Multiple sequence alignment - TraesCS2B01G072900

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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 TraesCS2B01G072900 chr2B 100.000 3141 0 0 1 3141 39160092 39156952 0.000000e+00 5801.0
1 TraesCS2B01G072900 chr2B 85.842 1010 123 14 1108 2109 38421664 38420667 0.000000e+00 1055.0
2 TraesCS2B01G072900 chr2B 85.799 1007 122 12 1107 2107 39333282 39334273 0.000000e+00 1048.0
3 TraesCS2B01G072900 chr2B 84.107 1013 137 18 1107 2109 39091057 39090059 0.000000e+00 957.0
4 TraesCS2B01G072900 chr2B 83.976 1011 133 21 1107 2109 38050119 38049130 0.000000e+00 942.0
5 TraesCS2B01G072900 chr2B 87.733 750 36 18 1599 2340 38433163 38432462 0.000000e+00 824.0
6 TraesCS2B01G072900 chr2B 93.763 497 30 1 2646 3141 39094180 39093684 0.000000e+00 745.0
7 TraesCS2B01G072900 chr2B 91.765 85 5 2 2496 2579 72134675 72134592 1.980000e-22 117.0
8 TraesCS2B01G072900 chr2D 92.603 1406 66 20 939 2329 22785586 22786968 0.000000e+00 1986.0
9 TraesCS2B01G072900 chr2D 85.163 1011 130 15 1107 2109 22795725 22796723 0.000000e+00 1018.0
10 TraesCS2B01G072900 chr2D 91.232 422 25 1 2720 3141 22789330 22789739 5.880000e-157 564.0
11 TraesCS2B01G072900 chr2D 90.253 277 25 2 1 276 305771841 305771566 8.280000e-96 361.0
12 TraesCS2B01G072900 chr2D 83.183 333 28 6 1107 1439 22446385 22446081 2.390000e-71 279.0
13 TraesCS2B01G072900 chr2D 94.737 95 2 2 2629 2720 22788831 22788925 9.080000e-31 145.0
14 TraesCS2B01G072900 chr2A 86.542 1018 114 14 1107 2118 24181948 24180948 0.000000e+00 1099.0
15 TraesCS2B01G072900 chr2A 85.236 1016 130 15 1107 2109 24407240 24408248 0.000000e+00 1027.0
16 TraesCS2B01G072900 chr2A 85.746 912 101 19 1211 2109 24277563 24276668 0.000000e+00 937.0
17 TraesCS2B01G072900 chr2A 96.484 512 18 0 2629 3140 24396157 24396668 0.000000e+00 846.0
18 TraesCS2B01G072900 chr2A 92.500 80 5 1 2500 2579 476402472 476402394 2.560000e-21 113.0
19 TraesCS2B01G072900 chr1B 89.915 585 56 3 1 583 643045239 643045822 0.000000e+00 750.0
20 TraesCS2B01G072900 chr1B 82.432 74 8 5 834 903 643022886 643022814 3.380000e-05 60.2
21 TraesCS2B01G072900 chr6D 88.417 518 51 6 1 516 447732902 447733412 1.600000e-172 616.0
22 TraesCS2B01G072900 chr6A 86.853 502 58 8 1 497 21700111 21700609 3.540000e-154 555.0
23 TraesCS2B01G072900 chr6A 82.979 141 20 3 774 912 77774900 77775038 1.180000e-24 124.0
24 TraesCS2B01G072900 chr1A 86.454 502 60 8 1 497 586756147 586755649 7.660000e-151 544.0
25 TraesCS2B01G072900 chr1A 88.679 318 32 4 1 315 361360302 361359986 4.910000e-103 385.0
26 TraesCS2B01G072900 chr1A 77.226 483 104 6 2662 3141 553963727 553964206 8.580000e-71 278.0
27 TraesCS2B01G072900 chr7A 85.857 502 63 8 1 497 713893026 713893524 7.720000e-146 527.0
28 TraesCS2B01G072900 chr3B 90.614 277 24 2 1 276 23590789 23590514 1.780000e-97 366.0
29 TraesCS2B01G072900 chr7D 90.253 277 25 2 1 276 450122781 450123056 8.280000e-96 361.0
30 TraesCS2B01G072900 chr7D 98.507 67 1 0 2500 2566 631689635 631689701 5.500000e-23 119.0
31 TraesCS2B01G072900 chr7D 93.243 74 4 1 2500 2573 533066251 533066323 1.190000e-19 108.0
32 TraesCS2B01G072900 chr1D 75.670 485 108 7 2662 3141 462113970 462114449 1.880000e-57 233.0
33 TraesCS2B01G072900 chr5A 97.183 71 2 0 2496 2566 547605708 547605638 1.530000e-23 121.0
34 TraesCS2B01G072900 chr5D 98.507 67 1 0 2500 2566 450172901 450172835 5.500000e-23 119.0
35 TraesCS2B01G072900 chr5D 98.507 67 1 0 2500 2566 529825360 529825426 5.500000e-23 119.0
36 TraesCS2B01G072900 chr5D 95.890 73 2 1 2500 2572 149640176 149640247 1.980000e-22 117.0
37 TraesCS2B01G072900 chr7B 90.909 88 4 4 2494 2580 19442669 19442753 7.120000e-22 115.0


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 TraesCS2B01G072900 chr2B 39156952 39160092 3140 True 5801.000000 5801 100.000000 1 3141 1 chr2B.!!$R4 3140
1 TraesCS2B01G072900 chr2B 38420667 38421664 997 True 1055.000000 1055 85.842000 1108 2109 1 chr2B.!!$R2 1001
2 TraesCS2B01G072900 chr2B 39333282 39334273 991 False 1048.000000 1048 85.799000 1107 2107 1 chr2B.!!$F1 1000
3 TraesCS2B01G072900 chr2B 38049130 38050119 989 True 942.000000 942 83.976000 1107 2109 1 chr2B.!!$R1 1002
4 TraesCS2B01G072900 chr2B 39090059 39094180 4121 True 851.000000 957 88.935000 1107 3141 2 chr2B.!!$R6 2034
5 TraesCS2B01G072900 chr2B 38432462 38433163 701 True 824.000000 824 87.733000 1599 2340 1 chr2B.!!$R3 741
6 TraesCS2B01G072900 chr2D 22795725 22796723 998 False 1018.000000 1018 85.163000 1107 2109 1 chr2D.!!$F1 1002
7 TraesCS2B01G072900 chr2D 22785586 22789739 4153 False 898.333333 1986 92.857333 939 3141 3 chr2D.!!$F2 2202
8 TraesCS2B01G072900 chr2A 24180948 24181948 1000 True 1099.000000 1099 86.542000 1107 2118 1 chr2A.!!$R1 1011
9 TraesCS2B01G072900 chr2A 24407240 24408248 1008 False 1027.000000 1027 85.236000 1107 2109 1 chr2A.!!$F2 1002
10 TraesCS2B01G072900 chr2A 24276668 24277563 895 True 937.000000 937 85.746000 1211 2109 1 chr2A.!!$R2 898
11 TraesCS2B01G072900 chr2A 24396157 24396668 511 False 846.000000 846 96.484000 2629 3140 1 chr2A.!!$F1 511
12 TraesCS2B01G072900 chr1B 643045239 643045822 583 False 750.000000 750 89.915000 1 583 1 chr1B.!!$F1 582
13 TraesCS2B01G072900 chr6D 447732902 447733412 510 False 616.000000 616 88.417000 1 516 1 chr6D.!!$F1 515

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
261 262 0.107945 GCAGAAACCCAGATCGAGCT 60.108 55.0 0.0 0.0 0.0 4.09 F
739 740 0.250209 CAGAAGATGAGATGCCCCCG 60.250 60.0 0.0 0.0 0.0 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1068 1073 0.610174 TGAGTGGCAAGCTCGAAGAT 59.390 50.0 0.0 0.0 35.85 2.40 R
2357 4466 0.524862 ACGTGAGTTTAGTCGCCGAT 59.475 50.0 0.0 0.0 46.40 4.18 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
56 57 0.179073 CGTCTTCCCGAGGATGCAAT 60.179 55.000 0.00 0.00 0.00 3.56
101 102 1.523154 GAAGGATGCAACAACCGCCA 61.523 55.000 0.00 0.00 31.34 5.69
156 157 4.649705 TCCTCCCACCCGAAGCCA 62.650 66.667 0.00 0.00 0.00 4.75
168 169 1.153745 GAAGCCACGTCGAGCTCAT 60.154 57.895 15.40 1.43 38.74 2.90
224 225 2.785269 AGGTGCCATTCATCTCCCATAA 59.215 45.455 0.00 0.00 27.26 1.90
261 262 0.107945 GCAGAAACCCAGATCGAGCT 60.108 55.000 0.00 0.00 0.00 4.09
262 263 1.137086 GCAGAAACCCAGATCGAGCTA 59.863 52.381 1.25 0.00 0.00 3.32
347 348 3.047877 GGCCACCGAAGACAACCG 61.048 66.667 0.00 0.00 0.00 4.44
416 417 4.944372 CCCCGCACGCCGTAGATC 62.944 72.222 0.00 0.00 34.38 2.75
417 418 4.944372 CCCGCACGCCGTAGATCC 62.944 72.222 0.00 0.00 34.38 3.36
418 419 4.201679 CCGCACGCCGTAGATCCA 62.202 66.667 0.00 0.00 34.38 3.41
420 421 2.954868 GCACGCCGTAGATCCACG 60.955 66.667 6.71 6.71 41.59 4.94
421 422 2.954868 CACGCCGTAGATCCACGC 60.955 66.667 8.26 3.42 40.59 5.34
422 423 3.138798 ACGCCGTAGATCCACGCT 61.139 61.111 8.26 0.00 40.59 5.07
423 424 2.655364 CGCCGTAGATCCACGCTG 60.655 66.667 8.26 0.00 40.59 5.18
425 426 2.417516 CCGTAGATCCACGCTGGG 59.582 66.667 8.26 0.00 40.59 4.45
426 427 2.125326 CCGTAGATCCACGCTGGGA 61.125 63.158 8.26 0.00 40.59 4.37
427 428 1.360551 CGTAGATCCACGCTGGGAG 59.639 63.158 0.00 0.00 41.08 4.30
429 430 1.688772 GTAGATCCACGCTGGGAGTA 58.311 55.000 0.00 0.00 41.08 2.59
434 435 2.125512 CACGCTGGGAGTAGTGCC 60.126 66.667 0.10 0.10 33.79 5.01
435 436 2.603473 ACGCTGGGAGTAGTGCCA 60.603 61.111 10.75 10.75 43.09 4.92
439 440 2.603473 TGGGAGTAGTGCCAGCGT 60.603 61.111 6.72 0.00 39.76 5.07
440 441 1.304630 TGGGAGTAGTGCCAGCGTA 60.305 57.895 6.72 0.00 39.76 4.42
441 442 1.141234 GGGAGTAGTGCCAGCGTAC 59.859 63.158 2.68 0.00 33.27 3.67
442 443 1.141234 GGAGTAGTGCCAGCGTACC 59.859 63.158 0.00 0.00 0.00 3.34
443 444 1.141234 GAGTAGTGCCAGCGTACCC 59.859 63.158 0.00 0.00 0.00 3.69
444 445 1.305046 AGTAGTGCCAGCGTACCCT 60.305 57.895 0.00 0.00 0.00 4.34
445 446 0.903454 AGTAGTGCCAGCGTACCCTT 60.903 55.000 0.00 0.00 0.00 3.95
446 447 0.459759 GTAGTGCCAGCGTACCCTTC 60.460 60.000 0.00 0.00 0.00 3.46
449 450 3.712907 GCCAGCGTACCCTTCCCA 61.713 66.667 0.00 0.00 0.00 4.37
454 455 2.895372 CGTACCCTTCCCATGCGC 60.895 66.667 0.00 0.00 0.00 6.09
455 456 2.516225 GTACCCTTCCCATGCGCC 60.516 66.667 4.18 0.00 0.00 6.53
456 457 4.169696 TACCCTTCCCATGCGCCG 62.170 66.667 4.18 0.00 0.00 6.46
464 465 4.923942 CCATGCGCCGCCTCAGAT 62.924 66.667 6.63 0.00 0.00 2.90
465 466 3.344215 CATGCGCCGCCTCAGATC 61.344 66.667 6.63 0.00 0.00 2.75
466 467 3.544607 ATGCGCCGCCTCAGATCT 61.545 61.111 6.63 0.00 0.00 2.75
467 468 3.804153 ATGCGCCGCCTCAGATCTG 62.804 63.158 17.07 17.07 0.00 2.90
468 469 4.212913 GCGCCGCCTCAGATCTGA 62.213 66.667 23.75 23.75 38.06 3.27
469 470 2.279120 CGCCGCCTCAGATCTGAC 60.279 66.667 21.67 11.92 35.46 3.51
470 471 2.279120 GCCGCCTCAGATCTGACG 60.279 66.667 21.67 22.08 35.46 4.35
471 472 2.415010 CCGCCTCAGATCTGACGG 59.585 66.667 29.54 29.54 40.92 4.79
472 473 2.279120 CGCCTCAGATCTGACGGC 60.279 66.667 33.88 33.88 43.76 5.68
473 474 2.279120 GCCTCAGATCTGACGGCG 60.279 66.667 32.17 20.42 40.90 6.46
474 475 2.775856 GCCTCAGATCTGACGGCGA 61.776 63.158 32.17 12.87 40.90 5.54
475 476 1.064946 CCTCAGATCTGACGGCGAC 59.935 63.158 21.67 8.59 35.46 5.19
477 478 1.657751 CTCAGATCTGACGGCGACCA 61.658 60.000 21.67 10.35 35.46 4.02
478 479 1.517257 CAGATCTGACGGCGACCAC 60.517 63.158 18.34 2.37 0.00 4.16
479 480 2.202756 GATCTGACGGCGACCACC 60.203 66.667 16.62 0.00 0.00 4.61
480 481 2.994995 ATCTGACGGCGACCACCA 60.995 61.111 16.62 2.20 0.00 4.17
481 482 3.296709 ATCTGACGGCGACCACCAC 62.297 63.158 16.62 0.00 0.00 4.16
554 555 3.869272 GCGCTTGCCATCCGACAG 61.869 66.667 0.00 0.00 0.00 3.51
557 558 3.869272 CTTGCCATCCGACAGCGC 61.869 66.667 0.00 0.00 35.83 5.92
625 626 4.200283 CCGCTCCTCGCTCTGGTC 62.200 72.222 0.00 0.00 36.73 4.02
626 627 3.443925 CGCTCCTCGCTCTGGTCA 61.444 66.667 0.00 0.00 36.13 4.02
627 628 2.183046 GCTCCTCGCTCTGGTCAC 59.817 66.667 0.00 0.00 35.14 3.67
628 629 2.487428 CTCCTCGCTCTGGTCACG 59.513 66.667 0.00 0.00 0.00 4.35
629 630 3.691744 CTCCTCGCTCTGGTCACGC 62.692 68.421 0.00 0.00 0.00 5.34
630 631 4.056125 CCTCGCTCTGGTCACGCA 62.056 66.667 0.00 0.00 0.00 5.24
632 633 4.700365 TCGCTCTGGTCACGCACG 62.700 66.667 0.00 0.00 0.00 5.34
680 681 4.873129 CGCGATCCCTCCACCGTG 62.873 72.222 0.00 0.00 0.00 4.94
682 683 4.873129 CGATCCCTCCACCGTGCG 62.873 72.222 0.00 0.00 0.00 5.34
706 707 4.069232 CGACCAGCAGAAGGCCGA 62.069 66.667 0.00 0.00 46.50 5.54
707 708 2.435059 GACCAGCAGAAGGCCGAC 60.435 66.667 0.00 0.00 46.50 4.79
708 709 4.379243 ACCAGCAGAAGGCCGACG 62.379 66.667 0.00 0.00 46.50 5.12
722 723 3.406361 GACGCGCCCGCATATCAG 61.406 66.667 5.73 0.00 42.06 2.90
723 724 3.841379 GACGCGCCCGCATATCAGA 62.841 63.158 5.73 0.00 42.06 3.27
726 727 1.300931 GCGCCCGCATATCAGAAGA 60.301 57.895 7.91 0.00 41.49 2.87
727 728 0.671781 GCGCCCGCATATCAGAAGAT 60.672 55.000 7.91 0.00 41.49 2.40
728 729 1.073964 CGCCCGCATATCAGAAGATG 58.926 55.000 0.00 0.00 35.67 2.90
730 731 2.344950 GCCCGCATATCAGAAGATGAG 58.655 52.381 0.71 0.00 42.53 2.90
731 732 2.028658 GCCCGCATATCAGAAGATGAGA 60.029 50.000 0.71 0.00 42.53 3.27
732 733 3.369261 GCCCGCATATCAGAAGATGAGAT 60.369 47.826 0.71 0.00 42.53 2.75
737 738 4.840716 ATATCAGAAGATGAGATGCCCC 57.159 45.455 0.00 0.00 42.53 5.80
738 739 1.135094 TCAGAAGATGAGATGCCCCC 58.865 55.000 0.00 0.00 32.77 5.40
739 740 0.250209 CAGAAGATGAGATGCCCCCG 60.250 60.000 0.00 0.00 0.00 5.73
740 741 1.599240 GAAGATGAGATGCCCCCGC 60.599 63.158 0.00 0.00 0.00 6.13
754 755 4.827087 CCGCGCTGCTCATGGTCT 62.827 66.667 5.56 0.00 0.00 3.85
755 756 2.816958 CGCGCTGCTCATGGTCTT 60.817 61.111 5.56 0.00 0.00 3.01
756 757 2.806856 CGCGCTGCTCATGGTCTTC 61.807 63.158 5.56 0.00 0.00 2.87
758 759 2.806856 CGCTGCTCATGGTCTTCGC 61.807 63.158 0.00 0.00 0.00 4.70
761 762 1.144565 CTGCTCATGGTCTTCGCGAG 61.145 60.000 9.59 3.89 0.00 5.03
762 763 1.139734 GCTCATGGTCTTCGCGAGA 59.860 57.895 9.59 6.53 39.20 4.04
802 803 4.025401 GACACCGCACGGGCTTTG 62.025 66.667 8.62 6.99 40.62 2.77
836 837 2.506438 GGCGACGTCGAGGAAAGG 60.506 66.667 39.74 10.32 43.02 3.11
837 838 2.506438 GCGACGTCGAGGAAAGGG 60.506 66.667 39.74 9.55 43.02 3.95
839 840 2.633509 CGACGTCGAGGAAAGGGGT 61.634 63.158 33.35 0.00 43.02 4.95
840 841 1.080025 GACGTCGAGGAAAGGGGTG 60.080 63.158 12.85 0.00 0.00 4.61
841 842 1.530013 GACGTCGAGGAAAGGGGTGA 61.530 60.000 12.85 0.00 0.00 4.02
842 843 1.215647 CGTCGAGGAAAGGGGTGAG 59.784 63.158 0.00 0.00 0.00 3.51
843 844 1.597461 GTCGAGGAAAGGGGTGAGG 59.403 63.158 0.00 0.00 0.00 3.86
844 845 2.269241 CGAGGAAAGGGGTGAGGC 59.731 66.667 0.00 0.00 0.00 4.70
845 846 2.269241 GAGGAAAGGGGTGAGGCG 59.731 66.667 0.00 0.00 0.00 5.52
846 847 3.330720 AGGAAAGGGGTGAGGCGG 61.331 66.667 0.00 0.00 0.00 6.13
848 849 2.269241 GAAAGGGGTGAGGCGGAG 59.731 66.667 0.00 0.00 0.00 4.63
849 850 2.529389 AAAGGGGTGAGGCGGAGT 60.529 61.111 0.00 0.00 0.00 3.85
850 851 1.229400 AAAGGGGTGAGGCGGAGTA 60.229 57.895 0.00 0.00 0.00 2.59
851 852 1.265454 AAAGGGGTGAGGCGGAGTAG 61.265 60.000 0.00 0.00 0.00 2.57
852 853 3.155167 GGGGTGAGGCGGAGTAGG 61.155 72.222 0.00 0.00 0.00 3.18
853 854 3.155167 GGGTGAGGCGGAGTAGGG 61.155 72.222 0.00 0.00 0.00 3.53
854 855 3.155167 GGTGAGGCGGAGTAGGGG 61.155 72.222 0.00 0.00 0.00 4.79
855 856 3.851128 GTGAGGCGGAGTAGGGGC 61.851 72.222 0.00 0.00 0.00 5.80
919 920 2.280524 CACGTGAGCGGTTTGGGA 60.281 61.111 10.90 0.00 43.45 4.37
920 921 1.671054 CACGTGAGCGGTTTGGGAT 60.671 57.895 10.90 0.00 43.45 3.85
921 922 1.072505 ACGTGAGCGGTTTGGGATT 59.927 52.632 0.00 0.00 43.45 3.01
922 923 1.234615 ACGTGAGCGGTTTGGGATTG 61.235 55.000 0.00 0.00 43.45 2.67
923 924 1.212751 GTGAGCGGTTTGGGATTGC 59.787 57.895 0.00 0.00 0.00 3.56
925 926 1.678970 GAGCGGTTTGGGATTGCCT 60.679 57.895 0.00 0.00 0.00 4.75
926 927 0.393808 GAGCGGTTTGGGATTGCCTA 60.394 55.000 0.00 0.00 0.00 3.93
930 931 1.065418 CGGTTTGGGATTGCCTACTCT 60.065 52.381 0.00 0.00 0.00 3.24
931 932 2.369394 GGTTTGGGATTGCCTACTCTG 58.631 52.381 0.00 0.00 0.00 3.35
932 933 1.745653 GTTTGGGATTGCCTACTCTGC 59.254 52.381 0.00 0.00 0.00 4.26
934 935 1.289160 TGGGATTGCCTACTCTGCTT 58.711 50.000 0.00 0.00 0.00 3.91
935 936 1.210478 TGGGATTGCCTACTCTGCTTC 59.790 52.381 0.00 0.00 0.00 3.86
951 952 2.103432 TGCTTCCCTCAACGTCAAACTA 59.897 45.455 0.00 0.00 0.00 2.24
993 994 5.693555 AGCATATCACATGTGTTATCTGACG 59.306 40.000 24.63 14.03 0.00 4.35
1007 1012 6.316140 TGTTATCTGACGCTGCTCAAATAATT 59.684 34.615 9.47 0.00 0.00 1.40
1019 1024 4.736793 GCTCAAATAATTTGACATCGCCAG 59.263 41.667 0.00 0.00 44.21 4.85
1028 1033 0.727398 GACATCGCCAGTTGCTTACC 59.273 55.000 0.00 0.00 38.05 2.85
1043 1048 5.759506 TGCTTACCGAACAAATTTTCTCA 57.240 34.783 0.00 0.00 0.00 3.27
1047 1052 7.029563 GCTTACCGAACAAATTTTCTCATCAT 58.970 34.615 0.00 0.00 0.00 2.45
1053 1058 9.624697 CCGAACAAATTTTCTCATCATTTTCTA 57.375 29.630 0.00 0.00 0.00 2.10
1060 1065 8.682936 ATTTTCTCATCATTTTCTATACCGCT 57.317 30.769 0.00 0.00 0.00 5.52
1081 1086 1.135867 GATCGGATCTTCGAGCTTGC 58.864 55.000 10.73 0.00 42.69 4.01
1145 3163 2.283101 GCATCCCAAGGGTGTGCA 60.283 61.111 23.57 0.55 42.70 4.57
2015 4068 4.351938 CGGCCACGTCGTTCTGGA 62.352 66.667 2.24 0.00 34.81 3.86
2141 4197 2.225727 GGTCAACGGAGCAAAAGTTAGG 59.774 50.000 0.00 0.00 41.19 2.69
2146 4202 4.563337 ACGGAGCAAAAGTTAGGAAAAC 57.437 40.909 0.00 0.00 0.00 2.43
2176 4240 5.812642 CCCATGTATACTAATCGAATGCTCC 59.187 44.000 4.17 0.00 0.00 4.70
2211 4275 3.181429 TGGAGAAAAGCAATTCTGGGAGT 60.181 43.478 8.55 0.00 39.70 3.85
2236 4300 0.532640 CCCGTGCATGAATCATCCGA 60.533 55.000 7.72 0.00 0.00 4.55
2249 4313 3.627395 TCATCCGACCTTGCTGTATTT 57.373 42.857 0.00 0.00 0.00 1.40
2343 4452 6.071952 TCCTTGATAAAGAAAACCATCACAGC 60.072 38.462 0.00 0.00 0.00 4.40
2346 4455 6.680810 TGATAAAGAAAACCATCACAGCTTG 58.319 36.000 0.00 0.00 0.00 4.01
2356 4465 1.852942 TCACAGCTTGTCGAACACTC 58.147 50.000 0.00 0.00 0.00 3.51
2357 4466 1.136110 TCACAGCTTGTCGAACACTCA 59.864 47.619 0.00 0.00 0.00 3.41
2362 4471 0.716108 CTTGTCGAACACTCATCGGC 59.284 55.000 0.00 0.00 44.72 5.54
2363 4472 3.374330 GTCGAACACTCATCGGCG 58.626 61.111 0.00 0.00 40.59 6.46
2365 4474 1.154093 TCGAACACTCATCGGCGAC 60.154 57.895 13.76 0.00 40.59 5.19
2371 4480 1.544691 ACACTCATCGGCGACTAAACT 59.455 47.619 13.76 0.00 0.00 2.66
2374 4483 2.186076 CTCATCGGCGACTAAACTCAC 58.814 52.381 13.76 0.00 0.00 3.51
2387 4496 4.869861 ACTAAACTCACGTTAACACCGTTT 59.130 37.500 6.39 10.84 36.17 3.60
2396 4505 4.336153 ACGTTAACACCGTTTTTGAAGGAT 59.664 37.500 6.39 0.00 34.28 3.24
2403 4512 0.613260 GTTTTTGAAGGATGGGGCCC 59.387 55.000 18.17 18.17 0.00 5.80
2404 4513 0.902516 TTTTTGAAGGATGGGGCCCG 60.903 55.000 19.83 0.00 0.00 6.13
2418 4527 3.283684 CCCGCTGACGTGGCAAAA 61.284 61.111 0.00 0.00 39.55 2.44
2419 4528 2.718731 CCGCTGACGTGGCAAAAA 59.281 55.556 0.00 0.00 37.70 1.94
2453 4562 5.528870 GTTTCACTTGGTCATTAAACTGGG 58.471 41.667 0.00 0.00 0.00 4.45
2454 4563 4.447138 TCACTTGGTCATTAAACTGGGT 57.553 40.909 0.00 0.00 0.00 4.51
2456 4565 3.888930 CACTTGGTCATTAAACTGGGTGT 59.111 43.478 0.00 0.00 0.00 4.16
2457 4566 5.067273 CACTTGGTCATTAAACTGGGTGTA 58.933 41.667 0.00 0.00 0.00 2.90
2460 4569 3.009695 TGGTCATTAAACTGGGTGTAGGG 59.990 47.826 0.00 0.00 0.00 3.53
2462 4571 2.025699 TCATTAAACTGGGTGTAGGGCC 60.026 50.000 0.00 0.00 0.00 5.80
2485 4594 1.509644 CCTTCAGCGTGTGCACACAT 61.510 55.000 40.31 28.97 46.75 3.21
2492 4601 1.002468 GCGTGTGCACACATTTCTCTT 60.002 47.619 40.31 0.00 46.75 2.85
2506 4615 6.931281 CACATTTCTCTTCTCTTTGTACTCCA 59.069 38.462 0.00 0.00 0.00 3.86
2508 4617 7.821846 ACATTTCTCTTCTCTTTGTACTCCATC 59.178 37.037 0.00 0.00 0.00 3.51
2523 4632 6.647895 TGTACTCCATCCGTTTCTTTTTAGTC 59.352 38.462 0.00 0.00 0.00 2.59
2527 4636 4.215399 CCATCCGTTTCTTTTTAGTCTGCA 59.785 41.667 0.00 0.00 0.00 4.41
2533 4642 9.221933 TCCGTTTCTTTTTAGTCTGCATATAAA 57.778 29.630 0.00 0.00 0.00 1.40
2534 4643 9.490663 CCGTTTCTTTTTAGTCTGCATATAAAG 57.509 33.333 0.00 0.00 0.00 1.85
2546 4655 7.448469 AGTCTGCATATAAAGTTTGGTCAAAGT 59.552 33.333 0.00 0.00 35.61 2.66
2550 4659 8.081633 TGCATATAAAGTTTGGTCAAAGTCAAG 58.918 33.333 0.00 0.00 33.15 3.02
2572 4992 7.449934 AAGCTTTGTAAAGTTTGAATCAACG 57.550 32.000 5.78 0.00 37.92 4.10
2573 4993 6.791303 AGCTTTGTAAAGTTTGAATCAACGA 58.209 32.000 0.00 0.00 38.28 3.85
2574 4994 7.425606 AGCTTTGTAAAGTTTGAATCAACGAT 58.574 30.769 0.00 0.00 38.28 3.73
2575 4995 7.379529 AGCTTTGTAAAGTTTGAATCAACGATG 59.620 33.333 0.00 0.00 38.28 3.84
2576 4996 7.167468 GCTTTGTAAAGTTTGAATCAACGATGT 59.833 33.333 0.00 0.00 38.28 3.06
2577 4997 9.658475 CTTTGTAAAGTTTGAATCAACGATGTA 57.342 29.630 0.00 0.00 0.00 2.29
2604 6200 6.830324 AGTATGTATGTAGTCTTACGGTGGAA 59.170 38.462 0.00 0.00 32.21 3.53
2619 6215 3.304190 CGGTGGAATCGACGATGTACATA 60.304 47.826 11.83 0.00 0.00 2.29
2636 6292 6.645615 GTACATACGTACGTTATGCAGTAC 57.354 41.667 27.92 21.99 38.77 2.73
2798 6862 0.251608 TCTCACCCGTGGACTCATCA 60.252 55.000 0.00 0.00 0.00 3.07
2891 6955 0.108138 AGAACTGTATGTCGCTGCCC 60.108 55.000 0.00 0.00 0.00 5.36
2926 7002 4.043200 GACGGGCTGCTTGGCAAC 62.043 66.667 0.00 0.00 43.83 4.17
2932 7008 4.688419 CTGCTTGGCAACGGCGTG 62.688 66.667 15.70 9.33 42.47 5.34
2935 7011 3.964875 CTTGGCAACGGCGTGCTT 61.965 61.111 25.34 5.72 44.31 3.91
2936 7012 3.879351 CTTGGCAACGGCGTGCTTC 62.879 63.158 25.34 15.07 44.31 3.86
2966 7042 2.300967 ATTCGAGCCTGGGCCTGAA 61.301 57.895 12.58 15.17 43.17 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 2.192979 GGCATTGCATCCTCGGGA 59.807 61.111 11.39 0.00 35.55 5.14
56 57 1.451927 GATGAATGACCGGCAGGCA 60.452 57.895 0.00 2.34 42.76 4.75
168 169 0.107831 CCTCCTGTTTGGTGGTTCGA 59.892 55.000 0.00 0.00 42.88 3.71
240 241 1.933247 CTCGATCTGGGTTTCTGCTC 58.067 55.000 0.00 0.00 0.00 4.26
261 262 1.302949 GGGTTCCACAGGCAGCATA 59.697 57.895 0.00 0.00 0.00 3.14
262 263 2.036256 GGGTTCCACAGGCAGCAT 59.964 61.111 0.00 0.00 0.00 3.79
399 400 4.944372 GATCTACGGCGTGCGGGG 62.944 72.222 24.86 7.56 0.00 5.73
401 402 4.201679 TGGATCTACGGCGTGCGG 62.202 66.667 24.86 12.69 0.00 5.69
403 404 2.954868 CGTGGATCTACGGCGTGC 60.955 66.667 24.86 9.08 40.22 5.34
404 405 2.954868 GCGTGGATCTACGGCGTG 60.955 66.667 29.35 12.87 43.87 5.34
405 406 3.138798 AGCGTGGATCTACGGCGT 61.139 61.111 29.35 19.64 43.87 5.68
407 408 2.279517 CCAGCGTGGATCTACGGC 60.280 66.667 29.35 21.52 40.96 5.68
412 413 0.033011 ACTACTCCCAGCGTGGATCT 60.033 55.000 5.71 0.00 40.96 2.75
414 415 1.961180 GCACTACTCCCAGCGTGGAT 61.961 60.000 5.71 0.00 40.96 3.41
415 416 2.646175 GCACTACTCCCAGCGTGGA 61.646 63.158 5.71 0.70 40.96 4.02
416 417 2.125512 GCACTACTCCCAGCGTGG 60.126 66.667 0.00 0.00 37.25 4.94
417 418 2.125512 GGCACTACTCCCAGCGTG 60.126 66.667 0.00 0.00 0.00 5.34
418 419 2.603473 TGGCACTACTCCCAGCGT 60.603 61.111 0.00 0.00 0.00 5.07
422 423 1.304630 TACGCTGGCACTACTCCCA 60.305 57.895 0.00 0.00 0.00 4.37
423 424 1.141234 GTACGCTGGCACTACTCCC 59.859 63.158 0.00 0.00 0.00 4.30
425 426 1.141234 GGGTACGCTGGCACTACTC 59.859 63.158 2.05 0.00 0.00 2.59
426 427 0.903454 AAGGGTACGCTGGCACTACT 60.903 55.000 13.87 0.00 0.00 2.57
427 428 0.459759 GAAGGGTACGCTGGCACTAC 60.460 60.000 13.87 0.00 0.00 2.73
429 430 2.663196 GAAGGGTACGCTGGCACT 59.337 61.111 13.87 0.00 0.00 4.40
434 435 1.819632 GCATGGGAAGGGTACGCTG 60.820 63.158 13.87 1.73 0.00 5.18
435 436 2.590092 GCATGGGAAGGGTACGCT 59.410 61.111 6.62 6.62 0.00 5.07
436 437 2.895372 CGCATGGGAAGGGTACGC 60.895 66.667 3.11 0.77 0.00 4.42
438 439 2.516225 GGCGCATGGGAAGGGTAC 60.516 66.667 14.90 0.00 0.00 3.34
439 440 4.169696 CGGCGCATGGGAAGGGTA 62.170 66.667 14.90 0.00 0.00 3.69
449 450 3.544607 AGATCTGAGGCGGCGCAT 61.545 61.111 34.36 29.23 0.00 4.73
454 455 2.415010 CCGTCAGATCTGAGGCGG 59.585 66.667 29.54 29.54 42.32 6.13
455 456 2.279120 GCCGTCAGATCTGAGGCG 60.279 66.667 32.17 27.76 42.32 5.52
456 457 2.279120 CGCCGTCAGATCTGAGGC 60.279 66.667 33.88 33.88 43.76 4.70
457 458 1.064946 GTCGCCGTCAGATCTGAGG 59.935 63.158 30.05 30.05 40.75 3.86
458 459 1.064946 GGTCGCCGTCAGATCTGAG 59.935 63.158 25.76 15.83 40.75 3.35
459 460 1.677633 TGGTCGCCGTCAGATCTGA 60.678 57.895 21.67 21.67 37.24 3.27
460 461 1.517257 GTGGTCGCCGTCAGATCTG 60.517 63.158 17.07 17.07 0.00 2.90
461 462 2.711922 GGTGGTCGCCGTCAGATCT 61.712 63.158 0.00 0.00 0.00 2.75
462 463 2.202756 GGTGGTCGCCGTCAGATC 60.203 66.667 0.00 0.00 0.00 2.75
463 464 2.994995 TGGTGGTCGCCGTCAGAT 60.995 61.111 0.00 0.00 0.00 2.90
464 465 3.986006 GTGGTGGTCGCCGTCAGA 61.986 66.667 0.00 0.00 0.00 3.27
537 538 3.869272 CTGTCGGATGGCAAGCGC 61.869 66.667 0.00 0.00 37.44 5.92
538 539 3.869272 GCTGTCGGATGGCAAGCG 61.869 66.667 0.00 0.00 0.00 4.68
539 540 3.869272 CGCTGTCGGATGGCAAGC 61.869 66.667 0.00 0.00 0.00 4.01
540 541 3.869272 GCGCTGTCGGATGGCAAG 61.869 66.667 0.00 0.00 35.95 4.01
545 546 4.899239 GAGGGGCGCTGTCGGATG 62.899 72.222 9.52 0.00 35.95 3.51
611 612 2.487428 CGTGACCAGAGCGAGGAG 59.513 66.667 0.00 0.00 0.00 3.69
613 614 4.056125 TGCGTGACCAGAGCGAGG 62.056 66.667 0.00 0.00 0.00 4.63
615 616 4.700365 CGTGCGTGACCAGAGCGA 62.700 66.667 0.00 0.00 0.00 4.93
663 664 4.873129 CACGGTGGAGGGATCGCG 62.873 72.222 0.00 0.00 0.00 5.87
665 666 4.873129 CGCACGGTGGAGGGATCG 62.873 72.222 10.60 0.00 0.00 3.69
690 691 2.435059 GTCGGCCTTCTGCTGGTC 60.435 66.667 0.00 0.00 46.96 4.02
691 692 4.379243 CGTCGGCCTTCTGCTGGT 62.379 66.667 0.00 0.00 46.96 4.00
705 706 3.406361 CTGATATGCGGGCGCGTC 61.406 66.667 24.70 16.61 45.51 5.19
706 707 3.439513 TTCTGATATGCGGGCGCGT 62.440 57.895 24.70 8.32 45.51 6.01
707 708 2.661537 TTCTGATATGCGGGCGCG 60.662 61.111 20.05 20.05 45.51 6.86
708 709 0.671781 ATCTTCTGATATGCGGGCGC 60.672 55.000 0.00 0.00 42.35 6.53
709 710 1.073964 CATCTTCTGATATGCGGGCG 58.926 55.000 0.00 0.00 0.00 6.13
711 712 3.949842 TCTCATCTTCTGATATGCGGG 57.050 47.619 0.00 0.00 32.10 6.13
715 716 4.515361 GGGGCATCTCATCTTCTGATATG 58.485 47.826 0.00 0.00 39.98 1.78
716 717 3.522750 GGGGGCATCTCATCTTCTGATAT 59.477 47.826 0.00 0.00 32.10 1.63
717 718 2.909006 GGGGGCATCTCATCTTCTGATA 59.091 50.000 0.00 0.00 32.10 2.15
718 719 1.704070 GGGGGCATCTCATCTTCTGAT 59.296 52.381 0.00 0.00 32.10 2.90
719 720 1.135094 GGGGGCATCTCATCTTCTGA 58.865 55.000 0.00 0.00 0.00 3.27
721 722 2.049627 GCGGGGGCATCTCATCTTCT 62.050 60.000 0.00 0.00 0.00 2.85
722 723 1.599240 GCGGGGGCATCTCATCTTC 60.599 63.158 0.00 0.00 0.00 2.87
723 724 2.512896 GCGGGGGCATCTCATCTT 59.487 61.111 0.00 0.00 0.00 2.40
737 738 4.827087 AGACCATGAGCAGCGCGG 62.827 66.667 8.83 2.11 0.00 6.46
738 739 2.806856 GAAGACCATGAGCAGCGCG 61.807 63.158 0.00 0.00 0.00 6.86
739 740 2.806856 CGAAGACCATGAGCAGCGC 61.807 63.158 0.00 0.00 0.00 5.92
740 741 2.806856 GCGAAGACCATGAGCAGCG 61.807 63.158 0.00 0.00 0.00 5.18
742 743 1.144565 CTCGCGAAGACCATGAGCAG 61.145 60.000 11.33 0.00 0.00 4.24
743 744 1.153765 CTCGCGAAGACCATGAGCA 60.154 57.895 11.33 0.00 0.00 4.26
744 745 1.139734 TCTCGCGAAGACCATGAGC 59.860 57.895 11.33 0.00 0.00 4.26
753 754 2.202492 CTGTCCCGTCTCGCGAAG 60.202 66.667 11.33 4.62 44.77 3.79
754 755 3.744719 CCTGTCCCGTCTCGCGAA 61.745 66.667 11.33 0.00 44.77 4.70
756 757 4.477975 GACCTGTCCCGTCTCGCG 62.478 72.222 0.00 0.00 40.95 5.87
817 818 4.409218 TTTCCTCGACGTCGCCGG 62.409 66.667 32.19 30.20 39.60 6.13
819 820 2.506438 CCTTTCCTCGACGTCGCC 60.506 66.667 32.19 0.00 39.60 5.54
821 822 2.181021 CCCCTTTCCTCGACGTCG 59.819 66.667 31.30 31.30 41.45 5.12
822 823 1.080025 CACCCCTTTCCTCGACGTC 60.080 63.158 5.18 5.18 0.00 4.34
823 824 1.532316 TCACCCCTTTCCTCGACGT 60.532 57.895 0.00 0.00 0.00 4.34
824 825 1.215647 CTCACCCCTTTCCTCGACG 59.784 63.158 0.00 0.00 0.00 5.12
825 826 1.597461 CCTCACCCCTTTCCTCGAC 59.403 63.158 0.00 0.00 0.00 4.20
826 827 2.291043 GCCTCACCCCTTTCCTCGA 61.291 63.158 0.00 0.00 0.00 4.04
827 828 2.269241 GCCTCACCCCTTTCCTCG 59.731 66.667 0.00 0.00 0.00 4.63
828 829 2.269241 CGCCTCACCCCTTTCCTC 59.731 66.667 0.00 0.00 0.00 3.71
829 830 3.330720 CCGCCTCACCCCTTTCCT 61.331 66.667 0.00 0.00 0.00 3.36
830 831 3.327404 TCCGCCTCACCCCTTTCC 61.327 66.667 0.00 0.00 0.00 3.13
831 832 1.262640 TACTCCGCCTCACCCCTTTC 61.263 60.000 0.00 0.00 0.00 2.62
832 833 1.229400 TACTCCGCCTCACCCCTTT 60.229 57.895 0.00 0.00 0.00 3.11
834 835 2.042843 CTACTCCGCCTCACCCCT 60.043 66.667 0.00 0.00 0.00 4.79
836 837 3.155167 CCCTACTCCGCCTCACCC 61.155 72.222 0.00 0.00 0.00 4.61
837 838 3.155167 CCCCTACTCCGCCTCACC 61.155 72.222 0.00 0.00 0.00 4.02
899 900 4.368808 CAAACCGCTCACGTGCCG 62.369 66.667 11.67 15.45 37.70 5.69
900 901 4.025401 CCAAACCGCTCACGTGCC 62.025 66.667 11.67 3.15 37.70 5.01
902 903 1.234615 AATCCCAAACCGCTCACGTG 61.235 55.000 9.94 9.94 37.70 4.49
903 904 1.072505 AATCCCAAACCGCTCACGT 59.927 52.632 0.00 0.00 37.70 4.49
904 905 1.501741 CAATCCCAAACCGCTCACG 59.498 57.895 0.00 0.00 39.67 4.35
905 906 1.212751 GCAATCCCAAACCGCTCAC 59.787 57.895 0.00 0.00 0.00 3.51
906 907 1.976474 GGCAATCCCAAACCGCTCA 60.976 57.895 0.00 0.00 0.00 4.26
907 908 0.393808 TAGGCAATCCCAAACCGCTC 60.394 55.000 0.00 0.00 35.39 5.03
908 909 0.679960 GTAGGCAATCCCAAACCGCT 60.680 55.000 0.00 0.00 35.39 5.52
909 910 0.679960 AGTAGGCAATCCCAAACCGC 60.680 55.000 0.00 0.00 35.39 5.68
911 912 2.369394 CAGAGTAGGCAATCCCAAACC 58.631 52.381 0.00 0.00 35.39 3.27
912 913 1.745653 GCAGAGTAGGCAATCCCAAAC 59.254 52.381 0.00 0.00 35.39 2.93
913 914 1.635487 AGCAGAGTAGGCAATCCCAAA 59.365 47.619 0.00 0.00 35.39 3.28
914 915 1.289160 AGCAGAGTAGGCAATCCCAA 58.711 50.000 0.00 0.00 35.39 4.12
915 916 1.210478 GAAGCAGAGTAGGCAATCCCA 59.790 52.381 0.00 0.00 35.39 4.37
916 917 1.475930 GGAAGCAGAGTAGGCAATCCC 60.476 57.143 0.00 0.00 35.01 3.85
919 920 1.488393 GAGGGAAGCAGAGTAGGCAAT 59.512 52.381 0.00 0.00 0.00 3.56
920 921 0.905357 GAGGGAAGCAGAGTAGGCAA 59.095 55.000 0.00 0.00 0.00 4.52
921 922 0.252239 TGAGGGAAGCAGAGTAGGCA 60.252 55.000 0.00 0.00 0.00 4.75
922 923 0.905357 TTGAGGGAAGCAGAGTAGGC 59.095 55.000 0.00 0.00 0.00 3.93
923 924 1.134965 CGTTGAGGGAAGCAGAGTAGG 60.135 57.143 0.00 0.00 0.00 3.18
925 926 1.544691 GACGTTGAGGGAAGCAGAGTA 59.455 52.381 0.00 0.00 0.00 2.59
926 927 0.318762 GACGTTGAGGGAAGCAGAGT 59.681 55.000 0.00 0.00 0.00 3.24
930 931 1.134220 AGTTTGACGTTGAGGGAAGCA 60.134 47.619 0.00 0.00 0.00 3.91
931 932 1.594331 AGTTTGACGTTGAGGGAAGC 58.406 50.000 0.00 0.00 0.00 3.86
932 933 3.684788 CCATAGTTTGACGTTGAGGGAAG 59.315 47.826 0.00 0.00 0.00 3.46
934 935 2.901192 TCCATAGTTTGACGTTGAGGGA 59.099 45.455 0.00 0.00 0.00 4.20
935 936 3.328382 TCCATAGTTTGACGTTGAGGG 57.672 47.619 0.00 0.00 0.00 4.30
1019 1024 5.974751 TGAGAAAATTTGTTCGGTAAGCAAC 59.025 36.000 0.00 0.00 32.50 4.17
1043 1048 6.565234 CCGATCTAGCGGTATAGAAAATGAT 58.435 40.000 0.00 0.00 46.07 2.45
1057 1062 1.465020 GCTCGAAGATCCGATCTAGCG 60.465 57.143 19.77 19.77 39.08 4.26
1060 1065 2.030717 GCAAGCTCGAAGATCCGATCTA 60.031 50.000 11.39 0.00 39.08 1.98
1068 1073 0.610174 TGAGTGGCAAGCTCGAAGAT 59.390 50.000 0.00 0.00 35.85 2.40
1081 1086 3.276857 CTGAACTGGATGGATTGAGTGG 58.723 50.000 0.00 0.00 0.00 4.00
1448 3491 4.347453 CACCGGCTTGCTGTTGCC 62.347 66.667 0.00 0.00 45.25 4.52
1451 3494 2.972505 CGACACCGGCTTGCTGTT 60.973 61.111 0.00 0.00 0.00 3.16
1627 3678 4.615815 ATCTCCATGCCGAGCGCC 62.616 66.667 2.29 0.00 36.24 6.53
1864 3917 4.129148 AAGAAGGCGGCCATCCCC 62.129 66.667 23.09 4.96 0.00 4.81
2015 4068 1.872773 AGAAGAGCCGGGAAGAAGAT 58.127 50.000 2.18 0.00 0.00 2.40
2141 4197 8.747538 ATTAGTATACATGGGGTTGAGTTTTC 57.252 34.615 5.50 0.00 0.00 2.29
2146 4202 6.340962 TCGATTAGTATACATGGGGTTGAG 57.659 41.667 5.50 0.00 0.00 3.02
2176 4240 4.025480 GCTTTTCTCCATGCAACAAAAGTG 60.025 41.667 14.92 0.00 36.73 3.16
2211 4275 1.134551 TGATTCATGCACGGGATCGAA 60.135 47.619 0.00 0.00 40.11 3.71
2272 4337 7.851387 TGCGATTTACACACCAAGAATAATA 57.149 32.000 0.00 0.00 0.00 0.98
2273 4338 6.751514 TGCGATTTACACACCAAGAATAAT 57.248 33.333 0.00 0.00 0.00 1.28
2282 4347 5.041951 TGATTTCTTGCGATTTACACACC 57.958 39.130 0.00 0.00 0.00 4.16
2286 4351 5.794687 ACGATGATTTCTTGCGATTTACA 57.205 34.783 0.00 0.00 0.00 2.41
2294 4359 5.879237 TCCACAAATACGATGATTTCTTGC 58.121 37.500 0.00 0.00 0.00 4.01
2343 4452 0.716108 GCCGATGAGTGTTCGACAAG 59.284 55.000 0.00 0.00 38.88 3.16
2346 4455 1.154093 TCGCCGATGAGTGTTCGAC 60.154 57.895 0.00 0.00 38.88 4.20
2356 4465 0.914551 CGTGAGTTTAGTCGCCGATG 59.085 55.000 0.00 0.00 0.00 3.84
2357 4466 0.524862 ACGTGAGTTTAGTCGCCGAT 59.475 50.000 0.00 0.00 46.40 4.18
2371 4480 4.437121 CCTTCAAAAACGGTGTTAACGTGA 60.437 41.667 0.26 0.00 44.83 4.35
2374 4483 4.275838 TCCTTCAAAAACGGTGTTAACG 57.724 40.909 0.26 0.00 37.36 3.18
2387 4496 2.358619 CGGGCCCCATCCTTCAAA 59.641 61.111 18.66 0.00 0.00 2.69
2417 4526 5.584251 ACCAAGTGAAACGATTTGCATTTTT 59.416 32.000 0.00 0.00 45.86 1.94
2418 4527 5.115480 ACCAAGTGAAACGATTTGCATTTT 58.885 33.333 0.00 0.00 45.86 1.82
2419 4528 4.692228 ACCAAGTGAAACGATTTGCATTT 58.308 34.783 0.00 0.00 45.86 2.32
2420 4529 4.202101 TGACCAAGTGAAACGATTTGCATT 60.202 37.500 0.00 0.00 45.86 3.56
2421 4530 3.317711 TGACCAAGTGAAACGATTTGCAT 59.682 39.130 0.00 0.00 45.86 3.96
2422 4531 2.685388 TGACCAAGTGAAACGATTTGCA 59.315 40.909 0.00 0.00 45.86 4.08
2423 4532 3.347958 TGACCAAGTGAAACGATTTGC 57.652 42.857 0.00 0.00 45.86 3.68
2424 4533 7.647715 AGTTTAATGACCAAGTGAAACGATTTG 59.352 33.333 0.00 0.00 45.86 2.32
2425 4534 7.647715 CAGTTTAATGACCAAGTGAAACGATTT 59.352 33.333 0.00 0.00 45.86 2.17
2426 4535 7.138736 CAGTTTAATGACCAAGTGAAACGATT 58.861 34.615 0.00 0.00 45.86 3.34
2427 4536 6.293955 CCAGTTTAATGACCAAGTGAAACGAT 60.294 38.462 0.00 0.00 45.86 3.73
2428 4537 5.008217 CCAGTTTAATGACCAAGTGAAACGA 59.992 40.000 0.00 0.00 45.86 3.85
2429 4538 5.212194 CCAGTTTAATGACCAAGTGAAACG 58.788 41.667 0.00 0.00 45.86 3.60
2430 4539 5.068591 ACCCAGTTTAATGACCAAGTGAAAC 59.931 40.000 0.00 0.00 0.00 2.78
2431 4540 5.068460 CACCCAGTTTAATGACCAAGTGAAA 59.932 40.000 0.00 0.00 0.00 2.69
2432 4541 4.582656 CACCCAGTTTAATGACCAAGTGAA 59.417 41.667 0.00 0.00 0.00 3.18
2433 4542 4.141287 CACCCAGTTTAATGACCAAGTGA 58.859 43.478 0.00 0.00 0.00 3.41
2437 4546 4.507691 CCCTACACCCAGTTTAATGACCAA 60.508 45.833 0.00 0.00 0.00 3.67
2438 4547 3.009695 CCCTACACCCAGTTTAATGACCA 59.990 47.826 0.00 0.00 0.00 4.02
2464 4573 2.591715 GTGCACACGCTGAAGGGT 60.592 61.111 13.17 0.00 42.22 4.34
2465 4574 2.591429 TGTGCACACGCTGAAGGG 60.591 61.111 17.42 0.00 39.64 3.95
2466 4575 2.633657 GTGTGCACACGCTGAAGG 59.366 61.111 32.41 0.00 38.69 3.46
2474 4583 3.812053 AGAGAAGAGAAATGTGTGCACAC 59.188 43.478 37.28 37.28 45.05 3.82
2475 4584 4.077300 AGAGAAGAGAAATGTGTGCACA 57.923 40.909 17.42 17.42 46.44 4.57
2476 4585 5.210715 CAAAGAGAAGAGAAATGTGTGCAC 58.789 41.667 10.75 10.75 0.00 4.57
2485 4594 6.572509 CGGATGGAGTACAAAGAGAAGAGAAA 60.573 42.308 0.00 0.00 0.00 2.52
2492 4601 4.527038 AGAAACGGATGGAGTACAAAGAGA 59.473 41.667 0.00 0.00 0.00 3.10
2506 4615 7.865706 ATATGCAGACTAAAAAGAAACGGAT 57.134 32.000 0.00 0.00 0.00 4.18
2508 4617 9.490663 CTTTATATGCAGACTAAAAAGAAACGG 57.509 33.333 0.00 0.00 0.00 4.44
2523 4632 7.592938 TGACTTTGACCAAACTTTATATGCAG 58.407 34.615 0.00 0.00 0.00 4.41
2527 4636 8.409358 AGCTTGACTTTGACCAAACTTTATAT 57.591 30.769 0.00 0.00 0.00 0.86
2546 4655 7.219917 CGTTGATTCAAACTTTACAAAGCTTGA 59.780 33.333 13.75 13.75 44.67 3.02
2550 4659 7.167468 ACATCGTTGATTCAAACTTTACAAAGC 59.833 33.333 0.00 0.00 39.63 3.51
2576 4996 9.440773 CCACCGTAAGACTACATACATACTATA 57.559 37.037 0.00 0.00 43.02 1.31
2577 4997 8.159447 TCCACCGTAAGACTACATACATACTAT 58.841 37.037 0.00 0.00 43.02 2.12
2578 4998 7.508687 TCCACCGTAAGACTACATACATACTA 58.491 38.462 0.00 0.00 43.02 1.82
2579 4999 6.359804 TCCACCGTAAGACTACATACATACT 58.640 40.000 0.00 0.00 43.02 2.12
2580 5000 6.624352 TCCACCGTAAGACTACATACATAC 57.376 41.667 0.00 0.00 43.02 2.39
2581 5001 7.308169 CGATTCCACCGTAAGACTACATACATA 60.308 40.741 0.00 0.00 43.02 2.29
2582 5002 6.514541 CGATTCCACCGTAAGACTACATACAT 60.515 42.308 0.00 0.00 43.02 2.29
2583 5003 5.220912 CGATTCCACCGTAAGACTACATACA 60.221 44.000 0.00 0.00 43.02 2.29
2584 5004 5.008019 TCGATTCCACCGTAAGACTACATAC 59.992 44.000 0.00 0.00 43.02 2.39
2619 6215 2.163010 AGCTGTACTGCATAACGTACGT 59.837 45.455 24.38 16.72 38.99 3.57
2636 6292 4.397103 ACCATGTCAATGTGAATGTAGCTG 59.603 41.667 0.00 0.00 31.27 4.24
2927 7003 3.869272 CTCGCCATGAAGCACGCC 61.869 66.667 0.00 0.00 0.00 5.68
2928 7004 4.527157 GCTCGCCATGAAGCACGC 62.527 66.667 0.00 0.00 0.00 5.34
2929 7005 2.806856 GAGCTCGCCATGAAGCACG 61.807 63.158 14.47 2.61 0.00 5.34
2930 7006 1.094073 ATGAGCTCGCCATGAAGCAC 61.094 55.000 9.64 10.01 0.00 4.40
2931 7007 0.393402 AATGAGCTCGCCATGAAGCA 60.393 50.000 9.64 0.00 0.00 3.91
2932 7008 0.307146 GAATGAGCTCGCCATGAAGC 59.693 55.000 9.64 0.00 0.00 3.86
2933 7009 0.580578 CGAATGAGCTCGCCATGAAG 59.419 55.000 9.64 0.00 31.04 3.02
2934 7010 0.175531 TCGAATGAGCTCGCCATGAA 59.824 50.000 9.64 0.00 38.73 2.57
2935 7011 0.249197 CTCGAATGAGCTCGCCATGA 60.249 55.000 9.64 2.43 38.73 3.07
2936 7012 2.223509 CTCGAATGAGCTCGCCATG 58.776 57.895 9.64 0.00 38.73 3.66
2937 7013 4.746361 CTCGAATGAGCTCGCCAT 57.254 55.556 9.64 0.00 38.73 4.40
3026 7102 2.996153 TACCCGTACAAGGCCGCA 60.996 61.111 0.00 0.00 0.00 5.69
3029 7105 1.519246 GGAGTACCCGTACAAGGCC 59.481 63.158 7.69 0.00 38.48 5.19


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

AutoCloner maintained by Alex Coulton.