Multiple sequence alignment - TraesCS7A01G546200

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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 TraesCS7A01G546200 chr7A 100.000 2609 0 0 1 2609 721874819 721877427 0.000000e+00 4819.0
1 TraesCS7A01G546200 chr7A 87.226 274 30 4 717 986 254424245 254424517 9.070000e-80 307.0
2 TraesCS7A01G546200 chr7A 87.004 277 26 8 717 986 621822941 621822668 1.170000e-78 303.0
3 TraesCS7A01G546200 chr7A 82.670 352 33 12 1782 2109 721780725 721781072 1.180000e-73 287.0
4 TraesCS7A01G546200 chr7A 86.667 180 18 2 536 715 721779795 721779968 7.370000e-46 195.0
5 TraesCS7A01G546200 chr7A 89.720 107 4 3 8 114 721723260 721723359 2.110000e-26 130.0
6 TraesCS7A01G546200 chr7A 85.047 107 6 4 8 114 721776129 721776225 1.650000e-17 100.0
7 TraesCS7A01G546200 chrUn 82.145 1697 158 59 986 2602 87838453 87840084 0.000000e+00 1321.0
8 TraesCS7A01G546200 chrUn 88.104 269 30 2 719 986 343703066 343702799 4.190000e-83 318.0
9 TraesCS7A01G546200 chrUn 89.764 254 8 7 1 247 87860086 87860328 2.520000e-80 309.0
10 TraesCS7A01G546200 chrUn 89.764 254 8 7 1 247 322334466 322334708 2.520000e-80 309.0
11 TraesCS7A01G546200 chrUn 83.178 107 13 4 2139 2241 87877163 87877268 2.760000e-15 93.5
12 TraesCS7A01G546200 chrUn 98.113 53 1 0 56 108 295725665 295725717 2.760000e-15 93.5
13 TraesCS7A01G546200 chrUn 98.113 53 1 0 56 108 295741088 295741140 2.760000e-15 93.5
14 TraesCS7A01G546200 chrUn 98.113 53 1 0 56 108 330471832 330471884 2.760000e-15 93.5
15 TraesCS7A01G546200 chr7D 87.609 1146 96 27 1493 2609 626291377 626292505 0.000000e+00 1288.0
16 TraesCS7A01G546200 chr7D 85.390 616 53 16 986 1564 626260304 626260919 2.870000e-169 604.0
17 TraesCS7A01G546200 chr7D 78.939 603 75 25 1659 2229 626261131 626261713 1.910000e-96 363.0
18 TraesCS7A01G546200 chr7D 93.333 180 12 0 538 717 626260141 626260320 1.540000e-67 267.0
19 TraesCS7A01G546200 chr7D 75.705 638 92 42 986 1576 626299258 626299879 7.160000e-66 261.0
20 TraesCS7A01G546200 chr7D 97.414 116 3 0 1 116 626287692 626287807 5.700000e-47 198.0
21 TraesCS7A01G546200 chr7D 81.277 235 18 8 307 538 626288941 626289152 1.610000e-37 167.0
22 TraesCS7A01G546200 chr7D 84.524 168 18 3 285 448 626246701 626246864 2.690000e-35 159.0
23 TraesCS7A01G546200 chr7D 95.294 85 4 0 454 538 626259834 626259918 4.530000e-28 135.0
24 TraesCS7A01G546200 chr7D 86.486 111 5 7 177 280 626257877 626257984 2.120000e-21 113.0
25 TraesCS7A01G546200 chr7D 85.965 114 6 5 1 114 626282381 626282484 2.120000e-21 113.0
26 TraesCS7A01G546200 chr7D 92.537 67 5 0 48 114 626251537 626251603 2.140000e-16 97.1
27 TraesCS7A01G546200 chr7B 80.556 1188 126 30 986 2109 726010056 726011202 0.000000e+00 817.0
28 TraesCS7A01G546200 chr7B 82.123 179 24 5 538 715 726009899 726010070 2.090000e-31 147.0
29 TraesCS7A01G546200 chr7B 94.030 67 4 0 48 114 725825176 725825110 4.590000e-18 102.0
30 TraesCS7A01G546200 chr7B 83.962 106 5 4 9 114 726008188 726008281 9.940000e-15 91.6
31 TraesCS7A01G546200 chr7B 92.157 51 4 0 480 530 726009656 726009706 3.600000e-09 73.1
32 TraesCS7A01G546200 chr6D 88.971 272 27 3 717 986 17204439 17204169 1.500000e-87 333.0
33 TraesCS7A01G546200 chr6D 89.706 68 5 2 2255 2321 388131986 388132052 4.630000e-13 86.1
34 TraesCS7A01G546200 chr1A 88.848 269 27 3 719 986 11418241 11418507 6.960000e-86 327.0
35 TraesCS7A01G546200 chr4A 88.060 268 29 3 720 986 493780397 493780662 5.420000e-82 315.0
36 TraesCS7A01G546200 chr4A 86.909 275 29 6 717 986 19187187 19187459 4.220000e-78 302.0
37 TraesCS7A01G546200 chr3D 87.037 270 31 4 719 986 475661370 475661103 4.220000e-78 302.0
38 TraesCS7A01G546200 chr6A 84.783 276 34 7 717 986 598196223 598196496 1.190000e-68 270.0


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 TraesCS7A01G546200 chr7A 721874819 721877427 2608 False 4819.000 4819 100.000000 1 2609 1 chr7A.!!$F3 2608
1 TraesCS7A01G546200 chrUn 87838453 87840084 1631 False 1321.000 1321 82.145000 986 2602 1 chrUn.!!$F1 1616
2 TraesCS7A01G546200 chr7D 626287692 626292505 4813 False 551.000 1288 88.766667 1 2609 3 chr7D.!!$F6 2608
3 TraesCS7A01G546200 chr7D 626257877 626261713 3836 False 296.400 604 87.888400 177 2229 5 chr7D.!!$F5 2052
4 TraesCS7A01G546200 chr7D 626299258 626299879 621 False 261.000 261 75.705000 986 1576 1 chr7D.!!$F4 590
5 TraesCS7A01G546200 chr7B 726008188 726011202 3014 False 282.175 817 84.699500 9 2109 4 chr7B.!!$F1 2100

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
525 3733 0.178891 ACCACACACCTCCTCATCCT 60.179 55.0 0.0 0.0 0.0 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1738 7468 0.39113 TGTAGATGCAGCGGAACACC 60.391 55.0 0.0 0.0 0.0 4.16 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
87 88 5.790593 ACGTGTTGATGAGGTTATGTAGTT 58.209 37.500 0.00 0.00 0.00 2.24
118 119 8.190784 GGCTCCATTATTCCGGAATAATAAATG 58.809 37.037 41.62 34.80 46.51 2.32
141 918 4.584688 GCAACTCAATTGGCAGCC 57.415 55.556 3.66 3.66 38.88 4.85
149 929 2.421424 CTCAATTGGCAGCCACTAGAAC 59.579 50.000 15.89 0.00 30.78 3.01
162 942 4.865365 GCCACTAGAACACTGTTCATACTC 59.135 45.833 21.39 4.98 0.00 2.59
163 943 5.096169 CCACTAGAACACTGTTCATACTCG 58.904 45.833 21.39 6.82 0.00 4.18
164 944 5.106277 CCACTAGAACACTGTTCATACTCGA 60.106 44.000 21.39 0.00 0.00 4.04
165 945 6.024664 CACTAGAACACTGTTCATACTCGAG 58.975 44.000 21.39 11.84 0.00 4.04
168 948 1.204941 ACACTGTTCATACTCGAGCCC 59.795 52.381 13.61 0.00 0.00 5.19
169 949 1.204704 CACTGTTCATACTCGAGCCCA 59.795 52.381 13.61 0.00 0.00 5.36
170 950 1.204941 ACTGTTCATACTCGAGCCCAC 59.795 52.381 13.61 3.16 0.00 4.61
171 951 0.535335 TGTTCATACTCGAGCCCACC 59.465 55.000 13.61 0.00 0.00 4.61
172 952 0.535335 GTTCATACTCGAGCCCACCA 59.465 55.000 13.61 0.00 0.00 4.17
175 955 1.305802 ATACTCGAGCCCACCACCA 60.306 57.895 13.61 0.00 0.00 4.17
222 1019 2.147387 AGGCCCCTCTCGTTTGTGT 61.147 57.895 0.00 0.00 0.00 3.72
266 1067 2.742053 TCGCCTGTGAATTTAGCTTGTC 59.258 45.455 0.00 0.00 0.00 3.18
271 1075 5.335897 GCCTGTGAATTTAGCTTGTCATCAA 60.336 40.000 0.00 0.00 0.00 2.57
285 1888 1.003118 TCATCAAGGGAGTTTCGGTGG 59.997 52.381 0.00 0.00 0.00 4.61
304 2012 3.196254 GTGGGCACATGAAATCAATCCTT 59.804 43.478 0.00 0.00 0.00 3.36
317 2025 2.170607 TCAATCCTTTCGTGATCCCCTC 59.829 50.000 0.00 0.00 0.00 4.30
341 2055 5.467735 CCAACCGGTAGCCAGTTAATTATAC 59.532 44.000 8.00 0.00 0.00 1.47
394 2108 2.287547 GCGCATGTGGAGTTGAAAAGAA 60.288 45.455 8.62 0.00 0.00 2.52
395 2109 3.558505 CGCATGTGGAGTTGAAAAGAAG 58.441 45.455 0.00 0.00 0.00 2.85
441 2165 2.897972 CCCCCACGTAGGTGTAGC 59.102 66.667 14.08 0.00 42.80 3.58
443 2167 1.673808 CCCCCACGTAGGTGTAGCTC 61.674 65.000 14.08 0.00 42.80 4.09
462 3670 1.747355 TCCGTCCGTTATCCAACTCTC 59.253 52.381 0.00 0.00 32.09 3.20
463 3671 1.202382 CCGTCCGTTATCCAACTCTCC 60.202 57.143 0.00 0.00 32.09 3.71
473 3681 1.817099 CAACTCTCCATGCCGCTCC 60.817 63.158 0.00 0.00 0.00 4.70
525 3733 0.178891 ACCACACACCTCCTCATCCT 60.179 55.000 0.00 0.00 0.00 3.24
713 6243 4.457496 GCGCCTGCTACCAGCTGA 62.457 66.667 17.39 0.00 41.94 4.26
714 6244 2.202851 CGCCTGCTACCAGCTGAG 60.203 66.667 17.39 6.68 41.94 3.35
715 6245 2.714991 CGCCTGCTACCAGCTGAGA 61.715 63.158 17.39 0.67 41.94 3.27
716 6246 1.828768 GCCTGCTACCAGCTGAGAT 59.171 57.895 17.39 2.50 41.94 2.75
717 6247 0.179936 GCCTGCTACCAGCTGAGATT 59.820 55.000 17.39 0.00 41.94 2.40
718 6248 1.407989 GCCTGCTACCAGCTGAGATTT 60.408 52.381 17.39 0.00 41.94 2.17
719 6249 2.943199 GCCTGCTACCAGCTGAGATTTT 60.943 50.000 17.39 0.00 41.94 1.82
720 6250 3.350833 CCTGCTACCAGCTGAGATTTTT 58.649 45.455 17.39 0.00 41.94 1.94
742 6272 4.841443 TTTTCGAAAAGAGGGTTAAGCC 57.159 40.909 19.08 16.13 0.00 4.35
751 6281 3.723245 GGTTAAGCCCCGGTCTCT 58.277 61.111 0.00 0.00 0.00 3.10
752 6282 1.221021 GGTTAAGCCCCGGTCTCTG 59.779 63.158 0.00 0.00 0.00 3.35
753 6283 1.449778 GTTAAGCCCCGGTCTCTGC 60.450 63.158 0.00 0.00 0.00 4.26
754 6284 1.916273 TTAAGCCCCGGTCTCTGCA 60.916 57.895 0.00 0.00 0.00 4.41
755 6285 1.271840 TTAAGCCCCGGTCTCTGCAT 61.272 55.000 0.00 0.00 0.00 3.96
756 6286 1.686325 TAAGCCCCGGTCTCTGCATC 61.686 60.000 0.00 0.00 0.00 3.91
757 6287 3.785859 GCCCCGGTCTCTGCATCA 61.786 66.667 0.00 0.00 0.00 3.07
758 6288 2.503061 CCCCGGTCTCTGCATCAG 59.497 66.667 0.00 0.00 0.00 2.90
759 6289 2.060383 CCCCGGTCTCTGCATCAGA 61.060 63.158 0.00 0.00 38.25 3.27
760 6290 1.617018 CCCCGGTCTCTGCATCAGAA 61.617 60.000 0.00 0.00 40.18 3.02
761 6291 0.460987 CCCGGTCTCTGCATCAGAAC 60.461 60.000 0.00 1.42 40.18 3.01
762 6292 2.658538 CGGTCTCTGCATCAGAACG 58.341 57.895 16.34 16.34 44.21 3.95
764 6294 2.593346 GGTCTCTGCATCAGAACGAT 57.407 50.000 0.00 0.00 40.18 3.73
773 6303 1.258982 CATCAGAACGATGCTTACCGC 59.741 52.381 0.00 0.00 44.95 5.68
774 6304 0.459585 TCAGAACGATGCTTACCGCC 60.460 55.000 0.00 0.00 38.05 6.13
775 6305 1.518572 AGAACGATGCTTACCGCCG 60.519 57.895 0.00 0.00 38.05 6.46
776 6306 1.517694 GAACGATGCTTACCGCCGA 60.518 57.895 0.00 0.00 38.05 5.54
777 6307 1.079681 AACGATGCTTACCGCCGAA 60.080 52.632 0.00 0.00 38.05 4.30
778 6308 0.461339 AACGATGCTTACCGCCGAAT 60.461 50.000 0.00 0.00 38.05 3.34
779 6309 0.461339 ACGATGCTTACCGCCGAATT 60.461 50.000 0.00 0.00 38.05 2.17
780 6310 1.202440 ACGATGCTTACCGCCGAATTA 60.202 47.619 0.00 0.00 38.05 1.40
781 6311 2.066262 CGATGCTTACCGCCGAATTAT 58.934 47.619 0.00 0.00 38.05 1.28
782 6312 2.478894 CGATGCTTACCGCCGAATTATT 59.521 45.455 0.00 0.00 38.05 1.40
783 6313 3.676172 CGATGCTTACCGCCGAATTATTA 59.324 43.478 0.00 0.00 38.05 0.98
784 6314 4.150980 CGATGCTTACCGCCGAATTATTAA 59.849 41.667 0.00 0.00 38.05 1.40
785 6315 5.163893 CGATGCTTACCGCCGAATTATTAAT 60.164 40.000 0.00 0.00 38.05 1.40
786 6316 6.035220 CGATGCTTACCGCCGAATTATTAATA 59.965 38.462 0.00 0.00 38.05 0.98
787 6317 7.412129 CGATGCTTACCGCCGAATTATTAATAA 60.412 37.037 10.27 10.27 38.05 1.40
788 6318 7.124347 TGCTTACCGCCGAATTATTAATAAG 57.876 36.000 13.15 1.71 38.05 1.73
789 6319 6.019762 GCTTACCGCCGAATTATTAATAAGC 58.980 40.000 13.15 9.77 36.36 3.09
790 6320 6.347888 GCTTACCGCCGAATTATTAATAAGCA 60.348 38.462 13.15 0.00 40.92 3.91
791 6321 7.493743 TTACCGCCGAATTATTAATAAGCAA 57.506 32.000 13.15 0.85 0.00 3.91
792 6322 6.380095 ACCGCCGAATTATTAATAAGCAAA 57.620 33.333 13.15 0.00 0.00 3.68
793 6323 6.797454 ACCGCCGAATTATTAATAAGCAAAA 58.203 32.000 13.15 0.00 0.00 2.44
794 6324 7.259161 ACCGCCGAATTATTAATAAGCAAAAA 58.741 30.769 13.15 0.00 0.00 1.94
795 6325 7.434013 ACCGCCGAATTATTAATAAGCAAAAAG 59.566 33.333 13.15 3.79 0.00 2.27
796 6326 7.096230 CCGCCGAATTATTAATAAGCAAAAAGG 60.096 37.037 13.15 9.85 0.00 3.11
797 6327 7.434013 CGCCGAATTATTAATAAGCAAAAAGGT 59.566 33.333 13.15 0.00 0.00 3.50
798 6328 9.093970 GCCGAATTATTAATAAGCAAAAAGGTT 57.906 29.630 13.15 0.32 41.60 3.50
807 6337 9.877178 TTAATAAGCAAAAAGGTTCAACAGAAA 57.123 25.926 0.00 0.00 39.08 2.52
808 6338 8.962884 AATAAGCAAAAAGGTTCAACAGAAAT 57.037 26.923 0.00 0.00 39.08 2.17
809 6339 6.908870 AAGCAAAAAGGTTCAACAGAAATC 57.091 33.333 0.00 0.00 30.75 2.17
810 6340 6.225981 AGCAAAAAGGTTCAACAGAAATCT 57.774 33.333 0.00 0.00 0.00 2.40
811 6341 6.643388 AGCAAAAAGGTTCAACAGAAATCTT 58.357 32.000 0.00 0.00 0.00 2.40
812 6342 7.105588 AGCAAAAAGGTTCAACAGAAATCTTT 58.894 30.769 0.00 0.00 32.91 2.52
813 6343 8.257306 AGCAAAAAGGTTCAACAGAAATCTTTA 58.743 29.630 0.00 0.00 32.10 1.85
814 6344 8.542953 GCAAAAAGGTTCAACAGAAATCTTTAG 58.457 33.333 0.00 0.00 32.10 1.85
815 6345 9.034544 CAAAAAGGTTCAACAGAAATCTTTAGG 57.965 33.333 0.00 0.00 32.10 2.69
816 6346 7.898014 AAAGGTTCAACAGAAATCTTTAGGT 57.102 32.000 0.00 0.00 31.34 3.08
817 6347 7.511959 AAGGTTCAACAGAAATCTTTAGGTC 57.488 36.000 0.00 0.00 0.00 3.85
818 6348 6.842676 AGGTTCAACAGAAATCTTTAGGTCT 58.157 36.000 0.00 0.00 0.00 3.85
819 6349 6.937465 AGGTTCAACAGAAATCTTTAGGTCTC 59.063 38.462 0.00 0.00 0.00 3.36
820 6350 6.710744 GGTTCAACAGAAATCTTTAGGTCTCA 59.289 38.462 0.00 0.00 0.00 3.27
821 6351 7.228706 GGTTCAACAGAAATCTTTAGGTCTCAA 59.771 37.037 0.00 0.00 0.00 3.02
822 6352 8.621286 GTTCAACAGAAATCTTTAGGTCTCAAA 58.379 33.333 0.00 0.00 0.00 2.69
823 6353 8.746052 TCAACAGAAATCTTTAGGTCTCAAAA 57.254 30.769 0.00 0.00 0.00 2.44
824 6354 8.840321 TCAACAGAAATCTTTAGGTCTCAAAAG 58.160 33.333 0.00 0.00 34.65 2.27
825 6355 8.624776 CAACAGAAATCTTTAGGTCTCAAAAGT 58.375 33.333 0.00 0.00 34.88 2.66
826 6356 9.847224 AACAGAAATCTTTAGGTCTCAAAAGTA 57.153 29.630 0.00 0.00 34.88 2.24
827 6357 9.847224 ACAGAAATCTTTAGGTCTCAAAAGTAA 57.153 29.630 0.00 0.00 34.88 2.24
833 6363 8.379457 TCTTTAGGTCTCAAAAGTAAAGAAGC 57.621 34.615 0.00 0.00 36.98 3.86
834 6364 8.211629 TCTTTAGGTCTCAAAAGTAAAGAAGCT 58.788 33.333 0.00 0.00 36.98 3.74
835 6365 7.964604 TTAGGTCTCAAAAGTAAAGAAGCTC 57.035 36.000 0.00 0.00 0.00 4.09
836 6366 5.930135 AGGTCTCAAAAGTAAAGAAGCTCA 58.070 37.500 0.00 0.00 0.00 4.26
837 6367 6.357367 AGGTCTCAAAAGTAAAGAAGCTCAA 58.643 36.000 0.00 0.00 0.00 3.02
838 6368 6.828785 AGGTCTCAAAAGTAAAGAAGCTCAAA 59.171 34.615 0.00 0.00 0.00 2.69
839 6369 7.339466 AGGTCTCAAAAGTAAAGAAGCTCAAAA 59.661 33.333 0.00 0.00 0.00 2.44
840 6370 7.973944 GGTCTCAAAAGTAAAGAAGCTCAAAAA 59.026 33.333 0.00 0.00 0.00 1.94
841 6371 9.014533 GTCTCAAAAGTAAAGAAGCTCAAAAAG 57.985 33.333 0.00 0.00 0.00 2.27
842 6372 8.956426 TCTCAAAAGTAAAGAAGCTCAAAAAGA 58.044 29.630 0.00 0.00 0.00 2.52
855 6385 5.978934 CTCAAAAAGAGCAAAAGCAACAT 57.021 34.783 0.00 0.00 37.59 2.71
856 6386 5.721876 TCAAAAAGAGCAAAAGCAACATG 57.278 34.783 0.00 0.00 0.00 3.21
857 6387 5.417811 TCAAAAAGAGCAAAAGCAACATGA 58.582 33.333 0.00 0.00 0.00 3.07
858 6388 5.291614 TCAAAAAGAGCAAAAGCAACATGAC 59.708 36.000 0.00 0.00 0.00 3.06
859 6389 4.389890 AAAGAGCAAAAGCAACATGACA 57.610 36.364 0.00 0.00 0.00 3.58
860 6390 3.637998 AGAGCAAAAGCAACATGACAG 57.362 42.857 0.00 0.00 0.00 3.51
861 6391 2.295349 AGAGCAAAAGCAACATGACAGG 59.705 45.455 0.00 0.00 0.00 4.00
862 6392 2.294233 GAGCAAAAGCAACATGACAGGA 59.706 45.455 0.00 0.00 0.00 3.86
863 6393 2.895404 AGCAAAAGCAACATGACAGGAT 59.105 40.909 0.00 0.00 0.00 3.24
864 6394 4.081406 AGCAAAAGCAACATGACAGGATA 58.919 39.130 0.00 0.00 0.00 2.59
865 6395 4.157289 AGCAAAAGCAACATGACAGGATAG 59.843 41.667 0.00 0.00 0.00 2.08
866 6396 4.418392 CAAAAGCAACATGACAGGATAGC 58.582 43.478 0.00 0.00 0.00 2.97
867 6397 2.338577 AGCAACATGACAGGATAGCC 57.661 50.000 0.00 0.00 0.00 3.93
868 6398 1.561076 AGCAACATGACAGGATAGCCA 59.439 47.619 0.00 0.00 36.29 4.75
869 6399 1.672881 GCAACATGACAGGATAGCCAC 59.327 52.381 0.00 0.00 36.29 5.01
870 6400 2.940971 GCAACATGACAGGATAGCCACA 60.941 50.000 0.00 0.00 36.29 4.17
871 6401 3.346315 CAACATGACAGGATAGCCACAA 58.654 45.455 0.00 0.00 36.29 3.33
872 6402 2.991250 ACATGACAGGATAGCCACAAC 58.009 47.619 0.00 0.00 36.29 3.32
873 6403 2.292267 CATGACAGGATAGCCACAACC 58.708 52.381 0.00 0.00 36.29 3.77
874 6404 0.249120 TGACAGGATAGCCACAACCG 59.751 55.000 0.00 0.00 36.29 4.44
875 6405 0.462047 GACAGGATAGCCACAACCGG 60.462 60.000 0.00 0.00 36.29 5.28
883 6413 3.222855 CCACAACCGGCAGGCAAA 61.223 61.111 0.00 0.00 42.76 3.68
884 6414 2.790791 CCACAACCGGCAGGCAAAA 61.791 57.895 0.00 0.00 42.76 2.44
885 6415 1.300080 CACAACCGGCAGGCAAAAG 60.300 57.895 0.00 0.00 42.76 2.27
886 6416 1.454847 ACAACCGGCAGGCAAAAGA 60.455 52.632 0.00 0.00 42.76 2.52
887 6417 0.827507 ACAACCGGCAGGCAAAAGAT 60.828 50.000 0.00 0.00 42.76 2.40
888 6418 1.173043 CAACCGGCAGGCAAAAGATA 58.827 50.000 0.00 0.00 42.76 1.98
889 6419 1.543802 CAACCGGCAGGCAAAAGATAA 59.456 47.619 0.00 0.00 42.76 1.75
890 6420 1.463674 ACCGGCAGGCAAAAGATAAG 58.536 50.000 0.00 0.00 42.76 1.73
891 6421 1.004277 ACCGGCAGGCAAAAGATAAGA 59.996 47.619 0.00 0.00 42.76 2.10
892 6422 2.301346 CCGGCAGGCAAAAGATAAGAT 58.699 47.619 0.00 0.00 0.00 2.40
893 6423 3.118038 ACCGGCAGGCAAAAGATAAGATA 60.118 43.478 0.00 0.00 42.76 1.98
894 6424 3.499918 CCGGCAGGCAAAAGATAAGATAG 59.500 47.826 0.00 0.00 0.00 2.08
895 6425 4.380531 CGGCAGGCAAAAGATAAGATAGA 58.619 43.478 0.00 0.00 0.00 1.98
896 6426 4.816385 CGGCAGGCAAAAGATAAGATAGAA 59.184 41.667 0.00 0.00 0.00 2.10
897 6427 5.296780 CGGCAGGCAAAAGATAAGATAGAAA 59.703 40.000 0.00 0.00 0.00 2.52
898 6428 6.183360 CGGCAGGCAAAAGATAAGATAGAAAA 60.183 38.462 0.00 0.00 0.00 2.29
899 6429 6.975197 GGCAGGCAAAAGATAAGATAGAAAAC 59.025 38.462 0.00 0.00 0.00 2.43
900 6430 7.148000 GGCAGGCAAAAGATAAGATAGAAAACT 60.148 37.037 0.00 0.00 0.00 2.66
901 6431 8.893727 GCAGGCAAAAGATAAGATAGAAAACTA 58.106 33.333 0.00 0.00 0.00 2.24
927 6457 7.735326 ACCTATATCCTATTACATGACCACC 57.265 40.000 0.00 0.00 0.00 4.61
928 6458 7.253421 ACCTATATCCTATTACATGACCACCA 58.747 38.462 0.00 0.00 0.00 4.17
929 6459 7.906736 ACCTATATCCTATTACATGACCACCAT 59.093 37.037 0.00 0.00 35.44 3.55
930 6460 8.424918 CCTATATCCTATTACATGACCACCATC 58.575 40.741 0.00 0.00 31.94 3.51
931 6461 4.974645 TCCTATTACATGACCACCATCC 57.025 45.455 0.00 0.00 31.94 3.51
932 6462 4.302930 TCCTATTACATGACCACCATCCA 58.697 43.478 0.00 0.00 31.94 3.41
933 6463 4.724293 TCCTATTACATGACCACCATCCAA 59.276 41.667 0.00 0.00 31.94 3.53
934 6464 5.192722 TCCTATTACATGACCACCATCCAAA 59.807 40.000 0.00 0.00 31.94 3.28
935 6465 5.299279 CCTATTACATGACCACCATCCAAAC 59.701 44.000 0.00 0.00 31.94 2.93
936 6466 2.978156 ACATGACCACCATCCAAACT 57.022 45.000 0.00 0.00 31.94 2.66
937 6467 2.517959 ACATGACCACCATCCAAACTG 58.482 47.619 0.00 0.00 31.94 3.16
938 6468 1.820519 CATGACCACCATCCAAACTGG 59.179 52.381 0.00 0.00 39.43 4.00
940 6470 1.216678 TGACCACCATCCAAACTGGTT 59.783 47.619 0.00 0.00 44.67 3.67
941 6471 1.613437 GACCACCATCCAAACTGGTTG 59.387 52.381 0.00 0.00 44.67 3.77
942 6472 1.216678 ACCACCATCCAAACTGGTTGA 59.783 47.619 7.08 0.00 44.67 3.18
943 6473 2.315176 CCACCATCCAAACTGGTTGAA 58.685 47.619 7.08 0.00 44.67 2.69
944 6474 2.297033 CCACCATCCAAACTGGTTGAAG 59.703 50.000 7.08 0.00 44.67 3.02
945 6475 3.221771 CACCATCCAAACTGGTTGAAGA 58.778 45.455 7.08 0.00 44.67 2.87
946 6476 3.828451 CACCATCCAAACTGGTTGAAGAT 59.172 43.478 7.08 0.00 44.67 2.40
947 6477 5.009631 CACCATCCAAACTGGTTGAAGATA 58.990 41.667 7.08 0.00 44.67 1.98
948 6478 5.653769 CACCATCCAAACTGGTTGAAGATAT 59.346 40.000 7.08 0.00 44.67 1.63
949 6479 6.153340 CACCATCCAAACTGGTTGAAGATATT 59.847 38.462 7.08 0.00 44.67 1.28
950 6480 6.378280 ACCATCCAAACTGGTTGAAGATATTC 59.622 38.462 7.08 0.00 44.67 1.75
951 6481 6.183360 CCATCCAAACTGGTTGAAGATATTCC 60.183 42.308 7.08 0.00 39.08 3.01
952 6482 4.941263 TCCAAACTGGTTGAAGATATTCCG 59.059 41.667 7.08 0.00 39.87 4.30
953 6483 4.941263 CCAAACTGGTTGAAGATATTCCGA 59.059 41.667 7.08 0.00 39.87 4.55
954 6484 5.065218 CCAAACTGGTTGAAGATATTCCGAG 59.935 44.000 7.08 0.00 39.87 4.63
955 6485 5.422214 AACTGGTTGAAGATATTCCGAGT 57.578 39.130 0.00 0.00 0.00 4.18
956 6486 5.422214 ACTGGTTGAAGATATTCCGAGTT 57.578 39.130 0.00 0.00 0.00 3.01
957 6487 5.178797 ACTGGTTGAAGATATTCCGAGTTG 58.821 41.667 0.00 0.00 0.00 3.16
958 6488 3.938963 TGGTTGAAGATATTCCGAGTTGC 59.061 43.478 0.00 0.00 0.00 4.17
959 6489 3.312697 GGTTGAAGATATTCCGAGTTGCC 59.687 47.826 0.00 0.00 0.00 4.52
960 6490 3.904800 TGAAGATATTCCGAGTTGCCA 57.095 42.857 0.00 0.00 0.00 4.92
961 6491 4.422073 TGAAGATATTCCGAGTTGCCAT 57.578 40.909 0.00 0.00 0.00 4.40
962 6492 4.380531 TGAAGATATTCCGAGTTGCCATC 58.619 43.478 0.00 0.00 0.00 3.51
963 6493 4.101585 TGAAGATATTCCGAGTTGCCATCT 59.898 41.667 0.00 0.00 0.00 2.90
964 6494 4.696479 AGATATTCCGAGTTGCCATCTT 57.304 40.909 0.00 0.00 0.00 2.40
965 6495 4.636249 AGATATTCCGAGTTGCCATCTTC 58.364 43.478 0.00 0.00 0.00 2.87
966 6496 2.044123 ATTCCGAGTTGCCATCTTCC 57.956 50.000 0.00 0.00 0.00 3.46
967 6497 0.690192 TTCCGAGTTGCCATCTTCCA 59.310 50.000 0.00 0.00 0.00 3.53
968 6498 0.911769 TCCGAGTTGCCATCTTCCAT 59.088 50.000 0.00 0.00 0.00 3.41
969 6499 1.134401 TCCGAGTTGCCATCTTCCATC 60.134 52.381 0.00 0.00 0.00 3.51
970 6500 0.933097 CGAGTTGCCATCTTCCATCG 59.067 55.000 0.00 0.00 0.00 3.84
971 6501 1.303309 GAGTTGCCATCTTCCATCGG 58.697 55.000 0.00 0.00 0.00 4.18
972 6502 0.911769 AGTTGCCATCTTCCATCGGA 59.088 50.000 0.00 0.00 0.00 4.55
973 6503 1.492176 AGTTGCCATCTTCCATCGGAT 59.508 47.619 0.00 0.00 0.00 4.18
974 6504 2.705658 AGTTGCCATCTTCCATCGGATA 59.294 45.455 0.00 0.00 0.00 2.59
975 6505 3.070018 GTTGCCATCTTCCATCGGATAG 58.930 50.000 0.00 0.00 0.00 2.08
976 6506 2.608623 TGCCATCTTCCATCGGATAGA 58.391 47.619 0.00 0.00 0.00 1.98
977 6507 3.176411 TGCCATCTTCCATCGGATAGAT 58.824 45.455 0.00 0.00 41.01 1.98
978 6508 3.196469 TGCCATCTTCCATCGGATAGATC 59.804 47.826 0.00 0.00 37.52 2.75
979 6509 3.431486 GCCATCTTCCATCGGATAGATCC 60.431 52.174 0.00 0.00 43.65 3.36
995 6525 6.778559 GGATAGATCCAGTAACTTCTACCAGT 59.221 42.308 3.54 0.00 46.38 4.00
996 6526 7.040271 GGATAGATCCAGTAACTTCTACCAGTC 60.040 44.444 3.54 0.00 46.38 3.51
1197 6740 1.863662 GCCGTCGAGGTGACTTCAGA 61.864 60.000 4.18 0.00 45.87 3.27
1230 6773 2.661979 CGCGTACAAGAGCAAAAACCTC 60.662 50.000 0.00 0.00 0.00 3.85
1299 6889 1.870055 TACCAGTCGAGGTGGCGAAC 61.870 60.000 12.77 0.00 43.14 3.95
1366 6959 1.327460 CGAAATGGCAGTACATGACGG 59.673 52.381 0.00 0.00 41.39 4.79
1449 7042 4.189188 CTCGTAGTCACCGCGGGG 62.189 72.222 31.76 28.69 40.11 5.73
1528 7121 4.063967 CGGTCTACGGCACTGGCA 62.064 66.667 3.16 0.00 43.71 4.92
1539 7132 3.640407 ACTGGCATGCGGGTCACT 61.640 61.111 12.44 0.00 0.00 3.41
1602 7195 1.080974 GGACGACAACCACGACGAT 60.081 57.895 0.00 0.00 34.70 3.73
1605 7198 0.242825 ACGACAACCACGACGATGAT 59.757 50.000 0.00 0.00 34.70 2.45
1632 7233 4.498520 AGATGACGCCCACGCTCG 62.499 66.667 0.00 0.00 45.53 5.03
1647 7270 2.839632 TCGCATCCATCGGAGCCT 60.840 61.111 0.00 0.00 34.05 4.58
1812 7556 4.576463 ACACGCAGAAAAGTGAAGAGAAAT 59.424 37.500 2.42 0.00 40.56 2.17
1839 7588 1.544246 AGGGGCATAACAGCGAAAAAC 59.456 47.619 0.00 0.00 34.64 2.43
1849 7598 0.382873 AGCGAAAAACACCCCGAAAC 59.617 50.000 0.00 0.00 0.00 2.78
1893 7644 3.605726 TGGGATATTCCGACCTAGACA 57.394 47.619 0.00 0.00 37.43 3.41
1898 7669 2.750141 ATTCCGACCTAGACAGCCTA 57.250 50.000 0.00 0.00 0.00 3.93
1904 7675 2.358267 CGACCTAGACAGCCTAATCGTT 59.642 50.000 0.00 0.00 34.15 3.85
1981 7756 3.499737 CTGGCGGCCATTGACGTC 61.500 66.667 24.10 9.11 30.82 4.34
1989 7764 1.406887 GGCCATTGACGTCCACACTAT 60.407 52.381 14.12 0.00 0.00 2.12
2013 7788 6.216569 TCAAGTAGCTAGTGCATATTAGTGC 58.783 40.000 0.73 0.00 45.25 4.40
2057 7837 6.128472 TGAGAATTGAGATCGTTGTCATTGTG 60.128 38.462 0.00 0.00 0.00 3.33
2220 8009 4.040461 TGATTCTTCTTCCACCGTCTTCTT 59.960 41.667 0.00 0.00 0.00 2.52
2249 8041 5.759506 ATGTGACACTTATCTCTACTCCG 57.240 43.478 7.20 0.00 0.00 4.63
2253 8045 6.047870 GTGACACTTATCTCTACTCCGTCTA 58.952 44.000 0.00 0.00 0.00 2.59
2264 8056 8.103660 TCTCTACTCCGTCTATCCCATAATAT 57.896 38.462 0.00 0.00 0.00 1.28
2299 8095 9.672086 TTTCAAGATAACATAGGTTGAAAAACG 57.328 29.630 2.37 0.00 41.68 3.60
2313 8109 8.842280 AGGTTGAAAAACGTTCTTATATTGTCA 58.158 29.630 0.00 0.00 39.71 3.58
2316 8112 9.872757 TTGAAAAACGTTCTTATATTGTCAGAC 57.127 29.630 0.00 0.00 0.00 3.51
2339 8135 6.040878 ACGGAGTAGTAGTTTATTGTGCATC 58.959 40.000 0.00 0.00 41.94 3.91
2349 8145 5.653330 AGTTTATTGTGCATCCATGACATCA 59.347 36.000 0.00 0.00 0.00 3.07
2360 8156 6.422701 GCATCCATGACATCACCATTTAATTG 59.577 38.462 0.00 0.00 0.00 2.32
2375 8171 4.979943 TTAATTGCCGCTCATGAATCAA 57.020 36.364 0.00 0.00 0.00 2.57
2391 8187 7.564292 TCATGAATCAATGATAATCCCCACAAA 59.436 33.333 0.00 0.00 31.58 2.83
2408 8204 7.122055 TCCCCACAAAATAAATAGCACTAACAG 59.878 37.037 0.00 0.00 0.00 3.16
2409 8205 7.122055 CCCCACAAAATAAATAGCACTAACAGA 59.878 37.037 0.00 0.00 0.00 3.41
2424 8220 6.202570 GCACTAACAGATTTGCCAATTTTCAA 59.797 34.615 0.00 0.00 0.00 2.69
2429 8225 7.193377 ACAGATTTGCCAATTTTCAATCAAC 57.807 32.000 0.00 0.00 0.00 3.18
2462 8258 7.439381 AGTTAAATCTAAGTTTGACACCGAGA 58.561 34.615 0.00 0.00 32.00 4.04
2487 8283 5.907866 TGTCGATACAACACTAAGATCCA 57.092 39.130 0.00 0.00 30.91 3.41
2492 8288 5.523552 CGATACAACACTAAGATCCATGCAA 59.476 40.000 0.00 0.00 0.00 4.08
2494 8290 4.012374 ACAACACTAAGATCCATGCAAGG 58.988 43.478 0.19 0.19 0.00 3.61
2535 8331 6.560253 TTTTCTTTACACTGGATGAAGAGC 57.440 37.500 0.00 0.00 0.00 4.09
2571 8370 7.130681 TGGGTGAACATTTTTAGGACAAAAT 57.869 32.000 0.00 0.00 36.90 1.82
2572 8371 7.213678 TGGGTGAACATTTTTAGGACAAAATC 58.786 34.615 0.00 0.00 34.70 2.17
2574 8373 8.581578 GGGTGAACATTTTTAGGACAAAATCTA 58.418 33.333 0.00 0.00 34.70 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.283354 GGGTTTCTCTCCATTAATAAGGAACAG 59.717 40.741 10.35 4.59 32.57 3.16
87 88 0.679505 CGGAATAATGGAGCCGGAGA 59.320 55.000 5.05 0.00 40.08 3.71
118 119 1.444895 CCAATTGAGTTGCCGCTGC 60.445 57.895 7.12 0.00 36.46 5.25
141 918 5.939457 TCGAGTATGAACAGTGTTCTAGTG 58.061 41.667 30.69 17.90 35.76 2.74
149 929 1.204704 TGGGCTCGAGTATGAACAGTG 59.795 52.381 15.13 0.00 0.00 3.66
162 942 3.625897 TGAGTGGTGGTGGGCTCG 61.626 66.667 0.00 0.00 0.00 5.03
163 943 2.032681 GTGAGTGGTGGTGGGCTC 59.967 66.667 0.00 0.00 0.00 4.70
164 944 2.156098 ATGTGAGTGGTGGTGGGCT 61.156 57.895 0.00 0.00 0.00 5.19
165 945 1.973281 CATGTGAGTGGTGGTGGGC 60.973 63.158 0.00 0.00 0.00 5.36
168 948 2.327343 CGCCATGTGAGTGGTGGTG 61.327 63.158 0.00 0.00 44.23 4.17
169 949 2.032528 CGCCATGTGAGTGGTGGT 59.967 61.111 0.00 0.00 44.23 4.16
172 952 3.952508 TGGCGCCATGTGAGTGGT 61.953 61.111 29.03 0.00 41.47 4.16
175 955 1.968017 CTTGTGGCGCCATGTGAGT 60.968 57.895 35.23 0.00 0.00 3.41
217 1014 5.187381 ACCATGCATTTCCAATCATACACAA 59.813 36.000 0.00 0.00 0.00 3.33
266 1067 1.453155 CCACCGAAACTCCCTTGATG 58.547 55.000 0.00 0.00 0.00 3.07
271 1075 2.852075 TGCCCACCGAAACTCCCT 60.852 61.111 0.00 0.00 0.00 4.20
280 1084 0.887247 TTGATTTCATGTGCCCACCG 59.113 50.000 0.00 0.00 0.00 4.94
285 1888 4.107622 CGAAAGGATTGATTTCATGTGCC 58.892 43.478 0.00 0.00 36.63 5.01
304 2012 1.895020 CGGTTGGAGGGGATCACGAA 61.895 60.000 0.00 0.00 0.00 3.85
362 2076 1.267532 CCACATGCGCGTCAAGAATAC 60.268 52.381 8.43 0.00 0.00 1.89
371 2085 1.163420 TTTCAACTCCACATGCGCGT 61.163 50.000 8.43 0.00 0.00 6.01
394 2108 5.692928 AGAAGATGATATGGAAGCAAAGCT 58.307 37.500 0.00 0.00 42.56 3.74
395 2109 6.039047 TGAAGAAGATGATATGGAAGCAAAGC 59.961 38.462 0.00 0.00 0.00 3.51
405 2119 4.015084 GGGGGCATGAAGAAGATGATATG 58.985 47.826 0.00 0.00 0.00 1.78
435 2159 1.268948 GGATAACGGACGGAGCTACAC 60.269 57.143 0.00 0.00 0.00 2.90
436 2160 1.027357 GGATAACGGACGGAGCTACA 58.973 55.000 0.00 0.00 0.00 2.74
441 2165 1.749634 AGAGTTGGATAACGGACGGAG 59.250 52.381 0.00 0.00 41.71 4.63
443 2167 1.202382 GGAGAGTTGGATAACGGACGG 60.202 57.143 0.00 0.00 41.71 4.79
462 3670 1.512996 CTAGCAATGGAGCGGCATGG 61.513 60.000 1.45 0.00 40.15 3.66
463 3671 1.947013 CTAGCAATGGAGCGGCATG 59.053 57.895 1.45 0.00 40.15 4.06
525 3733 1.355563 CGGCGCGAGAATGAGACTA 59.644 57.895 12.10 0.00 0.00 2.59
635 6165 0.967380 GCAATGTGGAACCCTCCCTG 60.967 60.000 0.00 0.00 41.64 4.45
637 6167 2.046285 CGCAATGTGGAACCCTCCC 61.046 63.158 0.00 0.00 41.64 4.30
720 6250 5.190992 GGCTTAACCCTCTTTTCGAAAAA 57.809 39.130 22.67 13.22 0.00 1.94
721 6251 4.841443 GGCTTAACCCTCTTTTCGAAAA 57.159 40.909 21.35 21.35 0.00 2.29
734 6264 1.221021 CAGAGACCGGGGCTTAACC 59.779 63.158 2.55 0.00 37.93 2.85
735 6265 1.449778 GCAGAGACCGGGGCTTAAC 60.450 63.158 2.55 0.00 0.00 2.01
736 6266 1.271840 ATGCAGAGACCGGGGCTTAA 61.272 55.000 2.55 0.00 0.00 1.85
737 6267 1.686325 GATGCAGAGACCGGGGCTTA 61.686 60.000 2.55 0.00 0.00 3.09
738 6268 3.011517 ATGCAGAGACCGGGGCTT 61.012 61.111 2.55 0.00 0.00 4.35
739 6269 3.474570 GATGCAGAGACCGGGGCT 61.475 66.667 0.00 0.00 0.00 5.19
740 6270 3.746949 CTGATGCAGAGACCGGGGC 62.747 68.421 6.32 0.00 32.44 5.80
741 6271 1.617018 TTCTGATGCAGAGACCGGGG 61.617 60.000 6.32 0.00 41.75 5.73
742 6272 0.460987 GTTCTGATGCAGAGACCGGG 60.461 60.000 6.32 0.00 41.75 5.73
743 6273 0.803768 CGTTCTGATGCAGAGACCGG 60.804 60.000 0.00 0.00 41.75 5.28
744 6274 0.171231 TCGTTCTGATGCAGAGACCG 59.829 55.000 8.63 8.63 41.75 4.79
745 6275 2.593346 ATCGTTCTGATGCAGAGACC 57.407 50.000 0.00 0.00 41.75 3.85
766 6296 7.124347 TGCTTATTAATAATTCGGCGGTAAG 57.876 36.000 7.21 3.85 0.00 2.34
767 6297 7.493743 TTGCTTATTAATAATTCGGCGGTAA 57.506 32.000 7.21 0.00 0.00 2.85
768 6298 7.493743 TTTGCTTATTAATAATTCGGCGGTA 57.506 32.000 7.21 0.00 0.00 4.02
769 6299 6.380095 TTTGCTTATTAATAATTCGGCGGT 57.620 33.333 7.21 0.00 0.00 5.68
770 6300 7.096230 CCTTTTTGCTTATTAATAATTCGGCGG 60.096 37.037 7.21 2.23 0.00 6.13
771 6301 7.434013 ACCTTTTTGCTTATTAATAATTCGGCG 59.566 33.333 8.34 0.00 0.00 6.46
772 6302 8.642908 ACCTTTTTGCTTATTAATAATTCGGC 57.357 30.769 8.34 8.84 0.00 5.54
781 6311 9.877178 TTTCTGTTGAACCTTTTTGCTTATTAA 57.123 25.926 0.00 0.00 31.02 1.40
783 6313 8.962884 ATTTCTGTTGAACCTTTTTGCTTATT 57.037 26.923 0.00 0.00 31.02 1.40
784 6314 8.424133 AGATTTCTGTTGAACCTTTTTGCTTAT 58.576 29.630 0.00 0.00 31.02 1.73
785 6315 7.781056 AGATTTCTGTTGAACCTTTTTGCTTA 58.219 30.769 0.00 0.00 31.02 3.09
786 6316 6.643388 AGATTTCTGTTGAACCTTTTTGCTT 58.357 32.000 0.00 0.00 31.02 3.91
787 6317 6.225981 AGATTTCTGTTGAACCTTTTTGCT 57.774 33.333 0.00 0.00 31.02 3.91
788 6318 6.908870 AAGATTTCTGTTGAACCTTTTTGC 57.091 33.333 0.00 0.00 31.02 3.68
789 6319 9.034544 CCTAAAGATTTCTGTTGAACCTTTTTG 57.965 33.333 0.00 0.00 31.02 2.44
790 6320 8.758829 ACCTAAAGATTTCTGTTGAACCTTTTT 58.241 29.630 0.00 0.00 31.02 1.94
791 6321 8.306313 ACCTAAAGATTTCTGTTGAACCTTTT 57.694 30.769 0.00 0.00 31.02 2.27
792 6322 7.780271 AGACCTAAAGATTTCTGTTGAACCTTT 59.220 33.333 0.00 0.00 31.02 3.11
793 6323 7.290813 AGACCTAAAGATTTCTGTTGAACCTT 58.709 34.615 0.00 0.00 31.02 3.50
794 6324 6.842676 AGACCTAAAGATTTCTGTTGAACCT 58.157 36.000 0.00 0.00 31.02 3.50
795 6325 6.710744 TGAGACCTAAAGATTTCTGTTGAACC 59.289 38.462 0.00 0.00 31.02 3.62
796 6326 7.730364 TGAGACCTAAAGATTTCTGTTGAAC 57.270 36.000 0.00 0.00 31.02 3.18
797 6327 8.746052 TTTGAGACCTAAAGATTTCTGTTGAA 57.254 30.769 0.00 0.00 0.00 2.69
798 6328 8.746052 TTTTGAGACCTAAAGATTTCTGTTGA 57.254 30.769 0.00 0.00 0.00 3.18
799 6329 8.624776 ACTTTTGAGACCTAAAGATTTCTGTTG 58.375 33.333 0.00 0.00 38.12 3.33
800 6330 8.753497 ACTTTTGAGACCTAAAGATTTCTGTT 57.247 30.769 0.00 0.00 38.12 3.16
801 6331 9.847224 TTACTTTTGAGACCTAAAGATTTCTGT 57.153 29.630 0.00 0.00 38.12 3.41
807 6337 9.004717 GCTTCTTTACTTTTGAGACCTAAAGAT 57.995 33.333 0.00 0.00 38.12 2.40
808 6338 8.211629 AGCTTCTTTACTTTTGAGACCTAAAGA 58.788 33.333 0.00 0.00 38.12 2.52
809 6339 8.384607 AGCTTCTTTACTTTTGAGACCTAAAG 57.615 34.615 0.00 0.00 39.75 1.85
810 6340 7.990886 TGAGCTTCTTTACTTTTGAGACCTAAA 59.009 33.333 0.00 0.00 0.00 1.85
811 6341 7.506114 TGAGCTTCTTTACTTTTGAGACCTAA 58.494 34.615 0.00 0.00 0.00 2.69
812 6342 7.062749 TGAGCTTCTTTACTTTTGAGACCTA 57.937 36.000 0.00 0.00 0.00 3.08
813 6343 5.930135 TGAGCTTCTTTACTTTTGAGACCT 58.070 37.500 0.00 0.00 0.00 3.85
814 6344 6.619801 TTGAGCTTCTTTACTTTTGAGACC 57.380 37.500 0.00 0.00 0.00 3.85
815 6345 8.911247 TTTTTGAGCTTCTTTACTTTTGAGAC 57.089 30.769 0.00 0.00 0.00 3.36
816 6346 8.956426 TCTTTTTGAGCTTCTTTACTTTTGAGA 58.044 29.630 0.00 0.00 0.00 3.27
817 6347 9.230932 CTCTTTTTGAGCTTCTTTACTTTTGAG 57.769 33.333 0.00 0.00 35.84 3.02
844 6374 4.418392 GCTATCCTGTCATGTTGCTTTTG 58.582 43.478 0.00 0.00 0.00 2.44
845 6375 3.445096 GGCTATCCTGTCATGTTGCTTTT 59.555 43.478 0.00 0.00 0.00 2.27
846 6376 3.019564 GGCTATCCTGTCATGTTGCTTT 58.980 45.455 0.00 0.00 0.00 3.51
847 6377 2.025981 TGGCTATCCTGTCATGTTGCTT 60.026 45.455 0.00 0.00 0.00 3.91
848 6378 1.561076 TGGCTATCCTGTCATGTTGCT 59.439 47.619 0.00 0.00 0.00 3.91
849 6379 1.672881 GTGGCTATCCTGTCATGTTGC 59.327 52.381 0.00 0.00 0.00 4.17
850 6380 2.989909 TGTGGCTATCCTGTCATGTTG 58.010 47.619 0.00 0.00 0.00 3.33
851 6381 3.347216 GTTGTGGCTATCCTGTCATGTT 58.653 45.455 0.00 0.00 0.00 2.71
852 6382 2.356125 GGTTGTGGCTATCCTGTCATGT 60.356 50.000 0.00 0.00 0.00 3.21
853 6383 2.292267 GGTTGTGGCTATCCTGTCATG 58.708 52.381 0.00 0.00 0.00 3.07
854 6384 1.134401 CGGTTGTGGCTATCCTGTCAT 60.134 52.381 0.00 0.00 0.00 3.06
855 6385 0.249120 CGGTTGTGGCTATCCTGTCA 59.751 55.000 0.00 0.00 0.00 3.58
856 6386 0.462047 CCGGTTGTGGCTATCCTGTC 60.462 60.000 0.00 0.00 0.00 3.51
857 6387 1.602237 CCGGTTGTGGCTATCCTGT 59.398 57.895 0.00 0.00 0.00 4.00
858 6388 4.540153 CCGGTTGTGGCTATCCTG 57.460 61.111 0.00 0.00 0.00 3.86
866 6396 2.697992 CTTTTGCCTGCCGGTTGTGG 62.698 60.000 1.90 1.25 0.00 4.17
867 6397 1.300080 CTTTTGCCTGCCGGTTGTG 60.300 57.895 1.90 0.00 0.00 3.33
868 6398 0.827507 ATCTTTTGCCTGCCGGTTGT 60.828 50.000 1.90 0.00 0.00 3.32
869 6399 1.173043 TATCTTTTGCCTGCCGGTTG 58.827 50.000 1.90 0.00 0.00 3.77
870 6400 1.818674 CTTATCTTTTGCCTGCCGGTT 59.181 47.619 1.90 0.00 0.00 4.44
871 6401 1.004277 TCTTATCTTTTGCCTGCCGGT 59.996 47.619 1.90 0.00 0.00 5.28
872 6402 1.750193 TCTTATCTTTTGCCTGCCGG 58.250 50.000 0.00 0.00 0.00 6.13
873 6403 4.380531 TCTATCTTATCTTTTGCCTGCCG 58.619 43.478 0.00 0.00 0.00 5.69
874 6404 6.699575 TTTCTATCTTATCTTTTGCCTGCC 57.300 37.500 0.00 0.00 0.00 4.85
875 6405 7.766283 AGTTTTCTATCTTATCTTTTGCCTGC 58.234 34.615 0.00 0.00 0.00 4.85
901 6431 8.603304 GGTGGTCATGTAATAGGATATAGGTTT 58.397 37.037 0.00 0.00 0.00 3.27
902 6432 7.737607 TGGTGGTCATGTAATAGGATATAGGTT 59.262 37.037 0.00 0.00 0.00 3.50
903 6433 7.253421 TGGTGGTCATGTAATAGGATATAGGT 58.747 38.462 0.00 0.00 0.00 3.08
904 6434 7.733773 TGGTGGTCATGTAATAGGATATAGG 57.266 40.000 0.00 0.00 0.00 2.57
905 6435 8.424918 GGATGGTGGTCATGTAATAGGATATAG 58.575 40.741 0.00 0.00 35.97 1.31
906 6436 7.904022 TGGATGGTGGTCATGTAATAGGATATA 59.096 37.037 0.00 0.00 35.97 0.86
907 6437 6.735229 TGGATGGTGGTCATGTAATAGGATAT 59.265 38.462 0.00 0.00 35.97 1.63
908 6438 6.088137 TGGATGGTGGTCATGTAATAGGATA 58.912 40.000 0.00 0.00 35.97 2.59
909 6439 4.913355 TGGATGGTGGTCATGTAATAGGAT 59.087 41.667 0.00 0.00 35.97 3.24
910 6440 4.302930 TGGATGGTGGTCATGTAATAGGA 58.697 43.478 0.00 0.00 35.97 2.94
911 6441 4.705110 TGGATGGTGGTCATGTAATAGG 57.295 45.455 0.00 0.00 35.97 2.57
912 6442 6.038603 CAGTTTGGATGGTGGTCATGTAATAG 59.961 42.308 0.00 0.00 35.97 1.73
913 6443 5.885352 CAGTTTGGATGGTGGTCATGTAATA 59.115 40.000 0.00 0.00 35.97 0.98
914 6444 4.706476 CAGTTTGGATGGTGGTCATGTAAT 59.294 41.667 0.00 0.00 35.97 1.89
915 6445 4.078537 CAGTTTGGATGGTGGTCATGTAA 58.921 43.478 0.00 0.00 35.97 2.41
916 6446 3.561097 CCAGTTTGGATGGTGGTCATGTA 60.561 47.826 0.00 0.00 40.96 2.29
917 6447 2.517959 CAGTTTGGATGGTGGTCATGT 58.482 47.619 0.00 0.00 35.97 3.21
918 6448 1.820519 CCAGTTTGGATGGTGGTCATG 59.179 52.381 0.00 0.00 40.96 3.07
919 6449 2.220653 CCAGTTTGGATGGTGGTCAT 57.779 50.000 0.00 0.00 40.96 3.06
920 6450 3.743714 CCAGTTTGGATGGTGGTCA 57.256 52.632 0.00 0.00 40.96 4.02
926 6456 6.183360 GGAATATCTTCAACCAGTTTGGATGG 60.183 42.308 1.40 0.00 40.31 3.51
927 6457 6.458751 CGGAATATCTTCAACCAGTTTGGATG 60.459 42.308 1.40 0.30 41.15 3.51
928 6458 5.590259 CGGAATATCTTCAACCAGTTTGGAT 59.410 40.000 1.40 0.00 35.51 3.41
929 6459 4.941263 CGGAATATCTTCAACCAGTTTGGA 59.059 41.667 1.40 0.00 35.51 3.53
930 6460 4.941263 TCGGAATATCTTCAACCAGTTTGG 59.059 41.667 0.00 0.00 36.99 3.28
931 6461 5.643777 ACTCGGAATATCTTCAACCAGTTTG 59.356 40.000 0.00 0.00 36.42 2.93
932 6462 5.805728 ACTCGGAATATCTTCAACCAGTTT 58.194 37.500 0.00 0.00 32.70 2.66
933 6463 5.422214 ACTCGGAATATCTTCAACCAGTT 57.578 39.130 0.00 0.00 32.70 3.16
934 6464 5.178797 CAACTCGGAATATCTTCAACCAGT 58.821 41.667 0.00 0.00 32.70 4.00
935 6465 4.034510 GCAACTCGGAATATCTTCAACCAG 59.965 45.833 0.00 0.00 32.70 4.00
936 6466 3.938963 GCAACTCGGAATATCTTCAACCA 59.061 43.478 0.00 0.00 32.70 3.67
937 6467 3.312697 GGCAACTCGGAATATCTTCAACC 59.687 47.826 0.00 0.00 32.70 3.77
938 6468 3.938963 TGGCAACTCGGAATATCTTCAAC 59.061 43.478 0.00 0.00 32.62 3.18
939 6469 4.214986 TGGCAACTCGGAATATCTTCAA 57.785 40.909 0.00 0.00 32.62 2.69
940 6470 3.904800 TGGCAACTCGGAATATCTTCA 57.095 42.857 0.00 0.00 32.62 3.02
941 6471 4.636249 AGATGGCAACTCGGAATATCTTC 58.364 43.478 0.00 0.00 37.61 2.87
942 6472 4.696479 AGATGGCAACTCGGAATATCTT 57.304 40.909 0.00 0.00 37.61 2.40
943 6473 4.503991 GGAAGATGGCAACTCGGAATATCT 60.504 45.833 0.00 0.00 37.61 1.98
944 6474 3.748568 GGAAGATGGCAACTCGGAATATC 59.251 47.826 0.00 0.00 37.61 1.63
945 6475 3.136443 TGGAAGATGGCAACTCGGAATAT 59.864 43.478 0.00 0.00 37.61 1.28
946 6476 2.503765 TGGAAGATGGCAACTCGGAATA 59.496 45.455 0.00 0.00 37.61 1.75
947 6477 1.281867 TGGAAGATGGCAACTCGGAAT 59.718 47.619 0.00 0.00 37.61 3.01
948 6478 0.690192 TGGAAGATGGCAACTCGGAA 59.310 50.000 0.00 0.00 37.61 4.30
949 6479 0.911769 ATGGAAGATGGCAACTCGGA 59.088 50.000 0.00 0.00 37.61 4.55
950 6480 1.303309 GATGGAAGATGGCAACTCGG 58.697 55.000 0.00 0.00 37.61 4.63
951 6481 0.933097 CGATGGAAGATGGCAACTCG 59.067 55.000 0.00 0.00 37.61 4.18
952 6482 1.134401 TCCGATGGAAGATGGCAACTC 60.134 52.381 0.00 0.00 37.61 3.01
953 6483 0.911769 TCCGATGGAAGATGGCAACT 59.088 50.000 0.00 0.00 37.61 3.16
954 6484 1.972872 ATCCGATGGAAGATGGCAAC 58.027 50.000 0.00 0.00 34.34 4.17
955 6485 2.972021 TCTATCCGATGGAAGATGGCAA 59.028 45.455 0.00 0.00 34.34 4.52
956 6486 2.608623 TCTATCCGATGGAAGATGGCA 58.391 47.619 0.00 0.00 34.34 4.92
957 6487 3.431486 GGATCTATCCGATGGAAGATGGC 60.431 52.174 12.27 3.54 37.19 4.40
958 6488 4.399004 GGATCTATCCGATGGAAGATGG 57.601 50.000 12.27 0.00 37.19 3.51
971 6501 7.308109 CGACTGGTAGAAGTTACTGGATCTATC 60.308 44.444 0.00 0.00 0.00 2.08
972 6502 6.487331 CGACTGGTAGAAGTTACTGGATCTAT 59.513 42.308 0.00 0.00 0.00 1.98
973 6503 5.821470 CGACTGGTAGAAGTTACTGGATCTA 59.179 44.000 0.00 0.00 0.00 1.98
974 6504 4.641094 CGACTGGTAGAAGTTACTGGATCT 59.359 45.833 0.00 0.00 0.00 2.75
975 6505 4.639310 TCGACTGGTAGAAGTTACTGGATC 59.361 45.833 0.00 0.00 0.00 3.36
976 6506 4.597004 TCGACTGGTAGAAGTTACTGGAT 58.403 43.478 0.00 0.00 0.00 3.41
977 6507 4.008330 CTCGACTGGTAGAAGTTACTGGA 58.992 47.826 0.00 0.00 0.00 3.86
978 6508 4.008330 TCTCGACTGGTAGAAGTTACTGG 58.992 47.826 0.00 0.00 0.00 4.00
979 6509 5.574082 CATCTCGACTGGTAGAAGTTACTG 58.426 45.833 0.00 0.00 0.00 2.74
980 6510 4.096682 GCATCTCGACTGGTAGAAGTTACT 59.903 45.833 0.00 0.00 0.00 2.24
981 6511 4.142447 TGCATCTCGACTGGTAGAAGTTAC 60.142 45.833 0.00 0.00 0.00 2.50
982 6512 4.014406 TGCATCTCGACTGGTAGAAGTTA 58.986 43.478 0.00 0.00 0.00 2.24
983 6513 2.826128 TGCATCTCGACTGGTAGAAGTT 59.174 45.455 0.00 0.00 0.00 2.66
984 6514 2.425312 CTGCATCTCGACTGGTAGAAGT 59.575 50.000 0.00 0.00 0.00 3.01
987 6517 1.393603 CCTGCATCTCGACTGGTAGA 58.606 55.000 0.00 0.00 0.00 2.59
1030 6560 0.460109 CGATGATGACCTTGACGCCA 60.460 55.000 0.00 0.00 0.00 5.69
1159 6701 3.050275 GTGTCCACCAAGCTCGCC 61.050 66.667 0.00 0.00 0.00 5.54
1186 6728 4.508662 CAAGGTATCCTTCTGAAGTCACC 58.491 47.826 15.72 16.92 42.67 4.02
1197 6740 0.533491 TGTACGCGCAAGGTATCCTT 59.467 50.000 5.73 0.00 45.88 3.36
1528 7121 2.982130 GACCTCAGTGACCCGCAT 59.018 61.111 0.00 0.00 0.00 4.73
1533 7126 2.433318 GCAGCGACCTCAGTGACC 60.433 66.667 0.00 0.00 0.00 4.02
1539 7132 1.891919 GGTGTTTGCAGCGACCTCA 60.892 57.895 3.48 0.00 33.19 3.86
1602 7195 2.035193 GCGTCATCTGAGCTCCTAATCA 59.965 50.000 12.15 0.00 0.00 2.57
1605 7198 0.747255 GGCGTCATCTGAGCTCCTAA 59.253 55.000 12.15 0.00 0.00 2.69
1632 7233 2.976903 GCAGGCTCCGATGGATGC 60.977 66.667 0.00 0.00 29.87 3.91
1738 7468 0.391130 TGTAGATGCAGCGGAACACC 60.391 55.000 0.00 0.00 0.00 4.16
1812 7556 0.918983 CTGTTATGCCCCTTCCTCCA 59.081 55.000 0.00 0.00 0.00 3.86
1839 7588 3.067684 AGTTTCCTATGTTTCGGGGTG 57.932 47.619 0.00 0.00 0.00 4.61
1849 7598 3.930848 GGGTGTCGTTGTAGTTTCCTATG 59.069 47.826 0.00 0.00 0.00 2.23
1868 7619 1.137697 GGTCGGAATATCCCAAGGGT 58.862 55.000 4.80 0.00 36.47 4.34
1893 7644 1.518572 CGGCGACAACGATTAGGCT 60.519 57.895 0.00 0.00 42.66 4.58
1898 7669 2.813908 GCTCCGGCGACAACGATT 60.814 61.111 9.30 0.00 42.66 3.34
1979 7754 5.838531 ACTAGCTACTTGATAGTGTGGAC 57.161 43.478 0.00 0.00 45.07 4.02
1989 7764 6.216569 GCACTAATATGCACTAGCTACTTGA 58.783 40.000 0.00 0.00 45.39 3.02
2013 7788 1.522676 CAAGCGTGTCCATGTATAGCG 59.477 52.381 0.00 0.00 0.00 4.26
2023 7803 2.688507 TCTCAATTCTCAAGCGTGTCC 58.311 47.619 0.00 0.00 0.00 4.02
2110 7890 1.269257 TGAGACTAGATGCCGAATGCG 60.269 52.381 0.00 0.00 45.60 4.73
2220 8009 6.114187 AGAGATAAGTGTCACATTCCACAA 57.886 37.500 5.62 0.00 33.99 3.33
2289 8085 9.872757 TCTGACAATATAAGAACGTTTTTCAAC 57.127 29.630 7.42 0.00 0.00 3.18
2299 8095 7.705214 ACTACTCCGTCTGACAATATAAGAAC 58.295 38.462 8.73 0.00 0.00 3.01
2310 8106 6.746364 CACAATAAACTACTACTCCGTCTGAC 59.254 42.308 0.00 0.00 0.00 3.51
2313 8109 5.184479 TGCACAATAAACTACTACTCCGTCT 59.816 40.000 0.00 0.00 0.00 4.18
2316 8112 5.462398 GGATGCACAATAAACTACTACTCCG 59.538 44.000 0.00 0.00 0.00 4.63
2339 8135 5.051816 GGCAATTAAATGGTGATGTCATGG 58.948 41.667 0.00 0.00 0.00 3.66
2349 8145 3.023119 TCATGAGCGGCAATTAAATGGT 58.977 40.909 1.45 0.00 0.00 3.55
2360 8156 4.754372 TTATCATTGATTCATGAGCGGC 57.246 40.909 4.14 0.00 0.00 6.53
2375 8171 9.378504 TGCTATTTATTTTGTGGGGATTATCAT 57.621 29.630 0.00 0.00 0.00 2.45
2391 8187 8.292444 TGGCAAATCTGTTAGTGCTATTTATT 57.708 30.769 0.00 0.00 37.17 1.40
2408 8204 7.424227 TCAGTTGATTGAAAATTGGCAAATC 57.576 32.000 3.01 1.97 0.00 2.17
2409 8205 7.989416 ATCAGTTGATTGAAAATTGGCAAAT 57.011 28.000 3.01 0.00 0.00 2.32
2447 8243 3.247648 CGACATTTCTCGGTGTCAAACTT 59.752 43.478 6.35 0.00 43.74 2.66
2462 8258 7.327975 TGGATCTTAGTGTTGTATCGACATTT 58.672 34.615 0.00 0.00 34.86 2.32
2571 8370 6.128117 GGAGCACGTGGTTTAAAAATGATAGA 60.128 38.462 22.78 0.00 0.00 1.98
2572 8371 6.027749 GGAGCACGTGGTTTAAAAATGATAG 58.972 40.000 22.78 0.00 0.00 2.08
2574 8373 4.321675 GGGAGCACGTGGTTTAAAAATGAT 60.322 41.667 22.78 0.00 0.00 2.45
2576 8375 3.005367 AGGGAGCACGTGGTTTAAAAATG 59.995 43.478 22.78 0.00 0.00 2.32
2577 8376 3.227614 AGGGAGCACGTGGTTTAAAAAT 58.772 40.909 22.78 1.44 0.00 1.82
2588 8390 3.444805 GCGAGAGAGGGAGCACGT 61.445 66.667 0.00 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.