Multiple sequence alignment - TraesCS2A01G044900

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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 TraesCS2A01G044900 chr2A 100.000 3952 0 0 1 3952 17682625 17678674 0.000000e+00 7299.0
1 TraesCS2A01G044900 chr2A 78.488 516 91 12 164 665 722110275 722110784 1.770000e-83 320.0
2 TraesCS2A01G044900 chr2A 86.420 81 7 3 3549 3629 760507545 760507469 7.040000e-13 86.1
3 TraesCS2A01G044900 chr2A 83.099 71 12 0 2456 2526 732963625 732963555 9.170000e-07 65.8
4 TraesCS2A01G044900 chr2A 97.222 36 1 0 3244 3279 2654215 2654250 1.190000e-05 62.1
5 TraesCS2A01G044900 chr2A 97.059 34 1 0 3242 3275 459911703 459911670 1.530000e-04 58.4
6 TraesCS2A01G044900 chr2D 89.295 3391 224 64 2 3354 15632536 15629247 0.000000e+00 4122.0
7 TraesCS2A01G044900 chr2D 89.981 519 33 10 3437 3952 15628342 15627840 0.000000e+00 652.0
8 TraesCS2A01G044900 chr2D 77.344 512 100 13 163 668 579906524 579906023 5.000000e-74 289.0
9 TraesCS2A01G044900 chr2D 76.344 465 95 13 204 661 615577863 615577407 6.600000e-58 235.0
10 TraesCS2A01G044900 chr2D 86.486 185 16 7 3038 3222 585734301 585734476 1.120000e-45 195.0
11 TraesCS2A01G044900 chr2D 97.561 41 1 0 3241 3281 485078722 485078762 1.970000e-08 71.3
12 TraesCS2A01G044900 chr2B 93.082 1966 91 22 847 2805 27737828 27735901 0.000000e+00 2835.0
13 TraesCS2A01G044900 chr2B 76.109 586 101 26 49 621 264574569 264574010 1.810000e-68 270.0
14 TraesCS2A01G044900 chr2B 85.075 134 12 6 3094 3226 82718475 82718349 3.200000e-26 130.0
15 TraesCS2A01G044900 chr2B 91.837 49 3 1 3576 3623 690723790 690723742 2.550000e-07 67.6
16 TraesCS2A01G044900 chr1A 78.168 1452 218 41 1088 2529 10249539 10248177 0.000000e+00 833.0
17 TraesCS2A01G044900 chr1A 75.743 404 77 17 171 561 21540153 21539758 2.430000e-42 183.0
18 TraesCS2A01G044900 chr1A 92.500 40 3 0 3241 3280 398121044 398121083 1.530000e-04 58.4
19 TraesCS2A01G044900 chr1A 100.000 31 0 0 3251 3281 575501823 575501853 1.530000e-04 58.4
20 TraesCS2A01G044900 chr1D 84.444 675 99 6 1236 1904 9011377 9010703 0.000000e+00 660.0
21 TraesCS2A01G044900 chr1D 76.516 643 119 19 50 665 325966084 325966721 4.930000e-84 322.0
22 TraesCS2A01G044900 chr4D 79.684 507 90 10 164 665 18398272 18398770 1.750000e-93 353.0
23 TraesCS2A01G044900 chr7B 75.718 696 129 34 1187 1863 701286540 701287214 2.960000e-81 313.0
24 TraesCS2A01G044900 chr7B 78.210 514 93 12 172 673 57848341 57847835 1.070000e-80 311.0
25 TraesCS2A01G044900 chr7B 75.000 624 122 19 2154 2774 701287661 701288253 1.410000e-64 257.0
26 TraesCS2A01G044900 chr7B 75.000 592 112 27 1290 1863 464344758 464344185 1.420000e-59 241.0
27 TraesCS2A01G044900 chr7A 75.540 695 132 32 1187 1863 701693454 701694128 1.380000e-79 307.0
28 TraesCS2A01G044900 chr7A 75.042 589 117 24 1290 1863 498230595 498230022 3.050000e-61 246.0
29 TraesCS2A01G044900 chr7A 74.038 624 128 21 2154 2774 701694352 701694944 1.430000e-54 224.0
30 TraesCS2A01G044900 chr7A 97.561 41 1 0 3241 3281 603573837 603573877 1.970000e-08 71.3
31 TraesCS2A01G044900 chr7A 97.436 39 1 0 3241 3279 680020397 680020359 2.550000e-07 67.6
32 TraesCS2A01G044900 chr7A 93.182 44 3 0 3241 3284 133087784 133087741 9.170000e-07 65.8
33 TraesCS2A01G044900 chr7D 75.857 671 122 34 1187 1838 611756683 611757332 4.960000e-79 305.0
34 TraesCS2A01G044900 chr7D 78.311 438 82 10 170 603 141489582 141489154 1.810000e-68 270.0
35 TraesCS2A01G044900 chr7D 75.979 562 107 23 1290 1837 446997649 446997102 8.420000e-67 265.0
36 TraesCS2A01G044900 chr7D 74.720 625 122 20 2154 2774 611757589 611758181 3.050000e-61 246.0
37 TraesCS2A01G044900 chr7D 93.750 48 2 1 53 100 114786180 114786226 1.970000e-08 71.3
38 TraesCS2A01G044900 chr7D 85.714 70 7 3 3557 3623 569396486 569396555 1.970000e-08 71.3
39 TraesCS2A01G044900 chr3B 75.920 652 119 25 46 665 504988466 504989111 2.310000e-77 300.0
40 TraesCS2A01G044900 chr3B 86.842 76 6 4 3557 3632 814903899 814903828 9.100000e-12 82.4
41 TraesCS2A01G044900 chr1B 75.563 622 114 23 71 665 633265849 633266459 5.030000e-69 272.0
42 TraesCS2A01G044900 chr1B 78.679 333 57 8 164 487 619104602 619104929 4.000000e-50 209.0
43 TraesCS2A01G044900 chr5B 83.482 224 30 7 3658 3875 527760388 527760610 6.700000e-48 202.0
44 TraesCS2A01G044900 chr5B 86.842 76 7 3 3553 3627 294125031 294124958 9.100000e-12 82.4
45 TraesCS2A01G044900 chr6A 77.607 326 64 7 164 486 500435820 500435501 5.210000e-44 189.0
46 TraesCS2A01G044900 chr6A 84.722 72 8 3 3557 3628 92905430 92905498 7.090000e-08 69.4
47 TraesCS2A01G044900 chr4A 91.566 83 5 1 3143 3225 299862286 299862206 3.230000e-21 113.0
48 TraesCS2A01G044900 chr5A 85.088 114 10 6 53 161 408459475 408459364 4.180000e-20 110.0
49 TraesCS2A01G044900 chr5A 77.586 116 21 5 51 161 708828338 708828223 9.170000e-07 65.8
50 TraesCS2A01G044900 chr3A 84.483 116 13 3 51 161 45187594 45187479 4.180000e-20 110.0
51 TraesCS2A01G044900 chr3A 92.683 41 2 1 54 94 712192088 712192127 1.530000e-04 58.4
52 TraesCS2A01G044900 chr6D 85.938 64 5 4 3565 3628 309042874 309042815 9.170000e-07 65.8
53 TraesCS2A01G044900 chr6B 81.928 83 10 4 3548 3630 439526438 439526361 9.170000e-07 65.8


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 TraesCS2A01G044900 chr2A 17678674 17682625 3951 True 7299.0 7299 100.0000 1 3952 1 chr2A.!!$R1 3951
1 TraesCS2A01G044900 chr2A 722110275 722110784 509 False 320.0 320 78.4880 164 665 1 chr2A.!!$F2 501
2 TraesCS2A01G044900 chr2D 15627840 15632536 4696 True 2387.0 4122 89.6380 2 3952 2 chr2D.!!$R3 3950
3 TraesCS2A01G044900 chr2D 579906023 579906524 501 True 289.0 289 77.3440 163 668 1 chr2D.!!$R1 505
4 TraesCS2A01G044900 chr2B 27735901 27737828 1927 True 2835.0 2835 93.0820 847 2805 1 chr2B.!!$R1 1958
5 TraesCS2A01G044900 chr2B 264574010 264574569 559 True 270.0 270 76.1090 49 621 1 chr2B.!!$R3 572
6 TraesCS2A01G044900 chr1A 10248177 10249539 1362 True 833.0 833 78.1680 1088 2529 1 chr1A.!!$R1 1441
7 TraesCS2A01G044900 chr1D 9010703 9011377 674 True 660.0 660 84.4440 1236 1904 1 chr1D.!!$R1 668
8 TraesCS2A01G044900 chr1D 325966084 325966721 637 False 322.0 322 76.5160 50 665 1 chr1D.!!$F1 615
9 TraesCS2A01G044900 chr7B 57847835 57848341 506 True 311.0 311 78.2100 172 673 1 chr7B.!!$R1 501
10 TraesCS2A01G044900 chr7B 701286540 701288253 1713 False 285.0 313 75.3590 1187 2774 2 chr7B.!!$F1 1587
11 TraesCS2A01G044900 chr7B 464344185 464344758 573 True 241.0 241 75.0000 1290 1863 1 chr7B.!!$R2 573
12 TraesCS2A01G044900 chr7A 701693454 701694944 1490 False 265.5 307 74.7890 1187 2774 2 chr7A.!!$F2 1587
13 TraesCS2A01G044900 chr7A 498230022 498230595 573 True 246.0 246 75.0420 1290 1863 1 chr7A.!!$R2 573
14 TraesCS2A01G044900 chr7D 611756683 611758181 1498 False 275.5 305 75.2885 1187 2774 2 chr7D.!!$F3 1587
15 TraesCS2A01G044900 chr7D 446997102 446997649 547 True 265.0 265 75.9790 1290 1837 1 chr7D.!!$R2 547
16 TraesCS2A01G044900 chr3B 504988466 504989111 645 False 300.0 300 75.9200 46 665 1 chr3B.!!$F1 619
17 TraesCS2A01G044900 chr1B 633265849 633266459 610 False 272.0 272 75.5630 71 665 1 chr1B.!!$F2 594

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
781 838 0.035739 TAGGGCCTCAAAACGGACAC 59.964 55.0 10.74 0.0 0.00 3.67 F
783 840 0.035739 GGGCCTCAAAACGGACACTA 59.964 55.0 0.84 0.0 0.00 2.74 F
794 857 0.040157 CGGACACTAAACGGACGTGA 60.040 55.0 0.00 0.0 33.13 4.35 F
2388 2675 0.390860 CCACGGAGGAGATGGTGATC 59.609 60.0 0.00 0.0 41.22 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2133 2418 1.004560 AGTCACCACGTCCTGCATG 60.005 57.895 0.00 0.0 0.00 4.06 R
2370 2657 1.339610 GAGATCACCATCTCCTCCGTG 59.660 57.143 0.00 0.0 46.83 4.94 R
2406 2693 4.060038 ACCGTGAACCCGCCTACG 62.060 66.667 0.00 0.0 39.67 3.51 R
3207 3500 0.899019 TCGGCAATGCTACACCTACA 59.101 50.000 4.82 0.0 0.00 2.74 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
36 37 3.181530 TGGCCCACCATGACCACA 61.182 61.111 0.00 0.00 42.67 4.17
37 38 2.360191 GGCCCACCATGACCACAT 59.640 61.111 0.00 0.00 37.19 3.21
146 155 3.152341 CATTCAGATTCATAGGCCACCC 58.848 50.000 5.01 0.00 0.00 4.61
188 218 1.280457 GTCATCACCCCTTCCTCACT 58.720 55.000 0.00 0.00 0.00 3.41
235 266 4.473199 CAGACAGTCGAAAAGTCATCGTA 58.527 43.478 13.49 0.00 40.99 3.43
249 280 3.322828 GTCATCGTACTAAGGCCCCATAA 59.677 47.826 0.00 0.00 0.00 1.90
252 283 3.853207 TCGTACTAAGGCCCCATAAGAT 58.147 45.455 0.00 0.00 0.00 2.40
258 289 1.453633 AGGCCCCATAAGATCAGCAT 58.546 50.000 0.00 0.00 0.00 3.79
259 290 1.785208 AGGCCCCATAAGATCAGCATT 59.215 47.619 0.00 0.00 0.00 3.56
260 291 1.891150 GGCCCCATAAGATCAGCATTG 59.109 52.381 0.00 0.00 0.00 2.82
273 306 0.537143 AGCATTGGAACAGCAACCGA 60.537 50.000 0.00 0.00 42.39 4.69
325 358 1.837439 TCCAACCTGAAGACACACTGT 59.163 47.619 0.00 0.00 0.00 3.55
365 419 4.097437 CCTGATCCATCAAAGACAACCATG 59.903 45.833 0.00 0.00 36.18 3.66
366 420 3.444742 TGATCCATCAAAGACAACCATGC 59.555 43.478 0.00 0.00 33.08 4.06
367 421 2.874014 TCCATCAAAGACAACCATGCA 58.126 42.857 0.00 0.00 0.00 3.96
368 422 3.433343 TCCATCAAAGACAACCATGCAT 58.567 40.909 0.00 0.00 0.00 3.96
372 426 3.145286 TCAAAGACAACCATGCATCGAA 58.855 40.909 0.00 0.00 0.00 3.71
506 562 0.039437 TCACCGTCTCGTCTTTCTGC 60.039 55.000 0.00 0.00 0.00 4.26
508 564 1.081376 CCGTCTCGTCTTTCTGCGT 60.081 57.895 0.00 0.00 0.00 5.24
514 570 2.638329 CGTCTTTCTGCGTAGGACG 58.362 57.895 14.04 14.04 45.88 4.79
622 679 1.623811 AGGCTAAAGAAGACGAGGCAA 59.376 47.619 0.00 0.00 38.81 4.52
673 730 1.541233 CCCTAGCCGCCTCTTATGTTG 60.541 57.143 0.00 0.00 0.00 3.33
674 731 1.139058 CCTAGCCGCCTCTTATGTTGT 59.861 52.381 0.00 0.00 0.00 3.32
675 732 2.205074 CTAGCCGCCTCTTATGTTGTG 58.795 52.381 0.00 0.00 0.00 3.33
677 734 1.993369 GCCGCCTCTTATGTTGTGGC 61.993 60.000 0.00 0.00 45.90 5.01
678 735 0.392998 CCGCCTCTTATGTTGTGGCT 60.393 55.000 0.00 0.00 40.65 4.75
679 736 1.453155 CGCCTCTTATGTTGTGGCTT 58.547 50.000 0.00 0.00 40.65 4.35
680 737 1.131126 CGCCTCTTATGTTGTGGCTTG 59.869 52.381 0.00 0.00 40.65 4.01
681 738 2.436417 GCCTCTTATGTTGTGGCTTGA 58.564 47.619 0.00 0.00 39.95 3.02
687 744 4.518970 TCTTATGTTGTGGCTTGAAGGTTC 59.481 41.667 0.00 0.00 0.00 3.62
713 770 1.825090 TCCTTCGCATGCAAGTGATT 58.175 45.000 19.57 0.00 0.00 2.57
722 779 6.661669 TCGCATGCAAGTGATTAGAAATATG 58.338 36.000 19.57 0.00 0.00 1.78
723 780 5.341462 CGCATGCAAGTGATTAGAAATATGC 59.659 40.000 19.57 0.00 35.22 3.14
724 781 6.210796 GCATGCAAGTGATTAGAAATATGCA 58.789 36.000 14.21 0.00 45.36 3.96
725 782 6.362551 GCATGCAAGTGATTAGAAATATGCAG 59.637 38.462 14.21 0.00 44.62 4.41
726 783 7.645402 CATGCAAGTGATTAGAAATATGCAGA 58.355 34.615 0.00 0.00 44.62 4.26
727 784 7.628769 TGCAAGTGATTAGAAATATGCAGAA 57.371 32.000 0.00 0.00 37.61 3.02
728 785 7.475015 TGCAAGTGATTAGAAATATGCAGAAC 58.525 34.615 0.00 0.00 37.61 3.01
729 786 7.121020 TGCAAGTGATTAGAAATATGCAGAACA 59.879 33.333 0.00 0.00 37.61 3.18
730 787 7.970061 GCAAGTGATTAGAAATATGCAGAACAA 59.030 33.333 0.00 0.00 33.00 2.83
731 788 9.844790 CAAGTGATTAGAAATATGCAGAACAAA 57.155 29.630 0.00 0.00 0.00 2.83
744 801 5.559770 TGCAGAACAAAATGAGGAGTATGA 58.440 37.500 0.00 0.00 0.00 2.15
767 824 8.997621 TGACTATATGAACGAATAAATAGGGC 57.002 34.615 0.00 0.00 0.00 5.19
781 838 0.035739 TAGGGCCTCAAAACGGACAC 59.964 55.000 10.74 0.00 0.00 3.67
783 840 0.035739 GGGCCTCAAAACGGACACTA 59.964 55.000 0.84 0.00 0.00 2.74
794 857 0.040157 CGGACACTAAACGGACGTGA 60.040 55.000 0.00 0.00 33.13 4.35
808 871 1.585006 CGTGAACGTGTAGGAGGCT 59.415 57.895 0.00 0.00 34.11 4.58
814 877 0.824759 ACGTGTAGGAGGCTGGATTC 59.175 55.000 0.00 0.00 0.00 2.52
821 884 2.045926 AGGCTGGATTCCGTGTGC 60.046 61.111 0.00 0.21 0.00 4.57
837 900 1.002366 GTGCGGATGCTCTTACACAG 58.998 55.000 0.00 0.00 43.34 3.66
842 905 4.673403 TGCTCTTACACAGCACGG 57.327 55.556 0.00 0.00 42.09 4.94
864 927 2.678836 AGCGAATACGATCGATCCTAGG 59.321 50.000 24.34 0.82 45.48 3.02
870 933 1.202952 ACGATCGATCCTAGGGAAGCT 60.203 52.381 24.34 0.00 34.34 3.74
871 934 1.889829 CGATCGATCCTAGGGAAGCTT 59.110 52.381 19.51 0.00 34.34 3.74
889 952 3.898529 GCTTTTGCTGATAGATCATGGC 58.101 45.455 0.00 0.00 43.35 4.40
932 995 1.796982 CGAGTCCATTCGAGCTCAGTG 60.797 57.143 15.40 8.65 43.03 3.66
937 1000 4.160439 AGTCCATTCGAGCTCAGTGAATTA 59.840 41.667 15.40 3.10 30.23 1.40
976 1039 7.587037 AATTGCATTTGCCGCCTATATATAT 57.413 32.000 0.00 0.00 41.18 0.86
977 1040 8.690203 AATTGCATTTGCCGCCTATATATATA 57.310 30.769 2.49 2.49 41.18 0.86
985 1048 6.937392 TGCCGCCTATATATATAACACACAA 58.063 36.000 4.06 0.00 0.00 3.33
1007 1070 2.097589 CAGTTACGTGCGTGTAAGTGTG 60.098 50.000 19.78 8.17 44.84 3.82
1008 1071 2.118683 GTTACGTGCGTGTAAGTGTGA 58.881 47.619 7.55 0.00 35.13 3.58
1016 1079 2.094700 GCGTGTAAGTGTGATCCAGAGA 60.095 50.000 0.00 0.00 0.00 3.10
1024 1087 2.036992 GTGTGATCCAGAGATAGCAGGG 59.963 54.545 0.00 0.00 30.90 4.45
1105 1168 2.513204 CAGCTGATGCAGGACCCG 60.513 66.667 8.42 0.00 42.74 5.28
1148 1211 4.794439 CGCTCGCCACCGTGATCA 62.794 66.667 0.00 0.00 35.54 2.92
1894 1969 3.665675 GAAGATGCGTGGCGGAGGT 62.666 63.158 0.00 0.00 0.00 3.85
2045 2120 2.602878 TCAAAGCCTTCGTCATCGTAC 58.397 47.619 0.00 0.00 38.33 3.67
2092 2377 2.102420 TCTTCTTGTTCTTCTGCCGTCA 59.898 45.455 0.00 0.00 0.00 4.35
2096 2381 4.637276 TCTTGTTCTTCTGCCGTCAATTA 58.363 39.130 0.00 0.00 0.00 1.40
2111 2396 6.347881 CCGTCAATTAAATTCTTCTCGATCG 58.652 40.000 9.36 9.36 0.00 3.69
2117 2402 8.592155 CAATTAAATTCTTCTCGATCGTACACA 58.408 33.333 15.94 0.00 0.00 3.72
2124 2409 2.949644 TCTCGATCGTACACATGGATGT 59.050 45.455 15.94 0.00 42.84 3.06
2125 2410 4.131596 TCTCGATCGTACACATGGATGTA 58.868 43.478 15.94 0.00 39.39 2.29
2154 2441 2.734723 CAGGACGTGGTGACTGCG 60.735 66.667 0.00 0.00 35.99 5.18
2223 2510 2.203877 AACCACCCGGAGTGCCTA 60.204 61.111 15.33 0.00 45.83 3.93
2388 2675 0.390860 CCACGGAGGAGATGGTGATC 59.609 60.000 0.00 0.00 41.22 2.92
2389 2676 1.407936 CACGGAGGAGATGGTGATCT 58.592 55.000 0.00 0.00 42.02 2.75
2805 3098 4.547367 GTCTAAGCCCGGCCGCAT 62.547 66.667 22.85 7.58 0.00 4.73
2806 3099 4.545706 TCTAAGCCCGGCCGCATG 62.546 66.667 22.85 11.68 0.00 4.06
2911 3204 3.005578 GTCAAGAGTGGTCGTTTCCTACT 59.994 47.826 0.00 0.00 0.00 2.57
2915 3208 3.757493 AGAGTGGTCGTTTCCTACTACTG 59.243 47.826 0.00 0.00 37.53 2.74
2982 3275 6.837048 AGGTGGTTCATAGGTTGTAACTTTTT 59.163 34.615 0.00 0.00 0.00 1.94
3103 3396 4.969484 TGAAACCTTCCTAACCAACTCTC 58.031 43.478 0.00 0.00 0.00 3.20
3104 3397 4.658901 TGAAACCTTCCTAACCAACTCTCT 59.341 41.667 0.00 0.00 0.00 3.10
3105 3398 4.893829 AACCTTCCTAACCAACTCTCTC 57.106 45.455 0.00 0.00 0.00 3.20
3106 3399 4.134933 ACCTTCCTAACCAACTCTCTCT 57.865 45.455 0.00 0.00 0.00 3.10
3107 3400 4.090819 ACCTTCCTAACCAACTCTCTCTC 58.909 47.826 0.00 0.00 0.00 3.20
3108 3401 3.449377 CCTTCCTAACCAACTCTCTCTCC 59.551 52.174 0.00 0.00 0.00 3.71
3109 3402 3.103080 TCCTAACCAACTCTCTCTCCC 57.897 52.381 0.00 0.00 0.00 4.30
3110 3403 2.112190 CCTAACCAACTCTCTCTCCCC 58.888 57.143 0.00 0.00 0.00 4.81
3111 3404 2.112190 CTAACCAACTCTCTCTCCCCC 58.888 57.143 0.00 0.00 0.00 5.40
3169 3462 5.893255 CCCTATCTCCAATCAAAATTGTCCA 59.107 40.000 0.00 0.00 40.63 4.02
3183 3476 7.540400 TCAAAATTGTCCATGTTGCTAATTACG 59.460 33.333 0.00 0.00 30.70 3.18
3184 3477 6.751514 AATTGTCCATGTTGCTAATTACGA 57.248 33.333 0.00 0.00 0.00 3.43
3185 3478 5.794687 TTGTCCATGTTGCTAATTACGAG 57.205 39.130 0.00 0.00 0.00 4.18
3190 3483 7.064134 TGTCCATGTTGCTAATTACGAGTAAAG 59.936 37.037 0.00 0.00 0.00 1.85
3214 3507 4.740205 CACGTAGCTGATTGTATGTAGGTG 59.260 45.833 0.00 0.00 0.00 4.00
3225 3518 1.953559 ATGTAGGTGTAGCATTGCCG 58.046 50.000 4.70 0.00 0.00 5.69
3226 3519 0.899019 TGTAGGTGTAGCATTGCCGA 59.101 50.000 4.70 0.00 0.00 5.54
3227 3520 1.484653 TGTAGGTGTAGCATTGCCGAT 59.515 47.619 4.70 0.00 0.00 4.18
3228 3521 2.696187 TGTAGGTGTAGCATTGCCGATA 59.304 45.455 4.70 0.00 0.00 2.92
3229 3522 2.240493 AGGTGTAGCATTGCCGATAC 57.760 50.000 4.70 2.39 0.00 2.24
3230 3523 1.762957 AGGTGTAGCATTGCCGATACT 59.237 47.619 4.70 0.00 0.00 2.12
3231 3524 2.135933 GGTGTAGCATTGCCGATACTC 58.864 52.381 4.70 2.96 0.00 2.59
3232 3525 2.224066 GGTGTAGCATTGCCGATACTCT 60.224 50.000 4.70 0.00 0.00 3.24
3233 3526 3.005472 GGTGTAGCATTGCCGATACTCTA 59.995 47.826 4.70 0.00 0.00 2.43
3234 3527 4.230657 GTGTAGCATTGCCGATACTCTAG 58.769 47.826 4.70 0.00 0.00 2.43
3235 3528 3.889538 TGTAGCATTGCCGATACTCTAGT 59.110 43.478 4.70 0.00 0.00 2.57
3236 3529 5.048921 GTGTAGCATTGCCGATACTCTAGTA 60.049 44.000 4.70 0.00 34.67 1.82
3237 3530 5.710567 TGTAGCATTGCCGATACTCTAGTAT 59.289 40.000 4.70 2.26 43.38 2.12
3238 3531 5.730296 AGCATTGCCGATACTCTAGTATT 57.270 39.130 4.70 0.00 40.99 1.89
3239 3532 6.102897 AGCATTGCCGATACTCTAGTATTT 57.897 37.500 4.70 0.00 40.99 1.40
3240 3533 6.159988 AGCATTGCCGATACTCTAGTATTTC 58.840 40.000 4.70 0.00 40.99 2.17
3246 3539 5.124297 GCCGATACTCTAGTATTTCTCCCTC 59.876 48.000 4.21 0.00 40.99 4.30
3254 3547 3.959920 AGTATTTCTCCCTCCATCCCAT 58.040 45.455 0.00 0.00 0.00 4.00
3265 3558 7.744068 TCTCCCTCCATCCCATAATATAAAAGT 59.256 37.037 0.00 0.00 0.00 2.66
3343 3636 7.865385 TCTTATATTTTTATTTGGCATGGTCGC 59.135 33.333 0.00 0.00 0.00 5.19
3354 3647 3.202906 GGCATGGTCGCTGTTATTAGAA 58.797 45.455 0.00 0.00 0.00 2.10
3355 3648 3.815401 GGCATGGTCGCTGTTATTAGAAT 59.185 43.478 0.00 0.00 0.00 2.40
3357 3650 5.107065 GGCATGGTCGCTGTTATTAGAATAC 60.107 44.000 0.00 0.00 0.00 1.89
3358 3651 5.465390 GCATGGTCGCTGTTATTAGAATACA 59.535 40.000 0.00 0.00 0.00 2.29
3359 3652 6.018262 GCATGGTCGCTGTTATTAGAATACAA 60.018 38.462 0.00 0.00 0.00 2.41
3360 3653 7.466725 GCATGGTCGCTGTTATTAGAATACAAA 60.467 37.037 0.00 0.00 0.00 2.83
3361 3654 7.298507 TGGTCGCTGTTATTAGAATACAAAC 57.701 36.000 0.00 0.00 0.00 2.93
3363 3656 7.148540 TGGTCGCTGTTATTAGAATACAAACAC 60.149 37.037 0.00 0.00 0.00 3.32
3364 3657 7.148540 GGTCGCTGTTATTAGAATACAAACACA 60.149 37.037 0.00 0.00 0.00 3.72
3365 3658 8.388103 GTCGCTGTTATTAGAATACAAACACAT 58.612 33.333 0.00 0.00 0.00 3.21
3366 3659 8.600625 TCGCTGTTATTAGAATACAAACACATC 58.399 33.333 0.00 0.00 0.00 3.06
3368 3661 8.893727 GCTGTTATTAGAATACAAACACATCCT 58.106 33.333 0.00 0.00 0.00 3.24
3382 3675 9.855021 ACAAACACATCCTTTAAAATACTATGC 57.145 29.630 0.00 0.00 0.00 3.14
3385 3678 8.451908 ACACATCCTTTAAAATACTATGCTCC 57.548 34.615 0.00 0.00 0.00 4.70
3387 3680 7.721399 CACATCCTTTAAAATACTATGCTCCCT 59.279 37.037 0.00 0.00 0.00 4.20
3388 3681 8.945193 ACATCCTTTAAAATACTATGCTCCCTA 58.055 33.333 0.00 0.00 0.00 3.53
3389 3682 9.442047 CATCCTTTAAAATACTATGCTCCCTAG 57.558 37.037 0.00 0.00 0.00 3.02
3391 3684 8.999895 TCCTTTAAAATACTATGCTCCCTAGTT 58.000 33.333 0.00 0.00 31.96 2.24
3392 3685 9.628500 CCTTTAAAATACTATGCTCCCTAGTTT 57.372 33.333 0.00 0.00 31.96 2.66
3401 3694 7.510407 ACTATGCTCCCTAGTTTTTAAGATCC 58.490 38.462 0.00 0.00 0.00 3.36
3403 3696 7.691993 ATGCTCCCTAGTTTTTAAGATCCTA 57.308 36.000 0.00 0.00 0.00 2.94
3404 3697 7.125792 TGCTCCCTAGTTTTTAAGATCCTAG 57.874 40.000 0.00 0.00 0.00 3.02
3406 3699 7.569111 TGCTCCCTAGTTTTTAAGATCCTAGAT 59.431 37.037 0.00 0.00 0.00 1.98
3407 3700 8.433599 GCTCCCTAGTTTTTAAGATCCTAGATT 58.566 37.037 0.00 0.00 0.00 2.40
3408 3701 9.990360 CTCCCTAGTTTTTAAGATCCTAGATTC 57.010 37.037 0.00 0.00 0.00 2.52
3409 3702 9.502035 TCCCTAGTTTTTAAGATCCTAGATTCA 57.498 33.333 0.00 0.00 0.00 2.57
3417 3710 9.632638 TTTTAAGATCCTAGATTCAATTGAGGG 57.367 33.333 8.41 7.51 0.00 4.30
3418 3711 5.240013 AGATCCTAGATTCAATTGAGGGC 57.760 43.478 8.41 2.49 0.00 5.19
3419 3712 4.662179 AGATCCTAGATTCAATTGAGGGCA 59.338 41.667 8.41 0.00 0.00 5.36
3420 3713 4.860802 TCCTAGATTCAATTGAGGGCAA 57.139 40.909 8.41 0.00 38.60 4.52
3421 3714 4.526970 TCCTAGATTCAATTGAGGGCAAC 58.473 43.478 8.41 0.00 36.72 4.17
3423 3716 4.891756 CCTAGATTCAATTGAGGGCAACAT 59.108 41.667 8.41 0.00 36.72 2.71
3425 3718 5.080969 AGATTCAATTGAGGGCAACATTG 57.919 39.130 8.41 0.00 36.72 2.82
3604 4719 5.766670 TGCCATGGTTGAAGATGAATAGATC 59.233 40.000 14.67 0.00 0.00 2.75
3606 4721 5.410746 CCATGGTTGAAGATGAATAGATCGG 59.589 44.000 2.57 0.00 0.00 4.18
3607 4722 5.614324 TGGTTGAAGATGAATAGATCGGT 57.386 39.130 0.00 0.00 0.00 4.69
3623 4738 4.389077 AGATCGGTAGTTTTCTCGCAAAAG 59.611 41.667 0.00 0.00 0.00 2.27
3638 4753 4.081917 TCGCAAAAGAAAAACTTCCTTGGT 60.082 37.500 0.00 0.00 37.93 3.67
3792 4907 7.337938 TCACACCATATACATGTCTTTGTGAT 58.662 34.615 17.16 2.30 34.35 3.06
3795 4910 8.486210 ACACCATATACATGTCTTTGTGATAGT 58.514 33.333 17.16 0.77 0.00 2.12
3937 5055 8.052748 ACAAGACAATACTAAATATTCAGCCCA 58.947 33.333 0.00 0.00 30.54 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
124 131 3.181440 GGGTGGCCTATGAATCTGAATGA 60.181 47.826 3.32 0.00 0.00 2.57
128 135 1.770658 CTGGGTGGCCTATGAATCTGA 59.229 52.381 3.32 0.00 0.00 3.27
146 155 0.370273 GGCATTTGTAGTCGTCGCTG 59.630 55.000 0.00 0.00 0.00 5.18
188 218 0.396974 ACAAGTTTTGCCCAGCTCCA 60.397 50.000 0.00 0.00 0.00 3.86
235 266 2.373502 GCTGATCTTATGGGGCCTTAGT 59.626 50.000 0.84 0.00 0.00 2.24
249 280 2.490903 GTTGCTGTTCCAATGCTGATCT 59.509 45.455 0.00 0.00 0.00 2.75
252 283 0.961019 GGTTGCTGTTCCAATGCTGA 59.039 50.000 0.00 0.00 0.00 4.26
258 289 2.539338 GCGTCGGTTGCTGTTCCAA 61.539 57.895 0.00 0.00 0.00 3.53
259 290 2.970324 GCGTCGGTTGCTGTTCCA 60.970 61.111 0.00 0.00 0.00 3.53
260 291 3.723348 GGCGTCGGTTGCTGTTCC 61.723 66.667 0.00 0.00 0.00 3.62
279 312 7.036220 TCCTTCTGATCTACGCTTCTTTTTAG 58.964 38.462 0.00 0.00 0.00 1.85
281 314 5.794894 TCCTTCTGATCTACGCTTCTTTTT 58.205 37.500 0.00 0.00 0.00 1.94
332 365 2.831526 TGATGGATCAGGTCTTCGTTCA 59.168 45.455 0.00 0.00 32.11 3.18
344 398 3.444742 GCATGGTTGTCTTTGATGGATCA 59.555 43.478 0.00 0.00 34.44 2.92
365 419 2.626455 GCGGGATTCGTTCGATGC 59.374 61.111 0.00 0.00 41.72 3.91
366 420 1.540607 CTCGCGGGATTCGTTCGATG 61.541 60.000 0.00 0.00 41.72 3.84
367 421 1.299165 CTCGCGGGATTCGTTCGAT 60.299 57.895 0.00 0.00 41.72 3.59
368 422 1.721664 ATCTCGCGGGATTCGTTCGA 61.722 55.000 17.66 0.00 41.72 3.71
372 426 2.728817 GGATCTCGCGGGATTCGT 59.271 61.111 24.71 0.00 41.72 3.85
506 562 0.804933 GCTAGGGTTTGCGTCCTACG 60.805 60.000 0.00 0.00 45.88 3.51
508 564 0.978151 TTGCTAGGGTTTGCGTCCTA 59.022 50.000 0.00 0.00 34.75 2.94
514 570 8.492748 GTTTATTTAAGTTTTGCTAGGGTTTGC 58.507 33.333 0.00 0.00 0.00 3.68
545 601 2.355716 CCGACAGGAGGGCTTCATTTTA 60.356 50.000 0.00 0.00 41.02 1.52
577 634 1.665916 CATAGAGGCGCGGTGGATG 60.666 63.158 8.83 0.00 0.00 3.51
592 649 6.379133 TCGTCTTCTTTAGCCTTAAGGTCATA 59.621 38.462 22.55 10.64 37.57 2.15
606 663 3.259064 CCGATTTGCCTCGTCTTCTTTA 58.741 45.455 0.00 0.00 36.93 1.85
608 665 1.726853 CCGATTTGCCTCGTCTTCTT 58.273 50.000 0.00 0.00 36.93 2.52
649 706 0.105862 TAAGAGGCGGCTAGGGCTTA 60.106 55.000 13.24 12.55 43.66 3.09
652 709 1.004440 CATAAGAGGCGGCTAGGGC 60.004 63.158 13.24 0.00 37.82 5.19
673 730 2.587522 AGAAAGGAACCTTCAAGCCAC 58.412 47.619 6.56 0.00 34.84 5.01
674 731 3.222603 GAAGAAAGGAACCTTCAAGCCA 58.777 45.455 6.56 0.00 38.80 4.75
675 732 2.558795 GGAAGAAAGGAACCTTCAAGCC 59.441 50.000 6.56 3.75 40.25 4.35
681 738 2.158667 TGCGAAGGAAGAAAGGAACCTT 60.159 45.455 0.00 0.00 44.08 3.50
687 744 1.167851 TGCATGCGAAGGAAGAAAGG 58.832 50.000 14.09 0.00 0.00 3.11
700 757 6.210796 TGCATATTTCTAATCACTTGCATGC 58.789 36.000 11.82 11.82 34.24 4.06
713 770 8.806429 TCCTCATTTTGTTCTGCATATTTCTA 57.194 30.769 0.00 0.00 0.00 2.10
722 779 5.645497 AGTCATACTCCTCATTTTGTTCTGC 59.355 40.000 0.00 0.00 0.00 4.26
723 780 8.954950 ATAGTCATACTCCTCATTTTGTTCTG 57.045 34.615 0.00 0.00 0.00 3.02
729 786 9.698309 CGTTCATATAGTCATACTCCTCATTTT 57.302 33.333 0.00 0.00 0.00 1.82
730 787 9.078990 TCGTTCATATAGTCATACTCCTCATTT 57.921 33.333 0.00 0.00 0.00 2.32
731 788 8.637196 TCGTTCATATAGTCATACTCCTCATT 57.363 34.615 0.00 0.00 0.00 2.57
732 789 8.637196 TTCGTTCATATAGTCATACTCCTCAT 57.363 34.615 0.00 0.00 0.00 2.90
733 790 8.637196 ATTCGTTCATATAGTCATACTCCTCA 57.363 34.615 0.00 0.00 0.00 3.86
744 801 8.147244 AGGCCCTATTTATTCGTTCATATAGT 57.853 34.615 0.00 0.00 0.00 2.12
767 824 2.222445 CCGTTTAGTGTCCGTTTTGAGG 59.778 50.000 0.00 0.00 0.00 3.86
794 857 1.207329 GAATCCAGCCTCCTACACGTT 59.793 52.381 0.00 0.00 0.00 3.99
799 862 0.105039 CACGGAATCCAGCCTCCTAC 59.895 60.000 0.00 0.00 0.00 3.18
801 864 1.613630 ACACGGAATCCAGCCTCCT 60.614 57.895 0.00 0.00 0.00 3.69
837 900 1.597700 CGATCGTATTCGCTCCGTGC 61.598 60.000 7.03 0.00 36.96 5.34
842 905 2.904011 AGGATCGATCGTATTCGCTC 57.096 50.000 18.52 1.83 38.97 5.03
864 927 5.278364 CCATGATCTATCAGCAAAAGCTTCC 60.278 44.000 0.00 0.00 40.64 3.46
870 933 3.807553 TCGCCATGATCTATCAGCAAAA 58.192 40.909 0.00 0.00 40.64 2.44
871 934 3.473923 TCGCCATGATCTATCAGCAAA 57.526 42.857 0.00 0.00 40.64 3.68
889 952 4.572985 TGGTAGGTAAACGTATGGATCG 57.427 45.455 0.00 0.00 0.00 3.69
932 995 7.545265 TGCAATTAACAAGCTGGTGATTAATTC 59.455 33.333 13.88 11.06 34.69 2.17
937 1000 4.870123 TGCAATTAACAAGCTGGTGATT 57.130 36.364 0.00 0.00 0.00 2.57
976 1039 2.282026 CGCACGTAACTGTTGTGTGTTA 59.718 45.455 20.54 0.00 38.84 2.41
977 1040 1.061421 CGCACGTAACTGTTGTGTGTT 59.939 47.619 20.54 0.00 38.84 3.32
985 1048 2.121786 CACTTACACGCACGTAACTGT 58.878 47.619 0.00 0.00 0.00 3.55
1007 1070 1.274712 CCCCCTGCTATCTCTGGATC 58.725 60.000 0.00 0.00 33.71 3.36
1008 1071 0.570218 ACCCCCTGCTATCTCTGGAT 59.430 55.000 0.00 0.00 36.07 3.41
1105 1168 1.182385 CGAGGAGGGAGGCTATCACC 61.182 65.000 0.00 0.00 27.93 4.02
1888 1963 1.803943 CGTCTCTCCTTCACCTCCG 59.196 63.158 0.00 0.00 0.00 4.63
1894 1969 2.035155 TCCGGCGTCTCTCCTTCA 59.965 61.111 6.01 0.00 0.00 3.02
2045 2120 3.937706 AGATTGATTGAGAGCTTTGGTCG 59.062 43.478 0.00 0.00 35.00 4.79
2092 2377 8.697846 TGTGTACGATCGAGAAGAATTTAATT 57.302 30.769 24.34 0.00 0.00 1.40
2096 2381 5.520288 CCATGTGTACGATCGAGAAGAATTT 59.480 40.000 24.34 0.00 0.00 1.82
2133 2418 1.004560 AGTCACCACGTCCTGCATG 60.005 57.895 0.00 0.00 0.00 4.06
2370 2657 1.339610 GAGATCACCATCTCCTCCGTG 59.660 57.143 0.00 0.00 46.83 4.94
2406 2693 4.060038 ACCGTGAACCCGCCTACG 62.060 66.667 0.00 0.00 39.67 3.51
3081 3374 4.658901 AGAGAGTTGGTTAGGAAGGTTTCA 59.341 41.667 0.00 0.00 0.00 2.69
3109 3402 1.895131 CCAGTGTGAAAAATCAGGGGG 59.105 52.381 0.00 0.00 0.00 5.40
3110 3403 2.297033 CACCAGTGTGAAAAATCAGGGG 59.703 50.000 0.00 0.00 45.76 4.79
3111 3404 2.297033 CCACCAGTGTGAAAAATCAGGG 59.703 50.000 0.00 0.00 45.76 4.45
3112 3405 2.297033 CCCACCAGTGTGAAAAATCAGG 59.703 50.000 0.00 0.00 45.76 3.86
3113 3406 2.288395 GCCCACCAGTGTGAAAAATCAG 60.288 50.000 0.00 0.00 45.76 2.90
3114 3407 1.686052 GCCCACCAGTGTGAAAAATCA 59.314 47.619 0.00 0.00 45.76 2.57
3115 3408 1.000843 GGCCCACCAGTGTGAAAAATC 59.999 52.381 0.00 0.00 45.76 2.17
3116 3409 1.047801 GGCCCACCAGTGTGAAAAAT 58.952 50.000 0.00 0.00 45.76 1.82
3117 3410 1.045911 GGGCCCACCAGTGTGAAAAA 61.046 55.000 19.95 0.00 45.76 1.94
3118 3411 1.456705 GGGCCCACCAGTGTGAAAA 60.457 57.895 19.95 0.00 45.76 2.29
3119 3412 2.197324 GGGCCCACCAGTGTGAAA 59.803 61.111 19.95 0.00 45.76 2.69
3120 3413 3.897122 GGGGCCCACCAGTGTGAA 61.897 66.667 26.86 0.00 45.76 3.18
3124 3417 4.366684 GAAGGGGGCCCACCAGTG 62.367 72.222 24.36 0.00 42.91 3.66
3140 3433 7.895429 ACAATTTTGATTGGAGATAGGGAAAGA 59.105 33.333 0.00 0.00 35.93 2.52
3169 3462 6.455113 CGTGCTTTACTCGTAATTAGCAACAT 60.455 38.462 14.38 0.00 39.29 2.71
3190 3483 3.736252 CCTACATACAATCAGCTACGTGC 59.264 47.826 0.00 0.00 43.29 5.34
3207 3500 0.899019 TCGGCAATGCTACACCTACA 59.101 50.000 4.82 0.00 0.00 2.74
3214 3507 4.506886 ACTAGAGTATCGGCAATGCTAC 57.493 45.455 4.82 0.00 42.67 3.58
3225 3518 7.340999 GGATGGAGGGAGAAATACTAGAGTATC 59.659 44.444 0.00 0.00 40.10 2.24
3226 3519 7.186268 GGATGGAGGGAGAAATACTAGAGTAT 58.814 42.308 0.00 0.00 42.60 2.12
3227 3520 6.468945 GGGATGGAGGGAGAAATACTAGAGTA 60.469 46.154 0.00 0.00 34.67 2.59
3228 3521 5.399113 GGATGGAGGGAGAAATACTAGAGT 58.601 45.833 0.00 0.00 0.00 3.24
3229 3522 4.775253 GGGATGGAGGGAGAAATACTAGAG 59.225 50.000 0.00 0.00 0.00 2.43
3230 3523 4.172041 TGGGATGGAGGGAGAAATACTAGA 59.828 45.833 0.00 0.00 0.00 2.43
3231 3524 4.493618 TGGGATGGAGGGAGAAATACTAG 58.506 47.826 0.00 0.00 0.00 2.57
3232 3525 4.569676 TGGGATGGAGGGAGAAATACTA 57.430 45.455 0.00 0.00 0.00 1.82
3233 3526 3.438131 TGGGATGGAGGGAGAAATACT 57.562 47.619 0.00 0.00 0.00 2.12
3234 3527 5.843019 TTATGGGATGGAGGGAGAAATAC 57.157 43.478 0.00 0.00 0.00 1.89
3235 3528 9.812713 TTATATTATGGGATGGAGGGAGAAATA 57.187 33.333 0.00 0.00 0.00 1.40
3236 3529 8.715190 TTATATTATGGGATGGAGGGAGAAAT 57.285 34.615 0.00 0.00 0.00 2.17
3237 3530 8.532774 TTTATATTATGGGATGGAGGGAGAAA 57.467 34.615 0.00 0.00 0.00 2.52
3238 3531 8.532774 TTTTATATTATGGGATGGAGGGAGAA 57.467 34.615 0.00 0.00 0.00 2.87
3239 3532 7.744068 ACTTTTATATTATGGGATGGAGGGAGA 59.256 37.037 0.00 0.00 0.00 3.71
3240 3533 7.831193 CACTTTTATATTATGGGATGGAGGGAG 59.169 40.741 0.00 0.00 0.00 4.30
3279 3572 9.712305 AGCTGCCTAATTTATACAGTAGTATTG 57.288 33.333 0.00 0.00 41.15 1.90
3281 3574 8.532819 GGAGCTGCCTAATTTATACAGTAGTAT 58.467 37.037 0.00 0.00 43.23 2.12
3338 3631 7.148540 TGTGTTTGTATTCTAATAACAGCGACC 60.149 37.037 0.00 0.00 0.00 4.79
3359 3652 8.903820 GGAGCATAGTATTTTAAAGGATGTGTT 58.096 33.333 0.00 0.00 0.00 3.32
3360 3653 7.502561 GGGAGCATAGTATTTTAAAGGATGTGT 59.497 37.037 0.00 0.00 0.00 3.72
3361 3654 7.721399 AGGGAGCATAGTATTTTAAAGGATGTG 59.279 37.037 0.00 0.00 0.00 3.21
3363 3656 9.442047 CTAGGGAGCATAGTATTTTAAAGGATG 57.558 37.037 0.00 0.00 0.00 3.51
3364 3657 9.172060 ACTAGGGAGCATAGTATTTTAAAGGAT 57.828 33.333 0.00 0.00 31.71 3.24
3365 3658 8.562949 ACTAGGGAGCATAGTATTTTAAAGGA 57.437 34.615 0.00 0.00 31.71 3.36
3366 3659 9.628500 AAACTAGGGAGCATAGTATTTTAAAGG 57.372 33.333 0.00 0.00 33.15 3.11
3375 3668 8.648693 GGATCTTAAAAACTAGGGAGCATAGTA 58.351 37.037 0.00 0.00 33.15 1.82
3377 3670 7.740805 AGGATCTTAAAAACTAGGGAGCATAG 58.259 38.462 0.00 0.00 0.00 2.23
3378 3671 7.691993 AGGATCTTAAAAACTAGGGAGCATA 57.308 36.000 0.00 0.00 0.00 3.14
3380 3673 6.901300 TCTAGGATCTTAAAAACTAGGGAGCA 59.099 38.462 0.00 0.00 33.65 4.26
3381 3674 7.362802 TCTAGGATCTTAAAAACTAGGGAGC 57.637 40.000 0.00 0.00 33.65 4.70
3382 3675 9.990360 GAATCTAGGATCTTAAAAACTAGGGAG 57.010 37.037 0.00 0.00 33.65 4.30
3383 3676 9.502035 TGAATCTAGGATCTTAAAAACTAGGGA 57.498 33.333 0.00 0.00 33.65 4.20
3391 3684 9.632638 CCCTCAATTGAATCTAGGATCTTAAAA 57.367 33.333 9.88 0.00 0.00 1.52
3392 3685 7.721399 GCCCTCAATTGAATCTAGGATCTTAAA 59.279 37.037 9.88 0.00 0.00 1.52
3393 3686 7.147320 TGCCCTCAATTGAATCTAGGATCTTAA 60.147 37.037 9.88 0.00 0.00 1.85
3394 3687 6.329986 TGCCCTCAATTGAATCTAGGATCTTA 59.670 38.462 9.88 0.00 0.00 2.10
3395 3688 5.133322 TGCCCTCAATTGAATCTAGGATCTT 59.867 40.000 9.88 0.00 0.00 2.40
3400 3693 4.272489 TGTTGCCCTCAATTGAATCTAGG 58.728 43.478 9.88 6.65 34.29 3.02
3401 3694 6.270815 CAATGTTGCCCTCAATTGAATCTAG 58.729 40.000 9.88 0.00 34.29 2.43
3403 3696 5.080969 CAATGTTGCCCTCAATTGAATCT 57.919 39.130 9.88 0.00 34.29 2.40
3418 3711 4.823157 TCAATTCCCAATGAGCAATGTTG 58.177 39.130 0.00 0.00 0.00 3.33
3419 3712 5.246656 TCTTCAATTCCCAATGAGCAATGTT 59.753 36.000 0.00 0.00 0.00 2.71
3420 3713 4.773674 TCTTCAATTCCCAATGAGCAATGT 59.226 37.500 0.00 0.00 0.00 2.71
3421 3714 5.333299 TCTTCAATTCCCAATGAGCAATG 57.667 39.130 0.00 0.00 0.00 2.82
3423 3716 6.404623 CGTAATCTTCAATTCCCAATGAGCAA 60.405 38.462 0.00 0.00 0.00 3.91
3425 3718 5.296780 TCGTAATCTTCAATTCCCAATGAGC 59.703 40.000 0.00 0.00 0.00 4.26
3426 3719 6.925610 TCGTAATCTTCAATTCCCAATGAG 57.074 37.500 0.00 0.00 0.00 2.90
3428 3721 6.127758 TGGTTCGTAATCTTCAATTCCCAATG 60.128 38.462 0.00 0.00 0.00 2.82
3429 3722 5.949354 TGGTTCGTAATCTTCAATTCCCAAT 59.051 36.000 0.00 0.00 0.00 3.16
3430 3723 5.317808 TGGTTCGTAATCTTCAATTCCCAA 58.682 37.500 0.00 0.00 0.00 4.12
3431 3724 4.912586 TGGTTCGTAATCTTCAATTCCCA 58.087 39.130 0.00 0.00 0.00 4.37
3432 3725 5.183228 TCTGGTTCGTAATCTTCAATTCCC 58.817 41.667 0.00 0.00 0.00 3.97
3433 3726 6.106673 TCTCTGGTTCGTAATCTTCAATTCC 58.893 40.000 0.00 0.00 0.00 3.01
3434 3727 7.778470 ATCTCTGGTTCGTAATCTTCAATTC 57.222 36.000 0.00 0.00 0.00 2.17
3557 4672 8.726988 GGCAGTACAATGAACACTAGAAATAAA 58.273 33.333 0.00 0.00 0.00 1.40
3566 4681 3.084039 CCATGGCAGTACAATGAACACT 58.916 45.455 0.00 0.00 0.00 3.55
3572 4687 3.758023 TCTTCAACCATGGCAGTACAATG 59.242 43.478 13.04 0.00 0.00 2.82
3573 4688 4.032960 TCTTCAACCATGGCAGTACAAT 57.967 40.909 13.04 0.00 0.00 2.71
3575 4690 3.008923 TCATCTTCAACCATGGCAGTACA 59.991 43.478 13.04 0.00 0.00 2.90
3604 4719 4.461992 TTCTTTTGCGAGAAAACTACCG 57.538 40.909 0.00 0.00 32.95 4.02
3847 4962 6.431198 TTTTTACTCCGCCTATTAGCTTTG 57.569 37.500 0.00 0.00 0.00 2.77
3900 5018 4.593206 AGTATTGTCTTGTTCTGACCCTCA 59.407 41.667 0.00 0.00 33.83 3.86
3912 5030 8.450578 TGGGCTGAATATTTAGTATTGTCTTG 57.549 34.615 8.84 0.00 33.16 3.02


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

AutoCloner maintained by Alex Coulton.