Multiple sequence alignment - TraesCS5B01G278400

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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 TraesCS5B01G278400 chr5B 100.000 2816 0 0 1 2816 464194266 464197081 0.000000e+00 5201.0
1 TraesCS5B01G278400 chr5B 92.913 1030 59 8 662 1682 464170641 464171665 0.000000e+00 1485.0
2 TraesCS5B01G278400 chr5B 86.786 613 67 8 1067 1678 464144552 464145151 0.000000e+00 671.0
3 TraesCS5B01G278400 chr5B 95.436 241 10 1 2577 2816 122528424 122528184 1.580000e-102 383.0
4 TraesCS5B01G278400 chr5B 95.339 236 11 0 2578 2813 356176852 356176617 2.650000e-100 375.0
5 TraesCS5B01G278400 chr5D 93.865 1842 89 10 1 1819 386588428 386590268 0.000000e+00 2754.0
6 TraesCS5B01G278400 chr5D 92.784 873 47 6 824 1682 386512674 386513544 0.000000e+00 1249.0
7 TraesCS5B01G278400 chr5D 90.811 555 45 6 2025 2577 386590391 386590941 0.000000e+00 737.0
8 TraesCS5B01G278400 chr5D 86.460 613 69 8 1067 1678 386209808 386210407 0.000000e+00 660.0
9 TraesCS5B01G278400 chr5D 91.988 337 22 5 505 837 386512321 386512656 4.250000e-128 468.0
10 TraesCS5B01G278400 chr5D 86.942 291 23 2 1681 1971 386514083 386514358 2.110000e-81 313.0
11 TraesCS5B01G278400 chr5D 91.228 114 10 0 343 456 386512203 386512316 3.760000e-34 156.0
12 TraesCS5B01G278400 chr5D 98.507 67 1 0 1917 1983 386590333 386590399 4.930000e-23 119.0
13 TraesCS5B01G278400 chr5D 100.000 43 0 0 1820 1862 386590291 386590333 2.330000e-11 80.5
14 TraesCS5B01G278400 chr5A 90.497 1873 115 27 1 1862 488049952 488051772 0.000000e+00 2414.0
15 TraesCS5B01G278400 chr5A 85.494 648 69 18 1036 1678 488038453 488039080 0.000000e+00 652.0
16 TraesCS5B01G278400 chr5A 88.448 554 46 9 680 1224 488046410 488046954 0.000000e+00 652.0
17 TraesCS5B01G278400 chr5A 91.898 469 26 1 1214 1682 488047430 488047886 0.000000e+00 645.0
18 TraesCS5B01G278400 chr5A 90.060 332 29 3 2246 2576 488052065 488052393 7.210000e-116 427.0
19 TraesCS5B01G278400 chr5A 88.055 293 16 7 1917 2191 488051772 488052063 2.090000e-86 329.0
20 TraesCS5B01G278400 chr6D 95.397 239 11 0 2578 2816 405428256 405428018 5.690000e-102 381.0
21 TraesCS5B01G278400 chr6D 94.583 240 13 0 2577 2816 405325121 405324882 3.430000e-99 372.0
22 TraesCS5B01G278400 chr6B 95.378 238 11 0 2576 2813 415610558 415610795 2.050000e-101 379.0
23 TraesCS5B01G278400 chr6B 94.958 238 11 1 2577 2813 438448356 438448593 3.430000e-99 372.0
24 TraesCS5B01G278400 chr6B 94.606 241 12 1 2577 2816 501252376 501252136 3.430000e-99 372.0
25 TraesCS5B01G278400 chr3B 95.021 241 10 2 2577 2816 498286938 498286699 7.360000e-101 377.0
26 TraesCS5B01G278400 chr2B 95.359 237 10 1 2578 2813 433022852 433023088 2.650000e-100 375.0


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 TraesCS5B01G278400 chr5B 464194266 464197081 2815 False 5201.000 5201 100.00000 1 2816 1 chr5B.!!$F3 2815
1 TraesCS5B01G278400 chr5B 464170641 464171665 1024 False 1485.000 1485 92.91300 662 1682 1 chr5B.!!$F2 1020
2 TraesCS5B01G278400 chr5B 464144552 464145151 599 False 671.000 671 86.78600 1067 1678 1 chr5B.!!$F1 611
3 TraesCS5B01G278400 chr5D 386588428 386590941 2513 False 922.625 2754 95.79575 1 2577 4 chr5D.!!$F3 2576
4 TraesCS5B01G278400 chr5D 386209808 386210407 599 False 660.000 660 86.46000 1067 1678 1 chr5D.!!$F1 611
5 TraesCS5B01G278400 chr5D 386512203 386514358 2155 False 546.500 1249 90.73550 343 1971 4 chr5D.!!$F2 1628
6 TraesCS5B01G278400 chr5A 488046410 488052393 5983 False 893.400 2414 89.79160 1 2576 5 chr5A.!!$F2 2575
7 TraesCS5B01G278400 chr5A 488038453 488039080 627 False 652.000 652 85.49400 1036 1678 1 chr5A.!!$F1 642

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
250 3798 0.106167 ATACGCTCCTGACTAGGCCA 60.106 55.0 5.01 0.00 44.22 5.36 F
269 3817 0.458260 AAGGTTGGCCAACGTTTGAC 59.542 50.0 38.22 25.53 44.07 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1537 5145 1.003355 CCAGATGTGGTTCACGGCT 60.003 57.895 0.00 0.0 39.30 5.52 R
2006 6178 1.153978 GTGTGGGCGCATTCATGTG 60.154 57.895 10.83 0.0 41.07 3.21 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
43 3586 3.120546 CGTCGGTGTAGACTAGAAAACGA 60.121 47.826 0.00 1.31 38.90 3.85
56 3599 6.046593 ACTAGAAAACGACAGACAACATTGA 58.953 36.000 0.00 0.00 0.00 2.57
130 3673 6.999950 ACCCATGGTTAACTAAAAATCCAAC 58.000 36.000 11.73 0.00 27.29 3.77
152 3699 8.197439 CCAACTCACAAAGAAAAGGTAGAAAAT 58.803 33.333 0.00 0.00 0.00 1.82
158 3705 8.802267 CACAAAGAAAAGGTAGAAAATATGGGA 58.198 33.333 0.00 0.00 0.00 4.37
161 3708 7.525158 AGAAAAGGTAGAAAATATGGGAGGA 57.475 36.000 0.00 0.00 0.00 3.71
162 3709 8.119062 AGAAAAGGTAGAAAATATGGGAGGAT 57.881 34.615 0.00 0.00 0.00 3.24
184 3731 6.094603 GGATGTGATCTTTGTAGCAAATCACT 59.905 38.462 19.83 11.34 44.10 3.41
188 3735 2.483877 TCTTTGTAGCAAATCACTGCCG 59.516 45.455 0.00 0.00 43.73 5.69
201 3748 1.080093 CTGCCGCGGAGTAGAAACA 60.080 57.895 33.48 13.85 0.00 2.83
210 3757 2.738643 CGGAGTAGAAACATCGGCACAT 60.739 50.000 0.00 0.00 0.00 3.21
211 3758 3.270877 GGAGTAGAAACATCGGCACATT 58.729 45.455 0.00 0.00 0.00 2.71
217 3764 0.516877 AACATCGGCACATTGTCACG 59.483 50.000 3.87 3.87 0.00 4.35
250 3798 0.106167 ATACGCTCCTGACTAGGCCA 60.106 55.000 5.01 0.00 44.22 5.36
266 3814 1.819905 CCAAGGTTGGCCAACGTTT 59.180 52.632 40.18 31.87 44.07 3.60
269 3817 0.458260 AAGGTTGGCCAACGTTTGAC 59.542 50.000 38.22 25.53 44.07 3.18
285 3833 1.112916 TGACGGTCAGAACTGGAGCA 61.113 55.000 6.76 0.00 35.97 4.26
298 3846 2.641815 ACTGGAGCAGAAGAACCAAGAT 59.358 45.455 0.00 0.00 35.18 2.40
334 3882 1.210155 GTTCTGCATGACAACGCCC 59.790 57.895 0.00 0.00 0.00 6.13
341 3889 1.522668 CATGACAACGCCCTCAAGAA 58.477 50.000 0.00 0.00 0.00 2.52
457 4005 4.142687 CCTTATTCCATGTCGAAAAACGCT 60.143 41.667 0.00 0.00 42.26 5.07
488 4036 2.481449 GCCACCGTAGATCGAAGACAAT 60.481 50.000 0.00 0.00 42.51 2.71
524 4079 4.431131 CCTGCCGCCATGGGTCTT 62.431 66.667 15.13 0.00 38.63 3.01
580 4135 3.437795 GGTCTCGTTCCTCGCCGA 61.438 66.667 0.00 0.00 39.67 5.54
601 4156 3.467226 GCCGGGGAAGATCGACCA 61.467 66.667 2.18 0.00 0.00 4.02
1099 4707 1.605992 CTCCATTCTCCAGCTGGCA 59.394 57.895 28.91 14.15 34.44 4.92
1378 4986 1.188219 TCCTCGCCTTCAAGAGCAGT 61.188 55.000 0.00 0.00 33.39 4.40
1459 5067 2.490217 CCGATCACGTTCGAGGCT 59.510 61.111 11.09 0.00 41.62 4.58
1780 5928 1.487142 GGGAAGGAGAAGGAAGTAGGC 59.513 57.143 0.00 0.00 0.00 3.93
1797 5945 0.037447 GGCAAGGAAGAACAGAGCCT 59.963 55.000 0.00 0.00 37.67 4.58
1878 6048 7.155328 AGAGTATTATGAGCACCTTTAATCCG 58.845 38.462 0.00 0.00 0.00 4.18
1891 6061 6.936900 CACCTTTAATCCGGATGAGTTGATAT 59.063 38.462 19.95 0.57 0.00 1.63
1902 6072 6.125029 GGATGAGTTGATATAATCATGGGGG 58.875 44.000 0.00 0.00 39.39 5.40
2006 6178 4.327680 AGAGTTCAAAATAGTGGACAGCC 58.672 43.478 0.00 0.00 28.33 4.85
2016 6188 2.570365 TGGACAGCCACATGAATGC 58.430 52.632 0.00 0.00 39.92 3.56
2017 6189 1.307355 TGGACAGCCACATGAATGCG 61.307 55.000 0.00 0.00 39.92 4.73
2024 6196 1.153978 CACATGAATGCGCCCACAC 60.154 57.895 4.18 0.00 0.00 3.82
2026 6198 1.177895 ACATGAATGCGCCCACACAA 61.178 50.000 4.18 0.00 0.00 3.33
2027 6199 0.038435 CATGAATGCGCCCACACAAA 60.038 50.000 4.18 0.00 0.00 2.83
2028 6200 0.678395 ATGAATGCGCCCACACAAAA 59.322 45.000 4.18 0.00 0.00 2.44
2074 6254 5.526479 ACAATGTGAGTGATCATGAGCATAC 59.474 40.000 17.94 16.07 0.00 2.39
2076 6256 6.661304 ATGTGAGTGATCATGAGCATACTA 57.339 37.500 17.94 3.81 0.00 1.82
2178 6365 0.964700 TCAATTGCAATCAACCGCCA 59.035 45.000 13.38 0.00 34.60 5.69
2206 6393 2.092323 GCTTCAAGGGTTGGATGTACC 58.908 52.381 0.00 0.00 39.54 3.34
2241 6429 6.481954 TTTCTAGAGAAAATTTGGAGCGTC 57.518 37.500 2.17 0.00 40.68 5.19
2244 6432 3.756117 AGAGAAAATTTGGAGCGTCCTT 58.244 40.909 0.00 0.00 37.46 3.36
2252 6440 2.341846 TGGAGCGTCCTTCTTGTTTT 57.658 45.000 5.77 0.00 37.46 2.43
2336 6524 9.474920 CTTCATAGAGGCAAAAACATAACAAAA 57.525 29.630 0.00 0.00 0.00 2.44
2392 6580 8.662781 ACAACATGTACCTATGATTATGTGAC 57.337 34.615 0.00 0.00 0.00 3.67
2414 6602 5.324409 ACACCATGTGAACAAACAGGATAT 58.676 37.500 0.49 0.00 36.96 1.63
2428 6616 0.037232 GGATATCGCACCTGCTACCC 60.037 60.000 0.00 0.00 39.32 3.69
2466 6654 2.551032 GGGCTGTGTTAAGCTTAACGTT 59.449 45.455 33.15 5.88 44.52 3.99
2479 6667 4.569564 AGCTTAACGTTGACGACTCTTTTT 59.430 37.500 11.99 0.00 43.02 1.94
2502 6691 2.187958 AGGCTGACAGTAATAGTGGCA 58.812 47.619 3.31 3.31 33.29 4.92
2517 6706 2.143419 GGCACCGGGATGATCCTCT 61.143 63.158 11.87 0.00 36.57 3.69
2525 6714 2.053244 GGGATGATCCTCTGTGTCCAT 58.947 52.381 11.87 0.00 36.57 3.41
2554 6743 3.478509 GCATCATCTTCTCCTCTTGCAT 58.521 45.455 0.00 0.00 0.00 3.96
2569 6758 6.261603 TCCTCTTGCATATTCATGTTCACATC 59.738 38.462 0.00 0.00 33.61 3.06
2571 6760 4.816786 TGCATATTCATGTTCACATCCG 57.183 40.909 0.00 0.00 33.61 4.18
2577 6766 2.503331 TCATGTTCACATCCGCAAGTT 58.497 42.857 0.00 0.00 33.61 2.66
2578 6767 2.226200 TCATGTTCACATCCGCAAGTTG 59.774 45.455 0.00 0.00 33.61 3.16
2579 6768 1.960417 TGTTCACATCCGCAAGTTGA 58.040 45.000 7.16 0.00 0.00 3.18
2580 6769 2.293170 TGTTCACATCCGCAAGTTGAA 58.707 42.857 7.16 0.00 0.00 2.69
2581 6770 2.685388 TGTTCACATCCGCAAGTTGAAA 59.315 40.909 7.16 0.00 0.00 2.69
2582 6771 3.243035 TGTTCACATCCGCAAGTTGAAAG 60.243 43.478 7.16 0.00 0.00 2.62
2583 6772 1.266718 TCACATCCGCAAGTTGAAAGC 59.733 47.619 7.16 0.00 0.00 3.51
2584 6773 1.001487 CACATCCGCAAGTTGAAAGCA 60.001 47.619 7.16 0.00 0.00 3.91
2585 6774 1.001378 ACATCCGCAAGTTGAAAGCAC 60.001 47.619 7.16 0.00 0.00 4.40
2586 6775 1.001487 CATCCGCAAGTTGAAAGCACA 60.001 47.619 7.16 0.00 0.00 4.57
2587 6776 0.662619 TCCGCAAGTTGAAAGCACAG 59.337 50.000 7.16 0.00 0.00 3.66
2588 6777 0.318107 CCGCAAGTTGAAAGCACAGG 60.318 55.000 7.16 0.00 0.00 4.00
2589 6778 0.662619 CGCAAGTTGAAAGCACAGGA 59.337 50.000 7.16 0.00 0.00 3.86
2590 6779 1.334419 CGCAAGTTGAAAGCACAGGAG 60.334 52.381 7.16 0.00 0.00 3.69
2591 6780 1.601412 GCAAGTTGAAAGCACAGGAGC 60.601 52.381 7.16 0.00 0.00 4.70
2593 6782 1.889545 AGTTGAAAGCACAGGAGCTC 58.110 50.000 4.71 4.71 45.89 4.09
2594 6783 0.877743 GTTGAAAGCACAGGAGCTCC 59.122 55.000 26.22 26.22 45.89 4.70
2595 6784 0.250901 TTGAAAGCACAGGAGCTCCC 60.251 55.000 29.54 13.90 45.89 4.30
2603 6792 2.790766 AGGAGCTCCCTGGGTGAT 59.209 61.111 29.54 12.45 45.61 3.06
2604 6793 1.083706 AGGAGCTCCCTGGGTGATT 59.916 57.895 29.54 4.11 45.61 2.57
2605 6794 0.551131 AGGAGCTCCCTGGGTGATTT 60.551 55.000 29.54 3.28 45.61 2.17
2606 6795 0.332972 GGAGCTCCCTGGGTGATTTT 59.667 55.000 23.19 0.60 0.00 1.82
2607 6796 1.467920 GAGCTCCCTGGGTGATTTTG 58.532 55.000 18.68 0.65 0.00 2.44
2608 6797 0.040204 AGCTCCCTGGGTGATTTTGG 59.960 55.000 18.68 0.00 0.00 3.28
2609 6798 0.251787 GCTCCCTGGGTGATTTTGGT 60.252 55.000 18.68 0.00 0.00 3.67
2610 6799 1.005450 GCTCCCTGGGTGATTTTGGTA 59.995 52.381 18.68 0.00 0.00 3.25
2611 6800 2.556559 GCTCCCTGGGTGATTTTGGTAA 60.557 50.000 18.68 0.00 0.00 2.85
2612 6801 3.881713 GCTCCCTGGGTGATTTTGGTAAT 60.882 47.826 18.68 0.00 0.00 1.89
2613 6802 4.352893 CTCCCTGGGTGATTTTGGTAATT 58.647 43.478 13.56 0.00 0.00 1.40
2614 6803 5.515106 CTCCCTGGGTGATTTTGGTAATTA 58.485 41.667 13.56 0.00 0.00 1.40
2615 6804 5.905088 TCCCTGGGTGATTTTGGTAATTAA 58.095 37.500 13.56 0.00 0.00 1.40
2616 6805 6.507568 TCCCTGGGTGATTTTGGTAATTAAT 58.492 36.000 13.56 0.00 0.00 1.40
2617 6806 6.382570 TCCCTGGGTGATTTTGGTAATTAATG 59.617 38.462 13.56 0.00 0.00 1.90
2618 6807 6.156083 CCCTGGGTGATTTTGGTAATTAATGT 59.844 38.462 3.97 0.00 0.00 2.71
2619 6808 7.264947 CCTGGGTGATTTTGGTAATTAATGTC 58.735 38.462 0.00 0.00 0.00 3.06
2620 6809 7.093552 CCTGGGTGATTTTGGTAATTAATGTCA 60.094 37.037 0.00 0.00 0.00 3.58
2621 6810 8.195165 TGGGTGATTTTGGTAATTAATGTCAA 57.805 30.769 0.00 0.00 0.00 3.18
2622 6811 8.091449 TGGGTGATTTTGGTAATTAATGTCAAC 58.909 33.333 0.00 0.00 0.00 3.18
2623 6812 8.091449 GGGTGATTTTGGTAATTAATGTCAACA 58.909 33.333 0.00 0.00 0.00 3.33
2624 6813 9.651913 GGTGATTTTGGTAATTAATGTCAACAT 57.348 29.630 0.00 0.00 38.41 2.71
2683 6872 8.641498 ATTTCAGATAAGTTCAACATTGGAGT 57.359 30.769 0.00 0.00 0.00 3.85
2684 6873 7.439157 TTCAGATAAGTTCAACATTGGAGTG 57.561 36.000 0.00 0.00 0.00 3.51
2685 6874 5.939883 TCAGATAAGTTCAACATTGGAGTGG 59.060 40.000 0.00 0.00 0.00 4.00
2686 6875 4.702131 AGATAAGTTCAACATTGGAGTGGC 59.298 41.667 0.00 0.00 0.00 5.01
2687 6876 2.363306 AGTTCAACATTGGAGTGGCA 57.637 45.000 0.00 0.00 0.00 4.92
2688 6877 2.233271 AGTTCAACATTGGAGTGGCAG 58.767 47.619 0.00 0.00 0.00 4.85
2689 6878 1.270550 GTTCAACATTGGAGTGGCAGG 59.729 52.381 0.00 0.00 0.00 4.85
2690 6879 0.770499 TCAACATTGGAGTGGCAGGA 59.230 50.000 0.00 0.00 0.00 3.86
2691 6880 1.355381 TCAACATTGGAGTGGCAGGAT 59.645 47.619 0.00 0.00 0.00 3.24
2692 6881 2.575735 TCAACATTGGAGTGGCAGGATA 59.424 45.455 0.00 0.00 0.00 2.59
2693 6882 3.010027 TCAACATTGGAGTGGCAGGATAA 59.990 43.478 0.00 0.00 0.00 1.75
2694 6883 3.287867 ACATTGGAGTGGCAGGATAAG 57.712 47.619 0.00 0.00 0.00 1.73
2695 6884 2.846206 ACATTGGAGTGGCAGGATAAGA 59.154 45.455 0.00 0.00 0.00 2.10
2696 6885 3.118112 ACATTGGAGTGGCAGGATAAGAG 60.118 47.826 0.00 0.00 0.00 2.85
2697 6886 1.500474 TGGAGTGGCAGGATAAGAGG 58.500 55.000 0.00 0.00 0.00 3.69
2698 6887 1.008327 TGGAGTGGCAGGATAAGAGGA 59.992 52.381 0.00 0.00 0.00 3.71
2699 6888 2.334023 GGAGTGGCAGGATAAGAGGAT 58.666 52.381 0.00 0.00 0.00 3.24
2700 6889 2.038295 GGAGTGGCAGGATAAGAGGATG 59.962 54.545 0.00 0.00 0.00 3.51
2701 6890 2.703007 GAGTGGCAGGATAAGAGGATGT 59.297 50.000 0.00 0.00 0.00 3.06
2702 6891 2.437281 AGTGGCAGGATAAGAGGATGTG 59.563 50.000 0.00 0.00 0.00 3.21
2703 6892 1.770658 TGGCAGGATAAGAGGATGTGG 59.229 52.381 0.00 0.00 0.00 4.17
2704 6893 2.050144 GGCAGGATAAGAGGATGTGGA 58.950 52.381 0.00 0.00 0.00 4.02
2705 6894 2.439507 GGCAGGATAAGAGGATGTGGAA 59.560 50.000 0.00 0.00 0.00 3.53
2706 6895 3.471680 GCAGGATAAGAGGATGTGGAAC 58.528 50.000 0.00 0.00 37.35 3.62
2707 6896 3.745797 GCAGGATAAGAGGATGTGGAACC 60.746 52.174 0.00 0.00 34.36 3.62
2708 6897 3.049344 AGGATAAGAGGATGTGGAACCC 58.951 50.000 0.00 0.00 34.36 4.11
2709 6898 2.106684 GGATAAGAGGATGTGGAACCCC 59.893 54.545 0.00 0.00 34.36 4.95
2710 6899 2.661176 TAAGAGGATGTGGAACCCCT 57.339 50.000 0.00 0.00 40.84 4.79
2711 6900 1.760405 AAGAGGATGTGGAACCCCTT 58.240 50.000 0.00 0.00 38.71 3.95
2712 6901 1.290134 AGAGGATGTGGAACCCCTTC 58.710 55.000 0.00 0.00 38.71 3.46
2713 6902 0.991920 GAGGATGTGGAACCCCTTCA 59.008 55.000 0.00 0.00 38.71 3.02
2714 6903 1.354368 GAGGATGTGGAACCCCTTCAA 59.646 52.381 0.00 0.00 38.71 2.69
2715 6904 1.355720 AGGATGTGGAACCCCTTCAAG 59.644 52.381 0.00 0.00 35.72 3.02
2716 6905 1.354368 GGATGTGGAACCCCTTCAAGA 59.646 52.381 0.00 0.00 34.36 3.02
2717 6906 2.024941 GGATGTGGAACCCCTTCAAGAT 60.025 50.000 0.00 0.00 34.36 2.40
2718 6907 2.584835 TGTGGAACCCCTTCAAGATG 57.415 50.000 0.00 0.00 34.36 2.90
2719 6908 1.177401 GTGGAACCCCTTCAAGATGC 58.823 55.000 0.00 0.00 0.00 3.91
2720 6909 1.075601 TGGAACCCCTTCAAGATGCT 58.924 50.000 0.00 0.00 0.00 3.79
2721 6910 2.026262 GTGGAACCCCTTCAAGATGCTA 60.026 50.000 0.00 0.00 0.00 3.49
2722 6911 2.647299 TGGAACCCCTTCAAGATGCTAA 59.353 45.455 0.00 0.00 0.00 3.09
2723 6912 3.282885 GGAACCCCTTCAAGATGCTAAG 58.717 50.000 0.00 0.00 0.00 2.18
2724 6913 3.282885 GAACCCCTTCAAGATGCTAAGG 58.717 50.000 0.00 0.00 39.63 2.69
2725 6914 2.562296 ACCCCTTCAAGATGCTAAGGA 58.438 47.619 0.00 0.00 42.01 3.36
2726 6915 3.126453 ACCCCTTCAAGATGCTAAGGAT 58.874 45.455 0.00 0.00 42.01 3.24
2727 6916 4.307259 ACCCCTTCAAGATGCTAAGGATA 58.693 43.478 0.00 0.00 42.01 2.59
2728 6917 4.726825 ACCCCTTCAAGATGCTAAGGATAA 59.273 41.667 0.00 0.00 42.01 1.75
2729 6918 5.193728 ACCCCTTCAAGATGCTAAGGATAAA 59.806 40.000 0.00 0.00 42.01 1.40
2730 6919 5.532779 CCCCTTCAAGATGCTAAGGATAAAC 59.467 44.000 0.00 0.00 42.01 2.01
2731 6920 6.122277 CCCTTCAAGATGCTAAGGATAAACA 58.878 40.000 0.00 0.00 42.01 2.83
2732 6921 6.774656 CCCTTCAAGATGCTAAGGATAAACAT 59.225 38.462 0.00 0.00 42.01 2.71
2733 6922 7.286316 CCCTTCAAGATGCTAAGGATAAACATT 59.714 37.037 0.00 0.00 42.01 2.71
2734 6923 9.342308 CCTTCAAGATGCTAAGGATAAACATTA 57.658 33.333 0.00 0.00 42.01 1.90
2745 6934 7.466746 AAGGATAAACATTAGCAAAAGCTCA 57.533 32.000 0.00 0.00 0.00 4.26
2746 6935 7.466746 AGGATAAACATTAGCAAAAGCTCAA 57.533 32.000 0.00 0.00 0.00 3.02
2747 6936 7.542025 AGGATAAACATTAGCAAAAGCTCAAG 58.458 34.615 0.00 0.00 0.00 3.02
2748 6937 7.394359 AGGATAAACATTAGCAAAAGCTCAAGA 59.606 33.333 0.00 0.00 0.00 3.02
2749 6938 7.486232 GGATAAACATTAGCAAAAGCTCAAGAC 59.514 37.037 0.00 0.00 0.00 3.01
2750 6939 6.396829 AAACATTAGCAAAAGCTCAAGACT 57.603 33.333 0.00 0.00 0.00 3.24
2751 6940 5.619625 ACATTAGCAAAAGCTCAAGACTC 57.380 39.130 0.00 0.00 0.00 3.36
2752 6941 5.312079 ACATTAGCAAAAGCTCAAGACTCT 58.688 37.500 0.00 0.00 0.00 3.24
2753 6942 6.467677 ACATTAGCAAAAGCTCAAGACTCTA 58.532 36.000 0.00 0.00 0.00 2.43
2754 6943 6.370166 ACATTAGCAAAAGCTCAAGACTCTAC 59.630 38.462 0.00 0.00 0.00 2.59
2755 6944 4.342862 AGCAAAAGCTCAAGACTCTACA 57.657 40.909 0.00 0.00 0.00 2.74
2756 6945 4.904241 AGCAAAAGCTCAAGACTCTACAT 58.096 39.130 0.00 0.00 0.00 2.29
2757 6946 5.312079 AGCAAAAGCTCAAGACTCTACATT 58.688 37.500 0.00 0.00 0.00 2.71
2758 6947 5.767168 AGCAAAAGCTCAAGACTCTACATTT 59.233 36.000 0.00 0.00 0.00 2.32
2759 6948 6.264067 AGCAAAAGCTCAAGACTCTACATTTT 59.736 34.615 0.00 0.00 0.00 1.82
2760 6949 6.580416 GCAAAAGCTCAAGACTCTACATTTTC 59.420 38.462 0.00 0.00 0.00 2.29
2761 6950 7.642669 CAAAAGCTCAAGACTCTACATTTTCA 58.357 34.615 0.00 0.00 0.00 2.69
2762 6951 7.992754 AAAGCTCAAGACTCTACATTTTCAT 57.007 32.000 0.00 0.00 0.00 2.57
2763 6952 7.992754 AAGCTCAAGACTCTACATTTTCATT 57.007 32.000 0.00 0.00 0.00 2.57
2764 6953 7.992754 AGCTCAAGACTCTACATTTTCATTT 57.007 32.000 0.00 0.00 0.00 2.32
2765 6954 8.401490 AGCTCAAGACTCTACATTTTCATTTT 57.599 30.769 0.00 0.00 0.00 1.82
2766 6955 9.507329 AGCTCAAGACTCTACATTTTCATTTTA 57.493 29.630 0.00 0.00 0.00 1.52
2767 6956 9.766277 GCTCAAGACTCTACATTTTCATTTTAG 57.234 33.333 0.00 0.00 0.00 1.85
2770 6959 9.831737 CAAGACTCTACATTTTCATTTTAGTGG 57.168 33.333 0.00 0.00 0.00 4.00
2771 6960 9.574516 AAGACTCTACATTTTCATTTTAGTGGT 57.425 29.630 0.00 0.00 0.00 4.16
2772 6961 9.220767 AGACTCTACATTTTCATTTTAGTGGTC 57.779 33.333 0.00 0.00 0.00 4.02
2773 6962 9.220767 GACTCTACATTTTCATTTTAGTGGTCT 57.779 33.333 0.00 0.00 0.00 3.85
2782 6971 9.567776 TTTTCATTTTAGTGGTCTAAGATCACA 57.432 29.630 9.62 0.00 45.18 3.58
2783 6972 9.739276 TTTCATTTTAGTGGTCTAAGATCACAT 57.261 29.630 9.62 0.00 45.18 3.21
2784 6973 9.739276 TTCATTTTAGTGGTCTAAGATCACATT 57.261 29.630 9.62 0.00 45.18 2.71
2785 6974 9.166173 TCATTTTAGTGGTCTAAGATCACATTG 57.834 33.333 9.62 1.11 45.18 2.82
2786 6975 9.166173 CATTTTAGTGGTCTAAGATCACATTGA 57.834 33.333 9.62 0.00 45.18 2.57
2787 6976 8.777865 TTTTAGTGGTCTAAGATCACATTGAG 57.222 34.615 9.62 0.00 45.18 3.02
2788 6977 7.482169 TTAGTGGTCTAAGATCACATTGAGT 57.518 36.000 9.62 0.00 45.18 3.41
2789 6978 5.971763 AGTGGTCTAAGATCACATTGAGTC 58.028 41.667 9.62 0.00 45.18 3.36
2790 6979 5.105146 AGTGGTCTAAGATCACATTGAGTCC 60.105 44.000 9.62 0.00 45.18 3.85
2791 6980 4.777366 TGGTCTAAGATCACATTGAGTCCA 59.223 41.667 0.00 0.00 0.00 4.02
2792 6981 5.426509 TGGTCTAAGATCACATTGAGTCCAT 59.573 40.000 0.00 0.00 0.00 3.41
2793 6982 6.611236 TGGTCTAAGATCACATTGAGTCCATA 59.389 38.462 0.00 0.00 0.00 2.74
2794 6983 7.151308 GGTCTAAGATCACATTGAGTCCATAG 58.849 42.308 0.00 0.00 0.00 2.23
2795 6984 7.151308 GTCTAAGATCACATTGAGTCCATAGG 58.849 42.308 0.00 0.00 0.00 2.57
2796 6985 7.014711 GTCTAAGATCACATTGAGTCCATAGGA 59.985 40.741 0.00 0.00 0.00 2.94
2797 6986 6.566079 AAGATCACATTGAGTCCATAGGAA 57.434 37.500 0.00 0.00 31.38 3.36
2798 6987 6.566079 AGATCACATTGAGTCCATAGGAAA 57.434 37.500 0.00 0.00 31.38 3.13
2799 6988 6.590068 AGATCACATTGAGTCCATAGGAAAG 58.410 40.000 0.00 0.00 31.38 2.62
2800 6989 5.762179 TCACATTGAGTCCATAGGAAAGT 57.238 39.130 0.00 0.00 31.38 2.66
2801 6990 5.734720 TCACATTGAGTCCATAGGAAAGTC 58.265 41.667 0.00 0.00 31.38 3.01
2802 6991 5.248248 TCACATTGAGTCCATAGGAAAGTCA 59.752 40.000 0.00 0.00 31.38 3.41
2803 6992 5.939883 CACATTGAGTCCATAGGAAAGTCAA 59.060 40.000 8.38 8.38 34.72 3.18
2804 6993 6.600822 CACATTGAGTCCATAGGAAAGTCAAT 59.399 38.462 11.11 11.11 38.40 2.57
2805 6994 7.770433 CACATTGAGTCCATAGGAAAGTCAATA 59.230 37.037 14.35 0.00 37.07 1.90
2806 6995 7.770897 ACATTGAGTCCATAGGAAAGTCAATAC 59.229 37.037 14.35 0.00 37.07 1.89
2807 6996 7.496346 TTGAGTCCATAGGAAAGTCAATACT 57.504 36.000 0.00 0.00 37.65 2.12
2808 6997 8.603898 TTGAGTCCATAGGAAAGTCAATACTA 57.396 34.615 0.00 0.00 33.75 1.82
2809 6998 8.783660 TGAGTCCATAGGAAAGTCAATACTAT 57.216 34.615 0.00 0.00 33.75 2.12
2810 6999 9.213777 TGAGTCCATAGGAAAGTCAATACTATT 57.786 33.333 0.00 0.00 33.75 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 3586 4.552355 CATGCACAATCAATGTTGTCTGT 58.448 39.130 0.00 0.00 41.46 3.41
102 3645 9.155785 TGGATTTTTAGTTAACCATGGGTTTAA 57.844 29.630 18.09 9.97 44.33 1.52
110 3653 8.472007 TGTGAGTTGGATTTTTAGTTAACCAT 57.528 30.769 0.88 0.00 0.00 3.55
118 3661 9.034544 CCTTTTCTTTGTGAGTTGGATTTTTAG 57.965 33.333 0.00 0.00 0.00 1.85
124 3667 6.601332 TCTACCTTTTCTTTGTGAGTTGGAT 58.399 36.000 0.00 0.00 0.00 3.41
130 3673 9.846248 CCATATTTTCTACCTTTTCTTTGTGAG 57.154 33.333 0.00 0.00 0.00 3.51
152 3699 5.221722 GCTACAAAGATCACATCCTCCCATA 60.222 44.000 0.00 0.00 0.00 2.74
158 3705 6.094603 GTGATTTGCTACAAAGATCACATCCT 59.905 38.462 16.30 0.00 43.63 3.24
161 3708 6.624423 GCAGTGATTTGCTACAAAGATCACAT 60.624 38.462 20.39 9.39 45.51 3.21
162 3709 5.335113 GCAGTGATTTGCTACAAAGATCACA 60.335 40.000 20.39 6.26 45.51 3.58
184 3731 0.459585 GATGTTTCTACTCCGCGGCA 60.460 55.000 23.51 10.64 0.00 5.69
188 3735 0.459585 TGCCGATGTTTCTACTCCGC 60.460 55.000 0.00 0.00 0.00 5.54
201 3748 0.321210 TTCCGTGACAATGTGCCGAT 60.321 50.000 0.00 0.00 0.00 4.18
210 3757 3.536570 TGAGATTTGTGTTCCGTGACAA 58.463 40.909 0.00 0.00 0.00 3.18
211 3758 3.186702 TGAGATTTGTGTTCCGTGACA 57.813 42.857 0.00 0.00 0.00 3.58
217 3764 3.309954 GGAGCGTATGAGATTTGTGTTCC 59.690 47.826 0.00 0.00 0.00 3.62
250 3798 0.458260 GTCAAACGTTGGCCAACCTT 59.542 50.000 36.75 29.42 38.03 3.50
266 3814 1.112916 TGCTCCAGTTCTGACCGTCA 61.113 55.000 0.29 0.29 0.00 4.35
269 3817 0.318441 TTCTGCTCCAGTTCTGACCG 59.682 55.000 1.00 0.00 32.61 4.79
285 3833 2.040412 GGGTGGACATCTTGGTTCTTCT 59.960 50.000 0.00 0.00 0.00 2.85
298 3846 3.073798 AGAACATACAATGTGGGTGGACA 59.926 43.478 0.00 0.00 44.07 4.02
334 3882 8.986477 TTTTTCTTCTTCAGGTTTTTCTTGAG 57.014 30.769 0.00 0.00 33.80 3.02
488 4036 5.137551 GCAGGGTAAGGGATAAATTTAGCA 58.862 41.667 14.91 0.00 0.00 3.49
580 4135 1.381327 TCGATCTTCCCCGGCTTCT 60.381 57.895 0.00 0.00 0.00 2.85
632 4187 5.023533 AGCATAATCGTTCTTTGCTCCTA 57.976 39.130 0.00 0.00 39.32 2.94
1038 4646 2.434884 CGGCTGCCATGTCTTCGT 60.435 61.111 20.29 0.00 0.00 3.85
1099 4707 3.775654 GCCGCCAGTAGCAGGAGT 61.776 66.667 0.00 0.00 44.04 3.85
1378 4986 2.089936 GTTGACGACGTATGCGCCA 61.090 57.895 4.18 0.00 42.83 5.69
1487 5095 1.971505 TAGAGCCGCACCTTCCCATG 61.972 60.000 0.00 0.00 0.00 3.66
1537 5145 1.003355 CCAGATGTGGTTCACGGCT 60.003 57.895 0.00 0.00 39.30 5.52
1780 5928 1.163554 GCAGGCTCTGTTCTTCCTTG 58.836 55.000 4.45 0.00 33.43 3.61
1862 6032 2.503765 TCATCCGGATTAAAGGTGCTCA 59.496 45.455 16.19 0.00 0.00 4.26
1878 6048 6.125029 CCCCCATGATTATATCAACTCATCC 58.875 44.000 0.00 0.00 43.50 3.51
1891 6061 3.181419 CCAATGGATCACCCCCATGATTA 60.181 47.826 0.00 0.00 43.20 1.75
1902 6072 9.010029 TCTTAGTTTTCTTTACCAATGGATCAC 57.990 33.333 6.16 0.00 0.00 3.06
2006 6178 1.153978 GTGTGGGCGCATTCATGTG 60.154 57.895 10.83 0.00 41.07 3.21
2028 6200 6.629128 TGTTGTCACTCATGTTGATGTTTTT 58.371 32.000 3.58 0.00 0.00 1.94
2030 6202 5.833406 TGTTGTCACTCATGTTGATGTTT 57.167 34.783 3.58 0.00 0.00 2.83
2032 6204 5.300034 ACATTGTTGTCACTCATGTTGATGT 59.700 36.000 3.58 1.22 28.27 3.06
2154 6334 1.726248 GGTTGATTGCAATTGAACGGC 59.274 47.619 14.33 4.93 36.22 5.68
2178 6365 6.840705 ACATCCAACCCTTGAAGCATAATATT 59.159 34.615 0.00 0.00 0.00 1.28
2216 6403 7.835554 GGACGCTCCAAATTTTCTCTAGAAAAG 60.836 40.741 19.44 8.85 44.65 2.27
2313 6501 8.816640 ACTTTTGTTATGTTTTTGCCTCTATG 57.183 30.769 0.00 0.00 0.00 2.23
2378 6566 7.280652 TGTTCACATGGTGTCACATAATCATAG 59.719 37.037 5.12 0.00 34.79 2.23
2380 6568 5.945191 TGTTCACATGGTGTCACATAATCAT 59.055 36.000 5.12 0.00 34.79 2.45
2392 6580 5.447683 CGATATCCTGTTTGTTCACATGGTG 60.448 44.000 0.00 0.00 34.45 4.17
2479 6667 4.224147 TGCCACTATTACTGTCAGCCTAAA 59.776 41.667 0.00 0.00 0.00 1.85
2482 6670 2.093447 GTGCCACTATTACTGTCAGCCT 60.093 50.000 0.00 0.00 0.00 4.58
2483 6671 2.280628 GTGCCACTATTACTGTCAGCC 58.719 52.381 0.00 0.00 0.00 4.85
2485 6673 2.540515 CGGTGCCACTATTACTGTCAG 58.459 52.381 0.00 0.00 0.00 3.51
2486 6674 1.206132 CCGGTGCCACTATTACTGTCA 59.794 52.381 0.00 0.00 0.00 3.58
2490 6679 1.416401 CATCCCGGTGCCACTATTACT 59.584 52.381 0.00 0.00 0.00 2.24
2496 6685 2.746375 GGATCATCCCGGTGCCACT 61.746 63.158 0.00 0.00 0.00 4.00
2502 6691 0.325671 ACACAGAGGATCATCCCGGT 60.326 55.000 3.23 0.00 37.19 5.28
2517 6706 2.435234 GCCGCCGTTATGGACACA 60.435 61.111 0.00 0.00 42.00 3.72
2525 6714 0.464036 AGAAGATGATGCCGCCGTTA 59.536 50.000 0.00 0.00 0.00 3.18
2554 6743 4.260985 ACTTGCGGATGTGAACATGAATA 58.739 39.130 0.00 0.00 36.57 1.75
2569 6758 0.318107 CCTGTGCTTTCAACTTGCGG 60.318 55.000 0.00 0.00 0.00 5.69
2571 6760 1.601412 GCTCCTGTGCTTTCAACTTGC 60.601 52.381 0.00 0.00 0.00 4.01
2577 6766 1.130054 AGGGAGCTCCTGTGCTTTCA 61.130 55.000 31.36 0.00 46.07 2.69
2578 6767 1.682257 AGGGAGCTCCTGTGCTTTC 59.318 57.895 31.36 12.73 46.07 2.62
2579 6768 3.913107 AGGGAGCTCCTGTGCTTT 58.087 55.556 31.36 6.74 46.07 3.51
2587 6776 0.332972 AAAATCACCCAGGGAGCTCC 59.667 55.000 25.59 25.59 0.00 4.70
2588 6777 1.467920 CAAAATCACCCAGGGAGCTC 58.532 55.000 14.54 4.71 0.00 4.09
2589 6778 0.040204 CCAAAATCACCCAGGGAGCT 59.960 55.000 14.54 0.00 0.00 4.09
2590 6779 0.251787 ACCAAAATCACCCAGGGAGC 60.252 55.000 14.54 0.00 0.00 4.70
2591 6780 3.449746 TTACCAAAATCACCCAGGGAG 57.550 47.619 14.54 3.89 0.00 4.30
2592 6781 4.412060 AATTACCAAAATCACCCAGGGA 57.588 40.909 14.54 0.00 0.00 4.20
2593 6782 6.156083 ACATTAATTACCAAAATCACCCAGGG 59.844 38.462 2.85 2.85 0.00 4.45
2594 6783 7.093552 TGACATTAATTACCAAAATCACCCAGG 60.094 37.037 0.00 0.00 0.00 4.45
2595 6784 7.835822 TGACATTAATTACCAAAATCACCCAG 58.164 34.615 0.00 0.00 0.00 4.45
2596 6785 7.782897 TGACATTAATTACCAAAATCACCCA 57.217 32.000 0.00 0.00 0.00 4.51
2597 6786 8.091449 TGTTGACATTAATTACCAAAATCACCC 58.909 33.333 0.00 0.00 0.00 4.61
2598 6787 9.651913 ATGTTGACATTAATTACCAAAATCACC 57.348 29.630 0.00 0.00 31.37 4.02
2657 6846 9.739276 ACTCCAATGTTGAACTTATCTGAAATA 57.261 29.630 0.00 0.00 0.00 1.40
2658 6847 8.517878 CACTCCAATGTTGAACTTATCTGAAAT 58.482 33.333 0.00 0.00 0.00 2.17
2659 6848 7.040478 CCACTCCAATGTTGAACTTATCTGAAA 60.040 37.037 0.00 0.00 0.00 2.69
2660 6849 6.430925 CCACTCCAATGTTGAACTTATCTGAA 59.569 38.462 0.00 0.00 0.00 3.02
2661 6850 5.939883 CCACTCCAATGTTGAACTTATCTGA 59.060 40.000 0.00 0.00 0.00 3.27
2662 6851 5.392380 GCCACTCCAATGTTGAACTTATCTG 60.392 44.000 0.00 0.00 0.00 2.90
2663 6852 4.702131 GCCACTCCAATGTTGAACTTATCT 59.298 41.667 0.00 0.00 0.00 1.98
2664 6853 4.458989 TGCCACTCCAATGTTGAACTTATC 59.541 41.667 0.00 0.00 0.00 1.75
2665 6854 4.406456 TGCCACTCCAATGTTGAACTTAT 58.594 39.130 0.00 0.00 0.00 1.73
2666 6855 3.820467 CTGCCACTCCAATGTTGAACTTA 59.180 43.478 0.00 0.00 0.00 2.24
2667 6856 2.624838 CTGCCACTCCAATGTTGAACTT 59.375 45.455 0.00 0.00 0.00 2.66
2668 6857 2.233271 CTGCCACTCCAATGTTGAACT 58.767 47.619 0.00 0.00 0.00 3.01
2669 6858 1.270550 CCTGCCACTCCAATGTTGAAC 59.729 52.381 0.00 0.00 0.00 3.18
2670 6859 1.144708 TCCTGCCACTCCAATGTTGAA 59.855 47.619 0.00 0.00 0.00 2.69
2671 6860 0.770499 TCCTGCCACTCCAATGTTGA 59.230 50.000 0.00 0.00 0.00 3.18
2672 6861 1.843368 ATCCTGCCACTCCAATGTTG 58.157 50.000 0.00 0.00 0.00 3.33
2673 6862 3.266772 TCTTATCCTGCCACTCCAATGTT 59.733 43.478 0.00 0.00 0.00 2.71
2674 6863 2.846206 TCTTATCCTGCCACTCCAATGT 59.154 45.455 0.00 0.00 0.00 2.71
2675 6864 3.474600 CTCTTATCCTGCCACTCCAATG 58.525 50.000 0.00 0.00 0.00 2.82
2676 6865 2.441001 CCTCTTATCCTGCCACTCCAAT 59.559 50.000 0.00 0.00 0.00 3.16
2677 6866 1.839994 CCTCTTATCCTGCCACTCCAA 59.160 52.381 0.00 0.00 0.00 3.53
2678 6867 1.008327 TCCTCTTATCCTGCCACTCCA 59.992 52.381 0.00 0.00 0.00 3.86
2679 6868 1.794714 TCCTCTTATCCTGCCACTCC 58.205 55.000 0.00 0.00 0.00 3.85
2680 6869 2.703007 ACATCCTCTTATCCTGCCACTC 59.297 50.000 0.00 0.00 0.00 3.51
2681 6870 2.437281 CACATCCTCTTATCCTGCCACT 59.563 50.000 0.00 0.00 0.00 4.00
2682 6871 2.486191 CCACATCCTCTTATCCTGCCAC 60.486 54.545 0.00 0.00 0.00 5.01
2683 6872 1.770658 CCACATCCTCTTATCCTGCCA 59.229 52.381 0.00 0.00 0.00 4.92
2684 6873 2.050144 TCCACATCCTCTTATCCTGCC 58.950 52.381 0.00 0.00 0.00 4.85
2685 6874 3.471680 GTTCCACATCCTCTTATCCTGC 58.528 50.000 0.00 0.00 0.00 4.85
2686 6875 3.181450 GGGTTCCACATCCTCTTATCCTG 60.181 52.174 0.00 0.00 0.00 3.86
2687 6876 3.049344 GGGTTCCACATCCTCTTATCCT 58.951 50.000 0.00 0.00 0.00 3.24
2688 6877 2.106684 GGGGTTCCACATCCTCTTATCC 59.893 54.545 0.00 0.00 0.00 2.59
2689 6878 3.049344 AGGGGTTCCACATCCTCTTATC 58.951 50.000 0.00 0.00 28.96 1.75
2690 6879 3.151542 AGGGGTTCCACATCCTCTTAT 57.848 47.619 0.00 0.00 28.96 1.73
2691 6880 2.661176 AGGGGTTCCACATCCTCTTA 57.339 50.000 0.00 0.00 28.96 2.10
2692 6881 1.636003 GAAGGGGTTCCACATCCTCTT 59.364 52.381 0.00 0.00 45.92 2.85
2693 6882 1.290134 GAAGGGGTTCCACATCCTCT 58.710 55.000 0.00 0.00 35.87 3.69
2694 6883 0.991920 TGAAGGGGTTCCACATCCTC 59.008 55.000 0.00 0.00 34.83 3.71
2695 6884 1.355720 CTTGAAGGGGTTCCACATCCT 59.644 52.381 0.00 0.00 34.83 3.24
2696 6885 1.354368 TCTTGAAGGGGTTCCACATCC 59.646 52.381 0.00 0.00 34.83 3.51
2697 6886 2.879103 TCTTGAAGGGGTTCCACATC 57.121 50.000 0.00 0.00 34.83 3.06
2698 6887 2.885554 GCATCTTGAAGGGGTTCCACAT 60.886 50.000 0.00 0.00 34.83 3.21
2699 6888 1.547675 GCATCTTGAAGGGGTTCCACA 60.548 52.381 0.00 0.00 34.83 4.17
2700 6889 1.177401 GCATCTTGAAGGGGTTCCAC 58.823 55.000 0.00 0.00 34.83 4.02
2701 6890 1.075601 AGCATCTTGAAGGGGTTCCA 58.924 50.000 0.00 0.00 34.83 3.53
2702 6891 3.282885 CTTAGCATCTTGAAGGGGTTCC 58.717 50.000 0.00 0.00 0.00 3.62
2703 6892 3.054361 TCCTTAGCATCTTGAAGGGGTTC 60.054 47.826 0.00 0.00 40.23 3.62
2704 6893 2.919602 TCCTTAGCATCTTGAAGGGGTT 59.080 45.455 0.00 0.00 40.23 4.11
2705 6894 2.562296 TCCTTAGCATCTTGAAGGGGT 58.438 47.619 0.00 0.00 40.23 4.95
2706 6895 3.872459 ATCCTTAGCATCTTGAAGGGG 57.128 47.619 0.00 0.00 40.23 4.79
2707 6896 6.122277 TGTTTATCCTTAGCATCTTGAAGGG 58.878 40.000 0.00 0.00 40.23 3.95
2708 6897 7.814264 ATGTTTATCCTTAGCATCTTGAAGG 57.186 36.000 0.00 0.00 41.03 3.46
2710 6899 8.840321 GCTAATGTTTATCCTTAGCATCTTGAA 58.160 33.333 8.27 0.00 44.17 2.69
2711 6900 7.992608 TGCTAATGTTTATCCTTAGCATCTTGA 59.007 33.333 11.10 0.00 46.88 3.02
2712 6901 8.158169 TGCTAATGTTTATCCTTAGCATCTTG 57.842 34.615 11.10 0.00 46.88 3.02
2718 6907 7.685532 GCTTTTGCTAATGTTTATCCTTAGC 57.314 36.000 6.59 6.59 44.63 3.09
2736 6925 7.642669 TGAAAATGTAGAGTCTTGAGCTTTTG 58.357 34.615 0.00 0.00 0.00 2.44
2737 6926 7.807977 TGAAAATGTAGAGTCTTGAGCTTTT 57.192 32.000 0.00 0.00 0.00 2.27
2738 6927 7.992754 ATGAAAATGTAGAGTCTTGAGCTTT 57.007 32.000 0.00 0.00 0.00 3.51
2739 6928 7.992754 AATGAAAATGTAGAGTCTTGAGCTT 57.007 32.000 0.00 0.00 0.00 3.74
2740 6929 7.992754 AAATGAAAATGTAGAGTCTTGAGCT 57.007 32.000 0.00 0.00 0.00 4.09
2741 6930 9.766277 CTAAAATGAAAATGTAGAGTCTTGAGC 57.234 33.333 0.00 0.00 0.00 4.26
2744 6933 9.831737 CCACTAAAATGAAAATGTAGAGTCTTG 57.168 33.333 0.00 0.00 0.00 3.02
2745 6934 9.574516 ACCACTAAAATGAAAATGTAGAGTCTT 57.425 29.630 0.00 0.00 0.00 3.01
2746 6935 9.220767 GACCACTAAAATGAAAATGTAGAGTCT 57.779 33.333 0.00 0.00 0.00 3.24
2747 6936 9.220767 AGACCACTAAAATGAAAATGTAGAGTC 57.779 33.333 0.00 0.00 0.00 3.36
2756 6945 9.567776 TGTGATCTTAGACCACTAAAATGAAAA 57.432 29.630 8.34 0.00 38.01 2.29
2757 6946 9.739276 ATGTGATCTTAGACCACTAAAATGAAA 57.261 29.630 8.34 0.00 38.01 2.69
2758 6947 9.739276 AATGTGATCTTAGACCACTAAAATGAA 57.261 29.630 8.34 0.00 38.01 2.57
2759 6948 9.166173 CAATGTGATCTTAGACCACTAAAATGA 57.834 33.333 8.34 0.00 38.01 2.57
2760 6949 9.166173 TCAATGTGATCTTAGACCACTAAAATG 57.834 33.333 8.34 0.87 38.01 2.32
2761 6950 9.388506 CTCAATGTGATCTTAGACCACTAAAAT 57.611 33.333 8.34 0.00 38.01 1.82
2762 6951 8.375506 ACTCAATGTGATCTTAGACCACTAAAA 58.624 33.333 8.34 0.00 38.01 1.52
2763 6952 7.907389 ACTCAATGTGATCTTAGACCACTAAA 58.093 34.615 8.34 0.00 38.01 1.85
2764 6953 7.363880 GGACTCAATGTGATCTTAGACCACTAA 60.364 40.741 8.34 0.00 37.13 2.24
2765 6954 6.096987 GGACTCAATGTGATCTTAGACCACTA 59.903 42.308 8.34 0.00 0.00 2.74
2766 6955 5.105146 GGACTCAATGTGATCTTAGACCACT 60.105 44.000 8.34 0.00 0.00 4.00
2767 6956 5.112686 GGACTCAATGTGATCTTAGACCAC 58.887 45.833 0.00 0.00 0.00 4.16
2768 6957 4.777366 TGGACTCAATGTGATCTTAGACCA 59.223 41.667 0.00 0.00 0.00 4.02
2769 6958 5.344743 TGGACTCAATGTGATCTTAGACC 57.655 43.478 0.00 0.00 0.00 3.85
2770 6959 7.014711 TCCTATGGACTCAATGTGATCTTAGAC 59.985 40.741 0.00 0.00 0.00 2.59
2771 6960 7.069344 TCCTATGGACTCAATGTGATCTTAGA 58.931 38.462 0.00 0.00 0.00 2.10
2772 6961 7.295322 TCCTATGGACTCAATGTGATCTTAG 57.705 40.000 0.00 0.00 0.00 2.18
2773 6962 7.675161 TTCCTATGGACTCAATGTGATCTTA 57.325 36.000 0.00 0.00 0.00 2.10
2774 6963 6.566079 TTCCTATGGACTCAATGTGATCTT 57.434 37.500 0.00 0.00 0.00 2.40
2775 6964 6.157645 ACTTTCCTATGGACTCAATGTGATCT 59.842 38.462 0.00 0.00 0.00 2.75
2776 6965 6.352516 ACTTTCCTATGGACTCAATGTGATC 58.647 40.000 0.00 0.00 0.00 2.92
2777 6966 6.070021 TGACTTTCCTATGGACTCAATGTGAT 60.070 38.462 0.00 0.00 0.00 3.06
2778 6967 5.248248 TGACTTTCCTATGGACTCAATGTGA 59.752 40.000 0.00 0.00 0.00 3.58
2779 6968 5.491070 TGACTTTCCTATGGACTCAATGTG 58.509 41.667 0.00 0.00 0.00 3.21
2780 6969 5.762179 TGACTTTCCTATGGACTCAATGT 57.238 39.130 0.00 0.00 0.00 2.71
2781 6970 7.989741 AGTATTGACTTTCCTATGGACTCAATG 59.010 37.037 16.07 0.00 34.36 2.82
2782 6971 8.095452 AGTATTGACTTTCCTATGGACTCAAT 57.905 34.615 13.39 13.39 35.99 2.57
2783 6972 7.496346 AGTATTGACTTTCCTATGGACTCAA 57.504 36.000 0.00 0.00 28.61 3.02
2784 6973 8.783660 ATAGTATTGACTTTCCTATGGACTCA 57.216 34.615 0.00 0.00 37.10 3.41


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

AutoCloner maintained by Alex Coulton.