Multiple sequence alignment - TraesCS4B01G238600

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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 TraesCS4B01G238600 chr4B 100.000 2471 0 0 1 2471 495583431 495580961 0.000000e+00 4564.0
1 TraesCS4B01G238600 chr6A 97.992 1494 23 2 978 2471 84403744 84402258 0.000000e+00 2586.0
2 TraesCS4B01G238600 chr3A 97.925 1494 24 2 978 2471 495098958 495097472 0.000000e+00 2580.0
3 TraesCS4B01G238600 chr3A 97.590 1494 29 2 978 2471 66010376 66011862 0.000000e+00 2553.0
4 TraesCS4B01G238600 chr1B 97.925 1494 24 2 978 2471 619189530 619188044 0.000000e+00 2580.0
5 TraesCS4B01G238600 chr5D 97.657 1494 28 2 978 2471 503225464 503223978 0.000000e+00 2558.0
6 TraesCS4B01G238600 chr5D 97.523 1494 30 2 978 2471 503271081 503272567 0.000000e+00 2547.0
7 TraesCS4B01G238600 chr3D 97.657 1494 28 2 978 2471 24163869 24165355 0.000000e+00 2558.0
8 TraesCS4B01G238600 chr3B 97.590 1494 29 2 978 2471 92290943 92289457 0.000000e+00 2553.0
9 TraesCS4B01G238600 chr3B 87.156 109 9 3 791 895 750322933 750322826 4.320000e-23 119.0
10 TraesCS4B01G238600 chr2B 97.590 1494 29 2 978 2471 449213532 449212046 0.000000e+00 2553.0
11 TraesCS4B01G238600 chr4D 86.810 326 14 11 266 591 401071447 401071151 1.090000e-88 337.0
12 TraesCS4B01G238600 chr4D 84.549 233 17 8 1 215 401071745 401071514 1.920000e-51 213.0
13 TraesCS4B01G238600 chr4D 86.111 180 12 4 593 771 401071094 401070927 5.430000e-42 182.0
14 TraesCS4B01G238600 chr4A 87.500 128 14 2 272 397 58824561 58824434 1.980000e-31 147.0
15 TraesCS4B01G238600 chr4A 90.476 105 7 2 794 895 695493120 695493016 4.290000e-28 135.0
16 TraesCS4B01G238600 chr6B 90.566 106 7 2 793 895 697461393 697461498 1.190000e-28 137.0
17 TraesCS4B01G238600 chr6B 81.731 104 17 2 793 895 445031258 445031360 4.380000e-13 86.1
18 TraesCS4B01G238600 chr7B 85.577 104 13 1 793 894 703287316 703287419 9.340000e-20 108.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G238600 chr4B 495580961 495583431 2470 True 4564 4564 100.000000 1 2471 1 chr4B.!!$R1 2470
1 TraesCS4B01G238600 chr6A 84402258 84403744 1486 True 2586 2586 97.992000 978 2471 1 chr6A.!!$R1 1493
2 TraesCS4B01G238600 chr3A 495097472 495098958 1486 True 2580 2580 97.925000 978 2471 1 chr3A.!!$R1 1493
3 TraesCS4B01G238600 chr3A 66010376 66011862 1486 False 2553 2553 97.590000 978 2471 1 chr3A.!!$F1 1493
4 TraesCS4B01G238600 chr1B 619188044 619189530 1486 True 2580 2580 97.925000 978 2471 1 chr1B.!!$R1 1493
5 TraesCS4B01G238600 chr5D 503223978 503225464 1486 True 2558 2558 97.657000 978 2471 1 chr5D.!!$R1 1493
6 TraesCS4B01G238600 chr5D 503271081 503272567 1486 False 2547 2547 97.523000 978 2471 1 chr5D.!!$F1 1493
7 TraesCS4B01G238600 chr3D 24163869 24165355 1486 False 2558 2558 97.657000 978 2471 1 chr3D.!!$F1 1493
8 TraesCS4B01G238600 chr3B 92289457 92290943 1486 True 2553 2553 97.590000 978 2471 1 chr3B.!!$R1 1493
9 TraesCS4B01G238600 chr2B 449212046 449213532 1486 True 2553 2553 97.590000 978 2471 1 chr2B.!!$R1 1493
10 TraesCS4B01G238600 chr4D 401070927 401071745 818 True 244 337 85.823333 1 771 3 chr4D.!!$R1 770

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
46 47 0.034337 TTCGGTCGCTTGGCTTACTT 59.966 50.0 0.0 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2333 2422 3.185203 AAGAGCTTGCCCCACCCA 61.185 61.111 0.0 0.0 0.0 4.51 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
37 38 0.738412 CCGGTAACATTCGGTCGCTT 60.738 55.000 0.00 0.00 41.23 4.68
46 47 0.034337 TTCGGTCGCTTGGCTTACTT 59.966 50.000 0.00 0.00 0.00 2.24
53 54 1.399727 CGCTTGGCTTACTTTTCGTGG 60.400 52.381 0.00 0.00 0.00 4.94
82 86 4.360951 AAGTTAAGACGGGGTCAATTCA 57.639 40.909 0.00 0.00 34.60 2.57
83 87 4.569719 AGTTAAGACGGGGTCAATTCAT 57.430 40.909 0.00 0.00 34.60 2.57
137 156 0.035152 ATTTCCACGCAGATCCAGCA 60.035 50.000 8.30 0.00 0.00 4.41
141 160 1.153842 CACGCAGATCCAGCACGTA 60.154 57.895 8.30 0.00 34.79 3.57
147 166 1.445410 GATCCAGCACGTACACGCA 60.445 57.895 0.85 0.00 44.43 5.24
148 167 1.683790 GATCCAGCACGTACACGCAC 61.684 60.000 0.85 0.00 44.43 5.34
154 173 3.667282 ACGTACACGCACCTCGCT 61.667 61.111 0.85 0.00 44.43 4.93
159 178 1.576451 TACACGCACCTCGCTTCGTA 61.576 55.000 0.00 0.00 43.23 3.43
164 183 1.756367 GCACCTCGCTTCGTAGTATC 58.244 55.000 0.00 0.00 37.77 2.24
200 219 0.802222 CGACGAACGATCCATGCACT 60.802 55.000 0.14 0.00 45.77 4.40
210 229 2.885135 TCCATGCACTCCACAGAAAT 57.115 45.000 0.00 0.00 0.00 2.17
215 234 1.881973 TGCACTCCACAGAAATTCAGC 59.118 47.619 0.00 0.00 0.00 4.26
216 235 1.200948 GCACTCCACAGAAATTCAGCC 59.799 52.381 0.00 0.00 0.00 4.85
217 236 1.466167 CACTCCACAGAAATTCAGCCG 59.534 52.381 0.00 0.00 0.00 5.52
218 237 1.072331 ACTCCACAGAAATTCAGCCGT 59.928 47.619 0.00 0.00 0.00 5.68
219 238 2.301870 ACTCCACAGAAATTCAGCCGTA 59.698 45.455 0.00 0.00 0.00 4.02
220 239 2.673368 CTCCACAGAAATTCAGCCGTAC 59.327 50.000 0.00 0.00 0.00 3.67
222 241 2.811431 CCACAGAAATTCAGCCGTACAA 59.189 45.455 0.00 0.00 0.00 2.41
223 242 3.440173 CCACAGAAATTCAGCCGTACAAT 59.560 43.478 0.00 0.00 0.00 2.71
225 244 3.370978 ACAGAAATTCAGCCGTACAATCG 59.629 43.478 0.00 0.00 0.00 3.34
228 247 4.693566 AGAAATTCAGCCGTACAATCGAAA 59.306 37.500 0.00 0.00 0.00 3.46
229 248 5.354234 AGAAATTCAGCCGTACAATCGAAAT 59.646 36.000 0.00 0.00 0.00 2.17
230 249 4.795970 ATTCAGCCGTACAATCGAAATC 57.204 40.909 0.00 0.00 0.00 2.17
231 250 2.190161 TCAGCCGTACAATCGAAATCG 58.810 47.619 0.00 0.00 41.45 3.34
233 252 2.347452 CAGCCGTACAATCGAAATCGTT 59.653 45.455 2.41 0.00 40.80 3.85
235 254 3.434299 AGCCGTACAATCGAAATCGTTTT 59.566 39.130 2.41 0.00 40.80 2.43
236 255 3.777161 GCCGTACAATCGAAATCGTTTTC 59.223 43.478 8.60 8.60 40.80 2.29
237 256 4.328667 CCGTACAATCGAAATCGTTTTCC 58.671 43.478 12.21 0.00 38.40 3.13
238 257 4.328667 CGTACAATCGAAATCGTTTTCCC 58.671 43.478 12.21 0.00 38.40 3.97
239 258 3.465122 ACAATCGAAATCGTTTTCCCG 57.535 42.857 12.21 4.07 38.40 5.14
240 259 2.160813 ACAATCGAAATCGTTTTCCCGG 59.839 45.455 12.21 0.00 38.40 5.73
241 260 0.730840 ATCGAAATCGTTTTCCCGGC 59.269 50.000 12.21 0.00 38.40 6.13
242 261 1.135939 CGAAATCGTTTTCCCGGCC 59.864 57.895 12.21 0.00 38.40 6.13
243 262 1.135939 GAAATCGTTTTCCCGGCCG 59.864 57.895 21.04 21.04 36.09 6.13
244 263 2.261172 GAAATCGTTTTCCCGGCCGG 62.261 60.000 37.99 37.99 36.09 6.13
257 276 3.908081 GCCGGCCCATGCTTGATG 61.908 66.667 18.11 0.00 37.74 3.07
258 277 3.908081 CCGGCCCATGCTTGATGC 61.908 66.667 0.00 3.58 43.25 3.91
303 337 6.215845 GTGCAAGTGTGGAAAATATGTTCTT 58.784 36.000 5.61 0.00 0.00 2.52
305 339 6.265196 TGCAAGTGTGGAAAATATGTTCTTCT 59.735 34.615 5.61 0.00 0.00 2.85
316 350 9.696917 GAAAATATGTTCTTCTGGTGAAACAAT 57.303 29.630 0.00 0.00 39.98 2.71
392 426 1.194218 GGCCAGGCAACATGGTTTAT 58.806 50.000 15.19 0.00 40.17 1.40
393 427 2.383855 GGCCAGGCAACATGGTTTATA 58.616 47.619 15.19 0.00 40.17 0.98
394 428 2.100749 GGCCAGGCAACATGGTTTATAC 59.899 50.000 15.19 0.00 40.17 1.47
395 429 2.757868 GCCAGGCAACATGGTTTATACA 59.242 45.455 6.55 0.00 40.17 2.29
398 432 5.243730 GCCAGGCAACATGGTTTATACATAT 59.756 40.000 6.55 0.00 40.17 1.78
399 433 6.570378 GCCAGGCAACATGGTTTATACATATC 60.570 42.308 6.55 0.00 40.17 1.63
400 434 6.716628 CCAGGCAACATGGTTTATACATATCT 59.283 38.462 0.00 0.00 41.41 1.98
401 435 7.094634 CCAGGCAACATGGTTTATACATATCTC 60.095 40.741 0.00 0.00 41.41 2.75
402 436 6.650807 AGGCAACATGGTTTATACATATCTCG 59.349 38.462 0.00 0.00 41.41 4.04
403 437 6.426937 GGCAACATGGTTTATACATATCTCGT 59.573 38.462 0.00 0.00 0.00 4.18
404 438 7.601130 GGCAACATGGTTTATACATATCTCGTA 59.399 37.037 0.00 0.00 0.00 3.43
405 439 8.984764 GCAACATGGTTTATACATATCTCGTAA 58.015 33.333 0.00 0.00 0.00 3.18
442 476 3.132629 CACATGCAGTGCAATCTCTTC 57.867 47.619 23.90 0.00 43.62 2.87
452 486 2.302733 TGCAATCTCTTCACTGTAGCCA 59.697 45.455 0.00 0.00 0.00 4.75
458 492 3.119459 TCTCTTCACTGTAGCCAATCGTC 60.119 47.826 0.00 0.00 0.00 4.20
461 495 1.135489 TCACTGTAGCCAATCGTCGAC 60.135 52.381 5.18 5.18 0.00 4.20
462 496 0.179171 ACTGTAGCCAATCGTCGACG 60.179 55.000 31.30 31.30 41.45 5.12
477 511 1.524621 GACGATGGGTCCATGGCAG 60.525 63.158 6.96 0.00 39.90 4.85
481 515 2.842188 GATGGGTCCATGGCAGCACA 62.842 60.000 6.96 7.55 36.70 4.57
485 519 1.696063 GGTCCATGGCAGCACATATT 58.304 50.000 6.96 0.00 0.00 1.28
490 524 2.888414 CCATGGCAGCACATATTGATCA 59.112 45.455 0.00 0.00 0.00 2.92
491 525 3.509967 CCATGGCAGCACATATTGATCAT 59.490 43.478 0.00 0.00 0.00 2.45
578 612 3.214250 CTGTCCGGCGCTATCCCTC 62.214 68.421 7.64 0.00 0.00 4.30
596 685 2.438975 TCCCCGTCGTCGTGCTAT 60.439 61.111 0.71 0.00 35.01 2.97
614 703 3.255642 GCTATCAAACAAGGTTGGCTTCA 59.744 43.478 0.00 0.00 0.00 3.02
628 717 2.672651 TTCAGTCGCGGTCCCGTA 60.673 61.111 6.13 0.00 42.09 4.02
645 734 0.096454 GTATGGTTGAGGCGCGAAAC 59.904 55.000 12.10 8.11 0.00 2.78
680 769 2.880822 CGAAAGCAGAATCGAAAGCA 57.119 45.000 0.00 0.00 41.43 3.91
681 770 2.767069 CGAAAGCAGAATCGAAAGCAG 58.233 47.619 0.00 0.00 41.43 4.24
682 771 2.413112 CGAAAGCAGAATCGAAAGCAGA 59.587 45.455 0.00 0.00 41.43 4.26
697 786 1.542915 AGCAGATTCACATGTTGGTGC 59.457 47.619 0.00 1.33 38.66 5.01
704 793 1.474478 TCACATGTTGGTGCACGTTTT 59.526 42.857 11.45 0.00 38.66 2.43
706 795 3.658061 CACATGTTGGTGCACGTTTTCG 61.658 50.000 11.45 0.42 39.55 3.46
758 847 0.455815 GCCGAAGCGAAATGGGAAAT 59.544 50.000 0.00 0.00 0.00 2.17
764 853 5.912955 CCGAAGCGAAATGGGAAATATAAAC 59.087 40.000 0.00 0.00 0.00 2.01
765 854 5.619607 CGAAGCGAAATGGGAAATATAAACG 59.380 40.000 0.00 0.00 0.00 3.60
766 855 6.445357 AAGCGAAATGGGAAATATAAACGT 57.555 33.333 0.00 0.00 0.00 3.99
767 856 5.816919 AGCGAAATGGGAAATATAAACGTG 58.183 37.500 0.00 0.00 0.00 4.49
768 857 5.355910 AGCGAAATGGGAAATATAAACGTGT 59.644 36.000 0.00 0.00 0.00 4.49
769 858 6.539464 AGCGAAATGGGAAATATAAACGTGTA 59.461 34.615 0.00 0.00 0.00 2.90
770 859 7.227910 AGCGAAATGGGAAATATAAACGTGTAT 59.772 33.333 3.24 3.24 0.00 2.29
771 860 8.497554 GCGAAATGGGAAATATAAACGTGTATA 58.502 33.333 7.91 7.91 0.00 1.47
786 875 3.419922 CGTGTATATACGTTCGGTCTTGC 59.580 47.826 13.29 0.00 39.13 4.01
787 876 4.604976 GTGTATATACGTTCGGTCTTGCT 58.395 43.478 8.33 0.00 0.00 3.91
788 877 5.558844 CGTGTATATACGTTCGGTCTTGCTA 60.559 44.000 13.29 0.00 39.13 3.49
789 878 6.201517 GTGTATATACGTTCGGTCTTGCTAA 58.798 40.000 8.33 0.00 0.00 3.09
790 879 6.860023 GTGTATATACGTTCGGTCTTGCTAAT 59.140 38.462 8.33 0.00 0.00 1.73
791 880 7.380602 GTGTATATACGTTCGGTCTTGCTAATT 59.619 37.037 8.33 0.00 0.00 1.40
792 881 7.592533 TGTATATACGTTCGGTCTTGCTAATTC 59.407 37.037 8.33 0.00 0.00 2.17
793 882 3.314541 ACGTTCGGTCTTGCTAATTCT 57.685 42.857 0.00 0.00 0.00 2.40
794 883 4.445452 ACGTTCGGTCTTGCTAATTCTA 57.555 40.909 0.00 0.00 0.00 2.10
795 884 4.813027 ACGTTCGGTCTTGCTAATTCTAA 58.187 39.130 0.00 0.00 0.00 2.10
796 885 4.863131 ACGTTCGGTCTTGCTAATTCTAAG 59.137 41.667 0.00 0.00 0.00 2.18
797 886 5.100259 CGTTCGGTCTTGCTAATTCTAAGA 58.900 41.667 0.00 0.00 0.00 2.10
798 887 5.230306 CGTTCGGTCTTGCTAATTCTAAGAG 59.770 44.000 0.00 0.00 31.66 2.85
799 888 4.683832 TCGGTCTTGCTAATTCTAAGAGC 58.316 43.478 13.89 13.89 42.44 4.09
800 889 4.159693 TCGGTCTTGCTAATTCTAAGAGCA 59.840 41.667 19.50 10.93 44.73 4.26
801 890 5.053145 CGGTCTTGCTAATTCTAAGAGCAT 58.947 41.667 19.50 0.00 45.20 3.79
802 891 5.176590 CGGTCTTGCTAATTCTAAGAGCATC 59.823 44.000 19.50 8.15 45.20 3.91
816 905 3.827008 GAGCATCTCCAATAGACACCA 57.173 47.619 0.00 0.00 36.93 4.17
817 906 4.142609 GAGCATCTCCAATAGACACCAA 57.857 45.455 0.00 0.00 36.93 3.67
818 907 4.517285 GAGCATCTCCAATAGACACCAAA 58.483 43.478 0.00 0.00 36.93 3.28
819 908 4.922206 AGCATCTCCAATAGACACCAAAA 58.078 39.130 0.00 0.00 36.93 2.44
820 909 5.324409 AGCATCTCCAATAGACACCAAAAA 58.676 37.500 0.00 0.00 36.93 1.94
821 910 5.416952 AGCATCTCCAATAGACACCAAAAAG 59.583 40.000 0.00 0.00 36.93 2.27
822 911 5.415701 GCATCTCCAATAGACACCAAAAAGA 59.584 40.000 0.00 0.00 36.93 2.52
823 912 6.623767 GCATCTCCAATAGACACCAAAAAGAC 60.624 42.308 0.00 0.00 36.93 3.01
824 913 5.313712 TCTCCAATAGACACCAAAAAGACC 58.686 41.667 0.00 0.00 0.00 3.85
825 914 5.073144 TCTCCAATAGACACCAAAAAGACCT 59.927 40.000 0.00 0.00 0.00 3.85
826 915 5.313712 TCCAATAGACACCAAAAAGACCTC 58.686 41.667 0.00 0.00 0.00 3.85
827 916 4.459337 CCAATAGACACCAAAAAGACCTCC 59.541 45.833 0.00 0.00 0.00 4.30
828 917 2.256117 AGACACCAAAAAGACCTCCG 57.744 50.000 0.00 0.00 0.00 4.63
829 918 0.591659 GACACCAAAAAGACCTCCGC 59.408 55.000 0.00 0.00 0.00 5.54
830 919 1.164041 ACACCAAAAAGACCTCCGCG 61.164 55.000 0.00 0.00 0.00 6.46
831 920 2.258726 ACCAAAAAGACCTCCGCGC 61.259 57.895 0.00 0.00 0.00 6.86
832 921 2.258013 CCAAAAAGACCTCCGCGCA 61.258 57.895 8.75 0.00 0.00 6.09
833 922 1.082104 CAAAAAGACCTCCGCGCAC 60.082 57.895 8.75 0.00 0.00 5.34
834 923 1.227853 AAAAAGACCTCCGCGCACT 60.228 52.632 8.75 0.00 0.00 4.40
835 924 0.034337 AAAAAGACCTCCGCGCACTA 59.966 50.000 8.75 0.00 0.00 2.74
836 925 0.034337 AAAAGACCTCCGCGCACTAA 59.966 50.000 8.75 0.00 0.00 2.24
837 926 0.034337 AAAGACCTCCGCGCACTAAA 59.966 50.000 8.75 0.00 0.00 1.85
838 927 0.034337 AAGACCTCCGCGCACTAAAA 59.966 50.000 8.75 0.00 0.00 1.52
839 928 0.389948 AGACCTCCGCGCACTAAAAG 60.390 55.000 8.75 0.00 0.00 2.27
840 929 0.669625 GACCTCCGCGCACTAAAAGT 60.670 55.000 8.75 0.00 0.00 2.66
841 930 0.250166 ACCTCCGCGCACTAAAAGTT 60.250 50.000 8.75 0.00 0.00 2.66
842 931 0.872388 CCTCCGCGCACTAAAAGTTT 59.128 50.000 8.75 0.00 0.00 2.66
843 932 1.399727 CCTCCGCGCACTAAAAGTTTG 60.400 52.381 8.75 0.00 0.00 2.93
844 933 1.263217 CTCCGCGCACTAAAAGTTTGT 59.737 47.619 8.75 0.00 0.00 2.83
845 934 1.671845 TCCGCGCACTAAAAGTTTGTT 59.328 42.857 8.75 0.00 0.00 2.83
846 935 2.097791 TCCGCGCACTAAAAGTTTGTTT 59.902 40.909 8.75 0.00 0.00 2.83
847 936 2.855370 CCGCGCACTAAAAGTTTGTTTT 59.145 40.909 8.75 0.00 0.00 2.43
848 937 3.304826 CCGCGCACTAAAAGTTTGTTTTT 59.695 39.130 8.75 0.00 34.78 1.94
863 952 2.399856 TTTTTGACGCCGAACAGCT 58.600 47.368 0.00 0.00 0.00 4.24
864 953 0.306533 TTTTTGACGCCGAACAGCTC 59.693 50.000 0.00 0.00 0.00 4.09
865 954 1.503818 TTTTGACGCCGAACAGCTCC 61.504 55.000 0.00 0.00 0.00 4.70
866 955 2.652382 TTTGACGCCGAACAGCTCCA 62.652 55.000 0.00 0.00 0.00 3.86
867 956 2.811317 GACGCCGAACAGCTCCAG 60.811 66.667 0.00 0.00 0.00 3.86
870 959 2.669569 GCCGAACAGCTCCAGCAA 60.670 61.111 0.48 0.00 45.16 3.91
871 960 2.260869 GCCGAACAGCTCCAGCAAA 61.261 57.895 0.48 0.00 45.16 3.68
872 961 1.795170 GCCGAACAGCTCCAGCAAAA 61.795 55.000 0.48 0.00 45.16 2.44
873 962 0.239347 CCGAACAGCTCCAGCAAAAG 59.761 55.000 0.48 0.00 45.16 2.27
874 963 0.386478 CGAACAGCTCCAGCAAAAGC 60.386 55.000 0.48 0.00 45.16 3.51
877 966 4.916358 AGCTCCAGCAAAAGCTGT 57.084 50.000 15.42 0.00 46.78 4.40
879 968 1.818642 AGCTCCAGCAAAAGCTGTAG 58.181 50.000 15.42 10.67 46.78 2.74
880 969 0.169894 GCTCCAGCAAAAGCTGTAGC 59.830 55.000 17.07 17.07 41.19 3.58
881 970 3.444598 GCTCCAGCAAAAGCTGTAGCG 62.445 57.143 17.07 2.82 39.30 4.26
894 983 4.868581 GCTGTAGCGCTAAAAGTTTTTG 57.131 40.909 20.73 5.79 0.00 2.44
895 984 3.119628 GCTGTAGCGCTAAAAGTTTTTGC 59.880 43.478 20.73 20.45 0.00 3.68
896 985 3.634283 TGTAGCGCTAAAAGTTTTTGCC 58.366 40.909 20.73 17.18 0.00 4.52
897 986 1.766069 AGCGCTAAAAGTTTTTGCCG 58.234 45.000 23.09 19.18 0.00 5.69
898 987 0.781787 GCGCTAAAAGTTTTTGCCGG 59.218 50.000 23.09 14.26 0.00 6.13
899 988 0.781787 CGCTAAAAGTTTTTGCCGGC 59.218 50.000 22.73 22.73 0.00 6.13
900 989 1.859383 GCTAAAAGTTTTTGCCGGCA 58.141 45.000 29.03 29.03 0.00 5.69
901 990 1.792367 GCTAAAAGTTTTTGCCGGCAG 59.208 47.619 30.75 14.93 0.00 4.85
902 991 2.544903 GCTAAAAGTTTTTGCCGGCAGA 60.545 45.455 30.75 24.14 0.00 4.26
903 992 2.682155 AAAAGTTTTTGCCGGCAGAA 57.318 40.000 30.75 28.82 0.00 3.02
904 993 2.223537 AAAGTTTTTGCCGGCAGAAG 57.776 45.000 30.75 0.00 0.00 2.85
905 994 1.111277 AAGTTTTTGCCGGCAGAAGT 58.889 45.000 30.75 25.61 0.00 3.01
906 995 1.111277 AGTTTTTGCCGGCAGAAGTT 58.889 45.000 30.75 19.17 0.00 2.66
907 996 1.202405 AGTTTTTGCCGGCAGAAGTTG 60.202 47.619 30.75 0.00 0.00 3.16
908 997 0.820871 TTTTTGCCGGCAGAAGTTGT 59.179 45.000 30.75 0.00 0.00 3.32
909 998 1.681538 TTTTGCCGGCAGAAGTTGTA 58.318 45.000 30.75 9.52 0.00 2.41
910 999 1.904287 TTTGCCGGCAGAAGTTGTAT 58.096 45.000 30.75 0.00 0.00 2.29
911 1000 1.904287 TTGCCGGCAGAAGTTGTATT 58.096 45.000 30.75 0.00 0.00 1.89
912 1001 2.772077 TGCCGGCAGAAGTTGTATTA 57.228 45.000 29.03 0.00 0.00 0.98
913 1002 3.060736 TGCCGGCAGAAGTTGTATTAA 57.939 42.857 29.03 0.00 0.00 1.40
914 1003 3.413327 TGCCGGCAGAAGTTGTATTAAA 58.587 40.909 29.03 0.00 0.00 1.52
915 1004 3.821600 TGCCGGCAGAAGTTGTATTAAAA 59.178 39.130 29.03 0.00 0.00 1.52
916 1005 4.461081 TGCCGGCAGAAGTTGTATTAAAAT 59.539 37.500 29.03 0.00 0.00 1.82
917 1006 4.798387 GCCGGCAGAAGTTGTATTAAAATG 59.202 41.667 24.80 0.00 0.00 2.32
918 1007 5.392595 GCCGGCAGAAGTTGTATTAAAATGA 60.393 40.000 24.80 0.00 0.00 2.57
919 1008 6.258160 CCGGCAGAAGTTGTATTAAAATGAG 58.742 40.000 0.00 0.00 0.00 2.90
920 1009 5.739161 CGGCAGAAGTTGTATTAAAATGAGC 59.261 40.000 0.00 0.00 0.00 4.26
921 1010 6.403636 CGGCAGAAGTTGTATTAAAATGAGCT 60.404 38.462 0.00 0.00 0.00 4.09
922 1011 7.201609 CGGCAGAAGTTGTATTAAAATGAGCTA 60.202 37.037 0.00 0.00 0.00 3.32
923 1012 8.125448 GGCAGAAGTTGTATTAAAATGAGCTAG 58.875 37.037 0.00 0.00 0.00 3.42
924 1013 8.883731 GCAGAAGTTGTATTAAAATGAGCTAGA 58.116 33.333 0.00 0.00 0.00 2.43
954 1043 9.080097 ACCATAATGTTACTACTGAGAGATACC 57.920 37.037 0.00 0.00 0.00 2.73
955 1044 9.303116 CCATAATGTTACTACTGAGAGATACCT 57.697 37.037 0.00 0.00 0.00 3.08
958 1047 8.694581 AATGTTACTACTGAGAGATACCTACC 57.305 38.462 0.00 0.00 0.00 3.18
959 1048 7.448915 TGTTACTACTGAGAGATACCTACCT 57.551 40.000 0.00 0.00 0.00 3.08
960 1049 7.507829 TGTTACTACTGAGAGATACCTACCTC 58.492 42.308 0.00 0.00 0.00 3.85
961 1050 7.347748 TGTTACTACTGAGAGATACCTACCTCT 59.652 40.741 0.00 0.00 42.01 3.69
962 1051 6.835029 ACTACTGAGAGATACCTACCTCTT 57.165 41.667 0.00 0.00 39.64 2.85
963 1052 7.215743 ACTACTGAGAGATACCTACCTCTTT 57.784 40.000 0.00 0.00 39.64 2.52
964 1053 8.334522 ACTACTGAGAGATACCTACCTCTTTA 57.665 38.462 0.00 0.00 39.64 1.85
965 1054 8.780003 ACTACTGAGAGATACCTACCTCTTTAA 58.220 37.037 0.00 0.00 39.64 1.52
966 1055 9.629878 CTACTGAGAGATACCTACCTCTTTAAA 57.370 37.037 0.00 0.00 39.64 1.52
967 1056 8.528044 ACTGAGAGATACCTACCTCTTTAAAG 57.472 38.462 9.04 9.04 39.64 1.85
968 1057 7.068962 ACTGAGAGATACCTACCTCTTTAAAGC 59.931 40.741 10.51 0.00 39.64 3.51
969 1058 6.895756 TGAGAGATACCTACCTCTTTAAAGCA 59.104 38.462 10.51 0.00 39.64 3.91
970 1059 7.068839 TGAGAGATACCTACCTCTTTAAAGCAG 59.931 40.741 10.51 8.62 39.64 4.24
971 1060 5.919755 AGATACCTACCTCTTTAAAGCAGC 58.080 41.667 10.51 0.00 0.00 5.25
972 1061 5.663556 AGATACCTACCTCTTTAAAGCAGCT 59.336 40.000 10.51 0.00 0.00 4.24
973 1062 4.642466 ACCTACCTCTTTAAAGCAGCTT 57.358 40.909 10.51 0.21 0.00 3.74
974 1063 4.580868 ACCTACCTCTTTAAAGCAGCTTC 58.419 43.478 8.48 0.00 0.00 3.86
975 1064 4.287326 ACCTACCTCTTTAAAGCAGCTTCT 59.713 41.667 8.48 1.66 0.00 2.85
976 1065 4.873259 CCTACCTCTTTAAAGCAGCTTCTC 59.127 45.833 8.48 0.00 0.00 2.87
1025 1114 1.068472 ACGTCGAGGTACTGCAGAAAG 60.068 52.381 23.35 5.43 41.55 2.62
1028 1117 3.650139 GTCGAGGTACTGCAGAAAGAAA 58.350 45.455 23.35 0.00 41.55 2.52
1340 1429 1.674322 CATCCCAAAAGCGTCCGGT 60.674 57.895 0.00 0.00 0.00 5.28
1550 1639 6.107901 AGAATCAATAGAAGGAGAATCGGG 57.892 41.667 0.00 0.00 34.37 5.14
1597 1686 9.554395 ACAAAAAGGAAAAGAAAGAGAAAACAA 57.446 25.926 0.00 0.00 0.00 2.83
1833 1922 9.582431 TCGACTCTACGAGAATTTTTATGAAAT 57.418 29.630 0.00 0.00 37.37 2.17
1932 2021 6.547510 TCTTCTGATCGATTCAACCTCTGATA 59.452 38.462 0.00 0.00 32.78 2.15
2331 2420 9.950496 AGGCTACTATGAAATATTTACTCATGG 57.050 33.333 10.20 9.73 35.03 3.66
2332 2421 9.167311 GGCTACTATGAAATATTTACTCATGGG 57.833 37.037 13.42 0.00 33.65 4.00
2333 2422 9.726438 GCTACTATGAAATATTTACTCATGGGT 57.274 33.333 2.45 2.45 33.65 4.51
2396 2485 2.912956 GGCTATATGGTTCATCTGGGGA 59.087 50.000 0.00 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 0.096454 GCCAAGCGACCGAATGTTAC 59.904 55.000 0.00 0.00 0.00 2.50
37 38 2.623878 TCACCACGAAAAGTAAGCCA 57.376 45.000 0.00 0.00 0.00 4.75
46 47 7.346695 CGTCTTAACTTTTTATCACCACGAAA 58.653 34.615 0.00 0.00 0.00 3.46
53 54 5.702209 TGACCCCGTCTTAACTTTTTATCAC 59.298 40.000 0.00 0.00 33.15 3.06
67 71 4.514401 GAGTAAATGAATTGACCCCGTCT 58.486 43.478 0.00 0.00 33.15 4.18
147 166 0.942962 CGGATACTACGAAGCGAGGT 59.057 55.000 0.00 0.00 0.00 3.85
148 167 0.385723 GCGGATACTACGAAGCGAGG 60.386 60.000 0.00 0.00 0.00 4.63
154 173 1.727511 CCGGTGGCGGATACTACGAA 61.728 60.000 0.00 0.00 0.00 3.85
159 178 1.684734 ACTTCCGGTGGCGGATACT 60.685 57.895 0.00 0.00 37.93 2.12
177 196 1.796253 GCATGGATCGTTCGTCGTACA 60.796 52.381 2.86 0.00 40.80 2.90
200 219 2.037902 TGTACGGCTGAATTTCTGTGGA 59.962 45.455 0.00 0.00 0.00 4.02
210 229 2.601314 CGATTTCGATTGTACGGCTGAA 59.399 45.455 0.00 0.00 43.02 3.02
215 234 4.328667 GGAAAACGATTTCGATTGTACGG 58.671 43.478 11.44 0.00 44.83 4.02
216 235 4.328667 GGGAAAACGATTTCGATTGTACG 58.671 43.478 11.44 0.00 44.83 3.67
217 236 4.328667 CGGGAAAACGATTTCGATTGTAC 58.671 43.478 11.44 0.00 44.83 2.90
218 237 3.371591 CCGGGAAAACGATTTCGATTGTA 59.628 43.478 11.44 0.00 44.83 2.41
219 238 2.160813 CCGGGAAAACGATTTCGATTGT 59.839 45.455 11.44 0.00 44.83 2.71
220 239 2.780993 CCGGGAAAACGATTTCGATTG 58.219 47.619 11.44 2.36 44.83 2.67
222 241 0.730840 GCCGGGAAAACGATTTCGAT 59.269 50.000 11.44 0.00 44.83 3.59
223 242 1.300266 GGCCGGGAAAACGATTTCGA 61.300 55.000 11.44 0.00 44.83 3.71
225 244 1.135939 CGGCCGGGAAAACGATTTC 59.864 57.895 20.10 9.49 43.46 2.17
240 259 3.908081 CATCAAGCATGGGCCGGC 61.908 66.667 21.18 21.18 42.56 6.13
241 260 3.908081 GCATCAAGCATGGGCCGG 61.908 66.667 0.00 0.00 44.79 6.13
250 269 0.749454 CAGGGTGGGTAGCATCAAGC 60.749 60.000 0.00 0.00 46.19 4.01
251 270 0.620556 ACAGGGTGGGTAGCATCAAG 59.379 55.000 0.00 0.00 0.00 3.02
252 271 0.618458 GACAGGGTGGGTAGCATCAA 59.382 55.000 0.00 0.00 0.00 2.57
253 272 1.271840 GGACAGGGTGGGTAGCATCA 61.272 60.000 0.00 0.00 0.00 3.07
254 273 1.527370 GGACAGGGTGGGTAGCATC 59.473 63.158 0.00 0.00 0.00 3.91
255 274 2.001269 GGGACAGGGTGGGTAGCAT 61.001 63.158 0.00 0.00 0.00 3.79
256 275 2.609610 GGGACAGGGTGGGTAGCA 60.610 66.667 0.00 0.00 0.00 3.49
257 276 3.782443 CGGGACAGGGTGGGTAGC 61.782 72.222 0.00 0.00 0.00 3.58
258 277 2.284405 ACGGGACAGGGTGGGTAG 60.284 66.667 0.00 0.00 0.00 3.18
303 337 6.329496 GTCAGTTTTTGATTGTTTCACCAGA 58.671 36.000 0.00 0.00 38.29 3.86
305 339 5.098893 CGTCAGTTTTTGATTGTTTCACCA 58.901 37.500 0.00 0.00 38.29 4.17
316 350 0.464870 TCGGGACCGTCAGTTTTTGA 59.535 50.000 10.90 0.00 40.74 2.69
408 442 5.523188 CACTGCATGTGTAAACCATGTTTTT 59.477 36.000 0.00 0.00 41.38 1.94
409 443 5.049167 CACTGCATGTGTAAACCATGTTTT 58.951 37.500 7.80 0.00 41.38 2.43
410 444 4.619973 CACTGCATGTGTAAACCATGTTT 58.380 39.130 7.80 0.00 41.38 2.83
411 445 4.241590 CACTGCATGTGTAAACCATGTT 57.758 40.909 7.80 0.00 41.38 2.71
412 446 3.921119 CACTGCATGTGTAAACCATGT 57.079 42.857 7.80 0.00 41.38 3.21
413 447 3.552478 TTGCACTGCATGTGTAAACCATG 60.552 43.478 4.10 0.00 45.67 3.66
414 448 2.627221 TTGCACTGCATGTGTAAACCAT 59.373 40.909 4.10 0.00 45.67 3.55
415 449 2.027385 TTGCACTGCATGTGTAAACCA 58.973 42.857 4.10 4.35 45.67 3.67
416 450 2.791383 TTGCACTGCATGTGTAAACC 57.209 45.000 4.10 2.36 45.67 3.27
430 464 2.675348 GGCTACAGTGAAGAGATTGCAC 59.325 50.000 0.00 0.00 0.00 4.57
442 476 1.269166 GTCGACGATTGGCTACAGTG 58.731 55.000 0.00 0.00 0.00 3.66
458 492 2.588877 GCCATGGACCCATCGTCG 60.589 66.667 18.40 0.00 42.99 5.12
461 495 2.903855 GCTGCCATGGACCCATCG 60.904 66.667 18.40 0.00 33.90 3.84
462 496 2.123428 GTGCTGCCATGGACCCATC 61.123 63.158 18.40 0.00 33.90 3.51
463 497 2.043652 GTGCTGCCATGGACCCAT 60.044 61.111 18.40 0.00 37.08 4.00
464 498 1.569943 TATGTGCTGCCATGGACCCA 61.570 55.000 18.40 5.15 0.00 4.51
465 499 0.178981 ATATGTGCTGCCATGGACCC 60.179 55.000 18.40 2.15 0.00 4.46
466 500 1.338973 CAATATGTGCTGCCATGGACC 59.661 52.381 18.40 2.55 0.00 4.46
467 501 2.300433 TCAATATGTGCTGCCATGGAC 58.700 47.619 18.40 7.64 0.00 4.02
468 502 2.732844 TCAATATGTGCTGCCATGGA 57.267 45.000 18.40 0.00 0.00 3.41
477 511 6.480651 TCATTTTTGGCATGATCAATATGTGC 59.519 34.615 9.31 9.31 35.17 4.57
481 515 6.743208 GCCCTCATTTTTGGCATGATCAATAT 60.743 38.462 0.00 0.00 44.70 1.28
485 519 2.168936 GCCCTCATTTTTGGCATGATCA 59.831 45.455 0.00 0.00 44.70 2.92
511 545 1.067516 GTCGCATGCAAGGCCAATTAT 59.932 47.619 19.57 0.00 43.34 1.28
578 612 2.389866 GATAGCACGACGACGGGGAG 62.390 65.000 12.14 0.00 43.78 4.30
591 625 2.875296 AGCCAACCTTGTTTGATAGCA 58.125 42.857 0.00 0.00 0.00 3.49
596 685 2.687935 GACTGAAGCCAACCTTGTTTGA 59.312 45.455 0.00 0.00 32.78 2.69
614 703 3.524606 CCATACGGGACCGCGACT 61.525 66.667 8.23 0.00 44.19 4.18
628 717 2.332654 GGTTTCGCGCCTCAACCAT 61.333 57.895 19.98 0.00 39.93 3.55
658 747 1.126846 CTTTCGATTCTGCTTTCGCGT 59.873 47.619 5.77 0.00 39.65 6.01
671 760 4.142534 CCAACATGTGAATCTGCTTTCGAT 60.143 41.667 0.00 0.00 0.00 3.59
672 761 3.189080 CCAACATGTGAATCTGCTTTCGA 59.811 43.478 0.00 0.00 0.00 3.71
673 762 3.058016 ACCAACATGTGAATCTGCTTTCG 60.058 43.478 0.00 0.00 0.00 3.46
674 763 4.232221 CACCAACATGTGAATCTGCTTTC 58.768 43.478 0.00 0.00 38.55 2.62
675 764 3.553508 GCACCAACATGTGAATCTGCTTT 60.554 43.478 0.00 0.00 38.55 3.51
676 765 2.029649 GCACCAACATGTGAATCTGCTT 60.030 45.455 0.00 0.00 38.55 3.91
677 766 1.542915 GCACCAACATGTGAATCTGCT 59.457 47.619 0.00 0.00 38.55 4.24
678 767 1.270274 TGCACCAACATGTGAATCTGC 59.730 47.619 0.00 3.28 38.55 4.26
679 768 2.666344 CGTGCACCAACATGTGAATCTG 60.666 50.000 12.15 0.00 38.55 2.90
680 769 1.536766 CGTGCACCAACATGTGAATCT 59.463 47.619 12.15 0.00 38.55 2.40
681 770 1.266718 ACGTGCACCAACATGTGAATC 59.733 47.619 12.15 0.00 38.35 2.52
682 771 1.317613 ACGTGCACCAACATGTGAAT 58.682 45.000 12.15 0.00 38.35 2.57
697 786 4.383602 CGGGCCAGCGAAAACGTG 62.384 66.667 4.39 0.00 0.00 4.49
742 831 6.413818 CACGTTTATATTTCCCATTTCGCTTC 59.586 38.462 0.00 0.00 0.00 3.86
765 854 4.604976 AGCAAGACCGAACGTATATACAC 58.395 43.478 13.22 3.27 0.00 2.90
766 855 4.906065 AGCAAGACCGAACGTATATACA 57.094 40.909 13.22 0.00 0.00 2.29
767 856 7.806960 AGAATTAGCAAGACCGAACGTATATAC 59.193 37.037 2.53 2.53 0.00 1.47
768 857 7.879070 AGAATTAGCAAGACCGAACGTATATA 58.121 34.615 0.00 0.00 0.00 0.86
769 858 6.746120 AGAATTAGCAAGACCGAACGTATAT 58.254 36.000 0.00 0.00 0.00 0.86
770 859 6.140303 AGAATTAGCAAGACCGAACGTATA 57.860 37.500 0.00 0.00 0.00 1.47
771 860 5.007385 AGAATTAGCAAGACCGAACGTAT 57.993 39.130 0.00 0.00 0.00 3.06
772 861 4.445452 AGAATTAGCAAGACCGAACGTA 57.555 40.909 0.00 0.00 0.00 3.57
773 862 3.314541 AGAATTAGCAAGACCGAACGT 57.685 42.857 0.00 0.00 0.00 3.99
774 863 5.100259 TCTTAGAATTAGCAAGACCGAACG 58.900 41.667 0.00 0.00 0.00 3.95
775 864 5.005875 GCTCTTAGAATTAGCAAGACCGAAC 59.994 44.000 0.00 0.00 36.26 3.95
776 865 5.109903 GCTCTTAGAATTAGCAAGACCGAA 58.890 41.667 0.00 0.00 36.26 4.30
777 866 4.159693 TGCTCTTAGAATTAGCAAGACCGA 59.840 41.667 0.00 0.00 42.96 4.69
778 867 4.433615 TGCTCTTAGAATTAGCAAGACCG 58.566 43.478 0.00 0.00 42.96 4.79
785 874 8.310382 TCTATTGGAGATGCTCTTAGAATTAGC 58.690 37.037 0.00 0.00 36.77 3.09
786 875 9.638239 GTCTATTGGAGATGCTCTTAGAATTAG 57.362 37.037 0.00 0.00 36.29 1.73
787 876 9.147732 TGTCTATTGGAGATGCTCTTAGAATTA 57.852 33.333 0.00 0.00 36.29 1.40
788 877 7.930865 GTGTCTATTGGAGATGCTCTTAGAATT 59.069 37.037 0.00 0.00 36.29 2.17
789 878 7.441017 GTGTCTATTGGAGATGCTCTTAGAAT 58.559 38.462 0.00 0.00 36.29 2.40
790 879 6.183360 GGTGTCTATTGGAGATGCTCTTAGAA 60.183 42.308 0.00 0.00 36.29 2.10
791 880 5.303078 GGTGTCTATTGGAGATGCTCTTAGA 59.697 44.000 0.00 0.00 36.29 2.10
792 881 5.069648 TGGTGTCTATTGGAGATGCTCTTAG 59.930 44.000 0.00 0.00 36.29 2.18
793 882 4.962362 TGGTGTCTATTGGAGATGCTCTTA 59.038 41.667 0.00 0.00 36.29 2.10
794 883 3.776969 TGGTGTCTATTGGAGATGCTCTT 59.223 43.478 0.00 0.00 36.29 2.85
795 884 3.378512 TGGTGTCTATTGGAGATGCTCT 58.621 45.455 0.00 0.00 36.29 4.09
796 885 3.827008 TGGTGTCTATTGGAGATGCTC 57.173 47.619 0.00 0.00 36.29 4.26
797 886 4.574674 TTTGGTGTCTATTGGAGATGCT 57.425 40.909 0.00 0.00 36.29 3.79
798 887 5.415701 TCTTTTTGGTGTCTATTGGAGATGC 59.584 40.000 0.00 0.00 36.29 3.91
799 888 6.127897 GGTCTTTTTGGTGTCTATTGGAGATG 60.128 42.308 0.00 0.00 36.29 2.90
800 889 5.946377 GGTCTTTTTGGTGTCTATTGGAGAT 59.054 40.000 0.00 0.00 36.29 2.75
801 890 5.073144 AGGTCTTTTTGGTGTCTATTGGAGA 59.927 40.000 0.00 0.00 0.00 3.71
802 891 5.316987 AGGTCTTTTTGGTGTCTATTGGAG 58.683 41.667 0.00 0.00 0.00 3.86
803 892 5.313712 GAGGTCTTTTTGGTGTCTATTGGA 58.686 41.667 0.00 0.00 0.00 3.53
804 893 4.459337 GGAGGTCTTTTTGGTGTCTATTGG 59.541 45.833 0.00 0.00 0.00 3.16
805 894 4.154195 CGGAGGTCTTTTTGGTGTCTATTG 59.846 45.833 0.00 0.00 0.00 1.90
806 895 4.324267 CGGAGGTCTTTTTGGTGTCTATT 58.676 43.478 0.00 0.00 0.00 1.73
807 896 3.868754 GCGGAGGTCTTTTTGGTGTCTAT 60.869 47.826 0.00 0.00 0.00 1.98
808 897 2.549349 GCGGAGGTCTTTTTGGTGTCTA 60.549 50.000 0.00 0.00 0.00 2.59
809 898 1.814248 GCGGAGGTCTTTTTGGTGTCT 60.814 52.381 0.00 0.00 0.00 3.41
810 899 0.591659 GCGGAGGTCTTTTTGGTGTC 59.408 55.000 0.00 0.00 0.00 3.67
811 900 1.164041 CGCGGAGGTCTTTTTGGTGT 61.164 55.000 0.00 0.00 0.00 4.16
812 901 1.574428 CGCGGAGGTCTTTTTGGTG 59.426 57.895 0.00 0.00 0.00 4.17
813 902 2.258726 GCGCGGAGGTCTTTTTGGT 61.259 57.895 8.83 0.00 0.00 3.67
814 903 2.258013 TGCGCGGAGGTCTTTTTGG 61.258 57.895 8.83 0.00 0.00 3.28
815 904 1.082104 GTGCGCGGAGGTCTTTTTG 60.082 57.895 8.83 0.00 0.00 2.44
816 905 0.034337 TAGTGCGCGGAGGTCTTTTT 59.966 50.000 8.83 0.00 0.00 1.94
817 906 0.034337 TTAGTGCGCGGAGGTCTTTT 59.966 50.000 8.83 0.00 0.00 2.27
818 907 0.034337 TTTAGTGCGCGGAGGTCTTT 59.966 50.000 8.83 0.00 0.00 2.52
819 908 0.034337 TTTTAGTGCGCGGAGGTCTT 59.966 50.000 8.83 0.00 0.00 3.01
820 909 0.389948 CTTTTAGTGCGCGGAGGTCT 60.390 55.000 8.83 0.38 0.00 3.85
821 910 0.669625 ACTTTTAGTGCGCGGAGGTC 60.670 55.000 8.83 0.00 0.00 3.85
822 911 0.250166 AACTTTTAGTGCGCGGAGGT 60.250 50.000 8.83 0.00 0.00 3.85
823 912 0.872388 AAACTTTTAGTGCGCGGAGG 59.128 50.000 8.83 0.00 0.00 4.30
824 913 1.263217 ACAAACTTTTAGTGCGCGGAG 59.737 47.619 8.83 0.00 0.00 4.63
825 914 1.301423 ACAAACTTTTAGTGCGCGGA 58.699 45.000 8.83 0.00 0.00 5.54
826 915 2.113910 AACAAACTTTTAGTGCGCGG 57.886 45.000 8.83 0.00 0.00 6.46
827 916 4.493074 AAAAACAAACTTTTAGTGCGCG 57.507 36.364 0.00 0.00 0.00 6.86
845 934 0.306533 GAGCTGTTCGGCGTCAAAAA 59.693 50.000 6.85 0.00 37.29 1.94
846 935 1.503818 GGAGCTGTTCGGCGTCAAAA 61.504 55.000 6.85 0.00 37.29 2.44
847 936 1.959226 GGAGCTGTTCGGCGTCAAA 60.959 57.895 6.85 0.00 37.29 2.69
848 937 2.357034 GGAGCTGTTCGGCGTCAA 60.357 61.111 6.85 0.00 37.29 3.18
849 938 3.573772 CTGGAGCTGTTCGGCGTCA 62.574 63.158 6.85 7.07 37.29 4.35
850 939 2.811317 CTGGAGCTGTTCGGCGTC 60.811 66.667 6.85 2.07 37.29 5.19
853 942 1.795170 TTTTGCTGGAGCTGTTCGGC 61.795 55.000 0.00 0.00 42.66 5.54
854 943 0.239347 CTTTTGCTGGAGCTGTTCGG 59.761 55.000 0.00 0.00 42.66 4.30
855 944 0.386478 GCTTTTGCTGGAGCTGTTCG 60.386 55.000 0.00 0.00 43.35 3.95
856 945 3.486285 GCTTTTGCTGGAGCTGTTC 57.514 52.632 0.00 0.00 43.35 3.18
867 956 2.611974 TTTAGCGCTACAGCTTTTGC 57.388 45.000 18.63 0.00 46.80 3.68
868 957 4.147219 ACTTTTAGCGCTACAGCTTTTG 57.853 40.909 18.63 4.43 46.80 2.44
869 958 4.830826 AACTTTTAGCGCTACAGCTTTT 57.169 36.364 18.63 4.21 46.80 2.27
870 959 4.830826 AAACTTTTAGCGCTACAGCTTT 57.169 36.364 18.63 14.51 46.80 3.51
871 960 4.830826 AAAACTTTTAGCGCTACAGCTT 57.169 36.364 18.63 10.81 46.80 3.74
873 962 3.119628 GCAAAAACTTTTAGCGCTACAGC 59.880 43.478 18.63 4.77 37.78 4.40
874 963 3.668656 GGCAAAAACTTTTAGCGCTACAG 59.331 43.478 18.63 18.01 0.00 2.74
875 964 3.634283 GGCAAAAACTTTTAGCGCTACA 58.366 40.909 18.63 8.18 0.00 2.74
876 965 2.655001 CGGCAAAAACTTTTAGCGCTAC 59.345 45.455 18.63 0.84 0.00 3.58
877 966 2.350964 CCGGCAAAAACTTTTAGCGCTA 60.351 45.455 14.45 14.45 0.00 4.26
878 967 1.601914 CCGGCAAAAACTTTTAGCGCT 60.602 47.619 17.26 17.26 0.00 5.92
879 968 0.781787 CCGGCAAAAACTTTTAGCGC 59.218 50.000 0.00 0.00 0.00 5.92
880 969 0.781787 GCCGGCAAAAACTTTTAGCG 59.218 50.000 24.80 0.00 0.00 4.26
881 970 1.792367 CTGCCGGCAAAAACTTTTAGC 59.208 47.619 32.09 0.00 0.00 3.09
882 971 3.363341 TCTGCCGGCAAAAACTTTTAG 57.637 42.857 32.09 14.71 0.00 1.85
883 972 3.131400 ACTTCTGCCGGCAAAAACTTTTA 59.869 39.130 32.09 2.57 0.00 1.52
884 973 2.093711 ACTTCTGCCGGCAAAAACTTTT 60.094 40.909 32.09 6.40 0.00 2.27
885 974 1.480545 ACTTCTGCCGGCAAAAACTTT 59.519 42.857 32.09 8.16 0.00 2.66
886 975 1.111277 ACTTCTGCCGGCAAAAACTT 58.889 45.000 32.09 7.90 0.00 2.66
887 976 1.111277 AACTTCTGCCGGCAAAAACT 58.889 45.000 32.09 10.53 0.00 2.66
888 977 1.208259 CAACTTCTGCCGGCAAAAAC 58.792 50.000 32.09 0.00 0.00 2.43
889 978 0.820871 ACAACTTCTGCCGGCAAAAA 59.179 45.000 32.09 24.79 0.00 1.94
890 979 1.681538 TACAACTTCTGCCGGCAAAA 58.318 45.000 32.09 24.00 0.00 2.44
891 980 1.904287 ATACAACTTCTGCCGGCAAA 58.096 45.000 32.09 24.01 0.00 3.68
892 981 1.904287 AATACAACTTCTGCCGGCAA 58.096 45.000 32.09 16.39 0.00 4.52
893 982 2.772077 TAATACAACTTCTGCCGGCA 57.228 45.000 30.59 30.59 0.00 5.69
894 983 4.428615 TTTTAATACAACTTCTGCCGGC 57.571 40.909 22.73 22.73 0.00 6.13
895 984 6.189677 TCATTTTAATACAACTTCTGCCGG 57.810 37.500 0.00 0.00 0.00 6.13
896 985 5.739161 GCTCATTTTAATACAACTTCTGCCG 59.261 40.000 0.00 0.00 0.00 5.69
897 986 6.856895 AGCTCATTTTAATACAACTTCTGCC 58.143 36.000 0.00 0.00 0.00 4.85
898 987 8.883731 TCTAGCTCATTTTAATACAACTTCTGC 58.116 33.333 0.00 0.00 0.00 4.26
928 1017 9.080097 GGTATCTCTCAGTAGTAACATTATGGT 57.920 37.037 0.00 0.00 0.00 3.55
929 1018 9.303116 AGGTATCTCTCAGTAGTAACATTATGG 57.697 37.037 0.00 0.00 0.00 2.74
932 1021 9.790344 GGTAGGTATCTCTCAGTAGTAACATTA 57.210 37.037 0.00 0.00 0.00 1.90
933 1022 8.504409 AGGTAGGTATCTCTCAGTAGTAACATT 58.496 37.037 0.00 0.00 0.00 2.71
934 1023 8.048016 AGGTAGGTATCTCTCAGTAGTAACAT 57.952 38.462 0.00 0.00 0.00 2.71
935 1024 7.347748 AGAGGTAGGTATCTCTCAGTAGTAACA 59.652 40.741 0.00 0.00 39.52 2.41
936 1025 7.738847 AGAGGTAGGTATCTCTCAGTAGTAAC 58.261 42.308 0.00 0.00 39.52 2.50
937 1026 7.934354 AGAGGTAGGTATCTCTCAGTAGTAA 57.066 40.000 0.00 0.00 39.52 2.24
938 1027 7.934354 AAGAGGTAGGTATCTCTCAGTAGTA 57.066 40.000 0.14 0.00 42.73 1.82
939 1028 6.835029 AAGAGGTAGGTATCTCTCAGTAGT 57.165 41.667 0.14 0.00 42.73 2.73
940 1029 9.629878 TTTAAAGAGGTAGGTATCTCTCAGTAG 57.370 37.037 0.14 0.00 42.73 2.57
941 1030 9.629878 CTTTAAAGAGGTAGGTATCTCTCAGTA 57.370 37.037 9.77 0.00 42.73 2.74
942 1031 7.068962 GCTTTAAAGAGGTAGGTATCTCTCAGT 59.931 40.741 19.48 0.00 42.73 3.41
943 1032 7.068839 TGCTTTAAAGAGGTAGGTATCTCTCAG 59.931 40.741 19.48 0.00 42.73 3.35
944 1033 6.895756 TGCTTTAAAGAGGTAGGTATCTCTCA 59.104 38.462 19.48 0.00 42.73 3.27
945 1034 7.349412 TGCTTTAAAGAGGTAGGTATCTCTC 57.651 40.000 19.48 0.00 42.73 3.20
946 1035 6.183360 GCTGCTTTAAAGAGGTAGGTATCTCT 60.183 42.308 19.48 0.00 45.35 3.10
947 1036 5.986741 GCTGCTTTAAAGAGGTAGGTATCTC 59.013 44.000 19.48 0.00 33.61 2.75
948 1037 5.663556 AGCTGCTTTAAAGAGGTAGGTATCT 59.336 40.000 19.48 1.74 0.00 1.98
949 1038 5.919755 AGCTGCTTTAAAGAGGTAGGTATC 58.080 41.667 19.48 0.00 0.00 2.24
950 1039 5.959583 AGCTGCTTTAAAGAGGTAGGTAT 57.040 39.130 19.48 0.00 0.00 2.73
951 1040 5.484290 AGAAGCTGCTTTAAAGAGGTAGGTA 59.516 40.000 19.48 0.00 0.00 3.08
952 1041 4.287326 AGAAGCTGCTTTAAAGAGGTAGGT 59.713 41.667 19.48 12.31 0.00 3.08
953 1042 4.837972 AGAAGCTGCTTTAAAGAGGTAGG 58.162 43.478 19.48 2.96 0.00 3.18
954 1043 5.482908 TGAGAAGCTGCTTTAAAGAGGTAG 58.517 41.667 19.48 11.09 0.00 3.18
955 1044 5.483685 TGAGAAGCTGCTTTAAAGAGGTA 57.516 39.130 19.48 1.13 0.00 3.08
956 1045 4.357918 TGAGAAGCTGCTTTAAAGAGGT 57.642 40.909 19.48 14.55 0.00 3.85
957 1046 5.647225 AGAATGAGAAGCTGCTTTAAAGAGG 59.353 40.000 19.48 10.80 0.00 3.69
958 1047 6.740411 AGAATGAGAAGCTGCTTTAAAGAG 57.260 37.500 19.48 13.36 0.00 2.85
959 1048 6.712095 TCAAGAATGAGAAGCTGCTTTAAAGA 59.288 34.615 19.48 3.58 0.00 2.52
960 1049 6.906659 TCAAGAATGAGAAGCTGCTTTAAAG 58.093 36.000 17.10 11.02 0.00 1.85
961 1050 6.882610 TCAAGAATGAGAAGCTGCTTTAAA 57.117 33.333 17.10 5.38 0.00 1.52
962 1051 6.294176 GGTTCAAGAATGAGAAGCTGCTTTAA 60.294 38.462 17.10 5.75 38.74 1.52
963 1052 5.182001 GGTTCAAGAATGAGAAGCTGCTTTA 59.818 40.000 17.10 6.86 38.74 1.85
964 1053 4.022503 GGTTCAAGAATGAGAAGCTGCTTT 60.023 41.667 17.10 6.57 38.74 3.51
965 1054 3.505293 GGTTCAAGAATGAGAAGCTGCTT 59.495 43.478 15.92 15.92 38.74 3.91
966 1055 3.080319 GGTTCAAGAATGAGAAGCTGCT 58.920 45.455 0.00 0.00 38.74 4.24
967 1056 3.484334 GGTTCAAGAATGAGAAGCTGC 57.516 47.619 0.00 0.00 38.74 5.25
970 1059 5.471456 TGAAAGAGGTTCAAGAATGAGAAGC 59.529 40.000 0.00 0.00 43.43 3.86
1025 1114 7.662604 ATTGGATCAGATTTTGCAGTTTTTC 57.337 32.000 0.00 0.00 0.00 2.29
1028 1117 8.454570 AAAAATTGGATCAGATTTTGCAGTTT 57.545 26.923 15.01 0.87 36.06 2.66
1075 1164 5.579511 CGTCTTTCAGAATACGGTTAACCAT 59.420 40.000 24.14 12.32 33.33 3.55
1276 1365 5.489792 AGTGCTCTTCCTTGTTTAGATCA 57.510 39.130 0.00 0.00 0.00 2.92
1340 1429 9.921637 AACTTAATTTGAAAGCCATATTTCGAA 57.078 25.926 0.00 0.00 43.37 3.71
1550 1639 5.854157 TGTTTGTTTCGAGAAAGATATCGC 58.146 37.500 0.00 0.00 40.02 4.58
1597 1686 8.773033 AGGGCTAATTAGTTGATCATGATTTT 57.227 30.769 10.14 0.00 0.00 1.82
1739 1828 3.274288 GCATCCAATCTCCGAAAAGTCT 58.726 45.455 0.00 0.00 0.00 3.24
1833 1922 5.749596 TTGAAGAGAAGCAAATGAAACGA 57.250 34.783 0.00 0.00 0.00 3.85
2168 2257 4.527427 CCCCCTAGAGTAGCTGTTAATACC 59.473 50.000 0.00 0.00 0.00 2.73
2332 2421 3.513750 AAGAGCTTGCCCCACCCAC 62.514 63.158 0.00 0.00 0.00 4.61
2333 2422 3.185203 AAGAGCTTGCCCCACCCA 61.185 61.111 0.00 0.00 0.00 4.51
2396 2485 4.751767 ATTTCTTGAAGCTCGATCTCCT 57.248 40.909 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.