Multiple sequence alignment - TraesCS7D01G176000

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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 TraesCS7D01G176000 chr7D 100.000 2699 0 0 1 2699 127766428 127763730 0.000000e+00 4985
1 TraesCS7D01G176000 chr7D 91.399 2058 148 14 288 2336 127753627 127751590 0.000000e+00 2793
2 TraesCS7D01G176000 chr7D 91.394 1406 107 8 947 2344 127732903 127731504 0.000000e+00 1914
3 TraesCS7D01G176000 chr7D 88.953 1557 134 18 810 2342 127737247 127735705 0.000000e+00 1888
4 TraesCS7D01G176000 chr7D 89.580 1238 111 14 1113 2342 127730475 127729248 0.000000e+00 1555
5 TraesCS7D01G176000 chr7D 93.788 982 52 3 1369 2344 127699497 127698519 0.000000e+00 1467
6 TraesCS7D01G176000 chr7D 93.722 446 25 2 891 1334 127699939 127699495 0.000000e+00 665
7 TraesCS7D01G176000 chr7D 93.923 362 16 6 2343 2699 1383084 1383444 2.360000e-150 542
8 TraesCS7D01G176000 chr7D 93.593 359 19 4 2344 2699 75221093 75220736 1.420000e-147 532
9 TraesCS7D01G176000 chr7D 93.182 352 24 0 288 639 127700366 127700015 3.980000e-143 518
10 TraesCS7D01G176000 chr7D 90.782 358 30 2 288 642 127737606 127737249 2.430000e-130 475
11 TraesCS7D01G176000 chr7D 88.825 349 39 0 306 654 127683026 127682678 1.920000e-116 429
12 TraesCS7D01G176000 chr7B 89.301 2374 168 31 1 2344 89657790 89655473 0.000000e+00 2898
13 TraesCS7D01G176000 chr7B 87.893 1495 146 21 828 2300 89560677 89559196 0.000000e+00 1725
14 TraesCS7D01G176000 chr7B 81.412 963 159 15 901 1857 89542496 89541548 0.000000e+00 769
15 TraesCS7D01G176000 chr7B 94.034 352 20 1 288 639 89561043 89560693 1.420000e-147 532
16 TraesCS7D01G176000 chr7B 88.140 371 42 2 286 654 89542948 89542578 8.870000e-120 440
17 TraesCS7D01G176000 chr7A 92.162 1212 93 2 797 2007 128510941 128509731 0.000000e+00 1711
18 TraesCS7D01G176000 chr7A 92.219 694 54 0 1314 2007 128478261 128477568 0.000000e+00 983
19 TraesCS7D01G176000 chr7A 91.541 662 40 7 54 709 128511635 128510984 0.000000e+00 898
20 TraesCS7D01G176000 chr7A 89.967 608 52 4 1739 2342 128509522 128508920 0.000000e+00 776
21 TraesCS7D01G176000 chr7A 89.218 371 38 2 286 654 128406118 128405748 1.890000e-126 462
22 TraesCS7D01G176000 chr3D 94.751 362 14 5 2342 2699 511002367 511002007 2.350000e-155 558
23 TraesCS7D01G176000 chr1D 94.678 357 14 5 2342 2695 396614304 396613950 1.410000e-152 549
24 TraesCS7D01G176000 chr1A 94.167 360 16 5 2344 2699 180338557 180338199 6.570000e-151 544
25 TraesCS7D01G176000 chr1A 93.629 361 19 4 2342 2699 443574708 443575067 1.100000e-148 536
26 TraesCS7D01G176000 chr4D 93.646 362 19 4 2342 2699 19378578 19378939 3.060000e-149 538
27 TraesCS7D01G176000 chr6A 93.629 361 19 4 2342 2699 383373030 383373389 1.100000e-148 536
28 TraesCS7D01G176000 chr5A 93.425 365 19 5 2339 2699 471897728 471897365 1.100000e-148 536
29 TraesCS7D01G176000 chrUn 90.859 361 23 6 1991 2342 371050421 371050062 2.430000e-130 475
30 TraesCS7D01G176000 chr2D 90.859 361 23 6 1991 2342 33935784 33935425 2.430000e-130 475


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 TraesCS7D01G176000 chr7D 127763730 127766428 2698 True 4985.000000 4985 100.000000 1 2699 1 chr7D.!!$R4 2698
1 TraesCS7D01G176000 chr7D 127751590 127753627 2037 True 2793.000000 2793 91.399000 288 2336 1 chr7D.!!$R3 2048
2 TraesCS7D01G176000 chr7D 127729248 127737606 8358 True 1458.000000 1914 90.177250 288 2344 4 chr7D.!!$R6 2056
3 TraesCS7D01G176000 chr7D 127698519 127700366 1847 True 883.333333 1467 93.564000 288 2344 3 chr7D.!!$R5 2056
4 TraesCS7D01G176000 chr7B 89655473 89657790 2317 True 2898.000000 2898 89.301000 1 2344 1 chr7B.!!$R1 2343
5 TraesCS7D01G176000 chr7B 89559196 89561043 1847 True 1128.500000 1725 90.963500 288 2300 2 chr7B.!!$R3 2012
6 TraesCS7D01G176000 chr7B 89541548 89542948 1400 True 604.500000 769 84.776000 286 1857 2 chr7B.!!$R2 1571
7 TraesCS7D01G176000 chr7A 128508920 128511635 2715 True 1128.333333 1711 91.223333 54 2342 3 chr7A.!!$R3 2288
8 TraesCS7D01G176000 chr7A 128477568 128478261 693 True 983.000000 983 92.219000 1314 2007 1 chr7A.!!$R2 693

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
739 761 0.93031 TGCTGACGCTGCGATTTATC 59.07 50.0 30.47 15.62 36.97 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2645 9294 0.037232 GGAGTTGGAGTTGAGGTCGG 60.037 60.0 0.0 0.0 0.0 4.79 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
72 73 3.053849 GACGGAGAGGGTGACGAGC 62.054 68.421 0.00 0.00 0.00 5.03
112 113 1.021202 CGGCTGGTCAAACAAAGACA 58.979 50.000 0.00 0.00 37.74 3.41
144 148 2.928396 CCACACGGGAGGAAGGGT 60.928 66.667 0.00 0.00 40.01 4.34
169 173 7.090319 TCCAATCACCAGCACCTATAAATAT 57.910 36.000 0.00 0.00 0.00 1.28
177 181 6.012508 ACCAGCACCTATAAATATACAGCCAT 60.013 38.462 0.00 0.00 0.00 4.40
200 204 1.078918 TCAGCCTGATTCAGCCACG 60.079 57.895 8.23 0.00 0.00 4.94
206 210 1.679944 CCTGATTCAGCCACGGACATT 60.680 52.381 8.23 0.00 0.00 2.71
215 219 1.606668 GCCACGGACATTCAGAAACAA 59.393 47.619 0.00 0.00 0.00 2.83
216 220 2.604614 GCCACGGACATTCAGAAACAAC 60.605 50.000 0.00 0.00 0.00 3.32
217 221 2.616376 CCACGGACATTCAGAAACAACA 59.384 45.455 0.00 0.00 0.00 3.33
227 231 3.987547 TCAGAAACAACAGAGCTCAGAG 58.012 45.455 17.77 7.90 0.00 3.35
233 237 1.001746 CAACAGAGCTCAGAGGCAAGA 59.998 52.381 17.77 0.00 34.17 3.02
238 242 2.305343 AGAGCTCAGAGGCAAGAAACAT 59.695 45.455 17.77 0.00 34.17 2.71
361 367 1.965754 GCCAGTTCGAGCTCTCCCAT 61.966 60.000 12.85 0.00 0.00 4.00
547 553 3.997064 GACGCAGCAGCAGGTCGAT 62.997 63.158 0.82 0.00 42.27 3.59
571 577 1.227380 GAAGCCCATCGTCGATGCT 60.227 57.895 26.43 19.47 38.59 3.79
574 580 1.815421 GCCCATCGTCGATGCTGTT 60.815 57.895 26.43 0.00 38.59 3.16
657 664 5.129815 ACGGTAAGTTAGGAATCCATGCTAA 59.870 40.000 0.61 0.00 39.36 3.09
672 680 5.649395 TCCATGCTAACATTTTTCTGAGAGG 59.351 40.000 0.00 0.00 32.87 3.69
702 715 8.841444 AATCGATGCTATTTTGTGTTGATAAC 57.159 30.769 0.00 0.00 0.00 1.89
705 718 7.120579 TCGATGCTATTTTGTGTTGATAACCTT 59.879 33.333 0.00 0.00 0.00 3.50
739 761 0.930310 TGCTGACGCTGCGATTTATC 59.070 50.000 30.47 15.62 36.97 1.75
781 806 5.300969 TCATCTGCTCTGTTTGTAATTGC 57.699 39.130 0.00 0.00 0.00 3.56
784 809 5.112220 TCTGCTCTGTTTGTAATTGCAAG 57.888 39.130 4.94 0.00 0.00 4.01
788 813 4.232221 CTCTGTTTGTAATTGCAAGGCAG 58.768 43.478 23.63 23.63 40.61 4.85
801 826 3.254166 TGCAAGGCAGAGAAAACAGATTC 59.746 43.478 0.00 0.00 33.32 2.52
803 828 4.082354 GCAAGGCAGAGAAAACAGATTCAT 60.082 41.667 0.00 0.00 0.00 2.57
864 891 6.644592 CCATGTTATTTTGTGTTGGTAACCTG 59.355 38.462 0.00 0.00 0.00 4.00
921 963 7.840931 TCTTGCTCTCTGTTTATATCTGAACA 58.159 34.615 0.00 0.00 34.80 3.18
1033 5281 1.618837 AGCCTCGACAGCTTCTAACAA 59.381 47.619 0.00 0.00 37.24 2.83
1237 5485 5.056480 CGGTGGAAGTAATTGATGCTATCA 58.944 41.667 0.00 0.00 37.55 2.15
1428 5676 2.279517 GGACGCAGGCAGATACCG 60.280 66.667 0.00 0.00 33.69 4.02
1563 5811 1.147153 CGGGAGGATCTTTCTGGCC 59.853 63.158 0.00 0.00 33.73 5.36
1623 5871 3.671928 CCTTGAACAAGTACGACCGTAAG 59.328 47.826 12.54 0.96 36.72 2.34
1645 5893 4.705507 AGACTTTCTACACGCAAGATCCTA 59.294 41.667 0.00 0.00 43.62 2.94
1648 5896 3.898517 TCTACACGCAAGATCCTATCG 57.101 47.619 0.00 0.00 43.62 2.92
1674 5922 5.163301 TGGCTACACAGATTATCCTTTCCTC 60.163 44.000 0.00 0.00 0.00 3.71
1825 6080 8.585018 CCACCAATAATTTACTTTTGTTCTCCT 58.415 33.333 0.00 0.00 0.00 3.69
1893 6148 5.305902 TGACATCACTACCTTCAACAACCTA 59.694 40.000 0.00 0.00 0.00 3.08
1905 6160 9.802039 ACCTTCAACAACCTATAAGACAAATTA 57.198 29.630 0.00 0.00 0.00 1.40
1928 6664 3.330126 TTCCCATGGTACCCAAAACAA 57.670 42.857 11.73 0.00 36.95 2.83
1975 6711 3.084786 GTTTTGATGAGGAGGGGTCTTG 58.915 50.000 0.00 0.00 0.00 3.02
2040 6777 5.692654 GGGCTATAACAAAGTTTGCGAAAAA 59.307 36.000 15.59 0.00 0.00 1.94
2049 6786 6.863126 ACAAAGTTTGCGAAAAATATCTCCTG 59.137 34.615 15.59 0.00 0.00 3.86
2157 6898 3.103793 CGTGTTTCGGCTTGTAATCAG 57.896 47.619 0.00 0.00 35.71 2.90
2168 6909 6.071896 TCGGCTTGTAATCAGTCCATAGATAG 60.072 42.308 0.00 0.00 0.00 2.08
2344 7092 6.823689 AGGTATTTGTTAGCAGTAGATGGTTG 59.176 38.462 0.00 0.00 40.89 3.77
2345 7093 6.821665 GGTATTTGTTAGCAGTAGATGGTTGA 59.178 38.462 0.00 0.00 40.89 3.18
2349 7097 5.588240 TGTTAGCAGTAGATGGTTGATACG 58.412 41.667 0.00 0.00 40.89 3.06
2350 7098 5.126545 TGTTAGCAGTAGATGGTTGATACGT 59.873 40.000 0.00 0.00 40.89 3.57
2351 7099 4.308899 AGCAGTAGATGGTTGATACGTC 57.691 45.455 0.00 0.00 35.67 4.34
2352 7100 3.954904 AGCAGTAGATGGTTGATACGTCT 59.045 43.478 0.00 0.00 35.67 4.18
2353 7101 4.036971 AGCAGTAGATGGTTGATACGTCTC 59.963 45.833 0.00 0.00 35.67 3.36
2357 7105 4.124851 AGATGGTTGATACGTCTCCAAC 57.875 45.455 15.13 15.13 39.38 3.77
2370 7118 4.349501 CGTCTCCAACGTATCTACTTTCC 58.650 47.826 0.00 0.00 46.42 3.13
2371 7119 4.142534 CGTCTCCAACGTATCTACTTTCCA 60.143 45.833 0.00 0.00 46.42 3.53
2373 7121 6.161381 GTCTCCAACGTATCTACTTTCCAAA 58.839 40.000 0.00 0.00 0.00 3.28
2374 7122 6.090493 GTCTCCAACGTATCTACTTTCCAAAC 59.910 42.308 0.00 0.00 0.00 2.93
2375 7123 5.856156 TCCAACGTATCTACTTTCCAAACA 58.144 37.500 0.00 0.00 0.00 2.83
2376 7124 5.697633 TCCAACGTATCTACTTTCCAAACAC 59.302 40.000 0.00 0.00 0.00 3.32
2380 7128 7.797038 ACGTATCTACTTTCCAAACACTTTT 57.203 32.000 0.00 0.00 0.00 2.27
2381 7129 7.636326 ACGTATCTACTTTCCAAACACTTTTG 58.364 34.615 0.00 0.00 41.71 2.44
2382 7130 6.577427 CGTATCTACTTTCCAAACACTTTTGC 59.423 38.462 0.00 0.00 40.84 3.68
2383 7131 5.257082 TCTACTTTCCAAACACTTTTGCC 57.743 39.130 0.00 0.00 40.84 4.52
2386 7134 3.263170 ACTTTCCAAACACTTTTGCCCTT 59.737 39.130 0.00 0.00 40.84 3.95
2387 7135 2.977772 TCCAAACACTTTTGCCCTTG 57.022 45.000 0.00 0.00 40.84 3.61
2388 7136 2.183679 TCCAAACACTTTTGCCCTTGT 58.816 42.857 0.00 0.00 40.84 3.16
2389 7137 2.569404 TCCAAACACTTTTGCCCTTGTT 59.431 40.909 0.00 0.00 40.84 2.83
2390 7138 3.008485 TCCAAACACTTTTGCCCTTGTTT 59.992 39.130 0.00 0.00 41.69 2.83
2391 7139 3.755905 CCAAACACTTTTGCCCTTGTTTT 59.244 39.130 0.00 0.00 39.56 2.43
2392 7140 4.379290 CCAAACACTTTTGCCCTTGTTTTG 60.379 41.667 0.00 0.00 39.56 2.44
2393 7141 2.984562 ACACTTTTGCCCTTGTTTTGG 58.015 42.857 0.00 0.00 0.00 3.28
2395 7143 2.935849 CACTTTTGCCCTTGTTTTGGAC 59.064 45.455 0.00 0.00 0.00 4.02
2396 7144 2.837591 ACTTTTGCCCTTGTTTTGGACT 59.162 40.909 0.00 0.00 0.00 3.85
2399 7147 3.586470 TTGCCCTTGTTTTGGACTCTA 57.414 42.857 0.00 0.00 0.00 2.43
2400 7148 3.586470 TGCCCTTGTTTTGGACTCTAA 57.414 42.857 0.00 0.00 0.00 2.10
2401 7149 3.219281 TGCCCTTGTTTTGGACTCTAAC 58.781 45.455 0.00 0.00 0.00 2.34
2406 7154 4.338118 CCTTGTTTTGGACTCTAACTTGCA 59.662 41.667 0.00 0.00 0.00 4.08
2407 7155 5.010012 CCTTGTTTTGGACTCTAACTTGCAT 59.990 40.000 0.00 0.00 0.00 3.96
2408 7156 5.437289 TGTTTTGGACTCTAACTTGCATG 57.563 39.130 0.00 0.00 0.00 4.06
2410 7158 5.769662 TGTTTTGGACTCTAACTTGCATGAT 59.230 36.000 6.60 0.00 0.00 2.45
2411 7159 6.265196 TGTTTTGGACTCTAACTTGCATGATT 59.735 34.615 6.60 0.30 0.00 2.57
2412 7160 6.899393 TTTGGACTCTAACTTGCATGATTT 57.101 33.333 6.60 0.00 0.00 2.17
2413 7161 5.885230 TGGACTCTAACTTGCATGATTTG 57.115 39.130 6.60 0.00 0.00 2.32
2414 7162 5.559770 TGGACTCTAACTTGCATGATTTGA 58.440 37.500 6.60 3.51 0.00 2.69
2415 7163 5.645067 TGGACTCTAACTTGCATGATTTGAG 59.355 40.000 6.60 13.17 33.27 3.02
2416 7164 5.645497 GGACTCTAACTTGCATGATTTGAGT 59.355 40.000 19.89 19.89 39.86 3.41
2417 7165 6.402983 GGACTCTAACTTGCATGATTTGAGTG 60.403 42.308 22.29 10.83 38.14 3.51
2419 7167 5.559770 TCTAACTTGCATGATTTGAGTGGA 58.440 37.500 6.60 0.00 0.00 4.02
2420 7168 6.003326 TCTAACTTGCATGATTTGAGTGGAA 58.997 36.000 6.60 0.00 0.00 3.53
2433 7181 2.060370 GTGGAACTAACCCGGACCA 58.940 57.895 0.73 0.00 0.00 4.02
2435 7183 0.397564 TGGAACTAACCCGGACCAAC 59.602 55.000 0.73 0.00 0.00 3.77
2436 7184 0.671472 GGAACTAACCCGGACCAACG 60.671 60.000 0.73 0.00 0.00 4.10
2437 7185 1.293963 GAACTAACCCGGACCAACGC 61.294 60.000 0.73 0.00 0.00 4.84
2438 7186 1.761500 AACTAACCCGGACCAACGCT 61.761 55.000 0.73 0.00 0.00 5.07
2439 7187 1.740296 CTAACCCGGACCAACGCTG 60.740 63.158 0.73 0.00 0.00 5.18
2440 7188 2.444700 CTAACCCGGACCAACGCTGT 62.445 60.000 0.73 0.00 0.00 4.40
2441 7189 2.042404 TAACCCGGACCAACGCTGTT 62.042 55.000 0.73 0.00 33.80 3.16
2444 7192 1.281656 CCGGACCAACGCTGTTTTC 59.718 57.895 0.00 0.00 0.00 2.29
2445 7193 1.440938 CCGGACCAACGCTGTTTTCA 61.441 55.000 0.00 0.00 0.00 2.69
2467 7215 4.127566 GCAGAATTGCCATGGTGTTATT 57.872 40.909 14.67 7.92 44.74 1.40
2468 7216 4.506758 GCAGAATTGCCATGGTGTTATTT 58.493 39.130 14.67 0.00 44.74 1.40
2469 7217 4.937015 GCAGAATTGCCATGGTGTTATTTT 59.063 37.500 14.67 1.14 44.74 1.82
2470 7218 5.412286 GCAGAATTGCCATGGTGTTATTTTT 59.588 36.000 14.67 0.00 44.74 1.94
2471 7219 6.621164 GCAGAATTGCCATGGTGTTATTTTTG 60.621 38.462 14.67 10.79 44.74 2.44
2473 7221 6.427547 AGAATTGCCATGGTGTTATTTTTGTG 59.572 34.615 14.67 0.00 0.00 3.33
2476 7224 3.812053 GCCATGGTGTTATTTTTGTGCAA 59.188 39.130 14.67 0.00 0.00 4.08
2477 7225 4.274459 GCCATGGTGTTATTTTTGTGCAAA 59.726 37.500 14.67 0.00 0.00 3.68
2478 7226 5.220931 GCCATGGTGTTATTTTTGTGCAAAA 60.221 36.000 14.67 6.04 38.76 2.44
2480 7228 6.690528 CCATGGTGTTATTTTTGTGCAAAAAC 59.309 34.615 20.60 12.26 43.69 2.43
2481 7229 6.801539 TGGTGTTATTTTTGTGCAAAAACA 57.198 29.167 20.60 14.22 43.69 2.83
2482 7230 7.202016 TGGTGTTATTTTTGTGCAAAAACAA 57.798 28.000 20.60 14.88 43.69 2.83
2483 7231 7.648142 TGGTGTTATTTTTGTGCAAAAACAAA 58.352 26.923 20.60 15.83 43.69 2.83
2484 7232 8.134895 TGGTGTTATTTTTGTGCAAAAACAAAA 58.865 25.926 20.60 11.17 43.69 2.44
2485 7233 8.634265 GGTGTTATTTTTGTGCAAAAACAAAAG 58.366 29.630 20.60 0.00 43.69 2.27
2486 7234 9.175060 GTGTTATTTTTGTGCAAAAACAAAAGT 57.825 25.926 20.60 13.03 43.69 2.66
2492 7240 5.604010 TGTGCAAAAACAAAAGTTCTTGG 57.396 34.783 0.00 0.00 0.00 3.61
2494 7242 5.760253 TGTGCAAAAACAAAAGTTCTTGGAA 59.240 32.000 0.00 0.00 0.00 3.53
2495 7243 6.429385 TGTGCAAAAACAAAAGTTCTTGGAAT 59.571 30.769 0.00 0.00 0.00 3.01
2496 7244 6.742264 GTGCAAAAACAAAAGTTCTTGGAATG 59.258 34.615 0.00 0.00 0.00 2.67
2497 7245 6.652481 TGCAAAAACAAAAGTTCTTGGAATGA 59.348 30.769 0.00 0.00 0.00 2.57
2498 7246 6.960992 GCAAAAACAAAAGTTCTTGGAATGAC 59.039 34.615 0.00 0.00 0.00 3.06
2499 7247 7.463544 CAAAAACAAAAGTTCTTGGAATGACC 58.536 34.615 0.00 0.00 39.54 4.02
2503 7251 5.656416 ACAAAAGTTCTTGGAATGACCTGAA 59.344 36.000 0.00 0.00 39.86 3.02
2504 7252 6.154363 ACAAAAGTTCTTGGAATGACCTGAAA 59.846 34.615 0.00 0.00 39.86 2.69
2505 7253 6.790232 AAAGTTCTTGGAATGACCTGAAAA 57.210 33.333 0.00 0.00 39.86 2.29
2506 7254 6.983906 AAGTTCTTGGAATGACCTGAAAAT 57.016 33.333 0.00 0.00 39.86 1.82
2507 7255 6.581171 AGTTCTTGGAATGACCTGAAAATC 57.419 37.500 0.00 0.00 39.86 2.17
2508 7256 6.070656 AGTTCTTGGAATGACCTGAAAATCA 58.929 36.000 0.00 0.00 39.86 2.57
2509 7257 6.550854 AGTTCTTGGAATGACCTGAAAATCAA 59.449 34.615 0.00 0.00 39.86 2.57
2510 7258 6.331369 TCTTGGAATGACCTGAAAATCAAC 57.669 37.500 0.00 0.00 39.86 3.18
2513 7261 3.756434 GGAATGACCTGAAAATCAACGGA 59.244 43.478 0.00 0.00 35.41 4.69
2514 7262 4.142600 GGAATGACCTGAAAATCAACGGAG 60.143 45.833 0.00 0.00 35.41 4.63
2516 7264 4.286297 TGACCTGAAAATCAACGGAGAT 57.714 40.909 0.00 0.00 0.00 2.75
2517 7265 4.651778 TGACCTGAAAATCAACGGAGATT 58.348 39.130 0.00 0.00 39.81 2.40
2518 7266 5.800296 TGACCTGAAAATCAACGGAGATTA 58.200 37.500 5.23 0.00 37.24 1.75
2521 7269 7.393234 TGACCTGAAAATCAACGGAGATTATTT 59.607 33.333 5.23 0.00 37.24 1.40
2522 7270 8.122472 ACCTGAAAATCAACGGAGATTATTTT 57.878 30.769 5.23 0.00 37.24 1.82
2524 7272 8.863049 CCTGAAAATCAACGGAGATTATTTTTG 58.137 33.333 5.23 0.00 37.24 2.44
2525 7273 8.755696 TGAAAATCAACGGAGATTATTTTTGG 57.244 30.769 5.23 0.00 37.24 3.28
2528 9177 9.771534 AAAATCAACGGAGATTATTTTTGGAAA 57.228 25.926 5.23 0.00 37.24 3.13
2530 9179 9.942850 AATCAACGGAGATTATTTTTGGAAAAT 57.057 25.926 3.16 4.32 36.51 1.82
2556 9205 5.379732 AAAAATACCGGCGAAAGAATCAA 57.620 34.783 9.30 0.00 0.00 2.57
2557 9206 4.616181 AAATACCGGCGAAAGAATCAAG 57.384 40.909 9.30 0.00 0.00 3.02
2558 9207 2.018542 TACCGGCGAAAGAATCAAGG 57.981 50.000 9.30 0.00 0.00 3.61
2559 9208 1.305930 ACCGGCGAAAGAATCAAGGC 61.306 55.000 9.30 0.00 0.00 4.35
2561 9210 1.305219 CGGCGAAAGAATCAAGGCCA 61.305 55.000 5.01 0.00 40.52 5.36
2562 9211 0.453390 GGCGAAAGAATCAAGGCCAG 59.547 55.000 5.01 0.00 40.24 4.85
2563 9212 0.453390 GCGAAAGAATCAAGGCCAGG 59.547 55.000 5.01 0.00 0.00 4.45
2564 9213 1.098050 CGAAAGAATCAAGGCCAGGG 58.902 55.000 5.01 0.00 0.00 4.45
2565 9214 1.478631 GAAAGAATCAAGGCCAGGGG 58.521 55.000 5.01 0.00 0.00 4.79
2566 9215 0.041684 AAAGAATCAAGGCCAGGGGG 59.958 55.000 5.01 0.00 37.18 5.40
2582 9231 2.189521 GGCCACACCCTATCCACG 59.810 66.667 0.00 0.00 0.00 4.94
2583 9232 2.363975 GGCCACACCCTATCCACGA 61.364 63.158 0.00 0.00 0.00 4.35
2584 9233 1.144057 GCCACACCCTATCCACGAG 59.856 63.158 0.00 0.00 0.00 4.18
2585 9234 1.823295 CCACACCCTATCCACGAGG 59.177 63.158 0.00 0.00 0.00 4.63
2654 9303 2.741092 GTGCTCCACCGACCTCAA 59.259 61.111 0.00 0.00 0.00 3.02
2655 9304 1.668151 GTGCTCCACCGACCTCAAC 60.668 63.158 0.00 0.00 0.00 3.18
2656 9305 1.837051 TGCTCCACCGACCTCAACT 60.837 57.895 0.00 0.00 0.00 3.16
2657 9306 1.079750 GCTCCACCGACCTCAACTC 60.080 63.158 0.00 0.00 0.00 3.01
2658 9307 1.592223 CTCCACCGACCTCAACTCC 59.408 63.158 0.00 0.00 0.00 3.85
2659 9308 1.152419 TCCACCGACCTCAACTCCA 60.152 57.895 0.00 0.00 0.00 3.86
2661 9310 0.602905 CCACCGACCTCAACTCCAAC 60.603 60.000 0.00 0.00 0.00 3.77
2662 9311 0.393077 CACCGACCTCAACTCCAACT 59.607 55.000 0.00 0.00 0.00 3.16
2663 9312 0.680061 ACCGACCTCAACTCCAACTC 59.320 55.000 0.00 0.00 0.00 3.01
2664 9313 0.037232 CCGACCTCAACTCCAACTCC 60.037 60.000 0.00 0.00 0.00 3.85
2666 9315 1.276421 CGACCTCAACTCCAACTCCAT 59.724 52.381 0.00 0.00 0.00 3.41
2668 9317 3.133003 CGACCTCAACTCCAACTCCATAT 59.867 47.826 0.00 0.00 0.00 1.78
2670 9319 5.011125 CGACCTCAACTCCAACTCCATATAT 59.989 44.000 0.00 0.00 0.00 0.86
2671 9320 6.463049 CGACCTCAACTCCAACTCCATATATT 60.463 42.308 0.00 0.00 0.00 1.28
2672 9321 6.831976 ACCTCAACTCCAACTCCATATATTC 58.168 40.000 0.00 0.00 0.00 1.75
2674 9323 6.708054 CCTCAACTCCAACTCCATATATTCAC 59.292 42.308 0.00 0.00 0.00 3.18
2675 9324 6.280643 TCAACTCCAACTCCATATATTCACG 58.719 40.000 0.00 0.00 0.00 4.35
2676 9325 4.632153 ACTCCAACTCCATATATTCACGC 58.368 43.478 0.00 0.00 0.00 5.34
2677 9326 4.345257 ACTCCAACTCCATATATTCACGCT 59.655 41.667 0.00 0.00 0.00 5.07
2678 9327 4.883083 TCCAACTCCATATATTCACGCTC 58.117 43.478 0.00 0.00 0.00 5.03
2680 9329 3.577649 ACTCCATATATTCACGCTCGG 57.422 47.619 0.00 0.00 0.00 4.63
2681 9330 2.231478 ACTCCATATATTCACGCTCGGG 59.769 50.000 0.00 0.00 0.00 5.14
2682 9331 1.548719 TCCATATATTCACGCTCGGGG 59.451 52.381 0.00 0.00 0.00 5.73
2683 9332 1.548719 CCATATATTCACGCTCGGGGA 59.451 52.381 0.00 0.00 0.00 4.81
2684 9333 2.417379 CCATATATTCACGCTCGGGGAG 60.417 54.545 0.00 0.00 0.00 4.30
2685 9334 2.281539 TATATTCACGCTCGGGGAGA 57.718 50.000 0.00 0.00 0.00 3.71
2697 9346 3.895232 TCGGGGAGAGAAAAATCAGAG 57.105 47.619 0.00 0.00 0.00 3.35
2698 9347 3.441101 TCGGGGAGAGAAAAATCAGAGA 58.559 45.455 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 1.313091 CGTCACCCTCTCCGTCATCA 61.313 60.000 0.00 0.00 0.00 3.07
52 53 1.001269 TCGTCACCCTCTCCGTCAT 60.001 57.895 0.00 0.00 0.00 3.06
72 73 2.619074 GGTCTGTTCCCATTTCCCTGAG 60.619 54.545 0.00 0.00 0.00 3.35
144 148 4.853468 TTATAGGTGCTGGTGATTGGAA 57.147 40.909 0.00 0.00 0.00 3.53
169 173 2.591753 GCTGAGGGCATGGCTGTA 59.408 61.111 19.78 4.59 41.35 2.74
177 181 1.605992 CTGAATCAGGCTGAGGGCA 59.394 57.895 23.24 17.67 44.01 5.36
200 204 3.817647 AGCTCTGTTGTTTCTGAATGTCC 59.182 43.478 0.00 0.00 0.00 4.02
206 210 3.244009 CCTCTGAGCTCTGTTGTTTCTGA 60.244 47.826 16.19 0.00 0.00 3.27
215 219 1.346062 TTCTTGCCTCTGAGCTCTGT 58.654 50.000 16.19 0.00 0.00 3.41
216 220 2.075338 GTTTCTTGCCTCTGAGCTCTG 58.925 52.381 16.19 15.06 0.00 3.35
217 221 1.696336 TGTTTCTTGCCTCTGAGCTCT 59.304 47.619 16.19 0.00 0.00 4.09
227 231 2.927553 ATCTTGCGATGTTTCTTGCC 57.072 45.000 0.00 0.00 0.00 4.52
233 237 5.354234 AGAATCGGTAAATCTTGCGATGTTT 59.646 36.000 0.00 0.00 0.00 2.83
238 242 4.566759 CAGAAGAATCGGTAAATCTTGCGA 59.433 41.667 0.00 0.00 33.73 5.10
270 276 0.530650 CGCCGTGAACTGGATGCTAT 60.531 55.000 0.00 0.00 0.00 2.97
547 553 1.823295 GACGATGGGCTTCTAGGCA 59.177 57.895 2.60 0.00 43.44 4.75
552 558 1.227380 GCATCGACGATGGGCTTCT 60.227 57.895 32.61 0.00 40.10 2.85
657 664 5.645497 CGATTCTTCCCTCTCAGAAAAATGT 59.355 40.000 0.00 0.00 32.76 2.71
672 680 6.124088 ACACAAAATAGCATCGATTCTTCC 57.876 37.500 2.11 0.00 0.00 3.46
702 715 6.307800 CGTCAGCAAATTTGTTATGGTAAAGG 59.692 38.462 19.03 0.00 0.00 3.11
705 718 5.157781 GCGTCAGCAAATTTGTTATGGTAA 58.842 37.500 19.03 0.00 44.35 2.85
739 761 9.665264 CAGATGATGAATTGATAATGACAACAG 57.335 33.333 0.00 0.00 0.00 3.16
757 779 5.742453 GCAATTACAAACAGAGCAGATGATG 59.258 40.000 0.00 0.00 0.00 3.07
781 806 5.640189 ATGAATCTGTTTTCTCTGCCTTG 57.360 39.130 0.00 0.00 0.00 3.61
784 809 6.017400 TCAAATGAATCTGTTTTCTCTGCC 57.983 37.500 0.00 0.00 0.00 4.85
788 813 9.351570 GAAAGGATCAAATGAATCTGTTTTCTC 57.648 33.333 0.00 0.00 0.00 2.87
864 891 7.305474 ACAATTAATCAGTCGTTGGATCAAAC 58.695 34.615 2.55 2.55 0.00 2.93
921 963 4.356289 CGTCCGGTTGAAAATCTGTTTTT 58.644 39.130 0.00 0.00 40.25 1.94
1028 5276 3.853831 TCAGCGGTATCTCGTTTGTTA 57.146 42.857 0.00 0.00 0.00 2.41
1033 5281 1.002684 GACGATCAGCGGTATCTCGTT 60.003 52.381 16.04 4.47 46.49 3.85
1237 5485 4.400251 ACGATCTGCACCAATTTCATTGAT 59.600 37.500 0.00 0.00 42.83 2.57
1356 5604 3.763897 GGCAATAGACAAACCCTTGATGT 59.236 43.478 0.00 0.00 36.33 3.06
1413 5661 3.770040 TGCGGTATCTGCCTGCGT 61.770 61.111 0.00 0.00 33.18 5.24
1563 5811 6.293298 CGAATCTCTTAGGCAAATCTGGATTG 60.293 42.308 0.00 0.00 0.00 2.67
1623 5871 3.851098 AGGATCTTGCGTGTAGAAAGTC 58.149 45.455 0.00 0.00 36.82 3.01
1645 5893 4.345257 AGGATAATCTGTGTAGCCAACGAT 59.655 41.667 0.00 0.00 28.96 3.73
1648 5896 5.297029 GGAAAGGATAATCTGTGTAGCCAAC 59.703 44.000 0.00 0.00 28.96 3.77
1674 5922 3.093278 GCATTCGAGCCACCTTCG 58.907 61.111 0.00 0.00 39.33 3.79
1879 6134 8.706322 AATTTGTCTTATAGGTTGTTGAAGGT 57.294 30.769 0.00 0.00 0.00 3.50
1928 6664 1.833787 AACCGGTAAGGACGCACCAT 61.834 55.000 8.00 0.00 45.00 3.55
2040 6777 8.439971 TGATAGTTGCCAATTAACAGGAGATAT 58.560 33.333 0.00 0.00 0.00 1.63
2349 7097 5.320549 TGGAAAGTAGATACGTTGGAGAC 57.679 43.478 0.00 0.00 0.00 3.36
2350 7098 5.988310 TTGGAAAGTAGATACGTTGGAGA 57.012 39.130 0.00 0.00 0.00 3.71
2351 7099 5.929992 TGTTTGGAAAGTAGATACGTTGGAG 59.070 40.000 0.00 0.00 0.00 3.86
2352 7100 5.697633 GTGTTTGGAAAGTAGATACGTTGGA 59.302 40.000 0.00 0.00 0.00 3.53
2353 7101 5.699458 AGTGTTTGGAAAGTAGATACGTTGG 59.301 40.000 0.00 0.00 0.00 3.77
2357 7105 6.577427 GCAAAAGTGTTTGGAAAGTAGATACG 59.423 38.462 1.72 0.00 43.73 3.06
2358 7106 6.861572 GGCAAAAGTGTTTGGAAAGTAGATAC 59.138 38.462 1.72 0.00 43.73 2.24
2359 7107 6.015772 GGGCAAAAGTGTTTGGAAAGTAGATA 60.016 38.462 1.72 0.00 43.73 1.98
2360 7108 5.221441 GGGCAAAAGTGTTTGGAAAGTAGAT 60.221 40.000 1.72 0.00 43.73 1.98
2362 7110 4.099419 AGGGCAAAAGTGTTTGGAAAGTAG 59.901 41.667 1.72 0.00 43.73 2.57
2364 7112 2.837591 AGGGCAAAAGTGTTTGGAAAGT 59.162 40.909 1.72 0.00 43.73 2.66
2365 7113 3.541996 AGGGCAAAAGTGTTTGGAAAG 57.458 42.857 1.72 0.00 43.73 2.62
2368 7116 2.183679 ACAAGGGCAAAAGTGTTTGGA 58.816 42.857 1.72 0.00 43.73 3.53
2369 7117 2.689553 ACAAGGGCAAAAGTGTTTGG 57.310 45.000 1.72 0.00 43.73 3.28
2370 7118 4.379290 CCAAAACAAGGGCAAAAGTGTTTG 60.379 41.667 1.73 0.00 41.94 2.93
2371 7119 3.755905 CCAAAACAAGGGCAAAAGTGTTT 59.244 39.130 0.00 0.00 44.01 2.83
2373 7121 2.569404 TCCAAAACAAGGGCAAAAGTGT 59.431 40.909 0.00 0.00 0.00 3.55
2374 7122 2.935849 GTCCAAAACAAGGGCAAAAGTG 59.064 45.455 0.00 0.00 0.00 3.16
2375 7123 2.837591 AGTCCAAAACAAGGGCAAAAGT 59.162 40.909 0.00 0.00 31.65 2.66
2376 7124 3.132824 AGAGTCCAAAACAAGGGCAAAAG 59.867 43.478 0.00 0.00 31.65 2.27
2380 7128 3.117663 AGTTAGAGTCCAAAACAAGGGCA 60.118 43.478 0.00 0.00 31.65 5.36
2381 7129 3.487372 AGTTAGAGTCCAAAACAAGGGC 58.513 45.455 4.12 0.00 0.00 5.19
2382 7130 4.261614 GCAAGTTAGAGTCCAAAACAAGGG 60.262 45.833 4.12 0.00 0.00 3.95
2383 7131 4.338118 TGCAAGTTAGAGTCCAAAACAAGG 59.662 41.667 0.00 0.00 0.00 3.61
2386 7134 5.129634 TCATGCAAGTTAGAGTCCAAAACA 58.870 37.500 0.00 0.00 0.00 2.83
2387 7135 5.689383 TCATGCAAGTTAGAGTCCAAAAC 57.311 39.130 0.00 0.00 0.00 2.43
2388 7136 6.899393 AATCATGCAAGTTAGAGTCCAAAA 57.101 33.333 0.00 0.00 0.00 2.44
2389 7137 6.489700 TCAAATCATGCAAGTTAGAGTCCAAA 59.510 34.615 0.00 0.00 0.00 3.28
2390 7138 6.003326 TCAAATCATGCAAGTTAGAGTCCAA 58.997 36.000 0.00 0.00 0.00 3.53
2391 7139 5.559770 TCAAATCATGCAAGTTAGAGTCCA 58.440 37.500 0.00 0.00 0.00 4.02
2392 7140 5.645497 ACTCAAATCATGCAAGTTAGAGTCC 59.355 40.000 0.00 0.00 0.00 3.85
2393 7141 6.402983 CCACTCAAATCATGCAAGTTAGAGTC 60.403 42.308 0.00 0.00 32.03 3.36
2395 7143 5.645067 TCCACTCAAATCATGCAAGTTAGAG 59.355 40.000 0.00 0.00 0.00 2.43
2396 7144 5.559770 TCCACTCAAATCATGCAAGTTAGA 58.440 37.500 0.00 0.00 0.00 2.10
2399 7147 4.586001 AGTTCCACTCAAATCATGCAAGTT 59.414 37.500 0.00 0.00 0.00 2.66
2400 7148 4.147321 AGTTCCACTCAAATCATGCAAGT 58.853 39.130 0.00 0.00 0.00 3.16
2401 7149 4.778534 AGTTCCACTCAAATCATGCAAG 57.221 40.909 0.00 0.00 0.00 4.01
2406 7154 4.261801 CGGGTTAGTTCCACTCAAATCAT 58.738 43.478 0.00 0.00 0.00 2.45
2407 7155 3.558321 CCGGGTTAGTTCCACTCAAATCA 60.558 47.826 0.00 0.00 0.00 2.57
2408 7156 3.007635 CCGGGTTAGTTCCACTCAAATC 58.992 50.000 0.00 0.00 0.00 2.17
2410 7158 2.048601 TCCGGGTTAGTTCCACTCAAA 58.951 47.619 0.00 0.00 0.00 2.69
2411 7159 1.345415 GTCCGGGTTAGTTCCACTCAA 59.655 52.381 0.00 0.00 0.00 3.02
2412 7160 0.971386 GTCCGGGTTAGTTCCACTCA 59.029 55.000 0.00 0.00 0.00 3.41
2413 7161 0.248565 GGTCCGGGTTAGTTCCACTC 59.751 60.000 0.00 0.00 0.00 3.51
2414 7162 0.472352 TGGTCCGGGTTAGTTCCACT 60.472 55.000 0.00 0.00 0.00 4.00
2415 7163 0.397564 TTGGTCCGGGTTAGTTCCAC 59.602 55.000 0.00 0.00 0.00 4.02
2416 7164 0.397564 GTTGGTCCGGGTTAGTTCCA 59.602 55.000 0.00 0.00 0.00 3.53
2417 7165 0.671472 CGTTGGTCCGGGTTAGTTCC 60.671 60.000 0.00 0.00 0.00 3.62
2419 7167 1.301953 GCGTTGGTCCGGGTTAGTT 60.302 57.895 0.00 0.00 0.00 2.24
2420 7168 2.212110 AGCGTTGGTCCGGGTTAGT 61.212 57.895 0.00 0.00 0.00 2.24
2422 7170 2.042404 AACAGCGTTGGTCCGGGTTA 62.042 55.000 0.00 0.00 0.00 2.85
2423 7171 2.897172 AAACAGCGTTGGTCCGGGTT 62.897 55.000 0.00 0.00 0.00 4.11
2426 7174 1.281656 GAAAACAGCGTTGGTCCGG 59.718 57.895 3.74 0.00 0.00 5.14
2429 7177 3.164028 GCTGAAAACAGCGTTGGTC 57.836 52.632 3.74 0.00 38.52 4.02
2448 7196 6.427547 CACAAAAATAACACCATGGCAATTCT 59.572 34.615 13.04 0.00 0.00 2.40
2449 7197 6.601264 CACAAAAATAACACCATGGCAATTC 58.399 36.000 13.04 0.00 0.00 2.17
2450 7198 5.048852 GCACAAAAATAACACCATGGCAATT 60.049 36.000 13.04 6.30 0.00 2.32
2454 7202 3.397482 TGCACAAAAATAACACCATGGC 58.603 40.909 13.04 0.00 0.00 4.40
2468 7216 6.260936 TCCAAGAACTTTTGTTTTTGCACAAA 59.739 30.769 0.00 0.00 46.68 2.83
2469 7217 5.760253 TCCAAGAACTTTTGTTTTTGCACAA 59.240 32.000 6.65 0.00 46.68 3.33
2470 7218 5.300752 TCCAAGAACTTTTGTTTTTGCACA 58.699 33.333 6.65 0.00 46.68 4.57
2471 7219 5.854431 TCCAAGAACTTTTGTTTTTGCAC 57.146 34.783 6.65 0.00 46.68 4.57
2473 7221 6.960992 GTCATTCCAAGAACTTTTGTTTTTGC 59.039 34.615 6.65 0.00 46.68 3.68
2476 7224 6.818142 CAGGTCATTCCAAGAACTTTTGTTTT 59.182 34.615 0.00 0.00 39.86 2.43
2477 7225 6.154363 TCAGGTCATTCCAAGAACTTTTGTTT 59.846 34.615 0.00 0.00 39.86 2.83
2478 7226 5.656416 TCAGGTCATTCCAAGAACTTTTGTT 59.344 36.000 0.00 0.00 41.44 2.83
2480 7228 5.772825 TCAGGTCATTCCAAGAACTTTTG 57.227 39.130 0.00 0.00 39.02 2.44
2481 7229 6.790232 TTTCAGGTCATTCCAAGAACTTTT 57.210 33.333 0.00 0.00 39.02 2.27
2482 7230 6.790232 TTTTCAGGTCATTCCAAGAACTTT 57.210 33.333 0.00 0.00 39.02 2.66
2483 7231 6.550854 TGATTTTCAGGTCATTCCAAGAACTT 59.449 34.615 0.00 0.00 39.02 2.66
2484 7232 6.070656 TGATTTTCAGGTCATTCCAAGAACT 58.929 36.000 0.00 0.00 39.02 3.01
2485 7233 6.331369 TGATTTTCAGGTCATTCCAAGAAC 57.669 37.500 0.00 0.00 39.02 3.01
2486 7234 6.514870 CGTTGATTTTCAGGTCATTCCAAGAA 60.515 38.462 0.00 0.00 39.02 2.52
2488 7236 5.156355 CGTTGATTTTCAGGTCATTCCAAG 58.844 41.667 0.00 0.00 39.02 3.61
2489 7237 4.022416 CCGTTGATTTTCAGGTCATTCCAA 60.022 41.667 0.00 0.00 39.02 3.53
2492 7240 4.695455 TCTCCGTTGATTTTCAGGTCATTC 59.305 41.667 0.00 0.00 0.00 2.67
2494 7242 4.286297 TCTCCGTTGATTTTCAGGTCAT 57.714 40.909 0.00 0.00 0.00 3.06
2495 7243 3.762407 TCTCCGTTGATTTTCAGGTCA 57.238 42.857 0.00 0.00 0.00 4.02
2496 7244 6.927294 ATAATCTCCGTTGATTTTCAGGTC 57.073 37.500 5.64 0.00 37.73 3.85
2497 7245 7.703058 AAATAATCTCCGTTGATTTTCAGGT 57.297 32.000 5.64 0.00 37.73 4.00
2498 7246 8.863049 CAAAAATAATCTCCGTTGATTTTCAGG 58.137 33.333 5.64 0.00 37.73 3.86
2499 7247 8.863049 CCAAAAATAATCTCCGTTGATTTTCAG 58.137 33.333 5.64 0.00 37.73 3.02
2503 7251 9.771534 TTTTCCAAAAATAATCTCCGTTGATTT 57.228 25.926 5.64 0.00 37.73 2.17
2504 7252 9.942850 ATTTTCCAAAAATAATCTCCGTTGATT 57.057 25.926 5.64 5.64 39.63 2.57
2535 9184 4.142469 CCTTGATTCTTTCGCCGGTATTTT 60.142 41.667 1.90 0.00 0.00 1.82
2542 9191 1.305219 TGGCCTTGATTCTTTCGCCG 61.305 55.000 3.32 0.00 39.30 6.46
2543 9192 0.453390 CTGGCCTTGATTCTTTCGCC 59.547 55.000 3.32 0.00 36.91 5.54
2544 9193 0.453390 CCTGGCCTTGATTCTTTCGC 59.547 55.000 3.32 0.00 0.00 4.70
2546 9195 1.478631 CCCCTGGCCTTGATTCTTTC 58.521 55.000 3.32 0.00 0.00 2.62
2565 9214 2.189521 CGTGGATAGGGTGTGGCC 59.810 66.667 0.00 0.00 0.00 5.36
2566 9215 1.144057 CTCGTGGATAGGGTGTGGC 59.856 63.158 0.00 0.00 0.00 5.01
2567 9216 1.823295 CCTCGTGGATAGGGTGTGG 59.177 63.158 0.00 0.00 34.57 4.17
2637 9286 1.668151 GTTGAGGTCGGTGGAGCAC 60.668 63.158 0.00 0.00 43.12 4.40
2639 9288 1.079750 GAGTTGAGGTCGGTGGAGC 60.080 63.158 0.00 0.00 40.99 4.70
2641 9290 0.761323 TTGGAGTTGAGGTCGGTGGA 60.761 55.000 0.00 0.00 0.00 4.02
2642 9291 0.602905 GTTGGAGTTGAGGTCGGTGG 60.603 60.000 0.00 0.00 0.00 4.61
2645 9294 0.037232 GGAGTTGGAGTTGAGGTCGG 60.037 60.000 0.00 0.00 0.00 4.79
2646 9295 0.679505 TGGAGTTGGAGTTGAGGTCG 59.320 55.000 0.00 0.00 0.00 4.79
2647 9296 4.762289 ATATGGAGTTGGAGTTGAGGTC 57.238 45.455 0.00 0.00 0.00 3.85
2648 9297 6.386927 TGAATATATGGAGTTGGAGTTGAGGT 59.613 38.462 0.00 0.00 0.00 3.85
2649 9298 6.708054 GTGAATATATGGAGTTGGAGTTGAGG 59.292 42.308 0.00 0.00 0.00 3.86
2650 9299 6.422100 CGTGAATATATGGAGTTGGAGTTGAG 59.578 42.308 0.00 0.00 0.00 3.02
2652 9301 5.050091 GCGTGAATATATGGAGTTGGAGTTG 60.050 44.000 0.00 0.00 0.00 3.16
2654 9303 4.345257 AGCGTGAATATATGGAGTTGGAGT 59.655 41.667 0.00 0.00 0.00 3.85
2655 9304 4.887748 AGCGTGAATATATGGAGTTGGAG 58.112 43.478 0.00 0.00 0.00 3.86
2656 9305 4.558697 CGAGCGTGAATATATGGAGTTGGA 60.559 45.833 0.00 0.00 0.00 3.53
2657 9306 3.675225 CGAGCGTGAATATATGGAGTTGG 59.325 47.826 0.00 0.00 0.00 3.77
2658 9307 3.675225 CCGAGCGTGAATATATGGAGTTG 59.325 47.826 0.00 0.00 0.00 3.16
2659 9308 3.306088 CCCGAGCGTGAATATATGGAGTT 60.306 47.826 0.00 0.00 0.00 3.01
2661 9310 2.417379 CCCCGAGCGTGAATATATGGAG 60.417 54.545 0.00 0.00 0.00 3.86
2662 9311 1.548719 CCCCGAGCGTGAATATATGGA 59.451 52.381 0.00 0.00 0.00 3.41
2663 9312 1.548719 TCCCCGAGCGTGAATATATGG 59.451 52.381 0.00 0.00 0.00 2.74
2664 9313 2.492088 TCTCCCCGAGCGTGAATATATG 59.508 50.000 0.00 0.00 0.00 1.78
2666 9315 2.160205 CTCTCCCCGAGCGTGAATATA 58.840 52.381 0.00 0.00 31.99 0.86
2668 9317 0.106868 TCTCTCCCCGAGCGTGAATA 60.107 55.000 0.00 0.00 39.70 1.75
2670 9319 1.183030 TTTCTCTCCCCGAGCGTGAA 61.183 55.000 0.00 0.00 39.70 3.18
2671 9320 1.183030 TTTTCTCTCCCCGAGCGTGA 61.183 55.000 0.00 0.00 39.70 4.35
2672 9321 0.320421 TTTTTCTCTCCCCGAGCGTG 60.320 55.000 0.00 0.00 39.70 5.34
2674 9323 1.291132 GATTTTTCTCTCCCCGAGCG 58.709 55.000 0.00 0.00 39.70 5.03
2675 9324 2.093447 TCTGATTTTTCTCTCCCCGAGC 60.093 50.000 0.00 0.00 39.70 5.03
2676 9325 3.449018 TCTCTGATTTTTCTCTCCCCGAG 59.551 47.826 0.00 0.00 41.30 4.63
2677 9326 3.441101 TCTCTGATTTTTCTCTCCCCGA 58.559 45.455 0.00 0.00 0.00 5.14
2678 9327 3.895232 TCTCTGATTTTTCTCTCCCCG 57.105 47.619 0.00 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.