Multiple sequence alignment - TraesCS2A01G410900

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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 TraesCS2A01G410900 chr2A 100.000 4463 0 0 1 4463 668533101 668528639 0.000000e+00 8242.0
1 TraesCS2A01G410900 chr2A 82.467 1135 168 23 2137 3255 668922702 668923821 0.000000e+00 965.0
2 TraesCS2A01G410900 chr2A 82.363 1134 171 22 2137 3255 669109788 669108669 0.000000e+00 959.0
3 TraesCS2A01G410900 chr2A 78.466 339 63 8 2159 2494 668926840 668927171 3.500000e-51 213.0
4 TraesCS2A01G410900 chr2A 78.209 335 61 10 2164 2494 669105585 669105259 2.100000e-48 204.0
5 TraesCS2A01G410900 chr2A 94.444 72 4 0 642 713 668537879 668537950 1.310000e-20 111.0
6 TraesCS2A01G410900 chr2A 88.158 76 6 3 2546 2620 767788998 767788925 2.210000e-13 87.9
7 TraesCS2A01G410900 chr2A 95.833 48 2 0 307 354 668532750 668532703 1.330000e-10 78.7
8 TraesCS2A01G410900 chr2A 95.833 48 2 0 352 399 668532795 668532748 1.330000e-10 78.7
9 TraesCS2A01G410900 chr2B 92.873 3494 139 37 1025 4463 617140753 617144191 0.000000e+00 4972.0
10 TraesCS2A01G410900 chr2B 90.291 206 14 4 837 1039 617140538 617140740 9.520000e-67 265.0
11 TraesCS2A01G410900 chr2B 78.235 340 62 10 2159 2494 617528170 617527839 1.630000e-49 207.0
12 TraesCS2A01G410900 chr2B 79.358 218 35 4 146 354 709849461 709849245 1.290000e-30 145.0
13 TraesCS2A01G410900 chr2D 96.046 2858 54 22 990 3809 523160748 523163584 0.000000e+00 4597.0
14 TraesCS2A01G410900 chr2D 94.661 693 14 6 3791 4463 523163600 523164289 0.000000e+00 1053.0
15 TraesCS2A01G410900 chr2D 83.172 1135 159 23 2137 3255 523358902 523357784 0.000000e+00 1009.0
16 TraesCS2A01G410900 chr2D 78.592 341 59 12 2159 2494 523309904 523309573 3.500000e-51 213.0
17 TraesCS2A01G410900 chr2D 78.676 136 24 5 2546 2679 595439238 595439370 7.950000e-13 86.1
18 TraesCS2A01G410900 chr7D 94.199 362 21 0 352 713 613375937 613375576 1.810000e-153 553.0
19 TraesCS2A01G410900 chr7D 95.157 351 13 3 1 351 541506495 541506841 6.520000e-153 551.0
20 TraesCS2A01G410900 chr7D 93.785 354 18 3 1 354 613376239 613375890 3.060000e-146 529.0
21 TraesCS2A01G410900 chr7D 92.265 362 22 1 352 713 541506797 541507152 3.980000e-140 508.0
22 TraesCS2A01G410900 chr7D 94.444 72 4 0 642 713 541504509 541504438 1.310000e-20 111.0
23 TraesCS2A01G410900 chr4B 92.795 347 23 2 352 698 628662262 628661918 6.660000e-138 501.0
24 TraesCS2A01G410900 chr4B 94.505 182 6 3 173 354 628662392 628662215 1.220000e-70 278.0
25 TraesCS2A01G410900 chr4B 94.444 108 6 0 1 108 628662493 628662386 2.760000e-37 167.0
26 TraesCS2A01G410900 chr4B 91.667 72 6 0 642 713 628675433 628675504 2.840000e-17 100.0
27 TraesCS2A01G410900 chr7B 95.055 182 5 3 173 354 684442822 684442645 2.630000e-72 283.0
28 TraesCS2A01G410900 chr7B 95.370 108 5 0 1 108 684442923 684442816 5.940000e-39 172.0
29 TraesCS2A01G410900 chr7B 89.109 101 11 0 612 712 684440999 684440899 4.690000e-25 126.0
30 TraesCS2A01G410900 chr7B 96.226 53 2 0 642 694 684447802 684447854 2.210000e-13 87.9
31 TraesCS2A01G410900 chr6D 79.817 218 35 3 146 354 471340191 471339974 2.780000e-32 150.0
32 TraesCS2A01G410900 chr1D 80.000 215 34 3 146 351 476215410 476215624 2.780000e-32 150.0
33 TraesCS2A01G410900 chr4D 79.535 215 35 3 146 351 116146242 116146456 1.290000e-30 145.0
34 TraesCS2A01G410900 chr3B 79.535 215 35 3 146 351 248614344 248614558 1.290000e-30 145.0
35 TraesCS2A01G410900 chrUn 87.500 80 8 2 2541 2620 31552466 31552543 1.710000e-14 91.6
36 TraesCS2A01G410900 chrUn 88.158 76 6 3 2546 2620 31527550 31527477 2.210000e-13 87.9


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 TraesCS2A01G410900 chr2A 668528639 668533101 4462 True 2799.800000 8242 97.222000 1 4463 3 chr2A.!!$R2 4462
1 TraesCS2A01G410900 chr2A 668922702 668927171 4469 False 589.000000 965 80.466500 2137 3255 2 chr2A.!!$F2 1118
2 TraesCS2A01G410900 chr2A 669105259 669109788 4529 True 581.500000 959 80.286000 2137 3255 2 chr2A.!!$R3 1118
3 TraesCS2A01G410900 chr2B 617140538 617144191 3653 False 2618.500000 4972 91.582000 837 4463 2 chr2B.!!$F1 3626
4 TraesCS2A01G410900 chr2D 523160748 523164289 3541 False 2825.000000 4597 95.353500 990 4463 2 chr2D.!!$F2 3473
5 TraesCS2A01G410900 chr2D 523357784 523358902 1118 True 1009.000000 1009 83.172000 2137 3255 1 chr2D.!!$R2 1118
6 TraesCS2A01G410900 chr7D 613375576 613376239 663 True 541.000000 553 93.992000 1 713 2 chr7D.!!$R2 712
7 TraesCS2A01G410900 chr7D 541506495 541507152 657 False 529.500000 551 93.711000 1 713 2 chr7D.!!$F1 712
8 TraesCS2A01G410900 chr4B 628661918 628662493 575 True 315.333333 501 93.914667 1 698 3 chr4B.!!$R1 697

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
802 809 0.033920 AACGGGTCGGTCCAGTAAAC 59.966 55.000 0.00 0.0 43.46 2.01 F
928 935 0.103208 GCCTCCTGTCGGTATGTCTG 59.897 60.000 0.00 0.0 0.00 3.51 F
939 946 1.000955 GGTATGTCTGCATCTACCGGG 59.999 57.143 6.32 0.0 36.58 5.73 F
1215 1257 1.089920 CGGAGATTGAAGTGGCCAAG 58.910 55.000 7.24 0.0 0.00 3.61 F
2607 2689 1.267532 CCGTCTCGTGCAATTGTATGC 60.268 52.381 10.58 0.0 46.58 3.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2607 2689 0.944311 CCACACGAACAGGTTCCTCG 60.944 60.000 6.59 0.0 36.27 4.63 R
2621 2703 4.036734 TCACTTTGAGCTTGATTTCCACAC 59.963 41.667 0.00 0.0 0.00 3.82 R
2655 2737 6.709397 TCATCAATGCAATATCTTCAGACTCC 59.291 38.462 0.00 0.0 0.00 3.85 R
3156 3244 0.391263 CTAGACGGGACCAAGCAACC 60.391 60.000 0.00 0.0 0.00 3.77 R
4307 6610 0.099436 GCAACCGCCTTTATGAGCAG 59.901 55.000 0.00 0.0 0.00 4.24 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
57 58 0.108804 TCCGTCGCTGTTTGGATCTC 60.109 55.000 0.00 0.00 0.00 2.75
159 160 0.895530 TCTGTCCAACACTCGGGATC 59.104 55.000 0.00 0.00 35.25 3.36
220 221 5.655974 TCATATTTGTTTGCATTGAGGGCTA 59.344 36.000 0.00 0.00 0.00 3.93
224 225 3.961849 TGTTTGCATTGAGGGCTATGTA 58.038 40.909 0.00 0.00 31.18 2.29
225 226 3.947196 TGTTTGCATTGAGGGCTATGTAG 59.053 43.478 0.00 0.00 31.18 2.74
226 227 3.931907 TTGCATTGAGGGCTATGTAGT 57.068 42.857 0.00 0.00 31.18 2.73
227 228 3.475566 TGCATTGAGGGCTATGTAGTC 57.524 47.619 0.00 0.00 31.18 2.59
228 229 3.041211 TGCATTGAGGGCTATGTAGTCT 58.959 45.455 0.00 0.00 31.18 3.24
229 230 3.070159 TGCATTGAGGGCTATGTAGTCTC 59.930 47.826 0.00 0.11 31.18 3.36
230 231 3.556004 GCATTGAGGGCTATGTAGTCTCC 60.556 52.174 0.00 0.00 31.18 3.71
231 232 2.383442 TGAGGGCTATGTAGTCTCCC 57.617 55.000 0.00 0.00 37.24 4.30
351 352 3.827898 CGGACCACTCCTCGGAGC 61.828 72.222 12.78 0.00 45.54 4.70
352 353 2.680352 GGACCACTCCTCGGAGCA 60.680 66.667 12.78 0.00 45.54 4.26
353 354 2.716017 GGACCACTCCTCGGAGCAG 61.716 68.421 12.78 7.03 45.54 4.24
354 355 1.679305 GACCACTCCTCGGAGCAGA 60.679 63.158 12.78 0.00 45.54 4.26
355 356 1.000993 ACCACTCCTCGGAGCAGAT 59.999 57.895 12.78 0.00 45.54 2.90
356 357 0.616111 ACCACTCCTCGGAGCAGATT 60.616 55.000 12.78 0.00 45.54 2.40
357 358 0.179089 CCACTCCTCGGAGCAGATTG 60.179 60.000 12.78 3.56 45.54 2.67
358 359 0.820226 CACTCCTCGGAGCAGATTGA 59.180 55.000 12.78 0.00 45.54 2.57
359 360 1.411977 CACTCCTCGGAGCAGATTGAT 59.588 52.381 12.78 0.00 45.54 2.57
360 361 1.686052 ACTCCTCGGAGCAGATTGATC 59.314 52.381 12.78 0.00 45.54 2.92
361 362 0.670706 TCCTCGGAGCAGATTGATCG 59.329 55.000 0.00 0.00 32.73 3.69
362 363 0.319383 CCTCGGAGCAGATTGATCGG 60.319 60.000 0.00 0.00 32.73 4.18
363 364 0.943359 CTCGGAGCAGATTGATCGGC 60.943 60.000 7.85 7.85 46.24 5.54
367 368 3.425422 GCAGATTGATCGGCACCC 58.575 61.111 10.55 0.00 45.40 4.61
368 369 1.153086 GCAGATTGATCGGCACCCT 60.153 57.895 10.55 0.00 45.40 4.34
369 370 1.162800 GCAGATTGATCGGCACCCTC 61.163 60.000 10.55 0.00 45.40 4.30
370 371 0.533755 CAGATTGATCGGCACCCTCC 60.534 60.000 0.00 0.00 0.00 4.30
371 372 0.692419 AGATTGATCGGCACCCTCCT 60.692 55.000 0.00 0.00 0.00 3.69
372 373 0.533755 GATTGATCGGCACCCTCCTG 60.534 60.000 0.00 0.00 0.00 3.86
373 374 1.987807 ATTGATCGGCACCCTCCTGG 61.988 60.000 0.00 0.00 41.37 4.45
382 383 2.678934 CCCTCCTGGTTCGTCGGA 60.679 66.667 0.00 0.00 0.00 4.55
383 384 2.572284 CCTCCTGGTTCGTCGGAC 59.428 66.667 0.00 0.00 0.00 4.79
384 385 2.572284 CTCCTGGTTCGTCGGACC 59.428 66.667 16.37 16.37 37.69 4.46
385 386 2.203523 TCCTGGTTCGTCGGACCA 60.204 61.111 24.02 24.02 44.59 4.02
386 387 2.048503 CCTGGTTCGTCGGACCAC 60.049 66.667 21.92 0.00 42.06 4.16
387 388 2.571216 CCTGGTTCGTCGGACCACT 61.571 63.158 21.92 0.00 42.06 4.00
388 389 1.080705 CTGGTTCGTCGGACCACTC 60.081 63.158 21.92 0.00 42.06 3.51
389 390 2.260743 GGTTCGTCGGACCACTCC 59.739 66.667 18.30 0.00 37.14 3.85
390 391 2.273912 GGTTCGTCGGACCACTCCT 61.274 63.158 18.30 0.00 37.14 3.69
391 392 1.212229 GTTCGTCGGACCACTCCTC 59.788 63.158 1.91 0.00 33.79 3.71
392 393 2.330372 TTCGTCGGACCACTCCTCG 61.330 63.158 1.91 0.00 33.79 4.63
393 394 2.736579 TTCGTCGGACCACTCCTCGA 62.737 60.000 1.91 0.00 38.17 4.04
394 395 2.330372 CGTCGGACCACTCCTCGAA 61.330 63.158 1.91 0.00 35.14 3.71
395 396 1.507174 GTCGGACCACTCCTCGAAG 59.493 63.158 0.00 0.00 33.79 3.79
436 437 3.815856 TCCTTTGCTGCACAATTCAAA 57.184 38.095 0.00 0.00 38.31 2.69
437 438 3.719924 TCCTTTGCTGCACAATTCAAAG 58.280 40.909 0.00 1.09 42.82 2.77
455 456 7.896383 TTCAAAGGAAGAAAAGAAGAATCCA 57.104 32.000 0.00 0.00 0.00 3.41
490 491 3.880490 AGGATTGTTGTGTGCGTTAAGAA 59.120 39.130 0.00 0.00 0.00 2.52
529 530 0.315568 CCGCCTCCTATGAGCAGTAC 59.684 60.000 0.00 0.00 37.29 2.73
551 558 1.555741 TTGCATTTTGGCGCGCTTTC 61.556 50.000 32.29 15.45 36.28 2.62
564 571 1.459592 GCGCTTTCGTGTATTCTGTGT 59.540 47.619 0.00 0.00 38.14 3.72
584 591 2.684001 ATCTGTTTCGCGGGTGATTA 57.316 45.000 6.13 0.00 0.00 1.75
602 609 7.094762 GGGTGATTATGATTATTTCCTTCCGTC 60.095 40.741 0.00 0.00 0.00 4.79
620 627 5.856156 TCCGTCCTGTGTTCAGTTTTAATA 58.144 37.500 0.00 0.00 39.82 0.98
644 651 7.850935 AATGAGAGTATTACGGAAGGGAATA 57.149 36.000 0.00 0.00 0.00 1.75
656 663 9.772605 TTACGGAAGGGAATAGGTATTATGATA 57.227 33.333 0.00 0.00 0.00 2.15
744 751 4.697756 CAAGCCCCGTCCTGCGAA 62.698 66.667 0.00 0.00 44.77 4.70
745 752 4.394712 AAGCCCCGTCCTGCGAAG 62.395 66.667 0.00 0.00 44.77 3.79
748 755 3.702048 CCCCGTCCTGCGAAGGAA 61.702 66.667 15.75 0.00 44.77 3.36
749 756 2.345991 CCCGTCCTGCGAAGGAAA 59.654 61.111 15.75 0.00 44.77 3.13
750 757 1.741770 CCCGTCCTGCGAAGGAAAG 60.742 63.158 15.75 11.58 44.77 2.62
751 758 2.391389 CCGTCCTGCGAAGGAAAGC 61.391 63.158 15.75 0.15 44.77 3.51
752 759 2.391389 CGTCCTGCGAAGGAAAGCC 61.391 63.158 15.75 0.00 44.77 4.35
753 760 2.047274 TCCTGCGAAGGAAAGCCG 60.047 61.111 10.70 0.00 39.96 5.52
754 761 2.047274 CCTGCGAAGGAAAGCCGA 60.047 61.111 1.89 0.00 39.96 5.54
755 762 2.103042 CCTGCGAAGGAAAGCCGAG 61.103 63.158 1.89 0.00 39.96 4.63
756 763 1.079819 CTGCGAAGGAAAGCCGAGA 60.080 57.895 0.00 0.00 39.96 4.04
757 764 1.079819 TGCGAAGGAAAGCCGAGAG 60.080 57.895 0.00 0.00 39.96 3.20
758 765 2.456948 GCGAAGGAAAGCCGAGAGC 61.457 63.158 0.00 0.00 44.25 4.09
759 766 1.811679 CGAAGGAAAGCCGAGAGCC 60.812 63.158 0.00 0.00 45.47 4.70
760 767 1.296715 GAAGGAAAGCCGAGAGCCA 59.703 57.895 0.00 0.00 45.47 4.75
761 768 0.742635 GAAGGAAAGCCGAGAGCCAG 60.743 60.000 0.00 0.00 45.47 4.85
762 769 2.811542 AAGGAAAGCCGAGAGCCAGC 62.812 60.000 0.00 0.00 45.47 4.85
763 770 2.046892 GAAAGCCGAGAGCCAGCA 60.047 61.111 0.00 0.00 45.47 4.41
764 771 2.046507 AAAGCCGAGAGCCAGCAG 60.047 61.111 0.00 0.00 45.47 4.24
765 772 2.513026 GAAAGCCGAGAGCCAGCAGA 62.513 60.000 0.00 0.00 45.47 4.26
766 773 2.794820 AAAGCCGAGAGCCAGCAGAC 62.795 60.000 0.00 0.00 45.47 3.51
768 775 3.443925 CCGAGAGCCAGCAGACGA 61.444 66.667 0.00 0.00 0.00 4.20
769 776 2.568612 CGAGAGCCAGCAGACGAA 59.431 61.111 0.00 0.00 0.00 3.85
770 777 1.080501 CGAGAGCCAGCAGACGAAA 60.081 57.895 0.00 0.00 0.00 3.46
771 778 0.667487 CGAGAGCCAGCAGACGAAAA 60.667 55.000 0.00 0.00 0.00 2.29
772 779 1.512926 GAGAGCCAGCAGACGAAAAA 58.487 50.000 0.00 0.00 0.00 1.94
792 799 2.855660 AACAAAAGAAAACGGGTCGG 57.144 45.000 0.00 0.00 0.00 4.79
793 800 1.753930 ACAAAAGAAAACGGGTCGGT 58.246 45.000 0.00 0.00 0.00 4.69
794 801 1.672363 ACAAAAGAAAACGGGTCGGTC 59.328 47.619 0.00 0.00 0.00 4.79
795 802 1.002142 CAAAAGAAAACGGGTCGGTCC 60.002 52.381 0.00 0.00 0.00 4.46
796 803 0.180878 AAAGAAAACGGGTCGGTCCA 59.819 50.000 0.00 0.00 38.11 4.02
797 804 0.250166 AAGAAAACGGGTCGGTCCAG 60.250 55.000 0.00 0.00 38.11 3.86
798 805 1.070275 GAAAACGGGTCGGTCCAGT 59.930 57.895 0.00 0.00 46.03 4.00
799 806 0.318120 GAAAACGGGTCGGTCCAGTA 59.682 55.000 0.00 0.00 43.46 2.74
800 807 0.758123 AAAACGGGTCGGTCCAGTAA 59.242 50.000 0.00 0.00 43.46 2.24
801 808 0.758123 AAACGGGTCGGTCCAGTAAA 59.242 50.000 0.00 0.00 43.46 2.01
802 809 0.033920 AACGGGTCGGTCCAGTAAAC 59.966 55.000 0.00 0.00 43.46 2.01
803 810 0.829182 ACGGGTCGGTCCAGTAAACT 60.829 55.000 0.00 0.00 42.50 2.66
804 811 1.176527 CGGGTCGGTCCAGTAAACTA 58.823 55.000 0.00 0.00 38.11 2.24
805 812 1.135286 CGGGTCGGTCCAGTAAACTAC 60.135 57.143 0.00 0.00 38.11 2.73
806 813 1.895131 GGGTCGGTCCAGTAAACTACA 59.105 52.381 0.00 0.00 38.11 2.74
807 814 2.353109 GGGTCGGTCCAGTAAACTACAC 60.353 54.545 0.00 0.00 38.11 2.90
808 815 2.589014 GTCGGTCCAGTAAACTACACG 58.411 52.381 0.00 0.00 0.00 4.49
809 816 2.226437 GTCGGTCCAGTAAACTACACGA 59.774 50.000 0.00 0.00 0.00 4.35
810 817 2.485426 TCGGTCCAGTAAACTACACGAG 59.515 50.000 0.00 0.00 0.00 4.18
811 818 2.415090 CGGTCCAGTAAACTACACGAGG 60.415 54.545 0.00 0.00 0.00 4.63
812 819 2.094338 GGTCCAGTAAACTACACGAGGG 60.094 54.545 0.00 0.00 0.00 4.30
813 820 2.560105 GTCCAGTAAACTACACGAGGGT 59.440 50.000 0.00 0.00 0.00 4.34
814 821 3.758554 GTCCAGTAAACTACACGAGGGTA 59.241 47.826 0.00 0.00 0.00 3.69
815 822 4.218417 GTCCAGTAAACTACACGAGGGTAA 59.782 45.833 0.00 0.00 0.00 2.85
816 823 4.832266 TCCAGTAAACTACACGAGGGTAAA 59.168 41.667 0.00 0.00 0.00 2.01
817 824 5.304101 TCCAGTAAACTACACGAGGGTAAAA 59.696 40.000 0.00 0.00 0.00 1.52
818 825 5.406477 CCAGTAAACTACACGAGGGTAAAAC 59.594 44.000 0.00 0.00 0.00 2.43
819 826 5.406477 CAGTAAACTACACGAGGGTAAAACC 59.594 44.000 0.00 0.00 37.60 3.27
820 827 4.694760 AAACTACACGAGGGTAAAACCT 57.305 40.909 0.00 0.00 45.57 3.50
821 828 4.694760 AACTACACGAGGGTAAAACCTT 57.305 40.909 0.00 0.00 42.10 3.50
822 829 4.694760 ACTACACGAGGGTAAAACCTTT 57.305 40.909 0.00 0.00 42.10 3.11
823 830 5.039920 ACTACACGAGGGTAAAACCTTTT 57.960 39.130 0.00 0.00 42.10 2.27
824 831 5.439721 ACTACACGAGGGTAAAACCTTTTT 58.560 37.500 0.00 0.00 42.10 1.94
869 876 0.459237 CAGGCGAGACTTGCTTCGAT 60.459 55.000 14.42 0.00 0.00 3.59
871 878 0.458543 GGCGAGACTTGCTTCGATCA 60.459 55.000 14.42 0.00 0.00 2.92
928 935 0.103208 GCCTCCTGTCGGTATGTCTG 59.897 60.000 0.00 0.00 0.00 3.51
936 943 2.361119 TGTCGGTATGTCTGCATCTACC 59.639 50.000 0.00 0.00 36.58 3.18
939 946 1.000955 GGTATGTCTGCATCTACCGGG 59.999 57.143 6.32 0.00 36.58 5.73
966 973 3.866066 GCCGAGGCTGAGATGCAATATAA 60.866 47.826 6.90 0.00 38.26 0.98
973 982 6.013032 AGGCTGAGATGCAATATAATACACCT 60.013 38.462 0.00 0.00 34.04 4.00
976 985 7.315066 TGAGATGCAATATAATACACCTCCA 57.685 36.000 0.00 0.00 0.00 3.86
986 995 3.933861 ATACACCTCCACCCATCTTTC 57.066 47.619 0.00 0.00 0.00 2.62
987 996 1.444933 ACACCTCCACCCATCTTTCA 58.555 50.000 0.00 0.00 0.00 2.69
988 997 1.780309 ACACCTCCACCCATCTTTCAA 59.220 47.619 0.00 0.00 0.00 2.69
1029 1039 5.470777 ACCGTCTCTTCCTCTATCTAAATCG 59.529 44.000 0.00 0.00 0.00 3.34
1030 1040 5.106475 CCGTCTCTTCCTCTATCTAAATCGG 60.106 48.000 0.00 0.00 0.00 4.18
1209 1251 5.163814 GGAGACAAAATCGGAGATTGAAGTG 60.164 44.000 11.20 0.00 45.12 3.16
1215 1257 1.089920 CGGAGATTGAAGTGGCCAAG 58.910 55.000 7.24 0.00 0.00 3.61
1407 1458 3.119955 TCAGTCGTATCTCCAAGAACGTG 60.120 47.826 0.00 0.00 33.61 4.49
1812 1866 4.889409 GCCAGAATCAAATTGGATGAGGTA 59.111 41.667 0.00 0.00 33.76 3.08
1867 1921 3.249189 AGGCAGCCAACGGGAAGA 61.249 61.111 15.80 0.00 35.59 2.87
2043 2097 4.065789 GGGTATCGAATTGGTCCAGATTC 58.934 47.826 12.95 12.95 0.00 2.52
2113 2167 7.308951 CCATATATCTGCTCATTGTTCATTGCA 60.309 37.037 0.00 0.00 0.00 4.08
2369 2449 5.003804 ACAATCGCAACATACTCTTTTCCT 58.996 37.500 0.00 0.00 0.00 3.36
2421 2502 7.611213 ATCAAGAGGTCCGTTTAGTATTTTG 57.389 36.000 0.00 0.00 0.00 2.44
2463 2544 5.756833 CCTGGTCCGTTAATTAGTTATGACC 59.243 44.000 11.67 11.67 0.00 4.02
2607 2689 1.267532 CCGTCTCGTGCAATTGTATGC 60.268 52.381 10.58 0.00 46.58 3.14
2621 2703 1.278238 GTATGCGAGGAACCTGTTCG 58.722 55.000 0.00 0.00 40.37 3.95
2655 2737 1.873591 CTCAAAGTGAAGGGTGGAACG 59.126 52.381 0.00 0.00 38.12 3.95
2959 3047 4.572985 CAAGTTGTGCTTCAAGATGGAA 57.427 40.909 0.00 0.00 36.66 3.53
3156 3244 2.266554 GACTCTGAGCTGGAAATCACG 58.733 52.381 4.19 0.00 0.00 4.35
3362 3483 4.737855 GGTACTGACCAGTATGTCACAT 57.262 45.455 12.40 0.00 46.12 3.21
3488 3611 3.023119 TGCTGAAGTGAAAAAGCCTGAA 58.977 40.909 0.00 0.00 34.70 3.02
3490 3613 3.796844 GCTGAAGTGAAAAAGCCTGAACC 60.797 47.826 0.00 0.00 0.00 3.62
3516 3640 1.270358 GGAGTTCTGCCCTATTAGCCG 60.270 57.143 0.00 0.00 0.00 5.52
3616 4272 0.951558 ACACAGTCCGCATTTGTTCC 59.048 50.000 0.00 0.00 0.00 3.62
3617 4273 1.238439 CACAGTCCGCATTTGTTCCT 58.762 50.000 0.00 0.00 0.00 3.36
3618 4274 1.197721 CACAGTCCGCATTTGTTCCTC 59.802 52.381 0.00 0.00 0.00 3.71
3619 4275 1.072331 ACAGTCCGCATTTGTTCCTCT 59.928 47.619 0.00 0.00 0.00 3.69
3626 4282 1.666189 GCATTTGTTCCTCTAGTCCGC 59.334 52.381 0.00 0.00 0.00 5.54
3694 4679 3.310501 TGCGATTACTCAACTGATGCATG 59.689 43.478 2.46 0.00 0.00 4.06
3777 4932 2.099756 CCGGATGGAATGGAGCTTTTTC 59.900 50.000 0.00 0.00 37.49 2.29
4009 6295 9.671279 TTGTTCTTTGCAGATGATTCTCTTATA 57.329 29.630 0.00 0.00 0.00 0.98
4010 6296 9.322773 TGTTCTTTGCAGATGATTCTCTTATAG 57.677 33.333 0.00 0.00 0.00 1.31
4011 6297 9.323985 GTTCTTTGCAGATGATTCTCTTATAGT 57.676 33.333 0.00 0.00 0.00 2.12
4012 6298 9.896645 TTCTTTGCAGATGATTCTCTTATAGTT 57.103 29.630 0.00 0.00 0.00 2.24
4063 6349 8.480066 GCAAAGTTACAACAGATTTTAGCTTTC 58.520 33.333 0.00 0.00 32.42 2.62
4148 6445 2.319472 GCAACAAAAGCGGATGTTCTC 58.681 47.619 1.78 0.00 37.66 2.87
4256 6559 4.492494 TCTGAAGCAGAGAATATGGCAA 57.508 40.909 0.00 0.00 35.39 4.52
4257 6560 4.449131 TCTGAAGCAGAGAATATGGCAAG 58.551 43.478 0.00 0.00 35.39 4.01
4258 6561 4.162888 TCTGAAGCAGAGAATATGGCAAGA 59.837 41.667 0.00 0.00 35.39 3.02
4260 6563 3.488778 AGCAGAGAATATGGCAAGAGG 57.511 47.619 0.00 0.00 0.00 3.69
4261 6564 3.044156 AGCAGAGAATATGGCAAGAGGA 58.956 45.455 0.00 0.00 0.00 3.71
4263 6566 4.104420 AGCAGAGAATATGGCAAGAGGATT 59.896 41.667 0.00 0.00 0.00 3.01
4264 6567 4.215827 GCAGAGAATATGGCAAGAGGATTG 59.784 45.833 0.00 0.00 0.00 2.67
4267 6570 6.715718 CAGAGAATATGGCAAGAGGATTGAAT 59.284 38.462 0.00 0.00 0.00 2.57
4307 6610 1.308783 CCGAAAGCAGGGAAAGAGGC 61.309 60.000 0.00 0.00 0.00 4.70
4404 6707 5.390885 GCGAAGAAATCAGTGCACTAATTGA 60.391 40.000 21.20 14.15 0.00 2.57
4409 6712 0.097674 CAGTGCACTAATTGAGCGGC 59.902 55.000 21.20 0.00 34.96 6.53
4413 6716 2.354510 GTGCACTAATTGAGCGGCATTA 59.645 45.455 10.32 0.00 39.94 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 1.178534 AAACCGTGGCCACAATCTGG 61.179 55.000 34.16 27.25 44.08 3.86
64 65 0.029700 GTACAACAAACCGTGGCCAC 59.970 55.000 26.78 26.78 0.00 5.01
112 113 7.440556 AGAAGTAGCATGTATGAAGCATAACAG 59.559 37.037 0.00 0.00 0.00 3.16
159 160 2.991190 ACTTACCATTAACTGCGACACG 59.009 45.455 0.00 0.00 0.00 4.49
220 221 1.204146 ACCATTGCGGGAGACTACAT 58.796 50.000 0.00 0.00 40.22 2.29
224 225 0.400213 TTGAACCATTGCGGGAGACT 59.600 50.000 0.00 0.00 40.22 3.24
225 226 1.243902 TTTGAACCATTGCGGGAGAC 58.756 50.000 0.00 0.00 40.22 3.36
226 227 1.611491 GTTTTGAACCATTGCGGGAGA 59.389 47.619 0.00 0.00 40.22 3.71
227 228 1.339610 TGTTTTGAACCATTGCGGGAG 59.660 47.619 0.00 0.00 40.22 4.30
228 229 1.403814 TGTTTTGAACCATTGCGGGA 58.596 45.000 0.00 0.00 40.22 5.14
229 230 2.231215 TTGTTTTGAACCATTGCGGG 57.769 45.000 0.00 0.00 40.22 6.13
230 231 3.452474 TCTTTGTTTTGAACCATTGCGG 58.548 40.909 0.00 0.00 42.50 5.69
231 232 5.462034 TTTCTTTGTTTTGAACCATTGCG 57.538 34.783 0.00 0.00 0.00 4.85
351 352 0.533755 GGAGGGTGCCGATCAATCTG 60.534 60.000 0.00 0.00 0.00 2.90
352 353 0.692419 AGGAGGGTGCCGATCAATCT 60.692 55.000 0.00 0.00 0.00 2.40
353 354 0.533755 CAGGAGGGTGCCGATCAATC 60.534 60.000 0.00 0.00 0.00 2.67
354 355 1.528824 CAGGAGGGTGCCGATCAAT 59.471 57.895 0.00 0.00 0.00 2.57
355 356 2.669133 CCAGGAGGGTGCCGATCAA 61.669 63.158 0.00 0.00 0.00 2.57
356 357 3.083349 CCAGGAGGGTGCCGATCA 61.083 66.667 0.00 0.00 0.00 2.92
365 366 2.678934 TCCGACGAACCAGGAGGG 60.679 66.667 0.00 0.00 44.81 4.30
366 367 2.572284 GTCCGACGAACCAGGAGG 59.428 66.667 0.00 0.00 42.21 4.30
367 368 2.273179 TGGTCCGACGAACCAGGAG 61.273 63.158 0.03 0.00 41.84 3.69
368 369 2.203523 TGGTCCGACGAACCAGGA 60.204 61.111 0.03 0.00 41.84 3.86
371 372 2.567497 GGAGTGGTCCGACGAACCA 61.567 63.158 0.03 0.03 44.46 3.67
372 373 2.260743 GGAGTGGTCCGACGAACC 59.739 66.667 0.00 0.00 37.31 3.62
380 381 0.108567 GCTTCTTCGAGGAGTGGTCC 60.109 60.000 0.00 0.00 44.33 4.46
381 382 0.108567 GGCTTCTTCGAGGAGTGGTC 60.109 60.000 0.00 0.00 0.00 4.02
382 383 0.832135 TGGCTTCTTCGAGGAGTGGT 60.832 55.000 0.00 0.00 0.00 4.16
383 384 0.539051 ATGGCTTCTTCGAGGAGTGG 59.461 55.000 0.00 0.00 0.00 4.00
384 385 1.205655 TGATGGCTTCTTCGAGGAGTG 59.794 52.381 0.00 0.00 0.00 3.51
385 386 1.480137 CTGATGGCTTCTTCGAGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
386 387 1.753649 TCTGATGGCTTCTTCGAGGAG 59.246 52.381 0.00 0.00 0.00 3.69
387 388 1.753649 CTCTGATGGCTTCTTCGAGGA 59.246 52.381 0.00 0.00 0.00 3.71
388 389 1.202510 CCTCTGATGGCTTCTTCGAGG 60.203 57.143 14.49 14.49 33.70 4.63
389 390 2.222007 CCTCTGATGGCTTCTTCGAG 57.778 55.000 1.86 5.31 0.00 4.04
412 413 3.575256 TGAATTGTGCAGCAAAGGAATCT 59.425 39.130 0.00 0.00 40.91 2.40
436 437 5.184671 GCACATGGATTCTTCTTTTCTTCCT 59.815 40.000 0.00 0.00 0.00 3.36
437 438 5.184671 AGCACATGGATTCTTCTTTTCTTCC 59.815 40.000 0.00 0.00 0.00 3.46
490 491 2.423898 CGGCGGAGGTGACCTACAT 61.424 63.158 15.40 0.00 33.03 2.29
529 530 1.154617 GCGCGCCAAAATGCAAAAG 60.155 52.632 23.24 0.00 0.00 2.27
551 558 5.498700 GCGAAACAGATACACAGAATACACG 60.499 44.000 0.00 0.00 0.00 4.49
564 571 2.684001 AATCACCCGCGAAACAGATA 57.316 45.000 8.23 0.00 0.00 1.98
584 591 5.126067 CACAGGACGGAAGGAAATAATCAT 58.874 41.667 0.00 0.00 0.00 2.45
602 609 9.003658 ACTCTCATTATTAAAACTGAACACAGG 57.996 33.333 0.00 0.00 36.12 4.00
620 627 6.749036 ATTCCCTTCCGTAATACTCTCATT 57.251 37.500 0.00 0.00 0.00 2.57
727 734 4.697756 TTCGCAGGACGGGGCTTG 62.698 66.667 0.00 0.00 43.89 4.01
728 735 4.394712 CTTCGCAGGACGGGGCTT 62.395 66.667 0.00 0.00 43.89 4.35
737 744 2.047274 TCGGCTTTCCTTCGCAGG 60.047 61.111 0.00 0.00 42.50 4.85
738 745 1.079819 TCTCGGCTTTCCTTCGCAG 60.080 57.895 0.00 0.00 0.00 5.18
739 746 1.079819 CTCTCGGCTTTCCTTCGCA 60.080 57.895 0.00 0.00 0.00 5.10
740 747 2.456948 GCTCTCGGCTTTCCTTCGC 61.457 63.158 0.00 0.00 38.06 4.70
741 748 1.811679 GGCTCTCGGCTTTCCTTCG 60.812 63.158 0.00 0.00 41.46 3.79
742 749 0.742635 CTGGCTCTCGGCTTTCCTTC 60.743 60.000 0.00 0.00 41.46 3.46
743 750 1.298014 CTGGCTCTCGGCTTTCCTT 59.702 57.895 0.00 0.00 41.46 3.36
744 751 2.985456 CTGGCTCTCGGCTTTCCT 59.015 61.111 0.00 0.00 41.46 3.36
745 752 2.821810 GCTGGCTCTCGGCTTTCC 60.822 66.667 0.00 0.00 44.20 3.13
751 758 2.492449 TTTCGTCTGCTGGCTCTCGG 62.492 60.000 0.00 0.00 0.00 4.63
752 759 0.667487 TTTTCGTCTGCTGGCTCTCG 60.667 55.000 0.00 0.00 0.00 4.04
753 760 1.512926 TTTTTCGTCTGCTGGCTCTC 58.487 50.000 0.00 0.00 0.00 3.20
754 761 3.706055 TTTTTCGTCTGCTGGCTCT 57.294 47.368 0.00 0.00 0.00 4.09
770 777 3.927758 CCGACCCGTTTTCTTTTGTTTTT 59.072 39.130 0.00 0.00 0.00 1.94
771 778 3.056678 ACCGACCCGTTTTCTTTTGTTTT 60.057 39.130 0.00 0.00 0.00 2.43
772 779 2.492881 ACCGACCCGTTTTCTTTTGTTT 59.507 40.909 0.00 0.00 0.00 2.83
773 780 2.093890 ACCGACCCGTTTTCTTTTGTT 58.906 42.857 0.00 0.00 0.00 2.83
774 781 1.672363 GACCGACCCGTTTTCTTTTGT 59.328 47.619 0.00 0.00 0.00 2.83
775 782 1.002142 GGACCGACCCGTTTTCTTTTG 60.002 52.381 0.00 0.00 0.00 2.44
776 783 1.311859 GGACCGACCCGTTTTCTTTT 58.688 50.000 0.00 0.00 0.00 2.27
777 784 0.180878 TGGACCGACCCGTTTTCTTT 59.819 50.000 0.00 0.00 38.00 2.52
778 785 0.250166 CTGGACCGACCCGTTTTCTT 60.250 55.000 0.00 0.00 38.00 2.52
779 786 1.370064 CTGGACCGACCCGTTTTCT 59.630 57.895 0.00 0.00 38.00 2.52
780 787 0.318120 TACTGGACCGACCCGTTTTC 59.682 55.000 1.90 0.00 37.32 2.29
781 788 0.758123 TTACTGGACCGACCCGTTTT 59.242 50.000 1.90 0.00 37.32 2.43
782 789 0.758123 TTTACTGGACCGACCCGTTT 59.242 50.000 1.90 0.00 37.32 3.60
783 790 0.033920 GTTTACTGGACCGACCCGTT 59.966 55.000 1.90 0.00 37.32 4.44
784 791 0.829182 AGTTTACTGGACCGACCCGT 60.829 55.000 0.00 0.00 39.38 5.28
785 792 1.135286 GTAGTTTACTGGACCGACCCG 60.135 57.143 0.00 0.00 38.00 5.28
786 793 1.895131 TGTAGTTTACTGGACCGACCC 59.105 52.381 0.00 0.00 38.00 4.46
787 794 2.669391 CGTGTAGTTTACTGGACCGACC 60.669 54.545 0.00 0.00 39.54 4.79
788 795 2.226437 TCGTGTAGTTTACTGGACCGAC 59.774 50.000 0.00 0.00 0.00 4.79
789 796 2.485426 CTCGTGTAGTTTACTGGACCGA 59.515 50.000 0.00 0.00 0.00 4.69
790 797 2.415090 CCTCGTGTAGTTTACTGGACCG 60.415 54.545 0.00 0.00 0.00 4.79
791 798 2.094338 CCCTCGTGTAGTTTACTGGACC 60.094 54.545 0.00 0.00 0.00 4.46
792 799 2.560105 ACCCTCGTGTAGTTTACTGGAC 59.440 50.000 0.00 0.00 0.00 4.02
793 800 2.880443 ACCCTCGTGTAGTTTACTGGA 58.120 47.619 0.00 0.00 0.00 3.86
794 801 4.789012 TTACCCTCGTGTAGTTTACTGG 57.211 45.455 0.00 0.00 0.00 4.00
795 802 5.406477 GGTTTTACCCTCGTGTAGTTTACTG 59.594 44.000 0.00 0.00 30.04 2.74
796 803 5.305386 AGGTTTTACCCTCGTGTAGTTTACT 59.695 40.000 0.00 0.00 39.75 2.24
797 804 5.541845 AGGTTTTACCCTCGTGTAGTTTAC 58.458 41.667 0.00 0.00 39.75 2.01
798 805 5.806654 AGGTTTTACCCTCGTGTAGTTTA 57.193 39.130 0.00 0.00 39.75 2.01
799 806 4.694760 AGGTTTTACCCTCGTGTAGTTT 57.305 40.909 0.00 0.00 39.75 2.66
800 807 4.694760 AAGGTTTTACCCTCGTGTAGTT 57.305 40.909 0.00 0.00 39.75 2.24
801 808 4.694760 AAAGGTTTTACCCTCGTGTAGT 57.305 40.909 0.00 0.00 39.75 2.73
823 830 6.602803 AGGTTTTACCCTCGTTTGTCTAAAAA 59.397 34.615 0.00 0.00 39.75 1.94
824 831 6.121590 AGGTTTTACCCTCGTTTGTCTAAAA 58.878 36.000 0.00 0.00 39.75 1.52
825 832 5.683681 AGGTTTTACCCTCGTTTGTCTAAA 58.316 37.500 0.00 0.00 39.75 1.85
826 833 5.294734 AGGTTTTACCCTCGTTTGTCTAA 57.705 39.130 0.00 0.00 39.75 2.10
827 834 4.961438 AGGTTTTACCCTCGTTTGTCTA 57.039 40.909 0.00 0.00 39.75 2.59
828 835 3.851458 AGGTTTTACCCTCGTTTGTCT 57.149 42.857 0.00 0.00 39.75 3.41
829 836 3.878699 TGAAGGTTTTACCCTCGTTTGTC 59.121 43.478 0.00 0.00 39.75 3.18
830 837 3.881089 CTGAAGGTTTTACCCTCGTTTGT 59.119 43.478 0.00 0.00 39.75 2.83
831 838 3.252458 CCTGAAGGTTTTACCCTCGTTTG 59.748 47.826 0.00 0.00 39.75 2.93
832 839 3.483421 CCTGAAGGTTTTACCCTCGTTT 58.517 45.455 0.00 0.00 39.75 3.60
833 840 2.812983 GCCTGAAGGTTTTACCCTCGTT 60.813 50.000 0.00 0.00 39.75 3.85
834 841 1.271217 GCCTGAAGGTTTTACCCTCGT 60.271 52.381 0.00 0.00 39.75 4.18
835 842 1.450025 GCCTGAAGGTTTTACCCTCG 58.550 55.000 0.00 0.00 39.75 4.63
889 896 1.155889 CGATGGGCGCAAATGCTATA 58.844 50.000 10.83 0.00 39.32 1.31
890 897 1.518056 CCGATGGGCGCAAATGCTAT 61.518 55.000 10.83 0.00 39.32 2.97
891 898 2.186160 CCGATGGGCGCAAATGCTA 61.186 57.895 10.83 0.00 39.32 3.49
903 910 4.227134 CCGACAGGAGGCCGATGG 62.227 72.222 0.00 0.00 41.02 3.51
908 915 1.043673 AGACATACCGACAGGAGGCC 61.044 60.000 0.00 0.00 41.02 5.19
966 973 3.189606 TGAAAGATGGGTGGAGGTGTAT 58.810 45.455 0.00 0.00 0.00 2.29
973 982 2.882137 GTTTCGTTGAAAGATGGGTGGA 59.118 45.455 0.00 0.00 31.87 4.02
976 985 2.158519 AGGGTTTCGTTGAAAGATGGGT 60.159 45.455 0.00 0.00 31.87 4.51
986 995 2.225727 GGTCTTTGCTAGGGTTTCGTTG 59.774 50.000 0.00 0.00 0.00 4.10
987 996 2.501261 GGTCTTTGCTAGGGTTTCGTT 58.499 47.619 0.00 0.00 0.00 3.85
988 997 1.607251 CGGTCTTTGCTAGGGTTTCGT 60.607 52.381 0.00 0.00 0.00 3.85
1029 1039 2.229062 CGCCCTTCTTTCTTTTCCTTCC 59.771 50.000 0.00 0.00 0.00 3.46
1030 1040 3.058155 GTCGCCCTTCTTTCTTTTCCTTC 60.058 47.826 0.00 0.00 0.00 3.46
1209 1251 0.251634 CCTGACCTCTCTTCTTGGCC 59.748 60.000 0.00 0.00 0.00 5.36
1215 1257 0.390472 CCGCAACCTGACCTCTCTTC 60.390 60.000 0.00 0.00 0.00 2.87
1407 1458 1.807573 CTCGGCTTTCAGCTCCGTC 60.808 63.158 10.26 0.00 41.99 4.79
1442 1493 2.210961 CCTCGTCACTGCTATAGTCGA 58.789 52.381 0.84 2.77 37.60 4.20
1812 1866 3.845781 ATTATTGGTGGCGTCTCATCT 57.154 42.857 0.00 0.00 0.00 2.90
2043 2097 2.095532 CGTCTCTGTGAAGGTACCGTAG 59.904 54.545 6.18 0.00 0.00 3.51
2369 2449 3.410631 TTGGCAGTTATTCCTTCGACA 57.589 42.857 0.00 0.00 0.00 4.35
2421 2502 6.263392 GGACCAGGAAAGATAAAATAGGAAGC 59.737 42.308 0.00 0.00 0.00 3.86
2463 2544 8.124823 ACAAGATGTGTATTTCTAAATGCATCG 58.875 33.333 0.00 0.00 41.75 3.84
2607 2689 0.944311 CCACACGAACAGGTTCCTCG 60.944 60.000 6.59 0.00 36.27 4.63
2621 2703 4.036734 TCACTTTGAGCTTGATTTCCACAC 59.963 41.667 0.00 0.00 0.00 3.82
2655 2737 6.709397 TCATCAATGCAATATCTTCAGACTCC 59.291 38.462 0.00 0.00 0.00 3.85
2959 3047 5.445964 ACCCTTTGAACAACTAGTCATTGT 58.554 37.500 0.00 0.00 42.07 2.71
3156 3244 0.391263 CTAGACGGGACCAAGCAACC 60.391 60.000 0.00 0.00 0.00 3.77
3490 3613 0.813184 TAGGGCAGAACTCCGTTACG 59.187 55.000 0.00 0.00 0.00 3.18
3503 3627 3.118186 ACATTACAACGGCTAATAGGGCA 60.118 43.478 0.00 0.00 0.00 5.36
3504 3628 3.473625 ACATTACAACGGCTAATAGGGC 58.526 45.455 0.00 0.00 0.00 5.19
3616 4272 1.927174 CGGAACAAATGCGGACTAGAG 59.073 52.381 0.00 0.00 39.48 2.43
3617 4273 2.004583 CGGAACAAATGCGGACTAGA 57.995 50.000 0.00 0.00 39.48 2.43
3694 4679 1.003718 CACGACCACCCTTTCTCCC 60.004 63.158 0.00 0.00 0.00 4.30
3777 4932 3.120199 TCGGTACTTAACGGACTCTTTCG 60.120 47.826 0.00 0.00 32.91 3.46
4063 6349 3.181451 TGGCCAGTTTGCTCCTCATATAG 60.181 47.826 0.00 0.00 0.00 1.31
4148 6445 5.270083 TGTGATTCTGTTGCAAAACTAACG 58.730 37.500 0.00 0.00 0.00 3.18
4256 6559 5.722172 TTCCTTCCATCATTCAATCCTCT 57.278 39.130 0.00 0.00 0.00 3.69
4257 6560 6.379417 ACTTTTCCTTCCATCATTCAATCCTC 59.621 38.462 0.00 0.00 0.00 3.71
4258 6561 6.259123 ACTTTTCCTTCCATCATTCAATCCT 58.741 36.000 0.00 0.00 0.00 3.24
4260 6563 8.743714 AGTAACTTTTCCTTCCATCATTCAATC 58.256 33.333 0.00 0.00 0.00 2.67
4261 6564 8.655935 AGTAACTTTTCCTTCCATCATTCAAT 57.344 30.769 0.00 0.00 0.00 2.57
4263 6566 7.610305 GGTAGTAACTTTTCCTTCCATCATTCA 59.390 37.037 0.00 0.00 0.00 2.57
4264 6567 7.201617 CGGTAGTAACTTTTCCTTCCATCATTC 60.202 40.741 0.00 0.00 0.00 2.67
4267 6570 5.246656 TCGGTAGTAACTTTTCCTTCCATCA 59.753 40.000 0.00 0.00 0.00 3.07
4307 6610 0.099436 GCAACCGCCTTTATGAGCAG 59.901 55.000 0.00 0.00 0.00 4.24
4404 6707 0.176680 CTGACTCCACTAATGCCGCT 59.823 55.000 0.00 0.00 0.00 5.52
4409 6712 7.615582 TTTTATCTTGCTGACTCCACTAATG 57.384 36.000 0.00 0.00 0.00 1.90
4413 6716 5.809001 TCATTTTATCTTGCTGACTCCACT 58.191 37.500 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.