Multiple sequence alignment - TraesCS7D01G302400

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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 TraesCS7D01G302400 chr7D 100.000 4782 0 0 1 4782 382527858 382523077 0.000000e+00 8831.0
1 TraesCS7D01G302400 chr7D 100.000 369 0 0 4943 5311 382522916 382522548 0.000000e+00 682.0
2 TraesCS7D01G302400 chr7D 88.417 518 53 4 1 517 33740664 33740153 7.560000e-173 617.0
3 TraesCS7D01G302400 chr7D 94.211 190 11 0 645 834 272093422 272093233 1.870000e-74 291.0
4 TraesCS7D01G302400 chr7D 97.076 171 5 0 645 815 161430582 161430752 6.730000e-74 289.0
5 TraesCS7D01G302400 chr7D 91.228 171 15 0 645 815 1768548 1768718 3.200000e-57 233.0
6 TraesCS7D01G302400 chr7D 87.209 86 11 0 3947 4032 618489480 618489565 1.220000e-16 99.0
7 TraesCS7D01G302400 chr7D 97.674 43 1 0 838 880 382526976 382526934 2.050000e-09 75.0
8 TraesCS7D01G302400 chr7D 97.674 43 1 0 883 925 382527021 382526979 2.050000e-09 75.0
9 TraesCS7D01G302400 chr7B 95.300 3872 140 20 831 4685 376937705 376933859 0.000000e+00 6104.0
10 TraesCS7D01G302400 chr7B 89.790 333 34 0 4979 5311 376933472 376933140 1.370000e-115 427.0
11 TraesCS7D01G302400 chr7B 91.791 134 10 1 514 647 376937939 376937807 9.080000e-43 185.0
12 TraesCS7D01G302400 chr7B 97.826 46 1 0 835 880 376937656 376937611 4.410000e-11 80.5
13 TraesCS7D01G302400 chr7B 95.349 43 2 0 883 925 376937698 376937656 9.540000e-08 69.4
14 TraesCS7D01G302400 chr7A 95.062 3868 152 21 834 4685 430565842 430561998 0.000000e+00 6048.0
15 TraesCS7D01G302400 chr7A 87.164 335 38 2 4979 5309 430561845 430561512 5.020000e-100 375.0
16 TraesCS7D01G302400 chr7A 91.045 134 10 2 514 646 430566053 430565921 4.230000e-41 180.0
17 TraesCS7D01G302400 chr7A 89.535 86 9 0 3947 4032 712180956 712181041 5.620000e-20 110.0
18 TraesCS7D01G302400 chr7A 75.238 210 44 7 312 518 447324841 447324637 5.660000e-15 93.5
19 TraesCS7D01G302400 chr7A 92.000 50 4 0 876 925 430565845 430565796 2.650000e-08 71.3
20 TraesCS7D01G302400 chr5D 90.702 527 35 5 1 514 260844777 260845302 0.000000e+00 689.0
21 TraesCS7D01G302400 chr5D 95.238 189 9 0 645 833 192956878 192956690 3.110000e-77 300.0
22 TraesCS7D01G302400 chr5D 94.286 35 1 1 1209 1242 455834232 455834198 1.000000e-02 52.8
23 TraesCS7D01G302400 chr3D 90.304 526 39 6 1 517 459493943 459493421 0.000000e+00 678.0
24 TraesCS7D01G302400 chr3D 93.556 450 28 1 1 449 488105650 488105201 0.000000e+00 669.0
25 TraesCS7D01G302400 chr3D 92.746 193 10 2 645 833 159563900 159564092 5.240000e-70 276.0
26 TraesCS7D01G302400 chr1D 92.641 462 27 5 58 517 308447002 308447458 0.000000e+00 658.0
27 TraesCS7D01G302400 chr1D 89.552 134 13 1 514 647 54020822 54020690 9.150000e-38 169.0
28 TraesCS7D01G302400 chr1D 84.524 84 13 0 3947 4030 494010415 494010332 3.410000e-12 84.2
29 TraesCS7D01G302400 chr4A 89.942 517 39 6 1 514 590198472 590198978 0.000000e+00 654.0
30 TraesCS7D01G302400 chr4A 85.052 388 31 9 1 362 663698637 663699023 2.340000e-98 370.0
31 TraesCS7D01G302400 chr4A 90.377 239 23 0 1243 1481 23595868 23596106 1.110000e-81 315.0
32 TraesCS7D01G302400 chr4A 87.805 82 9 1 3937 4017 532796834 532796915 1.570000e-15 95.3
33 TraesCS7D01G302400 chr2D 90.984 488 33 6 1 481 42765841 42766324 0.000000e+00 647.0
34 TraesCS7D01G302400 chr2D 94.180 189 11 0 645 833 558242415 558242227 6.730000e-74 289.0
35 TraesCS7D01G302400 chr2D 91.045 134 11 1 514 647 517078958 517079090 4.230000e-41 180.0
36 TraesCS7D01G302400 chr1A 89.126 515 52 2 1 514 354832946 354833457 5.800000e-179 638.0
37 TraesCS7D01G302400 chr1A 83.333 84 14 0 3947 4030 592529381 592529298 1.590000e-10 78.7
38 TraesCS7D01G302400 chr3B 88.697 522 49 5 1 514 7124304 7124823 3.490000e-176 628.0
39 TraesCS7D01G302400 chr3B 90.000 130 12 1 1209 1337 805395905 805396034 3.290000e-37 167.0
40 TraesCS7D01G302400 chr2A 90.795 239 22 0 1243 1481 3515363 3515601 2.390000e-83 320.0
41 TraesCS7D01G302400 chr6D 94.737 190 10 0 645 834 423083157 423083346 4.020000e-76 296.0
42 TraesCS7D01G302400 chr4D 93.264 193 12 1 645 837 439165996 439166187 3.130000e-72 283.0
43 TraesCS7D01G302400 chr4D 79.577 142 25 3 3942 4083 397094315 397094178 1.220000e-16 99.0
44 TraesCS7D01G302400 chr4D 86.420 81 11 0 3937 4017 63585457 63585377 7.330000e-14 89.8
45 TraesCS7D01G302400 chr5A 93.194 191 13 0 645 835 558336438 558336628 1.130000e-71 281.0
46 TraesCS7D01G302400 chr5A 92.593 189 14 0 645 833 633323406 633323594 6.780000e-69 272.0
47 TraesCS7D01G302400 chr5A 100.000 28 0 0 1212 1239 652057164 652057191 1.000000e-02 52.8
48 TraesCS7D01G302400 chr5B 79.861 144 11 6 645 784 517699700 517699829 7.330000e-14 89.8
49 TraesCS7D01G302400 chr1B 85.714 84 12 0 3947 4030 687276774 687276691 7.330000e-14 89.8
50 TraesCS7D01G302400 chr4B 82.178 101 17 1 3942 4042 489088139 489088040 9.480000e-13 86.1
51 TraesCS7D01G302400 chr4B 87.324 71 9 0 3947 4017 94208699 94208629 1.230000e-11 82.4
52 TraesCS7D01G302400 chr2B 84.286 70 7 4 449 518 96626694 96626629 1.230000e-06 65.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G302400 chr7D 382522548 382527858 5310 True 2415.750 8831 98.83700 1 5311 4 chr7D.!!$R3 5310
1 TraesCS7D01G302400 chr7D 33740153 33740664 511 True 617.000 617 88.41700 1 517 1 chr7D.!!$R1 516
2 TraesCS7D01G302400 chr7B 376933140 376937939 4799 True 1373.180 6104 94.01120 514 5311 5 chr7B.!!$R1 4797
3 TraesCS7D01G302400 chr7A 430561512 430566053 4541 True 1668.575 6048 91.31775 514 5309 4 chr7A.!!$R2 4795
4 TraesCS7D01G302400 chr5D 260844777 260845302 525 False 689.000 689 90.70200 1 514 1 chr5D.!!$F1 513
5 TraesCS7D01G302400 chr3D 459493421 459493943 522 True 678.000 678 90.30400 1 517 1 chr3D.!!$R1 516
6 TraesCS7D01G302400 chr4A 590198472 590198978 506 False 654.000 654 89.94200 1 514 1 chr4A.!!$F3 513
7 TraesCS7D01G302400 chr1A 354832946 354833457 511 False 638.000 638 89.12600 1 514 1 chr1A.!!$F1 513
8 TraesCS7D01G302400 chr3B 7124304 7124823 519 False 628.000 628 88.69700 1 514 1 chr3B.!!$F1 513

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
759 803 0.180406 GGCTCAAAATCTAGGCCCGA 59.820 55.000 0.00 0.00 37.12 5.14 F
913 957 0.527565 CACCATAACCACTGGCAAGC 59.472 55.000 0.00 0.00 37.27 4.01 F
1013 1057 0.540133 TCTTGCATGCAAAGCCAGGA 60.540 50.000 31.37 21.36 35.33 3.86 F
1257 1301 1.077858 CCTCCTGCTTCTGCTTCCC 60.078 63.158 0.00 0.00 40.48 3.97 F
1951 1995 1.220749 GGCATACCAGCGGAGTTCA 59.779 57.895 1.50 0.00 35.26 3.18 F
3415 3459 0.392193 AAAGGAGACAGCCGCAGATG 60.392 55.000 0.00 0.00 0.00 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2586 2630 0.107017 AAATGACCAGATCAGCCGGG 60.107 55.000 2.18 0.0 41.91 5.73 R
2655 2699 1.202371 CGCCACGTATTGCTAGGAAGA 60.202 52.381 2.28 0.0 0.00 2.87 R
2715 2759 3.202706 GGGATTTCGCCGTCCAGC 61.203 66.667 0.00 0.0 36.19 4.85 R
3150 3194 1.032657 CCGAGTCGTCCTCCAGACAT 61.033 60.000 12.31 0.0 46.69 3.06 R
3816 3860 1.226888 GACGACGGACATAGGCACC 60.227 63.158 0.00 0.0 0.00 5.01 R
5131 5343 0.250513 AGCCCAGAATTCGACTGTCC 59.749 55.000 1.55 0.0 34.04 4.02 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
255 281 3.490759 GTGCGTGCATCAGGTCCG 61.491 66.667 0.00 0.00 0.00 4.79
274 300 4.555709 TTCGCCGGTGTTGGTGCT 62.556 61.111 16.01 0.00 39.42 4.40
310 337 2.752238 CGGAGGAGAGAGTGCGGT 60.752 66.667 0.00 0.00 0.00 5.68
365 392 2.100216 CCCAAATACACAGCGCGC 59.900 61.111 26.66 26.66 0.00 6.86
398 425 3.630148 CGCGCGCCCAACTCTATG 61.630 66.667 27.72 2.72 0.00 2.23
530 557 9.402320 GAGATGCTCTTATATAGTCCTCACATA 57.598 37.037 0.00 0.00 0.00 2.29
545 572 7.041030 AGTCCTCACATAATGATACAGTACGAG 60.041 40.741 0.00 0.00 36.48 4.18
630 658 5.849357 TGTTAATGTTGATGTACACGGTC 57.151 39.130 0.00 0.00 0.00 4.79
636 664 0.606096 TGATGTACACGGTCCACTGG 59.394 55.000 0.00 0.00 0.00 4.00
642 670 1.742880 CACGGTCCACTGGATGCAG 60.743 63.158 13.34 13.34 32.73 4.41
643 671 2.217038 ACGGTCCACTGGATGCAGT 61.217 57.895 14.93 14.93 32.73 4.40
645 673 0.249120 CGGTCCACTGGATGCAGTAA 59.751 55.000 20.32 8.49 32.73 2.24
648 676 2.076863 GTCCACTGGATGCAGTAACAC 58.923 52.381 20.32 12.36 32.73 3.32
650 678 1.608025 CCACTGGATGCAGTAACACGT 60.608 52.381 20.32 0.00 33.50 4.49
651 679 2.353307 CCACTGGATGCAGTAACACGTA 60.353 50.000 20.32 0.00 33.50 3.57
654 682 4.212425 CACTGGATGCAGTAACACGTAAAA 59.788 41.667 20.32 0.00 33.50 1.52
655 683 4.451096 ACTGGATGCAGTAACACGTAAAAG 59.549 41.667 19.35 0.00 32.97 2.27
656 684 3.187637 TGGATGCAGTAACACGTAAAAGC 59.812 43.478 0.00 0.00 0.00 3.51
658 686 1.874872 TGCAGTAACACGTAAAAGCCC 59.125 47.619 0.00 0.00 0.00 5.19
660 688 2.137523 CAGTAACACGTAAAAGCCCGT 58.862 47.619 0.00 0.00 37.90 5.28
661 689 2.156310 CAGTAACACGTAAAAGCCCGTC 59.844 50.000 0.00 0.00 34.59 4.79
662 690 1.124839 GTAACACGTAAAAGCCCGTCG 59.875 52.381 0.00 0.00 34.59 5.12
663 691 1.223417 AACACGTAAAAGCCCGTCGG 61.223 55.000 3.60 3.60 34.59 4.79
695 739 1.302192 CCGGCCCGTCTTTCAAGAA 60.302 57.895 0.85 0.00 36.68 2.52
696 740 0.887387 CCGGCCCGTCTTTCAAGAAA 60.887 55.000 0.85 0.00 36.68 2.52
697 741 0.948678 CGGCCCGTCTTTCAAGAAAA 59.051 50.000 0.00 0.00 36.68 2.29
699 743 1.334689 GGCCCGTCTTTCAAGAAAACG 60.335 52.381 16.18 16.18 36.68 3.60
701 745 2.853281 GCCCGTCTTTCAAGAAAACGTG 60.853 50.000 18.97 13.58 36.68 4.49
704 748 4.437659 CCCGTCTTTCAAGAAAACGTGAAA 60.438 41.667 18.97 0.00 40.52 2.69
706 750 5.003121 CCGTCTTTCAAGAAAACGTGAAAAC 59.997 40.000 18.97 10.60 41.79 2.43
708 752 5.791480 GTCTTTCAAGAAAACGTGAAAACGA 59.209 36.000 5.12 5.26 41.79 3.85
709 753 6.468000 GTCTTTCAAGAAAACGTGAAAACGAT 59.532 34.615 5.12 0.00 41.79 3.73
710 754 6.467682 TCTTTCAAGAAAACGTGAAAACGATG 59.532 34.615 5.12 2.48 41.79 3.84
714 758 0.312729 AAACGTGAAAACGATGGGCC 59.687 50.000 5.12 0.00 36.85 5.80
748 792 4.371975 CGGTCTTCGGGCTCAAAA 57.628 55.556 0.00 0.00 34.75 2.44
749 793 2.854522 CGGTCTTCGGGCTCAAAAT 58.145 52.632 0.00 0.00 34.75 1.82
750 794 0.727398 CGGTCTTCGGGCTCAAAATC 59.273 55.000 0.00 0.00 34.75 2.17
751 795 1.676014 CGGTCTTCGGGCTCAAAATCT 60.676 52.381 0.00 0.00 34.75 2.40
752 796 2.418197 CGGTCTTCGGGCTCAAAATCTA 60.418 50.000 0.00 0.00 34.75 1.98
753 797 3.198872 GGTCTTCGGGCTCAAAATCTAG 58.801 50.000 0.00 0.00 0.00 2.43
754 798 3.198872 GTCTTCGGGCTCAAAATCTAGG 58.801 50.000 0.00 0.00 0.00 3.02
755 799 1.943340 CTTCGGGCTCAAAATCTAGGC 59.057 52.381 0.00 0.00 37.55 3.93
758 802 2.707902 GGCTCAAAATCTAGGCCCG 58.292 57.895 0.00 0.00 37.12 6.13
759 803 0.180406 GGCTCAAAATCTAGGCCCGA 59.820 55.000 0.00 0.00 37.12 5.14
760 804 1.587547 GCTCAAAATCTAGGCCCGAG 58.412 55.000 0.00 0.00 0.00 4.63
761 805 1.587547 CTCAAAATCTAGGCCCGAGC 58.412 55.000 0.00 0.00 38.76 5.03
806 850 3.263941 CCAGGTCGGGCTTTTTCG 58.736 61.111 0.00 0.00 0.00 3.46
807 851 2.332654 CCAGGTCGGGCTTTTTCGG 61.333 63.158 0.00 0.00 0.00 4.30
808 852 2.033602 AGGTCGGGCTTTTTCGGG 59.966 61.111 0.00 0.00 0.00 5.14
809 853 3.744719 GGTCGGGCTTTTTCGGGC 61.745 66.667 0.00 0.00 0.00 6.13
810 854 3.744719 GTCGGGCTTTTTCGGGCC 61.745 66.667 0.00 0.00 46.89 5.80
816 860 3.747976 CTTTTTCGGGCCGGGCTG 61.748 66.667 30.31 30.31 0.00 4.85
881 925 1.370587 GGCAAGTTGGCGCGGTATAA 61.371 55.000 14.24 0.00 31.79 0.98
907 951 3.879295 CCATAAGAGCACCATAACCACTG 59.121 47.826 0.00 0.00 0.00 3.66
913 957 0.527565 CACCATAACCACTGGCAAGC 59.472 55.000 0.00 0.00 37.27 4.01
932 976 1.831389 CTGGCGCGGTATGTGTATGC 61.831 60.000 8.83 0.00 0.00 3.14
1013 1057 0.540133 TCTTGCATGCAAAGCCAGGA 60.540 50.000 31.37 21.36 35.33 3.86
1254 1298 1.860944 ATGGCCTCCTGCTTCTGCTT 61.861 55.000 3.32 0.00 40.92 3.91
1257 1301 1.077858 CCTCCTGCTTCTGCTTCCC 60.078 63.158 0.00 0.00 40.48 3.97
1748 1792 2.735772 GCATCGGGGAGCTCCAGAA 61.736 63.158 33.29 17.89 42.81 3.02
1749 1793 2.049627 GCATCGGGGAGCTCCAGAAT 62.050 60.000 33.29 19.30 42.81 2.40
1836 1880 4.528674 CAGCTACGCTTCCTGCAT 57.471 55.556 0.00 0.00 43.06 3.96
1951 1995 1.220749 GGCATACCAGCGGAGTTCA 59.779 57.895 1.50 0.00 35.26 3.18
2139 2183 2.232941 TCTTGACCTGTCGGATAACCAC 59.767 50.000 0.00 0.00 35.59 4.16
2142 2186 1.553704 GACCTGTCGGATAACCACCTT 59.446 52.381 0.00 0.00 35.59 3.50
2613 2657 1.762957 GATCTGGTCATTTCCCCGAGA 59.237 52.381 0.00 0.00 0.00 4.04
2616 2660 2.108168 CTGGTCATTTCCCCGAGACTA 58.892 52.381 0.00 0.00 0.00 2.59
2695 2739 2.035442 GCACCGAAGCTCCAAGTCC 61.035 63.158 0.00 0.00 0.00 3.85
3016 3060 2.227865 TCTTTCAACCATTTAGCACCGC 59.772 45.455 0.00 0.00 0.00 5.68
3415 3459 0.392193 AAAGGAGACAGCCGCAGATG 60.392 55.000 0.00 0.00 0.00 2.90
3489 3533 2.586792 GCCGAGGTGGAGATGCTT 59.413 61.111 0.00 0.00 42.00 3.91
3492 3536 1.153289 CGAGGTGGAGATGCTTGGG 60.153 63.158 0.00 0.00 0.00 4.12
3579 3623 2.224066 GCTCTACGAGTACATGCCCAAT 60.224 50.000 0.00 0.00 31.39 3.16
3812 3856 3.393970 CGCCAAGGCTCTCCAGGA 61.394 66.667 9.73 0.00 39.32 3.86
3816 3860 3.764466 AAGGCTCTCCAGGACGCG 61.764 66.667 3.53 3.53 33.74 6.01
3834 3878 1.226888 GGTGCCTATGTCCGTCGTC 60.227 63.158 0.00 0.00 0.00 4.20
4025 4074 1.929836 GTGCTGCTGGAGATTCTTACG 59.070 52.381 0.00 0.00 0.00 3.18
4134 4183 2.432456 GCGACGTGATGGAGCACA 60.432 61.111 0.00 0.00 38.69 4.57
4152 4201 1.744368 ATCAGCAGCAACAGCGAGG 60.744 57.895 0.00 0.00 37.01 4.63
4154 4203 4.631247 AGCAGCAACAGCGAGGCA 62.631 61.111 0.00 0.00 37.01 4.75
4317 4366 0.460311 GCTAGTGCCGTAGATGGTGT 59.540 55.000 0.00 0.00 0.00 4.16
4318 4367 1.679680 GCTAGTGCCGTAGATGGTGTA 59.320 52.381 0.00 0.00 0.00 2.90
4319 4368 2.543238 GCTAGTGCCGTAGATGGTGTAC 60.543 54.545 0.00 0.00 0.00 2.90
4324 4373 2.953669 CGTAGATGGTGTACGGTGC 58.046 57.895 0.00 0.00 39.67 5.01
4325 4374 0.454600 CGTAGATGGTGTACGGTGCT 59.545 55.000 0.00 0.00 39.67 4.40
4326 4375 1.672363 CGTAGATGGTGTACGGTGCTA 59.328 52.381 0.00 0.00 39.67 3.49
4327 4376 2.286831 CGTAGATGGTGTACGGTGCTAG 60.287 54.545 0.00 0.00 39.67 3.42
4328 4377 0.460311 AGATGGTGTACGGTGCTAGC 59.540 55.000 8.10 8.10 0.00 3.42
4329 4378 0.460311 GATGGTGTACGGTGCTAGCT 59.540 55.000 17.23 0.00 0.00 3.32
4330 4379 0.175760 ATGGTGTACGGTGCTAGCTG 59.824 55.000 17.23 8.41 0.00 4.24
4331 4380 1.183030 TGGTGTACGGTGCTAGCTGT 61.183 55.000 17.23 13.86 0.00 4.40
4332 4381 0.813184 GGTGTACGGTGCTAGCTGTA 59.187 55.000 17.23 12.86 0.00 2.74
4333 4382 1.468736 GGTGTACGGTGCTAGCTGTAC 60.469 57.143 25.39 25.39 46.18 2.90
4334 4383 3.231222 GTACGGTGCTAGCTGTACG 57.769 57.895 21.22 18.52 40.17 3.67
4335 4384 0.248377 GTACGGTGCTAGCTGTACGG 60.248 60.000 21.22 15.69 40.17 4.02
4336 4385 0.677731 TACGGTGCTAGCTGTACGGT 60.678 55.000 17.23 17.21 44.19 4.83
4463 4512 2.289547 TGAGTGAGCTTTAACCGTTTGC 59.710 45.455 0.00 0.00 0.00 3.68
4479 4528 0.940833 TTGCATTCAAGCGTTCGTGA 59.059 45.000 0.00 0.00 37.31 4.35
4482 4531 1.937359 CATTCAAGCGTTCGTGACAC 58.063 50.000 0.00 0.00 30.59 3.67
4531 4581 6.073548 CCTCTCGATAAAGGATGTGTTTATGC 60.074 42.308 3.19 0.00 34.35 3.14
4541 4591 3.129852 TGTGTTTATGCGCAATGCTAC 57.870 42.857 17.11 12.25 46.63 3.58
4542 4592 2.485814 TGTGTTTATGCGCAATGCTACA 59.514 40.909 17.11 14.89 46.63 2.74
4543 4593 3.128415 TGTGTTTATGCGCAATGCTACAT 59.872 39.130 17.11 13.63 46.63 2.29
4546 4596 6.203723 TGTGTTTATGCGCAATGCTACATATA 59.796 34.615 17.11 10.01 46.63 0.86
4547 4597 7.075121 GTGTTTATGCGCAATGCTACATATAA 58.925 34.615 17.11 0.70 46.63 0.98
4548 4598 7.750458 GTGTTTATGCGCAATGCTACATATAAT 59.250 33.333 17.11 0.00 46.63 1.28
4549 4599 8.296000 TGTTTATGCGCAATGCTACATATAATT 58.704 29.630 17.11 0.00 46.63 1.40
4550 4600 9.767684 GTTTATGCGCAATGCTACATATAATTA 57.232 29.630 17.11 0.00 46.63 1.40
4551 4601 9.767684 TTTATGCGCAATGCTACATATAATTAC 57.232 29.630 17.11 0.00 46.63 1.89
4552 4602 5.853081 TGCGCAATGCTACATATAATTACG 58.147 37.500 8.16 0.00 46.63 3.18
4553 4603 5.163903 TGCGCAATGCTACATATAATTACGG 60.164 40.000 8.16 0.00 46.63 4.02
4554 4604 5.726688 GCGCAATGCTACATATAATTACGGG 60.727 44.000 0.30 0.00 41.73 5.28
4562 4622 7.095691 TGCTACATATAATTACGGGTTTAACGC 60.096 37.037 1.86 1.86 34.00 4.84
4579 4639 0.392998 CGCAAGGGTGTGGCTAGATT 60.393 55.000 0.00 0.00 0.00 2.40
4584 4644 2.551270 AGGGTGTGGCTAGATTTCAGA 58.449 47.619 0.00 0.00 0.00 3.27
4586 4646 2.027192 GGGTGTGGCTAGATTTCAGACA 60.027 50.000 0.00 0.00 0.00 3.41
4588 4648 4.072131 GGTGTGGCTAGATTTCAGACAAA 58.928 43.478 0.00 0.00 31.30 2.83
4591 4651 4.701651 TGTGGCTAGATTTCAGACAAATGG 59.298 41.667 0.00 0.00 31.30 3.16
4598 4658 7.500559 GCTAGATTTCAGACAAATGGGACTTAT 59.499 37.037 0.00 0.00 0.00 1.73
4672 4745 9.739276 TTTGTATGGTTCTTCACATAAGATCTT 57.261 29.630 13.56 13.56 31.93 2.40
4695 4768 9.973450 TCTTAAGAATATAGCATCAACTGAGAC 57.027 33.333 1.68 0.00 0.00 3.36
4696 4769 9.979578 CTTAAGAATATAGCATCAACTGAGACT 57.020 33.333 0.00 0.00 0.00 3.24
4698 4771 8.659925 AAGAATATAGCATCAACTGAGACTTG 57.340 34.615 0.00 0.00 0.00 3.16
4699 4772 7.215789 AGAATATAGCATCAACTGAGACTTGG 58.784 38.462 0.00 0.00 0.00 3.61
4700 4773 4.833478 ATAGCATCAACTGAGACTTGGT 57.167 40.909 0.00 0.00 0.00 3.67
4701 4774 3.498774 AGCATCAACTGAGACTTGGTT 57.501 42.857 0.00 0.00 0.00 3.67
4702 4775 4.623932 AGCATCAACTGAGACTTGGTTA 57.376 40.909 0.00 0.00 0.00 2.85
4723 4796 8.529476 TGGTTAAAGTCTTAGTTGTCTAGGATC 58.471 37.037 0.00 0.00 35.34 3.36
4732 4805 5.799827 AGTTGTCTAGGATCTAGCAATCC 57.200 43.478 2.78 2.78 44.81 3.01
4764 4837 3.961477 TGACAAACGTGAAGGATTGTG 57.039 42.857 5.81 0.00 35.23 3.33
4769 4842 4.338118 ACAAACGTGAAGGATTGTGAATGT 59.662 37.500 0.46 0.00 34.28 2.71
4967 5175 8.873215 CGTAGATGTAGGACTATCAATGTTTT 57.127 34.615 0.00 0.00 0.00 2.43
4968 5176 9.961265 CGTAGATGTAGGACTATCAATGTTTTA 57.039 33.333 0.00 0.00 0.00 1.52
4977 5185 9.739276 AGGACTATCAATGTTTTATTGACTCAA 57.261 29.630 4.62 0.00 40.37 3.02
5044 5256 5.574891 TTTATGCATACGTCCATTGCTTT 57.425 34.783 5.74 4.92 37.28 3.51
5046 5258 2.431454 TGCATACGTCCATTGCTTTCA 58.569 42.857 12.10 0.00 37.28 2.69
5048 5260 2.223340 GCATACGTCCATTGCTTTCAGG 60.223 50.000 0.00 0.00 33.61 3.86
5113 5325 0.250234 GACCAGCTACATGCCAGTCA 59.750 55.000 0.00 0.00 44.23 3.41
5129 5341 5.048504 TGCCAGTCAACTGAATTCTCAATTC 60.049 40.000 11.70 2.55 46.59 2.17
5146 5358 2.363788 TTCGGGACAGTCGAATTCTG 57.636 50.000 3.52 0.28 40.99 3.02
5148 5360 0.460284 CGGGACAGTCGAATTCTGGG 60.460 60.000 3.52 0.00 37.25 4.45
5152 5364 0.674895 ACAGTCGAATTCTGGGCTGC 60.675 55.000 13.02 0.00 37.25 5.25
5156 5368 2.464459 CGAATTCTGGGCTGCCGTC 61.464 63.158 13.40 0.00 0.00 4.79
5181 5393 7.724506 TCGGTTTCTGATCTAATACTACAGGAT 59.275 37.037 0.00 0.00 0.00 3.24
5192 5404 8.742777 TCTAATACTACAGGATAAACACACGTT 58.257 33.333 0.00 0.00 36.73 3.99
5194 5406 3.744426 ACTACAGGATAAACACACGTTGC 59.256 43.478 0.00 0.00 34.86 4.17
5216 5428 3.312421 CCAAGTGTCAATGTATAAGCCGG 59.688 47.826 0.00 0.00 0.00 6.13
5229 5441 2.871096 AAGCCGGGTGTCTTTTATCA 57.129 45.000 7.07 0.00 0.00 2.15
5238 5450 3.855950 GGTGTCTTTTATCACGTACTCGG 59.144 47.826 0.00 0.00 41.85 4.63
5262 5474 5.338626 GCTTAGGTTAGGGTAAGCCAAGTAA 60.339 44.000 3.21 0.00 43.58 2.24
5278 5490 5.516090 CCAAGTAAAAACTAAAGAGCGCAA 58.484 37.500 11.47 0.00 0.00 4.85
5279 5491 5.974751 CCAAGTAAAAACTAAAGAGCGCAAA 59.025 36.000 11.47 0.00 0.00 3.68
5281 5493 7.169140 CCAAGTAAAAACTAAAGAGCGCAAAAT 59.831 33.333 11.47 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
244 270 3.195698 GCGAACCGGACCTGATGC 61.196 66.667 9.46 0.00 0.00 3.91
255 281 3.656045 CACCAACACCGGCGAACC 61.656 66.667 9.30 0.00 0.00 3.62
265 291 4.947147 GCCCCGTGAGCACCAACA 62.947 66.667 0.00 0.00 0.00 3.33
293 320 2.752238 ACCGCACTCTCTCCTCCG 60.752 66.667 0.00 0.00 0.00 4.63
365 392 3.550992 CGGTCCGAATCGCCAACG 61.551 66.667 4.91 0.00 42.01 4.10
530 557 8.771920 TTCAAAATCACTCGTACTGTATCATT 57.228 30.769 0.00 0.00 0.00 2.57
610 638 4.691685 GTGGACCGTGTACATCAACATTAA 59.308 41.667 0.00 0.00 0.00 1.40
636 664 3.425758 GGGCTTTTACGTGTTACTGCATC 60.426 47.826 0.00 0.00 0.00 3.91
642 670 1.124839 CGACGGGCTTTTACGTGTTAC 59.875 52.381 0.00 0.00 44.24 2.50
643 671 1.417372 CGACGGGCTTTTACGTGTTA 58.583 50.000 0.00 0.00 44.24 2.41
645 673 1.665599 CCGACGGGCTTTTACGTGT 60.666 57.895 5.81 0.00 44.24 4.49
678 706 0.948678 TTTTCTTGAAAGACGGGCCG 59.051 50.000 27.06 27.06 34.13 6.13
679 707 1.334689 CGTTTTCTTGAAAGACGGGCC 60.335 52.381 0.00 0.00 34.13 5.80
680 708 1.332686 ACGTTTTCTTGAAAGACGGGC 59.667 47.619 21.73 0.00 34.13 6.13
681 709 2.610374 TCACGTTTTCTTGAAAGACGGG 59.390 45.455 21.73 19.90 34.13 5.28
682 710 3.936902 TCACGTTTTCTTGAAAGACGG 57.063 42.857 21.73 15.50 34.13 4.79
686 714 6.291060 CCATCGTTTTCACGTTTTCTTGAAAG 60.291 38.462 0.00 0.00 44.60 2.62
699 743 2.696759 CCGGGCCCATCGTTTTCAC 61.697 63.158 24.92 0.00 0.00 3.18
701 745 3.138128 CCCGGGCCCATCGTTTTC 61.138 66.667 24.92 0.00 0.00 2.29
732 776 2.115343 AGATTTTGAGCCCGAAGACC 57.885 50.000 0.00 0.00 0.00 3.85
733 777 3.198872 CCTAGATTTTGAGCCCGAAGAC 58.801 50.000 0.00 0.00 0.00 3.01
734 778 2.420129 GCCTAGATTTTGAGCCCGAAGA 60.420 50.000 0.00 0.00 0.00 2.87
735 779 1.943340 GCCTAGATTTTGAGCCCGAAG 59.057 52.381 0.00 0.00 0.00 3.79
736 780 1.408266 GGCCTAGATTTTGAGCCCGAA 60.408 52.381 0.00 0.00 37.66 4.30
737 781 0.180406 GGCCTAGATTTTGAGCCCGA 59.820 55.000 0.00 0.00 37.66 5.14
738 782 2.707902 GGCCTAGATTTTGAGCCCG 58.292 57.895 0.00 0.00 37.66 6.13
740 784 0.180406 TCGGGCCTAGATTTTGAGCC 59.820 55.000 0.84 0.00 43.09 4.70
741 785 1.587547 CTCGGGCCTAGATTTTGAGC 58.412 55.000 0.84 0.00 0.00 4.26
742 786 1.587547 GCTCGGGCCTAGATTTTGAG 58.412 55.000 9.63 2.79 0.00 3.02
743 787 3.780624 GCTCGGGCCTAGATTTTGA 57.219 52.632 9.63 0.00 0.00 2.69
789 833 2.332654 CCGAAAAAGCCCGACCTGG 61.333 63.158 0.00 0.00 37.55 4.45
790 834 2.332654 CCCGAAAAAGCCCGACCTG 61.333 63.158 0.00 0.00 0.00 4.00
791 835 2.033602 CCCGAAAAAGCCCGACCT 59.966 61.111 0.00 0.00 0.00 3.85
792 836 3.744719 GCCCGAAAAAGCCCGACC 61.745 66.667 0.00 0.00 0.00 4.79
793 837 3.744719 GGCCCGAAAAAGCCCGAC 61.745 66.667 0.00 0.00 43.76 4.79
799 843 3.747976 CAGCCCGGCCCGAAAAAG 61.748 66.667 3.71 0.00 0.00 2.27
817 861 1.051812 CTACTAGTCCTGGCCATGGG 58.948 60.000 15.13 4.96 0.00 4.00
818 862 1.794714 ACTACTAGTCCTGGCCATGG 58.205 55.000 5.51 7.63 0.00 3.66
819 863 3.069729 GGTTACTACTAGTCCTGGCCATG 59.930 52.174 5.51 2.84 0.00 3.66
820 864 3.306613 GGTTACTACTAGTCCTGGCCAT 58.693 50.000 5.51 0.00 0.00 4.40
821 865 2.043389 TGGTTACTACTAGTCCTGGCCA 59.957 50.000 4.71 4.71 0.00 5.36
822 866 2.743553 TGGTTACTACTAGTCCTGGCC 58.256 52.381 0.00 0.00 0.00 5.36
823 867 5.832060 TCTTATGGTTACTACTAGTCCTGGC 59.168 44.000 0.00 0.00 0.00 4.85
824 868 6.016108 GCTCTTATGGTTACTACTAGTCCTGG 60.016 46.154 0.00 0.00 0.00 4.45
825 869 6.546403 TGCTCTTATGGTTACTACTAGTCCTG 59.454 42.308 0.00 0.00 0.00 3.86
826 870 6.546772 GTGCTCTTATGGTTACTACTAGTCCT 59.453 42.308 0.00 0.00 0.00 3.85
827 871 6.238981 GGTGCTCTTATGGTTACTACTAGTCC 60.239 46.154 0.00 0.00 0.00 3.85
828 872 6.320672 TGGTGCTCTTATGGTTACTACTAGTC 59.679 42.308 0.00 0.00 0.00 2.59
829 873 6.192773 TGGTGCTCTTATGGTTACTACTAGT 58.807 40.000 0.00 0.00 0.00 2.57
881 925 6.062095 GTGGTTATGGTGCTCTTATGGTTAT 58.938 40.000 0.00 0.00 0.00 1.89
913 957 1.831389 GCATACACATACCGCGCCAG 61.831 60.000 0.00 0.00 0.00 4.85
1139 1183 1.092348 GGAAAGGTAATGGCGGTGTC 58.908 55.000 0.00 0.00 0.00 3.67
1254 1298 1.306997 GGTGATGGTGAGGAGGGGA 60.307 63.158 0.00 0.00 0.00 4.81
1257 1301 2.187946 GCGGTGATGGTGAGGAGG 59.812 66.667 0.00 0.00 0.00 4.30
1305 1349 3.308832 GGGAGGACTTGAGAGAGAGAAGA 60.309 52.174 0.00 0.00 0.00 2.87
1690 1734 3.655481 GCAGTTGCTGTAGGCGTT 58.345 55.556 0.00 0.00 45.43 4.84
1748 1792 0.820871 GAGGTTGAGGTGCTCGAGAT 59.179 55.000 18.75 0.00 32.35 2.75
1749 1793 1.587043 CGAGGTTGAGGTGCTCGAGA 61.587 60.000 18.75 0.00 39.56 4.04
2108 2152 4.481195 GGTCAAGAACCTGCAGCA 57.519 55.556 8.66 0.00 45.45 4.41
2133 2177 0.905809 TAGCTCCGGCAAGGTGGTTA 60.906 55.000 0.00 0.00 43.20 2.85
2139 2183 2.427753 GGGATAGCTCCGGCAAGG 59.572 66.667 0.00 0.00 43.11 3.61
2330 2374 3.733960 TCGACACGTCCAGGCGAG 61.734 66.667 9.87 5.00 35.59 5.03
2478 2522 3.744719 TTGGACTCGAGCCGGACG 61.745 66.667 13.61 10.80 0.00 4.79
2481 2525 4.796231 CGGTTGGACTCGAGCCGG 62.796 72.222 13.61 0.00 38.86 6.13
2586 2630 0.107017 AAATGACCAGATCAGCCGGG 60.107 55.000 2.18 0.00 41.91 5.73
2655 2699 1.202371 CGCCACGTATTGCTAGGAAGA 60.202 52.381 2.28 0.00 0.00 2.87
2715 2759 3.202706 GGGATTTCGCCGTCCAGC 61.203 66.667 0.00 0.00 36.19 4.85
3150 3194 1.032657 CCGAGTCGTCCTCCAGACAT 61.033 60.000 12.31 0.00 46.69 3.06
3391 3435 1.961277 CGGCTGTCTCCTTTTGCGT 60.961 57.895 0.00 0.00 0.00 5.24
3431 3475 3.403057 CGCCGTCTTGTGTGTCCG 61.403 66.667 0.00 0.00 0.00 4.79
3681 3725 2.037367 TGGAGGTAGCTCACGCCT 59.963 61.111 22.66 5.53 36.60 5.52
3723 3767 4.373116 GGCTTGAGGTCGCGGTGA 62.373 66.667 6.13 0.00 0.00 4.02
3795 3839 3.393970 TCCTGGAGAGCCTTGGCG 61.394 66.667 5.95 0.00 34.31 5.69
3812 3856 4.508128 CGGACATAGGCACCGCGT 62.508 66.667 4.92 0.00 40.19 6.01
3816 3860 1.226888 GACGACGGACATAGGCACC 60.227 63.158 0.00 0.00 0.00 5.01
3818 3862 2.795973 CGACGACGGACATAGGCA 59.204 61.111 0.00 0.00 35.72 4.75
3845 3889 2.494445 CTGGTGCGATGTAGCCGA 59.506 61.111 0.00 0.00 36.02 5.54
4134 4183 1.744368 CCTCGCTGTTGCTGCTGAT 60.744 57.895 0.00 0.00 36.97 2.90
4136 4185 4.099170 GCCTCGCTGTTGCTGCTG 62.099 66.667 0.00 0.00 36.97 4.41
4317 4366 0.677731 ACCGTACAGCTAGCACCGTA 60.678 55.000 18.83 12.14 0.00 4.02
4318 4367 1.975407 ACCGTACAGCTAGCACCGT 60.975 57.895 18.83 13.18 0.00 4.83
4319 4368 1.516386 CACCGTACAGCTAGCACCG 60.516 63.158 18.83 12.36 0.00 4.94
4321 4370 0.802607 GAGCACCGTACAGCTAGCAC 60.803 60.000 18.83 5.49 42.04 4.40
4322 4371 0.965866 AGAGCACCGTACAGCTAGCA 60.966 55.000 18.83 0.00 42.04 3.49
4323 4372 1.002251 CTAGAGCACCGTACAGCTAGC 60.002 57.143 6.62 6.62 42.04 3.42
4324 4373 1.002251 GCTAGAGCACCGTACAGCTAG 60.002 57.143 4.65 0.00 42.04 3.42
4325 4374 1.022735 GCTAGAGCACCGTACAGCTA 58.977 55.000 4.65 0.00 42.04 3.32
4326 4375 1.810532 GCTAGAGCACCGTACAGCT 59.189 57.895 4.34 4.34 45.25 4.24
4327 4376 4.403976 GCTAGAGCACCGTACAGC 57.596 61.111 0.00 0.00 41.59 4.40
4351 4400 2.288729 CACCGTACAGCTAGCACGTATA 59.711 50.000 18.83 0.00 33.93 1.47
4352 4401 1.065102 CACCGTACAGCTAGCACGTAT 59.935 52.381 18.83 5.93 33.93 3.06
4463 4512 1.526887 AGTGTCACGAACGCTTGAATG 59.473 47.619 0.00 0.00 46.62 2.67
4479 4528 7.065803 GCAAATACAATACCACAGTGATAGTGT 59.934 37.037 12.62 12.62 35.24 3.55
4482 4531 6.017109 GGGCAAATACAATACCACAGTGATAG 60.017 42.308 0.62 0.00 0.00 2.08
4489 4538 4.523083 GAGAGGGCAAATACAATACCACA 58.477 43.478 0.00 0.00 0.00 4.17
4531 4581 5.350365 ACCCGTAATTATATGTAGCATTGCG 59.650 40.000 2.38 0.00 35.34 4.85
4541 4591 7.073265 CCTTGCGTTAAACCCGTAATTATATG 58.927 38.462 0.00 0.00 29.86 1.78
4542 4592 6.205270 CCCTTGCGTTAAACCCGTAATTATAT 59.795 38.462 0.00 0.00 29.86 0.86
4543 4593 5.526846 CCCTTGCGTTAAACCCGTAATTATA 59.473 40.000 0.00 0.00 29.86 0.98
4546 4596 2.488937 CCCTTGCGTTAAACCCGTAATT 59.511 45.455 0.00 0.00 29.86 1.40
4547 4597 2.086094 CCCTTGCGTTAAACCCGTAAT 58.914 47.619 0.00 0.00 29.86 1.89
4548 4598 1.202746 ACCCTTGCGTTAAACCCGTAA 60.203 47.619 0.00 0.00 0.00 3.18
4549 4599 0.396060 ACCCTTGCGTTAAACCCGTA 59.604 50.000 0.00 0.00 0.00 4.02
4550 4600 1.148949 ACCCTTGCGTTAAACCCGT 59.851 52.632 0.00 0.00 0.00 5.28
4551 4601 1.167781 ACACCCTTGCGTTAAACCCG 61.168 55.000 0.00 0.00 0.00 5.28
4552 4602 0.312729 CACACCCTTGCGTTAAACCC 59.687 55.000 0.00 0.00 0.00 4.11
4553 4603 0.312729 CCACACCCTTGCGTTAAACC 59.687 55.000 0.00 0.00 0.00 3.27
4554 4604 0.318360 GCCACACCCTTGCGTTAAAC 60.318 55.000 0.00 0.00 0.00 2.01
4560 4620 0.392998 AATCTAGCCACACCCTTGCG 60.393 55.000 0.00 0.00 0.00 4.85
4562 4622 3.012518 CTGAAATCTAGCCACACCCTTG 58.987 50.000 0.00 0.00 0.00 3.61
4579 4639 9.177608 CTTGATTATAAGTCCCATTTGTCTGAA 57.822 33.333 0.00 0.00 0.00 3.02
4646 4718 9.739276 AAGATCTTATGTGAAGAACCATACAAA 57.261 29.630 6.06 0.00 0.00 2.83
4672 4745 9.755804 CAAGTCTCAGTTGATGCTATATTCTTA 57.244 33.333 0.00 0.00 30.18 2.10
4695 4768 8.365647 TCCTAGACAACTAAGACTTTAACCAAG 58.634 37.037 0.00 0.00 38.64 3.61
4696 4769 8.253867 TCCTAGACAACTAAGACTTTAACCAA 57.746 34.615 0.00 0.00 0.00 3.67
4697 4770 7.844493 TCCTAGACAACTAAGACTTTAACCA 57.156 36.000 0.00 0.00 0.00 3.67
4698 4771 8.751242 AGATCCTAGACAACTAAGACTTTAACC 58.249 37.037 0.00 0.00 0.00 2.85
4701 4774 9.122779 GCTAGATCCTAGACAACTAAGACTTTA 57.877 37.037 5.27 0.00 0.00 1.85
4702 4775 7.616150 TGCTAGATCCTAGACAACTAAGACTTT 59.384 37.037 5.27 0.00 0.00 2.66
4709 4782 6.902771 GGATTGCTAGATCCTAGACAACTA 57.097 41.667 5.27 0.00 41.96 2.24
4719 4792 4.694339 ACGTTAACAGGATTGCTAGATCC 58.306 43.478 6.39 2.78 44.91 3.36
4723 4796 6.533723 TGTCATTACGTTAACAGGATTGCTAG 59.466 38.462 6.39 0.00 0.00 3.42
4757 4830 3.885297 CCCCATGTCTACATTCACAATCC 59.115 47.826 0.00 0.00 33.61 3.01
4968 5176 9.399797 TCACTTTATGCAATATCTTGAGTCAAT 57.600 29.630 5.91 0.00 34.04 2.57
4969 5177 8.791327 TCACTTTATGCAATATCTTGAGTCAA 57.209 30.769 5.25 5.25 34.04 3.18
4970 5178 8.969260 ATCACTTTATGCAATATCTTGAGTCA 57.031 30.769 0.00 0.00 34.04 3.41
4972 5180 9.836864 TGTATCACTTTATGCAATATCTTGAGT 57.163 29.630 0.00 0.00 34.04 3.41
4975 5183 9.390795 GCTTGTATCACTTTATGCAATATCTTG 57.609 33.333 0.00 0.00 32.16 3.02
4976 5184 9.123902 TGCTTGTATCACTTTATGCAATATCTT 57.876 29.630 0.00 0.00 32.16 2.40
4977 5185 8.681486 TGCTTGTATCACTTTATGCAATATCT 57.319 30.769 0.00 0.00 32.16 1.98
5014 5226 5.129634 TGGACGTATGCATAAATTGGATGT 58.870 37.500 8.28 0.00 36.96 3.06
5023 5235 4.637977 TGAAAGCAATGGACGTATGCATAA 59.362 37.500 8.28 0.00 42.45 1.90
5044 5256 5.178096 TGATGTAATCCTTCTTTGCCTGA 57.822 39.130 0.00 0.00 44.73 3.86
5046 5258 4.228210 TCCTGATGTAATCCTTCTTTGCCT 59.772 41.667 0.00 0.00 44.73 4.75
5048 5260 5.824624 TCATCCTGATGTAATCCTTCTTTGC 59.175 40.000 7.00 0.00 44.73 3.68
5113 5325 4.651778 TGTCCCGAATTGAGAATTCAGTT 58.348 39.130 8.44 0.00 45.94 3.16
5129 5341 0.460284 CCCAGAATTCGACTGTCCCG 60.460 60.000 1.55 0.00 34.04 5.14
5131 5343 0.250513 AGCCCAGAATTCGACTGTCC 59.749 55.000 1.55 0.00 34.04 4.02
5146 5358 4.699522 AGAAACCGACGGCAGCCC 62.700 66.667 15.39 0.00 0.00 5.19
5148 5360 1.696832 GATCAGAAACCGACGGCAGC 61.697 60.000 15.39 2.81 0.00 5.25
5152 5364 5.184340 AGTATTAGATCAGAAACCGACGG 57.816 43.478 13.61 13.61 0.00 4.79
5156 5368 7.273320 TCCTGTAGTATTAGATCAGAAACCG 57.727 40.000 0.00 0.00 0.00 4.44
5181 5393 2.834574 CACTTGGCAACGTGTGTTTA 57.165 45.000 16.62 0.00 35.72 2.01
5192 5404 3.694072 GGCTTATACATTGACACTTGGCA 59.306 43.478 0.00 0.00 0.00 4.92
5194 5406 3.312421 CCGGCTTATACATTGACACTTGG 59.688 47.826 0.00 0.00 0.00 3.61
5216 5428 3.855950 CCGAGTACGTGATAAAAGACACC 59.144 47.826 0.00 0.00 37.88 4.16
5229 5441 2.019984 CCTAACCTAAGCCGAGTACGT 58.980 52.381 0.00 0.00 37.88 3.57
5238 5450 3.054582 ACTTGGCTTACCCTAACCTAAGC 60.055 47.826 0.00 0.00 42.80 3.09
5255 5467 5.103290 TGCGCTCTTTAGTTTTTACTTGG 57.897 39.130 9.73 0.00 0.00 3.61
5257 5469 9.394477 CTATTTTGCGCTCTTTAGTTTTTACTT 57.606 29.630 9.73 0.00 0.00 2.24
5262 5474 8.865590 TTTTCTATTTTGCGCTCTTTAGTTTT 57.134 26.923 9.73 0.00 0.00 2.43
5278 5490 6.861572 GCTAAGCCGTGTTTTCTTTTCTATTT 59.138 34.615 0.00 0.00 0.00 1.40
5279 5491 6.206829 AGCTAAGCCGTGTTTTCTTTTCTATT 59.793 34.615 0.00 0.00 0.00 1.73
5281 5493 5.061179 AGCTAAGCCGTGTTTTCTTTTCTA 58.939 37.500 0.00 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.