Multiple sequence alignment - TraesCS2B01G444900

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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 TraesCS2B01G444900 chr2B 100.000 5968 0 0 1 5968 637769797 637763830 0.000000e+00 11021.0
1 TraesCS2B01G444900 chr2B 93.340 4970 258 38 268 5197 638266520 638261584 0.000000e+00 7276.0
2 TraesCS2B01G444900 chr2B 94.360 2500 115 11 542 3033 637999321 637996840 0.000000e+00 3812.0
3 TraesCS2B01G444900 chr2B 91.610 2193 122 31 3029 5197 637995121 637992967 0.000000e+00 2974.0
4 TraesCS2B01G444900 chr2B 77.160 2176 410 59 1985 4112 638758150 638756014 0.000000e+00 1184.0
5 TraesCS2B01G444900 chr2B 79.229 1608 283 37 1975 3552 637933344 637931758 0.000000e+00 1072.0
6 TraesCS2B01G444900 chr2B 94.348 690 35 4 5282 5968 637757591 637756903 0.000000e+00 1055.0
7 TraesCS2B01G444900 chr2B 92.764 691 41 7 5282 5968 409608646 409609331 0.000000e+00 990.0
8 TraesCS2B01G444900 chr2B 92.518 695 43 9 5282 5968 237190343 237191036 0.000000e+00 987.0
9 TraesCS2B01G444900 chr2B 92.154 701 44 8 5272 5968 391845246 391845939 0.000000e+00 979.0
10 TraesCS2B01G444900 chr2B 83.697 871 101 21 807 1659 637707245 637706398 0.000000e+00 784.0
11 TraesCS2B01G444900 chr2B 85.771 506 68 4 3168 3671 637696710 637696207 3.170000e-147 532.0
12 TraesCS2B01G444900 chr2B 80.319 752 107 18 3677 4416 637681198 637680476 1.140000e-146 531.0
13 TraesCS2B01G444900 chr2B 86.775 431 47 8 4497 4924 637582962 637582539 7.000000e-129 472.0
14 TraesCS2B01G444900 chr2B 85.448 268 32 3 264 530 637999625 637999364 7.620000e-69 272.0
15 TraesCS2B01G444900 chr2B 96.591 88 3 0 5197 5284 733841256 733841169 4.820000e-31 147.0
16 TraesCS2B01G444900 chr2B 80.255 157 24 7 565 717 733725636 733725789 1.760000e-20 111.0
17 TraesCS2B01G444900 chr2D 84.016 3247 412 61 1765 4973 536157957 536154780 0.000000e+00 3022.0
18 TraesCS2B01G444900 chr2D 92.826 2063 120 17 2423 4464 536226229 536224174 0.000000e+00 2964.0
19 TraesCS2B01G444900 chr2D 91.793 1584 99 16 318 1883 536228366 536226796 0.000000e+00 2176.0
20 TraesCS2B01G444900 chr2D 77.204 2189 401 70 1991 4123 536509443 536507297 0.000000e+00 1188.0
21 TraesCS2B01G444900 chr2D 78.094 1616 284 46 1951 3529 539310870 539309288 0.000000e+00 959.0
22 TraesCS2B01G444900 chr2D 84.221 976 107 30 807 1766 536158942 536157998 0.000000e+00 905.0
23 TraesCS2B01G444900 chr2D 93.772 578 31 4 4524 5100 536224173 536223600 0.000000e+00 863.0
24 TraesCS2B01G444900 chr2D 92.021 564 44 1 1917 2480 536226791 536226229 0.000000e+00 791.0
25 TraesCS2B01G444900 chr2D 73.748 1897 406 68 1955 3801 12330095 12331949 0.000000e+00 660.0
26 TraesCS2B01G444900 chr2D 77.656 913 160 27 2660 3552 536384308 536383420 3.190000e-142 516.0
27 TraesCS2B01G444900 chr2D 81.703 317 37 14 1 313 536228916 536228617 1.660000e-60 244.0
28 TraesCS2B01G444900 chr2D 80.063 316 63 0 4630 4945 599944946 599944631 1.000000e-57 235.0
29 TraesCS2B01G444900 chr2D 96.809 94 3 0 5104 5197 536223491 536223398 2.230000e-34 158.0
30 TraesCS2B01G444900 chr2D 77.866 253 50 6 1096 1345 536510327 536510078 1.040000e-32 152.0
31 TraesCS2B01G444900 chr2D 90.526 95 7 1 4125 4219 536223476 536223384 2.260000e-24 124.0
32 TraesCS2B01G444900 chr2A 84.841 2698 334 45 1812 4480 678969862 678967211 0.000000e+00 2647.0
33 TraesCS2B01G444900 chr2A 77.217 2199 397 76 1985 4123 679265946 679263792 0.000000e+00 1190.0
34 TraesCS2B01G444900 chr2A 85.159 977 94 29 807 1761 678970902 678969955 0.000000e+00 953.0
35 TraesCS2B01G444900 chr2A 75.912 1864 350 68 1985 3792 733685722 733683902 0.000000e+00 863.0
36 TraesCS2B01G444900 chr2A 87.371 388 46 3 4589 4973 678966973 678966586 5.490000e-120 442.0
37 TraesCS2B01G444900 chr2A 79.953 424 64 13 3 417 733696339 733696750 5.850000e-75 292.0
38 TraesCS2B01G444900 chr2A 76.772 254 51 6 1096 1345 679266996 679266747 1.040000e-27 135.0
39 TraesCS2B01G444900 chr3B 93.064 692 39 7 5283 5968 498984684 498983996 0.000000e+00 1003.0
40 TraesCS2B01G444900 chr3B 92.816 696 39 7 5282 5968 228953818 228953125 0.000000e+00 998.0
41 TraesCS2B01G444900 chr7B 92.609 690 45 6 5282 5968 159592685 159593371 0.000000e+00 987.0
42 TraesCS2B01G444900 chr6B 92.496 693 41 6 5279 5968 408603885 408604569 0.000000e+00 981.0
43 TraesCS2B01G444900 chr6B 79.487 156 28 4 565 717 391070270 391070424 2.270000e-19 108.0
44 TraesCS2B01G444900 chr4B 92.297 701 39 10 5281 5968 126523474 126524172 0.000000e+00 981.0
45 TraesCS2B01G444900 chr4B 92.391 92 7 0 5193 5284 347579541 347579450 1.350000e-26 132.0
46 TraesCS2B01G444900 chr4B 82.456 114 18 2 611 723 517369375 517369487 1.370000e-16 99.0
47 TraesCS2B01G444900 chrUn 73.607 1902 401 75 1955 3801 12443690 12441835 6.520000e-179 638.0
48 TraesCS2B01G444900 chrUn 77.515 169 34 4 561 726 269319789 269319622 1.370000e-16 99.0
49 TraesCS2B01G444900 chr5A 75.495 555 85 26 192 720 576281690 576282219 2.160000e-54 224.0
50 TraesCS2B01G444900 chr5A 93.182 88 6 0 5197 5284 603055205 603055118 4.850000e-26 130.0
51 TraesCS2B01G444900 chr5A 92.135 89 7 0 5196 5284 20133598 20133510 6.280000e-25 126.0
52 TraesCS2B01G444900 chr5A 90.217 92 9 0 5193 5284 16971676 16971585 2.920000e-23 121.0
53 TraesCS2B01G444900 chr4A 91.589 107 9 0 5178 5284 624740301 624740407 1.340000e-31 148.0
54 TraesCS2B01G444900 chr4A 79.114 158 30 3 568 723 734892579 734892423 8.180000e-19 106.0
55 TraesCS2B01G444900 chr4A 95.122 41 2 0 4852 4892 215225725 215225685 1.390000e-06 65.8
56 TraesCS2B01G444900 chr1A 93.182 88 6 0 5197 5284 501996929 501996842 4.850000e-26 130.0
57 TraesCS2B01G444900 chr1A 85.149 101 11 3 624 723 28618290 28618193 3.810000e-17 100.0
58 TraesCS2B01G444900 chr7A 89.899 99 8 2 5188 5284 608490940 608491038 6.280000e-25 126.0
59 TraesCS2B01G444900 chr6A 91.011 89 8 0 5196 5284 39133874 39133962 2.920000e-23 121.0


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 TraesCS2B01G444900 chr2B 637763830 637769797 5967 True 11021.000000 11021 100.000000 1 5968 1 chr2B.!!$R6 5967
1 TraesCS2B01G444900 chr2B 638261584 638266520 4936 True 7276.000000 7276 93.340000 268 5197 1 chr2B.!!$R8 4929
2 TraesCS2B01G444900 chr2B 637992967 637999625 6658 True 2352.666667 3812 90.472667 264 5197 3 chr2B.!!$R11 4933
3 TraesCS2B01G444900 chr2B 638756014 638758150 2136 True 1184.000000 1184 77.160000 1985 4112 1 chr2B.!!$R9 2127
4 TraesCS2B01G444900 chr2B 637931758 637933344 1586 True 1072.000000 1072 79.229000 1975 3552 1 chr2B.!!$R7 1577
5 TraesCS2B01G444900 chr2B 637756903 637757591 688 True 1055.000000 1055 94.348000 5282 5968 1 chr2B.!!$R5 686
6 TraesCS2B01G444900 chr2B 409608646 409609331 685 False 990.000000 990 92.764000 5282 5968 1 chr2B.!!$F3 686
7 TraesCS2B01G444900 chr2B 237190343 237191036 693 False 987.000000 987 92.518000 5282 5968 1 chr2B.!!$F1 686
8 TraesCS2B01G444900 chr2B 391845246 391845939 693 False 979.000000 979 92.154000 5272 5968 1 chr2B.!!$F2 696
9 TraesCS2B01G444900 chr2B 637706398 637707245 847 True 784.000000 784 83.697000 807 1659 1 chr2B.!!$R4 852
10 TraesCS2B01G444900 chr2B 637696207 637696710 503 True 532.000000 532 85.771000 3168 3671 1 chr2B.!!$R3 503
11 TraesCS2B01G444900 chr2B 637680476 637681198 722 True 531.000000 531 80.319000 3677 4416 1 chr2B.!!$R2 739
12 TraesCS2B01G444900 chr2D 536154780 536158942 4162 True 1963.500000 3022 84.118500 807 4973 2 chr2D.!!$R4 4166
13 TraesCS2B01G444900 chr2D 536223384 536228916 5532 True 1045.714286 2964 91.350000 1 5197 7 chr2D.!!$R5 5196
14 TraesCS2B01G444900 chr2D 539309288 539310870 1582 True 959.000000 959 78.094000 1951 3529 1 chr2D.!!$R2 1578
15 TraesCS2B01G444900 chr2D 536507297 536510327 3030 True 670.000000 1188 77.535000 1096 4123 2 chr2D.!!$R6 3027
16 TraesCS2B01G444900 chr2D 12330095 12331949 1854 False 660.000000 660 73.748000 1955 3801 1 chr2D.!!$F1 1846
17 TraesCS2B01G444900 chr2D 536383420 536384308 888 True 516.000000 516 77.656000 2660 3552 1 chr2D.!!$R1 892
18 TraesCS2B01G444900 chr2A 678966586 678970902 4316 True 1347.333333 2647 85.790333 807 4973 3 chr2A.!!$R2 4166
19 TraesCS2B01G444900 chr2A 733683902 733685722 1820 True 863.000000 863 75.912000 1985 3792 1 chr2A.!!$R1 1807
20 TraesCS2B01G444900 chr2A 679263792 679266996 3204 True 662.500000 1190 76.994500 1096 4123 2 chr2A.!!$R3 3027
21 TraesCS2B01G444900 chr3B 498983996 498984684 688 True 1003.000000 1003 93.064000 5283 5968 1 chr3B.!!$R2 685
22 TraesCS2B01G444900 chr3B 228953125 228953818 693 True 998.000000 998 92.816000 5282 5968 1 chr3B.!!$R1 686
23 TraesCS2B01G444900 chr7B 159592685 159593371 686 False 987.000000 987 92.609000 5282 5968 1 chr7B.!!$F1 686
24 TraesCS2B01G444900 chr6B 408603885 408604569 684 False 981.000000 981 92.496000 5279 5968 1 chr6B.!!$F2 689
25 TraesCS2B01G444900 chr4B 126523474 126524172 698 False 981.000000 981 92.297000 5281 5968 1 chr4B.!!$F1 687
26 TraesCS2B01G444900 chrUn 12441835 12443690 1855 True 638.000000 638 73.607000 1955 3801 1 chrUn.!!$R1 1846
27 TraesCS2B01G444900 chr5A 576281690 576282219 529 False 224.000000 224 75.495000 192 720 1 chr5A.!!$F1 528

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
380 642 0.317854 CTCTGAACGTGCGTGTCTCA 60.318 55.000 0.00 0.00 0.00 3.27 F
1321 1665 0.038892 CCACATTGGCTTGTGTGCTC 60.039 55.000 16.30 0.00 44.42 4.26 F
1444 1803 7.731882 TTTCAAGTTTTACCACATCGATGTA 57.268 32.000 29.52 12.97 39.39 2.29 F
2865 3566 2.894240 GATCGGGCGCAAACTACGGA 62.894 60.000 10.83 0.17 0.00 4.69 F
3849 6356 1.696336 AGCACTGACATGTTGAGTCCT 59.304 47.619 0.00 0.00 35.15 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1435 1793 1.066136 CGCATCAGGCTACATCGATG 58.934 55.000 23.68 23.68 41.67 3.84 R
2375 2982 2.187946 CCACGTCCAGGATGCTCC 59.812 66.667 8.79 0.00 36.58 4.70 R
3434 5911 1.360931 CCACGACATGCGAGCATCAA 61.361 55.000 7.70 0.00 44.57 2.57 R
4572 7179 1.200716 ACAGCATGCAGGTCGAAAATG 59.799 47.619 21.98 7.59 42.53 2.32 R
5052 7720 0.174845 GTGTATCCGTGCTGCTGGTA 59.825 55.000 0.00 0.00 0.00 3.25 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
30 31 5.233988 CCTTTCTGTCTCTTGTGGAAGTAG 58.766 45.833 0.00 0.00 0.00 2.57
74 75 2.898840 CAGCGCCGAAGCATCCAT 60.899 61.111 2.29 0.00 39.83 3.41
75 76 2.898840 AGCGCCGAAGCATCCATG 60.899 61.111 2.29 0.00 39.83 3.66
80 81 3.204119 CGAAGCATCCATGGCGCA 61.204 61.111 23.12 1.46 36.08 6.09
84 85 3.442167 GCATCCATGGCGCACACA 61.442 61.111 18.14 0.00 0.00 3.72
134 142 4.030452 GGCTCCAGCGTGTGCAAC 62.030 66.667 0.00 0.00 46.23 4.17
144 152 3.357919 TGTGCAACAGCATCAGGC 58.642 55.556 0.00 0.00 45.67 4.85
154 162 1.523258 GCATCAGGCTGAGCACGAT 60.523 57.895 23.24 4.24 40.25 3.73
155 163 1.497223 GCATCAGGCTGAGCACGATC 61.497 60.000 23.24 2.93 40.25 3.69
167 175 4.212913 ACGATCGCATGGCTCGCT 62.213 61.111 16.60 0.00 35.89 4.93
239 247 4.502105 TTGGCAATCATAGTCAGCCTTA 57.498 40.909 0.00 0.00 45.42 2.69
242 250 4.061596 GGCAATCATAGTCAGCCTTAGTC 58.938 47.826 0.00 0.00 42.01 2.59
244 252 5.363939 GCAATCATAGTCAGCCTTAGTCTT 58.636 41.667 0.00 0.00 0.00 3.01
290 306 0.382873 TACGTGCGTGAGAGTTGTGT 59.617 50.000 7.55 0.00 0.00 3.72
341 603 1.346068 GGCTAGCTTCACATAGGAGGG 59.654 57.143 15.72 0.00 0.00 4.30
358 620 1.072331 AGGGTCGATCAAGTTGCTTGT 59.928 47.619 0.00 0.00 41.66 3.16
374 636 1.087202 TTGTTGCTCTGAACGTGCGT 61.087 50.000 0.00 0.00 34.94 5.24
380 642 0.317854 CTCTGAACGTGCGTGTCTCA 60.318 55.000 0.00 0.00 0.00 3.27
435 704 3.196469 AGATTGTCATGAGCGAAGGAAGA 59.804 43.478 0.00 0.00 0.00 2.87
436 705 2.662006 TGTCATGAGCGAAGGAAGAG 57.338 50.000 0.00 0.00 0.00 2.85
437 706 1.205655 TGTCATGAGCGAAGGAAGAGG 59.794 52.381 0.00 0.00 0.00 3.69
438 707 1.205893 GTCATGAGCGAAGGAAGAGGT 59.794 52.381 0.00 0.00 0.00 3.85
439 708 1.205655 TCATGAGCGAAGGAAGAGGTG 59.794 52.381 0.00 0.00 0.00 4.00
440 709 0.539051 ATGAGCGAAGGAAGAGGTGG 59.461 55.000 0.00 0.00 0.00 4.61
460 729 3.859414 GAGCATGGAGGCGAGGCT 61.859 66.667 0.00 0.00 39.27 4.58
517 793 2.041265 CTAGGGGCTCCTGTGGGT 59.959 66.667 18.05 0.00 44.61 4.51
524 800 0.324830 GGCTCCTGTGGGTAGAGAGT 60.325 60.000 0.00 0.00 0.00 3.24
540 847 2.372172 GAGAGTGAGGGGGAAGAAAACA 59.628 50.000 0.00 0.00 0.00 2.83
727 1034 9.421399 AGGGACGGAAAATATATTTTTCTCATT 57.579 29.630 21.39 6.95 39.86 2.57
774 1085 4.883585 CCTATTCTCCATTAGCTGCACAAA 59.116 41.667 1.02 0.00 0.00 2.83
881 1198 3.340814 AGAACATGAGTGATGTCCCAC 57.659 47.619 0.00 0.00 45.12 4.61
890 1207 2.304180 AGTGATGTCCCACTTTCCTCAG 59.696 50.000 0.00 0.00 44.32 3.35
1043 1387 4.022935 CACTACCAATCATTGTTGCAGTGT 60.023 41.667 0.00 0.00 36.68 3.55
1092 1436 8.458573 TTCTTGTTTCAACTAAATTAGGAGCA 57.541 30.769 4.92 0.00 0.00 4.26
1118 1462 3.070878 GGCTAGAATAAGGAAGCAGCTCT 59.929 47.826 0.00 0.00 36.68 4.09
1204 1548 3.683802 CTCTCCTCAAGTTCCATGCTTT 58.316 45.455 0.00 0.00 0.00 3.51
1222 1566 4.341806 TGCTTTCCTCAATGTGTTGAATGT 59.658 37.500 0.00 0.00 43.39 2.71
1223 1567 4.682860 GCTTTCCTCAATGTGTTGAATGTG 59.317 41.667 0.00 0.00 43.39 3.21
1321 1665 0.038892 CCACATTGGCTTGTGTGCTC 60.039 55.000 16.30 0.00 44.42 4.26
1435 1793 9.575783 TGTCTTGTATTTTTCAAGTTTTACCAC 57.424 29.630 5.74 0.00 41.78 4.16
1439 1797 8.789881 TGTATTTTTCAAGTTTTACCACATCG 57.210 30.769 0.00 0.00 0.00 3.84
1444 1803 7.731882 TTTCAAGTTTTACCACATCGATGTA 57.268 32.000 29.52 12.97 39.39 2.29
1788 2207 9.336171 GCTATTTTCCTCTTGTAGAAGATGAAT 57.664 33.333 17.18 9.06 40.45 2.57
1800 2390 8.492673 TGTAGAAGATGAATATTTTTCAGCGT 57.507 30.769 0.00 0.00 39.56 5.07
2649 3337 8.673711 TGTATGCTTCATTTAACTCGCTAATTT 58.326 29.630 0.00 0.00 0.00 1.82
2650 3338 9.159470 GTATGCTTCATTTAACTCGCTAATTTC 57.841 33.333 0.00 0.00 0.00 2.17
2651 3339 7.139896 TGCTTCATTTAACTCGCTAATTTCA 57.860 32.000 0.00 0.00 0.00 2.69
2652 3340 7.589395 TGCTTCATTTAACTCGCTAATTTCAA 58.411 30.769 0.00 0.00 0.00 2.69
2865 3566 2.894240 GATCGGGCGCAAACTACGGA 62.894 60.000 10.83 0.17 0.00 4.69
3434 5911 7.125811 TGCTACTATATTTCCTCCTGAACTGTT 59.874 37.037 0.00 0.00 31.05 3.16
3529 6006 8.242729 AGGATCAAAAGAAGAACATGAAAACT 57.757 30.769 0.00 0.00 0.00 2.66
3611 6104 4.378616 GTGTTACGCATTGCTAACAAGTTG 59.621 41.667 23.20 0.00 39.69 3.16
3663 6165 3.274288 GTGGGATGATCACTCCAAAGAC 58.726 50.000 17.40 5.06 34.24 3.01
3805 6307 3.446873 AGTGAGTTTCCATTGTGTTTGCA 59.553 39.130 0.00 0.00 0.00 4.08
3849 6356 1.696336 AGCACTGACATGTTGAGTCCT 59.304 47.619 0.00 0.00 35.15 3.85
4012 6519 2.897271 TTATTGGGCCAAAGCTCTCA 57.103 45.000 24.97 0.00 41.57 3.27
4048 6555 6.368791 TCCAAGATCAAGAATACAACGAGTTG 59.631 38.462 13.76 13.76 45.58 3.16
4132 6641 5.163034 TGGGTTCCTTTTATCCTCAACTTCA 60.163 40.000 0.00 0.00 0.00 3.02
4227 6739 8.534333 AAGTTATATATGCTTCACATACCACG 57.466 34.615 0.00 0.00 43.99 4.94
4249 6762 4.702131 CGACAGGGAAATTCCTTCATCTTT 59.298 41.667 12.28 0.00 36.57 2.52
4433 6957 6.742559 TGTATGGTATTCTTAGGAGTTCCC 57.257 41.667 0.00 0.00 36.42 3.97
4458 6982 3.813724 CGATGGTAGAAGACGGACTGATA 59.186 47.826 0.00 0.00 0.00 2.15
4488 7012 9.439500 ACTCTTAGAAGCTAGTATAATACGGAG 57.561 37.037 0.00 0.00 0.00 4.63
4507 7031 5.035443 CGGAGTACATCTTAGTAGTTGTGC 58.965 45.833 0.00 0.00 37.12 4.57
4513 7037 6.791867 ACATCTTAGTAGTTGTGCATCCTA 57.208 37.500 0.00 0.00 33.98 2.94
4517 7041 9.197694 CATCTTAGTAGTTGTGCATCCTATTAC 57.802 37.037 0.00 0.00 0.00 1.89
4519 7043 8.414003 TCTTAGTAGTTGTGCATCCTATTACTG 58.586 37.037 0.00 0.00 0.00 2.74
4572 7179 3.332919 ACTCATCACTGTTGTCTCATGC 58.667 45.455 0.00 0.00 0.00 4.06
4610 7278 4.076394 GCTGTAATTTGGTACCCTGACAA 58.924 43.478 10.07 0.00 0.00 3.18
4612 7280 5.163652 GCTGTAATTTGGTACCCTGACAATC 60.164 44.000 10.07 0.00 0.00 2.67
4613 7281 5.882040 TGTAATTTGGTACCCTGACAATCA 58.118 37.500 10.07 0.00 0.00 2.57
4622 7290 7.506114 TGGTACCCTGACAATCATTAATCTAC 58.494 38.462 10.07 0.00 0.00 2.59
4682 7350 7.482169 TTATGTCTCACTACTTGTTCTCCAT 57.518 36.000 0.00 0.00 0.00 3.41
4781 7449 6.437162 TGCTAAAGCTGGTTCTTATGGAAAAT 59.563 34.615 3.26 0.00 42.66 1.82
4824 7492 2.544721 AGGAGCTGTTCTGGAAGATGA 58.455 47.619 0.00 0.00 46.36 2.92
4862 7530 1.621992 TCTACTCCCAGATCGATGGC 58.378 55.000 0.54 0.00 39.17 4.40
4895 7563 2.785258 GAAATGGTGAGCGCGGTC 59.215 61.111 30.17 30.17 0.00 4.79
4950 7618 0.038343 CAACAATCCACCTTTGCCCG 60.038 55.000 0.00 0.00 0.00 6.13
4992 7660 3.907894 TCCGTGTATTTTGCCTTGTTC 57.092 42.857 0.00 0.00 0.00 3.18
4993 7661 3.482436 TCCGTGTATTTTGCCTTGTTCT 58.518 40.909 0.00 0.00 0.00 3.01
4994 7662 4.643463 TCCGTGTATTTTGCCTTGTTCTA 58.357 39.130 0.00 0.00 0.00 2.10
4995 7663 4.453136 TCCGTGTATTTTGCCTTGTTCTAC 59.547 41.667 0.00 0.00 0.00 2.59
4996 7664 4.454504 CCGTGTATTTTGCCTTGTTCTACT 59.545 41.667 0.00 0.00 0.00 2.57
4997 7665 5.382303 CGTGTATTTTGCCTTGTTCTACTG 58.618 41.667 0.00 0.00 0.00 2.74
4999 7667 6.146510 CGTGTATTTTGCCTTGTTCTACTGTA 59.853 38.462 0.00 0.00 0.00 2.74
5001 7669 7.172703 GTGTATTTTGCCTTGTTCTACTGTAGT 59.827 37.037 14.11 0.00 0.00 2.73
5061 7729 2.483889 GGGTCAGATAACTACCAGCAGC 60.484 54.545 0.00 0.00 34.83 5.25
5075 7743 1.135112 CAGCAGCACGGATACACTGTA 60.135 52.381 0.00 0.00 36.20 2.74
5094 7762 8.318412 ACACTGTATATGTGGTACATCAGAAAA 58.682 33.333 12.99 0.00 44.52 2.29
5187 7960 8.690203 ATTTGGTATAGCTGCATAAACATGTA 57.310 30.769 0.00 0.00 0.00 2.29
5206 7979 9.699703 AACATGTATTATTTTTACGGTTTTGCT 57.300 25.926 0.00 0.00 0.00 3.91
5216 7989 7.626144 TTTTACGGTTTTGCTATTTTACAGC 57.374 32.000 0.00 0.00 39.56 4.40
5217 7990 6.563222 TTACGGTTTTGCTATTTTACAGCT 57.437 33.333 0.00 0.00 39.83 4.24
5218 7991 4.794169 ACGGTTTTGCTATTTTACAGCTG 58.206 39.130 13.48 13.48 39.83 4.24
5219 7992 4.517453 ACGGTTTTGCTATTTTACAGCTGA 59.483 37.500 23.35 0.48 39.83 4.26
5220 7993 4.851558 CGGTTTTGCTATTTTACAGCTGAC 59.148 41.667 23.35 2.48 39.83 3.51
5221 7994 5.334879 CGGTTTTGCTATTTTACAGCTGACT 60.335 40.000 23.35 0.27 39.83 3.41
5235 8008 4.601019 CAGCTGACTGTTTTTCAATTCGT 58.399 39.130 8.42 0.00 39.22 3.85
5236 8009 5.036737 CAGCTGACTGTTTTTCAATTCGTT 58.963 37.500 8.42 0.00 39.22 3.85
5237 8010 5.516339 CAGCTGACTGTTTTTCAATTCGTTT 59.484 36.000 8.42 0.00 39.22 3.60
5238 8011 6.690957 CAGCTGACTGTTTTTCAATTCGTTTA 59.309 34.615 8.42 0.00 39.22 2.01
5239 8012 6.691388 AGCTGACTGTTTTTCAATTCGTTTAC 59.309 34.615 0.00 0.00 0.00 2.01
5240 8013 6.470877 GCTGACTGTTTTTCAATTCGTTTACA 59.529 34.615 0.00 0.00 0.00 2.41
5241 8014 7.167468 GCTGACTGTTTTTCAATTCGTTTACAT 59.833 33.333 0.00 0.00 0.00 2.29
5242 8015 8.918961 TGACTGTTTTTCAATTCGTTTACATT 57.081 26.923 0.00 0.00 0.00 2.71
5243 8016 9.360093 TGACTGTTTTTCAATTCGTTTACATTT 57.640 25.926 0.00 0.00 0.00 2.32
5253 8026 9.790389 TCAATTCGTTTACATTTAAGTTGTTGT 57.210 25.926 0.00 0.00 0.00 3.32
5255 8028 8.791355 ATTCGTTTACATTTAAGTTGTTGTCC 57.209 30.769 0.00 0.00 0.00 4.02
5256 8029 6.420588 TCGTTTACATTTAAGTTGTTGTCCG 58.579 36.000 0.00 0.00 0.00 4.79
5257 8030 6.036953 TCGTTTACATTTAAGTTGTTGTCCGT 59.963 34.615 0.00 0.00 0.00 4.69
5258 8031 6.355144 CGTTTACATTTAAGTTGTTGTCCGTC 59.645 38.462 0.00 0.00 0.00 4.79
5259 8032 4.823790 ACATTTAAGTTGTTGTCCGTCC 57.176 40.909 0.00 0.00 0.00 4.79
5260 8033 3.249080 ACATTTAAGTTGTTGTCCGTCCG 59.751 43.478 0.00 0.00 0.00 4.79
5261 8034 2.600470 TTAAGTTGTTGTCCGTCCGT 57.400 45.000 0.00 0.00 0.00 4.69
5262 8035 2.600470 TAAGTTGTTGTCCGTCCGTT 57.400 45.000 0.00 0.00 0.00 4.44
5263 8036 1.292992 AAGTTGTTGTCCGTCCGTTC 58.707 50.000 0.00 0.00 0.00 3.95
5264 8037 0.462789 AGTTGTTGTCCGTCCGTTCT 59.537 50.000 0.00 0.00 0.00 3.01
5265 8038 1.134610 AGTTGTTGTCCGTCCGTTCTT 60.135 47.619 0.00 0.00 0.00 2.52
5266 8039 1.004292 GTTGTTGTCCGTCCGTTCTTG 60.004 52.381 0.00 0.00 0.00 3.02
5267 8040 1.155424 TGTTGTCCGTCCGTTCTTGC 61.155 55.000 0.00 0.00 0.00 4.01
5268 8041 1.952133 TTGTCCGTCCGTTCTTGCG 60.952 57.895 0.00 0.00 0.00 4.85
5269 8042 3.774702 GTCCGTCCGTTCTTGCGC 61.775 66.667 0.00 0.00 0.00 6.09
5276 8049 3.474806 CGTTCTTGCGCGGAGATT 58.525 55.556 8.83 0.00 0.00 2.40
5277 8050 1.345176 CGTTCTTGCGCGGAGATTC 59.655 57.895 8.83 9.23 0.00 2.52
5278 8051 1.345176 GTTCTTGCGCGGAGATTCG 59.655 57.895 8.83 0.00 0.00 3.34
5442 8216 0.104304 GTATGTCTTCACGGCCCGAT 59.896 55.000 11.71 0.00 0.00 4.18
5451 8225 2.356313 CGGCCCGATCGATCAAGG 60.356 66.667 24.40 22.92 0.00 3.61
5467 8241 4.345859 TCAAGGACCAAAACTACGACAT 57.654 40.909 0.00 0.00 0.00 3.06
5485 8259 2.027745 ACATCTCCGAGTTCTTGCACAT 60.028 45.455 0.00 0.00 0.00 3.21
5501 8275 2.340337 CACATGTTCAGCTCGATGACA 58.660 47.619 0.00 0.00 0.00 3.58
5563 8340 3.036084 CAGCACGACGGTGTGGTC 61.036 66.667 10.49 0.00 46.91 4.02
5643 8420 0.031010 GAGGACTATGGTGGAGGGGT 60.031 60.000 0.00 0.00 0.00 4.95
5645 8422 0.620700 GGACTATGGTGGAGGGGTGT 60.621 60.000 0.00 0.00 0.00 4.16
5676 8454 5.525012 CACGGCTAAGAGATCAATGATCAAA 59.475 40.000 23.41 6.38 41.12 2.69
5847 8632 1.562008 GGAAGGAGGGAGGAAGGAAAG 59.438 57.143 0.00 0.00 0.00 2.62
5848 8633 1.562008 GAAGGAGGGAGGAAGGAAAGG 59.438 57.143 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 1.673033 CGTGCCCTACTTCCACAAGAG 60.673 57.143 0.00 0.00 33.34 2.85
62 63 3.957535 GCGCCATGGATGCTTCGG 61.958 66.667 18.40 0.00 0.00 4.30
66 67 3.136123 GTGTGCGCCATGGATGCT 61.136 61.111 24.43 0.00 0.00 3.79
74 75 4.321966 TTCGGGATGTGTGCGCCA 62.322 61.111 4.18 0.00 0.00 5.69
75 76 3.499737 CTTCGGGATGTGTGCGCC 61.500 66.667 4.18 0.00 0.00 6.53
136 144 1.497223 GATCGTGCTCAGCCTGATGC 61.497 60.000 5.50 1.98 41.71 3.91
137 145 1.213733 CGATCGTGCTCAGCCTGATG 61.214 60.000 7.03 0.00 0.00 3.07
138 146 1.067084 CGATCGTGCTCAGCCTGAT 59.933 57.895 7.03 0.00 0.00 2.90
139 147 2.491621 CGATCGTGCTCAGCCTGA 59.508 61.111 7.03 0.00 0.00 3.86
140 148 3.260483 GCGATCGTGCTCAGCCTG 61.260 66.667 17.81 0.00 0.00 4.85
141 149 3.086391 ATGCGATCGTGCTCAGCCT 62.086 57.895 17.81 0.00 35.36 4.58
142 150 2.587194 ATGCGATCGTGCTCAGCC 60.587 61.111 17.81 0.00 35.36 4.85
143 151 2.624811 CATGCGATCGTGCTCAGC 59.375 61.111 17.81 0.00 35.36 4.26
144 152 2.879070 GCCATGCGATCGTGCTCAG 61.879 63.158 17.81 2.48 35.36 3.35
145 153 2.891936 GCCATGCGATCGTGCTCA 60.892 61.111 17.81 6.28 35.36 4.26
146 154 2.587194 AGCCATGCGATCGTGCTC 60.587 61.111 17.81 0.00 35.36 4.26
147 155 2.587194 GAGCCATGCGATCGTGCT 60.587 61.111 17.81 18.28 35.36 4.40
154 162 4.819761 GTCCAGCGAGCCATGCGA 62.820 66.667 0.00 0.00 37.44 5.10
176 184 0.038343 TTAGTACCACAACGGCGGTC 60.038 55.000 13.24 0.00 39.03 4.79
180 188 2.955607 GTTGTTAGTACCACAACGGC 57.044 50.000 18.17 2.31 43.37 5.68
185 193 3.389983 AGAGCTTGGTTGTTAGTACCACA 59.610 43.478 0.00 0.00 45.00 4.17
187 195 5.047519 GTCTAGAGCTTGGTTGTTAGTACCA 60.048 44.000 0.00 0.00 43.71 3.25
188 196 5.185442 AGTCTAGAGCTTGGTTGTTAGTACC 59.815 44.000 0.00 0.00 36.17 3.34
194 202 3.055747 GGCTAGTCTAGAGCTTGGTTGTT 60.056 47.826 11.27 0.00 39.98 2.83
290 306 0.183014 TTTACCACCGGCCAGAAACA 59.817 50.000 0.00 0.00 0.00 2.83
341 603 2.310577 GCAACAAGCAACTTGATCGAC 58.689 47.619 13.94 0.00 43.42 4.20
358 620 1.487452 GACACGCACGTTCAGAGCAA 61.487 55.000 0.00 0.00 36.17 3.91
374 636 3.181486 GCTCCGATTGATACAGTGAGACA 60.181 47.826 0.00 0.00 0.00 3.41
380 642 3.226777 AGCTAGCTCCGATTGATACAGT 58.773 45.455 12.68 0.00 0.00 3.55
435 704 1.692042 CCTCCATGCTCCTCCACCT 60.692 63.158 0.00 0.00 0.00 4.00
436 705 2.914289 CCTCCATGCTCCTCCACC 59.086 66.667 0.00 0.00 0.00 4.61
437 706 2.191641 GCCTCCATGCTCCTCCAC 59.808 66.667 0.00 0.00 0.00 4.02
438 707 3.473647 CGCCTCCATGCTCCTCCA 61.474 66.667 0.00 0.00 0.00 3.86
439 708 3.157252 TCGCCTCCATGCTCCTCC 61.157 66.667 0.00 0.00 0.00 4.30
440 709 2.420890 CTCGCCTCCATGCTCCTC 59.579 66.667 0.00 0.00 0.00 3.71
501 777 1.226104 TCTACCCACAGGAGCCCCTA 61.226 60.000 0.00 0.00 42.02 3.53
505 781 0.324830 ACTCTCTACCCACAGGAGCC 60.325 60.000 0.00 0.00 36.73 4.70
517 793 3.838903 GTTTTCTTCCCCCTCACTCTCTA 59.161 47.826 0.00 0.00 0.00 2.43
524 800 3.963476 TCTTTGTTTTCTTCCCCCTCA 57.037 42.857 0.00 0.00 0.00 3.86
540 847 4.137543 GTTGAACTCACCACCTCATCTTT 58.862 43.478 0.00 0.00 0.00 2.52
1043 1387 3.358111 TGTGACAAGACCCTCAAACAA 57.642 42.857 0.00 0.00 0.00 2.83
1092 1436 4.444164 GCTGCTTCCTTATTCTAGCCTTCT 60.444 45.833 0.00 0.00 32.73 2.85
1118 1462 2.461695 TGGCAAAAACTCAGGTTCCAA 58.538 42.857 0.00 0.00 34.14 3.53
1204 1548 3.820467 GGACACATTCAACACATTGAGGA 59.180 43.478 0.00 0.00 45.54 3.71
1222 1566 3.244526 TGCTCTGCTGATTTTGTAGGACA 60.245 43.478 0.00 0.00 0.00 4.02
1223 1567 3.338249 TGCTCTGCTGATTTTGTAGGAC 58.662 45.455 0.00 0.00 0.00 3.85
1321 1665 4.201851 CCAACATTCCATCTCTTAAGTGCG 60.202 45.833 1.63 0.00 0.00 5.34
1435 1793 1.066136 CGCATCAGGCTACATCGATG 58.934 55.000 23.68 23.68 41.67 3.84
1439 1797 2.445565 TCATCGCATCAGGCTACATC 57.554 50.000 0.00 0.00 41.67 3.06
1444 1803 1.679680 CCATTTTCATCGCATCAGGCT 59.320 47.619 0.00 0.00 41.67 4.58
1501 1861 5.764686 ACACTCTGCTCATTTGTAACAATGA 59.235 36.000 0.00 0.00 34.57 2.57
1788 2207 8.641499 AAAAATGAACTTCACGCTGAAAAATA 57.359 26.923 0.00 0.00 35.73 1.40
2375 2982 2.187946 CCACGTCCAGGATGCTCC 59.812 66.667 8.79 0.00 36.58 4.70
2629 3317 9.773328 TGATTGAAATTAGCGAGTTAAATGAAG 57.227 29.630 0.00 0.00 0.00 3.02
2649 3337 4.827304 TCATCTGCGTTGTTTTGATTGA 57.173 36.364 0.00 0.00 0.00 2.57
2650 3338 5.285370 CAGATCATCTGCGTTGTTTTGATTG 59.715 40.000 0.47 0.00 37.72 2.67
2651 3339 5.396484 CAGATCATCTGCGTTGTTTTGATT 58.604 37.500 0.47 0.00 37.72 2.57
2652 3340 4.978186 CAGATCATCTGCGTTGTTTTGAT 58.022 39.130 0.47 0.00 37.72 2.57
2865 3566 9.753674 TTCATGTAAGGACCTCTTGAAATATTT 57.246 29.630 0.00 0.00 36.93 1.40
2922 3623 7.722363 AGAAACAGTAAACACCCAATAAAAGG 58.278 34.615 0.00 0.00 0.00 3.11
3282 5737 9.920946 TCTAAGAATGGAAATTAGTAAGGCAAT 57.079 29.630 0.00 0.00 0.00 3.56
3434 5911 1.360931 CCACGACATGCGAGCATCAA 61.361 55.000 7.70 0.00 44.57 2.57
3529 6006 9.444600 GGGTTACTTCTCAACTAATGTTATGAA 57.555 33.333 0.00 0.00 34.60 2.57
3611 6104 3.356290 ACATTAGCAAATCAGGGACCAC 58.644 45.455 0.00 0.00 0.00 4.16
3849 6356 4.701663 GCTGTAGCCACTGCAGAA 57.298 55.556 23.35 0.00 44.84 3.02
4012 6519 5.258841 TCTTGATCTTGGACAATGCATTCT 58.741 37.500 9.53 0.00 0.00 2.40
4132 6641 5.175127 TGCAAATGTGACGTGTGTAGATAT 58.825 37.500 0.00 0.00 0.00 1.63
4140 6649 6.316140 AGAATACATATGCAAATGTGACGTGT 59.684 34.615 1.58 0.00 40.29 4.49
4201 6713 8.988934 CGTGGTATGTGAAGCATATATAACTTT 58.011 33.333 3.62 0.00 41.58 2.66
4227 6739 7.888250 ATAAAGATGAAGGAATTTCCCTGTC 57.112 36.000 11.92 7.91 37.19 3.51
4249 6762 7.416213 GCAACCAGCAGGATGTTTGTTTATATA 60.416 37.037 0.35 0.00 44.79 0.86
4261 6774 3.599584 CTGGCAACCAGCAGGATG 58.400 61.111 0.35 0.49 45.13 3.51
4382 6905 7.639039 CACTTAGATGTGTGCTTTACAAGAAA 58.361 34.615 0.00 0.00 41.89 2.52
4433 6957 1.299165 CCGTCTTCTACCATCGCCG 60.299 63.158 0.00 0.00 0.00 6.46
4481 7005 7.468357 GCACAACTACTAAGATGTACTCCGTAT 60.468 40.741 0.00 0.00 36.67 3.06
4482 7006 6.183360 GCACAACTACTAAGATGTACTCCGTA 60.183 42.308 0.00 0.00 36.67 4.02
4485 7009 5.962433 TGCACAACTACTAAGATGTACTCC 58.038 41.667 0.00 0.00 36.67 3.85
4486 7010 6.697892 GGATGCACAACTACTAAGATGTACTC 59.302 42.308 0.00 0.00 36.67 2.59
4487 7011 6.381420 AGGATGCACAACTACTAAGATGTACT 59.619 38.462 0.00 0.00 36.67 2.73
4488 7012 6.574350 AGGATGCACAACTACTAAGATGTAC 58.426 40.000 0.00 0.00 36.67 2.90
4489 7013 6.791867 AGGATGCACAACTACTAAGATGTA 57.208 37.500 0.00 0.00 36.67 2.29
4490 7014 5.683876 AGGATGCACAACTACTAAGATGT 57.316 39.130 0.00 0.00 39.14 3.06
4491 7015 9.197694 GTAATAGGATGCACAACTACTAAGATG 57.802 37.037 0.00 0.00 0.00 2.90
4492 7016 9.148879 AGTAATAGGATGCACAACTACTAAGAT 57.851 33.333 0.00 0.00 0.00 2.40
4493 7017 8.414003 CAGTAATAGGATGCACAACTACTAAGA 58.586 37.037 0.00 0.00 0.00 2.10
4494 7018 8.198109 ACAGTAATAGGATGCACAACTACTAAG 58.802 37.037 0.00 0.00 0.00 2.18
4495 7019 8.074613 ACAGTAATAGGATGCACAACTACTAA 57.925 34.615 0.00 0.00 0.00 2.24
4572 7179 1.200716 ACAGCATGCAGGTCGAAAATG 59.799 47.619 21.98 7.59 42.53 2.32
4622 7290 3.323403 CCCTGCTCTCCCTCTGTAATAAG 59.677 52.174 0.00 0.00 0.00 1.73
4682 7350 6.367374 TCAATTGACATAGAACCACCACTA 57.633 37.500 3.38 0.00 0.00 2.74
4774 7442 5.007682 GCCTAGGAACAACTGTATTTTCCA 58.992 41.667 14.75 3.87 40.13 3.53
4781 7449 1.274167 CACGGCCTAGGAACAACTGTA 59.726 52.381 14.75 0.00 0.00 2.74
4824 7492 6.998802 AGTAGAACAAGTGAACTATCTTGCT 58.001 36.000 5.06 0.00 43.05 3.91
4895 7563 2.537529 CGGCTCGTTGATAACTGCATTG 60.538 50.000 0.00 0.00 32.67 2.82
4950 7618 5.453567 AACCCTTAATTTTCTGACTGCAC 57.546 39.130 0.00 0.00 0.00 4.57
4992 7660 7.383572 GCACCTGATTGATTGATACTACAGTAG 59.616 40.741 6.00 6.00 33.52 2.57
4993 7661 7.069950 AGCACCTGATTGATTGATACTACAGTA 59.930 37.037 0.00 0.00 34.67 2.74
4994 7662 6.051717 GCACCTGATTGATTGATACTACAGT 58.948 40.000 0.00 0.00 0.00 3.55
4995 7663 6.286758 AGCACCTGATTGATTGATACTACAG 58.713 40.000 0.00 0.00 0.00 2.74
4996 7664 6.098838 AGAGCACCTGATTGATTGATACTACA 59.901 38.462 0.00 0.00 0.00 2.74
4997 7665 6.520272 AGAGCACCTGATTGATTGATACTAC 58.480 40.000 0.00 0.00 0.00 2.73
4999 7667 5.366186 AGAGAGCACCTGATTGATTGATACT 59.634 40.000 0.00 0.00 0.00 2.12
5001 7669 5.883685 AGAGAGCACCTGATTGATTGATA 57.116 39.130 0.00 0.00 0.00 2.15
5042 7710 3.190874 GTGCTGCTGGTAGTTATCTGAC 58.809 50.000 0.00 0.00 0.00 3.51
5052 7720 0.174845 GTGTATCCGTGCTGCTGGTA 59.825 55.000 0.00 0.00 0.00 3.25
5061 7729 5.196341 ACCACATATACAGTGTATCCGTG 57.804 43.478 24.80 24.80 35.24 4.94
5197 7970 4.851558 GTCAGCTGTAAAATAGCAAAACCG 59.148 41.667 14.67 0.00 43.53 4.44
5199 7972 6.918043 CAGTCAGCTGTAAAATAGCAAAAC 57.082 37.500 14.67 0.00 43.53 2.43
5214 7987 4.900635 ACGAATTGAAAAACAGTCAGCT 57.099 36.364 0.00 0.00 0.00 4.24
5215 7988 5.949233 AAACGAATTGAAAAACAGTCAGC 57.051 34.783 0.00 0.00 0.00 4.26
5216 7989 7.962934 TGTAAACGAATTGAAAAACAGTCAG 57.037 32.000 0.00 0.00 0.00 3.51
5217 7990 8.918961 AATGTAAACGAATTGAAAAACAGTCA 57.081 26.923 0.00 0.00 0.00 3.41
5227 8000 9.790389 ACAACAACTTAAATGTAAACGAATTGA 57.210 25.926 0.00 0.00 0.00 2.57
5229 8002 9.240159 GGACAACAACTTAAATGTAAACGAATT 57.760 29.630 0.00 0.00 0.00 2.17
5230 8003 7.588488 CGGACAACAACTTAAATGTAAACGAAT 59.412 33.333 0.00 0.00 0.00 3.34
5231 8004 6.906143 CGGACAACAACTTAAATGTAAACGAA 59.094 34.615 0.00 0.00 0.00 3.85
5232 8005 6.036953 ACGGACAACAACTTAAATGTAAACGA 59.963 34.615 0.00 0.00 0.00 3.85
5233 8006 6.193761 ACGGACAACAACTTAAATGTAAACG 58.806 36.000 0.00 0.00 0.00 3.60
5234 8007 6.634035 GGACGGACAACAACTTAAATGTAAAC 59.366 38.462 0.00 0.00 0.00 2.01
5235 8008 6.511444 CGGACGGACAACAACTTAAATGTAAA 60.511 38.462 0.00 0.00 0.00 2.01
5236 8009 5.050227 CGGACGGACAACAACTTAAATGTAA 60.050 40.000 0.00 0.00 0.00 2.41
5237 8010 4.448395 CGGACGGACAACAACTTAAATGTA 59.552 41.667 0.00 0.00 0.00 2.29
5238 8011 3.249080 CGGACGGACAACAACTTAAATGT 59.751 43.478 0.00 0.00 0.00 2.71
5239 8012 3.249080 ACGGACGGACAACAACTTAAATG 59.751 43.478 0.00 0.00 0.00 2.32
5240 8013 3.469739 ACGGACGGACAACAACTTAAAT 58.530 40.909 0.00 0.00 0.00 1.40
5241 8014 2.903798 ACGGACGGACAACAACTTAAA 58.096 42.857 0.00 0.00 0.00 1.52
5242 8015 2.600470 ACGGACGGACAACAACTTAA 57.400 45.000 0.00 0.00 0.00 1.85
5243 8016 2.101249 AGAACGGACGGACAACAACTTA 59.899 45.455 0.00 0.00 0.00 2.24
5244 8017 1.134610 AGAACGGACGGACAACAACTT 60.135 47.619 0.00 0.00 0.00 2.66
5245 8018 0.462789 AGAACGGACGGACAACAACT 59.537 50.000 0.00 0.00 0.00 3.16
5246 8019 1.004292 CAAGAACGGACGGACAACAAC 60.004 52.381 0.00 0.00 0.00 3.32
5247 8020 1.292061 CAAGAACGGACGGACAACAA 58.708 50.000 0.00 0.00 0.00 2.83
5248 8021 1.155424 GCAAGAACGGACGGACAACA 61.155 55.000 0.00 0.00 0.00 3.33
5249 8022 1.568025 GCAAGAACGGACGGACAAC 59.432 57.895 0.00 0.00 0.00 3.32
5250 8023 1.952133 CGCAAGAACGGACGGACAA 60.952 57.895 0.00 0.00 43.02 3.18
5251 8024 2.355363 CGCAAGAACGGACGGACA 60.355 61.111 0.00 0.00 43.02 4.02
5252 8025 3.774702 GCGCAAGAACGGACGGAC 61.775 66.667 0.30 0.00 43.02 4.79
5259 8032 1.345176 GAATCTCCGCGCAAGAACG 59.655 57.895 8.75 0.00 43.02 3.95
5260 8033 1.345176 CGAATCTCCGCGCAAGAAC 59.655 57.895 8.75 7.60 43.02 3.01
5261 8034 3.780693 CGAATCTCCGCGCAAGAA 58.219 55.556 8.75 0.00 43.02 2.52
5269 8042 2.697425 CAACAGCGCGAATCTCCG 59.303 61.111 12.10 0.00 0.00 4.63
5270 8043 2.464459 CCCAACAGCGCGAATCTCC 61.464 63.158 12.10 0.00 0.00 3.71
5271 8044 2.464459 CCCCAACAGCGCGAATCTC 61.464 63.158 12.10 0.00 0.00 2.75
5272 8045 2.436646 CCCCAACAGCGCGAATCT 60.437 61.111 12.10 0.00 0.00 2.40
5273 8046 2.038269 TTCCCCAACAGCGCGAATC 61.038 57.895 12.10 0.00 0.00 2.52
5274 8047 2.033448 TTCCCCAACAGCGCGAAT 59.967 55.556 12.10 0.00 0.00 3.34
5275 8048 2.975799 GTTCCCCAACAGCGCGAA 60.976 61.111 12.10 0.00 32.14 4.70
5278 8051 2.357760 TACGTTCCCCAACAGCGC 60.358 61.111 0.00 0.00 32.14 5.92
5279 8052 0.244450 TACTACGTTCCCCAACAGCG 59.756 55.000 0.00 0.00 32.14 5.18
5442 8216 3.256383 TCGTAGTTTTGGTCCTTGATCGA 59.744 43.478 0.00 0.00 0.00 3.59
5451 8225 2.921754 CGGAGATGTCGTAGTTTTGGTC 59.078 50.000 0.00 0.00 0.00 4.02
5467 8241 1.344438 ACATGTGCAAGAACTCGGAGA 59.656 47.619 12.86 0.00 0.00 3.71
5485 8259 1.134699 GGGATGTCATCGAGCTGAACA 60.135 52.381 6.74 0.00 0.00 3.18
5563 8340 3.706698 ACGGTAGAACATCATCATCGTG 58.293 45.455 0.00 0.00 0.00 4.35
5676 8454 1.340991 GGCACCCCATAGACACAACAT 60.341 52.381 0.00 0.00 0.00 2.71
5705 8486 5.403512 CCCTCCTCCACTCCTTTATATACA 58.596 45.833 0.00 0.00 0.00 2.29
5860 8653 1.410932 CCCCAAGCCCAATCCGAATTA 60.411 52.381 0.00 0.00 0.00 1.40
5897 8700 0.178861 AGGAGGGGAAAGGAGCAAGA 60.179 55.000 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.