Multiple sequence alignment - TraesCS2A01G213200

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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 TraesCS2A01G213200 chr2A 100.000 4442 0 0 1 4442 197794042 197789601 0.000000e+00 8203.0
1 TraesCS2A01G213200 chr2A 97.679 474 10 1 2698 3171 619125946 619126418 0.000000e+00 813.0
2 TraesCS2A01G213200 chr2A 95.498 422 10 4 2283 2699 619125399 619125816 0.000000e+00 665.0
3 TraesCS2A01G213200 chr2A 100.000 67 0 0 3858 3924 197790119 197790053 1.680000e-24 124.0
4 TraesCS2A01G213200 chr2A 100.000 67 0 0 3924 3990 197790185 197790119 1.680000e-24 124.0
5 TraesCS2A01G213200 chr2A 94.737 38 2 0 4005 4042 778918518 778918481 4.800000e-05 60.2
6 TraesCS2A01G213200 chr2D 93.651 2268 93 17 465 2699 183380033 183377784 0.000000e+00 3343.0
7 TraesCS2A01G213200 chr2D 92.431 1057 42 19 2698 3746 183377667 183376641 0.000000e+00 1474.0
8 TraesCS2A01G213200 chr2D 90.456 461 14 7 3924 4354 183376574 183376114 8.280000e-162 580.0
9 TraesCS2A01G213200 chr2D 91.358 162 5 5 3780 3932 183376652 183376491 3.480000e-51 213.0
10 TraesCS2A01G213200 chr2D 97.674 43 1 0 4005 4047 122866158 122866200 1.710000e-09 75.0
11 TraesCS2A01G213200 chr2B 92.604 1974 77 25 767 2699 239198009 239196064 0.000000e+00 2772.0
12 TraesCS2A01G213200 chr2B 87.361 1258 33 40 2698 3924 239195934 239194772 0.000000e+00 1327.0
13 TraesCS2A01G213200 chr2B 88.860 781 55 9 1 778 239198800 239198049 0.000000e+00 931.0
14 TraesCS2A01G213200 chr2B 88.036 560 22 12 3924 4438 239194845 239194286 4.880000e-174 621.0
15 TraesCS2A01G213200 chr7A 96.835 474 14 1 2698 3171 706110297 706109825 0.000000e+00 791.0
16 TraesCS2A01G213200 chr7A 97.996 449 8 1 2723 3171 205042377 205041930 0.000000e+00 778.0
17 TraesCS2A01G213200 chr7A 96.919 422 6 3 2283 2699 706110846 706110427 0.000000e+00 701.0
18 TraesCS2A01G213200 chr7A 95.161 372 10 3 2283 2649 205042736 205042368 8.280000e-162 580.0
19 TraesCS2A01G213200 chr5A 96.646 477 15 1 2695 3171 458456308 458456783 0.000000e+00 791.0
20 TraesCS2A01G213200 chr5A 95.807 477 18 2 2696 3171 435166863 435167338 0.000000e+00 769.0
21 TraesCS2A01G213200 chr5A 96.905 420 5 3 2283 2697 435166317 435166733 0.000000e+00 697.0
22 TraesCS2A01G213200 chr5A 96.253 427 7 5 2279 2699 458455758 458456181 0.000000e+00 691.0
23 TraesCS2A01G213200 chr5A 97.239 326 8 1 2846 3171 234866536 234866860 6.490000e-153 551.0
24 TraesCS2A01G213200 chr5A 84.868 152 18 5 195 343 561110946 561111095 9.950000e-32 148.0
25 TraesCS2A01G213200 chr5A 83.553 152 20 5 195 343 542010494 542010345 2.150000e-28 137.0
26 TraesCS2A01G213200 chr4A 96.835 474 14 1 2698 3171 480996907 480997379 0.000000e+00 791.0
27 TraesCS2A01G213200 chr4A 96.445 422 9 3 2283 2699 480996357 480996777 0.000000e+00 691.0
28 TraesCS2A01G213200 chr4A 94.545 385 13 3 2283 2662 256221512 256221131 4.950000e-164 588.0
29 TraesCS2A01G213200 chr1A 96.835 474 13 2 2698 3171 204558358 204557887 0.000000e+00 791.0
30 TraesCS2A01G213200 chr1A 84.211 152 19 5 195 343 394425653 394425802 4.630000e-30 143.0
31 TraesCS2A01G213200 chr1A 83.553 152 20 5 195 343 394514015 394514164 2.150000e-28 137.0
32 TraesCS2A01G213200 chr3B 78.981 157 26 7 204 357 116113237 116113085 2.830000e-17 100.0
33 TraesCS2A01G213200 chr3D 95.122 41 2 0 4005 4045 250918759 250918799 1.030000e-06 65.8
34 TraesCS2A01G213200 chr3D 93.023 43 1 2 4005 4045 327568929 327568971 1.330000e-05 62.1
35 TraesCS2A01G213200 chr6D 92.857 42 3 0 4005 4046 221840812 221840853 1.330000e-05 62.1
36 TraesCS2A01G213200 chr1D 92.500 40 3 0 4010 4049 325484529 325484490 1.730000e-04 58.4
37 TraesCS2A01G213200 chr5B 86.538 52 4 3 4012 4060 437568987 437568936 2.000000e-03 54.7


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 TraesCS2A01G213200 chr2A 197789601 197794042 4441 True 2817.00 8203 100.00000 1 4442 3 chr2A.!!$R2 4441
1 TraesCS2A01G213200 chr2A 619125399 619126418 1019 False 739.00 813 96.58850 2283 3171 2 chr2A.!!$F1 888
2 TraesCS2A01G213200 chr2D 183376114 183380033 3919 True 1402.50 3343 91.97400 465 4354 4 chr2D.!!$R1 3889
3 TraesCS2A01G213200 chr2B 239194286 239198800 4514 True 1412.75 2772 89.21525 1 4438 4 chr2B.!!$R1 4437
4 TraesCS2A01G213200 chr7A 706109825 706110846 1021 True 746.00 791 96.87700 2283 3171 2 chr7A.!!$R2 888
5 TraesCS2A01G213200 chr7A 205041930 205042736 806 True 679.00 778 96.57850 2283 3171 2 chr7A.!!$R1 888
6 TraesCS2A01G213200 chr5A 458455758 458456783 1025 False 741.00 791 96.44950 2279 3171 2 chr5A.!!$F4 892
7 TraesCS2A01G213200 chr5A 435166317 435167338 1021 False 733.00 769 96.35600 2283 3171 2 chr5A.!!$F3 888
8 TraesCS2A01G213200 chr4A 480996357 480997379 1022 False 741.00 791 96.64000 2283 3171 2 chr4A.!!$F1 888

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
343 345 0.672401 ACGGGGTCAAACTATGCACG 60.672 55.0 0.00 0.0 0.00 5.34 F
1737 1818 0.096976 CGCCAAGATTTCGTTGCGAT 59.903 50.0 6.18 0.0 35.23 4.58 F
3154 3397 0.687354 GAAGAGCACCTGGACCAGAA 59.313 55.0 23.77 0.0 32.44 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1799 1880 0.657840 CGGGATCGAATCAGCAAACC 59.342 55.0 0.00 0.0 39.0 3.27 R
3181 3424 0.047176 TCTCTCCTCCTCCTCCTCCT 59.953 60.0 0.00 0.0 0.0 3.69 R
4378 4670 0.738389 AACAAGATATTTGCGCCCCG 59.262 50.0 4.18 0.0 0.0 5.73 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
53 54 2.549754 CAACAATTTGGCACTCGAGACT 59.450 45.455 21.68 0.00 0.00 3.24
61 62 4.371855 TGGCACTCGAGACTAATAACTG 57.628 45.455 21.68 4.37 0.00 3.16
62 63 3.130516 TGGCACTCGAGACTAATAACTGG 59.869 47.826 21.68 0.00 0.00 4.00
68 69 7.188157 CACTCGAGACTAATAACTGGACTAAC 58.812 42.308 21.68 0.00 0.00 2.34
70 71 7.081526 TCGAGACTAATAACTGGACTAACAC 57.918 40.000 0.00 0.00 0.00 3.32
165 167 5.241728 ACTCCATTGTGTTAGAAAAGAAGGC 59.758 40.000 0.00 0.00 0.00 4.35
202 204 8.332464 TGAAGACAAACACTATAAAGTTTCACG 58.668 33.333 0.00 0.00 35.90 4.35
229 231 7.913423 AGTTTCTACGAAAAACTACCAAGAAC 58.087 34.615 11.08 0.00 43.33 3.01
251 253 8.136165 AGAACTACGATACCAAGTTGATATCAC 58.864 37.037 16.04 1.12 33.72 3.06
329 331 4.638421 TGCTGACATTTTCTATAAACGGGG 59.362 41.667 0.00 0.00 0.00 5.73
341 343 2.279935 AAACGGGGTCAAACTATGCA 57.720 45.000 0.00 0.00 0.00 3.96
342 344 1.530323 AACGGGGTCAAACTATGCAC 58.470 50.000 0.00 0.00 0.00 4.57
343 345 0.672401 ACGGGGTCAAACTATGCACG 60.672 55.000 0.00 0.00 0.00 5.34
356 358 0.981183 ATGCACGGGTTAACTCCAGA 59.019 50.000 5.42 0.00 0.00 3.86
385 389 9.458374 AAAGTATAAACCTCATTTTCACAAACG 57.542 29.630 0.00 0.00 0.00 3.60
387 391 4.993029 AAACCTCATTTTCACAAACGGA 57.007 36.364 0.00 0.00 0.00 4.69
390 394 3.146066 CCTCATTTTCACAAACGGAGGA 58.854 45.455 9.93 0.00 43.46 3.71
400 404 7.989416 TTCACAAACGGAGGAAGTATATTTT 57.011 32.000 0.00 0.00 0.00 1.82
405 409 6.436843 AACGGAGGAAGTATATTTTTGCAG 57.563 37.500 0.00 0.00 0.00 4.41
408 412 5.504665 CGGAGGAAGTATATTTTTGCAGCAG 60.505 44.000 0.00 0.00 0.00 4.24
432 436 4.159377 TCAAATGGATGAAAAGCGTCAC 57.841 40.909 0.00 0.00 34.04 3.67
453 457 3.893326 CACTAGTGTGGTGATCATCCA 57.107 47.619 15.06 8.14 40.33 3.41
463 467 4.960938 TGGTGATCATCCACTTACATAGC 58.039 43.478 2.86 0.00 37.24 2.97
473 477 2.852413 CACTTACATAGCTCGTGAACCG 59.148 50.000 6.07 0.00 38.13 4.44
516 520 9.507280 GGTTATTGATATGGCAATATGAAATCG 57.493 33.333 0.00 0.00 39.65 3.34
555 559 7.546667 AGTGTTTAATTTCTATTCGGTTAGCGA 59.453 33.333 1.26 1.26 0.00 4.93
567 571 3.896888 TCGGTTAGCGAAGGGGAAATATA 59.103 43.478 3.38 0.00 0.00 0.86
611 615 3.489355 ACAAGATGCATGAGGAAACACA 58.511 40.909 2.46 0.00 34.69 3.72
667 672 1.069049 CCCAGGTTGACCAAAAAGCAG 59.931 52.381 2.56 0.00 38.89 4.24
679 684 3.859386 CCAAAAAGCAGGTAATTCATCGC 59.141 43.478 0.00 0.00 0.00 4.58
688 693 2.096713 GGTAATTCATCGCATCGTGAGC 60.097 50.000 0.00 0.00 0.00 4.26
690 695 1.945387 ATTCATCGCATCGTGAGCTT 58.055 45.000 0.00 0.00 0.00 3.74
770 826 3.296322 TTTGAATTTTCATCGCCGCTT 57.704 38.095 0.00 0.00 37.00 4.68
789 845 4.675671 CGCTTTTGTGTTGTAAGGGAAACA 60.676 41.667 0.00 0.00 34.77 2.83
796 852 4.336993 GTGTTGTAAGGGAAACATGTGACA 59.663 41.667 0.00 0.00 38.47 3.58
814 870 5.748152 TGTGACAAGCAAAAATGAAAGTAGC 59.252 36.000 0.00 0.00 0.00 3.58
845 901 7.552687 CCTAACTAACTTGTTTCCATATCTGCA 59.447 37.037 0.00 0.00 0.00 4.41
882 938 4.697828 TCATTCTAACCGCTATGCAACAAA 59.302 37.500 0.00 0.00 0.00 2.83
884 940 3.006940 TCTAACCGCTATGCAACAAAGG 58.993 45.455 0.00 0.00 0.00 3.11
886 942 1.616159 ACCGCTATGCAACAAAGGTT 58.384 45.000 0.00 0.00 37.87 3.50
887 943 1.539827 ACCGCTATGCAACAAAGGTTC 59.460 47.619 0.00 0.00 34.21 3.62
888 944 1.812571 CCGCTATGCAACAAAGGTTCT 59.187 47.619 0.00 0.00 34.21 3.01
948 1004 6.938698 TTTTCTACCCCAGTCTGTTATGTA 57.061 37.500 0.00 0.00 0.00 2.29
951 1007 7.504926 TTCTACCCCAGTCTGTTATGTATTT 57.495 36.000 0.00 0.00 0.00 1.40
952 1008 7.120923 TCTACCCCAGTCTGTTATGTATTTC 57.879 40.000 0.00 0.00 0.00 2.17
953 1009 5.772393 ACCCCAGTCTGTTATGTATTTCA 57.228 39.130 0.00 0.00 0.00 2.69
1042 1123 4.596585 CACCACCCCCACCACCAC 62.597 72.222 0.00 0.00 0.00 4.16
1126 1207 3.555324 GCCCTCCTAGCCTGCCTC 61.555 72.222 0.00 0.00 0.00 4.70
1355 1436 0.599204 GGCTTTCTTCGACACCGTGA 60.599 55.000 5.28 0.00 37.05 4.35
1438 1519 1.303236 CATGTGGCTCCCGGTGAAA 60.303 57.895 0.00 0.00 0.00 2.69
1459 1540 2.516460 ATCCTCGTCTCCGACCCG 60.516 66.667 0.00 0.00 38.40 5.28
1611 1692 3.970640 AGGGATAGTCCAGGTGAGATTTC 59.029 47.826 0.00 0.00 38.64 2.17
1613 1694 3.243907 GGATAGTCCAGGTGAGATTTCCG 60.244 52.174 0.00 0.00 36.28 4.30
1620 1701 1.827969 AGGTGAGATTTCCGTCTCTGG 59.172 52.381 5.61 0.00 43.96 3.86
1737 1818 0.096976 CGCCAAGATTTCGTTGCGAT 59.903 50.000 6.18 0.00 35.23 4.58
1750 1831 1.339929 GTTGCGATGGAGGTTTTGGTT 59.660 47.619 0.00 0.00 0.00 3.67
1758 1839 2.550606 TGGAGGTTTTGGTTCGAATTCG 59.449 45.455 21.78 21.78 41.45 3.34
1785 1866 2.288334 CCCAATCTCTCATCTGAGCTCG 60.288 54.545 9.64 4.19 41.80 5.03
1788 1869 1.106351 TCTCTCATCTGAGCTCGGCC 61.106 60.000 18.28 0.00 41.80 6.13
1789 1870 2.086251 CTCTCATCTGAGCTCGGCCC 62.086 65.000 18.28 0.00 41.80 5.80
1872 1953 3.446968 TCCCCTAGTCGATTGGAAGAAA 58.553 45.455 0.00 0.00 0.00 2.52
1896 1978 0.811616 CGGGGGATTCTTGAGCGAAG 60.812 60.000 0.00 0.00 0.00 3.79
1912 1994 2.124903 CGAAGATTGTTCGTATCCGGG 58.875 52.381 0.00 0.00 37.18 5.73
2116 2203 4.336889 TCAGTTATAGCTGAATTCGGGG 57.663 45.455 16.05 2.79 41.93 5.73
2126 2213 4.956075 AGCTGAATTCGGGGACAATAAATT 59.044 37.500 16.03 0.00 0.00 1.82
2131 2218 2.925724 TCGGGGACAATAAATTCGCAT 58.074 42.857 0.00 0.00 0.00 4.73
2246 2333 6.954487 ATCCCGACTTACCAAATTTAATCC 57.046 37.500 0.00 0.00 0.00 3.01
2490 2588 3.202818 TGTGATGGTGCATTAGGAGGATT 59.797 43.478 0.00 0.00 0.00 3.01
2533 2631 2.620115 CAAGTGGCAAGAAGAAGAGCAA 59.380 45.455 0.00 0.00 0.00 3.91
2574 2672 5.106157 GCACTCCTGCTCTTATTTGCTTTTA 60.106 40.000 0.00 0.00 40.63 1.52
2966 3203 0.739561 GCAGCGGCAGTACTAGTAGT 59.260 55.000 8.14 8.14 40.72 2.73
3041 3284 2.939103 CAGGCTACAGCTGGAATAACAC 59.061 50.000 19.93 0.00 41.70 3.32
3042 3285 2.571653 AGGCTACAGCTGGAATAACACA 59.428 45.455 19.93 0.00 41.70 3.72
3043 3286 2.939103 GGCTACAGCTGGAATAACACAG 59.061 50.000 19.93 0.00 41.70 3.66
3044 3287 2.939103 GCTACAGCTGGAATAACACAGG 59.061 50.000 19.93 0.00 38.21 4.00
3154 3397 0.687354 GAAGAGCACCTGGACCAGAA 59.313 55.000 23.77 0.00 32.44 3.02
3180 3423 2.306341 ATGAATGAGCGTGTGAGGAG 57.694 50.000 0.00 0.00 0.00 3.69
3181 3424 1.256812 TGAATGAGCGTGTGAGGAGA 58.743 50.000 0.00 0.00 0.00 3.71
3182 3425 1.203287 TGAATGAGCGTGTGAGGAGAG 59.797 52.381 0.00 0.00 0.00 3.20
3183 3426 0.534412 AATGAGCGTGTGAGGAGAGG 59.466 55.000 0.00 0.00 0.00 3.69
3184 3427 0.323816 ATGAGCGTGTGAGGAGAGGA 60.324 55.000 0.00 0.00 0.00 3.71
3185 3428 0.962855 TGAGCGTGTGAGGAGAGGAG 60.963 60.000 0.00 0.00 0.00 3.69
3224 3468 4.608948 AAGACAAGAAGACCGAGACAAT 57.391 40.909 0.00 0.00 0.00 2.71
3225 3469 3.919216 AGACAAGAAGACCGAGACAATG 58.081 45.455 0.00 0.00 0.00 2.82
3226 3470 2.413453 GACAAGAAGACCGAGACAATGC 59.587 50.000 0.00 0.00 0.00 3.56
3227 3471 2.224281 ACAAGAAGACCGAGACAATGCA 60.224 45.455 0.00 0.00 0.00 3.96
3228 3472 2.376808 AGAAGACCGAGACAATGCAG 57.623 50.000 0.00 0.00 0.00 4.41
3229 3473 1.895798 AGAAGACCGAGACAATGCAGA 59.104 47.619 0.00 0.00 0.00 4.26
3230 3474 2.300152 AGAAGACCGAGACAATGCAGAA 59.700 45.455 0.00 0.00 0.00 3.02
3236 3480 2.414481 CCGAGACAATGCAGAAGTTCAG 59.586 50.000 5.50 0.00 0.00 3.02
3353 3601 3.877508 GTGTACTTAATGGAGATGTGGGC 59.122 47.826 0.00 0.00 0.00 5.36
3419 3667 1.065782 TCTCTCTCTCTGGTCTGTCCG 60.066 57.143 0.00 0.00 39.52 4.79
3443 3692 2.028420 TGCATGCTCCTGTGTGATAC 57.972 50.000 20.33 0.00 0.00 2.24
3503 3753 4.391405 ACAAGCAAGAAAAGAACAAGGG 57.609 40.909 0.00 0.00 0.00 3.95
3561 3818 3.390639 TGGCATTTTGTGTGGGATTCTTT 59.609 39.130 0.00 0.00 0.00 2.52
3562 3819 4.141528 TGGCATTTTGTGTGGGATTCTTTT 60.142 37.500 0.00 0.00 0.00 2.27
3567 3824 4.935352 TTGTGTGGGATTCTTTTCCTTG 57.065 40.909 0.00 0.00 35.97 3.61
3620 3882 3.520862 CCATGCATGTGGCCGTCC 61.521 66.667 24.58 0.00 43.89 4.79
3705 3967 2.418368 TGTGACCTTCTTGTGTTGCT 57.582 45.000 0.00 0.00 0.00 3.91
3706 3968 2.722094 TGTGACCTTCTTGTGTTGCTT 58.278 42.857 0.00 0.00 0.00 3.91
3707 3969 2.423185 TGTGACCTTCTTGTGTTGCTTG 59.577 45.455 0.00 0.00 0.00 4.01
3708 3970 1.405105 TGACCTTCTTGTGTTGCTTGC 59.595 47.619 0.00 0.00 0.00 4.01
3709 3971 0.746659 ACCTTCTTGTGTTGCTTGCC 59.253 50.000 0.00 0.00 0.00 4.52
3710 3972 1.035139 CCTTCTTGTGTTGCTTGCCT 58.965 50.000 0.00 0.00 0.00 4.75
3711 3973 1.269413 CCTTCTTGTGTTGCTTGCCTG 60.269 52.381 0.00 0.00 0.00 4.85
3712 3974 0.102844 TTCTTGTGTTGCTTGCCTGC 59.897 50.000 0.00 0.00 0.00 4.85
3755 4021 2.281517 CTTCTCCTGCTCATGCTTCTG 58.718 52.381 0.00 0.00 40.48 3.02
3756 4022 0.107800 TCTCCTGCTCATGCTTCTGC 60.108 55.000 0.00 0.00 40.48 4.26
3757 4023 0.107606 CTCCTGCTCATGCTTCTGCT 60.108 55.000 0.00 0.00 40.48 4.24
3758 4024 0.392595 TCCTGCTCATGCTTCTGCTG 60.393 55.000 0.00 0.00 40.48 4.41
3759 4025 1.429825 CTGCTCATGCTTCTGCTGC 59.570 57.895 0.00 0.00 40.48 5.25
3760 4026 1.002502 TGCTCATGCTTCTGCTGCT 60.003 52.632 0.00 0.00 40.48 4.24
3761 4027 1.305930 TGCTCATGCTTCTGCTGCTG 61.306 55.000 0.00 0.00 40.48 4.41
3762 4028 1.429825 CTCATGCTTCTGCTGCTGC 59.570 57.895 8.89 8.89 40.48 5.25
3763 4029 1.002502 TCATGCTTCTGCTGCTGCT 60.003 52.632 17.00 0.00 40.48 4.24
3764 4030 0.608308 TCATGCTTCTGCTGCTGCTT 60.608 50.000 17.00 0.00 40.48 3.91
3765 4031 1.092348 CATGCTTCTGCTGCTGCTTA 58.908 50.000 17.00 1.80 40.48 3.09
3766 4032 1.064208 CATGCTTCTGCTGCTGCTTAG 59.936 52.381 17.00 11.44 40.48 2.18
3767 4033 0.675837 TGCTTCTGCTGCTGCTTAGG 60.676 55.000 17.00 6.35 40.48 2.69
3768 4034 0.676151 GCTTCTGCTGCTGCTTAGGT 60.676 55.000 17.00 0.00 40.48 3.08
3769 4035 1.406069 GCTTCTGCTGCTGCTTAGGTA 60.406 52.381 17.00 0.00 40.48 3.08
3770 4036 2.744494 GCTTCTGCTGCTGCTTAGGTAT 60.744 50.000 17.00 0.00 40.48 2.73
3771 4037 2.609427 TCTGCTGCTGCTTAGGTATG 57.391 50.000 17.00 0.00 40.48 2.39
3772 4038 1.139654 TCTGCTGCTGCTTAGGTATGG 59.860 52.381 17.00 0.00 40.48 2.74
3773 4039 0.911769 TGCTGCTGCTTAGGTATGGT 59.088 50.000 17.00 0.00 40.48 3.55
3774 4040 1.303309 GCTGCTGCTTAGGTATGGTG 58.697 55.000 8.53 0.00 36.03 4.17
3775 4041 1.134401 GCTGCTGCTTAGGTATGGTGA 60.134 52.381 8.53 0.00 36.03 4.02
3776 4042 2.486191 GCTGCTGCTTAGGTATGGTGAT 60.486 50.000 8.53 0.00 36.03 3.06
3777 4043 3.813443 CTGCTGCTTAGGTATGGTGATT 58.187 45.455 0.00 0.00 0.00 2.57
3778 4044 4.743651 GCTGCTGCTTAGGTATGGTGATTA 60.744 45.833 8.53 0.00 36.03 1.75
3779 4045 4.960938 TGCTGCTTAGGTATGGTGATTAG 58.039 43.478 0.00 0.00 0.00 1.73
3780 4046 3.748568 GCTGCTTAGGTATGGTGATTAGC 59.251 47.826 0.00 0.00 0.00 3.09
3781 4047 4.503991 GCTGCTTAGGTATGGTGATTAGCT 60.504 45.833 0.00 0.00 0.00 3.32
3782 4048 4.960938 TGCTTAGGTATGGTGATTAGCTG 58.039 43.478 0.00 0.00 0.00 4.24
3783 4049 3.748568 GCTTAGGTATGGTGATTAGCTGC 59.251 47.826 0.00 0.00 0.00 5.25
3784 4050 4.503991 GCTTAGGTATGGTGATTAGCTGCT 60.504 45.833 7.57 7.57 0.00 4.24
3785 4051 3.482156 AGGTATGGTGATTAGCTGCTG 57.518 47.619 13.43 0.00 0.00 4.41
3883 4149 1.423584 TGCCATGATCATAGGTCCGT 58.576 50.000 8.15 0.00 0.00 4.69
3884 4150 1.344438 TGCCATGATCATAGGTCCGTC 59.656 52.381 8.15 0.87 0.00 4.79
3885 4151 1.620819 GCCATGATCATAGGTCCGTCT 59.379 52.381 8.15 0.00 0.00 4.18
3886 4152 2.611473 GCCATGATCATAGGTCCGTCTG 60.611 54.545 8.15 0.00 0.00 3.51
3887 4153 2.893489 CCATGATCATAGGTCCGTCTGA 59.107 50.000 8.15 0.00 0.00 3.27
3889 4155 4.492611 CATGATCATAGGTCCGTCTGATG 58.507 47.826 8.15 0.00 0.00 3.07
3890 4156 3.832527 TGATCATAGGTCCGTCTGATGA 58.167 45.455 8.15 3.29 0.00 2.92
3891 4157 4.411013 TGATCATAGGTCCGTCTGATGAT 58.589 43.478 8.15 7.10 39.39 2.45
3892 4158 5.570320 TGATCATAGGTCCGTCTGATGATA 58.430 41.667 8.15 0.00 37.37 2.15
3894 4160 7.346471 TGATCATAGGTCCGTCTGATGATATA 58.654 38.462 8.15 0.36 37.37 0.86
3895 4161 7.834181 TGATCATAGGTCCGTCTGATGATATAA 59.166 37.037 8.15 0.00 37.37 0.98
3896 4162 7.631717 TCATAGGTCCGTCTGATGATATAAG 57.368 40.000 0.00 0.00 0.00 1.73
3897 4163 7.402862 TCATAGGTCCGTCTGATGATATAAGA 58.597 38.462 0.00 0.00 0.00 2.10
3898 4164 7.888546 TCATAGGTCCGTCTGATGATATAAGAA 59.111 37.037 0.00 0.00 0.00 2.52
3899 4165 8.690884 CATAGGTCCGTCTGATGATATAAGAAT 58.309 37.037 0.00 0.00 0.00 2.40
3900 4166 9.922477 ATAGGTCCGTCTGATGATATAAGAATA 57.078 33.333 0.00 0.00 0.00 1.75
3901 4167 8.830915 AGGTCCGTCTGATGATATAAGAATAT 57.169 34.615 0.00 0.00 0.00 1.28
3902 4168 9.261035 AGGTCCGTCTGATGATATAAGAATATT 57.739 33.333 0.00 0.00 0.00 1.28
3932 4198 7.602517 ACTAGTGTTCTTCAATCAACTATGC 57.397 36.000 0.00 0.00 0.00 3.14
3933 4199 5.886960 AGTGTTCTTCAATCAACTATGCC 57.113 39.130 0.00 0.00 0.00 4.40
3934 4200 5.316167 AGTGTTCTTCAATCAACTATGCCA 58.684 37.500 0.00 0.00 0.00 4.92
3935 4201 5.948162 AGTGTTCTTCAATCAACTATGCCAT 59.052 36.000 0.00 0.00 0.00 4.40
3936 4202 6.032094 GTGTTCTTCAATCAACTATGCCATG 58.968 40.000 0.00 0.00 0.00 3.66
3937 4203 5.945191 TGTTCTTCAATCAACTATGCCATGA 59.055 36.000 0.00 0.00 0.00 3.07
3938 4204 6.604396 TGTTCTTCAATCAACTATGCCATGAT 59.396 34.615 0.00 0.00 35.39 2.45
3939 4205 6.872628 TCTTCAATCAACTATGCCATGATC 57.127 37.500 0.00 0.00 32.83 2.92
3940 4206 6.358991 TCTTCAATCAACTATGCCATGATCA 58.641 36.000 0.00 0.00 32.83 2.92
3941 4207 7.002276 TCTTCAATCAACTATGCCATGATCAT 58.998 34.615 1.18 1.18 32.83 2.45
3942 4208 8.158789 TCTTCAATCAACTATGCCATGATCATA 58.841 33.333 8.15 0.92 32.83 2.15
3943 4209 7.916914 TCAATCAACTATGCCATGATCATAG 57.083 36.000 22.48 22.48 45.39 2.23
3944 4210 6.882678 TCAATCAACTATGCCATGATCATAGG 59.117 38.462 25.28 13.00 44.63 2.57
3945 4211 5.830799 TCAACTATGCCATGATCATAGGT 57.169 39.130 25.28 20.80 43.19 3.08
3946 4212 5.798132 TCAACTATGCCATGATCATAGGTC 58.202 41.667 25.28 9.05 41.18 3.85
3947 4213 4.833478 ACTATGCCATGATCATAGGTCC 57.167 45.455 25.28 2.14 44.63 4.46
3948 4214 2.775911 ATGCCATGATCATAGGTCCG 57.224 50.000 8.15 0.00 0.00 4.79
3949 4215 1.423584 TGCCATGATCATAGGTCCGT 58.576 50.000 8.15 0.00 0.00 4.69
3950 4216 1.344438 TGCCATGATCATAGGTCCGTC 59.656 52.381 8.15 0.87 0.00 4.79
3951 4217 1.620819 GCCATGATCATAGGTCCGTCT 59.379 52.381 8.15 0.00 0.00 4.18
3952 4218 2.611473 GCCATGATCATAGGTCCGTCTG 60.611 54.545 8.15 0.00 0.00 3.51
4196 4484 4.265073 AGAGGGAAGAAATTCAATGGACG 58.735 43.478 0.00 0.00 0.00 4.79
4360 4652 1.692411 ATCCCTAGGGCGATTTTTGC 58.308 50.000 24.42 0.00 34.68 3.68
4378 4670 4.166011 GTTGCGTGATGGCGAGGC 62.166 66.667 0.00 0.00 35.06 4.70
4404 4708 3.241701 CGCAAATATCTTGTTGCCGTTT 58.758 40.909 4.64 0.00 45.90 3.60
4412 4716 2.290367 TCTTGTTGCCGTTTGTGAGATG 59.710 45.455 0.00 0.00 0.00 2.90
4420 4724 2.788786 CCGTTTGTGAGATGTGCAAAAC 59.211 45.455 0.00 0.00 34.47 2.43
4430 4734 3.589639 GTGCAAAACACGTCAACGA 57.410 47.368 9.88 0.00 40.07 3.85
4438 4742 5.280678 GCAAAACACGTCAACGAATTCTATC 59.719 40.000 9.88 0.00 43.02 2.08
4439 4743 6.359545 CAAAACACGTCAACGAATTCTATCA 58.640 36.000 9.88 0.00 43.02 2.15
4440 4744 6.533819 AAACACGTCAACGAATTCTATCAA 57.466 33.333 9.88 0.00 43.02 2.57
4441 4745 6.533819 AACACGTCAACGAATTCTATCAAA 57.466 33.333 9.88 0.00 43.02 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 5.168569 CAGTTATTAGTCTCGAGTGCCAAA 58.831 41.667 13.13 5.22 0.00 3.28
181 183 8.205131 ACTTCGTGAAACTTTATAGTGTTTGT 57.795 30.769 9.06 0.33 36.64 2.83
202 204 8.134905 TCTTGGTAGTTTTTCGTAGAAACTTC 57.865 34.615 14.95 11.38 42.90 3.01
212 214 6.701432 ATCGTAGTTCTTGGTAGTTTTTCG 57.299 37.500 0.00 0.00 0.00 3.46
229 231 9.000486 TCTAGTGATATCAACTTGGTATCGTAG 58.000 37.037 7.07 15.83 42.04 3.51
329 331 3.749609 AGTTAACCCGTGCATAGTTTGAC 59.250 43.478 0.88 5.05 0.00 3.18
362 364 7.586747 TCCGTTTGTGAAAATGAGGTTTATAC 58.413 34.615 0.00 0.00 0.00 1.47
367 371 3.317993 CCTCCGTTTGTGAAAATGAGGTT 59.682 43.478 0.00 0.00 36.46 3.50
372 376 4.568152 ACTTCCTCCGTTTGTGAAAATG 57.432 40.909 0.00 0.00 0.00 2.32
380 384 6.616947 TGCAAAAATATACTTCCTCCGTTTG 58.383 36.000 0.00 0.00 0.00 2.93
381 385 6.625081 GCTGCAAAAATATACTTCCTCCGTTT 60.625 38.462 0.00 0.00 0.00 3.60
385 389 5.734503 GCTGCTGCAAAAATATACTTCCTCC 60.735 44.000 11.11 0.00 39.41 4.30
387 391 5.254339 GCTGCTGCAAAAATATACTTCCT 57.746 39.130 11.11 0.00 39.41 3.36
445 449 4.920340 CACGAGCTATGTAAGTGGATGATC 59.080 45.833 0.00 0.00 0.00 2.92
446 450 4.584743 TCACGAGCTATGTAAGTGGATGAT 59.415 41.667 0.00 0.00 33.98 2.45
447 451 3.951680 TCACGAGCTATGTAAGTGGATGA 59.048 43.478 0.00 0.00 33.98 2.92
448 452 4.307443 TCACGAGCTATGTAAGTGGATG 57.693 45.455 0.00 0.00 33.98 3.51
449 453 4.441634 GGTTCACGAGCTATGTAAGTGGAT 60.442 45.833 0.00 0.00 33.98 3.41
450 454 3.119245 GGTTCACGAGCTATGTAAGTGGA 60.119 47.826 0.00 0.00 33.98 4.02
451 455 3.187700 GGTTCACGAGCTATGTAAGTGG 58.812 50.000 0.00 0.00 33.98 4.00
454 458 8.806741 AGCTAACGGTTCACGAGCTATGTAAG 62.807 46.154 12.83 0.00 46.83 2.34
455 459 7.113207 AGCTAACGGTTCACGAGCTATGTAA 62.113 44.000 12.83 0.00 46.83 2.41
456 460 5.694229 AGCTAACGGTTCACGAGCTATGTA 61.694 45.833 12.83 0.00 46.83 2.29
457 461 4.983275 AGCTAACGGTTCACGAGCTATGT 61.983 47.826 12.83 0.00 46.83 2.29
458 462 2.479730 AGCTAACGGTTCACGAGCTATG 60.480 50.000 12.83 0.00 46.83 2.23
459 463 1.749634 AGCTAACGGTTCACGAGCTAT 59.250 47.619 12.83 0.00 46.83 2.97
460 464 1.171308 AGCTAACGGTTCACGAGCTA 58.829 50.000 12.83 0.00 46.83 3.32
461 465 1.965219 AGCTAACGGTTCACGAGCT 59.035 52.632 9.49 9.49 44.80 4.09
473 477 9.807649 ATCAATAACCATGAAATCAAAGCTAAC 57.192 29.630 0.00 0.00 0.00 2.34
555 559 4.603610 CCACTGGAGGATATATTTCCCCTT 59.396 45.833 8.45 0.00 36.35 3.95
567 571 1.566231 GGATTGGTTCCACTGGAGGAT 59.434 52.381 0.00 0.00 44.74 3.24
611 615 2.811799 GTGTTTTGCCCTGGCGTT 59.188 55.556 3.32 0.00 45.51 4.84
667 672 2.096713 GCTCACGATGCGATGAATTACC 60.097 50.000 0.00 0.00 0.00 2.85
679 684 1.010935 AGCGTCACAAGCTCACGATG 61.011 55.000 10.61 3.55 41.83 3.84
688 693 0.937699 TCGGTTTCGAGCGTCACAAG 60.938 55.000 0.00 0.00 40.88 3.16
690 695 1.659335 GTCGGTTTCGAGCGTCACA 60.659 57.895 0.00 0.00 46.91 3.58
765 821 1.950909 TCCCTTACAACACAAAAGCGG 59.049 47.619 0.00 0.00 0.00 5.52
770 826 5.419155 TCACATGTTTCCCTTACAACACAAA 59.581 36.000 0.00 0.00 35.75 2.83
789 845 6.421801 GCTACTTTCATTTTTGCTTGTCACAT 59.578 34.615 0.00 0.00 0.00 3.21
796 852 5.056480 GGGTTGCTACTTTCATTTTTGCTT 58.944 37.500 0.00 0.00 0.00 3.91
814 870 5.134661 TGGAAACAAGTTAGTTAGGGGTTG 58.865 41.667 0.00 0.00 37.44 3.77
845 901 5.185828 GGTTAGAATGACATTTCTGCCCTTT 59.814 40.000 1.39 0.00 36.63 3.11
882 938 7.060421 TGTTTGGAAGATTTCTGTTAGAACCT 58.940 34.615 0.00 0.00 33.26 3.50
884 940 9.237846 CTTTGTTTGGAAGATTTCTGTTAGAAC 57.762 33.333 0.00 0.00 33.26 3.01
886 942 7.559897 ACCTTTGTTTGGAAGATTTCTGTTAGA 59.440 33.333 0.00 0.00 0.00 2.10
887 943 7.716612 ACCTTTGTTTGGAAGATTTCTGTTAG 58.283 34.615 0.00 0.00 0.00 2.34
888 944 7.654022 ACCTTTGTTTGGAAGATTTCTGTTA 57.346 32.000 0.00 0.00 0.00 2.41
948 1004 0.786435 AAGGGAGCAAGGGGTGAAAT 59.214 50.000 0.00 0.00 0.00 2.17
951 1007 1.451449 TTTAAGGGAGCAAGGGGTGA 58.549 50.000 0.00 0.00 0.00 4.02
952 1008 1.893137 GTTTTAAGGGAGCAAGGGGTG 59.107 52.381 0.00 0.00 0.00 4.61
953 1009 1.203137 GGTTTTAAGGGAGCAAGGGGT 60.203 52.381 0.00 0.00 0.00 4.95
1040 1121 3.127533 GGCAGCTAGTTGGCGGTG 61.128 66.667 17.10 0.00 37.29 4.94
1126 1207 2.438075 GCCAGCAGGAAGAGGCAG 60.438 66.667 0.00 0.00 46.26 4.85
1244 1325 2.488820 GGTGTAGGACTCGACGCC 59.511 66.667 0.00 0.00 40.81 5.68
1355 1436 0.835941 AAGCTGAGATTCCCTCGCAT 59.164 50.000 0.00 0.00 44.92 4.73
1611 1692 0.743688 CTGAGACATCCCAGAGACGG 59.256 60.000 0.00 0.00 32.37 4.79
1613 1694 4.081198 ACAAATCTGAGACATCCCAGAGAC 60.081 45.833 0.00 0.00 42.00 3.36
1620 1701 4.080638 AGAGGGAACAAATCTGAGACATCC 60.081 45.833 0.00 0.00 0.00 3.51
1737 1818 2.550606 CGAATTCGAACCAAAACCTCCA 59.449 45.455 23.29 0.00 43.02 3.86
1750 1831 1.939934 GATTGGGCATGACGAATTCGA 59.060 47.619 33.05 13.31 43.02 3.71
1758 1839 3.139850 CAGATGAGAGATTGGGCATGAC 58.860 50.000 0.00 0.00 0.00 3.06
1799 1880 0.657840 CGGGATCGAATCAGCAAACC 59.342 55.000 0.00 0.00 39.00 3.27
1872 1953 1.893137 GCTCAAGAATCCCCCGTTTTT 59.107 47.619 0.00 0.00 0.00 1.94
1912 1994 4.082787 TGCACAATCGAAAGGGAAGAAATC 60.083 41.667 0.00 0.00 0.00 2.17
2112 2199 2.616376 TCATGCGAATTTATTGTCCCCG 59.384 45.455 0.00 0.00 0.00 5.73
2116 2203 6.460987 GCAAGTTTCATGCGAATTTATTGTC 58.539 36.000 0.00 0.00 33.57 3.18
2131 2218 3.351740 TCAAACACCAGAGCAAGTTTCA 58.648 40.909 0.00 0.00 32.34 2.69
2227 2314 6.120220 AGAGGGGATTAAATTTGGTAAGTCG 58.880 40.000 0.00 0.00 0.00 4.18
2246 2333 1.203050 ACCAATTGGGACACAAGAGGG 60.203 52.381 27.89 8.95 43.48 4.30
2289 2380 7.530426 AATGAGCTCCAATTCCCATTATTAC 57.470 36.000 12.15 0.00 0.00 1.89
2490 2588 0.606401 GCACTGCAACTTGCCTCCTA 60.606 55.000 11.29 0.00 44.23 2.94
2740 2971 1.021390 AAGCTATGGACACGCTGTGC 61.021 55.000 8.31 5.02 39.30 4.57
2966 3203 1.384525 ACAACTGTGCGCAGGTAAAA 58.615 45.000 29.60 0.00 41.48 1.52
3154 3397 2.998670 CACACGCTCATTCATTCTCACT 59.001 45.455 0.00 0.00 0.00 3.41
3180 3423 0.478507 CTCTCCTCCTCCTCCTCCTC 59.521 65.000 0.00 0.00 0.00 3.71
3181 3424 0.047176 TCTCTCCTCCTCCTCCTCCT 59.953 60.000 0.00 0.00 0.00 3.69
3182 3425 0.478507 CTCTCTCCTCCTCCTCCTCC 59.521 65.000 0.00 0.00 0.00 4.30
3183 3426 1.518367 TCTCTCTCCTCCTCCTCCTC 58.482 60.000 0.00 0.00 0.00 3.71
3184 3427 1.994399 TTCTCTCTCCTCCTCCTCCT 58.006 55.000 0.00 0.00 0.00 3.69
3185 3428 2.243736 TCTTTCTCTCTCCTCCTCCTCC 59.756 54.545 0.00 0.00 0.00 4.30
3224 3468 2.358898 GGAAAACTGCTGAACTTCTGCA 59.641 45.455 18.96 18.96 46.64 4.41
3225 3469 2.287849 GGGAAAACTGCTGAACTTCTGC 60.288 50.000 12.48 12.48 41.04 4.26
3226 3470 2.294512 GGGGAAAACTGCTGAACTTCTG 59.705 50.000 0.00 0.00 0.00 3.02
3227 3471 2.175715 AGGGGAAAACTGCTGAACTTCT 59.824 45.455 0.00 0.00 0.00 2.85
3228 3472 2.587522 AGGGGAAAACTGCTGAACTTC 58.412 47.619 0.00 0.00 0.00 3.01
3229 3473 2.695147 CAAGGGGAAAACTGCTGAACTT 59.305 45.455 0.00 0.00 0.00 2.66
3230 3474 2.310538 CAAGGGGAAAACTGCTGAACT 58.689 47.619 0.00 0.00 0.00 3.01
3236 3480 4.394439 TTTTACACAAGGGGAAAACTGC 57.606 40.909 0.00 0.00 0.00 4.40
3443 3692 8.436200 GCACTGACAAACTTAATACTCAACTAG 58.564 37.037 0.00 0.00 0.00 2.57
3503 3753 1.680314 CTCCCCAGCCAGCCTTTTC 60.680 63.158 0.00 0.00 0.00 2.29
3561 3818 1.995542 AGGAATTCCCAGAGCAAGGAA 59.004 47.619 21.22 0.00 45.91 3.36
3562 3819 1.673767 AGGAATTCCCAGAGCAAGGA 58.326 50.000 21.22 0.00 37.41 3.36
3567 3824 2.373224 CAAGGAAGGAATTCCCAGAGC 58.627 52.381 21.22 6.04 42.06 4.09
3634 3896 3.947132 CTGTGGCCAGCTCACTCCG 62.947 68.421 5.11 0.00 36.21 4.63
3659 3921 0.846693 ATGGGGAGGAGCAACCATAC 59.153 55.000 0.00 0.00 41.67 2.39
3660 3922 1.140312 GATGGGGAGGAGCAACCATA 58.860 55.000 0.00 0.00 43.40 2.74
3661 3923 1.649271 GGATGGGGAGGAGCAACCAT 61.649 60.000 0.00 0.00 45.87 3.55
3712 3974 4.290622 AACCACCAGGCAGGCAGG 62.291 66.667 3.51 3.51 43.14 4.85
3720 3986 0.109342 AGAAGCACTCAACCACCAGG 59.891 55.000 0.00 0.00 42.21 4.45
3755 4021 1.134401 TCACCATACCTAAGCAGCAGC 60.134 52.381 0.00 0.00 42.56 5.25
3756 4022 2.988010 TCACCATACCTAAGCAGCAG 57.012 50.000 0.00 0.00 0.00 4.24
3757 4023 3.931907 AATCACCATACCTAAGCAGCA 57.068 42.857 0.00 0.00 0.00 4.41
3758 4024 3.748568 GCTAATCACCATACCTAAGCAGC 59.251 47.826 0.00 0.00 0.00 5.25
3759 4025 4.993584 CAGCTAATCACCATACCTAAGCAG 59.006 45.833 0.00 0.00 0.00 4.24
3760 4026 4.743651 GCAGCTAATCACCATACCTAAGCA 60.744 45.833 0.00 0.00 0.00 3.91
3761 4027 3.748568 GCAGCTAATCACCATACCTAAGC 59.251 47.826 0.00 0.00 0.00 3.09
3762 4028 4.993584 CAGCAGCTAATCACCATACCTAAG 59.006 45.833 0.00 0.00 0.00 2.18
3763 4029 4.743651 GCAGCAGCTAATCACCATACCTAA 60.744 45.833 0.00 0.00 37.91 2.69
3764 4030 3.244215 GCAGCAGCTAATCACCATACCTA 60.244 47.826 0.00 0.00 37.91 3.08
3765 4031 2.486191 GCAGCAGCTAATCACCATACCT 60.486 50.000 0.00 0.00 37.91 3.08
3766 4032 1.876156 GCAGCAGCTAATCACCATACC 59.124 52.381 0.00 0.00 37.91 2.73
3779 4045 0.942962 CATACCTAAGCAGCAGCAGC 59.057 55.000 3.17 0.46 45.49 5.25
3780 4046 1.134280 ACCATACCTAAGCAGCAGCAG 60.134 52.381 3.17 0.00 45.49 4.24
3781 4047 0.911769 ACCATACCTAAGCAGCAGCA 59.088 50.000 3.17 0.00 45.49 4.41
3782 4048 1.134401 TCACCATACCTAAGCAGCAGC 60.134 52.381 0.00 0.00 42.56 5.25
3783 4049 2.988010 TCACCATACCTAAGCAGCAG 57.012 50.000 0.00 0.00 0.00 4.24
3784 4050 3.931907 AATCACCATACCTAAGCAGCA 57.068 42.857 0.00 0.00 0.00 4.41
3785 4051 3.748568 GCTAATCACCATACCTAAGCAGC 59.251 47.826 0.00 0.00 0.00 5.25
3906 4172 9.151471 GCATAGTTGATTGAAGAACACTAGTTA 57.849 33.333 0.00 0.00 38.30 2.24
3907 4173 7.119846 GGCATAGTTGATTGAAGAACACTAGTT 59.880 37.037 0.00 0.00 41.64 2.24
3908 4174 6.595716 GGCATAGTTGATTGAAGAACACTAGT 59.404 38.462 0.00 0.00 0.00 2.57
3909 4175 6.595326 TGGCATAGTTGATTGAAGAACACTAG 59.405 38.462 0.00 0.00 0.00 2.57
3910 4176 6.472016 TGGCATAGTTGATTGAAGAACACTA 58.528 36.000 0.00 0.00 0.00 2.74
3911 4177 5.316167 TGGCATAGTTGATTGAAGAACACT 58.684 37.500 0.00 0.00 0.00 3.55
3912 4178 5.627499 TGGCATAGTTGATTGAAGAACAC 57.373 39.130 0.00 0.00 0.00 3.32
3913 4179 5.945191 TCATGGCATAGTTGATTGAAGAACA 59.055 36.000 0.00 0.00 0.00 3.18
3914 4180 6.441093 TCATGGCATAGTTGATTGAAGAAC 57.559 37.500 0.00 0.00 0.00 3.01
3915 4181 6.829811 TGATCATGGCATAGTTGATTGAAGAA 59.170 34.615 0.00 0.00 30.48 2.52
3916 4182 6.358991 TGATCATGGCATAGTTGATTGAAGA 58.641 36.000 0.00 0.00 30.48 2.87
3917 4183 6.628919 TGATCATGGCATAGTTGATTGAAG 57.371 37.500 0.00 0.00 30.48 3.02
3918 4184 7.392393 CCTATGATCATGGCATAGTTGATTGAA 59.608 37.037 18.72 0.00 42.20 2.69
3919 4185 6.882678 CCTATGATCATGGCATAGTTGATTGA 59.117 38.462 18.72 0.00 42.20 2.57
3920 4186 6.657966 ACCTATGATCATGGCATAGTTGATTG 59.342 38.462 18.72 14.84 42.20 2.67
3921 4187 6.787170 ACCTATGATCATGGCATAGTTGATT 58.213 36.000 18.72 9.06 42.20 2.57
3922 4188 6.384342 ACCTATGATCATGGCATAGTTGAT 57.616 37.500 18.72 0.00 42.20 2.57
3923 4189 5.280164 GGACCTATGATCATGGCATAGTTGA 60.280 44.000 18.72 0.00 42.20 3.18
3924 4190 4.940046 GGACCTATGATCATGGCATAGTTG 59.060 45.833 18.72 16.18 42.20 3.16
3925 4191 4.323028 CGGACCTATGATCATGGCATAGTT 60.323 45.833 18.72 15.77 42.20 2.24
3926 4192 3.196469 CGGACCTATGATCATGGCATAGT 59.804 47.826 18.72 8.30 42.20 2.12
3927 4193 3.196469 ACGGACCTATGATCATGGCATAG 59.804 47.826 18.72 20.52 42.97 2.23
3928 4194 3.173151 ACGGACCTATGATCATGGCATA 58.827 45.455 18.72 8.32 0.00 3.14
3929 4195 1.980765 ACGGACCTATGATCATGGCAT 59.019 47.619 18.72 6.13 0.00 4.40
3930 4196 1.344438 GACGGACCTATGATCATGGCA 59.656 52.381 18.72 0.00 0.00 4.92
3931 4197 1.620819 AGACGGACCTATGATCATGGC 59.379 52.381 18.72 4.31 0.00 4.40
3932 4198 2.893489 TCAGACGGACCTATGATCATGG 59.107 50.000 18.72 15.23 0.00 3.66
3933 4199 4.219288 TCATCAGACGGACCTATGATCATG 59.781 45.833 18.72 4.96 30.09 3.07
3934 4200 4.411013 TCATCAGACGGACCTATGATCAT 58.589 43.478 13.81 13.81 30.09 2.45
3935 4201 3.832527 TCATCAGACGGACCTATGATCA 58.167 45.455 0.00 0.00 30.09 2.92
3936 4202 6.707440 ATATCATCAGACGGACCTATGATC 57.293 41.667 0.00 0.00 38.10 2.92
3937 4203 8.055790 TCTTATATCATCAGACGGACCTATGAT 58.944 37.037 0.00 0.00 39.79 2.45
3938 4204 7.402862 TCTTATATCATCAGACGGACCTATGA 58.597 38.462 0.00 0.00 0.00 2.15
3939 4205 7.631717 TCTTATATCATCAGACGGACCTATG 57.368 40.000 0.00 0.00 0.00 2.23
3940 4206 8.830915 ATTCTTATATCATCAGACGGACCTAT 57.169 34.615 0.00 0.00 0.00 2.57
3941 4207 9.922477 ATATTCTTATATCATCAGACGGACCTA 57.078 33.333 0.00 0.00 0.00 3.08
3942 4208 8.830915 ATATTCTTATATCATCAGACGGACCT 57.169 34.615 0.00 0.00 0.00 3.85
4039 4306 7.038302 ACCACCTCTGTTTCTGATTTATACTCA 60.038 37.037 0.00 0.00 0.00 3.41
4196 4484 2.262774 CTGGATGGAGGCCTGTGTCC 62.263 65.000 12.00 15.05 0.00 4.02
4360 4652 3.853330 CCTCGCCATCACGCAACG 61.853 66.667 0.00 0.00 0.00 4.10
4378 4670 0.738389 AACAAGATATTTGCGCCCCG 59.262 50.000 4.18 0.00 0.00 5.73
4393 4697 2.020720 ACATCTCACAAACGGCAACAA 58.979 42.857 0.00 0.00 0.00 2.83
4412 4716 1.884756 TTCGTTGACGTGTTTTGCAC 58.115 45.000 0.00 0.00 44.36 4.57


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

AutoCloner maintained by Alex Coulton.