Multiple sequence alignment - TraesCS7B01G193200

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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 TraesCS7B01G193200 chr7B 100.000 7246 0 0 1 7246 332158366 332165611 0.000000e+00 13381.0
1 TraesCS7B01G193200 chr7B 89.888 623 45 12 5808 6429 332238632 332239237 0.000000e+00 785.0
2 TraesCS7B01G193200 chr7B 100.000 119 0 0 7128 7246 531907071 531906953 3.400000e-53 220.0
3 TraesCS7B01G193200 chr7B 100.000 119 0 0 7128 7246 531911903 531912021 3.400000e-53 220.0
4 TraesCS7B01G193200 chr7B 88.166 169 14 1 5003 5171 332238476 332238638 5.730000e-46 196.0
5 TraesCS7B01G193200 chr7A 93.906 5711 257 54 742 6417 195742318 195736664 0.000000e+00 8534.0
6 TraesCS7B01G193200 chr7A 87.922 770 79 9 1 759 195743110 195742344 0.000000e+00 894.0
7 TraesCS7B01G193200 chr7A 82.702 792 83 27 1 786 195748271 195747528 0.000000e+00 654.0
8 TraesCS7B01G193200 chr7A 87.706 545 54 10 5808 6351 195645802 195645270 2.220000e-174 623.0
9 TraesCS7B01G193200 chr7A 91.813 171 14 0 5001 5171 195645966 195645796 9.390000e-59 239.0
10 TraesCS7B01G193200 chr7A 85.714 217 11 10 777 978 195747569 195747358 2.050000e-50 211.0
11 TraesCS7B01G193200 chr7D 93.945 4690 207 38 1582 6250 188299441 188304074 0.000000e+00 7016.0
12 TraesCS7B01G193200 chr7D 94.745 666 28 3 854 1517 188298688 188299348 0.000000e+00 1029.0
13 TraesCS7B01G193200 chr7D 86.093 755 77 10 1 745 188297535 188298271 0.000000e+00 787.0
14 TraesCS7B01G193200 chr7D 80.934 792 82 33 6417 7191 53626917 53626178 4.910000e-156 562.0
15 TraesCS7B01G193200 chr7D 80.451 133 13 7 2828 2958 188579141 188579262 1.000000e-13 89.8
16 TraesCS7B01G193200 chr2A 93.780 836 39 8 6417 7246 434580337 434581165 0.000000e+00 1243.0
17 TraesCS7B01G193200 chr2A 82.444 581 52 28 6416 6977 475536265 475536814 5.120000e-126 462.0
18 TraesCS7B01G193200 chr2A 85.714 175 14 7 6775 6938 731082617 731082791 2.690000e-39 174.0
19 TraesCS7B01G193200 chr4A 91.880 665 29 10 6416 7078 654904823 654904182 0.000000e+00 905.0
20 TraesCS7B01G193200 chr6D 82.705 584 58 22 6417 6985 17473513 17472958 5.080000e-131 479.0
21 TraesCS7B01G193200 chr6D 93.750 80 4 1 6876 6954 432367125 432367046 1.280000e-22 119.0
22 TraesCS7B01G193200 chr6D 90.476 63 6 0 2888 2950 101257658 101257720 4.660000e-12 84.2
23 TraesCS7B01G193200 chr1B 82.245 597 59 25 6407 6985 590257549 590256982 8.510000e-129 472.0
24 TraesCS7B01G193200 chr6B 81.942 587 62 22 6415 6985 640572529 640571971 2.380000e-124 457.0
25 TraesCS7B01G193200 chr6B 91.566 83 6 1 6873 6954 652330458 652330540 5.940000e-21 113.0
26 TraesCS7B01G193200 chr6B 82.400 125 10 6 2827 2950 185678559 185678672 1.660000e-16 99.0
27 TraesCS7B01G193200 chr3A 80.880 591 71 19 6410 6985 651156344 651155781 1.870000e-115 427.0
28 TraesCS7B01G193200 chr3A 79.725 582 51 32 6415 6985 258465245 258464720 6.910000e-95 359.0
29 TraesCS7B01G193200 chr3A 83.893 149 19 2 2831 2979 423678349 423678206 3.530000e-28 137.0
30 TraesCS7B01G193200 chr5A 81.239 581 44 23 6416 6985 166900886 166901412 6.770000e-110 409.0
31 TraesCS7B01G193200 chr5A 80.513 585 44 26 6414 6985 619214445 619214972 1.140000e-102 385.0
32 TraesCS7B01G193200 chr6A 81.717 361 31 18 6635 6985 597702782 597702447 1.200000e-67 268.0
33 TraesCS7B01G193200 chr6A 93.750 80 4 1 6876 6954 578506008 578505929 1.280000e-22 119.0
34 TraesCS7B01G193200 chr5D 80.531 339 35 14 6855 7191 549016329 549016020 1.570000e-56 231.0
35 TraesCS7B01G193200 chr5D 80.000 100 18 2 2881 2978 515255019 515255118 1.010000e-08 73.1
36 TraesCS7B01G193200 chr5B 79.670 182 34 3 480 659 653819942 653819762 2.120000e-25 128.0
37 TraesCS7B01G193200 chr5B 81.169 154 22 7 480 629 657194595 657194745 4.590000e-22 117.0


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 TraesCS7B01G193200 chr7B 332158366 332165611 7245 False 13381.0 13381 100.000000 1 7246 1 chr7B.!!$F1 7245
1 TraesCS7B01G193200 chr7B 332238476 332239237 761 False 490.5 785 89.027000 5003 6429 2 chr7B.!!$F3 1426
2 TraesCS7B01G193200 chr7A 195736664 195743110 6446 True 4714.0 8534 90.914000 1 6417 2 chr7A.!!$R2 6416
3 TraesCS7B01G193200 chr7A 195747358 195748271 913 True 432.5 654 84.208000 1 978 2 chr7A.!!$R3 977
4 TraesCS7B01G193200 chr7A 195645270 195645966 696 True 431.0 623 89.759500 5001 6351 2 chr7A.!!$R1 1350
5 TraesCS7B01G193200 chr7D 188297535 188304074 6539 False 2944.0 7016 91.594333 1 6250 3 chr7D.!!$F2 6249
6 TraesCS7B01G193200 chr7D 53626178 53626917 739 True 562.0 562 80.934000 6417 7191 1 chr7D.!!$R1 774
7 TraesCS7B01G193200 chr2A 434580337 434581165 828 False 1243.0 1243 93.780000 6417 7246 1 chr2A.!!$F1 829
8 TraesCS7B01G193200 chr2A 475536265 475536814 549 False 462.0 462 82.444000 6416 6977 1 chr2A.!!$F2 561
9 TraesCS7B01G193200 chr4A 654904182 654904823 641 True 905.0 905 91.880000 6416 7078 1 chr4A.!!$R1 662
10 TraesCS7B01G193200 chr6D 17472958 17473513 555 True 479.0 479 82.705000 6417 6985 1 chr6D.!!$R1 568
11 TraesCS7B01G193200 chr1B 590256982 590257549 567 True 472.0 472 82.245000 6407 6985 1 chr1B.!!$R1 578
12 TraesCS7B01G193200 chr6B 640571971 640572529 558 True 457.0 457 81.942000 6415 6985 1 chr6B.!!$R1 570
13 TraesCS7B01G193200 chr3A 651155781 651156344 563 True 427.0 427 80.880000 6410 6985 1 chr3A.!!$R3 575
14 TraesCS7B01G193200 chr3A 258464720 258465245 525 True 359.0 359 79.725000 6415 6985 1 chr3A.!!$R1 570
15 TraesCS7B01G193200 chr5A 166900886 166901412 526 False 409.0 409 81.239000 6416 6985 1 chr5A.!!$F1 569
16 TraesCS7B01G193200 chr5A 619214445 619214972 527 False 385.0 385 80.513000 6414 6985 1 chr5A.!!$F2 571

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
230 240 0.324943 CTGGAACCTCACCGGAATGT 59.675 55.000 9.46 0.0 35.98 2.71 F
1758 2265 0.106769 TTGGTTTGCACCTGCTCTGA 60.107 50.000 0.00 0.0 44.61 3.27 F
1950 2458 0.110104 GGGCTGATCATTGGGAGGAG 59.890 60.000 0.00 0.0 0.00 3.69 F
2559 3074 0.312102 GGCACTCAGCTTTGGTTCAC 59.688 55.000 0.00 0.0 44.79 3.18 F
2894 3410 0.035152 TGACGCCTAAGGGACGACTA 60.035 55.000 0.00 0.0 36.50 2.59 F
2972 3488 1.631388 TCCAAGACGGGATGCCTTAAA 59.369 47.619 0.28 0.0 34.36 1.52 F
4316 4839 1.698532 CAGAGCCTGCTATCCATCCTT 59.301 52.381 0.00 0.0 0.00 3.36 F
4735 5260 1.888512 GTGGCATTTTCTTCCAGCTGA 59.111 47.619 17.39 0.0 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 2437 0.554792 CCTCCCAATGATCAGCCCTT 59.445 55.000 0.09 0.00 0.00 3.95 R
2891 3407 0.107459 GCCTGCCTTAGCTGCTTAGT 60.107 55.000 7.79 0.00 40.80 2.24 R
2892 3408 0.107508 TGCCTGCCTTAGCTGCTTAG 60.108 55.000 7.79 8.28 40.80 2.18 R
4142 4664 1.466167 CAACTCGCCAAGAAGGACATG 59.534 52.381 0.00 0.00 41.22 3.21 R
4614 5139 1.214424 AGGCCAACAGTAACAACCACT 59.786 47.619 5.01 0.00 0.00 4.00 R
4953 5478 3.073274 AGTAAACCCTTGTCCATGCTC 57.927 47.619 0.00 0.00 0.00 4.26 R
6195 6726 0.108281 GGAGCGTAGAAAGGGGTGTC 60.108 60.000 0.00 0.00 0.00 3.67 R
6268 6799 0.179166 CGCAGTTTGCCGCAATATGT 60.179 50.000 6.64 0.00 41.12 2.29 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
23 24 1.073284 GAACACCAACAGCTCCCCTAA 59.927 52.381 0.00 0.00 0.00 2.69
28 29 2.025887 ACCAACAGCTCCCCTAAATCTG 60.026 50.000 0.00 0.00 0.00 2.90
31 32 3.922171 ACAGCTCCCCTAAATCTGAAG 57.078 47.619 0.00 0.00 0.00 3.02
61 62 0.766131 TTACGAGAAGTTGGGGGCAA 59.234 50.000 0.00 0.00 0.00 4.52
83 84 1.518367 AACCTCTCCAACAGTTCCCA 58.482 50.000 0.00 0.00 0.00 4.37
86 88 3.464828 ACCTCTCCAACAGTTCCCATAT 58.535 45.455 0.00 0.00 0.00 1.78
144 146 4.929211 GCATTTTCTTCCCGCAAGTTTATT 59.071 37.500 0.00 0.00 33.27 1.40
145 147 5.408299 GCATTTTCTTCCCGCAAGTTTATTT 59.592 36.000 0.00 0.00 33.27 1.40
197 199 2.294512 GCTAGCAACTGCCTGAAACTTT 59.705 45.455 10.63 0.00 43.38 2.66
221 223 2.416107 CTTGCCCTGCTGGAACCTCA 62.416 60.000 11.88 0.00 35.39 3.86
230 240 0.324943 CTGGAACCTCACCGGAATGT 59.675 55.000 9.46 0.00 35.98 2.71
241 251 1.153901 CGGAATGTCGCCGTACTGT 60.154 57.895 0.00 0.00 43.66 3.55
327 367 4.920112 CCGACGCCCAACACACCA 62.920 66.667 0.00 0.00 0.00 4.17
331 371 2.518349 CGCCCAACACACCACCTT 60.518 61.111 0.00 0.00 0.00 3.50
334 374 2.721231 CCAACACACCACCTTGCG 59.279 61.111 0.00 0.00 0.00 4.85
344 384 2.606519 ACCTTGCGCTACCCCTCA 60.607 61.111 9.73 0.00 0.00 3.86
464 505 5.237815 GGAAAAATAAAAGTTGCTCCCAGG 58.762 41.667 0.00 0.00 0.00 4.45
536 580 4.928263 TCCACATGTGATGGGATACAAAA 58.072 39.130 27.46 0.00 37.85 2.44
606 650 7.336427 AGAGAATGAGAAAACTTGGCTAATCTG 59.664 37.037 0.00 0.00 0.00 2.90
607 651 5.573337 ATGAGAAAACTTGGCTAATCTGC 57.427 39.130 0.00 0.00 0.00 4.26
640 684 5.068723 CCATTAGATGCTCTGCCTTCAAAAT 59.931 40.000 0.00 0.00 0.00 1.82
641 685 5.571784 TTAGATGCTCTGCCTTCAAAATG 57.428 39.130 0.00 0.00 0.00 2.32
689 734 7.492352 TCAATGCTTGATCTCACTAATGATG 57.508 36.000 0.00 0.00 34.08 3.07
748 793 3.305964 TCACTACTTGCTTCGAAAGACG 58.694 45.455 0.00 0.00 41.84 4.18
817 1267 7.483580 TTTTTGAGGGAAAAACAACTTCCTA 57.516 32.000 1.88 0.00 41.86 2.94
818 1268 7.483580 TTTTGAGGGAAAAACAACTTCCTAA 57.516 32.000 1.88 0.00 41.86 2.69
819 1269 6.459670 TTGAGGGAAAAACAACTTCCTAAC 57.540 37.500 1.88 0.00 41.86 2.34
820 1270 5.762279 TGAGGGAAAAACAACTTCCTAACT 58.238 37.500 1.88 0.00 41.86 2.24
821 1271 5.826208 TGAGGGAAAAACAACTTCCTAACTC 59.174 40.000 1.88 1.71 41.86 3.01
822 1272 6.014771 AGGGAAAAACAACTTCCTAACTCT 57.985 37.500 1.88 0.00 41.86 3.24
826 1276 7.068348 GGGAAAAACAACTTCCTAACTCTTCTT 59.932 37.037 1.88 0.00 41.86 2.52
847 1297 1.215382 CCCTTCGTGCGATGAGACA 59.785 57.895 8.70 0.00 0.00 3.41
899 1359 3.657634 CTGGCTCATATGAAGCGTACAT 58.342 45.455 6.90 0.00 0.00 2.29
908 1368 2.627945 TGAAGCGTACATAGCCCAAAG 58.372 47.619 0.00 0.00 34.64 2.77
998 1459 1.946768 AGCATCTGTAGCGACTCTCTC 59.053 52.381 0.00 0.00 37.01 3.20
1001 1462 2.031258 TCTGTAGCGACTCTCTCCAG 57.969 55.000 0.00 0.00 0.00 3.86
1038 1499 0.464554 GCTTCCTTCATCTTCCCGGG 60.465 60.000 16.85 16.85 0.00 5.73
1117 1580 2.648613 ATCCGCACAAACCCCCAACA 62.649 55.000 0.00 0.00 0.00 3.33
1304 1767 2.233922 GTGGATCGACCTCTTCCTGAAA 59.766 50.000 3.79 0.00 39.86 2.69
1329 1792 1.278985 TGCCATCCTTCAGGTACAGTG 59.721 52.381 0.00 0.00 36.34 3.66
1385 1849 2.094494 TGATTCTCACTTCAGCTCGTCC 60.094 50.000 0.00 0.00 0.00 4.79
1388 1852 0.172352 CTCACTTCAGCTCGTCCTCC 59.828 60.000 0.00 0.00 0.00 4.30
1674 2173 5.244626 GGCTATGATTAATTTGCAGGTGGAT 59.755 40.000 0.00 0.00 0.00 3.41
1724 2223 5.483685 TGGTACTTGCAGACAGTAATTCT 57.516 39.130 0.00 0.00 0.00 2.40
1747 2246 2.287644 GTGTCAGGCAATTTTGGTTTGC 59.712 45.455 0.00 0.00 46.82 3.68
1753 2252 1.002576 GCAATTTTGGTTTGCACCTGC 60.003 47.619 3.68 0.00 46.78 4.85
1754 2253 2.563702 CAATTTTGGTTTGCACCTGCT 58.436 42.857 0.00 0.00 44.61 4.24
1755 2254 2.531522 ATTTTGGTTTGCACCTGCTC 57.468 45.000 0.00 0.00 44.61 4.26
1758 2265 0.106769 TTGGTTTGCACCTGCTCTGA 60.107 50.000 0.00 0.00 44.61 3.27
1779 2286 4.586421 TGACAAACCAATTACTGATGGCAA 59.414 37.500 0.00 0.00 40.51 4.52
1832 2339 2.154462 CCACCACAAGATTCACCTGAC 58.846 52.381 0.00 0.00 0.00 3.51
1843 2350 2.787601 TCACCTGACGTACTTGACAC 57.212 50.000 0.00 0.00 0.00 3.67
1950 2458 0.110104 GGGCTGATCATTGGGAGGAG 59.890 60.000 0.00 0.00 0.00 3.69
1993 2505 4.336433 ACTTCTGTTGTGTTCATGAACTGG 59.664 41.667 32.57 18.19 41.67 4.00
2067 2579 5.500825 CAATTGTTAGCTTGCACCAAAAAC 58.499 37.500 0.00 0.00 0.00 2.43
2129 2642 5.498542 GCGTTTTGAACAGTAACAAGCAAAG 60.499 40.000 0.00 0.00 0.00 2.77
2162 2676 9.291664 CACCTTATCTAAAAGTTAACTCTCTCG 57.708 37.037 8.95 0.00 0.00 4.04
2179 2693 1.064060 CTCGCTAAATTTCTTGGGCGG 59.936 52.381 16.22 8.32 42.33 6.13
2333 2847 3.073062 AGTTGAACAGCTGGATGTTACCT 59.927 43.478 19.93 0.21 43.32 3.08
2362 2876 2.941453 TCGTATGCCTCACAGTTCTC 57.059 50.000 0.00 0.00 0.00 2.87
2514 3029 5.808366 TGTGAGAAGGATAATCCGCTAAT 57.192 39.130 0.00 0.00 42.75 1.73
2534 3049 7.360691 CGCTAATGCTAAGTTGATATCAAGCAT 60.361 37.037 26.33 26.33 42.18 3.79
2559 3074 0.312102 GGCACTCAGCTTTGGTTCAC 59.688 55.000 0.00 0.00 44.79 3.18
2627 3142 6.354130 TGCACTTAGTATTCCTGGATTTACC 58.646 40.000 0.00 0.00 39.54 2.85
2635 3150 2.074579 TCCTGGATTTACCCCCACAAA 58.925 47.619 0.00 0.00 38.00 2.83
2663 3178 7.047891 ACTTATTAGCAGTGCTAGCATTAACA 58.952 34.615 22.51 8.05 42.34 2.41
2667 3182 4.012374 AGCAGTGCTAGCATTAACATGTT 58.988 39.130 22.51 16.68 36.99 2.71
2679 3195 6.097270 AGCATTAACATGTTGCAGTTATCCAT 59.903 34.615 21.42 0.00 38.84 3.41
2737 3253 9.685828 GTAATGCTGAGACCTAGTTAATTCTAG 57.314 37.037 0.00 0.00 37.66 2.43
2779 3295 5.475273 TTGAAATGAAGCGTGAGATCATC 57.525 39.130 0.00 0.00 37.95 2.92
2815 3331 7.707624 TTGTATCATGCTCTTTCATCCTTTT 57.292 32.000 0.00 0.00 0.00 2.27
2888 3404 4.029472 GTCCTGACGCCTAAGGGA 57.971 61.111 0.00 0.00 34.08 4.20
2889 3405 1.516423 GTCCTGACGCCTAAGGGAC 59.484 63.158 0.00 0.00 39.41 4.46
2890 3406 2.050350 TCCTGACGCCTAAGGGACG 61.050 63.158 0.00 0.00 37.84 4.79
2891 3407 2.050350 CCTGACGCCTAAGGGACGA 61.050 63.158 0.00 0.00 36.50 4.20
2892 3408 1.139095 CTGACGCCTAAGGGACGAC 59.861 63.158 0.00 0.00 36.50 4.34
2893 3409 1.303888 TGACGCCTAAGGGACGACT 60.304 57.895 0.00 0.00 36.50 4.18
2894 3410 0.035152 TGACGCCTAAGGGACGACTA 60.035 55.000 0.00 0.00 36.50 2.59
2972 3488 1.631388 TCCAAGACGGGATGCCTTAAA 59.369 47.619 0.28 0.00 34.36 1.52
2984 3500 6.816140 CGGGATGCCTTAAAAACAATTGTATT 59.184 34.615 12.39 12.48 0.00 1.89
3054 3570 3.826157 GTGGGATTCACTTTCATGGTTCA 59.174 43.478 0.00 0.00 42.86 3.18
3070 3586 6.990939 TCATGGTTCAGATGATGATTTCTCTC 59.009 38.462 0.00 0.00 37.89 3.20
3091 3607 8.044309 TCTCTCGTTTATTAATGGGTTTCATGA 58.956 33.333 0.00 0.00 35.99 3.07
3109 3625 5.838529 TCATGAGCAGATATTTGCCAAATG 58.161 37.500 14.23 14.34 45.18 2.32
3112 3628 6.474140 TGAGCAGATATTTGCCAAATGATT 57.526 33.333 14.23 0.00 45.18 2.57
3143 3659 5.123661 TGCGAAAATAGATCTGCAAATCACA 59.876 36.000 5.18 0.00 0.00 3.58
3156 3672 4.100035 TGCAAATCACACCAAACCATGTTA 59.900 37.500 0.00 0.00 0.00 2.41
3159 3675 6.870965 GCAAATCACACCAAACCATGTTATTA 59.129 34.615 0.00 0.00 0.00 0.98
3243 3759 7.393234 ACATGTATGTGTGGCTTAATTTACACT 59.607 33.333 0.00 6.02 42.80 3.55
3265 3781 6.862608 CACTAGTCAACATTTGCATTGCTTTA 59.137 34.615 10.49 0.00 0.00 1.85
3316 3832 3.957288 GCTTCTCTGGGGTTAAGCA 57.043 52.632 7.03 0.00 43.00 3.91
3347 3863 4.466567 TGTGCGTCAACAATTACTCAAG 57.533 40.909 0.00 0.00 0.00 3.02
3367 3883 9.654663 ACTCAAGTAGTATCACAATTTTACTCC 57.345 33.333 0.00 0.00 36.36 3.85
3368 3884 9.653287 CTCAAGTAGTATCACAATTTTACTCCA 57.347 33.333 0.00 0.00 0.00 3.86
3409 3926 9.713740 CTTCTAGATGCATTCTTACATTTTGTC 57.286 33.333 0.00 0.00 35.79 3.18
3413 3930 6.755141 AGATGCATTCTTACATTTTGTCATGC 59.245 34.615 0.00 0.00 33.71 4.06
3415 3932 6.399743 TGCATTCTTACATTTTGTCATGCAT 58.600 32.000 0.00 0.00 36.06 3.96
3416 3933 6.532302 TGCATTCTTACATTTTGTCATGCATC 59.468 34.615 0.00 0.00 36.06 3.91
3979 4500 4.649088 ACCTTAGGTTGCTTTGAAACAC 57.351 40.909 0.00 0.00 27.29 3.32
3992 4513 1.883275 TGAAACACCACCGGCTTAATG 59.117 47.619 0.00 0.00 0.00 1.90
4017 4538 4.437682 AAGACCATTCAACCTGAAGTCA 57.562 40.909 9.90 0.00 40.05 3.41
4080 4602 8.503458 AATCCTTCTGAGATATCTGTTTGTTG 57.497 34.615 10.74 0.00 0.00 3.33
4142 4664 4.386954 GCAGAAGTTTTTGCTAAAGATGGC 59.613 41.667 6.16 0.00 37.35 4.40
4316 4839 1.698532 CAGAGCCTGCTATCCATCCTT 59.301 52.381 0.00 0.00 0.00 3.36
4369 4892 8.794335 TGTGGCAATGTACTGTTTTATATGTA 57.206 30.769 0.00 0.00 0.00 2.29
4403 4926 8.408601 TGTATATCTGGAGTTCTACGGTTTTAC 58.591 37.037 0.00 0.00 0.00 2.01
4465 4990 7.826252 CCGATTCCATGTCTATCTCCAATAATT 59.174 37.037 0.00 0.00 0.00 1.40
4569 5094 8.983724 GCTCAGTGATATTTAGTGTATTCCTTC 58.016 37.037 0.00 0.00 0.00 3.46
4609 5134 6.719370 AGCTTTGTTGGTGGATTTGACTTATA 59.281 34.615 0.00 0.00 0.00 0.98
4614 5139 9.913310 TTGTTGGTGGATTTGACTTATATATCA 57.087 29.630 0.00 0.00 0.00 2.15
4735 5260 1.888512 GTGGCATTTTCTTCCAGCTGA 59.111 47.619 17.39 0.00 0.00 4.26
4736 5261 2.297033 GTGGCATTTTCTTCCAGCTGAA 59.703 45.455 17.39 6.85 0.00 3.02
4953 5478 3.505464 ATTCGTTCGGAACTACTGGAG 57.495 47.619 17.94 1.83 37.50 3.86
4974 5499 3.074538 AGAGCATGGACAAGGGTTTACTT 59.925 43.478 0.00 0.00 0.00 2.24
4984 5509 5.827666 ACAAGGGTTTACTTTGTCATTTCG 58.172 37.500 0.00 0.00 0.00 3.46
5015 5540 5.384063 TTGTTTCCGGTAGTAACGTATCA 57.616 39.130 6.88 0.00 0.00 2.15
5113 5639 9.988815 TCTATCCATGACTTCTTAATTAAGCTC 57.011 33.333 18.68 13.08 33.40 4.09
5136 5662 3.106242 AGTGTGTTCGTGCTTATGTGA 57.894 42.857 0.00 0.00 0.00 3.58
5185 5711 6.550938 ACTTGGAATCACTGTGATCTATGA 57.449 37.500 22.47 8.28 35.76 2.15
5188 5714 8.051535 ACTTGGAATCACTGTGATCTATGAATT 58.948 33.333 22.47 6.26 35.76 2.17
5310 5838 3.429822 CCAATGACATGCCTTCCATCAAC 60.430 47.826 0.00 0.00 29.71 3.18
5331 5859 8.969260 TCAACGATATCACTTACCTAGAGTTA 57.031 34.615 3.12 0.00 0.00 2.24
5507 6035 5.992217 GGAACGATCTGCCAGTAAGAATATT 59.008 40.000 0.00 0.00 0.00 1.28
5557 6087 4.933400 GGTGGCTTCGTAAGTTCTATTGAA 59.067 41.667 0.00 0.00 39.48 2.69
5789 6319 3.938963 ACCAACCTATACGCACAAATGAG 59.061 43.478 0.00 0.00 0.00 2.90
5827 6357 2.969628 TGGAATGGTGCGTTGTTTTT 57.030 40.000 0.00 0.00 0.00 1.94
5884 6414 5.163281 AGATTATCCAGATTAGCTGCAGG 57.837 43.478 17.12 0.00 43.50 4.85
5931 6461 6.419771 GTTACTGAAGTTCACAAACTACTGC 58.580 40.000 0.08 0.00 45.07 4.40
6030 6561 2.045561 TCAACGAGGCCTGAAAAACA 57.954 45.000 12.00 0.00 0.00 2.83
6095 6626 9.667989 TTTAATCATTGATTACTGATGCAATCG 57.332 29.630 16.79 0.00 38.98 3.34
6158 6689 8.502161 AAGAAATTACAATTCGCTTGTTGTAC 57.498 30.769 8.23 0.00 45.98 2.90
6169 6700 2.808543 GCTTGTTGTACTGTGAGGAAGG 59.191 50.000 0.00 0.00 0.00 3.46
6195 6726 8.301730 ACAATTTTTATTGCAGATGTGTCAAG 57.698 30.769 6.05 0.00 35.04 3.02
6268 6799 3.103742 GGTTGGAATTCCCTATTTGCCA 58.896 45.455 21.90 0.00 35.38 4.92
6336 6869 2.949644 GCGGGCCTATTTGTGTAGATTT 59.050 45.455 0.84 0.00 0.00 2.17
6381 6914 9.463443 CACTTTTGATTCTTTTATCGGTTTTCT 57.537 29.630 0.00 0.00 0.00 2.52
6704 7284 8.300286 CACTAAATTCGGAGAGAGATAGCATAA 58.700 37.037 0.00 0.00 38.43 1.90
6832 7415 0.847373 TAGTGTTTTGGCTCCCCACA 59.153 50.000 0.00 0.00 41.97 4.17
6942 7535 2.282745 GCAGGAAGCAGGCCTTGT 60.283 61.111 0.00 0.00 44.79 3.16
6946 7539 1.747355 CAGGAAGCAGGCCTTGTATTG 59.253 52.381 0.00 0.00 32.78 1.90
6996 7589 3.246699 GCGCCGAAAGCAGTATGTATTTA 59.753 43.478 0.00 0.00 44.04 1.40
7070 7663 2.037053 CAGAGCCCGATCGATCAGT 58.963 57.895 24.40 5.91 0.00 3.41
7080 7673 1.410517 GATCGATCAGTGGCTTCCTCA 59.589 52.381 20.52 0.00 0.00 3.86
7081 7674 0.820226 TCGATCAGTGGCTTCCTCAG 59.180 55.000 0.00 0.00 0.00 3.35
7082 7675 0.820226 CGATCAGTGGCTTCCTCAGA 59.180 55.000 0.00 0.00 0.00 3.27
7083 7676 1.202394 CGATCAGTGGCTTCCTCAGAG 60.202 57.143 0.00 0.00 0.00 3.35
7084 7677 2.106566 GATCAGTGGCTTCCTCAGAGA 58.893 52.381 0.00 0.00 0.00 3.10
7164 7758 7.133891 AGGAAACTTGTCTGATACAATTTCG 57.866 36.000 0.00 0.00 46.81 3.46
7193 7790 2.762535 TTCGATGGGTCCTGAACTTC 57.237 50.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.690762 TAGGGGAGCTGTTGGTGTTC 59.309 55.000 0.00 0.00 0.00 3.18
23 24 6.518493 TCGTAAACAGTGGTTACTTCAGATT 58.482 36.000 24.78 0.00 35.82 2.40
28 29 5.981915 ACTTCTCGTAAACAGTGGTTACTTC 59.018 40.000 24.78 3.58 35.82 3.01
31 32 5.050567 CCAACTTCTCGTAAACAGTGGTTAC 60.051 44.000 19.31 19.31 35.82 2.50
61 62 3.296854 GGGAACTGTTGGAGAGGTTTTT 58.703 45.455 0.00 0.00 0.00 1.94
86 88 8.059461 TGAGATCCTCTAAAGTTATGGACACTA 58.941 37.037 0.00 0.00 0.00 2.74
118 120 0.602562 TTGCGGGAAGAAAATGCCAG 59.397 50.000 0.00 0.00 0.00 4.85
181 183 3.189287 AGCGATAAAGTTTCAGGCAGTTG 59.811 43.478 0.00 0.00 0.00 3.16
197 199 1.909459 TTCCAGCAGGGCAAGCGATA 61.909 55.000 0.00 0.00 37.01 2.92
334 374 4.162690 CTGCCGGTGAGGGGTAGC 62.163 72.222 1.90 0.00 41.48 3.58
355 395 3.601685 TGATAGCGGGCGATGCGA 61.602 61.111 0.00 0.00 37.44 5.10
369 409 3.374988 CGTCAATTAGTGGCACATGTGAT 59.625 43.478 29.80 13.39 44.52 3.06
432 472 9.502091 AGCAACTTTTATTTTTCCCCTAAATTC 57.498 29.630 0.00 0.00 0.00 2.17
522 566 5.110814 ACGATCCTTTTTGTATCCCATCA 57.889 39.130 0.00 0.00 0.00 3.07
536 580 2.759355 TGATCCAACCCTACGATCCTT 58.241 47.619 0.00 0.00 33.00 3.36
606 650 1.532868 GCATCTAATGGTGATGACGGC 59.467 52.381 7.77 0.00 42.68 5.68
607 651 3.062763 GAGCATCTAATGGTGATGACGG 58.937 50.000 7.77 0.00 42.68 4.79
667 712 7.013083 GGAACATCATTAGTGAGATCAAGCATT 59.987 37.037 0.00 0.00 37.87 3.56
689 734 1.029947 CACAAGGGGCGTATGGGAAC 61.030 60.000 0.00 0.00 0.00 3.62
797 1247 5.762279 AGTTAGGAAGTTGTTTTTCCCTCA 58.238 37.500 0.62 0.00 44.19 3.86
798 1248 6.062749 AGAGTTAGGAAGTTGTTTTTCCCTC 58.937 40.000 0.62 1.70 44.19 4.30
799 1249 6.014771 AGAGTTAGGAAGTTGTTTTTCCCT 57.985 37.500 0.62 0.00 44.19 4.20
800 1250 6.546403 AGAAGAGTTAGGAAGTTGTTTTTCCC 59.454 38.462 0.62 0.00 44.19 3.97
801 1251 7.569639 AGAAGAGTTAGGAAGTTGTTTTTCC 57.430 36.000 0.00 0.00 43.59 3.13
804 1254 9.286170 GGATAAGAAGAGTTAGGAAGTTGTTTT 57.714 33.333 0.00 0.00 0.00 2.43
805 1255 7.883833 GGGATAAGAAGAGTTAGGAAGTTGTTT 59.116 37.037 0.00 0.00 0.00 2.83
817 1267 3.676324 CGCACGAAGGGATAAGAAGAGTT 60.676 47.826 0.00 0.00 0.00 3.01
818 1268 2.159226 CGCACGAAGGGATAAGAAGAGT 60.159 50.000 0.00 0.00 0.00 3.24
819 1269 2.099263 TCGCACGAAGGGATAAGAAGAG 59.901 50.000 0.00 0.00 33.78 2.85
820 1270 2.097036 TCGCACGAAGGGATAAGAAGA 58.903 47.619 0.00 0.00 33.78 2.87
821 1271 2.579207 TCGCACGAAGGGATAAGAAG 57.421 50.000 0.00 0.00 33.78 2.85
822 1272 2.429250 TCATCGCACGAAGGGATAAGAA 59.571 45.455 10.62 0.00 46.99 2.52
826 1276 1.337071 GTCTCATCGCACGAAGGGATA 59.663 52.381 0.82 0.00 46.99 2.59
908 1368 4.174129 GCCCGCAATGTGCCGTAC 62.174 66.667 0.00 0.00 41.12 3.67
1304 1767 1.274703 ACCTGAAGGATGGCACGGAT 61.275 55.000 2.62 0.00 38.94 4.18
1349 1812 2.298158 AATCAGTGGAGCGCTACGGG 62.298 60.000 16.43 6.92 0.00 5.28
1571 2042 5.451798 CCTCTTGCCAAAAGTTGCTAAGAAA 60.452 40.000 0.00 0.00 33.66 2.52
1584 2083 1.133915 AGAAACCGACCTCTTGCCAAA 60.134 47.619 0.00 0.00 0.00 3.28
1649 2148 4.586001 CCACCTGCAAATTAATCATAGCCT 59.414 41.667 0.00 0.00 0.00 4.58
1653 2152 8.938801 ATGTATCCACCTGCAAATTAATCATA 57.061 30.769 0.00 0.00 0.00 2.15
1668 2167 4.684703 GCGATTGTGTAGTATGTATCCACC 59.315 45.833 0.00 0.00 0.00 4.61
1674 2173 7.380333 CGGAATTTAGCGATTGTGTAGTATGTA 59.620 37.037 0.00 0.00 0.00 2.29
1689 2188 3.726782 GCAAGTACCAACGGAATTTAGCG 60.727 47.826 0.00 0.00 0.00 4.26
1724 2223 3.902881 AACCAAAATTGCCTGACACAA 57.097 38.095 0.00 0.00 0.00 3.33
1747 2246 1.679139 TTGGTTTGTCAGAGCAGGTG 58.321 50.000 0.00 0.00 0.00 4.00
1748 2247 2.664402 ATTGGTTTGTCAGAGCAGGT 57.336 45.000 0.00 0.00 0.00 4.00
1749 2248 4.074970 AGTAATTGGTTTGTCAGAGCAGG 58.925 43.478 0.00 0.00 0.00 4.85
1751 2250 4.713553 TCAGTAATTGGTTTGTCAGAGCA 58.286 39.130 0.00 0.00 0.00 4.26
1752 2251 5.392380 CCATCAGTAATTGGTTTGTCAGAGC 60.392 44.000 0.00 0.00 0.00 4.09
1753 2252 5.392380 GCCATCAGTAATTGGTTTGTCAGAG 60.392 44.000 0.00 0.00 35.34 3.35
1754 2253 4.458989 GCCATCAGTAATTGGTTTGTCAGA 59.541 41.667 0.00 0.00 35.34 3.27
1755 2254 4.218200 TGCCATCAGTAATTGGTTTGTCAG 59.782 41.667 0.00 0.00 35.34 3.51
1758 2265 4.558496 CGTTGCCATCAGTAATTGGTTTGT 60.558 41.667 0.00 0.00 35.34 2.83
1779 2286 3.284617 ACTGGCAGAAACTTTTAACCGT 58.715 40.909 23.66 0.00 0.00 4.83
1832 2339 1.000163 AGTCTGCCAGTGTCAAGTACG 60.000 52.381 0.00 0.00 0.00 3.67
1843 2350 6.446781 ACAATTGATAATGAAGTCTGCCAG 57.553 37.500 13.59 0.00 0.00 4.85
1891 2399 4.318831 GCCTAGTTCAAGTGAGTTGTTTCG 60.319 45.833 0.00 0.00 37.43 3.46
1929 2437 0.554792 CCTCCCAATGATCAGCCCTT 59.445 55.000 0.09 0.00 0.00 3.95
1993 2505 4.981794 ACACTTGTCTTGCAAACAGTTAC 58.018 39.130 0.00 0.00 36.53 2.50
2002 2514 3.327757 AGGATTAGGACACTTGTCTTGCA 59.672 43.478 9.20 0.00 44.20 4.08
2129 2642 3.933332 ACTTTTAGATAAGGTGCTGCGTC 59.067 43.478 0.00 0.00 0.00 5.19
2162 2676 2.750712 TGTACCGCCCAAGAAATTTAGC 59.249 45.455 0.00 0.00 0.00 3.09
2295 2809 6.872920 TGTTCAACTTTATGGCTTTCAACTT 58.127 32.000 0.00 0.00 0.00 2.66
2298 2812 5.068987 AGCTGTTCAACTTTATGGCTTTCAA 59.931 36.000 0.00 0.00 0.00 2.69
2333 2847 2.499693 TGAGGCATACGAATCACCAAGA 59.500 45.455 0.00 0.00 0.00 3.02
2362 2876 2.995258 GCATTGGTTTATGTGCACAAGG 59.005 45.455 25.72 8.24 37.52 3.61
2471 2986 4.755123 ACATCCGTACTCTTTTGACCAAAG 59.245 41.667 0.00 0.00 43.15 2.77
2514 3029 5.882000 ACACATGCTTGATATCAACTTAGCA 59.118 36.000 24.73 24.73 37.58 3.49
2559 3074 3.997021 CACTAGTTTAGACTGCCAGTTGG 59.003 47.826 0.00 0.00 36.60 3.77
2627 3142 4.522789 ACTGCTAATAAGTTGTTTGTGGGG 59.477 41.667 0.00 0.00 0.00 4.96
2635 3150 4.832248 TGCTAGCACTGCTAATAAGTTGT 58.168 39.130 14.93 0.00 40.82 3.32
2663 3178 3.623703 TCTGCATGGATAACTGCAACAT 58.376 40.909 0.00 0.00 46.87 2.71
2667 3182 3.888583 TCATTCTGCATGGATAACTGCA 58.111 40.909 0.00 0.00 45.60 4.41
2679 3195 5.127682 TGCTAGTTACTGAGATCATTCTGCA 59.872 40.000 0.00 0.00 30.30 4.41
2815 3331 7.537715 CCTTAAGAACAATGCACAATACATCA 58.462 34.615 3.36 0.00 0.00 3.07
2884 3400 1.751924 CTTAGCTGCTTAGTCGTCCCT 59.248 52.381 7.79 0.00 0.00 4.20
2885 3401 1.202428 CCTTAGCTGCTTAGTCGTCCC 60.202 57.143 7.79 0.00 0.00 4.46
2886 3402 1.803252 GCCTTAGCTGCTTAGTCGTCC 60.803 57.143 7.79 0.00 35.50 4.79
2887 3403 1.135083 TGCCTTAGCTGCTTAGTCGTC 60.135 52.381 7.79 0.00 40.80 4.20
2888 3404 0.895530 TGCCTTAGCTGCTTAGTCGT 59.104 50.000 7.79 0.00 40.80 4.34
2889 3405 1.565305 CTGCCTTAGCTGCTTAGTCG 58.435 55.000 7.79 0.00 40.80 4.18
2890 3406 1.946745 CCTGCCTTAGCTGCTTAGTC 58.053 55.000 7.79 0.00 40.80 2.59
2891 3407 0.107459 GCCTGCCTTAGCTGCTTAGT 60.107 55.000 7.79 0.00 40.80 2.24
2892 3408 0.107508 TGCCTGCCTTAGCTGCTTAG 60.108 55.000 7.79 8.28 40.80 2.18
2893 3409 0.392998 GTGCCTGCCTTAGCTGCTTA 60.393 55.000 7.79 0.00 40.80 3.09
2894 3410 1.676967 GTGCCTGCCTTAGCTGCTT 60.677 57.895 7.79 0.00 40.80 3.91
2935 3451 3.537388 ACACTTTGGTGGCAAGGC 58.463 55.556 0.00 0.00 46.85 4.35
2946 3462 1.882352 GCATCCCGTCTTGGACACTTT 60.882 52.381 0.00 0.00 42.00 2.66
3070 3586 6.559810 TGCTCATGAAACCCATTAATAAACG 58.440 36.000 0.00 0.00 31.94 3.60
3079 3595 5.221382 GCAAATATCTGCTCATGAAACCCAT 60.221 40.000 0.00 0.00 39.34 4.00
3091 3607 7.066525 CCAAAAATCATTTGGCAAATATCTGCT 59.933 33.333 23.93 3.62 41.95 4.24
3109 3625 6.197842 CAGATCTATTTTCGCAGCCAAAAATC 59.802 38.462 13.73 7.88 36.66 2.17
3112 3628 4.675146 GCAGATCTATTTTCGCAGCCAAAA 60.675 41.667 0.00 0.00 0.00 2.44
3243 3759 9.920133 TTAATAAAGCAATGCAAATGTTGACTA 57.080 25.926 8.35 0.00 0.00 2.59
3280 3796 1.619526 GCAACCATGTGCACGCAATG 61.620 55.000 13.13 10.37 44.29 2.82
3281 3797 1.373246 GCAACCATGTGCACGCAAT 60.373 52.632 13.13 0.00 44.29 3.56
3288 3804 0.524862 CCAGAGAAGCAACCATGTGC 59.475 55.000 0.10 0.10 45.28 4.57
3289 3805 1.171308 CCCAGAGAAGCAACCATGTG 58.829 55.000 0.00 0.00 0.00 3.21
3295 3811 1.813178 GCTTAACCCCAGAGAAGCAAC 59.187 52.381 0.76 0.00 43.06 4.17
3316 3832 1.800586 GTTGACGCACATCATGTCAGT 59.199 47.619 0.00 0.00 42.93 3.41
3360 3876 9.507329 GAAGGCTTCATATATGAATGGAGTAAA 57.493 33.333 24.77 3.62 44.92 2.01
3367 3883 8.828644 GCATCTAGAAGGCTTCATATATGAATG 58.171 37.037 27.70 19.27 44.92 2.67
3368 3884 8.546322 TGCATCTAGAAGGCTTCATATATGAAT 58.454 33.333 27.70 12.71 44.92 2.57
3409 3926 2.293955 TCACCACACAACAAGATGCATG 59.706 45.455 2.46 0.00 0.00 4.06
3413 3930 2.951642 ACCTTCACCACACAACAAGATG 59.048 45.455 0.00 0.00 0.00 2.90
3415 3932 2.799126 ACCTTCACCACACAACAAGA 57.201 45.000 0.00 0.00 0.00 3.02
3416 3933 3.064820 GTGTACCTTCACCACACAACAAG 59.935 47.826 0.00 0.00 41.71 3.16
3535 4054 8.677148 TTGCAAGAGTTAGAAGTAGTTGAAAT 57.323 30.769 0.00 0.00 0.00 2.17
3702 4221 2.475487 GAGCAGAAACAGTTACGACCAC 59.525 50.000 0.00 0.00 0.00 4.16
3746 4265 2.025155 GCGTTCTCCTCATCCTACTCA 58.975 52.381 0.00 0.00 0.00 3.41
3755 4274 2.139323 TAGCCTTAGCGTTCTCCTCA 57.861 50.000 0.00 0.00 46.67 3.86
3979 4500 2.161609 GTCTTTCACATTAAGCCGGTGG 59.838 50.000 1.90 0.00 33.45 4.61
3992 4513 4.580580 ACTTCAGGTTGAATGGTCTTTCAC 59.419 41.667 0.00 0.00 35.59 3.18
4036 4557 9.581099 GAAGGATTCACAAAGAACTAACAAAAA 57.419 29.630 0.00 0.00 46.62 1.94
4142 4664 1.466167 CAACTCGCCAAGAAGGACATG 59.534 52.381 0.00 0.00 41.22 3.21
4316 4839 5.678616 GCAAACTAAAACAGTCTCTTGCCAA 60.679 40.000 0.00 0.00 40.39 4.52
4387 4910 7.193377 TCCAAAATGTAAAACCGTAGAACTC 57.807 36.000 0.00 0.00 0.00 3.01
4440 4965 8.783833 AATTATTGGAGATAGACATGGAATCG 57.216 34.615 0.00 0.00 0.00 3.34
4569 5094 3.381908 ACAAAGCTACGAGGAGATACAGG 59.618 47.826 0.00 0.00 0.00 4.00
4609 5134 4.700213 GCCAACAGTAACAACCACTGATAT 59.300 41.667 9.33 0.00 45.10 1.63
4614 5139 1.214424 AGGCCAACAGTAACAACCACT 59.786 47.619 5.01 0.00 0.00 4.00
4713 5238 3.084039 CAGCTGGAAGAAAATGCCACTA 58.916 45.455 5.57 0.00 34.07 2.74
4953 5478 3.073274 AGTAAACCCTTGTCCATGCTC 57.927 47.619 0.00 0.00 0.00 4.26
4984 5509 4.062991 ACTACCGGAAACAAACTCATGTC 58.937 43.478 9.46 0.00 31.81 3.06
5015 5540 8.594550 TCAGTTACTTAAAAGCTGAATAGGAGT 58.405 33.333 0.00 0.00 33.84 3.85
5113 5639 3.968096 CACATAAGCACGAACACACTTTG 59.032 43.478 0.00 0.00 0.00 2.77
5136 5662 1.374560 TGTACAACAACACAAGCGCT 58.625 45.000 2.64 2.64 0.00 5.92
5286 5814 1.314534 TGGAAGGCATGTCATTGGCG 61.315 55.000 0.00 0.00 46.11 5.69
5310 5838 9.053840 TCAACTAACTCTAGGTAAGTGATATCG 57.946 37.037 0.00 0.00 0.00 2.92
5331 5859 9.490379 CTAGTTACCTTGTTTACAATCTCAACT 57.510 33.333 12.47 12.47 35.02 3.16
5507 6035 2.553028 GGATGGCAGAGTCAGGTTCAAA 60.553 50.000 0.00 0.00 0.00 2.69
5557 6087 7.497249 GGTTGTCTATTTAAGCATCTGAGACAT 59.503 37.037 2.93 0.00 40.91 3.06
5789 6319 4.686972 TCCAATCTTGATCGAGTCACATC 58.313 43.478 9.87 0.00 36.32 3.06
5884 6414 6.677913 ACCAGTTTGTGTTAAATGATACAGC 58.322 36.000 0.00 0.00 0.00 4.40
5891 6421 8.188139 ACTTCAGTAACCAGTTTGTGTTAAATG 58.812 33.333 0.00 0.00 0.00 2.32
6030 6561 2.357836 CCATGCAGGGGCTTCAGT 59.642 61.111 10.25 0.00 41.91 3.41
6095 6626 3.306166 GTGGACGCATACATTCAGTGTAC 59.694 47.826 0.00 0.00 45.59 2.90
6158 6689 6.587608 GCAATAAAAATTGTCCTTCCTCACAG 59.412 38.462 0.57 0.00 34.21 3.66
6169 6700 7.872163 TGACACATCTGCAATAAAAATTGTC 57.128 32.000 0.00 0.00 34.21 3.18
6195 6726 0.108281 GGAGCGTAGAAAGGGGTGTC 60.108 60.000 0.00 0.00 0.00 3.67
6268 6799 0.179166 CGCAGTTTGCCGCAATATGT 60.179 50.000 6.64 0.00 41.12 2.29
6312 6843 1.139058 CTACACAAATAGGCCCGCTCT 59.861 52.381 0.00 0.00 0.00 4.09
6313 6844 1.138266 TCTACACAAATAGGCCCGCTC 59.862 52.381 0.00 0.00 0.00 5.03
6314 6845 1.200519 TCTACACAAATAGGCCCGCT 58.799 50.000 0.00 0.00 0.00 5.52
6316 6847 3.247648 CGAAATCTACACAAATAGGCCCG 59.752 47.826 0.00 0.00 0.00 6.13
6357 6890 8.915654 CCAGAAAACCGATAAAAGAATCAAAAG 58.084 33.333 0.00 0.00 0.00 2.27
6405 6938 8.076178 GGGCATTTGTGCTAGTAATGTTTATAG 58.924 37.037 0.07 0.00 33.04 1.31
6406 6939 7.254966 CGGGCATTTGTGCTAGTAATGTTTATA 60.255 37.037 0.07 0.00 33.04 0.98
6407 6940 6.459573 CGGGCATTTGTGCTAGTAATGTTTAT 60.460 38.462 0.07 0.00 33.04 1.40
6532 7070 9.971922 GTCCTATTTCAATAATTTGGGATCTTG 57.028 33.333 0.00 0.00 33.44 3.02
6704 7284 7.915397 CCAAAAATATAATAGTTGCTGCGAAGT 59.085 33.333 0.00 0.00 0.00 3.01
6870 7463 3.585862 TGTCGGTGAAGCTAAGAATGTC 58.414 45.455 0.00 0.00 0.00 3.06
6942 7535 8.970859 AAACCATTGTTGTTGAAATTCCAATA 57.029 26.923 0.00 0.00 34.13 1.90
6946 7539 7.082700 ACAAAACCATTGTTGTTGAAATTCC 57.917 32.000 9.79 0.00 34.29 3.01
6996 7589 4.702131 GTCCTGAAATGCTGAGGTACATTT 59.298 41.667 0.88 0.88 46.37 2.32
7070 7663 0.251354 GTGCATCTCTGAGGAAGCCA 59.749 55.000 4.59 0.00 0.00 4.75
7080 7673 7.114754 TGATCCTAAAAATGAAGTGCATCTCT 58.885 34.615 0.00 0.00 35.78 3.10
7081 7674 7.325660 TGATCCTAAAAATGAAGTGCATCTC 57.674 36.000 0.00 0.00 35.78 2.75
7082 7675 7.707624 TTGATCCTAAAAATGAAGTGCATCT 57.292 32.000 0.00 0.00 35.78 2.90
7131 7725 6.959639 TCAGACAAGTTTCCTAATGCTTTT 57.040 33.333 0.00 0.00 0.00 2.27
7132 7726 7.665559 TGTATCAGACAAGTTTCCTAATGCTTT 59.334 33.333 0.00 0.00 34.15 3.51
7133 7727 7.168219 TGTATCAGACAAGTTTCCTAATGCTT 58.832 34.615 0.00 0.00 34.15 3.91
7164 7758 4.752101 CAGGACCCATCGAATTGTATTCTC 59.248 45.833 0.00 0.00 0.00 2.87
7175 7769 1.825474 GAGAAGTTCAGGACCCATCGA 59.175 52.381 5.50 0.00 0.00 3.59


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

AutoCloner maintained by Alex Coulton.