Multiple sequence alignment - TraesCS5D01G114100

Loading Multiple Alignment...

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 TraesCS5D01G114100 chr5D 100.000 3365 0 0 1 3365 133308288 133311652 0.000000e+00 6215.0
1 TraesCS5D01G114100 chr5D 87.778 270 27 4 1 267 32229569 32229835 9.070000e-81 311.0
2 TraesCS5D01G114100 chr5D 74.127 773 170 25 1608 2359 515411766 515411003 3.280000e-75 292.0
3 TraesCS5D01G114100 chr5D 78.190 431 86 7 1001 1427 551244079 551243653 5.530000e-68 268.0
4 TraesCS5D01G114100 chr5D 74.331 635 132 27 1627 2235 515568162 515567533 1.210000e-59 241.0
5 TraesCS5D01G114100 chr5D 74.367 632 129 29 1627 2231 551243391 551242766 4.340000e-59 239.0
6 TraesCS5D01G114100 chr5A 95.933 1795 57 9 814 2607 155554106 155555885 0.000000e+00 2896.0
7 TraesCS5D01G114100 chr5A 89.416 274 27 2 2976 3248 491737270 491736998 8.940000e-91 344.0
8 TraesCS5D01G114100 chr5A 87.218 266 29 3 1 263 146498661 146498924 7.060000e-77 298.0
9 TraesCS5D01G114100 chr5A 74.525 632 128 27 1627 2231 643854800 643854175 9.330000e-61 244.0
10 TraesCS5D01G114100 chr5A 86.275 102 14 0 3264 3365 622679647 622679546 9.870000e-21 111.0
11 TraesCS5D01G114100 chr5B 95.323 1625 45 2 820 2443 144610542 144612136 0.000000e+00 2551.0
12 TraesCS5D01G114100 chr5B 92.201 359 27 1 1 358 144609419 144609777 1.080000e-139 507.0
13 TraesCS5D01G114100 chr5B 95.484 310 14 0 361 670 144609809 144610118 2.330000e-136 496.0
14 TraesCS5D01G114100 chr5B 75.200 750 159 20 1625 2359 648000810 648000073 2.500000e-86 329.0
15 TraesCS5D01G114100 chr5B 75.114 659 134 22 1625 2259 648135352 648134700 7.110000e-72 281.0
16 TraesCS5D01G114100 chr5B 88.306 248 10 5 571 818 144610541 144610313 2.560000e-71 279.0
17 TraesCS5D01G114100 chr5B 79.208 404 77 7 1025 1426 648260543 648260145 1.190000e-69 274.0
18 TraesCS5D01G114100 chr5B 74.847 652 129 22 1625 2259 647993805 647993172 2.570000e-66 263.0
19 TraesCS5D01G114100 chr5B 84.444 225 19 5 2435 2659 144756543 144756751 1.220000e-49 207.0
20 TraesCS5D01G114100 chr5B 96.117 103 4 0 470 572 144610211 144610313 5.770000e-38 169.0
21 TraesCS5D01G114100 chr1A 88.774 677 45 10 2661 3308 566367726 566368400 0.000000e+00 800.0
22 TraesCS5D01G114100 chr1A 86.090 266 29 5 1 263 111791897 111791637 2.560000e-71 279.0
23 TraesCS5D01G114100 chr1A 95.652 46 2 0 3247 3292 566368298 566368343 1.290000e-09 75.0
24 TraesCS5D01G114100 chr4D 81.683 404 72 2 1025 1427 16366957 16366555 5.380000e-88 335.0
25 TraesCS5D01G114100 chr4D 84.528 265 34 6 1 262 479992847 479992587 4.310000e-64 255.0
26 TraesCS5D01G114100 chr4B 81.728 405 70 4 1025 1427 28221503 28221101 5.380000e-88 335.0
27 TraesCS5D01G114100 chr4B 87.500 264 28 4 1 261 606840313 606840574 1.960000e-77 300.0
28 TraesCS5D01G114100 chr4B 79.310 406 78 6 1025 1427 28287933 28287531 2.560000e-71 279.0
29 TraesCS5D01G114100 chr4A 80.676 414 76 4 1016 1427 584055192 584055603 5.420000e-83 318.0
30 TraesCS5D01G114100 chr2B 87.037 270 31 4 1 269 199459878 199460144 5.460000e-78 302.0
31 TraesCS5D01G114100 chr2B 86.742 264 29 5 1 261 75913097 75912837 4.250000e-74 289.0
32 TraesCS5D01G114100 chr2B 81.633 98 18 0 2660 2757 210700503 210700600 7.740000e-12 82.4
33 TraesCS5D01G114100 chr6B 86.742 264 30 4 1 261 559514533 559514272 4.250000e-74 289.0
34 TraesCS5D01G114100 chrUn 79.310 406 78 6 1025 1427 278726972 278726570 2.560000e-71 279.0


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 TraesCS5D01G114100 chr5D 133308288 133311652 3364 False 6215.00 6215 100.00000 1 3365 1 chr5D.!!$F2 3364
1 TraesCS5D01G114100 chr5D 515411003 515411766 763 True 292.00 292 74.12700 1608 2359 1 chr5D.!!$R1 751
2 TraesCS5D01G114100 chr5D 551242766 551244079 1313 True 253.50 268 76.27850 1001 2231 2 chr5D.!!$R3 1230
3 TraesCS5D01G114100 chr5D 515567533 515568162 629 True 241.00 241 74.33100 1627 2235 1 chr5D.!!$R2 608
4 TraesCS5D01G114100 chr5A 155554106 155555885 1779 False 2896.00 2896 95.93300 814 2607 1 chr5A.!!$F2 1793
5 TraesCS5D01G114100 chr5A 643854175 643854800 625 True 244.00 244 74.52500 1627 2231 1 chr5A.!!$R3 604
6 TraesCS5D01G114100 chr5B 144609419 144612136 2717 False 930.75 2551 94.78125 1 2443 4 chr5B.!!$F2 2442
7 TraesCS5D01G114100 chr5B 648000073 648000810 737 True 329.00 329 75.20000 1625 2359 1 chr5B.!!$R3 734
8 TraesCS5D01G114100 chr5B 648134700 648135352 652 True 281.00 281 75.11400 1625 2259 1 chr5B.!!$R4 634
9 TraesCS5D01G114100 chr5B 647993172 647993805 633 True 263.00 263 74.84700 1625 2259 1 chr5B.!!$R2 634
10 TraesCS5D01G114100 chr1A 566367726 566368400 674 False 437.50 800 92.21300 2661 3308 2 chr1A.!!$F1 647

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
171 173 0.038892 CCATGTTCACACCTGCTTGC 60.039 55.0 0.0 0.0 0.0 4.01 F
704 735 0.251916 CTATGCGTGGGGTTCCTTCA 59.748 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1790 2198 0.533308 GTACACAACCGACTTGGCCA 60.533 55.000 0.00 0.0 43.94 5.36 R
2678 3107 1.202371 TCGCGCTCTACAATGTTAGGG 60.202 52.381 5.56 0.0 0.00 3.53 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
25 26 3.311110 GAGCTCGTGGTGTCCCCA 61.311 66.667 0.00 0.00 42.51 4.96
35 36 0.111639 GGTGTCCCCAGTTTTGGCTA 59.888 55.000 0.00 0.00 43.58 3.93
60 61 3.244976 CGATGTTGGAATTCTTGTTGGC 58.755 45.455 5.23 0.00 0.00 4.52
111 113 4.160626 GGTAGGTCTAGCTGTGATGTTTCT 59.839 45.833 0.00 0.00 0.00 2.52
113 115 6.127423 GGTAGGTCTAGCTGTGATGTTTCTTA 60.127 42.308 0.00 0.00 0.00 2.10
118 120 7.201565 GGTCTAGCTGTGATGTTTCTTATGTTC 60.202 40.741 0.00 0.00 0.00 3.18
147 149 0.341258 ATCCCCTTCTCTCTGCTCCA 59.659 55.000 0.00 0.00 0.00 3.86
162 164 0.250858 CTCCAGGCACCATGTTCACA 60.251 55.000 0.00 0.00 0.00 3.58
167 169 1.286880 GCACCATGTTCACACCTGC 59.713 57.895 0.00 0.00 0.00 4.85
168 170 1.174712 GCACCATGTTCACACCTGCT 61.175 55.000 0.00 0.00 0.00 4.24
171 173 0.038892 CCATGTTCACACCTGCTTGC 60.039 55.000 0.00 0.00 0.00 4.01
180 182 2.972505 CCTGCTTGCGTCCGTGTT 60.973 61.111 0.00 0.00 0.00 3.32
214 216 3.181478 CCCCGTTGTACTCATTCTACTCC 60.181 52.174 0.00 0.00 0.00 3.85
224 226 8.904834 TGTACTCATTCTACTCCTTCTATCAAC 58.095 37.037 0.00 0.00 0.00 3.18
234 236 9.967346 CTACTCCTTCTATCAACGAAATGATAA 57.033 33.333 10.08 1.25 40.71 1.75
235 237 8.879342 ACTCCTTCTATCAACGAAATGATAAG 57.121 34.615 10.08 8.09 40.71 1.73
255 257 1.750193 CAAGCTTTGCCTATTCCCGA 58.250 50.000 0.00 0.00 0.00 5.14
283 285 7.396540 AAAAAGGTATAGCTCACTTCCAATG 57.603 36.000 4.63 0.00 0.00 2.82
285 287 5.543507 AGGTATAGCTCACTTCCAATGAG 57.456 43.478 0.00 0.00 45.40 2.90
294 296 2.686915 CACTTCCAATGAGAAGGCCATC 59.313 50.000 5.01 1.19 46.24 3.51
358 360 1.133976 CAGGAGGCCCATAGTGAAAGG 60.134 57.143 0.00 0.00 33.88 3.11
391 422 2.018515 TCCGGACCTTGTTTTGTTCAC 58.981 47.619 0.00 0.00 0.00 3.18
418 449 2.509052 TTCAGGTGATAAGCGGATCG 57.491 50.000 0.00 0.00 0.00 3.69
443 474 5.084519 ACTGTGAACTGACCATTCCTAGTA 58.915 41.667 0.00 0.00 0.00 1.82
450 481 6.936968 ACTGACCATTCCTAGTAAAGTTCT 57.063 37.500 0.00 0.00 0.00 3.01
455 486 7.180408 TGACCATTCCTAGTAAAGTTCTAAGCT 59.820 37.037 0.00 0.00 0.00 3.74
472 503 1.916181 AGCTATGTACAAAGGGTGGCT 59.084 47.619 0.00 0.00 0.00 4.75
521 552 2.474691 GCGCGAAGAAGGAATGTCTTTC 60.475 50.000 12.10 0.00 35.46 2.62
566 597 1.623811 AGGAGGTTGCTACGAATGTGT 59.376 47.619 0.00 0.00 0.00 3.72
599 630 1.480137 CGGAAGATGCTGAAGAGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
622 653 6.265196 AGTCCAATGCTTGATTCAGTTTAACA 59.735 34.615 0.00 0.00 0.00 2.41
636 667 8.615878 TTCAGTTTAACAGTAGCATGTATTGT 57.384 30.769 0.00 0.00 31.70 2.71
647 678 0.804364 ATGTATTGTGTGCACCTGCG 59.196 50.000 15.69 0.00 45.83 5.18
670 701 1.086696 GCCTTTTGCTGCGAGATGTA 58.913 50.000 0.00 0.00 36.87 2.29
671 702 1.063174 GCCTTTTGCTGCGAGATGTAG 59.937 52.381 0.00 0.00 36.87 2.74
673 704 1.667724 CTTTTGCTGCGAGATGTAGGG 59.332 52.381 0.00 0.00 0.00 3.53
675 706 1.264749 TTGCTGCGAGATGTAGGGGT 61.265 55.000 0.00 0.00 0.00 4.95
677 708 1.443407 CTGCGAGATGTAGGGGTGG 59.557 63.158 0.00 0.00 0.00 4.61
678 709 1.305802 TGCGAGATGTAGGGGTGGT 60.306 57.895 0.00 0.00 0.00 4.16
679 710 1.144057 GCGAGATGTAGGGGTGGTG 59.856 63.158 0.00 0.00 0.00 4.17
680 711 1.327690 GCGAGATGTAGGGGTGGTGA 61.328 60.000 0.00 0.00 0.00 4.02
681 712 1.191535 CGAGATGTAGGGGTGGTGAA 58.808 55.000 0.00 0.00 0.00 3.18
684 715 3.545703 GAGATGTAGGGGTGGTGAATTG 58.454 50.000 0.00 0.00 0.00 2.32
685 716 2.024414 GATGTAGGGGTGGTGAATTGC 58.976 52.381 0.00 0.00 0.00 3.56
687 718 2.270858 TGTAGGGGTGGTGAATTGCTA 58.729 47.619 0.00 0.00 0.00 3.49
688 719 2.849943 TGTAGGGGTGGTGAATTGCTAT 59.150 45.455 0.00 0.00 0.00 2.97
690 721 0.746659 GGGGTGGTGAATTGCTATGC 59.253 55.000 0.00 0.00 0.00 3.14
691 722 0.381801 GGGTGGTGAATTGCTATGCG 59.618 55.000 0.00 0.00 0.00 4.73
693 724 1.202177 GGTGGTGAATTGCTATGCGTG 60.202 52.381 0.00 0.00 0.00 5.34
694 725 1.093972 TGGTGAATTGCTATGCGTGG 58.906 50.000 0.00 0.00 0.00 4.94
695 726 0.381801 GGTGAATTGCTATGCGTGGG 59.618 55.000 0.00 0.00 0.00 4.61
696 727 0.381801 GTGAATTGCTATGCGTGGGG 59.618 55.000 0.00 0.00 0.00 4.96
698 729 1.102978 GAATTGCTATGCGTGGGGTT 58.897 50.000 0.00 0.00 0.00 4.11
699 730 1.065551 GAATTGCTATGCGTGGGGTTC 59.934 52.381 0.00 0.00 0.00 3.62
701 732 1.847798 TTGCTATGCGTGGGGTTCCT 61.848 55.000 0.00 0.00 0.00 3.36
703 734 1.095807 GCTATGCGTGGGGTTCCTTC 61.096 60.000 0.00 0.00 0.00 3.46
704 735 0.251916 CTATGCGTGGGGTTCCTTCA 59.748 55.000 0.00 0.00 0.00 3.02
707 738 1.303317 GCGTGGGGTTCCTTCACAT 60.303 57.895 12.86 0.00 0.00 3.21
708 739 1.586154 GCGTGGGGTTCCTTCACATG 61.586 60.000 12.86 0.00 0.00 3.21
709 740 0.960364 CGTGGGGTTCCTTCACATGG 60.960 60.000 0.00 0.00 0.00 3.66
712 743 1.002624 GGGTTCCTTCACATGGCGA 60.003 57.895 0.00 0.00 0.00 5.54
713 744 0.394352 GGGTTCCTTCACATGGCGAT 60.394 55.000 0.00 0.00 0.00 4.58
714 745 1.134220 GGGTTCCTTCACATGGCGATA 60.134 52.381 0.00 0.00 0.00 2.92
715 746 1.940613 GGTTCCTTCACATGGCGATAC 59.059 52.381 0.00 0.00 0.00 2.24
718 749 3.627395 TCCTTCACATGGCGATACTTT 57.373 42.857 0.00 0.00 0.00 2.66
719 750 3.270027 TCCTTCACATGGCGATACTTTG 58.730 45.455 0.00 0.00 0.00 2.77
720 751 3.009723 CCTTCACATGGCGATACTTTGT 58.990 45.455 0.00 0.00 0.00 2.83
721 752 3.440173 CCTTCACATGGCGATACTTTGTT 59.560 43.478 0.00 0.00 0.00 2.83
722 753 4.437390 CCTTCACATGGCGATACTTTGTTC 60.437 45.833 0.00 0.00 0.00 3.18
723 754 3.937814 TCACATGGCGATACTTTGTTCT 58.062 40.909 0.00 0.00 0.00 3.01
724 755 3.932710 TCACATGGCGATACTTTGTTCTC 59.067 43.478 0.00 0.00 0.00 2.87
725 756 3.063997 CACATGGCGATACTTTGTTCTCC 59.936 47.826 0.00 0.00 0.00 3.71
726 757 2.396590 TGGCGATACTTTGTTCTCCC 57.603 50.000 0.00 0.00 0.00 4.30
730 761 2.093783 GCGATACTTTGTTCTCCCGTTG 59.906 50.000 0.00 0.00 0.00 4.10
731 762 2.671396 CGATACTTTGTTCTCCCGTTGG 59.329 50.000 0.00 0.00 0.00 3.77
732 763 2.554370 TACTTTGTTCTCCCGTTGGG 57.446 50.000 0.00 0.00 46.11 4.12
743 774 3.948735 CCGTTGGGGTGTAGACATT 57.051 52.632 0.00 0.00 0.00 2.71
745 776 2.081462 CCGTTGGGGTGTAGACATTTC 58.919 52.381 0.00 0.00 0.00 2.17
747 778 2.443416 GTTGGGGTGTAGACATTTCCC 58.557 52.381 10.12 10.12 37.59 3.97
749 780 2.354328 TGGGGTGTAGACATTTCCCTT 58.646 47.619 15.19 0.00 38.31 3.95
751 782 3.141272 TGGGGTGTAGACATTTCCCTTTT 59.859 43.478 15.19 0.00 38.31 2.27
752 783 3.509967 GGGGTGTAGACATTTCCCTTTTG 59.490 47.826 6.75 0.00 38.31 2.44
766 797 2.294074 CCTTTTGGGTCTTCGTTCACA 58.706 47.619 0.00 0.00 35.46 3.58
770 801 0.605319 TGGGTCTTCGTTCACATGGC 60.605 55.000 0.00 0.00 0.00 4.40
772 803 0.669318 GGTCTTCGTTCACATGGCGA 60.669 55.000 0.00 0.00 0.00 5.54
773 804 1.359848 GTCTTCGTTCACATGGCGAT 58.640 50.000 0.00 0.00 34.52 4.58
775 806 3.123804 GTCTTCGTTCACATGGCGATAT 58.876 45.455 0.00 0.00 34.52 1.63
776 807 3.555956 GTCTTCGTTCACATGGCGATATT 59.444 43.478 0.00 0.00 34.52 1.28
778 809 4.634004 TCTTCGTTCACATGGCGATATTTT 59.366 37.500 0.00 0.00 34.52 1.82
779 810 4.271590 TCGTTCACATGGCGATATTTTG 57.728 40.909 0.00 0.00 0.00 2.44
780 811 3.064682 TCGTTCACATGGCGATATTTTGG 59.935 43.478 0.00 0.00 0.00 3.28
781 812 3.181501 CGTTCACATGGCGATATTTTGGT 60.182 43.478 0.00 0.00 0.00 3.67
785 816 3.314913 CACATGGCGATATTTTGGTAGCA 59.685 43.478 0.00 0.00 0.00 3.49
786 817 3.315191 ACATGGCGATATTTTGGTAGCAC 59.685 43.478 0.00 0.00 0.00 4.40
787 818 2.294074 TGGCGATATTTTGGTAGCACC 58.706 47.619 0.00 0.00 39.22 5.01
788 819 2.092646 TGGCGATATTTTGGTAGCACCT 60.093 45.455 0.00 0.00 39.58 4.00
789 820 3.134985 TGGCGATATTTTGGTAGCACCTA 59.865 43.478 0.00 0.00 39.58 3.08
790 821 3.497262 GGCGATATTTTGGTAGCACCTAC 59.503 47.826 0.00 0.00 39.58 3.18
830 1135 3.309582 ACCTACGGATGGTGGCAG 58.690 61.111 0.00 0.00 36.30 4.85
838 1143 1.454479 GATGGTGGCAGGGGACATG 60.454 63.158 0.00 0.00 32.08 3.21
1014 1321 3.138798 CCGATGGACGAGACCGGT 61.139 66.667 6.92 6.92 45.77 5.28
1919 2342 3.003173 TCTGAGGAAGCCACCGGG 61.003 66.667 6.32 0.00 34.73 5.73
2112 2541 0.390492 CTCTCGTCATGCTGCCCATA 59.610 55.000 0.00 0.00 31.47 2.74
2409 2838 1.938585 TACCTGGAGTCCTGGACTTG 58.061 55.000 34.90 20.48 43.53 3.16
2462 2891 3.435327 TGGGATGAGTCGAAATTGAAACG 59.565 43.478 0.00 0.00 0.00 3.60
2473 2902 4.554723 CGAAATTGAAACGAGCCTCAGTTT 60.555 41.667 12.30 12.30 42.50 2.66
2487 2916 5.039333 GCCTCAGTTTCAAATCATGCATAC 58.961 41.667 0.00 0.00 0.00 2.39
2509 2938 4.455877 ACCCGTGATTTCTTTGTGATCTTC 59.544 41.667 0.00 0.00 0.00 2.87
2523 2952 5.368256 GTGATCTTCACTCATTGCAGTTT 57.632 39.130 0.45 0.00 43.73 2.66
2524 2953 5.152097 GTGATCTTCACTCATTGCAGTTTG 58.848 41.667 0.45 0.00 43.73 2.93
2525 2954 3.631145 TCTTCACTCATTGCAGTTTGC 57.369 42.857 0.00 0.00 45.29 3.68
2526 2955 8.651277 GTGATCTTCACTCATTGCAGTTTGCA 62.651 42.308 0.00 0.00 46.82 4.08
2536 2965 1.593196 GCAGTTTGCAGAGTGTACCA 58.407 50.000 13.16 0.00 44.26 3.25
2553 2982 1.097547 CCACTTTGCTATGCTCCCCG 61.098 60.000 0.00 0.00 0.00 5.73
2554 2983 1.452108 ACTTTGCTATGCTCCCCGC 60.452 57.895 0.00 0.00 39.77 6.13
2564 2993 0.039035 TGCTCCCCGCATAGGTTTTT 59.961 50.000 0.00 0.00 45.47 1.94
2593 3022 7.704789 TCTTTACTTGACTAACTTTCCGAAC 57.295 36.000 0.00 0.00 0.00 3.95
2607 3036 2.073816 TCCGAACGCTTCATTTCTTCC 58.926 47.619 0.00 0.00 0.00 3.46
2608 3037 2.076863 CCGAACGCTTCATTTCTTCCT 58.923 47.619 0.00 0.00 0.00 3.36
2609 3038 2.484264 CCGAACGCTTCATTTCTTCCTT 59.516 45.455 0.00 0.00 0.00 3.36
2610 3039 3.058224 CCGAACGCTTCATTTCTTCCTTT 60.058 43.478 0.00 0.00 0.00 3.11
2611 3040 4.151798 CGAACGCTTCATTTCTTCCTTTC 58.848 43.478 0.00 0.00 0.00 2.62
2612 3041 4.083802 CGAACGCTTCATTTCTTCCTTTCT 60.084 41.667 0.00 0.00 0.00 2.52
2613 3042 5.120208 CGAACGCTTCATTTCTTCCTTTCTA 59.880 40.000 0.00 0.00 0.00 2.10
2614 3043 6.347402 CGAACGCTTCATTTCTTCCTTTCTAA 60.347 38.462 0.00 0.00 0.00 2.10
2615 3044 7.454260 AACGCTTCATTTCTTCCTTTCTAAT 57.546 32.000 0.00 0.00 0.00 1.73
2616 3045 7.454260 ACGCTTCATTTCTTCCTTTCTAATT 57.546 32.000 0.00 0.00 0.00 1.40
2617 3046 8.561738 ACGCTTCATTTCTTCCTTTCTAATTA 57.438 30.769 0.00 0.00 0.00 1.40
2618 3047 9.010029 ACGCTTCATTTCTTCCTTTCTAATTAA 57.990 29.630 0.00 0.00 0.00 1.40
2642 3071 6.500684 TCACACATCTAATTCCTCTTTTGC 57.499 37.500 0.00 0.00 0.00 3.68
2643 3072 6.240894 TCACACATCTAATTCCTCTTTTGCT 58.759 36.000 0.00 0.00 0.00 3.91
2644 3073 6.716628 TCACACATCTAATTCCTCTTTTGCTT 59.283 34.615 0.00 0.00 0.00 3.91
2645 3074 7.882791 TCACACATCTAATTCCTCTTTTGCTTA 59.117 33.333 0.00 0.00 0.00 3.09
2646 3075 7.965107 CACACATCTAATTCCTCTTTTGCTTAC 59.035 37.037 0.00 0.00 0.00 2.34
2647 3076 7.885399 ACACATCTAATTCCTCTTTTGCTTACT 59.115 33.333 0.00 0.00 0.00 2.24
2648 3077 9.383519 CACATCTAATTCCTCTTTTGCTTACTA 57.616 33.333 0.00 0.00 0.00 1.82
2649 3078 9.606631 ACATCTAATTCCTCTTTTGCTTACTAG 57.393 33.333 0.00 0.00 0.00 2.57
2678 3107 9.899226 AATTGCAGAGTGAAGTCTATTTTAAAC 57.101 29.630 0.00 0.00 0.00 2.01
2684 3113 9.722184 AGAGTGAAGTCTATTTTAAACCCTAAC 57.278 33.333 0.00 0.00 0.00 2.34
2705 3134 1.330306 TTGTAGAGCGCGACGTAAAC 58.670 50.000 12.10 0.00 0.00 2.01
2706 3135 0.238025 TGTAGAGCGCGACGTAAACA 59.762 50.000 12.10 2.47 0.00 2.83
2712 3141 1.834458 GCGCGACGTAAACAAACCCT 61.834 55.000 12.10 0.00 0.00 4.34
2726 3155 3.326880 ACAAACCCTCACGTCTAAATCCT 59.673 43.478 0.00 0.00 0.00 3.24
2748 3177 5.302059 CCTTGAAATCGATACCCTCTACTCA 59.698 44.000 0.00 0.00 0.00 3.41
2759 3188 0.523966 CTCTACTCATCGATCCCGGC 59.476 60.000 0.00 0.00 36.24 6.13
2812 3241 3.575805 GGGAAATAAATGATCCTGGCCA 58.424 45.455 4.71 4.71 33.61 5.36
2859 3288 1.750778 GGTTGGCCCACTTGTCATATG 59.249 52.381 6.95 0.00 0.00 1.78
2864 3293 3.181445 TGGCCCACTTGTCATATGTATCC 60.181 47.826 0.00 0.00 0.00 2.59
2877 3306 6.212388 GTCATATGTATCCTCTGTCCCAATCT 59.788 42.308 1.90 0.00 0.00 2.40
2895 3325 3.744238 TCTTTCAGATGTGTGTTCGGA 57.256 42.857 0.00 0.00 0.00 4.55
2902 3332 0.392998 ATGTGTGTTCGGATGGAGGC 60.393 55.000 0.00 0.00 0.00 4.70
2904 3334 2.511600 GTGTTCGGATGGAGGCGG 60.512 66.667 0.00 0.00 0.00 6.13
2906 3336 2.107141 GTTCGGATGGAGGCGGAG 59.893 66.667 0.00 0.00 0.00 4.63
2962 3392 4.332637 GGTGCACAAGCGGCAGTG 62.333 66.667 20.43 17.71 46.23 3.66
2976 3406 1.367471 CAGTGGACAGCCGTCTTCA 59.633 57.895 0.00 0.00 42.21 3.02
2978 3408 0.687354 AGTGGACAGCCGTCTTCATT 59.313 50.000 0.00 0.00 42.21 2.57
2989 3446 3.120304 GCCGTCTTCATTACCACAGAAAC 60.120 47.826 0.00 0.00 0.00 2.78
2992 3449 4.062991 GTCTTCATTACCACAGAAACGGT 58.937 43.478 0.00 0.00 39.41 4.83
3059 3516 3.121030 CGGAGGAGCAACTTGGCG 61.121 66.667 0.00 0.00 39.27 5.69
3061 3518 2.035442 GGAGGAGCAACTTGGCGAC 61.035 63.158 0.00 0.00 39.27 5.19
3195 3652 2.047179 GCTGACGGACAGGTTCCC 60.047 66.667 9.39 0.00 45.82 3.97
3235 3693 3.793144 CAGTGGCGAGCCGAAAGC 61.793 66.667 9.78 0.00 44.25 3.51
3314 3772 2.962253 GCCGTCCAGCGAGCATAC 60.962 66.667 0.00 0.00 44.77 2.39
3315 3773 2.494445 CCGTCCAGCGAGCATACA 59.506 61.111 0.00 0.00 44.77 2.29
3316 3774 1.068083 CCGTCCAGCGAGCATACAT 59.932 57.895 0.00 0.00 44.77 2.29
3317 3775 0.530650 CCGTCCAGCGAGCATACATT 60.531 55.000 0.00 0.00 44.77 2.71
3318 3776 1.269569 CCGTCCAGCGAGCATACATTA 60.270 52.381 0.00 0.00 44.77 1.90
3319 3777 2.054363 CGTCCAGCGAGCATACATTAG 58.946 52.381 0.00 0.00 44.77 1.73
3320 3778 2.543861 CGTCCAGCGAGCATACATTAGT 60.544 50.000 0.00 0.00 44.77 2.24
3321 3779 3.304458 CGTCCAGCGAGCATACATTAGTA 60.304 47.826 0.00 0.00 44.77 1.82
3322 3780 4.616143 CGTCCAGCGAGCATACATTAGTAT 60.616 45.833 0.00 0.00 44.77 2.12
3337 3795 7.046292 ACATTAGTATGGCATACGAGTAACA 57.954 36.000 27.00 10.88 40.64 2.41
3338 3796 7.494211 ACATTAGTATGGCATACGAGTAACAA 58.506 34.615 27.00 15.37 40.64 2.83
3339 3797 8.148351 ACATTAGTATGGCATACGAGTAACAAT 58.852 33.333 27.00 16.54 40.64 2.71
3340 3798 9.634163 CATTAGTATGGCATACGAGTAACAATA 57.366 33.333 27.00 11.46 40.64 1.90
3341 3799 9.856488 ATTAGTATGGCATACGAGTAACAATAG 57.144 33.333 27.00 0.00 40.64 1.73
3342 3800 6.157211 AGTATGGCATACGAGTAACAATAGC 58.843 40.000 27.00 3.39 40.64 2.97
3343 3801 4.394439 TGGCATACGAGTAACAATAGCA 57.606 40.909 0.00 0.00 0.00 3.49
3344 3802 4.956085 TGGCATACGAGTAACAATAGCAT 58.044 39.130 0.00 0.00 0.00 3.79
3345 3803 4.749598 TGGCATACGAGTAACAATAGCATG 59.250 41.667 0.00 0.00 0.00 4.06
3346 3804 4.988540 GGCATACGAGTAACAATAGCATGA 59.011 41.667 0.00 0.00 0.00 3.07
3347 3805 5.639506 GGCATACGAGTAACAATAGCATGAT 59.360 40.000 0.00 0.00 0.00 2.45
3348 3806 6.401474 GGCATACGAGTAACAATAGCATGATG 60.401 42.308 0.00 0.00 0.00 3.07
3349 3807 6.401474 GCATACGAGTAACAATAGCATGATGG 60.401 42.308 0.00 0.00 0.00 3.51
3350 3808 5.276461 ACGAGTAACAATAGCATGATGGA 57.724 39.130 0.00 0.00 0.00 3.41
3351 3809 5.292765 ACGAGTAACAATAGCATGATGGAG 58.707 41.667 0.00 0.00 0.00 3.86
3352 3810 5.069119 ACGAGTAACAATAGCATGATGGAGA 59.931 40.000 0.00 0.00 0.00 3.71
3353 3811 5.985530 CGAGTAACAATAGCATGATGGAGAA 59.014 40.000 0.00 0.00 0.00 2.87
3354 3812 6.074088 CGAGTAACAATAGCATGATGGAGAAC 60.074 42.308 0.00 0.00 0.00 3.01
3355 3813 6.653020 AGTAACAATAGCATGATGGAGAACA 58.347 36.000 0.00 0.00 0.00 3.18
3356 3814 6.765036 AGTAACAATAGCATGATGGAGAACAG 59.235 38.462 0.00 0.00 0.00 3.16
3357 3815 3.881688 ACAATAGCATGATGGAGAACAGC 59.118 43.478 0.00 0.00 35.62 4.40
3358 3816 2.229675 TAGCATGATGGAGAACAGCG 57.770 50.000 0.00 0.00 38.65 5.18
3359 3817 0.538584 AGCATGATGGAGAACAGCGA 59.461 50.000 0.00 0.00 38.65 4.93
3360 3818 0.654683 GCATGATGGAGAACAGCGAC 59.345 55.000 0.00 0.00 38.65 5.19
3361 3819 0.926155 CATGATGGAGAACAGCGACG 59.074 55.000 0.00 0.00 38.65 5.12
3362 3820 0.532573 ATGATGGAGAACAGCGACGT 59.467 50.000 0.00 0.00 38.65 4.34
3363 3821 1.170442 TGATGGAGAACAGCGACGTA 58.830 50.000 0.00 0.00 38.65 3.57
3364 3822 1.132453 TGATGGAGAACAGCGACGTAG 59.868 52.381 0.00 0.00 38.65 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.302347 CTGGGGACACCACGAGCTC 62.302 68.421 2.73 2.73 46.80 4.09
17 18 1.534729 CTAGCCAAAACTGGGGACAC 58.465 55.000 0.00 0.00 35.60 3.67
25 26 3.074412 CAACATCGTCCTAGCCAAAACT 58.926 45.455 0.00 0.00 0.00 2.66
35 36 4.021102 ACAAGAATTCCAACATCGTCCT 57.979 40.909 0.65 0.00 0.00 3.85
73 75 0.974383 CTACCAGACCCGAACCAAGT 59.026 55.000 0.00 0.00 0.00 3.16
111 113 0.531974 GATGCTCGGCCCGAACATAA 60.532 55.000 21.07 0.00 41.68 1.90
113 115 2.203070 GATGCTCGGCCCGAACAT 60.203 61.111 21.16 21.16 43.76 2.71
147 149 0.538057 CAGGTGTGAACATGGTGCCT 60.538 55.000 0.00 0.00 0.00 4.75
152 154 0.038892 GCAAGCAGGTGTGAACATGG 60.039 55.000 0.00 0.00 0.00 3.66
162 164 2.372040 TAACACGGACGCAAGCAGGT 62.372 55.000 0.00 0.00 45.62 4.00
168 170 1.261885 CAACACATAACACGGACGCAA 59.738 47.619 0.00 0.00 0.00 4.85
171 173 2.409378 GGTACAACACATAACACGGACG 59.591 50.000 0.00 0.00 0.00 4.79
180 182 1.698532 ACAACGGGGGTACAACACATA 59.301 47.619 0.00 0.00 0.00 2.29
214 216 7.585573 GCTTGCTTATCATTTCGTTGATAGAAG 59.414 37.037 5.90 9.20 39.20 2.85
267 269 4.685575 GCCTTCTCATTGGAAGTGAGCTAT 60.686 45.833 11.49 0.00 42.17 2.97
294 296 3.409570 CATGTATGGAGGCTCATGAAGG 58.590 50.000 17.69 0.00 39.68 3.46
391 422 3.544834 CGCTTATCACCTGAAAATGAGCG 60.545 47.826 6.40 6.40 32.91 5.03
418 449 4.273148 AGGAATGGTCAGTTCACAGTAC 57.727 45.455 0.00 0.00 0.00 2.73
443 474 7.390718 CACCCTTTGTACATAGCTTAGAACTTT 59.609 37.037 7.73 0.00 0.00 2.66
450 481 3.521937 AGCCACCCTTTGTACATAGCTTA 59.478 43.478 7.73 0.00 0.00 3.09
455 486 2.238646 CCAGAGCCACCCTTTGTACATA 59.761 50.000 0.00 0.00 0.00 2.29
521 552 0.390860 CCTCCACCATCTTCTAGCCG 59.609 60.000 0.00 0.00 0.00 5.52
566 597 2.636647 TCTTCCGCCATTGCATCATA 57.363 45.000 0.00 0.00 37.32 2.15
622 653 3.009723 GGTGCACACAATACATGCTACT 58.990 45.455 20.43 0.00 40.13 2.57
652 683 1.667724 CCTACATCTCGCAGCAAAAGG 59.332 52.381 0.00 0.00 0.00 3.11
670 701 1.686115 GCATAGCAATTCACCACCCCT 60.686 52.381 0.00 0.00 0.00 4.79
671 702 0.746659 GCATAGCAATTCACCACCCC 59.253 55.000 0.00 0.00 0.00 4.95
673 704 1.094785 ACGCATAGCAATTCACCACC 58.905 50.000 0.00 0.00 0.00 4.61
675 706 1.093972 CCACGCATAGCAATTCACCA 58.906 50.000 0.00 0.00 0.00 4.17
677 708 0.381801 CCCCACGCATAGCAATTCAC 59.618 55.000 0.00 0.00 0.00 3.18
678 709 0.034574 ACCCCACGCATAGCAATTCA 60.035 50.000 0.00 0.00 0.00 2.57
679 710 1.065551 GAACCCCACGCATAGCAATTC 59.934 52.381 0.00 0.00 0.00 2.17
680 711 1.102978 GAACCCCACGCATAGCAATT 58.897 50.000 0.00 0.00 0.00 2.32
681 712 0.751643 GGAACCCCACGCATAGCAAT 60.752 55.000 0.00 0.00 0.00 3.56
684 715 1.077716 AAGGAACCCCACGCATAGC 60.078 57.895 0.00 0.00 33.88 2.97
685 716 0.251916 TGAAGGAACCCCACGCATAG 59.748 55.000 0.00 0.00 33.88 2.23
687 718 1.303317 GTGAAGGAACCCCACGCAT 60.303 57.895 0.00 0.00 33.88 4.73
688 719 2.063015 ATGTGAAGGAACCCCACGCA 62.063 55.000 0.00 0.00 36.53 5.24
690 721 0.960364 CCATGTGAAGGAACCCCACG 60.960 60.000 0.00 0.00 33.78 4.94
691 722 1.250840 GCCATGTGAAGGAACCCCAC 61.251 60.000 0.00 0.00 33.88 4.61
693 724 2.046285 CGCCATGTGAAGGAACCCC 61.046 63.158 0.00 0.00 0.00 4.95
694 725 0.394352 ATCGCCATGTGAAGGAACCC 60.394 55.000 0.00 0.00 0.00 4.11
695 726 1.940613 GTATCGCCATGTGAAGGAACC 59.059 52.381 0.00 0.00 0.00 3.62
696 727 2.906354 AGTATCGCCATGTGAAGGAAC 58.094 47.619 0.00 0.00 0.00 3.62
698 729 3.270027 CAAAGTATCGCCATGTGAAGGA 58.730 45.455 0.00 0.00 0.00 3.36
699 730 3.009723 ACAAAGTATCGCCATGTGAAGG 58.990 45.455 0.00 0.00 0.00 3.46
701 732 4.323417 AGAACAAAGTATCGCCATGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
703 734 3.063997 GGAGAACAAAGTATCGCCATGTG 59.936 47.826 0.00 0.00 35.80 3.21
704 735 3.270877 GGAGAACAAAGTATCGCCATGT 58.729 45.455 0.00 0.00 35.80 3.21
707 738 1.404986 CGGGAGAACAAAGTATCGCCA 60.405 52.381 0.00 0.00 37.27 5.69
708 739 1.287425 CGGGAGAACAAAGTATCGCC 58.713 55.000 0.00 0.00 35.08 5.54
709 740 2.005971 ACGGGAGAACAAAGTATCGC 57.994 50.000 0.00 0.00 0.00 4.58
725 756 2.081462 GAAATGTCTACACCCCAACGG 58.919 52.381 0.00 0.00 37.81 4.44
726 757 2.081462 GGAAATGTCTACACCCCAACG 58.919 52.381 0.00 0.00 0.00 4.10
730 761 3.451402 AAAGGGAAATGTCTACACCCC 57.549 47.619 0.00 6.37 41.26 4.95
731 762 3.509967 CCAAAAGGGAAATGTCTACACCC 59.490 47.826 0.00 0.00 40.01 4.61
732 763 3.509967 CCCAAAAGGGAAATGTCTACACC 59.490 47.826 0.00 0.00 40.01 4.16
733 764 4.149598 ACCCAAAAGGGAAATGTCTACAC 58.850 43.478 7.71 0.00 41.63 2.90
738 769 3.057526 CGAAGACCCAAAAGGGAAATGTC 60.058 47.826 7.71 0.00 41.63 3.06
739 770 2.890945 CGAAGACCCAAAAGGGAAATGT 59.109 45.455 7.71 0.00 41.63 2.71
741 772 3.238788 ACGAAGACCCAAAAGGGAAAT 57.761 42.857 7.71 0.00 41.63 2.17
742 773 2.740506 ACGAAGACCCAAAAGGGAAA 57.259 45.000 7.71 0.00 41.63 3.13
743 774 2.092321 TGAACGAAGACCCAAAAGGGAA 60.092 45.455 7.71 0.00 41.63 3.97
745 776 1.607148 GTGAACGAAGACCCAAAAGGG 59.393 52.381 0.00 0.00 41.63 3.95
747 778 3.304659 CCATGTGAACGAAGACCCAAAAG 60.305 47.826 0.00 0.00 0.00 2.27
749 780 2.226330 CCATGTGAACGAAGACCCAAA 58.774 47.619 0.00 0.00 0.00 3.28
751 782 0.605319 GCCATGTGAACGAAGACCCA 60.605 55.000 0.00 0.00 0.00 4.51
752 783 1.635663 CGCCATGTGAACGAAGACCC 61.636 60.000 0.00 0.00 0.00 4.46
754 785 1.359848 ATCGCCATGTGAACGAAGAC 58.640 50.000 0.00 0.00 39.56 3.01
755 786 2.951457 TATCGCCATGTGAACGAAGA 57.049 45.000 0.00 0.00 39.56 2.87
759 790 3.181501 ACCAAAATATCGCCATGTGAACG 60.182 43.478 0.00 0.00 0.00 3.95
760 791 4.370364 ACCAAAATATCGCCATGTGAAC 57.630 40.909 0.00 0.00 0.00 3.18
761 792 4.036262 GCTACCAAAATATCGCCATGTGAA 59.964 41.667 0.00 0.00 0.00 3.18
762 793 3.563808 GCTACCAAAATATCGCCATGTGA 59.436 43.478 0.00 0.00 0.00 3.58
763 794 3.314913 TGCTACCAAAATATCGCCATGTG 59.685 43.478 0.00 0.00 0.00 3.21
764 795 3.315191 GTGCTACCAAAATATCGCCATGT 59.685 43.478 0.00 0.00 0.00 3.21
766 797 2.884639 GGTGCTACCAAAATATCGCCAT 59.115 45.455 1.01 0.00 38.42 4.40
798 829 1.953686 GTAGGTGCTGCAGGTCAAAAA 59.046 47.619 17.12 0.00 0.00 1.94
799 830 1.604604 GTAGGTGCTGCAGGTCAAAA 58.395 50.000 17.12 0.00 0.00 2.44
800 831 0.602638 CGTAGGTGCTGCAGGTCAAA 60.603 55.000 17.12 0.00 0.00 2.69
801 832 1.005037 CGTAGGTGCTGCAGGTCAA 60.005 57.895 17.12 0.00 0.00 3.18
802 833 2.656646 CGTAGGTGCTGCAGGTCA 59.343 61.111 17.12 2.40 0.00 4.02
999 1306 0.460311 ATGAACCGGTCTCGTCCATC 59.540 55.000 8.04 0.00 33.95 3.51
1320 1627 1.138266 GCGCATAGGGACTCCAAGTAA 59.862 52.381 0.30 0.00 41.75 2.24
1640 2039 2.680352 TCTCGGGCTCCCACTCAC 60.680 66.667 5.70 0.00 35.37 3.51
1790 2198 0.533308 GTACACAACCGACTTGGCCA 60.533 55.000 0.00 0.00 43.94 5.36
2112 2541 2.445155 GGCACTTGGTCCCCCATT 59.555 61.111 0.00 0.00 41.49 3.16
2409 2838 3.077359 AGCTTGTTCTACTGCATGTTCC 58.923 45.455 0.00 0.00 0.00 3.62
2462 2891 3.192001 TGCATGATTTGAAACTGAGGCTC 59.808 43.478 7.79 7.79 0.00 4.70
2473 2902 3.274095 TCACGGGTATGCATGATTTGA 57.726 42.857 10.16 2.69 0.00 2.69
2487 2916 4.455533 TGAAGATCACAAAGAAATCACGGG 59.544 41.667 0.00 0.00 0.00 5.28
2530 2959 2.355716 GGGAGCATAGCAAAGTGGTACA 60.356 50.000 0.00 0.00 32.73 2.90
2536 2965 4.963878 CGGGGAGCATAGCAAAGT 57.036 55.556 0.00 0.00 0.00 2.66
2566 2995 8.721019 TCGGAAAGTTAGTCAAGTAAAGAAAA 57.279 30.769 0.00 0.00 0.00 2.29
2567 2996 8.606602 GTTCGGAAAGTTAGTCAAGTAAAGAAA 58.393 33.333 0.00 0.00 0.00 2.52
2568 2997 7.043192 CGTTCGGAAAGTTAGTCAAGTAAAGAA 60.043 37.037 0.00 0.00 0.00 2.52
2569 2998 6.418819 CGTTCGGAAAGTTAGTCAAGTAAAGA 59.581 38.462 0.00 0.00 0.00 2.52
2570 2999 6.578691 CGTTCGGAAAGTTAGTCAAGTAAAG 58.421 40.000 0.00 0.00 0.00 1.85
2616 3045 8.677300 GCAAAAGAGGAATTAGATGTGTGATTA 58.323 33.333 0.00 0.00 0.00 1.75
2617 3046 7.395489 AGCAAAAGAGGAATTAGATGTGTGATT 59.605 33.333 0.00 0.00 0.00 2.57
2618 3047 6.888632 AGCAAAAGAGGAATTAGATGTGTGAT 59.111 34.615 0.00 0.00 0.00 3.06
2619 3048 6.240894 AGCAAAAGAGGAATTAGATGTGTGA 58.759 36.000 0.00 0.00 0.00 3.58
2620 3049 6.506500 AGCAAAAGAGGAATTAGATGTGTG 57.493 37.500 0.00 0.00 0.00 3.82
2621 3050 7.885399 AGTAAGCAAAAGAGGAATTAGATGTGT 59.115 33.333 0.00 0.00 0.00 3.72
2622 3051 8.273780 AGTAAGCAAAAGAGGAATTAGATGTG 57.726 34.615 0.00 0.00 0.00 3.21
2623 3052 9.606631 CTAGTAAGCAAAAGAGGAATTAGATGT 57.393 33.333 0.00 0.00 0.00 3.06
2642 3071 7.038659 ACTTCACTCTGCAATTAGCTAGTAAG 58.961 38.462 0.00 0.00 45.94 2.34
2643 3072 6.936279 ACTTCACTCTGCAATTAGCTAGTAA 58.064 36.000 0.00 0.00 45.94 2.24
2644 3073 6.378564 AGACTTCACTCTGCAATTAGCTAGTA 59.621 38.462 0.00 0.00 45.94 1.82
2645 3074 5.186797 AGACTTCACTCTGCAATTAGCTAGT 59.813 40.000 0.00 0.00 45.94 2.57
2646 3075 5.659463 AGACTTCACTCTGCAATTAGCTAG 58.341 41.667 0.00 0.00 45.94 3.42
2647 3076 5.667539 AGACTTCACTCTGCAATTAGCTA 57.332 39.130 0.00 0.00 45.94 3.32
2648 3077 4.550076 AGACTTCACTCTGCAATTAGCT 57.450 40.909 0.00 0.00 45.94 3.32
2649 3078 6.917217 AATAGACTTCACTCTGCAATTAGC 57.083 37.500 0.00 0.00 45.96 3.09
2652 3081 9.899226 GTTTAAAATAGACTTCACTCTGCAATT 57.101 29.630 0.00 0.00 0.00 2.32
2653 3082 8.515414 GGTTTAAAATAGACTTCACTCTGCAAT 58.485 33.333 0.00 0.00 0.00 3.56
2654 3083 7.040686 GGGTTTAAAATAGACTTCACTCTGCAA 60.041 37.037 0.00 0.00 0.00 4.08
2655 3084 6.430000 GGGTTTAAAATAGACTTCACTCTGCA 59.570 38.462 0.00 0.00 0.00 4.41
2656 3085 6.655425 AGGGTTTAAAATAGACTTCACTCTGC 59.345 38.462 0.00 0.00 0.00 4.26
2657 3086 9.720769 TTAGGGTTTAAAATAGACTTCACTCTG 57.279 33.333 0.00 0.00 0.00 3.35
2658 3087 9.722184 GTTAGGGTTTAAAATAGACTTCACTCT 57.278 33.333 0.00 0.00 0.00 3.24
2659 3088 9.498176 TGTTAGGGTTTAAAATAGACTTCACTC 57.502 33.333 0.00 0.00 0.00 3.51
2678 3107 1.202371 TCGCGCTCTACAATGTTAGGG 60.202 52.381 5.56 0.00 0.00 3.53
2684 3113 1.541475 TTACGTCGCGCTCTACAATG 58.459 50.000 5.56 0.00 0.00 2.82
2705 3134 3.939066 AGGATTTAGACGTGAGGGTTTG 58.061 45.455 0.00 0.00 0.00 2.93
2706 3135 4.041198 TCAAGGATTTAGACGTGAGGGTTT 59.959 41.667 0.00 0.00 0.00 3.27
2712 3141 5.716094 TCGATTTCAAGGATTTAGACGTGA 58.284 37.500 0.00 0.00 0.00 4.35
2726 3155 6.294010 CGATGAGTAGAGGGTATCGATTTCAA 60.294 42.308 1.71 0.00 42.16 2.69
2748 3177 0.246635 CTAAATCGGCCGGGATCGAT 59.753 55.000 27.83 16.35 46.40 3.59
2759 3188 1.000955 CGGATCCAGGGTCTAAATCGG 59.999 57.143 13.41 0.00 0.00 4.18
2814 3243 4.577283 AGTCAGCGAGAGTAAAGGTAGATC 59.423 45.833 0.00 0.00 0.00 2.75
2815 3244 4.528920 AGTCAGCGAGAGTAAAGGTAGAT 58.471 43.478 0.00 0.00 0.00 1.98
2859 3288 5.129485 TCTGAAAGATTGGGACAGAGGATAC 59.871 44.000 0.00 0.00 38.67 2.24
2877 3306 3.073678 CCATCCGAACACACATCTGAAA 58.926 45.455 0.00 0.00 0.00 2.69
2962 3392 1.066430 TGGTAATGAAGACGGCTGTCC 60.066 52.381 22.17 8.48 46.74 4.02
3011 3468 4.842091 CATCTGCTTTGCCGCGCC 62.842 66.667 0.00 0.00 0.00 6.53
3041 3498 2.032681 GCCAAGTTGCTCCTCCGT 59.967 61.111 0.00 0.00 0.00 4.69
3042 3499 3.121030 CGCCAAGTTGCTCCTCCG 61.121 66.667 0.00 0.00 0.00 4.63
3059 3516 2.126424 GACGTGCTCTCACCGGTC 60.126 66.667 2.59 0.00 40.04 4.79
3061 3518 4.778415 CGGACGTGCTCTCACCGG 62.778 72.222 5.27 0.00 40.04 5.28
3101 3558 3.188786 GTGACGCGGATGGTGCTC 61.189 66.667 12.47 0.00 0.00 4.26
3147 3604 3.284449 GCGGGGAAACAACTGCGT 61.284 61.111 0.00 0.00 0.00 5.24
3299 3757 2.054363 CTAATGTATGCTCGCTGGACG 58.946 52.381 0.00 0.00 45.62 4.79
3311 3769 8.799367 TGTTACTCGTATGCCATACTAATGTAT 58.201 33.333 12.73 0.00 39.76 2.29
3312 3770 8.168790 TGTTACTCGTATGCCATACTAATGTA 57.831 34.615 12.73 7.39 33.59 2.29
3313 3771 7.046292 TGTTACTCGTATGCCATACTAATGT 57.954 36.000 12.73 8.20 33.59 2.71
3314 3772 7.940178 TTGTTACTCGTATGCCATACTAATG 57.060 36.000 12.73 3.28 33.59 1.90
3315 3773 9.856488 CTATTGTTACTCGTATGCCATACTAAT 57.144 33.333 12.73 0.00 33.59 1.73
3316 3774 7.811236 GCTATTGTTACTCGTATGCCATACTAA 59.189 37.037 12.73 2.71 33.59 2.24
3317 3775 7.040271 TGCTATTGTTACTCGTATGCCATACTA 60.040 37.037 12.73 1.24 33.59 1.82
3318 3776 6.157211 GCTATTGTTACTCGTATGCCATACT 58.843 40.000 12.73 0.00 33.59 2.12
3319 3777 5.924254 TGCTATTGTTACTCGTATGCCATAC 59.076 40.000 4.71 4.71 0.00 2.39
3320 3778 6.091718 TGCTATTGTTACTCGTATGCCATA 57.908 37.500 0.00 0.00 0.00 2.74
3321 3779 4.956085 TGCTATTGTTACTCGTATGCCAT 58.044 39.130 0.00 0.00 0.00 4.40
3322 3780 4.394439 TGCTATTGTTACTCGTATGCCA 57.606 40.909 0.00 0.00 0.00 4.92
3323 3781 4.988540 TCATGCTATTGTTACTCGTATGCC 59.011 41.667 0.00 0.00 0.00 4.40
3324 3782 6.401474 CCATCATGCTATTGTTACTCGTATGC 60.401 42.308 0.00 0.00 0.00 3.14
3325 3783 6.868339 TCCATCATGCTATTGTTACTCGTATG 59.132 38.462 0.00 0.00 0.00 2.39
3326 3784 6.993079 TCCATCATGCTATTGTTACTCGTAT 58.007 36.000 0.00 0.00 0.00 3.06
3327 3785 6.264518 TCTCCATCATGCTATTGTTACTCGTA 59.735 38.462 0.00 0.00 0.00 3.43
3328 3786 5.069119 TCTCCATCATGCTATTGTTACTCGT 59.931 40.000 0.00 0.00 0.00 4.18
3329 3787 5.532557 TCTCCATCATGCTATTGTTACTCG 58.467 41.667 0.00 0.00 0.00 4.18
3330 3788 6.763135 TGTTCTCCATCATGCTATTGTTACTC 59.237 38.462 0.00 0.00 0.00 2.59
3331 3789 6.653020 TGTTCTCCATCATGCTATTGTTACT 58.347 36.000 0.00 0.00 0.00 2.24
3332 3790 6.512415 GCTGTTCTCCATCATGCTATTGTTAC 60.512 42.308 0.00 0.00 0.00 2.50
3333 3791 5.528690 GCTGTTCTCCATCATGCTATTGTTA 59.471 40.000 0.00 0.00 0.00 2.41
3334 3792 4.337555 GCTGTTCTCCATCATGCTATTGTT 59.662 41.667 0.00 0.00 0.00 2.83
3335 3793 3.881688 GCTGTTCTCCATCATGCTATTGT 59.118 43.478 0.00 0.00 0.00 2.71
3336 3794 3.059120 CGCTGTTCTCCATCATGCTATTG 60.059 47.826 0.00 0.00 0.00 1.90
3337 3795 3.136763 CGCTGTTCTCCATCATGCTATT 58.863 45.455 0.00 0.00 0.00 1.73
3338 3796 2.366590 TCGCTGTTCTCCATCATGCTAT 59.633 45.455 0.00 0.00 0.00 2.97
3339 3797 1.756538 TCGCTGTTCTCCATCATGCTA 59.243 47.619 0.00 0.00 0.00 3.49
3340 3798 0.538584 TCGCTGTTCTCCATCATGCT 59.461 50.000 0.00 0.00 0.00 3.79
3341 3799 0.654683 GTCGCTGTTCTCCATCATGC 59.345 55.000 0.00 0.00 0.00 4.06
3342 3800 0.926155 CGTCGCTGTTCTCCATCATG 59.074 55.000 0.00 0.00 0.00 3.07
3343 3801 0.532573 ACGTCGCTGTTCTCCATCAT 59.467 50.000 0.00 0.00 0.00 2.45
3344 3802 1.132453 CTACGTCGCTGTTCTCCATCA 59.868 52.381 0.00 0.00 0.00 3.07
3345 3803 1.828832 CTACGTCGCTGTTCTCCATC 58.171 55.000 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.