCS3B01G258700 chr1A 94.545 55 3 0 2698 2752 359976046 359975992 1.110000e-12 86.1
49 TraesCS3B01G258700 chr7D 78.182 110 17 6 2230 2336 232929281 232929176 5.210000e-06 63.9
50 TraesCS3B01G258700 chr1D 90.476 42 4 0 3505 3546 376239746 376239705 8.710000e-04 56.5


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 TraesCS3B01G258700 chr3B 416281273 416287495 6222 True 11492.000000 11492 100.000000 1 6223 1 chr3B.!!$R2 6222
1 TraesCS3B01G258700 chr3D 305445921 305451349 5428 False 4054.500000 6674 94.741500 792 6223 2 chr3D.!!$F1 5431
2 TraesCS3B01G258700 chr3A 423480657 423486255 5598 False 2621.333333 4501 94.218000 835 6223 3 chr3A.!!$F1 5388
3 TraesCS3B01G258700 chr3A 580459343 580460091 748 True 441.500000 520 88.669000 29 779 2 chr3A.!!$R2 750
4 TraesCS3B01G258700 chr5A 599336409 599337158 749 False 806.000000 806 86.556000 28 779 1 chr5A.!!$F1 751
5 TraesCS3B01G258700 chr5A 641061194 641062928 1734 False 346.000000 453 90.932000 29 779 2 chr5A.!!$F2 750
6 TraesCS3B01G258700 chr2A 467114927 467115676 749 False 806.000000 806 86.556000 28 779 1 chr2A.!!$F1 751
7 TraesCS3B01G258700 chr2D 6924531 6925273 742 True 804.000000 804 86.770000 38 777 1 chr2D.!!$R1 739
8 TraesCS3B01G258700 chr2D 552935386 552936129 743 True 721.000000 721 84.625000 29 779 1 chr2D.!!$R2 750
9 TraesCS3B01G258700 chr2B 192469608 192470350 742 True 704.000000 704 84.278000 28 779 1 chr2B.!!$R1 751
10 TraesCS3B01G258700 chr6B 57326025 57327017 992 False 505.000000 544 92.214000 27 782 2 chr6B.!!$F2 755
11 TraesCS3B01G258700 chr6D 311623827 311624548 721 False 521.500000 531 92.816500 23 773 2 chr6D.!!$F1 750
12 TraesCS3B01G258700 chr1B 669186803 669187503 700 True 501.000000 527 92.473000 46 779 2 chr1B.!!$R1 733
13 TraesCS3B01G258700 chr4D 116286252 116287070 818 False 344.000000 505 94.184667 29 779 3 chr4D.!!$F2 750

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
404 666 0.033699 GGTACTACCTCCGTCCTGGT 60.034 60.000 0.00 0.0 39.52 4.00 F
1236 2565 0.038159 CGCTTCCAGGAACTCTTCGT 60.038 55.000 0.00 0.0 34.60 3.85 F
1648 2977 1.633945 ACTGACTTTCCATACACCCCC 59.366 52.381 0.00 0.0 0.00 5.40 F
1963 3292 2.104111 TCTAGTGGGTGCAAATATCCCG 59.896 50.000 4.96 0.0 43.75 5.14 F
2682 4016 0.108585 TGACTTGTTGAGACTGGGCC 59.891 55.000 0.00 0.0 0.00 5.80 F
4221 5603 1.202568 TGCAGAGACCAGACACTGTTG 60.203 52.381 0.00 0.0 32.64 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1648 2977 1.405821 CCTAACCACCTAGCGACTCTG 59.594 57.143 0.00 0.0 0.00 3.35 R
2677 4011 0.609151 CACATGCATGAAAAGGCCCA 59.391 50.000 32.75 0.0 0.00 5.36 R
2678 4012 0.609662 ACACATGCATGAAAAGGCCC 59.390 50.000 32.75 0.0 0.00 5.80 R
3808 5178 0.690762 TTAGAGTGTTGGGGCAGGTC 59.309 55.000 0.00 0.0 0.00 3.85 R
4568 5979 1.267806 CACAAGTTGATGGTGAGTGGC 59.732 52.381 10.54 0.0 34.52 5.01 R
5914 7356 0.865111 TTTGCATGGACTTCGTCGTG 59.135 50.000 0.00 0.0 32.65 4.35 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
22 23 5.021033 CAGAGACAATTGTGCTATCCTCT 57.979 43.478 17.58 16.44 0.00 3.69
23 24 5.426504 CAGAGACAATTGTGCTATCCTCTT 58.573 41.667 17.58 2.97 0.00 2.85
24 25 5.879223 CAGAGACAATTGTGCTATCCTCTTT 59.121 40.000 17.58 0.00 0.00 2.52
25 26 7.044181 CAGAGACAATTGTGCTATCCTCTTTA 58.956 38.462 17.58 0.00 0.00 1.85
129 131 1.730064 CTTCGGTTGTATGTCCGGTTG 59.270 52.381 0.00 0.00 45.79 3.77
152 154 5.762218 TGCCATTTGATGAAAACCGAATTTT 59.238 32.000 0.00 0.00 43.44 1.82
212 215 2.148768 GACCGAAACCCGAGAAAACAT 58.851 47.619 0.00 0.00 41.76 2.71
293 320 3.950794 GAGTCCAACGGCCGCATCA 62.951 63.158 28.58 3.75 0.00 3.07
349 376 4.143179 GCCACCGTCGCTATATATTTTGTC 60.143 45.833 0.00 0.00 0.00 3.18
389 651 6.000246 AGTAGTAGTACTTCTCTGGGGTAC 58.000 45.833 8.40 0.00 35.88 3.34
393 655 4.248174 AGTACTTCTCTGGGGTACTACC 57.752 50.000 0.00 0.00 42.61 3.18
394 656 3.857420 AGTACTTCTCTGGGGTACTACCT 59.143 47.826 5.19 0.00 42.61 3.08
396 658 2.024177 ACTTCTCTGGGGTACTACCTCC 60.024 54.545 2.39 4.53 38.22 4.30
397 659 0.549950 TCTCTGGGGTACTACCTCCG 59.450 60.000 2.39 0.00 38.22 4.63
398 660 0.258194 CTCTGGGGTACTACCTCCGT 59.742 60.000 2.39 0.00 38.22 4.69
399 661 0.257039 TCTGGGGTACTACCTCCGTC 59.743 60.000 2.39 0.00 38.22 4.79
400 662 0.754587 CTGGGGTACTACCTCCGTCC 60.755 65.000 2.39 0.00 38.22 4.79
401 663 1.217057 TGGGGTACTACCTCCGTCCT 61.217 60.000 2.39 0.00 38.22 3.85
402 664 0.754587 GGGGTACTACCTCCGTCCTG 60.755 65.000 5.19 0.00 38.64 3.86
404 666 0.033699 GGTACTACCTCCGTCCTGGT 60.034 60.000 0.00 0.00 39.52 4.00
405 667 1.618074 GGTACTACCTCCGTCCTGGTT 60.618 57.143 0.00 0.00 39.52 3.67
406 668 2.174360 GTACTACCTCCGTCCTGGTTT 58.826 52.381 0.00 0.00 39.52 3.27
411 673 2.395619 ACCTCCGTCCTGGTTTATAGG 58.604 52.381 0.00 0.00 39.52 2.57
412 674 2.292719 ACCTCCGTCCTGGTTTATAGGT 60.293 50.000 0.00 0.00 35.62 3.08
413 675 2.364647 CCTCCGTCCTGGTTTATAGGTC 59.635 54.545 0.00 0.00 39.52 3.85
414 676 2.364647 CTCCGTCCTGGTTTATAGGTCC 59.635 54.545 0.00 0.00 39.52 4.46
415 677 1.415289 CCGTCCTGGTTTATAGGTCCC 59.585 57.143 0.00 0.00 36.67 4.46
416 678 1.415289 CGTCCTGGTTTATAGGTCCCC 59.585 57.143 0.00 0.00 36.67 4.81
418 680 3.120898 GTCCTGGTTTATAGGTCCCCTT 58.879 50.000 0.00 0.00 36.67 3.95
515 1580 7.377696 ACTAGTAGCTAGTACACAGACCTAT 57.622 40.000 4.07 0.00 44.35 2.57
545 1613 8.066595 CACTGCACAGAATAAAAGTATAGATGC 58.933 37.037 4.31 0.00 0.00 3.91
560 1628 2.607499 AGATGCTCCTGCTGCTAGTAT 58.393 47.619 0.00 1.01 40.48 2.12
589 1900 7.667575 ACTGTACATTCATCAGAATAGAGGT 57.332 36.000 0.00 0.00 42.46 3.85
783 2107 1.298667 GAACGCCCAGCCCTCTTTA 59.701 57.895 0.00 0.00 0.00 1.85
784 2108 0.744771 GAACGCCCAGCCCTCTTTAG 60.745 60.000 0.00 0.00 0.00 1.85
785 2109 2.514824 CGCCCAGCCCTCTTTAGC 60.515 66.667 0.00 0.00 0.00 3.09
786 2110 2.124109 GCCCAGCCCTCTTTAGCC 60.124 66.667 0.00 0.00 0.00 3.93
787 2111 2.190578 CCCAGCCCTCTTTAGCCG 59.809 66.667 0.00 0.00 0.00 5.52
788 2112 2.514824 CCAGCCCTCTTTAGCCGC 60.515 66.667 0.00 0.00 0.00 6.53
789 2113 2.268920 CAGCCCTCTTTAGCCGCA 59.731 61.111 0.00 0.00 0.00 5.69
790 2114 1.153086 CAGCCCTCTTTAGCCGCAT 60.153 57.895 0.00 0.00 0.00 4.73
791 2115 0.106708 CAGCCCTCTTTAGCCGCATA 59.893 55.000 0.00 0.00 0.00 3.14
792 2116 1.059913 AGCCCTCTTTAGCCGCATAT 58.940 50.000 0.00 0.00 0.00 1.78
793 2117 2.028112 CAGCCCTCTTTAGCCGCATATA 60.028 50.000 0.00 0.00 0.00 0.86
794 2118 2.840651 AGCCCTCTTTAGCCGCATATAT 59.159 45.455 0.00 0.00 0.00 0.86
795 2119 4.030913 AGCCCTCTTTAGCCGCATATATA 58.969 43.478 0.00 0.00 0.00 0.86
796 2120 4.469945 AGCCCTCTTTAGCCGCATATATAA 59.530 41.667 0.00 0.00 0.00 0.98
797 2121 5.045869 AGCCCTCTTTAGCCGCATATATAAA 60.046 40.000 0.00 0.00 0.00 1.40
798 2122 5.646360 GCCCTCTTTAGCCGCATATATAAAA 59.354 40.000 0.00 0.00 0.00 1.52
799 2123 6.150474 GCCCTCTTTAGCCGCATATATAAAAA 59.850 38.462 0.00 0.00 0.00 1.94
800 2124 7.527457 CCCTCTTTAGCCGCATATATAAAAAC 58.473 38.462 0.00 0.00 0.00 2.43
801 2125 7.174253 CCCTCTTTAGCCGCATATATAAAAACA 59.826 37.037 0.00 0.00 0.00 2.83
802 2126 8.230486 CCTCTTTAGCCGCATATATAAAAACAG 58.770 37.037 0.00 0.00 0.00 3.16
819 2143 4.532314 AACAGGAGTTTTAGTCGTAGGG 57.468 45.455 0.00 0.00 33.11 3.53
838 2162 2.459934 GGAAAAACAAGCAACAGGTCG 58.540 47.619 0.00 0.00 0.00 4.79
843 2167 4.911514 AAACAAGCAACAGGTCGTATTT 57.088 36.364 0.00 0.00 0.00 1.40
913 2239 5.164158 CGACCTTTTTCTTTGAATGCAATCG 60.164 40.000 0.00 0.00 33.25 3.34
957 2286 1.752198 CACAACTCTCCAACGGGGA 59.248 57.895 0.00 0.00 45.89 4.81
1098 2427 2.782997 CTACCCACCCCAGGACCCTT 62.783 65.000 0.00 0.00 0.00 3.95
1166 2495 3.470888 CGGGTTCGGCTCCTCCAT 61.471 66.667 0.00 0.00 34.01 3.41
1236 2565 0.038159 CGCTTCCAGGAACTCTTCGT 60.038 55.000 0.00 0.00 34.60 3.85
1254 2583 5.355071 TCTTCGTTACTCGGATTGTAGCTTA 59.645 40.000 0.00 0.00 40.32 3.09
1255 2584 5.762825 TCGTTACTCGGATTGTAGCTTAT 57.237 39.130 0.00 0.00 40.32 1.73
1320 2649 3.998672 GGACCTGCGGTTCGACCA 61.999 66.667 1.80 0.00 38.47 4.02
1453 2782 3.884693 TGTACAAGTGAGTCTGGACGTAA 59.115 43.478 0.00 0.00 36.20 3.18
1648 2977 1.633945 ACTGACTTTCCATACACCCCC 59.366 52.381 0.00 0.00 0.00 5.40
1686 3015 3.983044 AGGGACCTTGACACTATCAAC 57.017 47.619 0.00 0.00 42.62 3.18
1750 3079 9.746711 CGTTCTCTAGTATTTTATATGCATTGC 57.253 33.333 3.54 0.46 0.00 3.56
1871 3200 8.816894 ACATGGTGCTACTGCTATAGTTAATAT 58.183 33.333 0.84 0.00 40.89 1.28
1872 3201 9.658799 CATGGTGCTACTGCTATAGTTAATATT 57.341 33.333 0.84 0.00 40.89 1.28
1957 3286 6.006275 AGTCATATTCTAGTGGGTGCAAAT 57.994 37.500 0.00 0.00 0.00 2.32
1962 3291 3.857157 TCTAGTGGGTGCAAATATCCC 57.143 47.619 2.32 2.32 41.41 3.85
1963 3292 2.104111 TCTAGTGGGTGCAAATATCCCG 59.896 50.000 4.96 0.00 43.75 5.14
2154 3486 5.881923 ACCCAGTAGTTTACAAGTTCTCA 57.118 39.130 0.00 0.00 0.00 3.27
2160 3492 6.200286 CAGTAGTTTACAAGTTCTCAAAGCGA 59.800 38.462 0.00 0.00 0.00 4.93
2294 3626 5.047943 TCTGTTCACCTCTTGAGTTACTAGC 60.048 44.000 0.00 0.00 34.94 3.42
2404 3736 2.224606 CAGGTGCTATGGTGGCATAAG 58.775 52.381 0.00 0.00 41.86 1.73
2436 3768 5.077564 TGATAACTAGATGATACCCTGCGT 58.922 41.667 0.00 0.00 0.00 5.24
2666 4000 9.571810 TTTTCTCATGCATATTTGTATGTTGAC 57.428 29.630 12.48 0.00 43.87 3.18
2667 4001 8.510243 TTCTCATGCATATTTGTATGTTGACT 57.490 30.769 12.48 0.00 43.87 3.41
2668 4002 8.510243 TCTCATGCATATTTGTATGTTGACTT 57.490 30.769 12.48 0.00 43.87 3.01
2669 4003 8.400186 TCTCATGCATATTTGTATGTTGACTTG 58.600 33.333 12.48 0.00 43.87 3.16
2670 4004 8.054152 TCATGCATATTTGTATGTTGACTTGT 57.946 30.769 12.48 0.00 43.87 3.16
2671 4005 8.522003 TCATGCATATTTGTATGTTGACTTGTT 58.478 29.630 12.48 0.00 43.87 2.83
2674 4008 8.022550 TGCATATTTGTATGTTGACTTGTTGAG 58.977 33.333 0.00 0.00 0.00 3.02
2675 4009 8.236586 GCATATTTGTATGTTGACTTGTTGAGA 58.763 33.333 0.00 0.00 0.00 3.27
2676 4010 9.546909 CATATTTGTATGTTGACTTGTTGAGAC 57.453 33.333 0.00 0.00 0.00 3.36
2677 4011 7.807977 ATTTGTATGTTGACTTGTTGAGACT 57.192 32.000 0.00 0.00 0.00 3.24
2678 4012 6.603237 TTGTATGTTGACTTGTTGAGACTG 57.397 37.500 0.00 0.00 0.00 3.51
2679 4013 5.056480 TGTATGTTGACTTGTTGAGACTGG 58.944 41.667 0.00 0.00 0.00 4.00
2680 4014 2.917933 TGTTGACTTGTTGAGACTGGG 58.082 47.619 0.00 0.00 0.00 4.45
2681 4015 1.604278 GTTGACTTGTTGAGACTGGGC 59.396 52.381 0.00 0.00 0.00 5.36
2682 4016 0.108585 TGACTTGTTGAGACTGGGCC 59.891 55.000 0.00 0.00 0.00 5.80
2814 4172 1.476891 TCTCGACACCAATACCAGCTC 59.523 52.381 0.00 0.00 0.00 4.09
2979 4337 4.984785 GCCAGGAGTTCATTTTTCAAACTC 59.015 41.667 6.03 6.03 45.19 3.01
3089 4448 1.805943 CAACACGTGCCATCATCTTGA 59.194 47.619 17.22 0.00 0.00 3.02
3232 4592 9.236006 AGCAATTCACAAATAGTAGAAAGTCAT 57.764 29.630 0.00 0.00 0.00 3.06
3233 4593 9.495754 GCAATTCACAAATAGTAGAAAGTCATC 57.504 33.333 0.00 0.00 0.00 2.92
3244 4607 3.665190 AGAAAGTCATCGGAAACCAGAC 58.335 45.455 0.00 0.00 0.00 3.51
3385 4754 7.012327 TGGTAGTCAAACTGAAAAATGTCTCAG 59.988 37.037 0.00 0.00 43.90 3.35
3431 4800 8.781951 TCTCCCTGAATTTCCTAAATAGTTCAT 58.218 33.333 0.00 0.00 0.00 2.57
3432 4801 9.413734 CTCCCTGAATTTCCTAAATAGTTCATT 57.586 33.333 0.00 0.00 0.00 2.57
3476 4845 4.143115 CCATCCGATCCGAATTAATTGACG 60.143 45.833 5.17 3.90 0.00 4.35
3483 4852 2.097466 CCGAATTAATTGACGCAGCCTT 59.903 45.455 5.17 0.00 0.00 4.35
3536 4905 3.248602 GCTGCGTCAATTAATTCGGATCT 59.751 43.478 10.27 0.00 0.00 2.75
3552 4921 6.591750 TCGGATCTGAGGGAGTATTATTTC 57.408 41.667 0.00 0.00 0.00 2.17
3555 4924 7.612244 TCGGATCTGAGGGAGTATTATTTCTAG 59.388 40.741 0.00 0.00 0.00 2.43
3556 4925 7.612244 CGGATCTGAGGGAGTATTATTTCTAGA 59.388 40.741 0.00 0.00 0.00 2.43
3557 4926 9.487442 GGATCTGAGGGAGTATTATTTCTAGAT 57.513 37.037 0.00 0.00 0.00 1.98
3624 4993 7.230108 AGGCAAGAATAAAGTGATCCACATATG 59.770 37.037 0.00 0.00 36.74 1.78
3677 5046 3.178611 GGGATAGGGCCAGGGGTG 61.179 72.222 6.18 0.00 0.00 4.61
3738 5107 6.551601 TCTGCAATTTCAGGGTTAAAAGGTTA 59.448 34.615 5.23 0.00 34.91 2.85
3739 5109 6.517605 TGCAATTTCAGGGTTAAAAGGTTAC 58.482 36.000 0.00 0.00 0.00 2.50
3808 5178 5.048921 CAGCCACATAGCCATCTGAAATTAG 60.049 44.000 0.00 0.00 0.00 1.73
3815 5185 2.620585 GCCATCTGAAATTAGACCTGCC 59.379 50.000 0.00 0.00 0.00 4.85
4059 5435 6.263168 GGTATCAAACAAATGATGGGAGTAGG 59.737 42.308 0.23 0.00 40.21 3.18
4081 5457 4.142381 GGCAAGTTAGGGAATGCAACTAAG 60.142 45.833 0.00 0.00 40.51 2.18
4166 5546 9.189156 CTGAAAATGGAGGATTTTACTAATGGA 57.811 33.333 0.00 0.00 43.12 3.41
4167 5547 8.966868 TGAAAATGGAGGATTTTACTAATGGAC 58.033 33.333 0.00 0.00 43.12 4.02
4221 5603 1.202568 TGCAGAGACCAGACACTGTTG 60.203 52.381 0.00 0.00 32.64 3.33
4318 5700 5.039333 GCATGAGTTTGATCATTTACAGGC 58.961 41.667 0.00 5.39 37.84 4.85
4493 5904 2.636893 TGATCCAACAAACCAATTGGGG 59.363 45.455 27.89 17.64 44.72 4.96
4497 5908 2.224257 CCAACAAACCAATTGGGGTCTG 60.224 50.000 27.89 19.32 43.66 3.51
4568 5979 5.235831 CACATTCAGCACTATAGTCATGTGG 59.764 44.000 19.48 11.65 37.62 4.17
4672 6083 3.691609 AGCAGCTGAAGGTTAGTAAATGC 59.308 43.478 20.43 0.00 0.00 3.56
4689 6100 1.179152 TGCGAATCCGAAGTAGGTGA 58.821 50.000 0.00 0.00 38.22 4.02
4761 6175 0.746063 TCAAAAGCCAGCAGTGTTGG 59.254 50.000 20.90 20.90 38.78 3.77
4841 6255 5.392487 GCTTTTCTTTTGGGAGAGCATAGAC 60.392 44.000 0.00 0.00 0.00 2.59
4992 6408 4.891992 TTGGGTTTTTGGTTTGTCAAGA 57.108 36.364 0.00 0.00 0.00 3.02
5077 6493 5.539582 TGTTTTGTTATGCCGTATCTCAC 57.460 39.130 0.00 0.00 0.00 3.51
5125 6541 7.878127 AGTCGAACTTTCTCATTTCCAATAGAA 59.122 33.333 0.00 0.00 0.00 2.10
5143 6559 7.710907 CCAATAGAATCTTGAGGACAAATACGA 59.289 37.037 0.00 0.00 35.49 3.43
5225 6641 6.602179 TGTCGCTAGTTTTTCAAGATGATTG 58.398 36.000 0.00 0.00 0.00 2.67
5226 6642 5.509622 GTCGCTAGTTTTTCAAGATGATTGC 59.490 40.000 0.00 0.00 0.00 3.56
5227 6643 4.493350 CGCTAGTTTTTCAAGATGATTGCG 59.507 41.667 0.00 0.00 0.00 4.85
5228 6644 5.393962 GCTAGTTTTTCAAGATGATTGCGT 58.606 37.500 0.00 0.00 0.00 5.24
5229 6645 5.509622 GCTAGTTTTTCAAGATGATTGCGTC 59.490 40.000 0.00 0.00 0.00 5.19
5230 6646 5.437289 AGTTTTTCAAGATGATTGCGTCA 57.563 34.783 0.00 0.00 42.06 4.35
5231 6647 5.455392 AGTTTTTCAAGATGATTGCGTCAG 58.545 37.500 0.00 0.00 40.92 3.51
5232 6648 5.239306 AGTTTTTCAAGATGATTGCGTCAGA 59.761 36.000 0.00 0.00 40.92 3.27
5402 6818 2.520069 TGTGGAACTGTTTGTTGGTGT 58.480 42.857 0.00 0.00 39.30 4.16
5593 7009 4.245845 ACTTTCTCTCTTTCCACGAGAC 57.754 45.455 0.00 0.00 33.85 3.36
5608 7024 2.223829 ACGAGACTGTGTTGACCTCTTG 60.224 50.000 0.00 0.00 0.00 3.02
5687 7103 6.663093 ACAACCAAATAACTGAGCCATGAATA 59.337 34.615 0.00 0.00 0.00 1.75
5688 7104 6.949352 ACCAAATAACTGAGCCATGAATAG 57.051 37.500 0.00 0.00 0.00 1.73
5689 7105 5.300286 ACCAAATAACTGAGCCATGAATAGC 59.700 40.000 0.00 0.00 0.00 2.97
5690 7106 5.278660 CCAAATAACTGAGCCATGAATAGCC 60.279 44.000 0.00 0.00 0.00 3.93
5691 7107 4.989875 ATAACTGAGCCATGAATAGCCT 57.010 40.909 0.00 0.00 0.00 4.58
5764 7206 7.539022 CCAGCATGTATTATACGTACTTGAGAG 59.461 40.741 0.00 0.00 32.15 3.20
5765 7207 8.076781 CAGCATGTATTATACGTACTTGAGAGT 58.923 37.037 0.00 0.00 39.97 3.24
5766 7208 8.630917 AGCATGTATTATACGTACTTGAGAGTT 58.369 33.333 0.00 0.00 37.33 3.01
5767 7209 8.691727 GCATGTATTATACGTACTTGAGAGTTG 58.308 37.037 0.00 0.00 37.33 3.16
5768 7210 9.946165 CATGTATTATACGTACTTGAGAGTTGA 57.054 33.333 0.00 0.00 37.33 3.18
5770 7212 9.387257 TGTATTATACGTACTTGAGAGTTGAGA 57.613 33.333 0.00 0.00 37.33 3.27
5862 7304 8.122330 TGTTTGTTTCTAGCATAGCGATATTTG 58.878 33.333 0.00 0.00 38.99 2.32
5973 7417 9.577110 CACAAGCTGTTTGATCAACATAAATAT 57.423 29.630 7.89 0.00 44.72 1.28
6064 7508 7.485913 GCTGTGGTACATTTTCATGTTTATCAG 59.514 37.037 0.00 0.00 41.16 2.90
6096 7779 7.452880 ACATTGAGTTTACATGTGTGCTATT 57.547 32.000 9.11 0.00 0.00 1.73
6097 7780 7.307694 ACATTGAGTTTACATGTGTGCTATTG 58.692 34.615 9.11 0.38 0.00 1.90
6157 7840 9.591792 TGATGTGATCTTCATACAAAACTCTAG 57.408 33.333 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.021033 AGAGGATAGCACAATTGTCTCTG 57.979 43.478 19.08 6.87 0.00 3.35
1 2 5.690464 AAGAGGATAGCACAATTGTCTCT 57.310 39.130 15.76 15.76 32.47 3.10
2 3 6.018343 GCTAAAGAGGATAGCACAATTGTCTC 60.018 42.308 8.48 11.00 44.11 3.36
3 4 5.819901 GCTAAAGAGGATAGCACAATTGTCT 59.180 40.000 8.48 11.34 44.11 3.41
6 7 6.426328 CCTAGCTAAAGAGGATAGCACAATTG 59.574 42.308 3.24 3.24 46.49 2.32
8 9 5.012561 CCCTAGCTAAAGAGGATAGCACAAT 59.987 44.000 1.53 0.00 46.49 2.71
9 10 4.345257 CCCTAGCTAAAGAGGATAGCACAA 59.655 45.833 1.53 0.00 46.49 3.33
10 11 3.898123 CCCTAGCTAAAGAGGATAGCACA 59.102 47.826 1.53 0.00 46.49 4.57
11 12 3.306433 GCCCTAGCTAAAGAGGATAGCAC 60.306 52.174 1.53 0.00 46.49 4.40
12 13 2.900546 GCCCTAGCTAAAGAGGATAGCA 59.099 50.000 1.53 0.00 46.49 3.49
13 14 3.603158 GCCCTAGCTAAAGAGGATAGC 57.397 52.381 1.53 0.00 44.85 2.97
129 131 5.861222 AAATTCGGTTTTCATCAAATGGC 57.139 34.783 0.00 0.00 0.00 4.40
212 215 2.682494 GTGCAGGTCGGACCCCTA 60.682 66.667 23.21 7.13 39.75 3.53
293 320 0.543174 ACTCAGGTTCGCCTCTTCCT 60.543 55.000 0.00 0.00 46.86 3.36
389 651 3.573110 CCTATAAACCAGGACGGAGGTAG 59.427 52.174 0.00 0.00 37.07 3.18
392 654 2.364647 GACCTATAAACCAGGACGGAGG 59.635 54.545 0.00 0.00 38.63 4.30
393 655 2.364647 GGACCTATAAACCAGGACGGAG 59.635 54.545 0.00 0.00 38.63 4.63
394 656 2.391678 GGACCTATAAACCAGGACGGA 58.608 52.381 0.00 0.00 38.63 4.69
396 658 2.904697 GGGACCTATAAACCAGGACG 57.095 55.000 0.00 0.00 36.61 4.79
416 678 2.079925 GTGGCAGCTCCTTTAGTCAAG 58.920 52.381 0.00 0.00 35.26 3.02
418 680 0.324943 GGTGGCAGCTCCTTTAGTCA 59.675 55.000 9.90 0.00 35.26 3.41
515 1580 7.921786 ATACTTTTATTCTGTGCAGTGCTTA 57.078 32.000 17.60 4.16 0.00 3.09
545 1613 3.634448 AGTACACATACTAGCAGCAGGAG 59.366 47.826 0.00 0.00 40.02 3.69
560 1628 8.966868 TCTATTCTGATGAATGTACAGTACACA 58.033 33.333 15.89 10.64 42.34 3.72
589 1900 7.191551 CGAGTAAATAACAGACGGAATCACTA 58.808 38.462 0.00 0.00 0.00 2.74
779 2103 8.094798 TCCTGTTTTTATATATGCGGCTAAAG 57.905 34.615 0.00 0.00 0.00 1.85
780 2104 7.717875 ACTCCTGTTTTTATATATGCGGCTAAA 59.282 33.333 0.00 0.00 0.00 1.85
783 2107 5.621193 ACTCCTGTTTTTATATATGCGGCT 58.379 37.500 0.00 0.00 0.00 5.52
784 2108 5.941948 ACTCCTGTTTTTATATATGCGGC 57.058 39.130 0.00 0.00 0.00 6.53
798 2122 4.154942 TCCCTACGACTAAAACTCCTGTT 58.845 43.478 0.00 0.00 38.16 3.16
799 2123 3.771216 TCCCTACGACTAAAACTCCTGT 58.229 45.455 0.00 0.00 0.00 4.00
800 2124 4.796038 TTCCCTACGACTAAAACTCCTG 57.204 45.455 0.00 0.00 0.00 3.86
801 2125 5.813513 TTTTCCCTACGACTAAAACTCCT 57.186 39.130 0.00 0.00 0.00 3.69
802 2126 5.759763 TGTTTTTCCCTACGACTAAAACTCC 59.240 40.000 0.00 0.00 38.71 3.85
818 2142 2.159296 ACGACCTGTTGCTTGTTTTTCC 60.159 45.455 0.00 0.00 0.00 3.13
819 2143 3.145212 ACGACCTGTTGCTTGTTTTTC 57.855 42.857 0.00 0.00 0.00 2.29
843 2167 7.227910 GCCCGTCCAGTTATTTTATATCTGAAA 59.772 37.037 6.41 0.00 0.00 2.69
857 2181 1.895238 GCTGTAGCCCGTCCAGTTA 59.105 57.895 0.00 0.00 34.31 2.24
913 2239 0.736325 CCACAAGGTCGACGTGATCC 60.736 60.000 20.88 2.28 32.23 3.36
1236 2565 8.865420 AGAGATATAAGCTACAATCCGAGTAA 57.135 34.615 0.00 0.00 0.00 2.24
1275 2604 2.040524 CACCGTGCAATAACAACAACG 58.959 47.619 0.00 0.00 0.00 4.10
1318 2647 1.448540 CACTACCTTGAGCGGCTGG 60.449 63.158 7.50 5.07 0.00 4.85
1320 2649 2.266055 GCACTACCTTGAGCGGCT 59.734 61.111 0.00 0.00 0.00 5.52
1648 2977 1.405821 CCTAACCACCTAGCGACTCTG 59.594 57.143 0.00 0.00 0.00 3.35
1686 3015 3.443099 TGTGCATCTCTTGTCTATCGG 57.557 47.619 0.00 0.00 0.00 4.18
1743 3072 4.022155 TGCTAATTTGACAAGAGCAATGCA 60.022 37.500 8.35 0.00 40.07 3.96
1750 3079 7.327761 CACCTCAATTTGCTAATTTGACAAGAG 59.672 37.037 3.23 6.44 31.63 2.85
1957 3286 3.767673 GCCTATGAGGTTATGACGGGATA 59.232 47.826 0.00 0.00 37.80 2.59
1962 3291 2.894126 AGAGGCCTATGAGGTTATGACG 59.106 50.000 4.42 0.00 37.80 4.35
1963 3292 3.259625 GGAGAGGCCTATGAGGTTATGAC 59.740 52.174 3.53 0.00 37.80 3.06
2154 3486 5.724328 TCTTCATAGACTGACAATCGCTTT 58.276 37.500 0.00 0.00 32.17 3.51
2160 3492 5.738909 CACCCTTCTTCATAGACTGACAAT 58.261 41.667 0.00 0.00 32.17 2.71
2294 3626 4.403432 AGAATGGATGGCAACCAGTAATTG 59.597 41.667 21.51 0.00 40.89 2.32
2436 3768 4.587584 TCAATCAATTCTTGCAGCAACA 57.412 36.364 2.83 0.00 0.00 3.33
2666 4000 1.986882 AAAGGCCCAGTCTCAACAAG 58.013 50.000 0.00 0.00 0.00 3.16
2667 4001 2.306847 GAAAAGGCCCAGTCTCAACAA 58.693 47.619 0.00 0.00 0.00 2.83
2668 4002 1.214175 TGAAAAGGCCCAGTCTCAACA 59.786 47.619 0.00 0.00 0.00 3.33
2669 4003 1.981256 TGAAAAGGCCCAGTCTCAAC 58.019 50.000 0.00 0.00 0.00 3.18
2670 4004 2.517959 CATGAAAAGGCCCAGTCTCAA 58.482 47.619 0.00 0.00 0.00 3.02
2671 4005 1.887956 GCATGAAAAGGCCCAGTCTCA 60.888 52.381 0.00 0.00 0.00 3.27
2674 4008 1.134907 CATGCATGAAAAGGCCCAGTC 60.135 52.381 22.59 0.00 0.00 3.51
2675 4009 0.899720 CATGCATGAAAAGGCCCAGT 59.100 50.000 22.59 0.00 0.00 4.00
2676 4010 0.899720 ACATGCATGAAAAGGCCCAG 59.100 50.000 32.75 1.99 0.00 4.45
2677 4011 0.609151 CACATGCATGAAAAGGCCCA 59.391 50.000 32.75 0.00 0.00 5.36
2678 4012 0.609662 ACACATGCATGAAAAGGCCC 59.390 50.000 32.75 0.00 0.00 5.80
2679 4013 1.717194 CACACATGCATGAAAAGGCC 58.283 50.000 32.75 0.00 0.00 5.19
2705 4060 3.914435 GCCCCCACTAATCTATTTCCCTA 59.086 47.826 0.00 0.00 0.00 3.53
2814 4172 5.845985 TTCTCGCTATCAAACAAGAACAG 57.154 39.130 0.00 0.00 0.00 3.16
2932 4290 3.941483 CCTGCAATAGTTCAGGGTTGTAG 59.059 47.826 0.48 0.00 44.64 2.74
2979 4337 6.055231 TCAAACAACCAGATTTACAGTTCG 57.945 37.500 0.00 0.00 0.00 3.95
3030 4389 1.846712 GCTTGAGAGAGCCAGGGGTT 61.847 60.000 0.00 0.00 36.66 4.11
3089 4448 6.449635 TTTTCACTTAAGTTGCTGACATGT 57.550 33.333 5.07 0.00 0.00 3.21
3185 4545 5.003804 GCTTGGAAGTTACAGATCTTTCCA 58.996 41.667 18.02 18.02 0.00 3.53
3187 4547 6.560253 TTGCTTGGAAGTTACAGATCTTTC 57.440 37.500 0.00 0.00 0.00 2.62
3190 4550 6.150140 GTGAATTGCTTGGAAGTTACAGATCT 59.850 38.462 0.00 0.00 0.00 2.75
3192 4552 5.769662 TGTGAATTGCTTGGAAGTTACAGAT 59.230 36.000 0.00 0.00 0.00 2.90
3232 4592 4.417426 AAAAAGAGAGTCTGGTTTCCGA 57.583 40.909 0.00 0.00 0.00 4.55
3378 4744 5.462530 TTTTCGGATTGACTACTGAGACA 57.537 39.130 0.00 0.00 0.00 3.41
3455 4824 3.432252 GCGTCAATTAATTCGGATCGGAT 59.568 43.478 3.55 0.00 0.00 4.18
3476 4845 5.520376 AATGGACATTGTATAAAGGCTGC 57.480 39.130 0.00 0.00 0.00 5.25
3508 4877 4.318121 CGAATTAATTGACGCAGCCTCTAC 60.318 45.833 5.17 0.00 0.00 2.59
3576 4945 6.129194 GCCTTGTCAGCAACTTAATTAAAACG 60.129 38.462 0.00 0.00 0.00 3.60
3606 4975 5.693961 TGGCACATATGTGGATCACTTTAT 58.306 37.500 31.63 0.00 45.72 1.40
3635 5004 1.477105 GTTTTGCGCAAACTGAGACC 58.523 50.000 33.73 12.47 41.58 3.85
3644 5013 1.142748 CCCAAGTGGTTTTGCGCAA 59.857 52.632 21.02 21.02 0.00 4.85
3689 5058 8.552034 AGAAGTTTACTTTCGAATCTTGAACTG 58.448 33.333 0.00 0.00 36.11 3.16
3808 5178 0.690762 TTAGAGTGTTGGGGCAGGTC 59.309 55.000 0.00 0.00 0.00 3.85
4018 5394 8.783093 TGTTTGATACCTGATACTTTTGTCTTG 58.217 33.333 0.00 0.00 0.00 3.02
4035 5411 6.238759 GCCTACTCCCATCATTTGTTTGATAC 60.239 42.308 0.00 0.00 34.59 2.24
4040 5416 4.046286 TGCCTACTCCCATCATTTGTTT 57.954 40.909 0.00 0.00 0.00 2.83
4059 5435 4.700213 TCTTAGTTGCATTCCCTAACTTGC 59.300 41.667 0.00 0.00 36.22 4.01
4147 5523 7.691791 GCCATAGTCCATTAGTAAAATCCTCCA 60.692 40.741 0.00 0.00 0.00 3.86
4166 5546 6.762661 GGTGAAATAATTGCAAATGCCATAGT 59.237 34.615 1.71 0.00 41.18 2.12
4167 5547 6.762187 TGGTGAAATAATTGCAAATGCCATAG 59.238 34.615 1.71 0.00 41.18 2.23
4274 5656 3.181502 GCTGGAAAACTCTTGCAGATAGC 60.182 47.826 9.81 0.00 39.78 2.97
4318 5700 4.463891 AGTTTGATCAAGGTTAAGCCCATG 59.536 41.667 8.41 0.00 38.26 3.66
4411 5822 9.212593 ACTGGATTTAGTTGGCCATTAAATATT 57.787 29.630 24.60 12.29 29.67 1.28
4417 5828 5.450818 AGACTGGATTTAGTTGGCCATTA 57.549 39.130 6.09 0.00 0.00 1.90
4434 5845 9.134734 GACAGTGAAGTAAAGAGAAATAGACTG 57.865 37.037 0.00 0.00 33.70 3.51
4497 5908 7.624344 CTTCATTACGAAAATTGAGGTGTCCTC 60.624 40.741 8.67 8.67 41.13 3.71
4568 5979 1.267806 CACAAGTTGATGGTGAGTGGC 59.732 52.381 10.54 0.00 34.52 5.01
4672 6083 3.505464 ACTTCACCTACTTCGGATTCG 57.495 47.619 0.00 0.00 37.82 3.34
4761 6175 3.057526 GCGCCCCACTATTCCAATAATTC 60.058 47.826 0.00 0.00 0.00 2.17
4841 6255 7.616103 TTGATAACAACAAACAATTAGTGCG 57.384 32.000 0.00 0.00 0.00 5.34
4904 6319 9.396022 CCAACCAAGAAAGACTAACACATATAT 57.604 33.333 0.00 0.00 0.00 0.86
5018 6434 7.044510 CGCACATGCTTCAAGAAATATTTGTAG 60.045 37.037 5.17 0.00 39.32 2.74
5019 6435 6.746822 CGCACATGCTTCAAGAAATATTTGTA 59.253 34.615 5.17 0.00 39.32 2.41
5021 6437 5.499652 GCGCACATGCTTCAAGAAATATTTG 60.500 40.000 5.17 0.00 39.32 2.32
5022 6438 4.563976 GCGCACATGCTTCAAGAAATATTT 59.436 37.500 0.30 0.00 39.32 1.40
5077 6493 7.404139 ACTAGACGTAAGCAAAGTTACAAAG 57.596 36.000 0.00 0.00 45.62 2.77
5125 6541 5.677319 TTCCTCGTATTTGTCCTCAAGAT 57.323 39.130 0.00 0.00 34.88 2.40
5129 6545 6.703319 TGTTATTTCCTCGTATTTGTCCTCA 58.297 36.000 0.00 0.00 0.00 3.86
5143 6559 3.507622 GCTTGCTTGTCCTGTTATTTCCT 59.492 43.478 0.00 0.00 0.00 3.36
5206 6622 6.602179 TGACGCAATCATCTTGAAAAACTAG 58.398 36.000 0.00 0.00 29.99 2.57
5231 6647 3.859411 AGATGAAGAAGACTGACGGTC 57.141 47.619 6.28 6.28 44.80 4.79
5232 6648 5.723672 TTAAGATGAAGAAGACTGACGGT 57.276 39.130 0.00 0.00 0.00 4.83
5339 6755 3.575256 AGCTTGATGATGCACTTGGAAAA 59.425 39.130 0.00 0.00 0.00 2.29
5402 6818 7.549134 CCAAAACTAGAATGACAGCAGTGTATA 59.451 37.037 0.00 0.00 36.88 1.47
5533 6949 9.858247 CAATATCATAGCATGCAAACAAAAATC 57.142 29.630 21.98 0.00 0.00 2.17
5536 6952 6.762187 CCCAATATCATAGCATGCAAACAAAA 59.238 34.615 21.98 0.00 0.00 2.44
5537 6953 6.282167 CCCAATATCATAGCATGCAAACAAA 58.718 36.000 21.98 0.99 0.00 2.83
5538 6954 5.221481 CCCCAATATCATAGCATGCAAACAA 60.221 40.000 21.98 1.03 0.00 2.83
5539 6955 4.281435 CCCCAATATCATAGCATGCAAACA 59.719 41.667 21.98 1.79 0.00 2.83
5540 6956 4.523943 TCCCCAATATCATAGCATGCAAAC 59.476 41.667 21.98 0.00 0.00 2.93
5593 7009 4.635765 TGAGAAAACAAGAGGTCAACACAG 59.364 41.667 0.00 0.00 0.00 3.66
5687 7103 3.066760 GCGCATTATCCAGTTAAAAGGCT 59.933 43.478 0.30 0.00 0.00 4.58
5688 7104 3.181491 TGCGCATTATCCAGTTAAAAGGC 60.181 43.478 5.66 0.00 0.00 4.35
5689 7105 4.096382 ACTGCGCATTATCCAGTTAAAAGG 59.904 41.667 12.24 0.00 36.48 3.11
5690 7106 5.030295 CACTGCGCATTATCCAGTTAAAAG 58.970 41.667 12.24 0.00 37.70 2.27
5691 7107 4.697828 TCACTGCGCATTATCCAGTTAAAA 59.302 37.500 12.24 0.00 37.70 1.52
5764 7206 8.824159 ATACTAGCATATGATGTGTTCTCAAC 57.176 34.615 6.97 0.00 0.00 3.18
5862 7304 7.982354 AGGACTTCTTAGTGCATTGTTAGATAC 59.018 37.037 0.00 0.00 44.45 2.24
5884 7326 2.629051 CCACCACGGAAAGATTAGGAC 58.371 52.381 0.00 0.00 36.56 3.85
5914 7356 0.865111 TTTGCATGGACTTCGTCGTG 59.135 50.000 0.00 0.00 32.65 4.35
5915 7357 0.865769 GTTTGCATGGACTTCGTCGT 59.134 50.000 0.00 0.00 32.65 4.34
5917 7359 2.855180 CATGTTTGCATGGACTTCGTC 58.145 47.619 0.00 0.00 46.47 4.20
5986 7430 3.502191 TGCTTTCGAGCAACACTTTTT 57.498 38.095 0.00 0.00 42.40 1.94
5999 7443 7.438160 TGAGATATTACTACCAATGTGCTTTCG 59.562 37.037 0.00 0.00 0.00 3.46
6064 7508 8.342634 ACACATGTAAACTCAATGTAAGTCAAC 58.657 33.333 0.00 0.00 0.00 3.18
6193 7878 9.429359 GGAATGGATGTCACTATCTACATTAAG 57.571 37.037 0.00 0.00 36.48 1.85


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

AutoCloner maintained by Alex Coulton.