Multiple sequence alignment - TraesCS7D01G184000

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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 TraesCS7D01G184000 chr7D 100.000 3179 0 0 1 3179 137572082 137568904 0.000000e+00 5871.0
1 TraesCS7D01G184000 chr7D 94.392 945 47 2 985 1929 137764434 137763496 0.000000e+00 1447.0
2 TraesCS7D01G184000 chr7D 95.564 541 15 5 937 1471 137608029 137607492 0.000000e+00 857.0
3 TraesCS7D01G184000 chr7D 93.597 531 23 2 1 520 137610789 137610259 0.000000e+00 782.0
4 TraesCS7D01G184000 chr7D 85.102 537 51 13 4 520 137767941 137767414 3.630000e-144 521.0
5 TraesCS7D01G184000 chr7D 95.331 257 11 1 1926 2182 137717169 137716914 1.060000e-109 407.0
6 TraesCS7D01G184000 chr7D 88.435 294 30 4 517 809 137767186 137766896 5.050000e-93 351.0
7 TraesCS7D01G184000 chr7D 84.889 225 30 3 295 518 68932298 68932077 1.150000e-54 224.0
8 TraesCS7D01G184000 chr7D 96.491 57 0 2 932 988 137766903 137766849 3.380000e-15 93.5
9 TraesCS7D01G184000 chr7D 91.935 62 5 0 517 578 137610011 137609950 1.570000e-13 87.9
10 TraesCS7D01G184000 chr7D 100.000 42 0 0 2643 2684 137569403 137569362 9.450000e-11 78.7
11 TraesCS7D01G184000 chr7D 100.000 42 0 0 2680 2721 137569440 137569399 9.450000e-11 78.7
12 TraesCS7D01G184000 chr7A 95.731 1757 69 4 928 2684 137780832 137779082 0.000000e+00 2824.0
13 TraesCS7D01G184000 chr7A 95.225 356 14 1 2680 3035 137779123 137778771 7.700000e-156 560.0
14 TraesCS7D01G184000 chr7A 84.866 522 57 11 4 508 137781868 137781352 1.020000e-139 507.0
15 TraesCS7D01G184000 chr7A 87.197 289 29 3 518 805 137781111 137780830 3.960000e-84 322.0
16 TraesCS7D01G184000 chr7A 80.429 373 58 8 160 520 71111116 71111485 1.450000e-68 270.0
17 TraesCS7D01G184000 chr7A 94.521 73 1 2 3080 3151 137778777 137778707 3.350000e-20 110.0
18 TraesCS7D01G184000 chr7B 92.491 1758 90 12 934 2684 102267157 102265435 0.000000e+00 2477.0
19 TraesCS7D01G184000 chr7B 93.286 1266 66 9 932 2183 102649393 102648133 0.000000e+00 1849.0
20 TraesCS7D01G184000 chr7B 84.240 533 62 10 4 520 102669091 102668565 1.700000e-137 499.0
21 TraesCS7D01G184000 chr7B 88.435 294 33 1 517 809 102267445 102267152 1.400000e-93 353.0
22 TraesCS7D01G184000 chr7B 88.514 296 18 5 6 288 102269191 102268899 8.440000e-91 344.0
23 TraesCS7D01G184000 chr7B 86.090 266 36 1 518 782 102668355 102668090 5.190000e-73 285.0
24 TraesCS7D01G184000 chr7B 82.734 278 14 7 2680 2956 102265476 102265232 1.920000e-52 217.0
25 TraesCS7D01G184000 chrUn 95.168 683 33 0 1463 2145 468058901 468059583 0.000000e+00 1079.0
26 TraesCS7D01G184000 chrUn 95.194 541 17 5 937 1471 91673654 91673117 0.000000e+00 846.0
27 TraesCS7D01G184000 chrUn 92.279 531 24 3 1 520 91676983 91676459 0.000000e+00 737.0
28 TraesCS7D01G184000 chrUn 95.745 235 10 0 286 520 441249512 441249746 2.310000e-101 379.0
29 TraesCS7D01G184000 chrUn 79.241 448 75 7 50 479 414493530 414493083 2.400000e-76 296.0
30 TraesCS7D01G184000 chrUn 86.854 213 27 1 517 728 91676211 91675999 1.470000e-58 237.0
31 TraesCS7D01G184000 chrUn 86.473 207 27 1 517 722 441249994 441250200 3.190000e-55 226.0
32 TraesCS7D01G184000 chrUn 97.101 69 2 0 721 789 91675941 91675873 2.000000e-22 117.0
33 TraesCS7D01G184000 chrUn 95.652 69 3 0 721 789 441250264 441250332 9.320000e-21 111.0
34 TraesCS7D01G184000 chr4D 81.720 465 69 7 70 518 502028990 502028526 1.080000e-99 374.0
35 TraesCS7D01G184000 chr2D 80.579 484 71 11 50 519 558746310 558746784 5.050000e-93 351.0
36 TraesCS7D01G184000 chr4A 78.893 488 81 16 50 518 246717095 246716611 8.560000e-81 311.0
37 TraesCS7D01G184000 chr6D 81.509 265 47 2 1152 1415 16375301 16375564 1.920000e-52 217.0
38 TraesCS7D01G184000 chr6A 79.365 315 49 7 51 349 15451740 15452054 1.160000e-49 207.0
39 TraesCS7D01G184000 chr6A 79.505 283 52 6 1142 1421 7977860 7978139 2.500000e-46 196.0
40 TraesCS7D01G184000 chr6B 76.227 387 73 17 1050 1428 15744040 15743665 1.510000e-43 187.0
41 TraesCS7D01G184000 chr3A 77.406 239 35 12 174 394 728417367 728417130 1.200000e-24 124.0


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 TraesCS7D01G184000 chr7D 137568904 137572082 3178 True 2009.466667 5871 100.000000 1 3179 3 chr7D.!!$R3 3178
1 TraesCS7D01G184000 chr7D 137763496 137767941 4445 True 603.125000 1447 91.105000 4 1929 4 chr7D.!!$R5 1925
2 TraesCS7D01G184000 chr7D 137607492 137610789 3297 True 575.633333 857 93.698667 1 1471 3 chr7D.!!$R4 1470
3 TraesCS7D01G184000 chr7A 137778707 137781868 3161 True 864.600000 2824 91.508000 4 3151 5 chr7A.!!$R1 3147
4 TraesCS7D01G184000 chr7B 102648133 102649393 1260 True 1849.000000 1849 93.286000 932 2183 1 chr7B.!!$R1 1251
5 TraesCS7D01G184000 chr7B 102265232 102269191 3959 True 847.750000 2477 88.043500 6 2956 4 chr7B.!!$R2 2950
6 TraesCS7D01G184000 chr7B 102668090 102669091 1001 True 392.000000 499 85.165000 4 782 2 chr7B.!!$R3 778
7 TraesCS7D01G184000 chrUn 468058901 468059583 682 False 1079.000000 1079 95.168000 1463 2145 1 chrUn.!!$F1 682
8 TraesCS7D01G184000 chrUn 91673117 91676983 3866 True 484.250000 846 92.857000 1 1471 4 chrUn.!!$R2 1470
9 TraesCS7D01G184000 chrUn 441249512 441250332 820 False 238.666667 379 92.623333 286 789 3 chrUn.!!$F2 503


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
913 4566 0.03254 CCAAAGACAGGTGCCTTTGC 59.967 55.0 11.96 0.0 44.62 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2467 8590 0.039617 CGATTTTCAGCGCCCAACAA 60.04 50.0 2.29 0.0 0.0 2.83 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
104 111 7.317722 AGAAATAGTACAAAGTCCTTGACCT 57.682 36.000 0.00 0.00 38.50 3.85
192 200 5.426689 AAACATGAAGATCACTGGAGCTA 57.573 39.130 0.00 0.00 39.26 3.32
248 256 3.156293 TGCCACACAAGAATATGCAACT 58.844 40.909 0.00 0.00 0.00 3.16
320 339 2.126502 CGCTTCGCCGCCAAAAAT 60.127 55.556 0.00 0.00 0.00 1.82
554 1830 1.692411 GCACAACTTTGAGGTTCCCT 58.308 50.000 0.00 0.00 36.03 4.20
623 1899 2.380410 GCGCCGACGACACTCAAAT 61.380 57.895 0.00 0.00 43.93 2.32
683 1960 5.243060 TGATCTTTCCAGAAGTTACGAGACA 59.757 40.000 0.00 0.00 30.76 3.41
770 2112 1.066143 CGAAAGTGCCCCAGACTATGT 60.066 52.381 0.00 0.00 0.00 2.29
809 4462 1.215382 CCCACATCGAACTCGCTCA 59.785 57.895 0.00 0.00 39.60 4.26
810 4463 0.803768 CCCACATCGAACTCGCTCAG 60.804 60.000 0.00 0.00 39.60 3.35
811 4464 0.171231 CCACATCGAACTCGCTCAGA 59.829 55.000 0.00 0.00 39.60 3.27
812 4465 1.263776 CACATCGAACTCGCTCAGAC 58.736 55.000 0.00 0.00 39.60 3.51
813 4466 1.135546 CACATCGAACTCGCTCAGACT 60.136 52.381 0.00 0.00 39.60 3.24
814 4467 1.135546 ACATCGAACTCGCTCAGACTG 60.136 52.381 0.00 0.00 39.60 3.51
815 4468 1.135546 CATCGAACTCGCTCAGACTGT 60.136 52.381 1.59 0.00 39.60 3.55
817 4470 1.340657 CGAACTCGCTCAGACTGTGC 61.341 60.000 17.58 17.58 33.90 4.57
818 4471 0.038709 GAACTCGCTCAGACTGTGCT 60.039 55.000 23.07 8.06 34.97 4.40
819 4472 0.390860 AACTCGCTCAGACTGTGCTT 59.609 50.000 23.07 11.11 34.97 3.91
820 4473 0.038709 ACTCGCTCAGACTGTGCTTC 60.039 55.000 23.07 0.32 34.97 3.86
821 4474 1.069924 CTCGCTCAGACTGTGCTTCG 61.070 60.000 23.07 11.03 34.97 3.79
822 4475 2.091112 CGCTCAGACTGTGCTTCGG 61.091 63.158 23.07 7.61 34.97 4.30
824 4477 0.601311 GCTCAGACTGTGCTTCGGTT 60.601 55.000 19.70 0.00 35.55 4.44
825 4478 1.871080 CTCAGACTGTGCTTCGGTTT 58.129 50.000 1.59 0.00 35.55 3.27
826 4479 1.795286 CTCAGACTGTGCTTCGGTTTC 59.205 52.381 1.59 0.00 35.55 2.78
828 4481 2.158957 TCAGACTGTGCTTCGGTTTCTT 60.159 45.455 1.59 0.00 35.55 2.52
829 4482 3.069016 TCAGACTGTGCTTCGGTTTCTTA 59.931 43.478 1.59 0.00 35.55 2.10
830 4483 3.807622 CAGACTGTGCTTCGGTTTCTTAA 59.192 43.478 0.00 0.00 35.55 1.85
831 4484 4.058817 AGACTGTGCTTCGGTTTCTTAAG 58.941 43.478 0.00 0.00 35.55 1.85
832 4485 4.056050 GACTGTGCTTCGGTTTCTTAAGA 58.944 43.478 0.00 0.00 35.55 2.10
834 4487 4.202223 ACTGTGCTTCGGTTTCTTAAGAGA 60.202 41.667 5.12 0.00 30.45 3.10
836 4489 4.202223 TGTGCTTCGGTTTCTTAAGAGACT 60.202 41.667 21.62 0.00 30.73 3.24
837 4490 4.750598 GTGCTTCGGTTTCTTAAGAGACTT 59.249 41.667 21.62 0.00 30.73 3.01
838 4491 4.750098 TGCTTCGGTTTCTTAAGAGACTTG 59.250 41.667 21.62 15.69 30.73 3.16
840 4493 3.660865 TCGGTTTCTTAAGAGACTTGCC 58.339 45.455 21.62 7.89 30.73 4.52
843 4496 4.515567 CGGTTTCTTAAGAGACTTGCCTTT 59.484 41.667 21.62 0.00 30.73 3.11
844 4497 5.560953 CGGTTTCTTAAGAGACTTGCCTTTG 60.561 44.000 21.62 3.30 30.73 2.77
846 4499 6.202226 GTTTCTTAAGAGACTTGCCTTTGTG 58.798 40.000 16.79 0.00 0.00 3.33
848 4501 1.322442 AAGAGACTTGCCTTTGTGCC 58.678 50.000 0.00 0.00 0.00 5.01
849 4502 0.475906 AGAGACTTGCCTTTGTGCCT 59.524 50.000 0.00 0.00 0.00 4.75
850 4503 1.699634 AGAGACTTGCCTTTGTGCCTA 59.300 47.619 0.00 0.00 0.00 3.93
851 4504 2.307098 AGAGACTTGCCTTTGTGCCTAT 59.693 45.455 0.00 0.00 0.00 2.57
852 4505 2.680339 GAGACTTGCCTTTGTGCCTATC 59.320 50.000 0.00 0.00 0.00 2.08
853 4506 2.040278 AGACTTGCCTTTGTGCCTATCA 59.960 45.455 0.00 0.00 0.00 2.15
854 4507 2.162408 GACTTGCCTTTGTGCCTATCAC 59.838 50.000 0.00 0.00 45.82 3.06
865 4518 4.558226 GTGCCTATCACATATGGATCCA 57.442 45.455 18.88 18.88 44.98 3.41
866 4519 4.511527 GTGCCTATCACATATGGATCCAG 58.488 47.826 21.33 9.32 44.98 3.86
868 4521 3.790091 CCTATCACATATGGATCCAGCG 58.210 50.000 21.33 12.96 0.00 5.18
869 4522 2.775911 ATCACATATGGATCCAGCGG 57.224 50.000 21.33 13.54 0.00 5.52
871 4524 0.397941 CACATATGGATCCAGCGGGT 59.602 55.000 21.33 12.40 34.93 5.28
888 4541 3.175304 TGGCTGGCCCACATGTAA 58.825 55.556 9.28 0.00 39.18 2.41
889 4542 1.001020 TGGCTGGCCCACATGTAAG 60.001 57.895 9.28 0.00 39.18 2.34
890 4543 1.754234 GGCTGGCCCACATGTAAGG 60.754 63.158 0.00 3.59 0.00 2.69
899 4552 2.446435 CCACATGTAAGGGACCCAAAG 58.554 52.381 14.60 0.00 0.00 2.77
900 4553 2.041081 CCACATGTAAGGGACCCAAAGA 59.959 50.000 14.60 0.00 0.00 2.52
901 4554 3.081804 CACATGTAAGGGACCCAAAGAC 58.918 50.000 14.60 5.26 0.00 3.01
902 4555 2.714250 ACATGTAAGGGACCCAAAGACA 59.286 45.455 14.60 11.02 0.00 3.41
903 4556 3.244911 ACATGTAAGGGACCCAAAGACAG 60.245 47.826 14.60 7.43 0.00 3.51
904 4557 1.702957 TGTAAGGGACCCAAAGACAGG 59.297 52.381 14.60 0.00 0.00 4.00
906 4559 0.478507 AAGGGACCCAAAGACAGGTG 59.521 55.000 14.60 0.00 36.17 4.00
907 4560 1.603739 GGGACCCAAAGACAGGTGC 60.604 63.158 5.33 0.00 43.28 5.01
908 4561 1.603739 GGACCCAAAGACAGGTGCC 60.604 63.158 0.00 0.00 38.47 5.01
909 4562 1.456287 GACCCAAAGACAGGTGCCT 59.544 57.895 0.00 0.00 36.17 4.75
910 4563 0.178990 GACCCAAAGACAGGTGCCTT 60.179 55.000 0.00 0.00 36.17 4.35
911 4564 0.261696 ACCCAAAGACAGGTGCCTTT 59.738 50.000 0.00 0.00 34.20 3.11
912 4565 0.675633 CCCAAAGACAGGTGCCTTTG 59.324 55.000 10.79 10.79 45.21 2.77
913 4566 0.032540 CCAAAGACAGGTGCCTTTGC 59.967 55.000 11.96 0.00 44.62 3.68
914 4567 0.318107 CAAAGACAGGTGCCTTTGCG 60.318 55.000 5.92 0.00 41.56 4.85
915 4568 1.455383 AAAGACAGGTGCCTTTGCGG 61.455 55.000 0.00 0.00 41.78 5.69
924 4577 2.256461 CCTTTGCGGCACTGAAGC 59.744 61.111 0.05 0.00 0.00 3.86
925 4578 2.263741 CCTTTGCGGCACTGAAGCT 61.264 57.895 0.05 0.00 34.17 3.74
926 4579 1.081641 CTTTGCGGCACTGAAGCTG 60.082 57.895 0.05 0.00 43.77 4.24
942 4628 2.530151 TGCTCCACTGGCTCCCTT 60.530 61.111 0.00 0.00 0.00 3.95
943 4629 1.229496 TGCTCCACTGGCTCCCTTA 60.229 57.895 0.00 0.00 0.00 2.69
1211 7334 2.750350 CCTCAAGGCGTCCAGGTT 59.250 61.111 0.00 0.00 0.00 3.50
1326 7449 2.346365 GCCGACCCGAAGTTCCTT 59.654 61.111 0.00 0.00 0.00 3.36
2060 8183 4.826733 TGACTATTGCTCATTGGTTGTTGT 59.173 37.500 0.00 0.00 0.00 3.32
2164 8287 2.369394 GTGCAGGGAAAATACCTCCTG 58.631 52.381 0.00 0.00 46.93 3.86
2220 8343 8.877864 TGAAGGTTAATGTATTTTCTCATGGT 57.122 30.769 0.00 0.00 0.00 3.55
2222 8345 7.881775 AGGTTAATGTATTTTCTCATGGTCC 57.118 36.000 0.00 0.00 0.00 4.46
2300 8423 1.604278 GACTGAAACTGAACTGCCACC 59.396 52.381 0.00 0.00 0.00 4.61
2303 8426 1.305201 GAAACTGAACTGCCACCGAA 58.695 50.000 0.00 0.00 0.00 4.30
2330 8453 4.072088 CGCCGCGACAAGTTCCAC 62.072 66.667 8.23 0.00 0.00 4.02
2357 8480 9.770097 TTGCTGAAACATATGAAATGGTTAAAA 57.230 25.926 10.38 0.00 0.00 1.52
2393 8516 5.689383 TGCCATCTCTTACAGTTTTGTTC 57.311 39.130 0.00 0.00 38.76 3.18
2495 8618 1.667724 CGCTGAAAATCGATGGCTCTT 59.332 47.619 0.00 0.00 0.00 2.85
2595 8719 1.392534 GGGAGGTTGAGAGGGAGGA 59.607 63.158 0.00 0.00 0.00 3.71
2602 8726 3.265479 AGGTTGAGAGGGAGGAAAATGAG 59.735 47.826 0.00 0.00 0.00 2.90
2626 8750 5.971792 GTGTAGTGCCTTTGACTTTTTCTTC 59.028 40.000 0.00 0.00 0.00 2.87
2671 8795 4.581077 TGATCTGATCAGGATTCGTGAG 57.419 45.455 22.42 2.31 33.59 3.51
2672 8796 3.320256 TGATCTGATCAGGATTCGTGAGG 59.680 47.826 22.42 7.51 33.59 3.86
2673 8797 3.018423 TCTGATCAGGATTCGTGAGGA 57.982 47.619 22.42 9.31 31.81 3.71
2674 8798 3.365472 TCTGATCAGGATTCGTGAGGAA 58.635 45.455 22.42 0.00 39.42 3.36
2675 8799 7.648810 TGATCTGATCAGGATTCGTGAGGAAT 61.649 42.308 22.42 0.00 40.19 3.01
2676 8800 4.406972 TCTGATCAGGATTCGTGAGGAATT 59.593 41.667 22.42 0.00 45.33 2.17
2677 8801 5.598417 TCTGATCAGGATTCGTGAGGAATTA 59.402 40.000 22.42 0.00 45.33 1.40
2678 8802 5.847304 TGATCAGGATTCGTGAGGAATTAG 58.153 41.667 13.83 0.00 45.33 1.73
2679 8803 5.598417 TGATCAGGATTCGTGAGGAATTAGA 59.402 40.000 13.83 1.96 45.33 2.10
2680 8804 5.932619 TCAGGATTCGTGAGGAATTAGAA 57.067 39.130 4.98 0.00 45.33 2.10
2681 8805 5.661458 TCAGGATTCGTGAGGAATTAGAAC 58.339 41.667 4.98 0.00 45.33 3.01
2682 8806 5.422331 TCAGGATTCGTGAGGAATTAGAACT 59.578 40.000 4.98 0.00 45.33 3.01
2683 8807 6.070767 TCAGGATTCGTGAGGAATTAGAACTT 60.071 38.462 4.98 0.00 45.33 2.66
2684 8808 6.036517 CAGGATTCGTGAGGAATTAGAACTTG 59.963 42.308 1.61 0.00 45.33 3.16
2685 8809 5.294552 GGATTCGTGAGGAATTAGAACTTGG 59.705 44.000 1.61 0.00 45.33 3.61
2686 8810 4.884668 TCGTGAGGAATTAGAACTTGGT 57.115 40.909 0.00 0.00 0.00 3.67
2687 8811 5.223449 TCGTGAGGAATTAGAACTTGGTT 57.777 39.130 0.00 0.00 0.00 3.67
2688 8812 4.994852 TCGTGAGGAATTAGAACTTGGTTG 59.005 41.667 0.00 0.00 0.00 3.77
2689 8813 4.994852 CGTGAGGAATTAGAACTTGGTTGA 59.005 41.667 0.00 0.00 0.00 3.18
2690 8814 5.643777 CGTGAGGAATTAGAACTTGGTTGAT 59.356 40.000 0.00 0.00 0.00 2.57
2691 8815 6.183360 CGTGAGGAATTAGAACTTGGTTGATC 60.183 42.308 0.00 0.00 0.00 2.92
2692 8816 6.881602 GTGAGGAATTAGAACTTGGTTGATCT 59.118 38.462 0.00 0.00 0.00 2.75
2693 8817 6.881065 TGAGGAATTAGAACTTGGTTGATCTG 59.119 38.462 0.00 0.00 0.00 2.90
2694 8818 7.020827 AGGAATTAGAACTTGGTTGATCTGA 57.979 36.000 0.00 0.00 0.00 3.27
2695 8819 7.637511 AGGAATTAGAACTTGGTTGATCTGAT 58.362 34.615 0.00 0.00 0.00 2.90
2696 8820 7.772757 AGGAATTAGAACTTGGTTGATCTGATC 59.227 37.037 10.72 10.72 0.00 2.92
2697 8821 7.554118 GGAATTAGAACTTGGTTGATCTGATCA 59.446 37.037 16.06 16.06 37.55 2.92
2698 8822 8.503458 AATTAGAACTTGGTTGATCTGATCAG 57.497 34.615 17.07 17.07 40.94 2.90
2699 8823 4.841422 AGAACTTGGTTGATCTGATCAGG 58.159 43.478 22.42 5.65 40.94 3.86
2700 8824 4.533707 AGAACTTGGTTGATCTGATCAGGA 59.466 41.667 22.42 9.81 40.94 3.86
2701 8825 5.191323 AGAACTTGGTTGATCTGATCAGGAT 59.809 40.000 22.42 13.99 40.94 3.24
2702 8826 5.447778 ACTTGGTTGATCTGATCAGGATT 57.552 39.130 22.42 8.06 40.94 3.01
2703 8827 5.435291 ACTTGGTTGATCTGATCAGGATTC 58.565 41.667 22.42 16.22 40.94 2.52
2704 8828 4.063998 TGGTTGATCTGATCAGGATTCG 57.936 45.455 22.42 0.00 40.94 3.34
2705 8829 3.452264 TGGTTGATCTGATCAGGATTCGT 59.548 43.478 22.42 2.55 40.94 3.85
2706 8830 3.806521 GGTTGATCTGATCAGGATTCGTG 59.193 47.826 22.42 0.00 40.94 4.35
2707 8831 4.442052 GGTTGATCTGATCAGGATTCGTGA 60.442 45.833 22.42 11.16 40.94 4.35
2777 8902 2.997897 GGTCCTCTGCCGTCCACT 60.998 66.667 0.00 0.00 0.00 4.00
2780 8905 2.997315 CCTCTGCCGTCCACTCCA 60.997 66.667 0.00 0.00 0.00 3.86
2789 8914 1.012086 CGTCCACTCCATCAGCATTG 58.988 55.000 0.00 0.00 0.00 2.82
2846 8971 2.951229 ACTTTGTGAATCCCCGTTCT 57.049 45.000 0.00 0.00 0.00 3.01
2863 8988 5.321516 CCGTTCTGTTCCGAAAATATTGTC 58.678 41.667 0.00 0.00 0.00 3.18
2973 9098 9.475620 TTGTATGGTATATATCCTGTACTGAGG 57.524 37.037 0.60 0.00 0.00 3.86
2974 9099 8.842764 TGTATGGTATATATCCTGTACTGAGGA 58.157 37.037 4.51 4.51 46.47 3.71
2975 9100 9.344772 GTATGGTATATATCCTGTACTGAGGAG 57.655 40.741 7.89 0.00 45.60 3.69
2983 9108 3.449018 TCCTGTACTGAGGAGAAGATTGC 59.551 47.826 0.60 0.00 37.20 3.56
2994 9119 5.457686 AGGAGAAGATTGCTCTGTCTAGAT 58.542 41.667 0.00 0.00 32.98 1.98
2999 9124 5.518848 AGATTGCTCTGTCTAGATGACTG 57.481 43.478 0.00 0.00 45.54 3.51
3015 9140 4.008074 TGACTGAGTTCCTGTGGATTTC 57.992 45.455 0.00 0.00 0.00 2.17
3032 9157 2.511145 CTGCTCGCCTGAAGCTCC 60.511 66.667 0.00 0.00 40.39 4.70
3033 9158 2.999648 TGCTCGCCTGAAGCTCCT 61.000 61.111 0.00 0.00 40.39 3.69
3034 9159 1.670949 CTGCTCGCCTGAAGCTCCTA 61.671 60.000 0.00 0.00 40.39 2.94
3035 9160 1.257750 TGCTCGCCTGAAGCTCCTAA 61.258 55.000 0.00 0.00 40.39 2.69
3036 9161 0.108138 GCTCGCCTGAAGCTCCTAAA 60.108 55.000 0.00 0.00 40.39 1.85
3037 9162 1.474143 GCTCGCCTGAAGCTCCTAAAT 60.474 52.381 0.00 0.00 40.39 1.40
3038 9163 2.208431 CTCGCCTGAAGCTCCTAAATG 58.792 52.381 0.00 0.00 40.39 2.32
3039 9164 0.659957 CGCCTGAAGCTCCTAAATGC 59.340 55.000 0.00 0.00 40.39 3.56
3040 9165 1.028130 GCCTGAAGCTCCTAAATGCC 58.972 55.000 0.00 0.00 38.99 4.40
3041 9166 1.685148 CCTGAAGCTCCTAAATGCCC 58.315 55.000 0.00 0.00 0.00 5.36
3042 9167 1.685148 CTGAAGCTCCTAAATGCCCC 58.315 55.000 0.00 0.00 0.00 5.80
3043 9168 0.258774 TGAAGCTCCTAAATGCCCCC 59.741 55.000 0.00 0.00 0.00 5.40
3058 9183 2.873797 CCCCCTAAGAAACAGCAGC 58.126 57.895 0.00 0.00 0.00 5.25
3059 9184 0.038166 CCCCCTAAGAAACAGCAGCA 59.962 55.000 0.00 0.00 0.00 4.41
3060 9185 1.457346 CCCCTAAGAAACAGCAGCAG 58.543 55.000 0.00 0.00 0.00 4.24
3061 9186 1.457346 CCCTAAGAAACAGCAGCAGG 58.543 55.000 0.00 0.00 0.00 4.85
3062 9187 0.807496 CCTAAGAAACAGCAGCAGGC 59.193 55.000 0.00 0.00 45.30 4.85
3072 9197 3.846955 GCAGCAGGCAATGGATTTT 57.153 47.368 0.00 0.00 43.97 1.82
3073 9198 2.103537 GCAGCAGGCAATGGATTTTT 57.896 45.000 0.00 0.00 43.97 1.94
3074 9199 1.735571 GCAGCAGGCAATGGATTTTTG 59.264 47.619 0.00 0.00 43.97 2.44
3075 9200 2.872842 GCAGCAGGCAATGGATTTTTGT 60.873 45.455 0.00 0.00 43.97 2.83
3076 9201 2.739913 CAGCAGGCAATGGATTTTTGTG 59.260 45.455 0.00 0.00 0.00 3.33
3077 9202 2.369532 AGCAGGCAATGGATTTTTGTGT 59.630 40.909 0.00 0.00 0.00 3.72
3078 9203 2.738314 GCAGGCAATGGATTTTTGTGTC 59.262 45.455 0.00 0.00 0.00 3.67
3079 9204 2.988493 CAGGCAATGGATTTTTGTGTCG 59.012 45.455 0.00 0.00 0.00 4.35
3080 9205 1.726248 GGCAATGGATTTTTGTGTCGC 59.274 47.619 0.00 0.00 0.00 5.19
3081 9206 2.610232 GGCAATGGATTTTTGTGTCGCT 60.610 45.455 0.00 0.00 0.00 4.93
3108 9233 6.010850 AGTCATTCTCAAGCCGGAGTATATA 58.989 40.000 5.05 0.00 36.30 0.86
3109 9234 6.665680 AGTCATTCTCAAGCCGGAGTATATAT 59.334 38.462 5.05 0.00 36.30 0.86
3151 9276 5.453567 TTCAGTCGATATCTGGGTATGTG 57.546 43.478 0.34 0.00 34.15 3.21
3152 9277 3.826729 TCAGTCGATATCTGGGTATGTGG 59.173 47.826 0.34 0.00 34.15 4.17
3153 9278 2.563179 AGTCGATATCTGGGTATGTGGC 59.437 50.000 0.34 0.00 0.00 5.01
3154 9279 2.299013 GTCGATATCTGGGTATGTGGCA 59.701 50.000 0.34 0.00 0.00 4.92
3155 9280 3.055819 GTCGATATCTGGGTATGTGGCAT 60.056 47.826 0.34 0.00 0.00 4.40
3156 9281 3.195610 TCGATATCTGGGTATGTGGCATC 59.804 47.826 0.34 0.00 0.00 3.91
3157 9282 3.196469 CGATATCTGGGTATGTGGCATCT 59.804 47.826 0.34 0.00 0.00 2.90
3158 9283 4.323028 CGATATCTGGGTATGTGGCATCTT 60.323 45.833 0.34 0.00 0.00 2.40
3159 9284 5.105351 CGATATCTGGGTATGTGGCATCTTA 60.105 44.000 0.34 0.00 0.00 2.10
3160 9285 4.630644 ATCTGGGTATGTGGCATCTTAG 57.369 45.455 0.00 0.00 0.00 2.18
3161 9286 3.384168 TCTGGGTATGTGGCATCTTAGT 58.616 45.455 0.00 0.00 0.00 2.24
3162 9287 3.134623 TCTGGGTATGTGGCATCTTAGTG 59.865 47.826 0.00 0.00 0.00 2.74
3163 9288 2.843730 TGGGTATGTGGCATCTTAGTGT 59.156 45.455 0.00 0.00 0.00 3.55
3164 9289 3.265737 TGGGTATGTGGCATCTTAGTGTT 59.734 43.478 0.00 0.00 0.00 3.32
3165 9290 3.627577 GGGTATGTGGCATCTTAGTGTTG 59.372 47.826 0.00 0.00 0.00 3.33
3166 9291 3.627577 GGTATGTGGCATCTTAGTGTTGG 59.372 47.826 0.00 0.00 0.00 3.77
3167 9292 3.719268 ATGTGGCATCTTAGTGTTGGA 57.281 42.857 0.00 0.00 0.00 3.53
3168 9293 3.719268 TGTGGCATCTTAGTGTTGGAT 57.281 42.857 0.00 0.00 0.00 3.41
3169 9294 3.346315 TGTGGCATCTTAGTGTTGGATG 58.654 45.455 0.00 0.00 39.59 3.51
3170 9295 3.244875 TGTGGCATCTTAGTGTTGGATGT 60.245 43.478 0.00 0.00 39.04 3.06
3171 9296 3.758554 GTGGCATCTTAGTGTTGGATGTT 59.241 43.478 0.00 0.00 39.04 2.71
3172 9297 4.218417 GTGGCATCTTAGTGTTGGATGTTT 59.782 41.667 0.00 0.00 39.04 2.83
3173 9298 4.458989 TGGCATCTTAGTGTTGGATGTTTC 59.541 41.667 0.00 0.00 39.04 2.78
3174 9299 4.702131 GGCATCTTAGTGTTGGATGTTTCT 59.298 41.667 0.00 0.00 39.04 2.52
3175 9300 5.183904 GGCATCTTAGTGTTGGATGTTTCTT 59.816 40.000 0.00 0.00 39.04 2.52
3176 9301 6.317857 GCATCTTAGTGTTGGATGTTTCTTC 58.682 40.000 0.00 0.00 39.04 2.87
3177 9302 6.623767 GCATCTTAGTGTTGGATGTTTCTTCC 60.624 42.308 0.00 0.00 39.04 3.46
3178 9303 5.935945 TCTTAGTGTTGGATGTTTCTTCCA 58.064 37.500 1.14 1.14 41.50 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 87 7.162082 CAGGTCAAGGACTTTGTACTATTTCT 58.838 38.462 0.00 0.00 38.01 2.52
104 111 2.170817 TGTGTTAGGGTGTGCTTGTACA 59.829 45.455 0.00 0.00 0.00 2.90
183 191 3.070734 GGATGATGACACATAGCTCCAGT 59.929 47.826 0.00 0.00 0.00 4.00
192 200 2.848694 AGGTTCAGGGATGATGACACAT 59.151 45.455 0.00 0.00 0.00 3.21
248 256 5.163109 TGCCATGGTTGAATATGATGACCTA 60.163 40.000 14.67 0.00 0.00 3.08
307 326 0.523966 CCTTGTATTTTTGGCGGCGA 59.476 50.000 12.98 0.00 0.00 5.54
554 1830 3.443925 CCGGCAGCGAGAGAGTGA 61.444 66.667 0.00 0.00 0.00 3.41
579 1855 2.961977 GCTAGTTCCCTCTCCCTCCATT 60.962 54.545 0.00 0.00 0.00 3.16
581 1857 0.032017 GCTAGTTCCCTCTCCCTCCA 60.032 60.000 0.00 0.00 0.00 3.86
656 1933 7.974501 GTCTCGTAACTTCTGGAAAGATCAATA 59.025 37.037 0.00 0.00 0.00 1.90
659 1936 5.243060 TGTCTCGTAACTTCTGGAAAGATCA 59.757 40.000 0.00 0.00 0.00 2.92
770 2112 8.553153 TGTGGGTATGAGGAGTTAATTTGATAA 58.447 33.333 0.00 0.00 0.00 1.75
809 4462 2.622064 AAGAAACCGAAGCACAGTCT 57.378 45.000 0.00 0.00 0.00 3.24
810 4463 4.056050 TCTTAAGAAACCGAAGCACAGTC 58.944 43.478 1.68 0.00 0.00 3.51
811 4464 4.058817 CTCTTAAGAAACCGAAGCACAGT 58.941 43.478 6.63 0.00 0.00 3.55
812 4465 4.150804 GTCTCTTAAGAAACCGAAGCACAG 59.849 45.833 6.63 0.00 31.93 3.66
813 4466 4.056050 GTCTCTTAAGAAACCGAAGCACA 58.944 43.478 6.63 0.00 31.93 4.57
814 4467 4.308265 AGTCTCTTAAGAAACCGAAGCAC 58.692 43.478 6.63 0.00 31.93 4.40
815 4468 4.602340 AGTCTCTTAAGAAACCGAAGCA 57.398 40.909 6.63 0.00 31.93 3.91
817 4470 4.152580 GGCAAGTCTCTTAAGAAACCGAAG 59.847 45.833 6.63 0.00 31.93 3.79
818 4471 4.062991 GGCAAGTCTCTTAAGAAACCGAA 58.937 43.478 6.63 0.00 31.93 4.30
819 4472 3.323979 AGGCAAGTCTCTTAAGAAACCGA 59.676 43.478 6.63 0.00 31.93 4.69
820 4473 3.665190 AGGCAAGTCTCTTAAGAAACCG 58.335 45.455 6.63 0.00 31.93 4.44
821 4474 5.299531 ACAAAGGCAAGTCTCTTAAGAAACC 59.700 40.000 6.63 2.37 31.93 3.27
822 4475 6.202226 CACAAAGGCAAGTCTCTTAAGAAAC 58.798 40.000 6.63 3.45 31.93 2.78
824 4477 4.275936 GCACAAAGGCAAGTCTCTTAAGAA 59.724 41.667 6.63 0.00 31.93 2.52
825 4478 3.815401 GCACAAAGGCAAGTCTCTTAAGA 59.185 43.478 4.81 4.81 0.00 2.10
826 4479 3.057946 GGCACAAAGGCAAGTCTCTTAAG 60.058 47.826 0.00 0.00 43.51 1.85
828 4481 2.504367 GGCACAAAGGCAAGTCTCTTA 58.496 47.619 0.00 0.00 43.51 2.10
829 4482 1.322442 GGCACAAAGGCAAGTCTCTT 58.678 50.000 0.00 0.00 43.51 2.85
830 4483 3.027419 GGCACAAAGGCAAGTCTCT 57.973 52.632 0.00 0.00 43.51 3.10
831 4484 5.920226 GTGATAGGCACAAAGGCAAGTCTC 61.920 50.000 0.00 0.00 46.91 3.36
832 4485 4.119903 GTGATAGGCACAAAGGCAAGTCT 61.120 47.826 0.00 0.00 46.91 3.24
834 4487 2.162681 GTGATAGGCACAAAGGCAAGT 58.837 47.619 0.00 0.00 46.91 3.16
846 4499 3.539604 GCTGGATCCATATGTGATAGGC 58.460 50.000 16.63 7.24 0.00 3.93
848 4501 3.431346 CCCGCTGGATCCATATGTGATAG 60.431 52.174 16.63 0.71 0.00 2.08
849 4502 2.501316 CCCGCTGGATCCATATGTGATA 59.499 50.000 16.63 0.00 0.00 2.15
850 4503 1.280133 CCCGCTGGATCCATATGTGAT 59.720 52.381 16.63 4.32 0.00 3.06
851 4504 0.686789 CCCGCTGGATCCATATGTGA 59.313 55.000 16.63 0.00 0.00 3.58
852 4505 0.397941 ACCCGCTGGATCCATATGTG 59.602 55.000 16.63 10.46 34.81 3.21
853 4506 0.397941 CACCCGCTGGATCCATATGT 59.602 55.000 16.63 7.68 34.81 2.29
854 4507 0.321919 CCACCCGCTGGATCCATATG 60.322 60.000 16.63 4.84 43.95 1.78
855 4508 2.069776 CCACCCGCTGGATCCATAT 58.930 57.895 16.63 0.00 43.95 1.78
856 4509 2.818169 GCCACCCGCTGGATCCATA 61.818 63.158 16.63 0.00 43.95 2.74
857 4510 4.195334 GCCACCCGCTGGATCCAT 62.195 66.667 16.63 0.00 43.95 3.41
869 4522 2.779742 TTACATGTGGGCCAGCCACC 62.780 60.000 6.40 0.00 37.38 4.61
871 4524 1.001020 CTTACATGTGGGCCAGCCA 60.001 57.895 6.40 1.84 37.98 4.75
873 4526 1.754234 CCCTTACATGTGGGCCAGC 60.754 63.158 6.40 2.28 36.61 4.85
874 4527 0.394352 GTCCCTTACATGTGGGCCAG 60.394 60.000 6.40 0.00 43.04 4.85
875 4528 1.688811 GTCCCTTACATGTGGGCCA 59.311 57.895 15.11 0.00 43.04 5.36
876 4529 1.076995 GGTCCCTTACATGTGGGCC 60.077 63.158 15.11 11.92 43.04 5.80
877 4530 1.076995 GGGTCCCTTACATGTGGGC 60.077 63.158 15.11 6.57 43.04 5.36
878 4531 0.701731 TTGGGTCCCTTACATGTGGG 59.298 55.000 13.98 13.98 44.66 4.61
881 4534 2.714250 TGTCTTTGGGTCCCTTACATGT 59.286 45.455 10.00 2.69 0.00 3.21
882 4535 3.347216 CTGTCTTTGGGTCCCTTACATG 58.653 50.000 10.00 0.00 0.00 3.21
883 4536 2.308866 CCTGTCTTTGGGTCCCTTACAT 59.691 50.000 10.00 0.00 0.00 2.29
886 4539 1.702957 CACCTGTCTTTGGGTCCCTTA 59.297 52.381 10.00 0.00 32.95 2.69
887 4540 0.478507 CACCTGTCTTTGGGTCCCTT 59.521 55.000 10.00 0.00 32.95 3.95
888 4541 2.069165 GCACCTGTCTTTGGGTCCCT 62.069 60.000 10.00 0.00 32.95 4.20
889 4542 1.603739 GCACCTGTCTTTGGGTCCC 60.604 63.158 0.00 0.00 32.95 4.46
890 4543 1.603739 GGCACCTGTCTTTGGGTCC 60.604 63.158 0.00 0.00 32.95 4.46
891 4544 0.178990 AAGGCACCTGTCTTTGGGTC 60.179 55.000 0.00 0.00 36.42 4.46
892 4545 0.261696 AAAGGCACCTGTCTTTGGGT 59.738 50.000 4.08 0.00 46.92 4.51
893 4546 3.131850 AAAGGCACCTGTCTTTGGG 57.868 52.632 4.08 0.00 46.92 4.12
897 4550 1.898574 CCGCAAAGGCACCTGTCTT 60.899 57.895 0.00 0.00 42.58 3.01
907 4560 2.256461 GCTTCAGTGCCGCAAAGG 59.744 61.111 0.00 0.00 44.97 3.11
908 4561 1.081641 CAGCTTCAGTGCCGCAAAG 60.082 57.895 0.00 0.00 0.00 2.77
909 4562 3.033184 CAGCTTCAGTGCCGCAAA 58.967 55.556 0.00 0.00 0.00 3.68
910 4563 3.663176 GCAGCTTCAGTGCCGCAA 61.663 61.111 0.00 0.00 36.47 4.85
911 4564 4.631247 AGCAGCTTCAGTGCCGCA 62.631 61.111 0.00 0.00 42.24 5.69
912 4565 3.797546 GAGCAGCTTCAGTGCCGC 61.798 66.667 0.00 0.00 42.24 6.53
913 4566 3.123620 GGAGCAGCTTCAGTGCCG 61.124 66.667 0.00 0.00 42.24 5.69
914 4567 2.033141 TGGAGCAGCTTCAGTGCC 59.967 61.111 0.00 0.00 42.24 5.01
915 4568 1.302351 AGTGGAGCAGCTTCAGTGC 60.302 57.895 10.59 0.00 41.54 4.40
916 4569 0.954449 CCAGTGGAGCAGCTTCAGTG 60.954 60.000 26.66 26.66 39.46 3.66
918 4571 2.039405 GCCAGTGGAGCAGCTTCAG 61.039 63.158 15.20 0.00 0.00 3.02
919 4572 2.033141 GCCAGTGGAGCAGCTTCA 59.967 61.111 15.20 0.00 0.00 3.02
921 4574 2.350514 GAGCCAGTGGAGCAGCTT 59.649 61.111 15.20 0.00 35.23 3.74
922 4575 3.715097 GGAGCCAGTGGAGCAGCT 61.715 66.667 15.20 1.09 38.56 4.24
923 4576 4.792804 GGGAGCCAGTGGAGCAGC 62.793 72.222 15.20 0.00 0.00 5.25
924 4577 1.267574 TAAGGGAGCCAGTGGAGCAG 61.268 60.000 15.20 0.00 0.00 4.24
925 4578 1.229496 TAAGGGAGCCAGTGGAGCA 60.229 57.895 15.20 0.00 0.00 4.26
926 4579 1.524482 CTAAGGGAGCCAGTGGAGC 59.476 63.158 15.20 2.88 0.00 4.70
928 4581 3.727387 GCTAAGGGAGCCAGTGGA 58.273 61.111 15.20 0.00 46.41 4.02
942 4628 0.179468 GTAGGGTTTGGCGATGGCTA 59.821 55.000 0.00 0.00 39.81 3.93
943 4629 1.077716 GTAGGGTTTGGCGATGGCT 60.078 57.895 0.00 0.00 39.81 4.75
1113 7224 3.376078 GTGGAGGTGGTCGCGGTA 61.376 66.667 6.13 0.00 0.00 4.02
1211 7334 1.413662 GGGACCTGAGATGGGAGATGA 60.414 57.143 0.00 0.00 0.00 2.92
1308 7431 2.920912 AGGAACTTCGGGTCGGCA 60.921 61.111 0.00 0.00 27.25 5.69
2060 8183 3.181433 TGACCTGAAGTACCTCTCACTCA 60.181 47.826 0.00 0.00 0.00 3.41
2164 8287 4.918810 AAATGTGTCAAGGTTTGAGGTC 57.081 40.909 0.00 0.00 41.01 3.85
2206 8329 8.150945 TGAATAGCTAGGACCATGAGAAAATAC 58.849 37.037 0.00 0.00 0.00 1.89
2300 8423 1.347221 GCGGCGGTCAATAAGTTCG 59.653 57.895 9.78 0.00 0.00 3.95
2303 8426 1.808390 GTCGCGGCGGTCAATAAGT 60.808 57.895 23.46 0.00 0.00 2.24
2330 8453 8.984891 TTAACCATTTCATATGTTTCAGCAAG 57.015 30.769 1.90 0.00 0.00 4.01
2366 8489 5.695851 AAACTGTAAGAGATGGCAACAAG 57.304 39.130 0.00 0.00 46.38 3.16
2403 8526 8.997621 TTCGTCTATTTTACTTGCTTCATACT 57.002 30.769 0.00 0.00 0.00 2.12
2420 8543 9.778741 ATGATGTTATACCACAATTTCGTCTAT 57.221 29.630 0.00 0.00 0.00 1.98
2460 8583 1.599518 AGCGCCCAACAACGAATGA 60.600 52.632 2.29 0.00 0.00 2.57
2461 8584 1.442520 CAGCGCCCAACAACGAATG 60.443 57.895 2.29 0.00 0.00 2.67
2467 8590 0.039617 CGATTTTCAGCGCCCAACAA 60.040 50.000 2.29 0.00 0.00 2.83
2595 8719 5.133221 AGTCAAAGGCACTACACTCATTTT 58.867 37.500 0.00 0.00 38.49 1.82
2602 8726 5.500645 AGAAAAAGTCAAAGGCACTACAC 57.499 39.130 0.00 0.00 38.49 2.90
2671 8795 7.554118 TGATCAGATCAACCAAGTTCTAATTCC 59.446 37.037 10.93 0.00 36.11 3.01
2672 8796 8.498054 TGATCAGATCAACCAAGTTCTAATTC 57.502 34.615 10.93 0.00 36.11 2.17
2673 8797 7.555554 CCTGATCAGATCAACCAAGTTCTAATT 59.444 37.037 24.62 0.00 39.11 1.40
2674 8798 7.052873 CCTGATCAGATCAACCAAGTTCTAAT 58.947 38.462 24.62 0.00 39.11 1.73
2675 8799 6.213397 TCCTGATCAGATCAACCAAGTTCTAA 59.787 38.462 24.62 0.00 39.11 2.10
2676 8800 5.721480 TCCTGATCAGATCAACCAAGTTCTA 59.279 40.000 24.62 0.00 39.11 2.10
2677 8801 4.533707 TCCTGATCAGATCAACCAAGTTCT 59.466 41.667 24.62 0.00 39.11 3.01
2678 8802 4.836825 TCCTGATCAGATCAACCAAGTTC 58.163 43.478 24.62 0.00 39.11 3.01
2679 8803 4.916041 TCCTGATCAGATCAACCAAGTT 57.084 40.909 24.62 0.00 39.11 2.66
2680 8804 5.435291 GAATCCTGATCAGATCAACCAAGT 58.565 41.667 24.62 0.00 39.11 3.16
2681 8805 4.510711 CGAATCCTGATCAGATCAACCAAG 59.489 45.833 24.62 3.94 39.11 3.61
2682 8806 4.080919 ACGAATCCTGATCAGATCAACCAA 60.081 41.667 24.62 1.08 39.11 3.67
2683 8807 3.452264 ACGAATCCTGATCAGATCAACCA 59.548 43.478 24.62 1.78 39.11 3.67
2684 8808 3.806521 CACGAATCCTGATCAGATCAACC 59.193 47.826 24.62 6.95 39.11 3.77
2685 8809 4.686972 TCACGAATCCTGATCAGATCAAC 58.313 43.478 24.62 9.92 39.11 3.18
2686 8810 4.202192 CCTCACGAATCCTGATCAGATCAA 60.202 45.833 24.62 6.89 39.11 2.57
2687 8811 3.320256 CCTCACGAATCCTGATCAGATCA 59.680 47.826 24.62 12.74 37.76 2.92
2688 8812 3.571828 TCCTCACGAATCCTGATCAGATC 59.428 47.826 24.62 16.58 0.00 2.75
2689 8813 3.570540 TCCTCACGAATCCTGATCAGAT 58.429 45.455 24.62 12.36 0.00 2.90
2690 8814 3.018423 TCCTCACGAATCCTGATCAGA 57.982 47.619 24.62 10.55 0.00 3.27
2691 8815 3.808466 TTCCTCACGAATCCTGATCAG 57.192 47.619 16.24 16.24 0.00 2.90
2692 8816 4.760530 AATTCCTCACGAATCCTGATCA 57.239 40.909 0.00 0.00 40.47 2.92
2693 8817 6.090483 TCTAATTCCTCACGAATCCTGATC 57.910 41.667 0.00 0.00 40.47 2.92
2694 8818 6.098982 AGTTCTAATTCCTCACGAATCCTGAT 59.901 38.462 0.00 0.00 40.47 2.90
2695 8819 5.422331 AGTTCTAATTCCTCACGAATCCTGA 59.578 40.000 0.00 0.00 40.47 3.86
2696 8820 5.665459 AGTTCTAATTCCTCACGAATCCTG 58.335 41.667 0.00 0.00 40.47 3.86
2697 8821 5.941555 AGTTCTAATTCCTCACGAATCCT 57.058 39.130 0.00 0.00 40.47 3.24
2698 8822 6.594159 TCAAAGTTCTAATTCCTCACGAATCC 59.406 38.462 0.00 0.00 40.47 3.01
2699 8823 7.596749 TCAAAGTTCTAATTCCTCACGAATC 57.403 36.000 0.00 0.00 40.47 2.52
2700 8824 6.092807 GCTCAAAGTTCTAATTCCTCACGAAT 59.907 38.462 0.00 0.00 43.34 3.34
2701 8825 5.408604 GCTCAAAGTTCTAATTCCTCACGAA 59.591 40.000 0.00 0.00 34.14 3.85
2702 8826 4.929808 GCTCAAAGTTCTAATTCCTCACGA 59.070 41.667 0.00 0.00 0.00 4.35
2703 8827 4.690748 TGCTCAAAGTTCTAATTCCTCACG 59.309 41.667 0.00 0.00 0.00 4.35
2704 8828 6.348868 CCTTGCTCAAAGTTCTAATTCCTCAC 60.349 42.308 0.00 0.00 33.66 3.51
2705 8829 5.707298 CCTTGCTCAAAGTTCTAATTCCTCA 59.293 40.000 0.00 0.00 33.66 3.86
2706 8830 5.707764 ACCTTGCTCAAAGTTCTAATTCCTC 59.292 40.000 0.00 0.00 33.66 3.71
2707 8831 5.635120 ACCTTGCTCAAAGTTCTAATTCCT 58.365 37.500 0.00 0.00 33.66 3.36
2777 8902 0.251698 TTGGTGGCAATGCTGATGGA 60.252 50.000 4.82 0.00 0.00 3.41
2780 8905 0.899720 CCTTTGGTGGCAATGCTGAT 59.100 50.000 4.82 0.00 0.00 2.90
2846 8971 3.997681 TGCTCGACAATATTTTCGGAACA 59.002 39.130 20.57 14.28 35.89 3.18
2973 9098 6.208644 GTCATCTAGACAGAGCAATCTTCTC 58.791 44.000 0.00 0.00 46.77 2.87
2974 9099 6.147864 GTCATCTAGACAGAGCAATCTTCT 57.852 41.667 0.00 0.00 46.77 2.85
2994 9119 3.648067 AGAAATCCACAGGAACTCAGTCA 59.352 43.478 0.00 0.00 34.60 3.41
2999 9124 3.006247 GAGCAGAAATCCACAGGAACTC 58.994 50.000 0.00 0.00 34.60 3.01
3040 9165 0.038166 TGCTGCTGTTTCTTAGGGGG 59.962 55.000 0.00 0.00 0.00 5.40
3041 9166 1.457346 CTGCTGCTGTTTCTTAGGGG 58.543 55.000 0.00 0.00 0.00 4.79
3042 9167 1.457346 CCTGCTGCTGTTTCTTAGGG 58.543 55.000 0.00 0.00 0.00 3.53
3043 9168 0.807496 GCCTGCTGCTGTTTCTTAGG 59.193 55.000 0.00 0.00 36.87 2.69
3044 9169 1.527034 TGCCTGCTGCTGTTTCTTAG 58.473 50.000 0.00 0.00 42.00 2.18
3045 9170 1.979855 TTGCCTGCTGCTGTTTCTTA 58.020 45.000 0.00 0.00 42.00 2.10
3046 9171 1.000506 CATTGCCTGCTGCTGTTTCTT 59.999 47.619 0.00 0.00 42.00 2.52
3047 9172 0.601558 CATTGCCTGCTGCTGTTTCT 59.398 50.000 0.00 0.00 42.00 2.52
3048 9173 0.389426 CCATTGCCTGCTGCTGTTTC 60.389 55.000 0.00 0.00 42.00 2.78
3049 9174 0.828762 TCCATTGCCTGCTGCTGTTT 60.829 50.000 0.00 0.00 42.00 2.83
3050 9175 0.613853 ATCCATTGCCTGCTGCTGTT 60.614 50.000 0.00 0.00 42.00 3.16
3051 9176 0.613853 AATCCATTGCCTGCTGCTGT 60.614 50.000 0.00 0.00 42.00 4.40
3052 9177 0.535335 AAATCCATTGCCTGCTGCTG 59.465 50.000 0.00 0.00 42.00 4.41
3053 9178 1.272807 AAAATCCATTGCCTGCTGCT 58.727 45.000 0.00 0.00 42.00 4.24
3054 9179 1.735571 CAAAAATCCATTGCCTGCTGC 59.264 47.619 0.00 0.00 41.77 5.25
3055 9180 2.739913 CACAAAAATCCATTGCCTGCTG 59.260 45.455 0.00 0.00 0.00 4.41
3056 9181 2.369532 ACACAAAAATCCATTGCCTGCT 59.630 40.909 0.00 0.00 0.00 4.24
3057 9182 2.738314 GACACAAAAATCCATTGCCTGC 59.262 45.455 0.00 0.00 0.00 4.85
3058 9183 2.988493 CGACACAAAAATCCATTGCCTG 59.012 45.455 0.00 0.00 0.00 4.85
3059 9184 2.610232 GCGACACAAAAATCCATTGCCT 60.610 45.455 0.00 0.00 0.00 4.75
3060 9185 1.726248 GCGACACAAAAATCCATTGCC 59.274 47.619 0.00 0.00 0.00 4.52
3061 9186 2.663119 GAGCGACACAAAAATCCATTGC 59.337 45.455 0.00 0.00 0.00 3.56
3062 9187 4.164822 AGAGCGACACAAAAATCCATTG 57.835 40.909 0.00 0.00 0.00 2.82
3063 9188 5.003804 ACTAGAGCGACACAAAAATCCATT 58.996 37.500 0.00 0.00 0.00 3.16
3064 9189 4.579869 ACTAGAGCGACACAAAAATCCAT 58.420 39.130 0.00 0.00 0.00 3.41
3065 9190 3.994392 GACTAGAGCGACACAAAAATCCA 59.006 43.478 0.00 0.00 0.00 3.41
3066 9191 3.994392 TGACTAGAGCGACACAAAAATCC 59.006 43.478 0.00 0.00 0.00 3.01
3067 9192 5.786401 ATGACTAGAGCGACACAAAAATC 57.214 39.130 0.00 0.00 0.00 2.17
3068 9193 5.934625 AGAATGACTAGAGCGACACAAAAAT 59.065 36.000 0.00 0.00 0.00 1.82
3069 9194 5.297547 AGAATGACTAGAGCGACACAAAAA 58.702 37.500 0.00 0.00 0.00 1.94
3070 9195 4.883083 AGAATGACTAGAGCGACACAAAA 58.117 39.130 0.00 0.00 0.00 2.44
3071 9196 4.022329 TGAGAATGACTAGAGCGACACAAA 60.022 41.667 0.00 0.00 0.00 2.83
3072 9197 3.506067 TGAGAATGACTAGAGCGACACAA 59.494 43.478 0.00 0.00 0.00 3.33
3073 9198 3.081804 TGAGAATGACTAGAGCGACACA 58.918 45.455 0.00 0.00 0.00 3.72
3074 9199 3.766676 TGAGAATGACTAGAGCGACAC 57.233 47.619 0.00 0.00 0.00 3.67
3075 9200 3.428180 GCTTGAGAATGACTAGAGCGACA 60.428 47.826 0.00 0.00 0.00 4.35
3076 9201 3.112580 GCTTGAGAATGACTAGAGCGAC 58.887 50.000 0.00 0.00 0.00 5.19
3077 9202 2.099921 GGCTTGAGAATGACTAGAGCGA 59.900 50.000 0.00 0.00 0.00 4.93
3078 9203 2.468831 GGCTTGAGAATGACTAGAGCG 58.531 52.381 0.00 0.00 0.00 5.03
3079 9204 2.468831 CGGCTTGAGAATGACTAGAGC 58.531 52.381 0.00 0.00 0.00 4.09
3080 9205 2.690497 TCCGGCTTGAGAATGACTAGAG 59.310 50.000 0.00 0.00 0.00 2.43
3081 9206 2.690497 CTCCGGCTTGAGAATGACTAGA 59.310 50.000 0.00 0.00 34.11 2.43
3108 9233 0.249699 TCGACGAACCTGTGTGCAAT 60.250 50.000 0.00 0.00 0.00 3.56
3109 9234 0.249699 ATCGACGAACCTGTGTGCAA 60.250 50.000 0.00 0.00 0.00 4.08
3141 9266 3.118261 ACACTAAGATGCCACATACCCAG 60.118 47.826 0.00 0.00 0.00 4.45
3151 9276 4.702131 AGAAACATCCAACACTAAGATGCC 59.298 41.667 0.00 0.00 40.87 4.40
3152 9277 5.886960 AGAAACATCCAACACTAAGATGC 57.113 39.130 0.00 0.00 40.87 3.91
3153 9278 6.430925 TGGAAGAAACATCCAACACTAAGATG 59.569 38.462 0.00 0.00 43.84 2.90
3154 9279 6.542821 TGGAAGAAACATCCAACACTAAGAT 58.457 36.000 0.00 0.00 43.84 2.40
3155 9280 5.935945 TGGAAGAAACATCCAACACTAAGA 58.064 37.500 0.00 0.00 43.84 2.10



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

AutoCloner maintained by Alex Coulton.