Multiple sequence alignment - TraesCS7D01G315800

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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 TraesCS7D01G315800 chr7D 100.000 3844 0 0 1 3844 401833235 401837078 0.000000e+00 7099.0
1 TraesCS7D01G315800 chr7D 85.347 505 27 16 1677 2161 37621760 37622237 2.690000e-131 479.0
2 TraesCS7D01G315800 chr7D 87.160 257 11 9 1905 2161 599757152 599756918 4.890000e-69 272.0
3 TraesCS7D01G315800 chr7A 94.749 2952 67 20 970 3844 459623647 459626587 0.000000e+00 4512.0
4 TraesCS7D01G315800 chr7A 84.356 505 32 19 1677 2161 378494669 378495146 5.860000e-123 451.0
5 TraesCS7D01G315800 chr7A 86.486 259 13 7 1905 2161 494864082 494864320 8.190000e-67 265.0
6 TraesCS7D01G315800 chr7A 97.581 124 2 1 855 977 459623489 459623612 1.080000e-50 211.0
7 TraesCS7D01G315800 chr7B 94.264 2580 70 15 855 3368 411490729 411493296 0.000000e+00 3873.0
8 TraesCS7D01G315800 chr7B 96.364 440 14 1 3405 3844 411493296 411493733 0.000000e+00 723.0
9 TraesCS7D01G315800 chr7B 88.048 251 23 5 1150 1399 738788074 738787830 1.350000e-74 291.0
10 TraesCS7D01G315800 chr7B 95.588 136 6 0 1911 2046 660929853 660929988 6.470000e-53 219.0
11 TraesCS7D01G315800 chr7B 85.000 140 6 5 1486 1625 728163527 728163651 1.120000e-25 128.0
12 TraesCS7D01G315800 chr2B 85.714 770 49 20 1411 2161 12856886 12856159 0.000000e+00 756.0
13 TraesCS7D01G315800 chr6A 82.456 798 123 14 4 789 531378113 531377321 0.000000e+00 682.0
14 TraesCS7D01G315800 chr6A 84.521 407 24 11 1774 2161 584151665 584151279 2.180000e-97 366.0
15 TraesCS7D01G315800 chr6A 87.891 256 11 8 1906 2161 217043834 217043599 2.260000e-72 283.0
16 TraesCS7D01G315800 chr1D 88.327 257 10 8 1905 2161 479642938 479643174 1.350000e-74 291.0
17 TraesCS7D01G315800 chr1D 86.381 257 15 8 1905 2161 494243790 494243554 2.950000e-66 263.0
18 TraesCS7D01G315800 chr1D 88.542 192 6 5 1486 1677 79840469 79840294 6.470000e-53 219.0
19 TraesCS7D01G315800 chr1D 88.144 194 7 3 1486 1679 41783212 41783389 2.330000e-52 217.0
20 TraesCS7D01G315800 chr1D 100.000 32 0 0 1315 1346 20517632 20517601 4.150000e-05 60.2
21 TraesCS7D01G315800 chr6D 87.209 258 13 8 1904 2161 47308860 47309097 3.780000e-70 276.0
22 TraesCS7D01G315800 chr6D 89.503 181 4 1 1499 1679 42385173 42385008 8.360000e-52 215.0
23 TraesCS7D01G315800 chr6D 87.629 194 8 3 1486 1679 396278689 396278866 1.080000e-50 211.0
24 TraesCS7D01G315800 chr5D 86.381 257 15 6 1905 2161 405998519 405998755 2.950000e-66 263.0
25 TraesCS7D01G315800 chr5D 89.175 194 5 3 1486 1679 366924977 366925154 1.070000e-55 228.0
26 TraesCS7D01G315800 chr5D 88.660 194 6 3 1486 1679 28572604 28572781 5.000000e-54 222.0
27 TraesCS7D01G315800 chr6B 88.152 211 15 3 1411 1621 87325068 87325268 3.840000e-60 243.0
28 TraesCS7D01G315800 chrUn 88.660 194 6 3 1486 1679 154748864 154749041 5.000000e-54 222.0
29 TraesCS7D01G315800 chrUn 95.489 133 6 0 1914 2046 407817155 407817023 3.010000e-51 213.0
30 TraesCS7D01G315800 chr5A 85.714 168 9 4 1486 1653 502848505 502848657 3.070000e-36 163.0


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 TraesCS7D01G315800 chr7D 401833235 401837078 3843 False 7099.0 7099 100.000 1 3844 1 chr7D.!!$F2 3843
1 TraesCS7D01G315800 chr7A 459623489 459626587 3098 False 2361.5 4512 96.165 855 3844 2 chr7A.!!$F3 2989
2 TraesCS7D01G315800 chr7B 411490729 411493733 3004 False 2298.0 3873 95.314 855 3844 2 chr7B.!!$F3 2989
3 TraesCS7D01G315800 chr2B 12856159 12856886 727 True 756.0 756 85.714 1411 2161 1 chr2B.!!$R1 750
4 TraesCS7D01G315800 chr6A 531377321 531378113 792 True 682.0 682 82.456 4 789 1 chr6A.!!$R2 785

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
47 48 0.034896 GAGGGGTGAAGCGAGTCAAA 59.965 55.0 0.0 0.0 0.00 2.69 F
312 313 0.038166 GCCAAGGACCTCCATGAACA 59.962 55.0 0.0 0.0 36.89 3.18 F
1475 1535 0.104487 CTGTGGCTGATCGAGATGCT 59.896 55.0 0.0 0.0 0.00 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1475 1535 1.451207 CACGGATCAATTCCCCGCA 60.451 57.895 8.97 0.0 46.54 5.69 R
1720 1780 2.699846 TGCTGCCTTTTGGAATTGAGTT 59.300 40.909 0.00 0.0 44.07 3.01 R
2993 3119 2.225142 ACTTGCAGTAGGAGAGACCAGA 60.225 50.000 0.00 0.0 42.04 3.86 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
22 23 1.675641 GTGTGCCCTCATCCACCAC 60.676 63.158 0.00 0.00 0.00 4.16
32 33 0.178068 CATCCACCACCGTAAGAGGG 59.822 60.000 0.00 0.00 43.02 4.30
44 45 1.135053 GTAAGAGGGGTGAAGCGAGTC 60.135 57.143 0.00 0.00 0.00 3.36
47 48 0.034896 GAGGGGTGAAGCGAGTCAAA 59.965 55.000 0.00 0.00 0.00 2.69
53 54 2.357952 GGTGAAGCGAGTCAAAGGTTTT 59.642 45.455 0.00 0.00 0.00 2.43
62 63 4.261031 CGAGTCAAAGGTTTTGTGGTAAGG 60.261 45.833 1.92 0.00 0.00 2.69
68 69 2.158519 AGGTTTTGTGGTAAGGACCCTG 60.159 50.000 0.00 0.00 46.32 4.45
71 72 1.785353 TTGTGGTAAGGACCCTGGCC 61.785 60.000 0.00 0.00 46.32 5.36
73 74 3.793888 GGTAAGGACCCTGGCCCG 61.794 72.222 0.00 0.00 40.23 6.13
77 78 4.974438 AGGACCCTGGCCCGAACA 62.974 66.667 0.00 0.00 0.00 3.18
95 96 1.743958 ACACGAACATAGTCTCCCTCG 59.256 52.381 0.00 0.00 0.00 4.63
101 102 4.813161 CGAACATAGTCTCCCTCGTAGTAA 59.187 45.833 0.00 0.00 0.00 2.24
113 114 1.176527 CGTAGTAAAGGGTGGGTCGA 58.823 55.000 0.00 0.00 0.00 4.20
115 116 2.416431 CGTAGTAAAGGGTGGGTCGAAG 60.416 54.545 0.00 0.00 0.00 3.79
140 141 6.687081 TGAACTTCACGAACTTTACCAATT 57.313 33.333 0.00 0.00 0.00 2.32
143 144 7.711772 TGAACTTCACGAACTTTACCAATTCTA 59.288 33.333 0.00 0.00 0.00 2.10
146 147 5.771469 TCACGAACTTTACCAATTCTACGA 58.229 37.500 0.00 0.00 0.00 3.43
158 159 4.022416 CCAATTCTACGAGCTAGCTGATCT 60.022 45.833 24.99 0.00 0.00 2.75
164 165 1.950216 CGAGCTAGCTGATCTACCACA 59.050 52.381 24.99 0.00 0.00 4.17
165 166 2.359214 CGAGCTAGCTGATCTACCACAA 59.641 50.000 24.99 0.00 0.00 3.33
169 170 4.116238 GCTAGCTGATCTACCACAAGTTC 58.884 47.826 7.70 0.00 0.00 3.01
170 171 4.142049 GCTAGCTGATCTACCACAAGTTCT 60.142 45.833 7.70 0.00 0.00 3.01
173 174 4.284490 AGCTGATCTACCACAAGTTCTTGA 59.716 41.667 17.75 0.00 0.00 3.02
182 183 4.514066 ACCACAAGTTCTTGACGATAAACC 59.486 41.667 17.75 0.00 0.00 3.27
185 186 5.696724 CACAAGTTCTTGACGATAAACCTCT 59.303 40.000 17.75 0.00 0.00 3.69
197 198 4.141937 CGATAAACCTCTGGGATCTTGTGA 60.142 45.833 0.00 0.00 36.25 3.58
209 210 1.631405 TCTTGTGAATTTGGGCCCAG 58.369 50.000 26.87 10.30 0.00 4.45
224 225 1.133976 GCCCAGACATACAAGCCATCT 60.134 52.381 0.00 0.00 0.00 2.90
226 227 3.805108 GCCCAGACATACAAGCCATCTAG 60.805 52.174 0.00 0.00 0.00 2.43
228 229 3.055591 CAGACATACAAGCCATCTAGCG 58.944 50.000 0.00 0.00 38.01 4.26
236 237 2.590007 CCATCTAGCGCCACTGCC 60.590 66.667 2.29 0.00 34.65 4.85
246 247 2.373707 GCCACTGCCTCAGGATCCT 61.374 63.158 9.02 9.02 35.51 3.24
255 256 0.907486 CTCAGGATCCTGTCTTGCCA 59.093 55.000 35.34 17.45 43.96 4.92
258 259 0.467384 AGGATCCTGTCTTGCCATCG 59.533 55.000 15.29 0.00 0.00 3.84
267 268 2.766263 TGTCTTGCCATCGTAATCCTCT 59.234 45.455 0.00 0.00 0.00 3.69
282 283 7.038231 TCGTAATCCTCTATGATCACTCCTAGA 60.038 40.741 0.00 0.20 30.71 2.43
300 301 1.151810 ACCCCTGAAGAGCCAAGGA 60.152 57.895 0.00 0.00 0.00 3.36
306 307 0.473694 TGAAGAGCCAAGGACCTCCA 60.474 55.000 0.00 0.00 38.89 3.86
309 310 0.252881 AGAGCCAAGGACCTCCATGA 60.253 55.000 0.00 0.00 36.89 3.07
312 313 0.038166 GCCAAGGACCTCCATGAACA 59.962 55.000 0.00 0.00 36.89 3.18
324 325 2.445145 TCCATGAACAACCTTCCTCCAA 59.555 45.455 0.00 0.00 0.00 3.53
327 328 4.338879 CATGAACAACCTTCCTCCAATCT 58.661 43.478 0.00 0.00 0.00 2.40
333 334 3.053359 ACCTTCCTCCAATCTCCTAGG 57.947 52.381 0.82 0.82 0.00 3.02
351 352 4.337555 CCTAGGCAGAAAAGTTGGATGATG 59.662 45.833 0.00 0.00 0.00 3.07
354 355 4.219288 AGGCAGAAAAGTTGGATGATGAAC 59.781 41.667 0.00 0.00 0.00 3.18
365 369 6.376581 AGTTGGATGATGAACAGATTTTCTCC 59.623 38.462 0.00 0.00 0.00 3.71
366 370 4.877823 TGGATGATGAACAGATTTTCTCCG 59.122 41.667 0.00 0.00 0.00 4.63
386 390 2.049433 CTCACGGAACTTCGGCGT 60.049 61.111 6.85 0.00 0.00 5.68
393 397 1.228657 GGAACTTCGGCGTTTGAGCT 61.229 55.000 6.85 0.00 37.29 4.09
395 399 1.390463 GAACTTCGGCGTTTGAGCTAG 59.610 52.381 6.85 0.00 37.29 3.42
396 400 1.014564 ACTTCGGCGTTTGAGCTAGC 61.015 55.000 6.62 6.62 37.29 3.42
417 421 3.571401 GCCCCCAGATGAACTTCATATTG 59.429 47.826 4.16 6.53 37.20 1.90
421 425 5.530171 CCCCAGATGAACTTCATATTGTCAG 59.470 44.000 4.16 0.00 37.20 3.51
423 427 6.825213 CCCAGATGAACTTCATATTGTCAGAA 59.175 38.462 4.16 0.00 37.20 3.02
427 431 8.446273 AGATGAACTTCATATTGTCAGAAAACG 58.554 33.333 4.16 0.00 37.20 3.60
429 433 6.204688 TGAACTTCATATTGTCAGAAAACGCT 59.795 34.615 0.00 0.00 0.00 5.07
438 442 1.939934 TCAGAAAACGCTGTGGAACTG 59.060 47.619 0.00 0.00 38.04 3.16
441 445 3.003689 CAGAAAACGCTGTGGAACTGAAT 59.996 43.478 0.00 0.00 38.12 2.57
443 447 1.238439 AACGCTGTGGAACTGAATGG 58.762 50.000 0.00 0.00 38.12 3.16
447 451 1.808945 GCTGTGGAACTGAATGGTCTG 59.191 52.381 0.00 0.00 38.12 3.51
453 457 2.069273 GAACTGAATGGTCTGTCCGTG 58.931 52.381 0.00 0.00 39.52 4.94
456 460 2.631062 ACTGAATGGTCTGTCCGTGTTA 59.369 45.455 0.00 0.00 39.52 2.41
495 499 1.379044 CCTGGCCTCCGCTTTGAAT 60.379 57.895 3.32 0.00 34.44 2.57
500 504 1.135286 GGCCTCCGCTTTGAATTTCTG 60.135 52.381 0.00 0.00 34.44 3.02
501 505 1.541588 GCCTCCGCTTTGAATTTCTGT 59.458 47.619 0.00 0.00 0.00 3.41
504 508 2.227388 CTCCGCTTTGAATTTCTGTGCT 59.773 45.455 0.00 0.00 0.00 4.40
513 517 4.074970 TGAATTTCTGTGCTTCCTCCTTC 58.925 43.478 0.00 0.00 0.00 3.46
522 526 0.466124 CTTCCTCCTTCCCGATGACC 59.534 60.000 0.00 0.00 0.00 4.02
525 529 1.264749 CCTCCTTCCCGATGACCACA 61.265 60.000 0.00 0.00 0.00 4.17
549 553 5.423015 TCATCTAGTTCCTCATCAAGCAAC 58.577 41.667 0.00 0.00 0.00 4.17
558 562 3.128242 CCTCATCAAGCAACTCCATGTTC 59.872 47.826 0.00 0.00 36.63 3.18
563 567 3.817084 TCAAGCAACTCCATGTTCTTCAG 59.183 43.478 0.00 0.00 36.63 3.02
566 570 2.490903 GCAACTCCATGTTCTTCAGCAT 59.509 45.455 0.00 0.00 36.63 3.79
567 571 3.427233 GCAACTCCATGTTCTTCAGCATC 60.427 47.826 0.00 0.00 36.63 3.91
570 574 1.918262 TCCATGTTCTTCAGCATCCCT 59.082 47.619 0.00 0.00 0.00 4.20
576 580 0.914644 TCTTCAGCATCCCTTCCAGG 59.085 55.000 0.00 0.00 34.30 4.45
581 585 0.329596 AGCATCCCTTCCAGGTCAAC 59.670 55.000 0.00 0.00 31.93 3.18
591 595 0.393537 CCAGGTCAACCTCATCTGCC 60.394 60.000 0.00 0.00 46.65 4.85
598 602 1.690219 AACCTCATCTGCCCCGCTAG 61.690 60.000 0.00 0.00 0.00 3.42
612 616 3.692998 GCTAGATCGCGATGAGGAG 57.307 57.895 29.09 17.54 0.00 3.69
632 636 2.765807 CCTCTCCCTCGCCATGGT 60.766 66.667 14.67 0.00 0.00 3.55
654 664 2.602267 TCGGGTTCGGGCTGAGAA 60.602 61.111 0.00 0.00 36.95 2.87
657 667 1.674651 GGGTTCGGGCTGAGAAACC 60.675 63.158 7.07 7.07 46.64 3.27
659 669 1.674651 GTTCGGGCTGAGAAACCCC 60.675 63.158 0.00 0.00 43.86 4.95
660 670 2.902457 TTCGGGCTGAGAAACCCCC 61.902 63.158 0.00 0.00 43.86 5.40
661 671 3.646715 CGGGCTGAGAAACCCCCA 61.647 66.667 0.00 0.00 43.86 4.96
662 672 2.035783 GGGCTGAGAAACCCCCAC 59.964 66.667 0.00 0.00 40.56 4.61
664 674 2.359975 GCTGAGAAACCCCCACGG 60.360 66.667 0.00 0.00 37.81 4.94
673 683 1.454539 ACCCCCACGGTCTTCAAAG 59.545 57.895 0.00 0.00 43.58 2.77
674 684 1.057851 ACCCCCACGGTCTTCAAAGA 61.058 55.000 0.00 0.00 43.58 2.52
677 687 1.235724 CCCACGGTCTTCAAAGAACC 58.764 55.000 2.31 2.67 39.62 3.62
680 690 1.137697 ACGGTCTTCAAAGAACCCCT 58.862 50.000 2.31 0.00 39.62 4.79
717 727 2.673074 CGCGGTTCGGTAATGATGT 58.327 52.632 0.00 0.00 33.78 3.06
725 735 3.349488 TCGGTAATGATGTCTACAGCG 57.651 47.619 0.00 0.00 34.49 5.18
726 736 2.686405 TCGGTAATGATGTCTACAGCGT 59.314 45.455 0.00 0.00 34.49 5.07
727 737 3.129813 TCGGTAATGATGTCTACAGCGTT 59.870 43.478 10.34 10.34 43.09 4.84
797 808 6.787225 CCTAATCGAGAGGGTAATCTAATCG 58.213 44.000 8.07 0.00 0.00 3.34
798 809 6.598457 CCTAATCGAGAGGGTAATCTAATCGA 59.402 42.308 8.07 0.00 38.52 3.59
799 810 6.503589 AATCGAGAGGGTAATCTAATCGAG 57.496 41.667 0.00 0.00 37.99 4.04
800 811 5.224821 TCGAGAGGGTAATCTAATCGAGA 57.775 43.478 0.00 0.00 39.01 4.04
801 812 5.239351 TCGAGAGGGTAATCTAATCGAGAG 58.761 45.833 0.00 0.00 37.70 3.20
802 813 4.393680 CGAGAGGGTAATCTAATCGAGAGG 59.606 50.000 0.00 0.00 37.70 3.69
803 814 4.668636 AGAGGGTAATCTAATCGAGAGGG 58.331 47.826 0.00 0.00 37.70 4.30
804 815 4.106663 AGAGGGTAATCTAATCGAGAGGGT 59.893 45.833 0.00 0.00 37.70 4.34
805 816 5.312708 AGAGGGTAATCTAATCGAGAGGGTA 59.687 44.000 0.00 0.00 37.70 3.69
806 817 6.011451 AGAGGGTAATCTAATCGAGAGGGTAT 60.011 42.308 0.00 0.00 37.70 2.73
807 818 7.184204 AGAGGGTAATCTAATCGAGAGGGTATA 59.816 40.741 0.00 0.00 37.70 1.47
808 819 7.706674 AGGGTAATCTAATCGAGAGGGTATAA 58.293 38.462 0.00 0.00 37.70 0.98
809 820 7.614974 AGGGTAATCTAATCGAGAGGGTATAAC 59.385 40.741 0.00 0.00 37.70 1.89
810 821 7.395489 GGGTAATCTAATCGAGAGGGTATAACA 59.605 40.741 0.00 0.00 37.70 2.41
811 822 8.460428 GGTAATCTAATCGAGAGGGTATAACAG 58.540 40.741 0.00 0.00 37.70 3.16
812 823 5.961396 TCTAATCGAGAGGGTATAACAGC 57.039 43.478 0.00 0.00 0.00 4.40
813 824 5.632118 TCTAATCGAGAGGGTATAACAGCT 58.368 41.667 0.00 0.00 0.00 4.24
814 825 4.857509 AATCGAGAGGGTATAACAGCTC 57.142 45.455 0.00 0.00 0.00 4.09
815 826 3.579534 TCGAGAGGGTATAACAGCTCT 57.420 47.619 7.32 2.68 0.00 4.09
816 827 3.478509 TCGAGAGGGTATAACAGCTCTC 58.521 50.000 11.91 11.91 35.37 3.20
817 828 3.118000 TCGAGAGGGTATAACAGCTCTCA 60.118 47.826 18.54 7.83 37.70 3.27
818 829 3.632604 CGAGAGGGTATAACAGCTCTCAA 59.367 47.826 18.54 0.00 37.70 3.02
819 830 4.098044 CGAGAGGGTATAACAGCTCTCAAA 59.902 45.833 18.54 0.00 37.70 2.69
820 831 5.221342 CGAGAGGGTATAACAGCTCTCAAAT 60.221 44.000 18.54 0.00 37.70 2.32
821 832 6.016192 CGAGAGGGTATAACAGCTCTCAAATA 60.016 42.308 18.54 0.00 37.70 1.40
822 833 7.470147 CGAGAGGGTATAACAGCTCTCAAATAA 60.470 40.741 18.54 0.00 37.70 1.40
823 834 7.731054 AGAGGGTATAACAGCTCTCAAATAAG 58.269 38.462 0.00 0.00 0.00 1.73
824 835 7.565398 AGAGGGTATAACAGCTCTCAAATAAGA 59.435 37.037 0.00 0.00 0.00 2.10
825 836 7.501844 AGGGTATAACAGCTCTCAAATAAGAC 58.498 38.462 0.00 0.00 0.00 3.01
826 837 6.706716 GGGTATAACAGCTCTCAAATAAGACC 59.293 42.308 0.00 0.00 0.00 3.85
827 838 6.706716 GGTATAACAGCTCTCAAATAAGACCC 59.293 42.308 0.00 0.00 0.00 4.46
828 839 4.640771 AACAGCTCTCAAATAAGACCCA 57.359 40.909 0.00 0.00 0.00 4.51
829 840 3.944087 ACAGCTCTCAAATAAGACCCAC 58.056 45.455 0.00 0.00 0.00 4.61
830 841 3.584848 ACAGCTCTCAAATAAGACCCACT 59.415 43.478 0.00 0.00 0.00 4.00
831 842 4.187694 CAGCTCTCAAATAAGACCCACTC 58.812 47.826 0.00 0.00 0.00 3.51
832 843 3.198853 AGCTCTCAAATAAGACCCACTCC 59.801 47.826 0.00 0.00 0.00 3.85
833 844 3.055094 GCTCTCAAATAAGACCCACTCCA 60.055 47.826 0.00 0.00 0.00 3.86
834 845 4.764172 CTCTCAAATAAGACCCACTCCAG 58.236 47.826 0.00 0.00 0.00 3.86
835 846 4.425772 TCTCAAATAAGACCCACTCCAGA 58.574 43.478 0.00 0.00 0.00 3.86
836 847 4.223032 TCTCAAATAAGACCCACTCCAGAC 59.777 45.833 0.00 0.00 0.00 3.51
837 848 3.056107 TCAAATAAGACCCACTCCAGACG 60.056 47.826 0.00 0.00 0.00 4.18
838 849 1.486211 ATAAGACCCACTCCAGACGG 58.514 55.000 0.00 0.00 0.00 4.79
839 850 0.613853 TAAGACCCACTCCAGACGGG 60.614 60.000 0.00 0.00 46.22 5.28
842 853 3.760035 CCCACTCCAGACGGGTCG 61.760 72.222 0.00 0.00 38.11 4.79
843 854 2.989824 CCACTCCAGACGGGTCGT 60.990 66.667 0.00 0.00 45.10 4.34
844 855 1.676635 CCACTCCAGACGGGTCGTA 60.677 63.158 0.00 0.00 41.37 3.43
845 856 1.654954 CCACTCCAGACGGGTCGTAG 61.655 65.000 0.00 0.00 41.37 3.51
846 857 0.675837 CACTCCAGACGGGTCGTAGA 60.676 60.000 0.00 0.00 41.37 2.59
847 858 0.255318 ACTCCAGACGGGTCGTAGAT 59.745 55.000 0.00 0.00 41.37 1.98
848 859 1.487976 ACTCCAGACGGGTCGTAGATA 59.512 52.381 0.00 0.00 41.37 1.98
849 860 2.106166 ACTCCAGACGGGTCGTAGATAT 59.894 50.000 0.00 0.00 41.37 1.63
850 861 3.147629 CTCCAGACGGGTCGTAGATATT 58.852 50.000 0.00 0.00 41.37 1.28
851 862 3.559069 TCCAGACGGGTCGTAGATATTT 58.441 45.455 0.00 0.00 41.37 1.40
852 863 3.567164 TCCAGACGGGTCGTAGATATTTC 59.433 47.826 0.00 0.00 41.37 2.17
853 864 3.305199 CCAGACGGGTCGTAGATATTTCC 60.305 52.174 0.00 0.00 41.37 3.13
951 963 1.609208 AGCCAGCCCATTTATTAGCG 58.391 50.000 0.00 0.00 0.00 4.26
994 1048 3.006967 CCAAGGAGAGAAACGAGAAAGGA 59.993 47.826 0.00 0.00 0.00 3.36
1268 1328 0.470341 GATCTTTCCCTTCCTCCCCG 59.530 60.000 0.00 0.00 0.00 5.73
1280 1340 2.754465 TCCTCCCCGCTCTAAATTACA 58.246 47.619 0.00 0.00 0.00 2.41
1475 1535 0.104487 CTGTGGCTGATCGAGATGCT 59.896 55.000 0.00 0.00 0.00 3.79
1548 1608 4.373116 GGGTTCGGAGCGCTCACA 62.373 66.667 36.27 20.61 0.00 3.58
1684 1744 4.099881 TGTTGCTTTCTTCTGGCTTCATTT 59.900 37.500 0.00 0.00 0.00 2.32
1695 1755 3.758023 CTGGCTTCATTTCACATACCACA 59.242 43.478 0.00 0.00 0.00 4.17
1720 1780 7.252612 TCCTTCTGTTTATCCTCATTGTGTA 57.747 36.000 0.00 0.00 0.00 2.90
1779 1839 1.545136 TGTATGCCATGCCACTTTGTG 59.455 47.619 0.00 0.00 0.00 3.33
1780 1840 1.545582 GTATGCCATGCCACTTTGTGT 59.454 47.619 0.00 0.00 0.00 3.72
1903 1963 9.002600 GCTGTGATTATGTGGTATTGATGATAA 57.997 33.333 0.00 0.00 0.00 1.75
2136 2229 0.890542 GTCATGGTCAAGTGGCTGCA 60.891 55.000 0.50 0.00 0.00 4.41
2171 2264 4.202080 GCCAATATCTCATTGAGCTTTGCA 60.202 41.667 8.89 0.00 0.00 4.08
2183 2276 7.874016 TCATTGAGCTTTGCATATTTCTGTTTT 59.126 29.630 0.00 0.00 0.00 2.43
2233 2326 6.591062 GTGATTGGCATTGTGATTGTAATTGT 59.409 34.615 0.00 0.00 0.00 2.71
2246 2339 8.668353 GTGATTGTAATTGTGTGACAGTATGAT 58.332 33.333 0.00 0.00 39.69 2.45
2555 2678 0.598065 ACTTCCGCTGCCAAACATTC 59.402 50.000 0.00 0.00 0.00 2.67
2793 2917 3.840666 TGGGTTGCTCTCAGTTTCTCTAT 59.159 43.478 0.00 0.00 0.00 1.98
3046 3173 8.219868 TGATTCCAATTGCATAGGAGAATTCTA 58.780 33.333 8.25 0.00 32.11 2.10
3228 3355 6.465084 ACCCTGAGTTTAATTAGACTGTGTC 58.535 40.000 13.04 0.63 0.00 3.67
3369 3498 1.798283 TTGCATGCCACATTTGCTTC 58.202 45.000 16.68 0.00 37.28 3.86
3382 3511 3.374220 TTTGCTTCATGAACCAAGCTG 57.626 42.857 16.07 2.11 44.59 4.24
3639 3770 3.097614 ACAGAGTAGTACCGGAGCAAAT 58.902 45.455 9.46 0.00 0.00 2.32
3645 3776 3.093717 AGTACCGGAGCAAATCATACG 57.906 47.619 9.46 0.00 0.00 3.06
3664 3795 7.640852 TCATACGTAAAGCAAGCTTTGTTAAA 58.359 30.769 25.64 6.58 44.84 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.995066 TGGATGAGGGCACACGGAT 60.995 57.895 0.00 0.00 0.00 4.18
1 2 2.606213 TGGATGAGGGCACACGGA 60.606 61.111 0.00 0.00 0.00 4.69
2 3 2.436646 GTGGATGAGGGCACACGG 60.437 66.667 0.00 0.00 0.00 4.94
14 15 0.981277 CCCCTCTTACGGTGGTGGAT 60.981 60.000 0.00 0.00 0.00 3.41
22 23 1.153628 CGCTTCACCCCTCTTACGG 60.154 63.158 0.00 0.00 0.00 4.02
32 33 1.594331 AACCTTTGACTCGCTTCACC 58.406 50.000 0.00 0.00 0.00 4.02
35 36 3.363178 CACAAAACCTTTGACTCGCTTC 58.637 45.455 6.15 0.00 0.00 3.86
38 39 1.404035 ACCACAAAACCTTTGACTCGC 59.596 47.619 6.15 0.00 0.00 5.03
44 45 4.316205 GGTCCTTACCACAAAACCTTTG 57.684 45.455 0.00 0.00 45.98 2.77
68 69 0.390735 ACTATGTTCGTGTTCGGGCC 60.391 55.000 0.00 0.00 37.69 5.80
71 72 2.527100 GGAGACTATGTTCGTGTTCGG 58.473 52.381 0.00 0.00 37.69 4.30
73 74 3.731264 CGAGGGAGACTATGTTCGTGTTC 60.731 52.174 0.00 0.00 0.00 3.18
77 78 2.125773 ACGAGGGAGACTATGTTCGT 57.874 50.000 0.00 0.00 36.57 3.85
95 96 2.676176 GCTTCGACCCACCCTTTACTAC 60.676 54.545 0.00 0.00 0.00 2.73
101 102 1.415672 TTCAGCTTCGACCCACCCTT 61.416 55.000 0.00 0.00 0.00 3.95
113 114 4.272748 GGTAAAGTTCGTGAAGTTCAGCTT 59.727 41.667 5.62 6.03 40.76 3.74
115 116 3.558418 TGGTAAAGTTCGTGAAGTTCAGC 59.442 43.478 5.62 0.76 33.15 4.26
128 129 5.811100 GCTAGCTCGTAGAATTGGTAAAGTT 59.189 40.000 7.70 0.00 34.09 2.66
140 141 3.071167 TGGTAGATCAGCTAGCTCGTAGA 59.929 47.826 16.15 9.79 45.60 2.59
143 144 1.950909 GTGGTAGATCAGCTAGCTCGT 59.049 52.381 16.15 6.13 45.60 4.18
146 147 3.370104 ACTTGTGGTAGATCAGCTAGCT 58.630 45.455 12.68 12.68 45.60 3.32
158 159 5.697633 GGTTTATCGTCAAGAACTTGTGGTA 59.302 40.000 13.15 6.48 41.16 3.25
164 165 5.238583 CCAGAGGTTTATCGTCAAGAACTT 58.761 41.667 0.00 0.00 33.88 2.66
165 166 4.322801 CCCAGAGGTTTATCGTCAAGAACT 60.323 45.833 0.00 0.00 33.88 3.01
169 170 3.887621 TCCCAGAGGTTTATCGTCAAG 57.112 47.619 0.00 0.00 33.88 3.02
170 171 4.030913 AGATCCCAGAGGTTTATCGTCAA 58.969 43.478 0.00 0.00 33.88 3.18
173 174 3.775316 ACAAGATCCCAGAGGTTTATCGT 59.225 43.478 0.00 0.00 0.00 3.73
182 183 3.698040 CCCAAATTCACAAGATCCCAGAG 59.302 47.826 0.00 0.00 0.00 3.35
185 186 2.178580 GCCCAAATTCACAAGATCCCA 58.821 47.619 0.00 0.00 0.00 4.37
197 198 2.917713 TGTATGTCTGGGCCCAAATT 57.082 45.000 28.29 13.46 0.00 1.82
209 210 1.795286 GCGCTAGATGGCTTGTATGTC 59.205 52.381 0.00 0.00 0.00 3.06
224 225 3.774528 CCTGAGGCAGTGGCGCTA 61.775 66.667 20.56 0.00 42.47 4.26
226 227 4.479993 ATCCTGAGGCAGTGGCGC 62.480 66.667 13.65 13.65 42.47 6.53
228 229 2.191641 GGATCCTGAGGCAGTGGC 59.808 66.667 9.02 9.02 40.13 5.01
236 237 0.907486 TGGCAAGACAGGATCCTGAG 59.093 55.000 41.91 28.23 46.30 3.35
246 247 2.766263 AGAGGATTACGATGGCAAGACA 59.234 45.455 0.00 0.00 0.00 3.41
255 256 6.489603 AGGAGTGATCATAGAGGATTACGAT 58.510 40.000 0.00 0.00 38.43 3.73
258 259 7.338449 GGTCTAGGAGTGATCATAGAGGATTAC 59.662 44.444 0.00 0.00 34.87 1.89
267 268 3.727391 TCAGGGGTCTAGGAGTGATCATA 59.273 47.826 0.00 0.00 0.00 2.15
282 283 1.151810 TCCTTGGCTCTTCAGGGGT 60.152 57.895 0.00 0.00 34.98 4.95
300 301 2.040412 GAGGAAGGTTGTTCATGGAGGT 59.960 50.000 0.00 0.00 0.00 3.85
306 307 4.568592 GGAGATTGGAGGAAGGTTGTTCAT 60.569 45.833 0.00 0.00 0.00 2.57
309 310 2.989571 AGGAGATTGGAGGAAGGTTGTT 59.010 45.455 0.00 0.00 0.00 2.83
312 313 3.388913 CCTAGGAGATTGGAGGAAGGTT 58.611 50.000 1.05 0.00 0.00 3.50
324 325 3.846588 TCCAACTTTTCTGCCTAGGAGAT 59.153 43.478 14.75 0.00 0.00 2.75
327 328 3.587061 TCATCCAACTTTTCTGCCTAGGA 59.413 43.478 14.75 0.00 0.00 2.94
333 334 5.048504 TCTGTTCATCATCCAACTTTTCTGC 60.049 40.000 0.00 0.00 0.00 4.26
351 352 2.010497 GAGGCCGGAGAAAATCTGTTC 58.990 52.381 5.05 0.00 31.71 3.18
354 355 1.373570 GTGAGGCCGGAGAAAATCTG 58.626 55.000 5.05 0.00 0.00 2.90
378 382 1.696832 GGCTAGCTCAAACGCCGAAG 61.697 60.000 15.72 0.00 32.22 3.79
386 390 0.548031 CATCTGGGGGCTAGCTCAAA 59.452 55.000 18.29 2.21 0.00 2.69
393 397 1.965414 TGAAGTTCATCTGGGGGCTA 58.035 50.000 0.08 0.00 0.00 3.93
395 399 3.515602 ATATGAAGTTCATCTGGGGGC 57.484 47.619 21.49 0.00 38.26 5.80
396 400 4.796606 ACAATATGAAGTTCATCTGGGGG 58.203 43.478 21.49 9.33 38.26 5.40
417 421 1.940613 AGTTCCACAGCGTTTTCTGAC 59.059 47.619 0.00 0.00 37.51 3.51
421 425 3.300009 CATTCAGTTCCACAGCGTTTTC 58.700 45.455 0.00 0.00 0.00 2.29
423 427 1.608590 CCATTCAGTTCCACAGCGTTT 59.391 47.619 0.00 0.00 0.00 3.60
427 431 1.808945 CAGACCATTCAGTTCCACAGC 59.191 52.381 0.00 0.00 0.00 4.40
429 433 2.224523 GGACAGACCATTCAGTTCCACA 60.225 50.000 0.00 0.00 38.79 4.17
438 442 3.660865 AGTTAACACGGACAGACCATTC 58.339 45.455 8.61 0.00 38.90 2.67
441 445 1.001048 CGAGTTAACACGGACAGACCA 60.001 52.381 16.42 0.00 38.90 4.02
453 457 3.306634 GCGATCGCCCGAGTTAAC 58.693 61.111 29.48 0.00 34.56 2.01
477 481 0.967380 AATTCAAAGCGGAGGCCAGG 60.967 55.000 5.01 0.00 41.24 4.45
483 487 2.227388 AGCACAGAAATTCAAAGCGGAG 59.773 45.455 0.00 0.00 0.00 4.63
486 490 2.982470 GGAAGCACAGAAATTCAAAGCG 59.018 45.455 0.00 0.00 0.00 4.68
495 499 1.073923 GGGAAGGAGGAAGCACAGAAA 59.926 52.381 0.00 0.00 0.00 2.52
500 504 0.462759 CATCGGGAAGGAGGAAGCAC 60.463 60.000 0.00 0.00 0.00 4.40
501 505 0.617535 TCATCGGGAAGGAGGAAGCA 60.618 55.000 0.00 0.00 0.00 3.91
504 508 0.252513 TGGTCATCGGGAAGGAGGAA 60.253 55.000 0.00 0.00 0.00 3.36
522 526 5.466058 GCTTGATGAGGAACTAGATGATGTG 59.534 44.000 0.00 0.00 41.55 3.21
525 529 5.883685 TGCTTGATGAGGAACTAGATGAT 57.116 39.130 0.00 0.00 41.55 2.45
534 538 3.245016 ACATGGAGTTGCTTGATGAGGAA 60.245 43.478 0.00 0.00 32.81 3.36
549 553 2.092538 AGGGATGCTGAAGAACATGGAG 60.093 50.000 0.00 0.00 0.00 3.86
576 580 1.450312 CGGGGCAGATGAGGTTGAC 60.450 63.158 0.00 0.00 0.00 3.18
581 585 1.190833 ATCTAGCGGGGCAGATGAGG 61.191 60.000 0.00 0.00 30.04 3.86
598 602 2.048690 GGGCTCCTCATCGCGATC 60.049 66.667 20.85 6.66 0.00 3.69
635 645 4.821589 CTCAGCCCGAACCCGAGC 62.822 72.222 0.00 0.00 39.97 5.03
636 646 2.167398 TTTCTCAGCCCGAACCCGAG 62.167 60.000 0.00 0.00 38.22 4.63
638 648 2.033194 GTTTCTCAGCCCGAACCCG 61.033 63.158 0.00 0.00 0.00 5.28
657 667 1.235724 GTTCTTTGAAGACCGTGGGG 58.764 55.000 0.00 0.00 34.13 4.96
659 669 1.235724 GGGTTCTTTGAAGACCGTGG 58.764 55.000 0.00 0.00 34.13 4.94
660 670 1.202770 AGGGGTTCTTTGAAGACCGTG 60.203 52.381 0.00 0.00 34.13 4.94
661 671 1.071857 GAGGGGTTCTTTGAAGACCGT 59.928 52.381 0.00 0.00 34.13 4.83
662 672 1.610886 GGAGGGGTTCTTTGAAGACCG 60.611 57.143 0.00 0.00 34.13 4.79
664 674 1.071857 ACGGAGGGGTTCTTTGAAGAC 59.928 52.381 0.00 0.00 34.13 3.01
667 677 0.034337 CGACGGAGGGGTTCTTTGAA 59.966 55.000 0.00 0.00 0.00 2.69
668 678 1.669440 CGACGGAGGGGTTCTTTGA 59.331 57.895 0.00 0.00 0.00 2.69
669 679 2.033194 GCGACGGAGGGGTTCTTTG 61.033 63.158 0.00 0.00 0.00 2.77
671 681 3.703127 GGCGACGGAGGGGTTCTT 61.703 66.667 0.00 0.00 0.00 2.52
680 690 4.338710 CCTTTTGGGGGCGACGGA 62.339 66.667 0.00 0.00 35.46 4.69
689 699 4.050934 GAACCGCGGCCTTTTGGG 62.051 66.667 28.58 0.00 40.82 4.12
690 700 4.398598 CGAACCGCGGCCTTTTGG 62.399 66.667 28.58 9.65 44.18 3.28
699 709 0.575390 GACATCATTACCGAACCGCG 59.425 55.000 0.00 0.00 40.47 6.46
712 722 1.476891 GGAGGAACGCTGTAGACATCA 59.523 52.381 0.00 0.00 0.00 3.07
713 723 1.202428 GGGAGGAACGCTGTAGACATC 60.202 57.143 0.00 0.00 0.00 3.06
714 724 0.824759 GGGAGGAACGCTGTAGACAT 59.175 55.000 0.00 0.00 0.00 3.06
717 727 1.684734 GGGGGAGGAACGCTGTAGA 60.685 63.158 0.00 0.00 0.00 2.59
789 800 6.249951 AGCTGTTATACCCTCTCGATTAGAT 58.750 40.000 0.00 0.00 32.41 1.98
790 801 5.632118 AGCTGTTATACCCTCTCGATTAGA 58.368 41.667 0.00 0.00 0.00 2.10
791 802 5.708230 AGAGCTGTTATACCCTCTCGATTAG 59.292 44.000 0.00 0.00 29.03 1.73
792 803 5.632118 AGAGCTGTTATACCCTCTCGATTA 58.368 41.667 0.00 0.00 29.03 1.75
793 804 4.475345 AGAGCTGTTATACCCTCTCGATT 58.525 43.478 0.00 0.00 29.03 3.34
794 805 4.076394 GAGAGCTGTTATACCCTCTCGAT 58.924 47.826 0.00 0.00 40.41 3.59
795 806 3.478509 GAGAGCTGTTATACCCTCTCGA 58.521 50.000 0.00 0.00 40.41 4.04
796 807 3.907894 GAGAGCTGTTATACCCTCTCG 57.092 52.381 0.00 0.00 40.41 4.04
797 808 5.599999 TTTGAGAGCTGTTATACCCTCTC 57.400 43.478 9.03 9.03 46.53 3.20
798 809 7.565398 TCTTATTTGAGAGCTGTTATACCCTCT 59.435 37.037 0.00 0.00 37.38 3.69
799 810 7.654116 GTCTTATTTGAGAGCTGTTATACCCTC 59.346 40.741 0.00 0.00 0.00 4.30
800 811 7.419172 GGTCTTATTTGAGAGCTGTTATACCCT 60.419 40.741 0.00 0.00 40.20 4.34
801 812 6.706716 GGTCTTATTTGAGAGCTGTTATACCC 59.293 42.308 0.00 0.00 40.20 3.69
802 813 6.706716 GGGTCTTATTTGAGAGCTGTTATACC 59.293 42.308 0.00 0.00 42.35 2.73
803 814 7.224949 GTGGGTCTTATTTGAGAGCTGTTATAC 59.775 40.741 0.00 0.00 42.35 1.47
804 815 7.125811 AGTGGGTCTTATTTGAGAGCTGTTATA 59.874 37.037 0.00 0.00 42.35 0.98
805 816 6.069963 AGTGGGTCTTATTTGAGAGCTGTTAT 60.070 38.462 0.00 0.00 42.35 1.89
806 817 5.248477 AGTGGGTCTTATTTGAGAGCTGTTA 59.752 40.000 0.00 0.00 42.35 2.41
807 818 4.042187 AGTGGGTCTTATTTGAGAGCTGTT 59.958 41.667 0.00 0.00 42.35 3.16
808 819 3.584848 AGTGGGTCTTATTTGAGAGCTGT 59.415 43.478 0.00 0.00 42.35 4.40
809 820 4.187694 GAGTGGGTCTTATTTGAGAGCTG 58.812 47.826 0.00 0.00 42.35 4.24
810 821 3.198853 GGAGTGGGTCTTATTTGAGAGCT 59.801 47.826 0.00 0.00 42.35 4.09
811 822 3.055094 TGGAGTGGGTCTTATTTGAGAGC 60.055 47.826 0.00 0.00 42.07 4.09
812 823 4.467795 TCTGGAGTGGGTCTTATTTGAGAG 59.532 45.833 0.00 0.00 0.00 3.20
813 824 4.223032 GTCTGGAGTGGGTCTTATTTGAGA 59.777 45.833 0.00 0.00 0.00 3.27
814 825 4.508662 GTCTGGAGTGGGTCTTATTTGAG 58.491 47.826 0.00 0.00 0.00 3.02
815 826 3.056107 CGTCTGGAGTGGGTCTTATTTGA 60.056 47.826 0.00 0.00 0.00 2.69
816 827 3.262420 CGTCTGGAGTGGGTCTTATTTG 58.738 50.000 0.00 0.00 0.00 2.32
817 828 2.236395 CCGTCTGGAGTGGGTCTTATTT 59.764 50.000 0.00 0.00 37.49 1.40
818 829 1.831736 CCGTCTGGAGTGGGTCTTATT 59.168 52.381 0.00 0.00 37.49 1.40
819 830 1.486211 CCGTCTGGAGTGGGTCTTAT 58.514 55.000 0.00 0.00 37.49 1.73
820 831 0.613853 CCCGTCTGGAGTGGGTCTTA 60.614 60.000 0.00 0.00 38.18 2.10
821 832 1.913762 CCCGTCTGGAGTGGGTCTT 60.914 63.158 0.00 0.00 38.18 3.01
822 833 2.283966 CCCGTCTGGAGTGGGTCT 60.284 66.667 0.00 0.00 38.18 3.85
826 837 1.654954 CTACGACCCGTCTGGAGTGG 61.655 65.000 0.00 0.00 41.54 4.00
827 838 0.675837 TCTACGACCCGTCTGGAGTG 60.676 60.000 0.00 0.00 41.54 3.51
828 839 0.255318 ATCTACGACCCGTCTGGAGT 59.745 55.000 0.00 0.00 41.54 3.85
829 840 2.251409 TATCTACGACCCGTCTGGAG 57.749 55.000 0.00 0.00 41.54 3.86
830 841 2.945080 ATATCTACGACCCGTCTGGA 57.055 50.000 0.00 0.00 41.54 3.86
831 842 3.305199 GGAAATATCTACGACCCGTCTGG 60.305 52.174 0.00 0.00 41.54 3.86
832 843 3.305199 GGGAAATATCTACGACCCGTCTG 60.305 52.174 0.00 0.00 41.54 3.51
833 844 2.889678 GGGAAATATCTACGACCCGTCT 59.110 50.000 0.00 0.00 41.54 4.18
834 845 2.029560 GGGGAAATATCTACGACCCGTC 60.030 54.545 0.00 0.00 41.54 4.79
835 846 1.966354 GGGGAAATATCTACGACCCGT 59.034 52.381 0.00 0.00 44.35 5.28
836 847 1.274447 GGGGGAAATATCTACGACCCG 59.726 57.143 0.00 0.00 38.33 5.28
837 848 2.332117 TGGGGGAAATATCTACGACCC 58.668 52.381 0.00 0.00 37.43 4.46
838 849 3.838903 AGATGGGGGAAATATCTACGACC 59.161 47.826 0.00 0.00 29.82 4.79
839 850 4.322801 CCAGATGGGGGAAATATCTACGAC 60.323 50.000 0.00 0.00 30.43 4.34
840 851 3.838317 CCAGATGGGGGAAATATCTACGA 59.162 47.826 0.00 0.00 30.43 3.43
841 852 4.207891 CCAGATGGGGGAAATATCTACG 57.792 50.000 0.00 0.00 30.43 3.51
951 963 4.202535 TGGGGAAAAGGTTAGAGAAGGAAC 60.203 45.833 0.00 0.00 0.00 3.62
994 1048 1.141019 CGATCGGTTCCACGGTGAT 59.859 57.895 10.28 0.00 0.00 3.06
1268 1328 6.201234 GGAAACGGATCTCTGTAATTTAGAGC 59.799 42.308 12.27 1.99 41.11 4.09
1475 1535 1.451207 CACGGATCAATTCCCCGCA 60.451 57.895 8.97 0.00 46.54 5.69
1684 1744 4.908601 AACAGAAGGATGTGGTATGTGA 57.091 40.909 0.00 0.00 32.52 3.58
1695 1755 6.725364 ACACAATGAGGATAAACAGAAGGAT 58.275 36.000 0.00 0.00 0.00 3.24
1720 1780 2.699846 TGCTGCCTTTTGGAATTGAGTT 59.300 40.909 0.00 0.00 44.07 3.01
1903 1963 4.462483 ACCACATAATTGCAGTCCGAAAAT 59.538 37.500 0.00 0.00 0.00 1.82
2103 2196 7.334421 ACTTGACCATGACAATTCATACTACAC 59.666 37.037 0.00 0.00 40.79 2.90
2136 2229 4.008330 GAGATATTGGCATGCAGCTGTAT 58.992 43.478 21.36 14.28 44.79 2.29
2195 2288 8.464404 ACAATGCCAATCACTATCATATAATGC 58.536 33.333 0.00 0.00 0.00 3.56
2493 2616 4.040706 AGGCAATTTCATCAACAATGGTGT 59.959 37.500 0.00 0.00 38.85 4.16
2555 2678 6.127647 TGCAGCAAGTTTAGAATAATCTTGGG 60.128 38.462 16.36 0.78 37.10 4.12
2793 2917 4.158209 CCATAGGTGCAAACATGAACATCA 59.842 41.667 0.00 0.00 0.00 3.07
2993 3119 2.225142 ACTTGCAGTAGGAGAGACCAGA 60.225 50.000 0.00 0.00 42.04 3.86
3046 3173 2.439507 TCAAGTCAGGAAAGCTGGTTCT 59.560 45.455 0.00 0.00 0.00 3.01
3321 3450 6.867662 AACTGTTAGCATTATAGGCATGAC 57.132 37.500 0.00 0.00 0.00 3.06
3357 3486 3.663995 TGGTTCATGAAGCAAATGTGG 57.336 42.857 32.21 0.00 44.63 4.17
3369 3498 4.277423 TGCATGATATCAGCTTGGTTCATG 59.723 41.667 20.51 16.57 41.97 3.07
3509 3638 2.235650 TCTTGAGGAGCTCTGATGTTGG 59.764 50.000 14.64 0.00 0.00 3.77
3631 3762 4.875544 TGCTTTACGTATGATTTGCTCC 57.124 40.909 0.00 0.00 0.00 4.70
3639 3770 5.682943 AACAAAGCTTGCTTTACGTATGA 57.317 34.783 18.52 0.00 0.00 2.15


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

AutoCloner maintained by Alex Coulton.