Multiple sequence alignment - TraesCS7B01G097800

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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 TraesCS7B01G097800 chr7B 100.000 2850 0 0 1 2850 112889786 112892635 0.000000e+00 5264.0
1 TraesCS7B01G097800 chr7B 97.006 167 5 0 2684 2850 610530272 610530438 6.010000e-72 281.0
2 TraesCS7B01G097800 chr7B 83.721 301 43 6 556 853 703714598 703714301 2.160000e-71 279.0
3 TraesCS7B01G097800 chr7B 95.062 81 4 0 2206 2286 54051367 54051287 8.290000e-26 128.0
4 TraesCS7B01G097800 chr7D 93.697 2015 75 26 1 1994 150832732 150834715 0.000000e+00 2970.0
5 TraesCS7B01G097800 chr7D 92.462 398 10 3 1993 2378 150834923 150835312 4.150000e-153 551.0
6 TraesCS7B01G097800 chr7D 85.237 359 47 3 3 355 431894192 431894550 5.800000e-97 364.0
7 TraesCS7B01G097800 chr7D 86.957 299 33 6 560 853 478316677 478316380 5.890000e-87 331.0
8 TraesCS7B01G097800 chr7D 88.186 237 27 1 2431 2667 150835438 150835673 6.010000e-72 281.0
9 TraesCS7B01G097800 chr7D 81.081 370 42 16 6 355 58260156 58259795 1.300000e-68 270.0
10 TraesCS7B01G097800 chr7D 100.000 54 0 0 2376 2429 150835331 150835384 1.810000e-17 100.0
11 TraesCS7B01G097800 chr4B 97.880 1321 26 2 1060 2378 402867480 402868800 0.000000e+00 2283.0
12 TraesCS7B01G097800 chr4B 97.522 807 19 1 1060 1866 402842635 402843440 0.000000e+00 1378.0
13 TraesCS7B01G097800 chr4B 94.702 604 10 2 1849 2430 402858176 402858779 0.000000e+00 918.0
14 TraesCS7B01G097800 chr4B 95.745 235 10 0 2431 2665 402858832 402859066 2.070000e-101 379.0
15 TraesCS7B01G097800 chr4B 95.745 235 10 0 2431 2665 402868926 402869160 2.070000e-101 379.0
16 TraesCS7B01G097800 chr4B 98.204 167 3 0 2684 2850 554198822 554198988 2.780000e-75 292.0
17 TraesCS7B01G097800 chr4B 97.006 167 5 0 2684 2850 95363411 95363245 6.010000e-72 281.0
18 TraesCS7B01G097800 chr4B 95.062 81 4 0 2206 2286 495566465 495566545 8.290000e-26 128.0
19 TraesCS7B01G097800 chr4B 98.182 55 1 0 2376 2430 402868819 402868873 2.340000e-16 97.1
20 TraesCS7B01G097800 chr5B 83.510 849 79 37 957 1785 631479603 631480410 0.000000e+00 736.0
21 TraesCS7B01G097800 chr5B 83.467 375 38 11 6 359 563550772 563551143 7.610000e-86 327.0
22 TraesCS7B01G097800 chr5B 85.619 299 30 8 561 853 621298628 621298919 4.610000e-78 302.0
23 TraesCS7B01G097800 chr5B 97.605 167 4 0 2684 2850 541956873 541957039 1.290000e-73 287.0
24 TraesCS7B01G097800 chr5B 83.333 306 30 10 964 1260 629771524 629771817 2.180000e-66 263.0
25 TraesCS7B01G097800 chr5B 90.964 166 14 1 1787 1952 631480651 631480815 3.700000e-54 222.0
26 TraesCS7B01G097800 chr5B 87.037 162 17 3 2431 2591 608192735 608192577 2.260000e-41 180.0
27 TraesCS7B01G097800 chr5B 95.062 81 4 0 2206 2286 567278493 567278573 8.290000e-26 128.0
28 TraesCS7B01G097800 chr5D 90.600 500 20 16 1294 1780 502702139 502702624 3.100000e-179 638.0
29 TraesCS7B01G097800 chr5D 82.906 234 26 9 1415 1645 502698707 502698929 6.230000e-47 198.0
30 TraesCS7B01G097800 chr5D 88.199 161 19 0 2431 2591 404767303 404767463 2.900000e-45 193.0
31 TraesCS7B01G097800 chr5D 88.608 158 16 2 2436 2592 246658880 246658724 1.040000e-44 191.0
32 TraesCS7B01G097800 chr5A 86.146 628 34 22 1325 1950 631359813 631360389 1.860000e-176 628.0
33 TraesCS7B01G097800 chr5A 81.203 266 31 11 1386 1644 631354312 631354565 2.240000e-46 196.0
34 TraesCS7B01G097800 chr5A 87.037 162 20 1 2431 2592 647398338 647398498 6.270000e-42 182.0
35 TraesCS7B01G097800 chr5A 78.261 345 26 28 1058 1392 631353429 631353734 2.920000e-40 176.0
36 TraesCS7B01G097800 chr5A 86.928 153 12 6 994 1138 631359298 631359450 6.320000e-37 165.0
37 TraesCS7B01G097800 chr6B 85.326 368 39 8 7 359 66828132 66828499 1.610000e-97 366.0
38 TraesCS7B01G097800 chr6B 98.204 167 3 0 2684 2850 633801540 633801706 2.780000e-75 292.0
39 TraesCS7B01G097800 chr6B 97.605 167 4 0 2684 2850 633489654 633489820 1.290000e-73 287.0
40 TraesCS7B01G097800 chr1A 85.629 334 46 1 6 337 577714878 577714545 1.620000e-92 350.0
41 TraesCS7B01G097800 chr1A 95.062 81 4 0 2206 2286 94579394 94579474 8.290000e-26 128.0
42 TraesCS7B01G097800 chr1A 95.062 81 4 0 2206 2286 94665437 94665357 8.290000e-26 128.0
43 TraesCS7B01G097800 chr6A 84.127 378 39 9 3 359 570489461 570489838 2.100000e-91 346.0
44 TraesCS7B01G097800 chr3D 87.171 304 28 7 559 854 250022621 250022921 4.550000e-88 335.0
45 TraesCS7B01G097800 chr3D 83.065 372 44 9 3 355 598713331 598713702 1.270000e-83 320.0
46 TraesCS7B01G097800 chr2D 82.667 375 44 11 1 355 129356729 129356356 2.130000e-81 313.0
47 TraesCS7B01G097800 chr2D 88.312 154 18 0 2436 2589 309156055 309155902 4.850000e-43 185.0
48 TraesCS7B01G097800 chr6D 85.382 301 34 6 560 854 467194458 467194754 1.280000e-78 303.0
49 TraesCS7B01G097800 chr3B 82.432 370 44 5 6 355 223960124 223960492 1.280000e-78 303.0
50 TraesCS7B01G097800 chr1B 98.204 167 3 0 2684 2850 661020711 661020877 2.780000e-75 292.0
51 TraesCS7B01G097800 chr1B 97.024 168 4 1 2684 2850 83646202 83646369 6.010000e-72 281.0
52 TraesCS7B01G097800 chr1B 95.062 81 4 0 2206 2286 672539723 672539803 8.290000e-26 128.0
53 TraesCS7B01G097800 chr7A 84.459 296 40 5 560 853 64702567 64702276 1.290000e-73 287.0
54 TraesCS7B01G097800 chr7A 84.000 300 43 5 557 853 76831805 76832102 1.670000e-72 283.0
55 TraesCS7B01G097800 chr2B 81.572 369 49 8 6 355 109289913 109289545 1.290000e-73 287.0
56 TraesCS7B01G097800 chr2B 97.605 167 4 0 2684 2850 756918633 756918467 1.290000e-73 287.0
57 TraesCS7B01G097800 chr2A 84.333 300 36 7 563 853 718727617 718727914 1.670000e-72 283.0
58 TraesCS7B01G097800 chr3A 80.912 351 43 10 27 355 451202181 451201833 3.640000e-64 255.0
59 TraesCS7B01G097800 chr4A 77.904 353 52 10 27 355 56272474 56272124 2.240000e-46 196.0
60 TraesCS7B01G097800 chr4D 88.199 161 19 0 2431 2591 432420385 432420545 2.900000e-45 193.0
61 TraesCS7B01G097800 chr4D 79.297 256 38 8 6 247 337133953 337133699 6.320000e-37 165.0


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 TraesCS7B01G097800 chr7B 112889786 112892635 2849 False 5264.0 5264 100.00000 1 2850 1 chr7B.!!$F1 2849
1 TraesCS7B01G097800 chr7D 150832732 150835673 2941 False 975.5 2970 93.58625 1 2667 4 chr7D.!!$F2 2666
2 TraesCS7B01G097800 chr4B 402842635 402843440 805 False 1378.0 1378 97.52200 1060 1866 1 chr4B.!!$F1 806
3 TraesCS7B01G097800 chr4B 402867480 402869160 1680 False 919.7 2283 97.26900 1060 2665 3 chr4B.!!$F5 1605
4 TraesCS7B01G097800 chr4B 402858176 402859066 890 False 648.5 918 95.22350 1849 2665 2 chr4B.!!$F4 816
5 TraesCS7B01G097800 chr5B 631479603 631480815 1212 False 479.0 736 87.23700 957 1952 2 chr5B.!!$F6 995
6 TraesCS7B01G097800 chr5D 502698707 502702624 3917 False 418.0 638 86.75300 1294 1780 2 chr5D.!!$F2 486
7 TraesCS7B01G097800 chr5A 631359298 631360389 1091 False 396.5 628 86.53700 994 1950 2 chr5A.!!$F3 956

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
786 789 0.323629 AAGGGTGGGATGTACACGTG 59.676 55.0 15.48 15.48 39.69 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2693 5430 0.108804 TAGGCAAGACTAGTGCGTGC 60.109 55.0 17.97 17.97 43.18 5.34 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
117 118 1.889829 AGGCATCGATGTAGCTACTCC 59.110 52.381 25.47 15.34 0.00 3.85
143 144 1.795170 GCTTTTCTTGCCGTGCTCCA 61.795 55.000 0.00 0.00 0.00 3.86
181 182 7.809546 ATCTAGTTTAGATCAGACGATGACA 57.190 36.000 0.00 0.00 41.55 3.58
192 193 0.736636 ACGATGACAACGCTATCCGA 59.263 50.000 4.88 0.00 41.02 4.55
194 195 1.533129 CGATGACAACGCTATCCGACA 60.533 52.381 0.00 0.00 41.02 4.35
210 211 1.079127 ACATCGCGTTCCCTCTTGG 60.079 57.895 5.77 0.00 0.00 3.61
236 237 0.763652 CATCCTGGAGGTGGATCTGG 59.236 60.000 1.52 0.00 41.94 3.86
310 311 1.912417 TGTATGGTTTTTGGGTCCGG 58.088 50.000 0.00 0.00 0.00 5.14
340 341 1.518367 AAACTGGACCAACCCTCTCA 58.482 50.000 0.00 0.00 38.00 3.27
365 366 9.577110 CATGTTCAATGAATTTAGCAATAGTGT 57.423 29.630 0.00 0.00 0.00 3.55
448 450 0.908198 GATGGAGAGGAGCACCAAGT 59.092 55.000 2.07 0.00 40.75 3.16
468 470 5.310720 AGTAGATTTCGAAAAATGGGTGC 57.689 39.130 15.66 0.31 35.21 5.01
470 472 2.233676 AGATTTCGAAAAATGGGTGCCC 59.766 45.455 15.66 0.00 35.21 5.36
492 494 1.655372 CACCCCACCCATTTTCCAAT 58.345 50.000 0.00 0.00 0.00 3.16
542 545 0.539051 CACTGTGACTCCCCTCATCC 59.461 60.000 0.32 0.00 0.00 3.51
589 592 3.244911 ACTTGTGGTTGGATGGTTAGAGG 60.245 47.826 0.00 0.00 0.00 3.69
594 597 3.053693 TGGTTGGATGGTTAGAGGGATTG 60.054 47.826 0.00 0.00 0.00 2.67
727 730 3.479489 ACGGGGTGACTTCGTAAATTTT 58.521 40.909 0.00 0.00 38.11 1.82
770 773 4.509600 GTCTTTTCGGAGATGCTCATAAGG 59.490 45.833 0.00 0.00 35.04 2.69
773 776 1.688735 TCGGAGATGCTCATAAGGGTG 59.311 52.381 0.00 0.00 31.08 4.61
776 779 2.050144 GAGATGCTCATAAGGGTGGGA 58.950 52.381 0.00 0.00 0.00 4.37
780 783 2.770447 TGCTCATAAGGGTGGGATGTA 58.230 47.619 0.00 0.00 0.00 2.29
782 785 2.438021 GCTCATAAGGGTGGGATGTACA 59.562 50.000 0.00 0.00 0.00 2.90
784 787 2.432874 TCATAAGGGTGGGATGTACACG 59.567 50.000 0.00 0.00 39.69 4.49
785 788 1.941377 TAAGGGTGGGATGTACACGT 58.059 50.000 0.00 0.00 39.69 4.49
786 789 0.323629 AAGGGTGGGATGTACACGTG 59.676 55.000 15.48 15.48 39.69 4.49
787 790 0.834687 AGGGTGGGATGTACACGTGT 60.835 55.000 26.52 26.52 39.69 4.49
788 791 0.896923 GGGTGGGATGTACACGTGTA 59.103 55.000 24.10 24.10 39.69 2.90
789 792 1.483415 GGGTGGGATGTACACGTGTAT 59.517 52.381 29.58 17.26 39.69 2.29
790 793 2.546778 GGTGGGATGTACACGTGTATG 58.453 52.381 29.58 0.00 39.69 2.39
791 794 2.093869 GGTGGGATGTACACGTGTATGT 60.094 50.000 29.58 20.89 39.69 2.29
792 795 3.592059 GTGGGATGTACACGTGTATGTT 58.408 45.455 29.58 17.63 33.85 2.71
793 796 3.615496 GTGGGATGTACACGTGTATGTTC 59.385 47.826 29.58 23.40 33.85 3.18
794 797 3.258622 TGGGATGTACACGTGTATGTTCA 59.741 43.478 29.58 22.30 34.82 3.18
795 798 4.081365 TGGGATGTACACGTGTATGTTCAT 60.081 41.667 29.58 25.48 41.60 2.57
796 799 4.873827 GGGATGTACACGTGTATGTTCATT 59.126 41.667 29.58 13.12 39.74 2.57
797 800 5.220586 GGGATGTACACGTGTATGTTCATTG 60.221 44.000 29.58 0.00 39.74 2.82
798 801 5.220586 GGATGTACACGTGTATGTTCATTGG 60.221 44.000 29.58 0.00 39.74 3.16
799 802 3.997681 TGTACACGTGTATGTTCATTGGG 59.002 43.478 29.58 0.00 33.85 4.12
800 803 3.410631 ACACGTGTATGTTCATTGGGA 57.589 42.857 21.98 0.00 0.00 4.37
801 804 3.950397 ACACGTGTATGTTCATTGGGAT 58.050 40.909 21.98 0.00 0.00 3.85
802 805 3.689161 ACACGTGTATGTTCATTGGGATG 59.311 43.478 21.98 0.00 34.46 3.51
811 814 3.947196 TGTTCATTGGGATGAGTGTATGC 59.053 43.478 0.00 0.00 42.90 3.14
824 827 5.521544 TGAGTGTATGCGCGTGTATATAAA 58.478 37.500 13.61 0.00 0.00 1.40
835 838 5.556690 CGTGTATATAAACGCTTGAGTCC 57.443 43.478 12.35 0.00 32.40 3.85
842 845 0.672342 AACGCTTGAGTCCGTACTGT 59.328 50.000 0.00 0.00 35.56 3.55
918 922 1.153369 CGGCACCCTGGATGTGTAG 60.153 63.158 0.00 0.00 36.11 2.74
933 937 4.585526 TAGCGGGCGATTCAGCGG 62.586 66.667 0.00 0.00 38.18 5.52
1156 1186 0.187851 AGTCCCTACCCCGATCGATT 59.812 55.000 18.66 2.28 0.00 3.34
1414 3608 1.304052 TGCCTTTCGTCATTGGGGG 60.304 57.895 0.00 0.00 0.00 5.40
1663 3857 7.281549 GTCAAGTAGGTTTTCAGGAACTTACAA 59.718 37.037 11.05 0.00 41.72 2.41
1664 3858 7.996644 TCAAGTAGGTTTTCAGGAACTTACAAT 59.003 33.333 11.05 0.14 41.72 2.71
1955 4396 5.068198 GCATGGACACACTGGATTTATCATT 59.932 40.000 0.00 0.00 0.00 2.57
2334 4998 0.955905 TAGCCCAGCCGTTTTTGTTC 59.044 50.000 0.00 0.00 0.00 3.18
2434 5171 7.335171 GTCCCGTGTGTTTATTTAGTCCTAAAT 59.665 37.037 14.74 14.74 44.95 1.40
2502 5239 4.020396 TCCAAAATGCAACATATGGCAAGT 60.020 37.500 10.18 0.56 44.20 3.16
2539 5276 0.440371 GCTGCAGTTTAGCGTGTCTC 59.560 55.000 16.64 0.00 37.31 3.36
2550 5287 1.005748 CGTGTCTCTTGGAGCAGCA 60.006 57.895 0.00 0.00 0.00 4.41
2638 5375 7.359598 CGTGGCTATTTTGAGATGCTCTAATAC 60.360 40.741 0.00 0.00 0.00 1.89
2667 5404 3.868077 CGAAAAGAGAGGGCAGATAACTG 59.132 47.826 0.00 0.00 45.91 3.16
2680 5417 5.351233 CAGATAACTGCTACTACCTCTCG 57.649 47.826 0.00 0.00 37.33 4.04
2681 5418 4.214545 CAGATAACTGCTACTACCTCTCGG 59.785 50.000 0.00 0.00 37.33 4.63
2682 5419 1.765230 AACTGCTACTACCTCTCGGG 58.235 55.000 0.00 0.00 41.89 5.14
2691 5428 3.373226 CCTCTCGGGTTGTTCGGA 58.627 61.111 0.00 0.00 0.00 4.55
2692 5429 1.215647 CCTCTCGGGTTGTTCGGAG 59.784 63.158 0.00 0.00 36.03 4.63
2693 5430 1.215647 CTCTCGGGTTGTTCGGAGG 59.784 63.158 0.00 0.00 35.60 4.30
2694 5431 2.434359 CTCGGGTTGTTCGGAGGC 60.434 66.667 0.00 0.00 32.58 4.70
2695 5432 3.234630 CTCGGGTTGTTCGGAGGCA 62.235 63.158 0.00 0.00 32.58 4.75
2696 5433 3.047877 CGGGTTGTTCGGAGGCAC 61.048 66.667 0.00 0.00 0.00 5.01
2697 5434 3.047877 GGGTTGTTCGGAGGCACG 61.048 66.667 0.00 0.00 0.00 5.34
2698 5435 3.723348 GGTTGTTCGGAGGCACGC 61.723 66.667 0.00 0.00 0.00 5.34
2699 5436 2.970324 GTTGTTCGGAGGCACGCA 60.970 61.111 0.00 0.00 0.00 5.24
2700 5437 2.970324 TTGTTCGGAGGCACGCAC 60.970 61.111 0.00 0.00 0.00 5.34
2701 5438 3.454587 TTGTTCGGAGGCACGCACT 62.455 57.895 6.07 0.00 31.39 4.40
2702 5439 2.089887 TTGTTCGGAGGCACGCACTA 62.090 55.000 6.07 0.00 31.39 2.74
2703 5440 1.805945 GTTCGGAGGCACGCACTAG 60.806 63.158 0.00 0.00 0.00 2.57
2704 5441 2.273179 TTCGGAGGCACGCACTAGT 61.273 57.895 0.00 0.00 0.00 2.57
2705 5442 2.202623 CGGAGGCACGCACTAGTC 60.203 66.667 0.00 0.00 0.00 2.59
2706 5443 2.701780 CGGAGGCACGCACTAGTCT 61.702 63.158 0.00 0.00 0.00 3.24
2707 5444 1.592223 GGAGGCACGCACTAGTCTT 59.408 57.895 0.00 0.00 0.00 3.01
2708 5445 0.737715 GGAGGCACGCACTAGTCTTG 60.738 60.000 0.00 0.00 0.00 3.02
2709 5446 1.355066 GAGGCACGCACTAGTCTTGC 61.355 60.000 10.24 10.24 36.57 4.01
2710 5447 2.391389 GGCACGCACTAGTCTTGCC 61.391 63.158 18.58 18.58 45.64 4.52
2711 5448 1.374758 GCACGCACTAGTCTTGCCT 60.375 57.895 8.18 0.00 36.57 4.75
2712 5449 0.108804 GCACGCACTAGTCTTGCCTA 60.109 55.000 8.18 0.00 36.57 3.93
2713 5450 1.471676 GCACGCACTAGTCTTGCCTAT 60.472 52.381 8.18 0.00 36.57 2.57
2714 5451 2.196749 CACGCACTAGTCTTGCCTATG 58.803 52.381 0.00 0.00 36.57 2.23
2715 5452 1.137086 ACGCACTAGTCTTGCCTATGG 59.863 52.381 0.00 0.00 36.57 2.74
2716 5453 1.409064 CGCACTAGTCTTGCCTATGGA 59.591 52.381 0.00 0.00 36.57 3.41
2717 5454 2.036475 CGCACTAGTCTTGCCTATGGAT 59.964 50.000 0.00 0.00 36.57 3.41
2718 5455 3.493350 CGCACTAGTCTTGCCTATGGATT 60.493 47.826 0.00 0.00 36.57 3.01
2719 5456 3.812053 GCACTAGTCTTGCCTATGGATTG 59.188 47.826 0.00 0.00 33.58 2.67
2720 5457 4.384056 CACTAGTCTTGCCTATGGATTGG 58.616 47.826 0.00 0.00 0.00 3.16
2721 5458 3.392616 ACTAGTCTTGCCTATGGATTGGG 59.607 47.826 0.00 0.00 0.00 4.12
2722 5459 1.133668 AGTCTTGCCTATGGATTGGGC 60.134 52.381 0.00 0.00 45.45 5.36
2725 5462 4.507969 GCCTATGGATTGGGCAGG 57.492 61.111 0.00 0.00 44.69 4.85
2726 5463 1.538666 GCCTATGGATTGGGCAGGT 59.461 57.895 0.00 0.00 44.69 4.00
2727 5464 0.825010 GCCTATGGATTGGGCAGGTG 60.825 60.000 0.00 0.00 44.69 4.00
2728 5465 0.552848 CCTATGGATTGGGCAGGTGT 59.447 55.000 0.00 0.00 0.00 4.16
2729 5466 1.477558 CCTATGGATTGGGCAGGTGTC 60.478 57.143 0.00 0.00 0.00 3.67
2730 5467 1.492176 CTATGGATTGGGCAGGTGTCT 59.508 52.381 0.00 0.00 0.00 3.41
2731 5468 0.257039 ATGGATTGGGCAGGTGTCTC 59.743 55.000 0.00 0.00 0.00 3.36
2732 5469 1.077429 GGATTGGGCAGGTGTCTCC 60.077 63.158 0.00 0.00 0.00 3.71
2733 5470 1.077429 GATTGGGCAGGTGTCTCCC 60.077 63.158 0.00 0.00 40.47 4.30
2734 5471 2.876368 GATTGGGCAGGTGTCTCCCG 62.876 65.000 0.00 0.00 42.98 5.14
2738 5475 3.637273 GCAGGTGTCTCCCGGGTT 61.637 66.667 22.86 0.00 36.75 4.11
2739 5476 2.347490 CAGGTGTCTCCCGGGTTG 59.653 66.667 22.86 15.12 36.75 3.77
2740 5477 2.122547 AGGTGTCTCCCGGGTTGT 60.123 61.111 22.86 0.00 36.75 3.32
2741 5478 1.768888 AGGTGTCTCCCGGGTTGTT 60.769 57.895 22.86 0.00 36.75 2.83
2742 5479 1.149854 GGTGTCTCCCGGGTTGTTT 59.850 57.895 22.86 0.00 0.00 2.83
2743 5480 1.170290 GGTGTCTCCCGGGTTGTTTG 61.170 60.000 22.86 5.26 0.00 2.93
2744 5481 0.179040 GTGTCTCCCGGGTTGTTTGA 60.179 55.000 22.86 7.61 0.00 2.69
2745 5482 0.768622 TGTCTCCCGGGTTGTTTGAT 59.231 50.000 22.86 0.00 0.00 2.57
2746 5483 1.165270 GTCTCCCGGGTTGTTTGATG 58.835 55.000 22.86 0.94 0.00 3.07
2747 5484 0.608035 TCTCCCGGGTTGTTTGATGC 60.608 55.000 22.86 0.00 0.00 3.91
2748 5485 1.922135 CTCCCGGGTTGTTTGATGCG 61.922 60.000 22.86 0.00 0.00 4.73
2749 5486 2.126502 CCGGGTTGTTTGATGCGC 60.127 61.111 0.00 0.00 0.00 6.09
2750 5487 2.642129 CGGGTTGTTTGATGCGCA 59.358 55.556 14.96 14.96 0.00 6.09
2751 5488 1.212490 CGGGTTGTTTGATGCGCAT 59.788 52.632 25.66 25.66 0.00 4.73
2752 5489 0.388391 CGGGTTGTTTGATGCGCATT 60.388 50.000 26.12 8.31 0.00 3.56
2753 5490 1.070038 GGGTTGTTTGATGCGCATTG 58.930 50.000 26.12 0.00 0.00 2.82
2754 5491 1.070038 GGTTGTTTGATGCGCATTGG 58.930 50.000 26.12 0.00 0.00 3.16
2755 5492 1.605202 GGTTGTTTGATGCGCATTGGT 60.605 47.619 26.12 1.47 0.00 3.67
2756 5493 2.134346 GTTGTTTGATGCGCATTGGTT 58.866 42.857 26.12 0.98 0.00 3.67
2757 5494 1.780806 TGTTTGATGCGCATTGGTTG 58.219 45.000 26.12 0.00 0.00 3.77
2758 5495 1.070038 GTTTGATGCGCATTGGTTGG 58.930 50.000 26.12 0.00 0.00 3.77
2759 5496 0.964700 TTTGATGCGCATTGGTTGGA 59.035 45.000 26.12 3.98 0.00 3.53
2760 5497 0.964700 TTGATGCGCATTGGTTGGAA 59.035 45.000 26.12 6.21 0.00 3.53
2761 5498 1.184431 TGATGCGCATTGGTTGGAAT 58.816 45.000 26.12 0.00 0.00 3.01
2762 5499 1.549620 TGATGCGCATTGGTTGGAATT 59.450 42.857 26.12 0.00 0.00 2.17
2763 5500 2.028294 TGATGCGCATTGGTTGGAATTT 60.028 40.909 26.12 0.00 0.00 1.82
2764 5501 1.793258 TGCGCATTGGTTGGAATTTG 58.207 45.000 5.66 0.00 0.00 2.32
2765 5502 1.069823 TGCGCATTGGTTGGAATTTGT 59.930 42.857 5.66 0.00 0.00 2.83
2766 5503 1.460359 GCGCATTGGTTGGAATTTGTG 59.540 47.619 0.30 0.00 0.00 3.33
2767 5504 2.753296 CGCATTGGTTGGAATTTGTGT 58.247 42.857 0.00 0.00 0.00 3.72
2768 5505 3.129871 CGCATTGGTTGGAATTTGTGTT 58.870 40.909 0.00 0.00 0.00 3.32
2769 5506 3.559242 CGCATTGGTTGGAATTTGTGTTT 59.441 39.130 0.00 0.00 0.00 2.83
2770 5507 4.552378 CGCATTGGTTGGAATTTGTGTTTG 60.552 41.667 0.00 0.00 0.00 2.93
2771 5508 4.789161 GCATTGGTTGGAATTTGTGTTTGC 60.789 41.667 0.00 0.00 0.00 3.68
2772 5509 3.616956 TGGTTGGAATTTGTGTTTGCA 57.383 38.095 0.00 0.00 0.00 4.08
2773 5510 3.265791 TGGTTGGAATTTGTGTTTGCAC 58.734 40.909 0.00 0.00 45.44 4.57
2774 5511 3.055530 TGGTTGGAATTTGTGTTTGCACT 60.056 39.130 0.00 0.00 45.44 4.40
2775 5512 3.555547 GGTTGGAATTTGTGTTTGCACTC 59.444 43.478 0.00 0.00 45.44 3.51
2776 5513 4.180057 GTTGGAATTTGTGTTTGCACTCA 58.820 39.130 0.00 0.00 45.44 3.41
2777 5514 4.044336 TGGAATTTGTGTTTGCACTCAG 57.956 40.909 0.00 0.00 45.44 3.35
2778 5515 3.446873 TGGAATTTGTGTTTGCACTCAGT 59.553 39.130 0.00 0.00 45.44 3.41
2779 5516 4.081752 TGGAATTTGTGTTTGCACTCAGTT 60.082 37.500 0.00 0.00 45.44 3.16
2780 5517 4.504097 GGAATTTGTGTTTGCACTCAGTTC 59.496 41.667 0.00 0.00 45.44 3.01
2781 5518 2.823196 TTGTGTTTGCACTCAGTTCG 57.177 45.000 0.00 0.00 45.44 3.95
2782 5519 1.013596 TGTGTTTGCACTCAGTTCGG 58.986 50.000 0.00 0.00 45.44 4.30
2783 5520 0.307760 GTGTTTGCACTCAGTTCGGG 59.692 55.000 0.00 0.00 42.13 5.14
2784 5521 0.817634 TGTTTGCACTCAGTTCGGGG 60.818 55.000 0.00 0.00 0.00 5.73
2785 5522 1.228124 TTTGCACTCAGTTCGGGGG 60.228 57.895 0.00 0.00 0.00 5.40
2786 5523 1.990160 TTTGCACTCAGTTCGGGGGT 61.990 55.000 0.00 0.00 0.00 4.95
2787 5524 2.358737 GCACTCAGTTCGGGGGTG 60.359 66.667 0.00 0.00 0.00 4.61
2788 5525 2.879233 GCACTCAGTTCGGGGGTGA 61.879 63.158 0.00 0.00 0.00 4.02
2789 5526 1.752198 CACTCAGTTCGGGGGTGAA 59.248 57.895 0.00 0.00 0.00 3.18
2790 5527 0.602905 CACTCAGTTCGGGGGTGAAC 60.603 60.000 0.00 0.00 46.78 3.18
2795 5532 3.407443 GTTCGGGGGTGAACTTTGA 57.593 52.632 0.00 0.00 43.82 2.69
2796 5533 1.235724 GTTCGGGGGTGAACTTTGAG 58.764 55.000 0.00 0.00 43.82 3.02
2797 5534 0.109723 TTCGGGGGTGAACTTTGAGG 59.890 55.000 0.00 0.00 0.00 3.86
2798 5535 1.303317 CGGGGGTGAACTTTGAGGG 60.303 63.158 0.00 0.00 0.00 4.30
2799 5536 1.851267 GGGGGTGAACTTTGAGGGT 59.149 57.895 0.00 0.00 0.00 4.34
2800 5537 1.069775 GGGGGTGAACTTTGAGGGTA 58.930 55.000 0.00 0.00 0.00 3.69
2801 5538 1.426215 GGGGGTGAACTTTGAGGGTAA 59.574 52.381 0.00 0.00 0.00 2.85
2802 5539 2.158430 GGGGGTGAACTTTGAGGGTAAA 60.158 50.000 0.00 0.00 0.00 2.01
2803 5540 3.501568 GGGGGTGAACTTTGAGGGTAAAT 60.502 47.826 0.00 0.00 0.00 1.40
2804 5541 4.157246 GGGGTGAACTTTGAGGGTAAATT 58.843 43.478 0.00 0.00 0.00 1.82
2805 5542 4.591498 GGGGTGAACTTTGAGGGTAAATTT 59.409 41.667 0.00 0.00 0.00 1.82
2806 5543 5.510690 GGGGTGAACTTTGAGGGTAAATTTG 60.511 44.000 0.00 0.00 0.00 2.32
2807 5544 5.303333 GGGTGAACTTTGAGGGTAAATTTGA 59.697 40.000 0.00 0.00 0.00 2.69
2808 5545 6.447162 GGTGAACTTTGAGGGTAAATTTGAG 58.553 40.000 0.00 0.00 0.00 3.02
2809 5546 6.447162 GTGAACTTTGAGGGTAAATTTGAGG 58.553 40.000 0.00 0.00 0.00 3.86
2810 5547 6.040504 GTGAACTTTGAGGGTAAATTTGAGGT 59.959 38.462 0.00 0.00 0.00 3.85
2811 5548 6.264518 TGAACTTTGAGGGTAAATTTGAGGTC 59.735 38.462 0.00 0.00 0.00 3.85
2812 5549 4.760204 ACTTTGAGGGTAAATTTGAGGTCG 59.240 41.667 0.00 0.00 0.00 4.79
2813 5550 2.706890 TGAGGGTAAATTTGAGGTCGC 58.293 47.619 0.00 0.00 0.00 5.19
2814 5551 1.664151 GAGGGTAAATTTGAGGTCGCG 59.336 52.381 0.00 0.00 0.00 5.87
2815 5552 0.730840 GGGTAAATTTGAGGTCGCGG 59.269 55.000 6.13 0.00 0.00 6.46
2816 5553 1.445871 GGTAAATTTGAGGTCGCGGT 58.554 50.000 6.13 0.00 0.00 5.68
2817 5554 2.620242 GGTAAATTTGAGGTCGCGGTA 58.380 47.619 6.13 0.00 0.00 4.02
2818 5555 2.606272 GGTAAATTTGAGGTCGCGGTAG 59.394 50.000 6.13 0.00 0.00 3.18
2819 5556 2.467566 AAATTTGAGGTCGCGGTAGT 57.532 45.000 6.13 0.00 0.00 2.73
2820 5557 2.467566 AATTTGAGGTCGCGGTAGTT 57.532 45.000 6.13 0.00 0.00 2.24
2821 5558 1.722011 ATTTGAGGTCGCGGTAGTTG 58.278 50.000 6.13 0.00 0.00 3.16
2822 5559 0.947180 TTTGAGGTCGCGGTAGTTGC 60.947 55.000 6.13 0.00 0.00 4.17
2823 5560 2.508663 GAGGTCGCGGTAGTTGCC 60.509 66.667 6.13 0.00 0.00 4.52
2824 5561 3.291101 GAGGTCGCGGTAGTTGCCA 62.291 63.158 6.13 0.00 0.00 4.92
2825 5562 2.125269 GGTCGCGGTAGTTGCCAT 60.125 61.111 6.13 0.00 0.00 4.40
2826 5563 1.743995 GGTCGCGGTAGTTGCCATT 60.744 57.895 6.13 0.00 0.00 3.16
2827 5564 1.423845 GTCGCGGTAGTTGCCATTG 59.576 57.895 6.13 0.00 0.00 2.82
2828 5565 1.017177 GTCGCGGTAGTTGCCATTGA 61.017 55.000 6.13 0.00 0.00 2.57
2829 5566 0.320858 TCGCGGTAGTTGCCATTGAA 60.321 50.000 6.13 0.00 0.00 2.69
2830 5567 0.179200 CGCGGTAGTTGCCATTGAAC 60.179 55.000 0.00 0.00 0.00 3.18
2831 5568 0.170339 GCGGTAGTTGCCATTGAACC 59.830 55.000 0.00 0.00 0.00 3.62
2832 5569 0.808755 CGGTAGTTGCCATTGAACCC 59.191 55.000 0.00 0.00 0.00 4.11
2833 5570 1.613255 CGGTAGTTGCCATTGAACCCT 60.613 52.381 0.00 0.00 0.00 4.34
2834 5571 2.355310 CGGTAGTTGCCATTGAACCCTA 60.355 50.000 0.00 0.00 0.00 3.53
2835 5572 3.279434 GGTAGTTGCCATTGAACCCTAG 58.721 50.000 0.00 0.00 0.00 3.02
2836 5573 3.054655 GGTAGTTGCCATTGAACCCTAGA 60.055 47.826 0.00 0.00 0.00 2.43
2837 5574 4.385310 GGTAGTTGCCATTGAACCCTAGAT 60.385 45.833 0.00 0.00 0.00 1.98
2838 5575 3.891049 AGTTGCCATTGAACCCTAGATC 58.109 45.455 0.00 0.00 0.00 2.75
2839 5576 3.525199 AGTTGCCATTGAACCCTAGATCT 59.475 43.478 0.00 0.00 0.00 2.75
2840 5577 4.721776 AGTTGCCATTGAACCCTAGATCTA 59.278 41.667 1.69 1.69 0.00 1.98
2841 5578 4.963318 TGCCATTGAACCCTAGATCTAG 57.037 45.455 21.04 21.04 0.00 2.43
2842 5579 4.298626 TGCCATTGAACCCTAGATCTAGT 58.701 43.478 24.80 9.68 0.00 2.57
2843 5580 4.721776 TGCCATTGAACCCTAGATCTAGTT 59.278 41.667 24.80 16.01 0.00 2.24
2844 5581 5.903010 TGCCATTGAACCCTAGATCTAGTTA 59.097 40.000 24.80 4.43 0.00 2.24
2845 5582 6.042093 TGCCATTGAACCCTAGATCTAGTTAG 59.958 42.308 24.80 16.48 0.00 2.34
2846 5583 6.042208 GCCATTGAACCCTAGATCTAGTTAGT 59.958 42.308 24.80 17.03 0.00 2.24
2847 5584 7.419172 GCCATTGAACCCTAGATCTAGTTAGTT 60.419 40.741 24.80 22.73 0.00 2.24
2848 5585 7.928706 CCATTGAACCCTAGATCTAGTTAGTTG 59.071 40.741 24.80 14.40 0.00 3.16
2849 5586 7.419711 TTGAACCCTAGATCTAGTTAGTTGG 57.580 40.000 24.80 19.64 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.636893 ACACAGTTCAAGCTCAGGATCT 59.363 45.455 0.00 0.00 0.00 2.75
16 17 1.611977 CCGTCTCACCTACACAGTTCA 59.388 52.381 0.00 0.00 0.00 3.18
88 89 0.103026 CATCGATGCCTCCAACGAGA 59.897 55.000 13.37 0.00 46.87 4.04
117 118 0.318955 CGGCAAGAAAAGCAAGGTGG 60.319 55.000 0.00 0.00 0.00 4.61
171 172 1.268589 CGGATAGCGTTGTCATCGTCT 60.269 52.381 5.28 5.60 0.00 4.18
179 180 0.870307 GCGATGTCGGATAGCGTTGT 60.870 55.000 13.61 0.00 40.23 3.32
181 182 1.657487 CGCGATGTCGGATAGCGTT 60.657 57.895 13.61 0.00 44.96 4.84
192 193 1.079127 CCAAGAGGGAACGCGATGT 60.079 57.895 15.93 0.00 40.01 3.06
210 211 2.276740 CCTCCAGGATGTTGCCCC 59.723 66.667 0.00 0.00 37.39 5.80
211 212 1.379044 CACCTCCAGGATGTTGCCC 60.379 63.158 0.00 0.00 38.94 5.36
236 237 0.892063 GAGTCACAGGTCCCTCTGAC 59.108 60.000 12.32 12.32 40.63 3.51
248 249 1.000274 CACACATCCTCACGAGTCACA 60.000 52.381 0.00 0.00 0.00 3.58
284 285 2.055100 CCAAAAACCATACAAACGGCG 58.945 47.619 4.80 4.80 0.00 6.46
310 311 5.278808 GGTTGGTCCAGTTTATGAGGAAAAC 60.279 44.000 0.00 0.00 37.14 2.43
387 388 1.613437 ACCGTTTCAAGCATTTGAGGG 59.387 47.619 0.00 0.00 43.76 4.30
448 450 4.712122 GGCACCCATTTTTCGAAATCTA 57.288 40.909 12.12 0.90 0.00 1.98
470 472 1.612146 GAAAATGGGTGGGGTGGGG 60.612 63.158 0.00 0.00 0.00 4.96
474 476 1.894978 CGATTGGAAAATGGGTGGGGT 60.895 52.381 0.00 0.00 0.00 4.95
477 479 0.179140 CGCGATTGGAAAATGGGTGG 60.179 55.000 0.00 0.00 0.00 4.61
478 480 0.808125 TCGCGATTGGAAAATGGGTG 59.192 50.000 3.71 0.00 0.00 4.61
479 481 0.808755 GTCGCGATTGGAAAATGGGT 59.191 50.000 14.06 0.00 0.00 4.51
480 482 0.808125 TGTCGCGATTGGAAAATGGG 59.192 50.000 14.06 0.00 0.00 4.00
481 483 1.467374 GGTGTCGCGATTGGAAAATGG 60.467 52.381 14.06 0.00 0.00 3.16
542 545 0.591236 CGCAACCTGACACCGTTTTG 60.591 55.000 0.00 0.00 0.00 2.44
589 592 2.441750 TGGGCTAGGAATACCACAATCC 59.558 50.000 0.00 0.00 38.94 3.01
727 730 7.526142 AAGACTGAGCCGACATATTATCTTA 57.474 36.000 0.00 0.00 0.00 2.10
770 773 2.093869 ACATACACGTGTACATCCCACC 60.094 50.000 29.54 0.00 32.72 4.61
773 776 3.852286 TGAACATACACGTGTACATCCC 58.148 45.455 29.54 17.42 32.72 3.85
776 779 4.634004 CCCAATGAACATACACGTGTACAT 59.366 41.667 29.54 23.25 32.72 2.29
780 783 3.410631 TCCCAATGAACATACACGTGT 57.589 42.857 26.52 26.52 0.00 4.49
782 785 4.191544 CTCATCCCAATGAACATACACGT 58.808 43.478 0.00 0.00 41.33 4.49
784 787 4.943705 ACACTCATCCCAATGAACATACAC 59.056 41.667 0.00 0.00 41.33 2.90
785 788 5.178096 ACACTCATCCCAATGAACATACA 57.822 39.130 0.00 0.00 41.33 2.29
786 789 6.293626 GCATACACTCATCCCAATGAACATAC 60.294 42.308 0.00 0.00 41.33 2.39
787 790 5.764686 GCATACACTCATCCCAATGAACATA 59.235 40.000 0.00 0.00 41.33 2.29
788 791 4.581824 GCATACACTCATCCCAATGAACAT 59.418 41.667 0.00 0.00 41.33 2.71
789 792 3.947196 GCATACACTCATCCCAATGAACA 59.053 43.478 0.00 0.00 41.33 3.18
790 793 3.002656 CGCATACACTCATCCCAATGAAC 59.997 47.826 0.00 0.00 41.33 3.18
791 794 3.205338 CGCATACACTCATCCCAATGAA 58.795 45.455 0.00 0.00 41.33 2.57
792 795 2.837498 CGCATACACTCATCCCAATGA 58.163 47.619 0.00 0.00 39.63 2.57
793 796 1.265095 GCGCATACACTCATCCCAATG 59.735 52.381 0.30 0.00 0.00 2.82
794 797 1.597742 GCGCATACACTCATCCCAAT 58.402 50.000 0.30 0.00 0.00 3.16
795 798 0.809636 CGCGCATACACTCATCCCAA 60.810 55.000 8.75 0.00 0.00 4.12
796 799 1.227234 CGCGCATACACTCATCCCA 60.227 57.895 8.75 0.00 0.00 4.37
797 800 1.227263 ACGCGCATACACTCATCCC 60.227 57.895 5.73 0.00 0.00 3.85
798 801 0.806102 ACACGCGCATACACTCATCC 60.806 55.000 5.73 0.00 0.00 3.51
799 802 1.835121 TACACGCGCATACACTCATC 58.165 50.000 5.73 0.00 0.00 2.92
800 803 2.509052 ATACACGCGCATACACTCAT 57.491 45.000 5.73 0.00 0.00 2.90
801 804 3.636282 ATATACACGCGCATACACTCA 57.364 42.857 5.73 0.00 0.00 3.41
802 805 5.441099 CGTTTATATACACGCGCATACACTC 60.441 44.000 5.73 0.00 0.00 3.51
824 827 0.039437 CACAGTACGGACTCAAGCGT 60.039 55.000 0.00 0.00 31.73 5.07
863 866 0.472925 TGACTGTAGGAGGGCCACAA 60.473 55.000 6.18 0.00 36.29 3.33
1156 1186 3.006537 CGTGGAGAAGAACCTACCTTTCA 59.993 47.826 0.00 0.00 0.00 2.69
1414 3608 0.179169 GGTCAGGTCGTCGAAGTAGC 60.179 60.000 0.00 0.00 0.00 3.58
1663 3857 4.726035 ATGATGCATCCTCTTCTTCCAT 57.274 40.909 23.67 4.39 0.00 3.41
1664 3858 4.504514 GCTATGATGCATCCTCTTCTTCCA 60.505 45.833 23.67 1.96 0.00 3.53
1955 4396 4.591321 AGCCCTCATCTTCATGGTAAAA 57.409 40.909 0.00 0.00 0.00 1.52
2434 5171 9.409312 CAAACATCAAAACAAGACATAGCATAA 57.591 29.630 0.00 0.00 0.00 1.90
2539 5276 2.541120 GCGCCTATGCTGCTCCAAG 61.541 63.158 0.00 0.00 35.24 3.61
2550 5287 4.672542 CGCTGCAAAATATAATGCGCCTAT 60.673 41.667 4.18 4.51 45.47 2.57
2638 5375 1.807142 GCCCTCTCTTTTCGAGTTTGG 59.193 52.381 0.00 0.00 40.75 3.28
2675 5412 1.215647 CCTCCGAACAACCCGAGAG 59.784 63.158 0.00 0.00 0.00 3.20
2676 5413 2.939261 GCCTCCGAACAACCCGAGA 61.939 63.158 0.00 0.00 0.00 4.04
2677 5414 2.434359 GCCTCCGAACAACCCGAG 60.434 66.667 0.00 0.00 0.00 4.63
2678 5415 3.235481 TGCCTCCGAACAACCCGA 61.235 61.111 0.00 0.00 0.00 5.14
2679 5416 3.047877 GTGCCTCCGAACAACCCG 61.048 66.667 0.00 0.00 0.00 5.28
2680 5417 3.047877 CGTGCCTCCGAACAACCC 61.048 66.667 0.00 0.00 0.00 4.11
2681 5418 3.723348 GCGTGCCTCCGAACAACC 61.723 66.667 0.00 0.00 0.00 3.77
2682 5419 2.970324 TGCGTGCCTCCGAACAAC 60.970 61.111 0.00 0.00 0.00 3.32
2683 5420 2.089887 TAGTGCGTGCCTCCGAACAA 62.090 55.000 2.08 0.00 38.91 2.83
2684 5421 2.486636 CTAGTGCGTGCCTCCGAACA 62.487 60.000 2.08 0.00 38.91 3.18
2685 5422 1.805945 CTAGTGCGTGCCTCCGAAC 60.806 63.158 0.00 0.00 36.60 3.95
2686 5423 2.209064 GACTAGTGCGTGCCTCCGAA 62.209 60.000 0.00 0.00 0.00 4.30
2687 5424 2.675423 ACTAGTGCGTGCCTCCGA 60.675 61.111 0.00 0.00 0.00 4.55
2688 5425 2.202623 GACTAGTGCGTGCCTCCG 60.203 66.667 0.00 0.00 0.00 4.63
2689 5426 0.737715 CAAGACTAGTGCGTGCCTCC 60.738 60.000 0.00 0.00 0.00 4.30
2690 5427 1.355066 GCAAGACTAGTGCGTGCCTC 61.355 60.000 16.44 0.00 35.22 4.70
2691 5428 1.374758 GCAAGACTAGTGCGTGCCT 60.375 57.895 16.44 0.00 35.22 4.75
2692 5429 3.169198 GCAAGACTAGTGCGTGCC 58.831 61.111 16.44 0.00 35.22 5.01
2693 5430 0.108804 TAGGCAAGACTAGTGCGTGC 60.109 55.000 17.97 17.97 43.18 5.34
2694 5431 2.196749 CATAGGCAAGACTAGTGCGTG 58.803 52.381 0.00 2.09 43.18 5.34
2695 5432 1.137086 CCATAGGCAAGACTAGTGCGT 59.863 52.381 0.00 1.84 43.18 5.24
2696 5433 1.409064 TCCATAGGCAAGACTAGTGCG 59.591 52.381 0.00 0.00 43.18 5.34
2697 5434 3.760580 ATCCATAGGCAAGACTAGTGC 57.239 47.619 0.00 0.00 41.45 4.40
2698 5435 4.384056 CCAATCCATAGGCAAGACTAGTG 58.616 47.826 0.00 0.00 0.00 2.74
2699 5436 3.392616 CCCAATCCATAGGCAAGACTAGT 59.607 47.826 0.00 0.00 0.00 2.57
2700 5437 3.808618 GCCCAATCCATAGGCAAGACTAG 60.809 52.174 0.00 0.00 46.34 2.57
2701 5438 2.106511 GCCCAATCCATAGGCAAGACTA 59.893 50.000 0.00 0.00 46.34 2.59
2702 5439 1.133668 GCCCAATCCATAGGCAAGACT 60.134 52.381 0.00 0.00 46.34 3.24
2703 5440 1.322442 GCCCAATCCATAGGCAAGAC 58.678 55.000 0.00 0.00 46.34 3.01
2704 5441 3.827505 GCCCAATCCATAGGCAAGA 57.172 52.632 0.00 0.00 46.34 3.02
2709 5446 0.552848 ACACCTGCCCAATCCATAGG 59.447 55.000 0.00 0.00 34.70 2.57
2710 5447 1.492176 AGACACCTGCCCAATCCATAG 59.508 52.381 0.00 0.00 0.00 2.23
2711 5448 1.490490 GAGACACCTGCCCAATCCATA 59.510 52.381 0.00 0.00 0.00 2.74
2712 5449 0.257039 GAGACACCTGCCCAATCCAT 59.743 55.000 0.00 0.00 0.00 3.41
2713 5450 1.685224 GAGACACCTGCCCAATCCA 59.315 57.895 0.00 0.00 0.00 3.41
2714 5451 1.077429 GGAGACACCTGCCCAATCC 60.077 63.158 0.00 0.00 35.41 3.01
2715 5452 1.077429 GGGAGACACCTGCCCAATC 60.077 63.158 0.00 0.00 44.29 2.67
2716 5453 2.971598 CGGGAGACACCTGCCCAAT 61.972 63.158 0.00 0.00 46.98 3.16
2717 5454 3.636231 CGGGAGACACCTGCCCAA 61.636 66.667 0.00 0.00 46.98 4.12
2721 5458 3.637273 AACCCGGGAGACACCTGC 61.637 66.667 32.02 0.00 43.37 4.85
2722 5459 2.052047 AACAACCCGGGAGACACCTG 62.052 60.000 32.02 13.99 44.27 4.00
2723 5460 1.350310 AAACAACCCGGGAGACACCT 61.350 55.000 32.02 0.00 38.98 4.00
2724 5461 1.149854 AAACAACCCGGGAGACACC 59.850 57.895 32.02 0.00 38.08 4.16
2725 5462 0.179040 TCAAACAACCCGGGAGACAC 60.179 55.000 32.02 0.00 0.00 3.67
2726 5463 0.768622 ATCAAACAACCCGGGAGACA 59.231 50.000 32.02 3.86 0.00 3.41
2727 5464 1.165270 CATCAAACAACCCGGGAGAC 58.835 55.000 32.02 0.00 0.00 3.36
2728 5465 0.608035 GCATCAAACAACCCGGGAGA 60.608 55.000 32.02 14.75 0.00 3.71
2729 5466 1.883021 GCATCAAACAACCCGGGAG 59.117 57.895 32.02 21.88 0.00 4.30
2730 5467 1.969064 CGCATCAAACAACCCGGGA 60.969 57.895 32.02 1.69 0.00 5.14
2731 5468 2.566010 CGCATCAAACAACCCGGG 59.434 61.111 22.25 22.25 0.00 5.73
2732 5469 2.126502 GCGCATCAAACAACCCGG 60.127 61.111 0.30 0.00 0.00 5.73
2733 5470 0.388391 AATGCGCATCAAACAACCCG 60.388 50.000 25.53 0.00 0.00 5.28
2734 5471 1.070038 CAATGCGCATCAAACAACCC 58.930 50.000 25.53 0.00 0.00 4.11
2735 5472 1.070038 CCAATGCGCATCAAACAACC 58.930 50.000 25.53 0.00 0.00 3.77
2736 5473 1.782044 ACCAATGCGCATCAAACAAC 58.218 45.000 25.53 0.00 0.00 3.32
2737 5474 2.133553 CAACCAATGCGCATCAAACAA 58.866 42.857 25.53 0.00 0.00 2.83
2738 5475 1.604947 CCAACCAATGCGCATCAAACA 60.605 47.619 25.53 0.00 0.00 2.83
2739 5476 1.070038 CCAACCAATGCGCATCAAAC 58.930 50.000 25.53 0.00 0.00 2.93
2740 5477 0.964700 TCCAACCAATGCGCATCAAA 59.035 45.000 25.53 2.41 0.00 2.69
2741 5478 0.964700 TTCCAACCAATGCGCATCAA 59.035 45.000 25.53 5.25 0.00 2.57
2742 5479 1.184431 ATTCCAACCAATGCGCATCA 58.816 45.000 25.53 0.00 0.00 3.07
2743 5480 2.298411 AATTCCAACCAATGCGCATC 57.702 45.000 25.53 0.00 0.00 3.91
2744 5481 2.289569 ACAAATTCCAACCAATGCGCAT 60.290 40.909 19.28 19.28 0.00 4.73
2745 5482 1.069823 ACAAATTCCAACCAATGCGCA 59.930 42.857 14.96 14.96 0.00 6.09
2746 5483 1.460359 CACAAATTCCAACCAATGCGC 59.540 47.619 0.00 0.00 0.00 6.09
2747 5484 2.753296 ACACAAATTCCAACCAATGCG 58.247 42.857 0.00 0.00 0.00 4.73
2748 5485 4.789161 GCAAACACAAATTCCAACCAATGC 60.789 41.667 0.00 0.00 0.00 3.56
2749 5486 4.334759 TGCAAACACAAATTCCAACCAATG 59.665 37.500 0.00 0.00 0.00 2.82
2750 5487 4.335037 GTGCAAACACAAATTCCAACCAAT 59.665 37.500 0.00 0.00 46.61 3.16
2751 5488 3.686726 GTGCAAACACAAATTCCAACCAA 59.313 39.130 0.00 0.00 46.61 3.67
2752 5489 3.265791 GTGCAAACACAAATTCCAACCA 58.734 40.909 0.00 0.00 46.61 3.67
2753 5490 3.942539 GTGCAAACACAAATTCCAACC 57.057 42.857 0.00 0.00 46.61 3.77
2765 5502 0.817634 CCCCGAACTGAGTGCAAACA 60.818 55.000 0.00 0.00 0.00 2.83
2766 5503 1.515521 CCCCCGAACTGAGTGCAAAC 61.516 60.000 0.00 0.00 0.00 2.93
2767 5504 1.228124 CCCCCGAACTGAGTGCAAA 60.228 57.895 0.00 0.00 0.00 3.68
2768 5505 2.429930 CCCCCGAACTGAGTGCAA 59.570 61.111 0.00 0.00 0.00 4.08
2769 5506 2.847234 ACCCCCGAACTGAGTGCA 60.847 61.111 0.00 0.00 0.00 4.57
2770 5507 2.358737 CACCCCCGAACTGAGTGC 60.359 66.667 0.00 0.00 0.00 4.40
2771 5508 0.602905 GTTCACCCCCGAACTGAGTG 60.603 60.000 0.00 0.00 41.70 3.51
2772 5509 1.752833 GTTCACCCCCGAACTGAGT 59.247 57.895 0.00 0.00 41.70 3.41
2773 5510 4.695560 GTTCACCCCCGAACTGAG 57.304 61.111 0.00 0.00 41.70 3.35
2777 5514 1.235724 CTCAAAGTTCACCCCCGAAC 58.764 55.000 0.00 0.00 44.63 3.95
2778 5515 0.109723 CCTCAAAGTTCACCCCCGAA 59.890 55.000 0.00 0.00 0.00 4.30
2779 5516 1.758592 CCTCAAAGTTCACCCCCGA 59.241 57.895 0.00 0.00 0.00 5.14
2780 5517 1.303317 CCCTCAAAGTTCACCCCCG 60.303 63.158 0.00 0.00 0.00 5.73
2781 5518 1.069775 TACCCTCAAAGTTCACCCCC 58.930 55.000 0.00 0.00 0.00 5.40
2782 5519 2.963599 TTACCCTCAAAGTTCACCCC 57.036 50.000 0.00 0.00 0.00 4.95
2783 5520 5.303333 TCAAATTTACCCTCAAAGTTCACCC 59.697 40.000 0.00 0.00 0.00 4.61
2784 5521 6.399639 TCAAATTTACCCTCAAAGTTCACC 57.600 37.500 0.00 0.00 0.00 4.02
2785 5522 6.040504 ACCTCAAATTTACCCTCAAAGTTCAC 59.959 38.462 0.00 0.00 0.00 3.18
2786 5523 6.133356 ACCTCAAATTTACCCTCAAAGTTCA 58.867 36.000 0.00 0.00 0.00 3.18
2787 5524 6.567891 CGACCTCAAATTTACCCTCAAAGTTC 60.568 42.308 0.00 0.00 0.00 3.01
2788 5525 5.240844 CGACCTCAAATTTACCCTCAAAGTT 59.759 40.000 0.00 0.00 0.00 2.66
2789 5526 4.760204 CGACCTCAAATTTACCCTCAAAGT 59.240 41.667 0.00 0.00 0.00 2.66
2790 5527 4.379499 GCGACCTCAAATTTACCCTCAAAG 60.379 45.833 0.00 0.00 0.00 2.77
2791 5528 3.504520 GCGACCTCAAATTTACCCTCAAA 59.495 43.478 0.00 0.00 0.00 2.69
2792 5529 3.078837 GCGACCTCAAATTTACCCTCAA 58.921 45.455 0.00 0.00 0.00 3.02
2793 5530 2.706890 GCGACCTCAAATTTACCCTCA 58.293 47.619 0.00 0.00 0.00 3.86
2794 5531 1.664151 CGCGACCTCAAATTTACCCTC 59.336 52.381 0.00 0.00 0.00 4.30
2795 5532 1.677820 CCGCGACCTCAAATTTACCCT 60.678 52.381 8.23 0.00 0.00 4.34
2796 5533 0.730840 CCGCGACCTCAAATTTACCC 59.269 55.000 8.23 0.00 0.00 3.69
2797 5534 1.445871 ACCGCGACCTCAAATTTACC 58.554 50.000 8.23 0.00 0.00 2.85
2798 5535 3.256558 ACTACCGCGACCTCAAATTTAC 58.743 45.455 8.23 0.00 0.00 2.01
2799 5536 3.598019 ACTACCGCGACCTCAAATTTA 57.402 42.857 8.23 0.00 0.00 1.40
2800 5537 2.467566 ACTACCGCGACCTCAAATTT 57.532 45.000 8.23 0.00 0.00 1.82
2801 5538 2.073816 CAACTACCGCGACCTCAAATT 58.926 47.619 8.23 0.00 0.00 1.82
2802 5539 1.722011 CAACTACCGCGACCTCAAAT 58.278 50.000 8.23 0.00 0.00 2.32
2803 5540 0.947180 GCAACTACCGCGACCTCAAA 60.947 55.000 8.23 0.00 0.00 2.69
2804 5541 1.373748 GCAACTACCGCGACCTCAA 60.374 57.895 8.23 0.00 0.00 3.02
2805 5542 2.260434 GCAACTACCGCGACCTCA 59.740 61.111 8.23 0.00 0.00 3.86
2806 5543 2.508663 GGCAACTACCGCGACCTC 60.509 66.667 8.23 0.00 0.00 3.85
2807 5544 2.180159 AATGGCAACTACCGCGACCT 62.180 55.000 8.23 0.00 37.61 3.85
2808 5545 1.743995 AATGGCAACTACCGCGACC 60.744 57.895 8.23 0.00 37.61 4.79
2809 5546 1.017177 TCAATGGCAACTACCGCGAC 61.017 55.000 8.23 0.00 37.61 5.19
2810 5547 0.320858 TTCAATGGCAACTACCGCGA 60.321 50.000 8.23 0.00 37.61 5.87
2811 5548 0.179200 GTTCAATGGCAACTACCGCG 60.179 55.000 0.00 0.00 37.61 6.46
2812 5549 0.170339 GGTTCAATGGCAACTACCGC 59.830 55.000 0.00 0.00 37.61 5.68
2813 5550 0.808755 GGGTTCAATGGCAACTACCG 59.191 55.000 0.00 0.00 37.61 4.02
2814 5551 2.215942 AGGGTTCAATGGCAACTACC 57.784 50.000 0.00 0.00 37.61 3.18
2815 5552 4.216411 TCTAGGGTTCAATGGCAACTAC 57.784 45.455 0.00 0.00 37.61 2.73
2816 5553 4.721776 AGATCTAGGGTTCAATGGCAACTA 59.278 41.667 0.00 0.00 37.61 2.24
2817 5554 3.525199 AGATCTAGGGTTCAATGGCAACT 59.475 43.478 0.00 0.00 37.61 3.16
2818 5555 3.891049 AGATCTAGGGTTCAATGGCAAC 58.109 45.455 0.00 0.00 0.00 4.17
2819 5556 4.721776 ACTAGATCTAGGGTTCAATGGCAA 59.278 41.667 29.03 0.00 37.49 4.52
2820 5557 4.298626 ACTAGATCTAGGGTTCAATGGCA 58.701 43.478 29.03 0.00 37.49 4.92
2821 5558 4.965200 ACTAGATCTAGGGTTCAATGGC 57.035 45.455 29.03 0.00 37.49 4.40
2822 5559 7.604657 ACTAACTAGATCTAGGGTTCAATGG 57.395 40.000 29.03 12.73 37.49 3.16
2823 5560 7.928706 CCAACTAACTAGATCTAGGGTTCAATG 59.071 40.741 29.03 18.60 37.49 2.82
2824 5561 8.024145 CCAACTAACTAGATCTAGGGTTCAAT 57.976 38.462 29.03 7.70 37.49 2.57
2825 5562 7.419711 CCAACTAACTAGATCTAGGGTTCAA 57.580 40.000 29.03 10.13 37.49 2.69


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

AutoCloner maintained by Alex Coulton.