Multiple sequence alignment - TraesCS6A01G283500

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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 TraesCS6A01G283500 chr6A 100.000 3466 0 0 1 3466 514680443 514676978 0.000000e+00 6401
1 TraesCS6A01G283500 chr6A 77.313 1243 238 29 1238 2464 514493637 514492423 0.000000e+00 693
2 TraesCS6A01G283500 chr6D 93.076 2932 127 33 586 3466 372822222 372819316 0.000000e+00 4220
3 TraesCS6A01G283500 chr6D 76.442 1231 244 31 1238 2448 372768461 372769665 2.940000e-175 625
4 TraesCS6A01G283500 chr6D 76.043 1223 247 36 1238 2448 372785907 372784719 8.280000e-166 593
5 TraesCS6A01G283500 chr6D 84.554 505 66 9 2964 3464 372818977 372818481 1.120000e-134 490
6 TraesCS6A01G283500 chr6B 94.746 1637 74 7 875 2505 559355341 559356971 0.000000e+00 2536
7 TraesCS6A01G283500 chr6B 76.159 1229 251 29 1238 2448 559462891 559464095 2.960000e-170 608
8 TraesCS6A01G283500 chr6B 84.369 531 58 10 1 525 559354033 559354544 6.680000e-137 497
9 TraesCS6A01G283500 chr6B 83.004 506 75 8 2963 3464 559357595 559358093 6.820000e-122 448
10 TraesCS6A01G283500 chr6B 85.215 372 30 7 2577 2947 559357109 559357456 3.290000e-95 359
11 TraesCS6A01G283500 chr6B 87.543 289 19 7 586 865 559354652 559354932 5.580000e-83 318
12 TraesCS6A01G283500 chr6B 93.151 73 5 0 2503 2575 559357001 559357073 1.320000e-19 108
13 TraesCS6A01G283500 chr2D 97.095 964 28 0 1389 2352 637375668 637374705 0.000000e+00 1626
14 TraesCS6A01G283500 chr7D 75.163 1228 247 42 1258 2450 587302185 587303389 3.060000e-145 525
15 TraesCS6A01G283500 chr7A 74.817 1227 255 39 1258 2451 679230005 679231210 3.990000e-139 505


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 TraesCS6A01G283500 chr6A 514676978 514680443 3465 True 6401 6401 100.000000 1 3466 1 chr6A.!!$R2 3465
1 TraesCS6A01G283500 chr6A 514492423 514493637 1214 True 693 693 77.313000 1238 2464 1 chr6A.!!$R1 1226
2 TraesCS6A01G283500 chr6D 372818481 372822222 3741 True 2355 4220 88.815000 586 3466 2 chr6D.!!$R2 2880
3 TraesCS6A01G283500 chr6D 372768461 372769665 1204 False 625 625 76.442000 1238 2448 1 chr6D.!!$F1 1210
4 TraesCS6A01G283500 chr6D 372784719 372785907 1188 True 593 593 76.043000 1238 2448 1 chr6D.!!$R1 1210
5 TraesCS6A01G283500 chr6B 559354033 559358093 4060 False 711 2536 88.004667 1 3464 6 chr6B.!!$F2 3463
6 TraesCS6A01G283500 chr6B 559462891 559464095 1204 False 608 608 76.159000 1238 2448 1 chr6B.!!$F1 1210
7 TraesCS6A01G283500 chr2D 637374705 637375668 963 True 1626 1626 97.095000 1389 2352 1 chr2D.!!$R1 963
8 TraesCS6A01G283500 chr7D 587302185 587303389 1204 False 525 525 75.163000 1258 2450 1 chr7D.!!$F1 1192
9 TraesCS6A01G283500 chr7A 679230005 679231210 1205 False 505 505 74.817000 1258 2451 1 chr7A.!!$F1 1193

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
504 511 0.249073 CGACCCCGCTCTTCTACATG 60.249 60.0 0.0 0.0 0.00 3.21 F
986 1450 0.252974 TAGCTGTTAGCCTCCCCCAA 60.253 55.0 0.0 0.0 43.77 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2315 2821 1.800586 CTGCCGAATATGATCCCGTTG 59.199 52.381 0.0 0.0 0.00 4.10 R
2951 4237 0.884704 GCTCCTGTCCAAAGACGCAA 60.885 55.000 0.0 0.0 46.74 4.85 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
40 41 6.008331 GGATAACCCTTTTTGAGTGGTAACT 58.992 40.000 0.00 0.00 40.21 2.24
43 44 3.951680 ACCCTTTTTGAGTGGTAACTGTG 59.048 43.478 0.00 0.00 36.52 3.66
48 49 6.183360 CCTTTTTGAGTGGTAACTGTGAATGT 60.183 38.462 0.00 0.00 36.52 2.71
84 85 1.244019 GCAGGTCCAGTTTTCGGCAT 61.244 55.000 0.00 0.00 0.00 4.40
85 86 1.247567 CAGGTCCAGTTTTCGGCATT 58.752 50.000 0.00 0.00 0.00 3.56
86 87 1.068333 CAGGTCCAGTTTTCGGCATTG 60.068 52.381 0.00 0.00 0.00 2.82
89 90 2.095415 GGTCCAGTTTTCGGCATTGTAC 60.095 50.000 0.00 0.00 0.00 2.90
95 96 2.697431 TTTCGGCATTGTACAAGCAC 57.303 45.000 22.76 12.33 0.00 4.40
96 97 1.890876 TTCGGCATTGTACAAGCACT 58.109 45.000 22.76 3.56 0.00 4.40
97 98 1.890876 TCGGCATTGTACAAGCACTT 58.109 45.000 22.76 3.23 0.00 3.16
98 99 1.535028 TCGGCATTGTACAAGCACTTG 59.465 47.619 22.76 14.23 45.58 3.16
99 100 1.701704 GGCATTGTACAAGCACTTGC 58.298 50.000 22.76 20.83 44.03 4.01
100 101 1.669795 GGCATTGTACAAGCACTTGCC 60.670 52.381 26.17 26.17 44.03 4.52
101 102 1.270550 GCATTGTACAAGCACTTGCCT 59.729 47.619 16.73 0.00 44.03 4.75
102 103 2.669391 GCATTGTACAAGCACTTGCCTC 60.669 50.000 16.73 2.44 44.03 4.70
103 104 2.638480 TTGTACAAGCACTTGCCTCT 57.362 45.000 3.59 0.00 44.03 3.69
104 105 3.762407 TTGTACAAGCACTTGCCTCTA 57.238 42.857 3.59 0.00 44.03 2.43
105 106 3.981071 TGTACAAGCACTTGCCTCTAT 57.019 42.857 10.26 0.00 44.03 1.98
106 107 3.599343 TGTACAAGCACTTGCCTCTATG 58.401 45.455 10.26 0.00 44.03 2.23
107 108 2.867109 ACAAGCACTTGCCTCTATGT 57.133 45.000 10.26 0.00 44.03 2.29
108 109 3.146104 ACAAGCACTTGCCTCTATGTT 57.854 42.857 10.26 0.00 44.03 2.71
109 110 2.816087 ACAAGCACTTGCCTCTATGTTG 59.184 45.455 10.26 0.00 44.03 3.33
110 111 2.816087 CAAGCACTTGCCTCTATGTTGT 59.184 45.455 0.00 0.00 43.38 3.32
111 112 2.430465 AGCACTTGCCTCTATGTTGTG 58.570 47.619 0.00 0.00 43.38 3.33
135 136 2.426738 CTGTGAGCACAAAAAGACCCAA 59.573 45.455 4.72 0.00 41.33 4.12
138 139 3.030291 TGAGCACAAAAAGACCCAACAT 58.970 40.909 0.00 0.00 0.00 2.71
158 160 6.992063 ACATGAAACTGTGATTAGATCCAC 57.008 37.500 0.00 0.00 0.00 4.02
197 199 9.757227 TGTACTTTTCCTTAATTTCAAACATGG 57.243 29.630 0.00 0.00 0.00 3.66
235 237 8.879342 AGTCATCTTTCGTATGAGATAAAAGG 57.121 34.615 0.00 0.00 34.12 3.11
241 243 9.932207 TCTTTCGTATGAGATAAAAGGTTTACA 57.068 29.630 0.00 0.00 0.00 2.41
257 259 8.560355 AAGGTTTACAAAAATCTTGTGCTTTT 57.440 26.923 0.44 0.00 43.02 2.27
295 297 2.876550 TCATATGTCAGAATGCAGCTGC 59.123 45.455 31.89 31.89 42.50 5.25
307 309 1.016130 GCAGCTGCGTGTACACATCT 61.016 55.000 25.23 12.50 0.00 2.90
313 315 3.243877 GCTGCGTGTACACATCTCAATAG 59.756 47.826 24.98 11.26 0.00 1.73
316 318 3.123804 CGTGTACACATCTCAATAGGGC 58.876 50.000 24.98 0.00 0.00 5.19
318 320 4.513442 GTGTACACATCTCAATAGGGCAA 58.487 43.478 21.14 0.00 0.00 4.52
326 328 5.130975 ACATCTCAATAGGGCAAGACACATA 59.869 40.000 0.00 0.00 0.00 2.29
328 330 4.469586 TCTCAATAGGGCAAGACACATACA 59.530 41.667 0.00 0.00 0.00 2.29
340 342 9.056005 GGCAAGACACATACATTTATAGAATCA 57.944 33.333 0.00 0.00 0.00 2.57
369 371 7.931578 TTTGTTACATAACTATTGGAGGTGG 57.068 36.000 3.58 0.00 37.12 4.61
372 374 8.148437 TGTTACATAACTATTGGAGGTGGTTA 57.852 34.615 3.58 0.00 37.12 2.85
381 383 6.901300 ACTATTGGAGGTGGTTATACTCTCAA 59.099 38.462 0.00 0.00 0.00 3.02
387 389 5.281314 AGGTGGTTATACTCTCAATCCACT 58.719 41.667 10.48 0.00 42.09 4.00
388 390 5.129485 AGGTGGTTATACTCTCAATCCACTG 59.871 44.000 10.48 0.00 42.09 3.66
406 408 3.822735 CACTGTGGATCAAACCTCATGTT 59.177 43.478 0.00 0.00 39.43 2.71
435 440 0.384309 CATGCACATCTCATGGTGGC 59.616 55.000 0.00 0.00 38.06 5.01
450 455 1.672881 GGTGGCGGATGATCTCTTTTG 59.327 52.381 0.00 0.00 0.00 2.44
461 468 4.248859 TGATCTCTTTTGAGGAAGCTTCG 58.751 43.478 19.91 4.73 46.22 3.79
464 471 4.058817 TCTCTTTTGAGGAAGCTTCGAAC 58.941 43.478 19.91 13.43 46.22 3.95
467 474 0.391597 TTGAGGAAGCTTCGAACGGT 59.608 50.000 19.91 0.43 0.00 4.83
468 475 1.250328 TGAGGAAGCTTCGAACGGTA 58.750 50.000 19.91 0.00 0.00 4.02
485 492 1.201343 GTAGCTTCATCGTTCTCCGC 58.799 55.000 0.00 0.00 36.19 5.54
490 497 2.552585 TTCATCGTTCTCCGCGACCC 62.553 60.000 8.23 0.00 41.33 4.46
504 511 0.249073 CGACCCCGCTCTTCTACATG 60.249 60.000 0.00 0.00 0.00 3.21
513 520 3.594134 GCTCTTCTACATGAGTGCTTGT 58.406 45.455 0.00 0.00 36.50 3.16
525 532 2.601481 GTGCTTGTGTCTATGTGCAC 57.399 50.000 10.75 10.75 42.69 4.57
526 533 2.146342 GTGCTTGTGTCTATGTGCACT 58.854 47.619 19.41 6.22 44.80 4.40
529 536 2.807967 GCTTGTGTCTATGTGCACTTGA 59.192 45.455 19.41 10.38 36.63 3.02
530 537 3.438087 GCTTGTGTCTATGTGCACTTGAT 59.562 43.478 19.41 5.86 36.63 2.57
532 539 5.611796 TTGTGTCTATGTGCACTTGATTC 57.388 39.130 19.41 10.31 36.63 2.52
533 540 4.002982 TGTGTCTATGTGCACTTGATTCC 58.997 43.478 19.41 2.17 36.63 3.01
536 566 5.048782 GTGTCTATGTGCACTTGATTCCAAA 60.049 40.000 19.41 0.00 33.22 3.28
539 569 7.066163 TGTCTATGTGCACTTGATTCCAAATAG 59.934 37.037 19.41 11.97 0.00 1.73
543 573 5.065090 TGTGCACTTGATTCCAAATAGATCG 59.935 40.000 19.41 0.00 0.00 3.69
544 574 4.576053 TGCACTTGATTCCAAATAGATCGG 59.424 41.667 0.00 0.00 0.00 4.18
545 575 4.555511 GCACTTGATTCCAAATAGATCGGC 60.556 45.833 0.00 0.00 0.00 5.54
551 581 3.644966 TCCAAATAGATCGGCCAAACT 57.355 42.857 2.24 0.08 0.00 2.66
602 656 9.662947 AATATAGTACTACCACACAAAAGGTTC 57.337 33.333 4.31 0.00 39.31 3.62
688 745 1.553704 GTTCGAAGGGACCACCACTAT 59.446 52.381 0.00 0.00 43.89 2.12
690 747 3.323774 TCGAAGGGACCACCACTATAT 57.676 47.619 0.00 0.00 43.89 0.86
701 758 4.281182 ACCACCACTATATAGAAAGGCGAG 59.719 45.833 16.79 9.19 0.00 5.03
722 787 1.452108 CCTTCGAATGGTGCCCCTC 60.452 63.158 0.00 0.00 0.00 4.30
750 815 1.337541 GGACGGCCGAACTCTAAAACT 60.338 52.381 35.90 3.54 0.00 2.66
776 841 2.034558 ACTTTGCACCGTGATTTTCCTG 59.965 45.455 1.65 0.00 0.00 3.86
777 842 1.686355 TTGCACCGTGATTTTCCTGT 58.314 45.000 1.65 0.00 0.00 4.00
779 844 1.606668 TGCACCGTGATTTTCCTGTTC 59.393 47.619 1.65 0.00 0.00 3.18
819 884 0.748450 ACTTCCCGTCGTGTTCAAGA 59.252 50.000 0.00 0.00 0.00 3.02
839 904 2.481185 GACGGCAGTATTTCGTTTGGAA 59.519 45.455 0.00 0.00 37.25 3.53
840 905 2.482721 ACGGCAGTATTTCGTTTGGAAG 59.517 45.455 0.00 0.00 35.70 3.46
841 906 2.739913 CGGCAGTATTTCGTTTGGAAGA 59.260 45.455 0.00 0.00 35.70 2.87
842 907 3.181520 CGGCAGTATTTCGTTTGGAAGAG 60.182 47.826 0.00 0.00 35.70 2.85
872 937 0.538118 CCTTCCATTTGGCCACCATG 59.462 55.000 3.88 11.32 31.53 3.66
916 1380 3.771577 ACGAGTCTTCCAAGTTCCAAT 57.228 42.857 0.00 0.00 0.00 3.16
936 1400 4.974368 ATTTTTCTGTGGTTGTGTTCGA 57.026 36.364 0.00 0.00 0.00 3.71
986 1450 0.252974 TAGCTGTTAGCCTCCCCCAA 60.253 55.000 0.00 0.00 43.77 4.12
990 1454 0.623723 TGTTAGCCTCCCCCAACATC 59.376 55.000 0.00 0.00 0.00 3.06
991 1455 0.919710 GTTAGCCTCCCCCAACATCT 59.080 55.000 0.00 0.00 0.00 2.90
992 1456 2.124411 GTTAGCCTCCCCCAACATCTA 58.876 52.381 0.00 0.00 0.00 1.98
994 1458 0.988678 AGCCTCCCCCAACATCTACC 60.989 60.000 0.00 0.00 0.00 3.18
995 1459 1.996070 GCCTCCCCCAACATCTACCC 61.996 65.000 0.00 0.00 0.00 3.69
996 1460 0.327576 CCTCCCCCAACATCTACCCT 60.328 60.000 0.00 0.00 0.00 4.34
998 1462 0.623324 TCCCCCAACATCTACCCTGG 60.623 60.000 0.00 0.00 0.00 4.45
1007 1471 1.143813 ATCTACCCTGGGATGCAAGG 58.856 55.000 22.23 0.00 0.00 3.61
1009 1473 0.471617 CTACCCTGGGATGCAAGGAG 59.528 60.000 22.23 1.81 35.40 3.69
1036 1500 3.832171 CGTTCGTCTCGCAGCTGC 61.832 66.667 29.12 29.12 37.78 5.25
1155 1619 2.125350 GTCTGCTCCGAGCCCAAG 60.125 66.667 17.81 8.74 41.51 3.61
1167 1634 2.590821 GAGCCCAAGGGTACGTAGATA 58.409 52.381 7.05 0.00 37.65 1.98
1182 1652 5.064558 ACGTAGATAGATCAGTAGTGTGGG 58.935 45.833 0.00 0.00 0.00 4.61
1212 1682 3.996032 CGTAGCTTTCTGCAACTTGATC 58.004 45.455 0.00 0.00 45.94 2.92
1230 1700 4.923893 TGATCAATGATTGTTCCATTCGC 58.076 39.130 12.29 0.00 32.40 4.70
1264 1734 1.069378 GTGAATCCGTCGTCGTCCAC 61.069 60.000 0.71 0.38 35.01 4.02
1733 2221 4.980805 GGCGACGGCTCCAACACA 62.981 66.667 15.00 0.00 39.81 3.72
2070 2570 3.976490 AAGGTCGGCGGGGATCAGA 62.976 63.158 7.21 0.00 0.00 3.27
2455 2964 1.539496 CGTCTTCGGGTTCAAGTCCAA 60.539 52.381 0.00 0.00 0.00 3.53
2472 2981 3.573772 AACGCGTGCTAGCTGCTCA 62.574 57.895 23.67 0.00 43.37 4.26
2475 2984 1.227205 GCGTGCTAGCTGCTCATCT 60.227 57.895 17.23 0.00 43.37 2.90
2538 3079 1.159098 GCTAGGCTGCTCTCATGTGC 61.159 60.000 0.00 0.00 0.00 4.57
2539 3080 0.464870 CTAGGCTGCTCTCATGTGCT 59.535 55.000 0.00 0.00 34.18 4.40
2546 3087 2.812591 CTGCTCTCATGTGCTTGTCTTT 59.187 45.455 0.00 0.00 34.18 2.52
2575 3116 1.303888 TCGCGAGGTAAGGGACACT 60.304 57.895 3.71 0.00 0.00 3.55
2629 3204 4.815533 TTTCTCTCTGATAGCAGCAACT 57.184 40.909 2.24 0.00 42.01 3.16
2748 3328 7.873719 TGAAGACTAAATTTCAGTTTCACCA 57.126 32.000 0.00 0.00 0.00 4.17
2749 3329 7.930217 TGAAGACTAAATTTCAGTTTCACCAG 58.070 34.615 0.00 0.00 0.00 4.00
2750 3330 7.556275 TGAAGACTAAATTTCAGTTTCACCAGT 59.444 33.333 0.00 0.00 0.00 4.00
2751 3331 7.881775 AGACTAAATTTCAGTTTCACCAGTT 57.118 32.000 0.00 0.00 0.00 3.16
2752 3332 8.293699 AGACTAAATTTCAGTTTCACCAGTTT 57.706 30.769 0.00 0.00 0.00 2.66
2753 3333 8.406297 AGACTAAATTTCAGTTTCACCAGTTTC 58.594 33.333 0.00 0.00 0.00 2.78
2754 3334 8.062065 ACTAAATTTCAGTTTCACCAGTTTCA 57.938 30.769 0.00 0.00 0.00 2.69
2755 3335 7.973944 ACTAAATTTCAGTTTCACCAGTTTCAC 59.026 33.333 0.00 0.00 0.00 3.18
2756 3336 4.712122 TTTCAGTTTCACCAGTTTCACC 57.288 40.909 0.00 0.00 0.00 4.02
2757 3337 2.650322 TCAGTTTCACCAGTTTCACCC 58.350 47.619 0.00 0.00 0.00 4.61
2758 3338 2.025793 TCAGTTTCACCAGTTTCACCCA 60.026 45.455 0.00 0.00 0.00 4.51
2897 4183 4.835678 TCATCACACAGTTGTCAGCATAT 58.164 39.130 0.00 0.00 31.66 1.78
2905 4191 3.878699 CAGTTGTCAGCATATACATGGCA 59.121 43.478 0.00 0.00 32.36 4.92
2909 4195 2.163010 GTCAGCATATACATGGCATGCC 59.837 50.000 30.54 30.54 44.90 4.40
2920 4206 4.760047 GCATGCCACTCGACGGGT 62.760 66.667 6.36 0.00 0.00 5.28
2927 4213 0.250166 CCACTCGACGGGTTTTCCTT 60.250 55.000 0.00 0.00 40.46 3.36
2930 4216 1.145803 CTCGACGGGTTTTCCTTCAC 58.854 55.000 0.00 0.00 40.46 3.18
2931 4217 0.754472 TCGACGGGTTTTCCTTCACT 59.246 50.000 0.00 0.00 40.46 3.41
2932 4218 1.145803 CGACGGGTTTTCCTTCACTC 58.854 55.000 0.00 0.00 40.46 3.51
2947 4233 5.939883 TCCTTCACTCACAGTTTATTCCATG 59.060 40.000 0.00 0.00 0.00 3.66
2948 4234 5.392380 CCTTCACTCACAGTTTATTCCATGC 60.392 44.000 0.00 0.00 0.00 4.06
2949 4235 4.910195 TCACTCACAGTTTATTCCATGCT 58.090 39.130 0.00 0.00 0.00 3.79
2950 4236 5.316167 TCACTCACAGTTTATTCCATGCTT 58.684 37.500 0.00 0.00 0.00 3.91
2951 4237 5.769662 TCACTCACAGTTTATTCCATGCTTT 59.230 36.000 0.00 0.00 0.00 3.51
2953 4239 6.364165 CACTCACAGTTTATTCCATGCTTTTG 59.636 38.462 0.00 0.00 0.00 2.44
2974 4393 0.670854 GTCTTTGGACAGGAGCCGAC 60.671 60.000 0.00 0.00 41.75 4.79
2978 4397 3.379445 GGACAGGAGCCGACCGAA 61.379 66.667 0.00 0.00 34.73 4.30
2979 4398 2.722201 GGACAGGAGCCGACCGAAT 61.722 63.158 0.00 0.00 34.73 3.34
2990 4409 2.740580 GCCGACCGAATCCTATTTGTCA 60.741 50.000 0.00 0.00 0.00 3.58
2991 4410 3.123804 CCGACCGAATCCTATTTGTCAG 58.876 50.000 0.00 0.00 0.00 3.51
2994 4413 4.630069 CGACCGAATCCTATTTGTCAGTTT 59.370 41.667 0.00 0.00 0.00 2.66
2999 4418 2.432444 TCCTATTTGTCAGTTTGGGCG 58.568 47.619 0.00 0.00 0.00 6.13
3000 4419 1.472480 CCTATTTGTCAGTTTGGGCGG 59.528 52.381 0.00 0.00 0.00 6.13
3003 4422 3.758973 TTGTCAGTTTGGGCGGCGA 62.759 57.895 12.98 0.00 0.00 5.54
3030 4449 6.545666 GTCCTTCATTTTCAAAACCCCAAATT 59.454 34.615 0.00 0.00 0.00 1.82
3038 4457 4.325119 TCAAAACCCCAAATTCATGCATG 58.675 39.130 21.07 21.07 0.00 4.06
3067 4486 7.610865 TGCACATAGACCATTCGATCAATATA 58.389 34.615 0.00 0.00 0.00 0.86
3068 4487 8.093927 TGCACATAGACCATTCGATCAATATAA 58.906 33.333 0.00 0.00 0.00 0.98
3069 4488 8.935844 GCACATAGACCATTCGATCAATATAAA 58.064 33.333 0.00 0.00 0.00 1.40
3103 4522 5.867330 TCAACAAAAGCCAAAATGATCCAT 58.133 33.333 0.00 0.00 0.00 3.41
3140 4559 9.801873 AAAACATAATTCATACATAGCCAACAC 57.198 29.630 0.00 0.00 0.00 3.32
3141 4560 8.518430 AACATAATTCATACATAGCCAACACA 57.482 30.769 0.00 0.00 0.00 3.72
3142 4561 8.696043 ACATAATTCATACATAGCCAACACAT 57.304 30.769 0.00 0.00 0.00 3.21
3148 4567 8.744568 TTCATACATAGCCAACACATAAATGA 57.255 30.769 0.00 0.00 0.00 2.57
3149 4568 8.744568 TCATACATAGCCAACACATAAATGAA 57.255 30.769 0.00 0.00 0.00 2.57
3150 4569 9.353431 TCATACATAGCCAACACATAAATGAAT 57.647 29.630 0.00 0.00 0.00 2.57
3151 4570 9.616634 CATACATAGCCAACACATAAATGAATC 57.383 33.333 0.00 0.00 0.00 2.52
3153 4572 8.065473 ACATAGCCAACACATAAATGAATCAA 57.935 30.769 0.00 0.00 0.00 2.57
3154 4573 8.530311 ACATAGCCAACACATAAATGAATCAAA 58.470 29.630 0.00 0.00 0.00 2.69
3155 4574 8.810427 CATAGCCAACACATAAATGAATCAAAC 58.190 33.333 0.00 0.00 0.00 2.93
3156 4575 5.863397 AGCCAACACATAAATGAATCAAACG 59.137 36.000 0.00 0.00 0.00 3.60
3157 4576 5.861251 GCCAACACATAAATGAATCAAACGA 59.139 36.000 0.00 0.00 0.00 3.85
3158 4577 6.183359 GCCAACACATAAATGAATCAAACGAC 60.183 38.462 0.00 0.00 0.00 4.34
3161 4580 8.967218 CAACACATAAATGAATCAAACGACTTT 58.033 29.630 0.00 0.00 0.00 2.66
3162 4581 9.528018 AACACATAAATGAATCAAACGACTTTT 57.472 25.926 0.00 0.00 0.00 2.27
3164 4583 9.398170 CACATAAATGAATCAAACGACTTTTCT 57.602 29.630 0.00 0.00 0.00 2.52
3169 4588 8.955061 AATGAATCAAACGACTTTTCTACATG 57.045 30.769 0.00 0.00 0.00 3.21
3170 4589 6.370593 TGAATCAAACGACTTTTCTACATGC 58.629 36.000 0.00 0.00 0.00 4.06
3173 4592 4.149922 TCAAACGACTTTTCTACATGCTCG 59.850 41.667 0.00 0.00 0.00 5.03
3182 4601 3.717400 TCTACATGCTCGTTGATCTCC 57.283 47.619 0.00 0.00 0.00 3.71
3194 4616 3.756117 GTTGATCTCCTTCTGGTTGGTT 58.244 45.455 0.00 0.00 34.23 3.67
3228 4650 3.553096 CGTTATCCATGAGGCTAGTGTCC 60.553 52.174 0.00 0.00 33.74 4.02
3230 4652 0.324368 TCCATGAGGCTAGTGTCCGT 60.324 55.000 0.00 0.00 33.74 4.69
3231 4653 0.179100 CCATGAGGCTAGTGTCCGTG 60.179 60.000 0.00 0.00 0.00 4.94
3234 4656 0.601558 TGAGGCTAGTGTCCGTGAAC 59.398 55.000 0.00 0.00 0.00 3.18
3243 4665 2.303022 AGTGTCCGTGAACATGATCCTT 59.697 45.455 0.00 0.00 0.00 3.36
3251 4673 4.583871 GTGAACATGATCCTTGACTCCTT 58.416 43.478 0.00 0.00 0.00 3.36
3306 4728 7.873505 TCTCTCAATCTCAAATGCTCTCATATG 59.126 37.037 0.00 0.00 31.46 1.78
3312 4734 4.784177 TCAAATGCTCTCATATGCCTTCA 58.216 39.130 0.00 0.00 31.46 3.02
3325 4747 1.143684 TGCCTTCACCTTCTCAAGCTT 59.856 47.619 0.00 0.00 0.00 3.74
3332 4754 4.464008 TCACCTTCTCAAGCTTCATTTGT 58.536 39.130 0.00 0.00 0.00 2.83
3356 4778 1.938577 CATGCCTTCGTCTTCTCCATG 59.061 52.381 0.00 0.00 0.00 3.66
3358 4780 1.066858 TGCCTTCGTCTTCTCCATGTC 60.067 52.381 0.00 0.00 0.00 3.06
3365 4787 2.223923 CGTCTTCTCCATGTCCATCCTC 60.224 54.545 0.00 0.00 0.00 3.71
3370 4792 0.644380 TCCATGTCCATCCTCTCCCT 59.356 55.000 0.00 0.00 0.00 4.20
3388 4810 2.490903 CCCTCTCAATTTGCAACCTCTG 59.509 50.000 0.00 0.00 0.00 3.35
3398 4820 1.149174 CAACCTCTGCCACACCAGT 59.851 57.895 0.00 0.00 34.47 4.00
3401 4823 1.149174 CCTCTGCCACACCAGTTGT 59.851 57.895 0.00 0.00 39.97 3.32
3412 4834 2.358322 ACCAGTTGTCGGTGGAATTT 57.642 45.000 0.00 0.00 37.27 1.82
3423 4845 2.746472 CGGTGGAATTTCATCCTCTCCC 60.746 54.545 0.00 0.00 40.35 4.30
3428 4850 3.382865 GGAATTTCATCCTCTCCCTTTGC 59.617 47.826 0.00 0.00 36.50 3.68
3429 4851 3.744940 ATTTCATCCTCTCCCTTTGCA 57.255 42.857 0.00 0.00 0.00 4.08
3432 4854 0.036010 CATCCTCTCCCTTTGCACGT 60.036 55.000 0.00 0.00 0.00 4.49
3464 4886 5.033522 AGCTTGTACCTATCCTCCTTCTTT 58.966 41.667 0.00 0.00 0.00 2.52
3465 4887 5.489278 AGCTTGTACCTATCCTCCTTCTTTT 59.511 40.000 0.00 0.00 0.00 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 4.188462 AGAACGACAAGTCAACATTCACA 58.812 39.130 0.72 0.00 0.00 3.58
43 44 4.391140 GGAGAACGACAAGTCAACATTC 57.609 45.455 0.72 0.00 0.00 2.67
84 85 2.638480 AGAGGCAAGTGCTTGTACAA 57.362 45.000 8.28 8.28 42.31 2.41
85 86 3.007940 ACATAGAGGCAAGTGCTTGTACA 59.992 43.478 12.75 0.00 42.31 2.90
86 87 3.600388 ACATAGAGGCAAGTGCTTGTAC 58.400 45.455 12.75 7.10 42.31 2.90
89 90 2.816087 ACAACATAGAGGCAAGTGCTTG 59.184 45.455 7.51 7.51 43.14 4.01
95 96 2.676839 CAGAGCACAACATAGAGGCAAG 59.323 50.000 0.00 0.00 0.00 4.01
96 97 2.038952 ACAGAGCACAACATAGAGGCAA 59.961 45.455 0.00 0.00 0.00 4.52
97 98 1.625315 ACAGAGCACAACATAGAGGCA 59.375 47.619 0.00 0.00 0.00 4.75
98 99 2.005451 CACAGAGCACAACATAGAGGC 58.995 52.381 0.00 0.00 0.00 4.70
99 100 3.519579 CTCACAGAGCACAACATAGAGG 58.480 50.000 0.00 0.00 0.00 3.69
128 129 3.576078 TCACAGTTTCATGTTGGGTCT 57.424 42.857 0.00 0.00 0.00 3.85
135 136 5.882557 GGTGGATCTAATCACAGTTTCATGT 59.117 40.000 0.00 0.00 35.74 3.21
138 139 5.497464 TGGTGGATCTAATCACAGTTTCA 57.503 39.130 0.00 0.00 35.74 2.69
211 213 8.649973 ACCTTTTATCTCATACGAAAGATGAC 57.350 34.615 0.00 0.00 34.21 3.06
229 231 9.660180 AAGCACAAGATTTTTGTAAACCTTTTA 57.340 25.926 0.00 0.00 0.00 1.52
281 283 0.037419 TACACGCAGCTGCATTCTGA 60.037 50.000 36.03 14.49 42.21 3.27
283 285 0.320683 TGTACACGCAGCTGCATTCT 60.321 50.000 36.03 18.21 42.21 2.40
295 297 3.123804 GCCCTATTGAGATGTGTACACG 58.876 50.000 20.61 3.38 0.00 4.49
307 309 4.835284 TGTATGTGTCTTGCCCTATTGA 57.165 40.909 0.00 0.00 0.00 2.57
313 315 7.801716 TTCTATAAATGTATGTGTCTTGCCC 57.198 36.000 0.00 0.00 0.00 5.36
347 349 6.630203 ACCACCTCCAATAGTTATGTAACA 57.370 37.500 5.77 0.00 38.62 2.41
358 360 7.016268 GGATTGAGAGTATAACCACCTCCAATA 59.984 40.741 0.00 0.00 31.87 1.90
360 362 5.130477 GGATTGAGAGTATAACCACCTCCAA 59.870 44.000 0.00 0.00 0.00 3.53
369 371 6.222038 TCCACAGTGGATTGAGAGTATAAC 57.778 41.667 19.21 0.00 42.67 1.89
406 408 1.064240 AGATGTGCATGCAGGGATCAA 60.064 47.619 23.41 1.11 0.00 2.57
410 412 0.549469 ATGAGATGTGCATGCAGGGA 59.451 50.000 23.41 8.66 0.00 4.20
413 416 1.065551 CACCATGAGATGTGCATGCAG 59.934 52.381 23.41 8.52 41.30 4.41
435 440 3.559242 GCTTCCTCAAAAGAGATCATCCG 59.441 47.826 0.00 0.00 0.00 4.18
450 455 1.910688 CTACCGTTCGAAGCTTCCTC 58.089 55.000 20.62 9.96 0.00 3.71
464 471 1.841450 GGAGAACGATGAAGCTACCG 58.159 55.000 0.00 0.00 0.00 4.02
485 492 0.249073 CATGTAGAAGAGCGGGGTCG 60.249 60.000 0.00 0.00 39.81 4.79
490 497 1.135915 AGCACTCATGTAGAAGAGCGG 59.864 52.381 0.00 0.00 35.28 5.52
492 499 3.370366 CACAAGCACTCATGTAGAAGAGC 59.630 47.826 0.00 0.00 35.28 4.09
493 500 4.564041 ACACAAGCACTCATGTAGAAGAG 58.436 43.478 0.00 0.00 37.87 2.85
501 508 3.181513 GCACATAGACACAAGCACTCATG 60.182 47.826 0.00 0.00 0.00 3.07
504 511 2.158449 GTGCACATAGACACAAGCACTC 59.842 50.000 13.17 0.00 46.31 3.51
513 520 4.284829 TGGAATCAAGTGCACATAGACA 57.715 40.909 21.04 6.11 0.00 3.41
525 532 4.136796 TGGCCGATCTATTTGGAATCAAG 58.863 43.478 0.00 0.00 33.98 3.02
526 533 4.163441 TGGCCGATCTATTTGGAATCAA 57.837 40.909 0.00 0.00 0.00 2.57
529 536 4.536765 AGTTTGGCCGATCTATTTGGAAT 58.463 39.130 1.29 0.00 0.00 3.01
530 537 3.963129 AGTTTGGCCGATCTATTTGGAA 58.037 40.909 1.29 0.00 0.00 3.53
532 539 4.718940 AAAGTTTGGCCGATCTATTTGG 57.281 40.909 3.87 0.00 0.00 3.28
564 594 9.615660 TGGTAGTACTATATTGGAATCAAGGAT 57.384 33.333 5.75 0.00 36.19 3.24
565 595 8.867097 GTGGTAGTACTATATTGGAATCAAGGA 58.133 37.037 5.75 0.00 36.19 3.36
567 597 9.477484 GTGTGGTAGTACTATATTGGAATCAAG 57.523 37.037 5.75 0.00 36.19 3.02
569 599 8.541899 TGTGTGGTAGTACTATATTGGAATCA 57.458 34.615 5.75 0.00 0.00 2.57
570 600 9.826574 TTTGTGTGGTAGTACTATATTGGAATC 57.173 33.333 5.75 0.00 0.00 2.52
573 603 8.262227 CCTTTTGTGTGGTAGTACTATATTGGA 58.738 37.037 5.75 0.00 0.00 3.53
578 608 8.426569 AGAACCTTTTGTGTGGTAGTACTATA 57.573 34.615 5.75 0.00 35.17 1.31
580 610 6.324512 TGAGAACCTTTTGTGTGGTAGTACTA 59.675 38.462 0.00 0.00 35.17 1.82
581 611 5.129815 TGAGAACCTTTTGTGTGGTAGTACT 59.870 40.000 0.00 0.00 35.17 2.73
582 612 5.362263 TGAGAACCTTTTGTGTGGTAGTAC 58.638 41.667 0.00 0.00 35.17 2.73
584 614 4.497291 TGAGAACCTTTTGTGTGGTAGT 57.503 40.909 0.00 0.00 35.17 2.73
630 686 6.269538 TGGGGAAAAACATCTGATTTCATCAA 59.730 34.615 12.02 0.88 39.11 2.57
632 688 6.284891 TGGGGAAAAACATCTGATTTCATC 57.715 37.500 12.02 6.73 35.32 2.92
634 690 5.779260 TCATGGGGAAAAACATCTGATTTCA 59.221 36.000 0.00 0.00 35.32 2.69
651 707 2.033299 CGAACGATGGATTTTCATGGGG 59.967 50.000 0.00 0.00 0.00 4.96
667 724 1.666872 GTGGTGGTCCCTTCGAACG 60.667 63.158 0.00 0.00 0.00 3.95
750 815 1.106351 ATCACGGTGCAAAGTGCCAA 61.106 50.000 15.58 2.46 44.23 4.52
813 878 3.034721 ACGAAATACTGCCGTCTTGAA 57.965 42.857 0.00 0.00 29.82 2.69
819 884 2.172851 TCCAAACGAAATACTGCCGT 57.827 45.000 0.00 0.00 38.24 5.68
839 904 1.357420 TGGAAGGCTCAGTCTCTCTCT 59.643 52.381 0.00 0.00 0.00 3.10
840 905 1.846007 TGGAAGGCTCAGTCTCTCTC 58.154 55.000 0.00 0.00 0.00 3.20
841 906 2.548464 ATGGAAGGCTCAGTCTCTCT 57.452 50.000 0.00 0.00 0.00 3.10
842 907 3.269178 CAAATGGAAGGCTCAGTCTCTC 58.731 50.000 0.00 0.00 0.00 3.20
872 937 2.147958 TGACTCGGTAAACATGGCAAC 58.852 47.619 0.00 0.00 0.00 4.17
916 1380 4.456222 TCTTCGAACACAACCACAGAAAAA 59.544 37.500 0.00 0.00 0.00 1.94
970 1434 0.625849 ATGTTGGGGGAGGCTAACAG 59.374 55.000 6.04 0.00 36.59 3.16
986 1450 1.492176 CTTGCATCCCAGGGTAGATGT 59.508 52.381 5.01 0.00 41.60 3.06
990 1454 0.471617 CTCCTTGCATCCCAGGGTAG 59.528 60.000 5.01 0.00 41.29 3.18
991 1455 1.635817 GCTCCTTGCATCCCAGGGTA 61.636 60.000 5.01 0.00 41.29 3.69
992 1456 2.988839 GCTCCTTGCATCCCAGGGT 61.989 63.158 5.01 0.00 41.29 4.34
1007 1471 3.869272 CGAACGCCATGGCTGCTC 61.869 66.667 33.07 23.68 39.32 4.26
1009 1473 4.166011 GACGAACGCCATGGCTGC 62.166 66.667 33.07 20.39 39.32 5.25
1036 1500 2.125753 GCACGACAGGAGGAGCAG 60.126 66.667 0.00 0.00 0.00 4.24
1155 1619 6.147492 CACACTACTGATCTATCTACGTACCC 59.853 46.154 0.00 0.00 0.00 3.69
1167 1634 1.557099 TTCGCCCACACTACTGATCT 58.443 50.000 0.00 0.00 0.00 2.75
1182 1652 1.090052 AGAAAGCTACGCCCATTCGC 61.090 55.000 0.00 0.00 0.00 4.70
1230 1700 2.975410 TTCACTGCAAAATCAGCGAG 57.025 45.000 0.00 0.00 37.59 5.03
1317 1787 2.753446 GGCAGGCTCCTTCTTGGC 60.753 66.667 0.00 0.00 35.26 4.52
2315 2821 1.800586 CTGCCGAATATGATCCCGTTG 59.199 52.381 0.00 0.00 0.00 4.10
2510 3051 2.735772 GCAGCCTAGCTAGCCACCA 61.736 63.158 15.74 0.00 36.40 4.17
2538 3079 4.433304 CGCGACTACAAACAAAAAGACAAG 59.567 41.667 0.00 0.00 0.00 3.16
2539 3080 4.093115 TCGCGACTACAAACAAAAAGACAA 59.907 37.500 3.71 0.00 0.00 3.18
2546 3087 2.228138 ACCTCGCGACTACAAACAAA 57.772 45.000 3.71 0.00 0.00 2.83
2575 3116 3.225104 GCTAGATGATGATTTTGGCCCA 58.775 45.455 0.00 0.00 0.00 5.36
2629 3204 4.252878 AGATTACACATGTGTCGCATCAA 58.747 39.130 33.72 21.38 43.74 2.57
2639 3214 8.349245 TCGTTTGATTTGAAAGATTACACATGT 58.651 29.630 0.00 0.00 0.00 3.21
2748 3328 2.094234 GCGGCAAAATATGGGTGAAACT 60.094 45.455 0.00 0.00 36.74 2.66
2749 3329 2.094234 AGCGGCAAAATATGGGTGAAAC 60.094 45.455 1.45 0.00 0.00 2.78
2750 3330 2.175202 AGCGGCAAAATATGGGTGAAA 58.825 42.857 1.45 0.00 0.00 2.69
2751 3331 1.846007 AGCGGCAAAATATGGGTGAA 58.154 45.000 1.45 0.00 0.00 3.18
2752 3332 1.846007 AAGCGGCAAAATATGGGTGA 58.154 45.000 1.45 0.00 0.00 4.02
2753 3333 2.671130 AAAGCGGCAAAATATGGGTG 57.329 45.000 1.45 0.00 0.00 4.61
2754 3334 4.442753 CCATTAAAGCGGCAAAATATGGGT 60.443 41.667 1.45 0.00 0.00 4.51
2755 3335 4.057432 CCATTAAAGCGGCAAAATATGGG 58.943 43.478 1.45 0.00 0.00 4.00
2756 3336 4.942852 TCCATTAAAGCGGCAAAATATGG 58.057 39.130 1.45 8.56 34.09 2.74
2757 3337 7.481275 AATTCCATTAAAGCGGCAAAATATG 57.519 32.000 1.45 0.00 0.00 1.78
2758 3338 8.200792 TGTAATTCCATTAAAGCGGCAAAATAT 58.799 29.630 1.45 0.00 0.00 1.28
2856 3436 8.905850 TGTGATGATTTGTCATAATGTGCTATT 58.094 29.630 0.00 0.00 0.00 1.73
2870 4156 4.261322 GCTGACAACTGTGTGATGATTTGT 60.261 41.667 0.00 0.00 38.41 2.83
2905 4191 0.953960 GAAAACCCGTCGAGTGGCAT 60.954 55.000 0.00 0.00 0.00 4.40
2909 4195 1.145803 GAAGGAAAACCCGTCGAGTG 58.854 55.000 0.00 0.00 40.87 3.51
2920 4206 6.831353 TGGAATAAACTGTGAGTGAAGGAAAA 59.169 34.615 0.00 0.00 0.00 2.29
2927 4213 4.910195 AGCATGGAATAAACTGTGAGTGA 58.090 39.130 0.00 0.00 0.00 3.41
2930 4216 5.346822 GCAAAAGCATGGAATAAACTGTGAG 59.653 40.000 0.00 0.00 0.00 3.51
2931 4217 5.229423 GCAAAAGCATGGAATAAACTGTGA 58.771 37.500 0.00 0.00 0.00 3.58
2932 4218 4.090354 CGCAAAAGCATGGAATAAACTGTG 59.910 41.667 0.00 0.00 0.00 3.66
2947 4233 1.600413 CCTGTCCAAAGACGCAAAAGC 60.600 52.381 0.00 0.00 46.74 3.51
2948 4234 1.946768 TCCTGTCCAAAGACGCAAAAG 59.053 47.619 0.00 0.00 46.74 2.27
2949 4235 1.946768 CTCCTGTCCAAAGACGCAAAA 59.053 47.619 0.00 0.00 46.74 2.44
2950 4236 1.593196 CTCCTGTCCAAAGACGCAAA 58.407 50.000 0.00 0.00 46.74 3.68
2951 4237 0.884704 GCTCCTGTCCAAAGACGCAA 60.885 55.000 0.00 0.00 46.74 4.85
2953 4239 2.035442 GGCTCCTGTCCAAAGACGC 61.035 63.158 0.00 0.00 46.74 5.19
2954 4240 1.738099 CGGCTCCTGTCCAAAGACG 60.738 63.158 0.00 0.00 46.74 4.18
2956 4242 1.671742 GTCGGCTCCTGTCCAAAGA 59.328 57.895 0.00 0.00 0.00 2.52
2958 4244 2.747686 GGTCGGCTCCTGTCCAAA 59.252 61.111 0.00 0.00 0.00 3.28
2959 4245 3.691342 CGGTCGGCTCCTGTCCAA 61.691 66.667 0.00 0.00 0.00 3.53
2960 4246 4.671590 TCGGTCGGCTCCTGTCCA 62.672 66.667 0.00 0.00 0.00 4.02
2961 4247 2.630592 GATTCGGTCGGCTCCTGTCC 62.631 65.000 0.00 0.00 0.00 4.02
2974 4393 4.096382 CCCAAACTGACAAATAGGATTCGG 59.904 45.833 0.00 0.00 0.00 4.30
2978 4397 3.016736 CGCCCAAACTGACAAATAGGAT 58.983 45.455 0.00 0.00 0.00 3.24
2979 4398 2.432444 CGCCCAAACTGACAAATAGGA 58.568 47.619 0.00 0.00 0.00 2.94
2999 4418 1.153353 TGAAAATGAAGGACGTCGCC 58.847 50.000 9.92 0.00 0.00 5.54
3000 4419 2.961522 TTGAAAATGAAGGACGTCGC 57.038 45.000 9.92 2.53 0.00 5.19
3003 4422 3.069016 GGGGTTTTGAAAATGAAGGACGT 59.931 43.478 0.00 0.00 0.00 4.34
3006 4425 5.700402 TTTGGGGTTTTGAAAATGAAGGA 57.300 34.783 0.00 0.00 0.00 3.36
3007 4426 6.545298 TGAATTTGGGGTTTTGAAAATGAAGG 59.455 34.615 0.00 0.00 0.00 3.46
3010 4429 6.016443 GCATGAATTTGGGGTTTTGAAAATGA 60.016 34.615 0.00 0.00 0.00 2.57
3038 4457 3.457234 TCGAATGGTCTATGTGCATGAC 58.543 45.455 0.00 0.00 0.00 3.06
3067 4486 6.016777 TGGCTTTTGTTGAATTGTTGTGTTTT 60.017 30.769 0.00 0.00 0.00 2.43
3068 4487 5.471456 TGGCTTTTGTTGAATTGTTGTGTTT 59.529 32.000 0.00 0.00 0.00 2.83
3069 4488 4.999950 TGGCTTTTGTTGAATTGTTGTGTT 59.000 33.333 0.00 0.00 0.00 3.32
3117 4536 8.696043 ATGTGTTGGCTATGTATGAATTATGT 57.304 30.769 0.00 0.00 0.00 2.29
3134 4553 7.083858 AGTCGTTTGATTCATTTATGTGTTGG 58.916 34.615 0.00 0.00 0.00 3.77
3137 4556 9.180678 GAAAAGTCGTTTGATTCATTTATGTGT 57.819 29.630 0.00 0.00 0.00 3.72
3138 4557 9.398170 AGAAAAGTCGTTTGATTCATTTATGTG 57.602 29.630 0.00 0.00 0.00 3.21
3144 4563 7.538678 GCATGTAGAAAAGTCGTTTGATTCATT 59.461 33.333 0.00 0.00 0.00 2.57
3145 4564 7.023575 GCATGTAGAAAAGTCGTTTGATTCAT 58.976 34.615 0.00 0.00 0.00 2.57
3146 4565 6.204688 AGCATGTAGAAAAGTCGTTTGATTCA 59.795 34.615 0.00 0.00 0.00 2.57
3148 4567 6.560253 AGCATGTAGAAAAGTCGTTTGATT 57.440 33.333 0.00 0.00 0.00 2.57
3149 4568 5.163953 CGAGCATGTAGAAAAGTCGTTTGAT 60.164 40.000 0.00 0.00 0.00 2.57
3150 4569 4.149922 CGAGCATGTAGAAAAGTCGTTTGA 59.850 41.667 0.00 0.00 0.00 2.69
3151 4570 4.084537 ACGAGCATGTAGAAAAGTCGTTTG 60.085 41.667 0.00 0.00 35.78 2.93
3153 4572 3.650139 ACGAGCATGTAGAAAAGTCGTT 58.350 40.909 0.00 0.00 35.78 3.85
3154 4573 3.299340 ACGAGCATGTAGAAAAGTCGT 57.701 42.857 0.00 0.00 34.52 4.34
3155 4574 3.673338 TCAACGAGCATGTAGAAAAGTCG 59.327 43.478 0.00 0.00 0.00 4.18
3156 4575 5.578727 AGATCAACGAGCATGTAGAAAAGTC 59.421 40.000 0.00 0.00 0.00 3.01
3157 4576 5.482908 AGATCAACGAGCATGTAGAAAAGT 58.517 37.500 0.00 0.00 0.00 2.66
3158 4577 5.006165 GGAGATCAACGAGCATGTAGAAAAG 59.994 44.000 0.00 0.00 0.00 2.27
3161 4580 3.701542 AGGAGATCAACGAGCATGTAGAA 59.298 43.478 0.00 0.00 0.00 2.10
3162 4581 3.291584 AGGAGATCAACGAGCATGTAGA 58.708 45.455 0.00 0.00 0.00 2.59
3164 4583 3.701542 AGAAGGAGATCAACGAGCATGTA 59.298 43.478 0.00 0.00 0.00 2.29
3166 4585 2.864946 CAGAAGGAGATCAACGAGCATG 59.135 50.000 0.00 0.00 0.00 4.06
3167 4586 2.158986 CCAGAAGGAGATCAACGAGCAT 60.159 50.000 0.00 0.00 36.89 3.79
3168 4587 1.205655 CCAGAAGGAGATCAACGAGCA 59.794 52.381 0.00 0.00 36.89 4.26
3169 4588 1.205893 ACCAGAAGGAGATCAACGAGC 59.794 52.381 0.00 0.00 38.69 5.03
3170 4589 3.257393 CAACCAGAAGGAGATCAACGAG 58.743 50.000 0.00 0.00 38.69 4.18
3173 4592 3.425162 ACCAACCAGAAGGAGATCAAC 57.575 47.619 0.00 0.00 38.69 3.18
3194 4616 8.527241 CCTCATGGATAACGGAAGTGTGGTTA 62.527 46.154 0.00 0.00 39.42 2.85
3228 4650 2.932614 GGAGTCAAGGATCATGTTCACG 59.067 50.000 6.14 0.00 0.00 4.35
3230 4652 4.566278 CCAAGGAGTCAAGGATCATGTTCA 60.566 45.833 6.14 0.00 0.00 3.18
3231 4653 3.944015 CCAAGGAGTCAAGGATCATGTTC 59.056 47.826 0.00 0.00 0.00 3.18
3234 4656 3.276857 CACCAAGGAGTCAAGGATCATG 58.723 50.000 0.00 0.00 0.00 3.07
3243 4665 1.764571 CGGGGAACACCAAGGAGTCA 61.765 60.000 0.00 0.00 42.91 3.41
3272 4694 7.716123 AGCATTTGAGATTGAGAGATAGAAAGG 59.284 37.037 0.00 0.00 0.00 3.11
3273 4695 8.665643 AGCATTTGAGATTGAGAGATAGAAAG 57.334 34.615 0.00 0.00 0.00 2.62
3306 4728 1.809547 GAAGCTTGAGAAGGTGAAGGC 59.190 52.381 2.10 0.00 39.57 4.35
3312 4734 5.136105 AGAACAAATGAAGCTTGAGAAGGT 58.864 37.500 2.10 0.00 41.85 3.50
3325 4747 3.411446 ACGAAGGCATGAGAACAAATGA 58.589 40.909 0.00 0.00 0.00 2.57
3332 4754 2.093973 GGAGAAGACGAAGGCATGAGAA 60.094 50.000 0.00 0.00 0.00 2.87
3356 4778 2.166907 TTGAGAGGGAGAGGATGGAC 57.833 55.000 0.00 0.00 0.00 4.02
3358 4780 3.818180 CAAATTGAGAGGGAGAGGATGG 58.182 50.000 0.00 0.00 0.00 3.51
3365 4787 2.751806 GAGGTTGCAAATTGAGAGGGAG 59.248 50.000 0.00 0.00 0.00 4.30
3388 4810 2.203153 ACCGACAACTGGTGTGGC 60.203 61.111 1.49 0.00 41.96 5.01
3398 4820 3.009033 AGAGGATGAAATTCCACCGACAA 59.991 43.478 0.00 0.00 38.32 3.18
3401 4823 2.170607 GGAGAGGATGAAATTCCACCGA 59.829 50.000 0.00 0.00 38.32 4.69
3406 4828 3.382865 GCAAAGGGAGAGGATGAAATTCC 59.617 47.826 0.00 0.00 35.90 3.01
3412 4834 0.250234 CGTGCAAAGGGAGAGGATGA 59.750 55.000 0.00 0.00 0.00 2.92
3423 4845 1.069636 GCTCTTCTTGGACGTGCAAAG 60.070 52.381 23.08 17.92 0.00 2.77


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

AutoCloner maintained by Alex Coulton.