Multiple sequence alignment - TraesCS6D01G024900

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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 TraesCS6D01G024900 chr6D 100.000 3865 0 0 1 3865 9461977 9465841 0.000000e+00 7138
1 TraesCS6D01G024900 chr6D 92.035 226 16 1 577 800 267236351 267236576 2.240000e-82 316
2 TraesCS6D01G024900 chr6A 89.779 1810 109 38 801 2564 10488032 10489811 0.000000e+00 2248
3 TraesCS6D01G024900 chr6A 91.588 951 53 7 2700 3638 10489810 10490745 0.000000e+00 1288
4 TraesCS6D01G024900 chr6A 91.176 204 13 2 2933 3131 558998542 558998339 4.920000e-69 272
5 TraesCS6D01G024900 chr6A 86.957 138 16 2 3631 3766 10490776 10490913 1.860000e-33 154
6 TraesCS6D01G024900 chr6B 86.064 1593 142 47 1863 3423 17415481 17417025 0.000000e+00 1639
7 TraesCS6D01G024900 chr6B 85.847 1074 80 35 844 1861 17414273 17415330 0.000000e+00 1075
8 TraesCS6D01G024900 chr6B 87.293 543 52 11 2358 2887 32918941 32919479 4.270000e-169 604
9 TraesCS6D01G024900 chr6B 83.113 681 72 27 139 800 132435208 132434552 7.200000e-162 580
10 TraesCS6D01G024900 chr6B 90.278 216 14 5 2923 3133 32919478 32919691 3.800000e-70 276
11 TraesCS6D01G024900 chr6B 89.815 216 15 4 2923 3133 377942325 377942538 1.770000e-68 270
12 TraesCS6D01G024900 chr2D 96.393 804 24 2 1 800 94457020 94457822 0.000000e+00 1319
13 TraesCS6D01G024900 chr2D 87.634 186 16 3 1649 1834 12880920 12881098 3.910000e-50 209
14 TraesCS6D01G024900 chr2D 94.444 108 5 1 3759 3865 638248178 638248071 8.590000e-37 165
15 TraesCS6D01G024900 chr7D 96.135 802 28 3 1 802 454325677 454324879 0.000000e+00 1306
16 TraesCS6D01G024900 chr7D 94.658 805 32 6 1 803 6882393 6883188 0.000000e+00 1238
17 TraesCS6D01G024900 chr1D 96.217 793 29 1 10 802 28020798 28020007 0.000000e+00 1297
18 TraesCS6D01G024900 chr5D 85.181 830 72 18 1 800 43387087 43387895 0.000000e+00 804
19 TraesCS6D01G024900 chr2A 84.682 803 83 12 20 801 482758602 482759385 0.000000e+00 765
20 TraesCS6D01G024900 chr7B 84.204 823 91 17 1 803 41306842 41306039 0.000000e+00 763
21 TraesCS6D01G024900 chr2B 86.310 672 77 10 28 691 641082368 641081704 0.000000e+00 717
22 TraesCS6D01G024900 chr2B 85.011 447 47 19 1 433 423811222 423811662 1.650000e-118 436
23 TraesCS6D01G024900 chr1B 85.440 625 67 9 1 610 642812153 642812768 2.530000e-176 628
24 TraesCS6D01G024900 chr1B 89.216 204 22 0 607 810 642813742 642813945 4.960000e-64 255
25 TraesCS6D01G024900 chrUn 87.661 543 50 11 2358 2887 214482619 214483157 1.970000e-172 616
26 TraesCS6D01G024900 chrUn 87.269 542 54 9 2358 2887 380890047 380889509 4.270000e-169 604
27 TraesCS6D01G024900 chrUn 87.109 543 53 11 2358 2887 39517653 39517115 1.990000e-167 599
28 TraesCS6D01G024900 chrUn 83.041 684 70 28 139 801 73631701 73631043 2.590000e-161 579
29 TraesCS6D01G024900 chrUn 90.783 217 12 5 2923 3133 214483156 214483370 2.270000e-72 283
30 TraesCS6D01G024900 chrUn 90.909 209 14 3 2933 3136 463662904 463662696 3.800000e-70 276
31 TraesCS6D01G024900 chr7A 87.477 543 51 11 2358 2887 384387877 384387339 9.180000e-171 610
32 TraesCS6D01G024900 chr7A 91.667 108 8 1 3759 3865 3232721 3232614 8.650000e-32 148
33 TraesCS6D01G024900 chr4B 87.293 543 52 11 2358 2887 367930158 367930696 4.270000e-169 604
34 TraesCS6D01G024900 chr4B 87.109 543 53 11 2358 2887 274678750 274678212 1.990000e-167 599
35 TraesCS6D01G024900 chr4B 90.783 217 12 5 2923 3133 367930695 367930909 2.270000e-72 283
36 TraesCS6D01G024900 chr4B 90.952 210 13 3 2933 3136 274678205 274677996 1.060000e-70 278
37 TraesCS6D01G024900 chr4A 87.109 543 53 11 2358 2887 687558966 687558428 1.990000e-167 599
38 TraesCS6D01G024900 chr4A 90.909 209 14 2 2933 3136 687558421 687558213 3.800000e-70 276
39 TraesCS6D01G024900 chr1A 94.444 108 5 1 3759 3865 2210149 2210042 8.590000e-37 165


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 TraesCS6D01G024900 chr6D 9461977 9465841 3864 False 7138.0 7138 100.000000 1 3865 1 chr6D.!!$F1 3864
1 TraesCS6D01G024900 chr6A 10488032 10490913 2881 False 1230.0 2248 89.441333 801 3766 3 chr6A.!!$F1 2965
2 TraesCS6D01G024900 chr6B 17414273 17417025 2752 False 1357.0 1639 85.955500 844 3423 2 chr6B.!!$F2 2579
3 TraesCS6D01G024900 chr6B 132434552 132435208 656 True 580.0 580 83.113000 139 800 1 chr6B.!!$R1 661
4 TraesCS6D01G024900 chr6B 32918941 32919691 750 False 440.0 604 88.785500 2358 3133 2 chr6B.!!$F3 775
5 TraesCS6D01G024900 chr2D 94457020 94457822 802 False 1319.0 1319 96.393000 1 800 1 chr2D.!!$F2 799
6 TraesCS6D01G024900 chr7D 454324879 454325677 798 True 1306.0 1306 96.135000 1 802 1 chr7D.!!$R1 801
7 TraesCS6D01G024900 chr7D 6882393 6883188 795 False 1238.0 1238 94.658000 1 803 1 chr7D.!!$F1 802
8 TraesCS6D01G024900 chr1D 28020007 28020798 791 True 1297.0 1297 96.217000 10 802 1 chr1D.!!$R1 792
9 TraesCS6D01G024900 chr5D 43387087 43387895 808 False 804.0 804 85.181000 1 800 1 chr5D.!!$F1 799
10 TraesCS6D01G024900 chr2A 482758602 482759385 783 False 765.0 765 84.682000 20 801 1 chr2A.!!$F1 781
11 TraesCS6D01G024900 chr7B 41306039 41306842 803 True 763.0 763 84.204000 1 803 1 chr7B.!!$R1 802
12 TraesCS6D01G024900 chr2B 641081704 641082368 664 True 717.0 717 86.310000 28 691 1 chr2B.!!$R1 663
13 TraesCS6D01G024900 chr1B 642812153 642813945 1792 False 441.5 628 87.328000 1 810 2 chr1B.!!$F1 809
14 TraesCS6D01G024900 chrUn 380889509 380890047 538 True 604.0 604 87.269000 2358 2887 1 chrUn.!!$R3 529
15 TraesCS6D01G024900 chrUn 39517115 39517653 538 True 599.0 599 87.109000 2358 2887 1 chrUn.!!$R1 529
16 TraesCS6D01G024900 chrUn 73631043 73631701 658 True 579.0 579 83.041000 139 801 1 chrUn.!!$R2 662
17 TraesCS6D01G024900 chrUn 214482619 214483370 751 False 449.5 616 89.222000 2358 3133 2 chrUn.!!$F1 775
18 TraesCS6D01G024900 chr7A 384387339 384387877 538 True 610.0 610 87.477000 2358 2887 1 chr7A.!!$R2 529
19 TraesCS6D01G024900 chr4B 367930158 367930909 751 False 443.5 604 89.038000 2358 3133 2 chr4B.!!$F1 775
20 TraesCS6D01G024900 chr4B 274677996 274678750 754 True 438.5 599 89.030500 2358 3136 2 chr4B.!!$R1 778
21 TraesCS6D01G024900 chr4A 687558213 687558966 753 True 437.5 599 89.009000 2358 3136 2 chr4A.!!$R1 778

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
44 46 0.403655 TGCTTAGGTTCACATGGCCA 59.596 50.0 8.56 8.56 0.0 5.36 F
973 2064 0.695803 AATCCCAATCGAGCCCTCCT 60.696 55.0 0.00 0.00 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1061 2155 0.249073 CATTAGCAGACCGACGGAGG 60.249 60.0 23.38 10.29 37.3 4.30 R
2957 4293 0.326264 ACTCTGACTTGGATGGTGGC 59.674 55.0 0.00 0.00 0.0 5.01 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
44 46 0.403655 TGCTTAGGTTCACATGGCCA 59.596 50.000 8.56 8.56 0.00 5.36
107 109 1.539827 CCAAGATTCAACAACCGGTCC 59.460 52.381 8.04 0.00 0.00 4.46
243 284 5.297776 GGAGTTGTACATGAGCTGCATTATT 59.702 40.000 0.00 0.00 34.15 1.40
402 457 2.535012 TGGACGTACAATCAACAGCA 57.465 45.000 0.00 0.00 0.00 4.41
424 479 3.011119 GCCCAACCATATTTGTCACGTA 58.989 45.455 0.00 0.00 0.00 3.57
459 514 5.349817 CGATATAATAGGCAGCCTTTGTCAG 59.650 44.000 22.26 1.10 34.61 3.51
588 673 8.442632 TTCTTTCATCTATCCATTGACACATC 57.557 34.615 0.00 0.00 0.00 3.06
789 1858 6.353404 TGACAAGTGTAGTGATCACCAATA 57.647 37.500 22.21 5.72 36.58 1.90
815 1884 8.425703 ACATTTTACTCTTTCTCCTATAGAGCC 58.574 37.037 0.00 0.00 42.90 4.70
821 1890 5.772004 TCTTTCTCCTATAGAGCCAGAACT 58.228 41.667 0.00 0.00 42.90 3.01
931 2015 4.471386 AGGGATCCGATGATTACCCTAATG 59.529 45.833 5.45 0.00 41.42 1.90
935 2019 7.210873 GGATCCGATGATTACCCTAATGATAC 58.789 42.308 0.00 0.00 0.00 2.24
964 2055 8.587952 AAACAAAAGAAAAGTAATCCCAATCG 57.412 30.769 0.00 0.00 0.00 3.34
965 2056 7.519032 ACAAAAGAAAAGTAATCCCAATCGA 57.481 32.000 0.00 0.00 0.00 3.59
966 2057 7.593825 ACAAAAGAAAAGTAATCCCAATCGAG 58.406 34.615 0.00 0.00 0.00 4.04
967 2058 5.819825 AAGAAAAGTAATCCCAATCGAGC 57.180 39.130 0.00 0.00 0.00 5.03
970 2061 1.807814 AGTAATCCCAATCGAGCCCT 58.192 50.000 0.00 0.00 0.00 5.19
973 2064 0.695803 AATCCCAATCGAGCCCTCCT 60.696 55.000 0.00 0.00 0.00 3.69
974 2065 1.124477 ATCCCAATCGAGCCCTCCTC 61.124 60.000 0.00 0.00 37.22 3.71
975 2066 2.812619 CCCAATCGAGCCCTCCTCC 61.813 68.421 0.00 0.00 37.27 4.30
976 2067 2.812619 CCAATCGAGCCCTCCTCCC 61.813 68.421 0.00 0.00 37.27 4.30
977 2068 2.446802 AATCGAGCCCTCCTCCCC 60.447 66.667 0.00 0.00 37.27 4.81
978 2069 3.028223 AATCGAGCCCTCCTCCCCT 62.028 63.158 0.00 0.00 37.27 4.79
1219 2329 3.866379 ATCCTTGTTGCCGCAGCCA 62.866 57.895 4.63 0.00 38.69 4.75
1472 2582 2.093764 AGCACCAGTAGCAGATTCAGTC 60.094 50.000 0.00 0.00 0.00 3.51
1502 2621 5.048154 GCATCAGCTCTAGATATGACAGACA 60.048 44.000 8.71 0.00 37.91 3.41
1503 2622 6.614160 CATCAGCTCTAGATATGACAGACAG 58.386 44.000 8.71 0.00 0.00 3.51
1504 2623 5.934781 TCAGCTCTAGATATGACAGACAGA 58.065 41.667 0.00 0.00 0.00 3.41
1505 2624 5.762711 TCAGCTCTAGATATGACAGACAGAC 59.237 44.000 0.00 0.00 0.00 3.51
1506 2625 5.048782 CAGCTCTAGATATGACAGACAGACC 60.049 48.000 0.00 0.00 0.00 3.85
1511 2630 3.645212 AGATATGACAGACAGACCCATGG 59.355 47.826 4.14 4.14 0.00 3.66
1518 2637 2.038952 CAGACAGACCCATGGTTTCAGA 59.961 50.000 11.73 0.00 35.25 3.27
1548 2671 9.866655 TCCTAGATTTATTTATGGCAAATCTGT 57.133 29.630 16.34 0.00 44.60 3.41
1571 2694 7.237255 TGTCTCTGGTATCTGATCAGTATCAT 58.763 38.462 21.92 10.80 41.29 2.45
1574 2697 9.987726 TCTCTGGTATCTGATCAGTATCATAAT 57.012 33.333 21.92 9.06 41.29 1.28
1582 2729 8.178313 TCTGATCAGTATCATAATTGGTACGT 57.822 34.615 21.92 0.00 43.08 3.57
1584 2731 9.343103 CTGATCAGTATCATAATTGGTACGTAC 57.657 37.037 17.56 17.56 43.08 3.67
1599 2746 3.728076 ACGTACGCCTGATGATTGTAT 57.272 42.857 16.72 0.00 0.00 2.29
1600 2747 3.381045 ACGTACGCCTGATGATTGTATG 58.619 45.455 16.72 0.00 0.00 2.39
1603 2750 4.686091 CGTACGCCTGATGATTGTATGATT 59.314 41.667 0.52 0.00 0.00 2.57
1613 2763 9.521503 CTGATGATTGTATGATTATAGGTACCG 57.478 37.037 6.18 0.00 0.00 4.02
1658 2808 7.276658 CAGGGCGACAATATCTATTCATCTAAC 59.723 40.741 0.00 0.00 0.00 2.34
1673 2823 1.884579 TCTAACGACTCGAGGCAGTTT 59.115 47.619 25.81 15.42 0.00 2.66
1725 2875 4.283722 GGAAGATGTCCTATCGGGTATGTT 59.716 45.833 0.00 0.00 43.98 2.71
1730 2880 4.795469 TGTCCTATCGGGTATGTTGAGTA 58.205 43.478 0.00 0.00 36.25 2.59
1740 2890 4.999311 GGGTATGTTGAGTAAACCGACTTT 59.001 41.667 0.00 0.00 38.06 2.66
1824 2975 9.490379 CTGTACCCTGTTGTAAGATTTATATCC 57.510 37.037 0.00 0.00 0.00 2.59
1850 3001 4.819630 AGTTTAACTTGATTTGGCGTCTGA 59.180 37.500 0.00 0.00 0.00 3.27
2151 3466 5.460646 CAACATAATGAACAGTTGGGTGAC 58.539 41.667 0.00 0.00 38.09 3.67
2261 3578 9.444600 AATATCACAACCGTTCTTTAATACTGT 57.555 29.630 0.00 0.00 0.00 3.55
2325 3644 1.997874 ACCAGGCCATCCTCTGTCC 60.998 63.158 5.01 0.00 41.93 4.02
2330 3649 2.374504 CAGGCCATCCTCTGTCCATTAT 59.625 50.000 5.01 0.00 41.93 1.28
2418 3737 4.570369 GTGGTGGTTTGAACTGGAAAATTG 59.430 41.667 0.00 0.00 0.00 2.32
2469 3788 4.025061 GCTACTGCATTGTCTTGCTGATAG 60.025 45.833 9.78 8.53 42.27 2.08
2487 3806 2.708386 AGTCGTCTTCACACACTAGC 57.292 50.000 0.00 0.00 0.00 3.42
2529 3849 9.173939 GTAAATTCATTTGAATCTCATAAGCCG 57.826 33.333 6.27 0.00 43.41 5.52
2600 3920 1.679977 CACTCAATGTGGGCTGGGG 60.680 63.158 0.00 0.00 42.68 4.96
2615 3935 2.686715 GCTGGGGCCTATCTTGCTTTTA 60.687 50.000 0.84 0.00 0.00 1.52
2624 3944 8.515414 GGGCCTATCTTGCTTTTATTTACTATG 58.485 37.037 0.84 0.00 0.00 2.23
2625 3945 9.067986 GGCCTATCTTGCTTTTATTTACTATGT 57.932 33.333 0.00 0.00 0.00 2.29
2667 3990 8.624776 GCAATTAGCAAATCTAGGATTTAGTGT 58.375 33.333 5.37 0.00 44.79 3.55
2679 4002 6.893020 AGGATTTAGTGTCTAATTCCAGGT 57.107 37.500 21.69 8.09 32.36 4.00
2682 4005 6.352737 GGATTTAGTGTCTAATTCCAGGTCCA 60.353 42.308 17.90 0.00 31.06 4.02
2685 4008 2.027192 GTGTCTAATTCCAGGTCCAGCA 60.027 50.000 0.00 0.00 0.00 4.41
2697 4020 4.764823 CCAGGTCCAGCAACTAATTTGTTA 59.235 41.667 4.94 0.00 37.54 2.41
2698 4021 5.242838 CCAGGTCCAGCAACTAATTTGTTAA 59.757 40.000 4.94 0.00 37.54 2.01
2773 4098 2.158667 TCCTCCTTGGAGTTTTGTCACC 60.159 50.000 14.77 0.00 40.56 4.02
2942 4277 5.158494 CCTTTTCTGCACGTTAATTTACCC 58.842 41.667 0.00 0.00 0.00 3.69
2945 4280 5.616488 TTCTGCACGTTAATTTACCCTTC 57.384 39.130 0.00 0.00 0.00 3.46
2957 4293 1.455248 TACCCTTCGCCATTTTTCCG 58.545 50.000 0.00 0.00 0.00 4.30
2959 4295 1.153842 CCTTCGCCATTTTTCCGCC 60.154 57.895 0.00 0.00 0.00 6.13
2986 4322 4.270834 TCCAAGTCAGAGTATAAGCGACT 58.729 43.478 0.00 0.00 38.55 4.18
3047 4383 6.038936 TGCATCTTGATGTCTACCATTTGATG 59.961 38.462 11.61 0.00 37.58 3.07
3107 4448 4.392047 TCAGCGAATCTATGGCATGATTT 58.608 39.130 19.20 7.98 33.60 2.17
3146 4489 6.762702 TGTCGTAACTTATGGTCTGTGATA 57.237 37.500 0.00 0.00 0.00 2.15
3173 4516 5.697633 TGTAAAGTGAACTAACCCGATGAAC 59.302 40.000 0.00 0.00 0.00 3.18
3423 4767 0.962356 AGTGGGCAAGCTGTGTATGC 60.962 55.000 0.00 0.00 39.33 3.14
3426 4770 3.578456 GCAAGCTGTGTATGCCGT 58.422 55.556 0.00 0.00 34.03 5.68
3427 4771 2.762360 GCAAGCTGTGTATGCCGTA 58.238 52.632 0.00 0.00 34.03 4.02
3428 4772 1.299541 GCAAGCTGTGTATGCCGTAT 58.700 50.000 0.00 0.00 34.03 3.06
3434 4779 1.852280 CTGTGTATGCCGTATGTGTCG 59.148 52.381 0.00 0.00 0.00 4.35
3473 4822 6.274322 TGCATATAGTGGGGGTAAAATTCT 57.726 37.500 0.00 0.00 0.00 2.40
3475 4824 5.048013 GCATATAGTGGGGGTAAAATTCTGC 60.048 44.000 0.00 0.00 0.00 4.26
3481 4830 2.539476 GGGGTAAAATTCTGCATTGCG 58.461 47.619 3.84 0.00 0.00 4.85
3486 4835 5.389411 GGGTAAAATTCTGCATTGCGTTTTC 60.389 40.000 13.43 8.37 0.00 2.29
3507 4856 0.671781 AGGCTGTGTGAAGCATCGTC 60.672 55.000 0.00 0.00 45.43 4.20
3546 4899 9.935682 ATATTTGTATCTAAAATCTGCAACACG 57.064 29.630 0.00 0.00 0.00 4.49
3558 4911 6.887376 ATCTGCAACACGTGTATACTTAAG 57.113 37.500 23.69 12.45 0.00 1.85
3576 4929 3.697619 AAGCACTCCTTGGTAACCTAC 57.302 47.619 0.00 0.00 33.68 3.18
3585 4938 7.070074 CACTCCTTGGTAACCTACTGAGATTAT 59.930 40.741 0.00 0.00 0.00 1.28
3588 4941 6.099845 CCTTGGTAACCTACTGAGATTATGGT 59.900 42.308 0.00 0.00 0.00 3.55
3598 4951 5.748402 ACTGAGATTATGGTCAAGATTGCA 58.252 37.500 0.00 0.00 0.00 4.08
3618 4971 3.056322 GCACCATTGCTCTGGAAATTTCT 60.056 43.478 17.42 0.00 46.17 2.52
3634 5025 6.393720 AAATTTCTGAATTCATTTTCGGCG 57.606 33.333 8.96 0.00 34.44 6.46
3647 5038 2.157834 TTCGGCGTAGTTGTTGATGT 57.842 45.000 6.85 0.00 0.00 3.06
3692 5083 5.241403 TCACCTGAGCCTTTGATAAGAAA 57.759 39.130 0.00 0.00 32.92 2.52
3693 5084 5.248640 TCACCTGAGCCTTTGATAAGAAAG 58.751 41.667 0.00 0.00 32.92 2.62
3733 5125 9.974980 GAAATCTGTAAATAACTGGTTGGAAAA 57.025 29.630 0.00 0.00 31.38 2.29
3736 5128 7.947282 TCTGTAAATAACTGGTTGGAAAAAGG 58.053 34.615 0.00 0.00 0.00 3.11
3739 5131 2.979814 AACTGGTTGGAAAAAGGCAC 57.020 45.000 0.00 0.00 0.00 5.01
3759 5151 2.576191 ACTGCTGGGGCTAACAAGATAA 59.424 45.455 0.00 0.00 39.59 1.75
3761 5153 2.843730 TGCTGGGGCTAACAAGATAAGA 59.156 45.455 0.00 0.00 39.59 2.10
3764 5156 4.336713 GCTGGGGCTAACAAGATAAGAAAG 59.663 45.833 0.00 0.00 35.22 2.62
3765 5157 5.745227 CTGGGGCTAACAAGATAAGAAAGA 58.255 41.667 0.00 0.00 0.00 2.52
3767 5159 6.180472 TGGGGCTAACAAGATAAGAAAGAAG 58.820 40.000 0.00 0.00 0.00 2.85
3768 5160 5.066634 GGGGCTAACAAGATAAGAAAGAAGC 59.933 44.000 0.00 0.00 0.00 3.86
3769 5161 5.220681 GGGCTAACAAGATAAGAAAGAAGCG 60.221 44.000 0.00 0.00 0.00 4.68
3770 5162 5.259380 GCTAACAAGATAAGAAAGAAGCGC 58.741 41.667 0.00 0.00 0.00 5.92
3771 5163 5.064071 GCTAACAAGATAAGAAAGAAGCGCT 59.936 40.000 2.64 2.64 0.00 5.92
3772 5164 5.948992 AACAAGATAAGAAAGAAGCGCTT 57.051 34.783 25.35 25.35 38.88 4.68
3774 5166 6.319141 ACAAGATAAGAAAGAAGCGCTTTT 57.681 33.333 25.84 16.87 46.52 2.27
3775 5167 6.145535 ACAAGATAAGAAAGAAGCGCTTTTG 58.854 36.000 25.84 20.82 46.52 2.44
3776 5168 5.948992 AGATAAGAAAGAAGCGCTTTTGT 57.051 34.783 25.84 14.56 46.52 2.83
3777 5169 6.319141 AGATAAGAAAGAAGCGCTTTTGTT 57.681 33.333 25.84 20.89 46.52 2.83
3778 5170 6.374578 AGATAAGAAAGAAGCGCTTTTGTTC 58.625 36.000 25.84 24.21 46.52 3.18
3779 5171 3.355626 AGAAAGAAGCGCTTTTGTTCC 57.644 42.857 25.84 10.28 46.52 3.62
3780 5172 2.687935 AGAAAGAAGCGCTTTTGTTCCA 59.312 40.909 25.84 0.00 46.52 3.53
3781 5173 3.130340 AGAAAGAAGCGCTTTTGTTCCAA 59.870 39.130 25.84 0.00 46.52 3.53
3782 5174 3.518634 AAGAAGCGCTTTTGTTCCAAA 57.481 38.095 25.84 0.00 31.11 3.28
3783 5175 2.809446 AGAAGCGCTTTTGTTCCAAAC 58.191 42.857 25.84 7.09 0.00 2.93
3784 5176 2.427095 AGAAGCGCTTTTGTTCCAAACT 59.573 40.909 25.84 9.50 0.00 2.66
3785 5177 2.959507 AGCGCTTTTGTTCCAAACTT 57.040 40.000 2.64 0.00 0.00 2.66
3786 5178 4.097286 AGAAGCGCTTTTGTTCCAAACTTA 59.903 37.500 25.84 0.00 0.00 2.24
3787 5179 4.584327 AGCGCTTTTGTTCCAAACTTAT 57.416 36.364 2.64 0.00 0.00 1.73
3788 5180 5.699097 AGCGCTTTTGTTCCAAACTTATA 57.301 34.783 2.64 0.00 0.00 0.98
3789 5181 6.079424 AGCGCTTTTGTTCCAAACTTATAA 57.921 33.333 2.64 0.00 0.00 0.98
3790 5182 6.508777 AGCGCTTTTGTTCCAAACTTATAAA 58.491 32.000 2.64 0.00 0.00 1.40
3791 5183 6.981559 AGCGCTTTTGTTCCAAACTTATAAAA 59.018 30.769 2.64 0.00 0.00 1.52
3792 5184 7.042992 AGCGCTTTTGTTCCAAACTTATAAAAC 60.043 33.333 2.64 0.00 0.00 2.43
3793 5185 7.042992 GCGCTTTTGTTCCAAACTTATAAAACT 60.043 33.333 0.00 0.00 0.00 2.66
3794 5186 8.476925 CGCTTTTGTTCCAAACTTATAAAACTC 58.523 33.333 0.00 0.00 0.00 3.01
3795 5187 8.476925 GCTTTTGTTCCAAACTTATAAAACTCG 58.523 33.333 0.00 0.00 0.00 4.18
3796 5188 9.511144 CTTTTGTTCCAAACTTATAAAACTCGT 57.489 29.630 0.00 0.00 0.00 4.18
3797 5189 9.505995 TTTTGTTCCAAACTTATAAAACTCGTC 57.494 29.630 0.00 0.00 0.00 4.20
3798 5190 8.441312 TTGTTCCAAACTTATAAAACTCGTCT 57.559 30.769 0.00 0.00 0.00 4.18
3799 5191 8.441312 TGTTCCAAACTTATAAAACTCGTCTT 57.559 30.769 0.00 0.00 0.00 3.01
3800 5192 9.545105 TGTTCCAAACTTATAAAACTCGTCTTA 57.455 29.630 0.00 0.00 0.00 2.10
3802 5194 8.767478 TCCAAACTTATAAAACTCGTCTTAGG 57.233 34.615 0.00 0.00 0.00 2.69
3803 5195 8.587608 TCCAAACTTATAAAACTCGTCTTAGGA 58.412 33.333 0.00 0.00 0.00 2.94
3804 5196 8.654215 CCAAACTTATAAAACTCGTCTTAGGAC 58.346 37.037 0.00 0.00 38.97 3.85
3805 5197 9.199982 CAAACTTATAAAACTCGTCTTAGGACA 57.800 33.333 5.77 0.00 42.21 4.02
3806 5198 9.939802 AAACTTATAAAACTCGTCTTAGGACAT 57.060 29.630 5.77 0.00 42.21 3.06
3807 5199 9.939802 AACTTATAAAACTCGTCTTAGGACATT 57.060 29.630 5.77 0.00 42.21 2.71
3812 5204 7.829378 AAAACTCGTCTTAGGACATTATCAC 57.171 36.000 5.77 0.00 42.21 3.06
3813 5205 5.517322 ACTCGTCTTAGGACATTATCACC 57.483 43.478 5.77 0.00 42.21 4.02
3814 5206 4.341520 ACTCGTCTTAGGACATTATCACCC 59.658 45.833 5.77 0.00 42.21 4.61
3815 5207 4.283337 TCGTCTTAGGACATTATCACCCA 58.717 43.478 5.77 0.00 42.21 4.51
3816 5208 4.098960 TCGTCTTAGGACATTATCACCCAC 59.901 45.833 5.77 0.00 42.21 4.61
3817 5209 4.099573 CGTCTTAGGACATTATCACCCACT 59.900 45.833 5.77 0.00 42.21 4.00
3818 5210 5.360591 GTCTTAGGACATTATCACCCACTG 58.639 45.833 0.00 0.00 41.75 3.66
3819 5211 5.128827 GTCTTAGGACATTATCACCCACTGA 59.871 44.000 0.00 0.00 41.75 3.41
3820 5212 5.724370 TCTTAGGACATTATCACCCACTGAA 59.276 40.000 0.00 0.00 30.60 3.02
3821 5213 4.927267 AGGACATTATCACCCACTGAAA 57.073 40.909 0.00 0.00 30.60 2.69
3822 5214 5.456921 AGGACATTATCACCCACTGAAAT 57.543 39.130 0.00 0.00 30.60 2.17
3823 5215 5.195940 AGGACATTATCACCCACTGAAATG 58.804 41.667 0.00 0.00 35.57 2.32
3824 5216 5.044919 AGGACATTATCACCCACTGAAATGA 60.045 40.000 0.00 0.00 34.63 2.57
3825 5217 5.652014 GGACATTATCACCCACTGAAATGAA 59.348 40.000 0.00 0.00 34.63 2.57
3826 5218 6.152661 GGACATTATCACCCACTGAAATGAAA 59.847 38.462 0.00 0.00 34.63 2.69
3827 5219 7.147846 GGACATTATCACCCACTGAAATGAAAT 60.148 37.037 0.00 0.00 34.63 2.17
3828 5220 8.137745 ACATTATCACCCACTGAAATGAAATT 57.862 30.769 0.00 0.00 38.98 1.82
3841 5233 5.416271 AAATGAAATTTGATCTGCCTGCT 57.584 34.783 0.00 0.00 46.55 4.24
3842 5234 4.650754 ATGAAATTTGATCTGCCTGCTC 57.349 40.909 0.00 0.00 0.00 4.26
3843 5235 3.693807 TGAAATTTGATCTGCCTGCTCT 58.306 40.909 0.00 0.00 0.00 4.09
3844 5236 3.693085 TGAAATTTGATCTGCCTGCTCTC 59.307 43.478 0.00 0.00 0.00 3.20
3845 5237 3.361281 AATTTGATCTGCCTGCTCTCA 57.639 42.857 0.00 0.00 0.00 3.27
3846 5238 3.579534 ATTTGATCTGCCTGCTCTCAT 57.420 42.857 0.00 0.00 0.00 2.90
3847 5239 3.361281 TTTGATCTGCCTGCTCTCATT 57.639 42.857 0.00 0.00 0.00 2.57
3848 5240 2.616634 TGATCTGCCTGCTCTCATTC 57.383 50.000 0.00 0.00 0.00 2.67
3849 5241 1.835531 TGATCTGCCTGCTCTCATTCA 59.164 47.619 0.00 0.00 0.00 2.57
3850 5242 2.237893 TGATCTGCCTGCTCTCATTCAA 59.762 45.455 0.00 0.00 0.00 2.69
3851 5243 2.105006 TCTGCCTGCTCTCATTCAAC 57.895 50.000 0.00 0.00 0.00 3.18
3852 5244 0.725686 CTGCCTGCTCTCATTCAACG 59.274 55.000 0.00 0.00 0.00 4.10
3853 5245 1.300971 TGCCTGCTCTCATTCAACGC 61.301 55.000 0.00 0.00 0.00 4.84
3854 5246 1.712081 CCTGCTCTCATTCAACGCG 59.288 57.895 3.53 3.53 0.00 6.01
3855 5247 1.059994 CTGCTCTCATTCAACGCGC 59.940 57.895 5.73 0.00 0.00 6.86
3856 5248 1.357258 CTGCTCTCATTCAACGCGCT 61.357 55.000 5.73 0.00 0.00 5.92
3857 5249 1.059994 GCTCTCATTCAACGCGCTG 59.940 57.895 5.73 3.88 0.00 5.18
3858 5250 1.712081 CTCTCATTCAACGCGCTGG 59.288 57.895 5.73 0.00 0.00 4.85
3859 5251 2.099062 CTCATTCAACGCGCTGGC 59.901 61.111 5.73 0.00 0.00 4.85
3860 5252 2.667874 TCATTCAACGCGCTGGCA 60.668 55.556 5.73 0.00 39.92 4.92
3861 5253 2.186350 CTCATTCAACGCGCTGGCAA 62.186 55.000 5.73 0.00 39.92 4.52
3862 5254 1.153978 CATTCAACGCGCTGGCAAT 60.154 52.632 5.73 0.00 39.92 3.56
3863 5255 0.733566 CATTCAACGCGCTGGCAATT 60.734 50.000 5.73 0.00 39.92 2.32
3864 5256 0.038343 ATTCAACGCGCTGGCAATTT 60.038 45.000 5.73 0.00 39.92 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 46 5.105351 GCTAACAATTAATGGGCTCCAAACT 60.105 40.000 0.00 0.00 36.95 2.66
94 96 0.391597 GACTCTGGACCGGTTGTTGA 59.608 55.000 9.42 4.41 0.00 3.18
107 109 0.036010 AATTCCCGCAGTGGACTCTG 60.036 55.000 0.00 0.00 42.00 3.35
175 212 2.543012 CGGTTGTGCATCTGATCATCTC 59.457 50.000 0.00 0.00 0.00 2.75
243 284 6.591062 CCCCGTTTCGAAAATATCCGATAATA 59.409 38.462 13.10 0.00 34.58 0.98
402 457 2.091541 CGTGACAAATATGGTTGGGCT 58.908 47.619 0.00 0.00 32.50 5.19
424 479 5.767665 TGCCTATTATATCGTGGTTGCATTT 59.232 36.000 0.00 0.00 0.00 2.32
459 514 3.832615 ATCCCCGTAAGTGTTGTATCC 57.167 47.619 0.00 0.00 0.00 2.59
464 519 3.195661 GAGCTAATCCCCGTAAGTGTTG 58.804 50.000 0.00 0.00 0.00 3.33
588 673 0.469331 TCTCTACCTACATGGGGCCG 60.469 60.000 0.00 0.00 41.11 6.13
789 1858 8.425703 GGCTCTATAGGAGAAAGAGTAAAATGT 58.574 37.037 0.00 0.00 44.45 2.71
830 1899 0.467804 GGCTCTCCAGGATTGTCTCC 59.532 60.000 0.00 0.00 45.33 3.71
857 1928 5.278315 CGATGTGGTAGAGAACGATATGGAA 60.278 44.000 0.00 0.00 0.00 3.53
918 2002 9.535170 TTGTTTTTGGTATCATTAGGGTAATCA 57.465 29.630 0.00 0.00 0.00 2.57
935 2019 8.499403 TGGGATTACTTTTCTTTTGTTTTTGG 57.501 30.769 0.00 0.00 0.00 3.28
952 2043 1.270893 GGAGGGCTCGATTGGGATTAC 60.271 57.143 0.00 0.00 0.00 1.89
964 2055 2.770475 GGAAGGGGAGGAGGGCTC 60.770 72.222 0.00 0.00 0.00 4.70
965 2056 4.806339 CGGAAGGGGAGGAGGGCT 62.806 72.222 0.00 0.00 0.00 5.19
1061 2155 0.249073 CATTAGCAGACCGACGGAGG 60.249 60.000 23.38 10.29 37.30 4.30
1152 2258 2.387772 CGAGAGAGAGGGGGAGGGA 61.388 68.421 0.00 0.00 0.00 4.20
1189 2295 3.784338 CAACAAGGATGAGAGAGAGAGC 58.216 50.000 0.00 0.00 0.00 4.09
1502 2621 4.089361 GGAAATTCTGAAACCATGGGTCT 58.911 43.478 18.09 0.00 33.12 3.85
1503 2622 4.089361 AGGAAATTCTGAAACCATGGGTC 58.911 43.478 18.09 13.50 33.12 4.46
1504 2623 4.132122 AGGAAATTCTGAAACCATGGGT 57.868 40.909 18.09 6.57 37.65 4.51
1505 2624 5.509498 TCTAGGAAATTCTGAAACCATGGG 58.491 41.667 18.09 0.00 0.00 4.00
1506 2625 7.651027 AATCTAGGAAATTCTGAAACCATGG 57.349 36.000 11.19 11.19 0.00 3.66
1534 2657 4.574674 ACCAGAGACAGATTTGCCATAA 57.425 40.909 0.00 0.00 0.00 1.90
1535 2658 5.604231 AGATACCAGAGACAGATTTGCCATA 59.396 40.000 0.00 0.00 0.00 2.74
1536 2659 4.411540 AGATACCAGAGACAGATTTGCCAT 59.588 41.667 0.00 0.00 0.00 4.40
1537 2660 3.776969 AGATACCAGAGACAGATTTGCCA 59.223 43.478 0.00 0.00 0.00 4.92
1539 2662 5.016051 TCAGATACCAGAGACAGATTTGC 57.984 43.478 0.00 0.00 0.00 3.68
1540 2663 6.814043 TGATCAGATACCAGAGACAGATTTG 58.186 40.000 0.00 0.00 0.00 2.32
1541 2664 6.610830 ACTGATCAGATACCAGAGACAGATTT 59.389 38.462 29.27 0.00 0.00 2.17
1542 2665 6.135454 ACTGATCAGATACCAGAGACAGATT 58.865 40.000 29.27 0.00 0.00 2.40
1543 2666 5.704354 ACTGATCAGATACCAGAGACAGAT 58.296 41.667 29.27 0.00 0.00 2.90
1544 2667 5.122707 ACTGATCAGATACCAGAGACAGA 57.877 43.478 29.27 0.00 0.00 3.41
1545 2668 6.714356 TGATACTGATCAGATACCAGAGACAG 59.286 42.308 29.27 0.00 37.15 3.51
1546 2669 6.605119 TGATACTGATCAGATACCAGAGACA 58.395 40.000 29.27 10.39 37.15 3.41
1547 2670 7.701539 ATGATACTGATCAGATACCAGAGAC 57.298 40.000 29.27 8.27 45.29 3.36
1548 2671 9.987726 ATTATGATACTGATCAGATACCAGAGA 57.012 33.333 29.27 7.42 45.29 3.10
1571 2694 3.380954 TCATCAGGCGTACGTACCAATTA 59.619 43.478 19.67 3.86 0.00 1.40
1574 2697 1.175654 TCATCAGGCGTACGTACCAA 58.824 50.000 19.67 3.54 0.00 3.67
1575 2698 1.395635 ATCATCAGGCGTACGTACCA 58.604 50.000 19.67 0.00 0.00 3.25
1579 2726 3.067601 TCATACAATCATCAGGCGTACGT 59.932 43.478 17.90 0.00 0.00 3.57
1582 2729 8.197439 CCTATAATCATACAATCATCAGGCGTA 58.803 37.037 0.00 0.00 0.00 4.42
1584 2731 7.044181 ACCTATAATCATACAATCATCAGGCG 58.956 38.462 0.00 0.00 0.00 5.52
1599 2746 3.962063 TGACCTTGCGGTACCTATAATCA 59.038 43.478 10.90 4.08 45.73 2.57
1600 2747 4.595762 TGACCTTGCGGTACCTATAATC 57.404 45.455 10.90 1.40 45.73 1.75
1603 2750 5.417894 CAGATATGACCTTGCGGTACCTATA 59.582 44.000 10.90 0.00 45.73 1.31
1613 2763 1.312815 GCACCCAGATATGACCTTGC 58.687 55.000 0.00 0.00 0.00 4.01
1625 2775 2.535485 TATTGTCGCCCTGCACCCAG 62.535 60.000 0.00 0.00 38.85 4.45
1658 2808 1.009389 GTCCAAACTGCCTCGAGTCG 61.009 60.000 12.31 6.09 0.00 4.18
1740 2890 3.250040 GCTAACGAGGAAGCAAAACAGAA 59.750 43.478 0.00 0.00 38.63 3.02
1824 2975 4.606961 ACGCCAAATCAAGTTAAACTGTG 58.393 39.130 0.00 0.00 0.00 3.66
1893 3193 3.907894 TGCAGTTCAAAATCGGTTACC 57.092 42.857 0.00 0.00 0.00 2.85
1906 3211 7.545362 AGATATAACATGACAGTTGCAGTTC 57.455 36.000 0.00 0.00 33.07 3.01
1988 3293 4.333926 ACTGAAGCACTTGAAACTCTGTTC 59.666 41.667 0.00 0.00 0.00 3.18
2122 3437 3.778265 ACTGTTCATTATGTTGGGCCTT 58.222 40.909 4.53 0.00 0.00 4.35
2151 3466 1.602311 ACCAAAAGCAGAGCACTCAG 58.398 50.000 0.00 0.00 0.00 3.35
2262 3579 9.668497 GACTTCAGTATTCCTGGTAAACTTTAT 57.332 33.333 0.00 0.00 41.83 1.40
2325 3644 6.127647 TGTCCAGCTTAGAAAAAGGCATAATG 60.128 38.462 0.00 0.00 0.00 1.90
2330 3649 3.149196 CTGTCCAGCTTAGAAAAAGGCA 58.851 45.455 0.00 0.00 0.00 4.75
2398 3717 8.432110 AAATACAATTTTCCAGTTCAAACCAC 57.568 30.769 0.00 0.00 0.00 4.16
2469 3788 2.708386 AGCTAGTGTGTGAAGACGAC 57.292 50.000 0.00 0.00 0.00 4.34
2537 3857 6.889177 TCCAACTACCAGATGATGCAAAATAA 59.111 34.615 0.00 0.00 0.00 1.40
2653 3976 7.844779 ACCTGGAATTAGACACTAAATCCTAGA 59.155 37.037 19.60 5.92 0.00 2.43
2657 3980 6.056236 GGACCTGGAATTAGACACTAAATCC 58.944 44.000 14.90 14.90 0.00 3.01
2665 3988 2.265367 TGCTGGACCTGGAATTAGACA 58.735 47.619 0.00 0.00 0.00 3.41
2667 3990 2.912956 AGTTGCTGGACCTGGAATTAGA 59.087 45.455 8.53 0.00 0.00 2.10
2669 3992 4.919774 TTAGTTGCTGGACCTGGAATTA 57.080 40.909 8.53 6.22 0.00 1.40
2679 4002 7.212976 TGCATTTTAACAAATTAGTTGCTGGA 58.787 30.769 0.00 0.00 41.31 3.86
2697 4020 7.808856 GCATTTCACATTTGGTTAATGCATTTT 59.191 29.630 18.75 0.00 46.21 1.82
2698 4021 7.306953 GCATTTCACATTTGGTTAATGCATTT 58.693 30.769 18.75 1.81 46.21 2.32
2852 4185 2.900546 ACCTGTGTCCTACTCCTTTGAG 59.099 50.000 0.00 0.00 44.62 3.02
2897 4230 6.372931 AGGGATGATCGGGAATTTTGAAATA 58.627 36.000 0.00 0.00 0.00 1.40
2898 4231 5.211201 AGGGATGATCGGGAATTTTGAAAT 58.789 37.500 0.00 0.00 0.00 2.17
2942 4277 0.732538 GTGGCGGAAAAATGGCGAAG 60.733 55.000 0.00 0.00 0.00 3.79
2945 4280 2.126110 GGTGGCGGAAAAATGGCG 60.126 61.111 0.00 0.00 0.00 5.69
2957 4293 0.326264 ACTCTGACTTGGATGGTGGC 59.674 55.000 0.00 0.00 0.00 5.01
2959 4295 5.053145 GCTTATACTCTGACTTGGATGGTG 58.947 45.833 0.00 0.00 0.00 4.17
2986 4322 2.355197 CCTGGTTGCATCGTATGAACA 58.645 47.619 0.00 0.00 0.00 3.18
3047 4383 2.802247 GCAAGGACCAAAATTGTGAAGC 59.198 45.455 0.00 0.00 0.00 3.86
3107 4448 2.289010 ACGACATGAGACACAGCAATCA 60.289 45.455 0.00 0.00 0.00 2.57
3146 4489 5.280654 TCGGGTTAGTTCACTTTACAAGT 57.719 39.130 0.00 0.00 44.06 3.16
3173 4516 0.748005 CCATGCCCGGAACTTGTAGG 60.748 60.000 0.73 0.00 0.00 3.18
3206 4549 6.467723 AATACAATCTCAACGTCAAGACAC 57.532 37.500 2.27 0.00 0.00 3.67
3207 4550 8.492748 GTTTAATACAATCTCAACGTCAAGACA 58.507 33.333 2.27 0.00 0.00 3.41
3426 4770 2.238646 AGGCAAAGGAATCCGACACATA 59.761 45.455 0.00 0.00 0.00 2.29
3427 4771 1.004745 AGGCAAAGGAATCCGACACAT 59.995 47.619 0.00 0.00 0.00 3.21
3428 4772 0.400213 AGGCAAAGGAATCCGACACA 59.600 50.000 0.00 0.00 0.00 3.72
3459 4804 2.235898 GCAATGCAGAATTTTACCCCCA 59.764 45.455 0.00 0.00 0.00 4.96
3462 4807 3.230743 ACGCAATGCAGAATTTTACCC 57.769 42.857 5.91 0.00 0.00 3.69
3473 4822 1.006337 GCCTGGAAAACGCAATGCA 60.006 52.632 5.91 0.00 0.00 3.96
3475 4824 0.314935 ACAGCCTGGAAAACGCAATG 59.685 50.000 0.00 0.00 0.00 2.82
3481 4830 1.269257 GCTTCACACAGCCTGGAAAAC 60.269 52.381 0.00 0.00 33.21 2.43
3486 4835 1.642037 CGATGCTTCACACAGCCTGG 61.642 60.000 0.00 0.00 39.25 4.45
3530 4883 7.290857 AGTATACACGTGTTGCAGATTTTAG 57.709 36.000 28.55 0.00 0.00 1.85
3546 4899 5.731591 ACCAAGGAGTGCTTAAGTATACAC 58.268 41.667 5.50 3.73 0.00 2.90
3558 4911 2.565834 TCAGTAGGTTACCAAGGAGTGC 59.434 50.000 3.51 0.00 0.00 4.40
3576 4929 5.008415 GGTGCAATCTTGACCATAATCTCAG 59.992 44.000 0.00 0.00 32.34 3.35
3598 4951 4.410099 TCAGAAATTTCCAGAGCAATGGT 58.590 39.130 14.61 0.00 41.43 3.55
3611 4964 5.925969 ACGCCGAAAATGAATTCAGAAATTT 59.074 32.000 14.54 11.60 35.21 1.82
3618 4971 4.214545 ACAACTACGCCGAAAATGAATTCA 59.785 37.500 11.26 11.26 0.00 2.57
3647 5038 8.567948 GTGAGGAGTTGAAATTAACATTCTGAA 58.432 33.333 0.00 0.00 33.02 3.02
3663 5054 0.689623 AAGGCTCAGGTGAGGAGTTG 59.310 55.000 9.03 0.00 42.29 3.16
3692 5083 6.865834 ACAGATTTCATAGTGAACTCTCCT 57.134 37.500 8.91 0.00 42.21 3.69
3693 5084 9.606631 ATTTACAGATTTCATAGTGAACTCTCC 57.393 33.333 8.91 0.00 42.21 3.71
3721 5113 1.756538 CAGTGCCTTTTTCCAACCAGT 59.243 47.619 0.00 0.00 0.00 4.00
3733 5125 2.538141 TTAGCCCCAGCAGTGCCTT 61.538 57.895 12.58 0.00 43.56 4.35
3736 5128 1.589716 CTTGTTAGCCCCAGCAGTGC 61.590 60.000 7.13 7.13 43.56 4.40
3739 5131 3.118261 TCTTATCTTGTTAGCCCCAGCAG 60.118 47.826 0.00 0.00 43.56 4.24
3740 5132 2.843730 TCTTATCTTGTTAGCCCCAGCA 59.156 45.455 0.00 0.00 43.56 4.41
3759 5151 2.687935 TGGAACAAAAGCGCTTCTTTCT 59.312 40.909 25.24 3.87 43.84 2.52
3774 5166 8.441312 AAGACGAGTTTTATAAGTTTGGAACA 57.559 30.769 0.00 0.00 0.00 3.18
3776 5168 9.211485 CCTAAGACGAGTTTTATAAGTTTGGAA 57.789 33.333 0.00 0.00 0.00 3.53
3777 5169 8.587608 TCCTAAGACGAGTTTTATAAGTTTGGA 58.412 33.333 0.00 0.00 0.00 3.53
3778 5170 8.654215 GTCCTAAGACGAGTTTTATAAGTTTGG 58.346 37.037 0.00 0.00 32.18 3.28
3779 5171 9.199982 TGTCCTAAGACGAGTTTTATAAGTTTG 57.800 33.333 0.00 0.00 46.74 2.93
3780 5172 9.939802 ATGTCCTAAGACGAGTTTTATAAGTTT 57.060 29.630 0.00 0.00 46.74 2.66
3781 5173 9.939802 AATGTCCTAAGACGAGTTTTATAAGTT 57.060 29.630 0.00 0.00 46.74 2.66
3786 5178 9.530633 GTGATAATGTCCTAAGACGAGTTTTAT 57.469 33.333 0.00 0.00 46.74 1.40
3787 5179 7.977853 GGTGATAATGTCCTAAGACGAGTTTTA 59.022 37.037 0.00 0.00 46.74 1.52
3788 5180 6.817140 GGTGATAATGTCCTAAGACGAGTTTT 59.183 38.462 0.00 0.00 46.74 2.43
3789 5181 6.338937 GGTGATAATGTCCTAAGACGAGTTT 58.661 40.000 0.00 0.00 46.74 2.66
3790 5182 5.163437 GGGTGATAATGTCCTAAGACGAGTT 60.163 44.000 0.00 0.00 46.74 3.01
3791 5183 4.341520 GGGTGATAATGTCCTAAGACGAGT 59.658 45.833 0.00 0.00 46.74 4.18
3792 5184 4.341235 TGGGTGATAATGTCCTAAGACGAG 59.659 45.833 0.00 0.00 46.74 4.18
3793 5185 4.098960 GTGGGTGATAATGTCCTAAGACGA 59.901 45.833 0.00 0.00 46.74 4.20
3794 5186 4.099573 AGTGGGTGATAATGTCCTAAGACG 59.900 45.833 0.00 0.00 46.74 4.18
3795 5187 5.128827 TCAGTGGGTGATAATGTCCTAAGAC 59.871 44.000 0.00 0.00 43.83 3.01
3796 5188 5.277250 TCAGTGGGTGATAATGTCCTAAGA 58.723 41.667 0.00 0.00 0.00 2.10
3797 5189 5.614324 TCAGTGGGTGATAATGTCCTAAG 57.386 43.478 0.00 0.00 0.00 2.18
3798 5190 6.381498 TTTCAGTGGGTGATAATGTCCTAA 57.619 37.500 0.00 0.00 34.17 2.69
3799 5191 6.157820 TCATTTCAGTGGGTGATAATGTCCTA 59.842 38.462 0.00 0.00 36.31 2.94
3800 5192 4.927267 TTTCAGTGGGTGATAATGTCCT 57.073 40.909 0.00 0.00 34.17 3.85
3801 5193 5.192927 TCATTTCAGTGGGTGATAATGTCC 58.807 41.667 0.00 0.00 36.31 4.02
3802 5194 6.757897 TTCATTTCAGTGGGTGATAATGTC 57.242 37.500 0.00 0.00 36.31 3.06
3803 5195 7.722949 ATTTCATTTCAGTGGGTGATAATGT 57.277 32.000 0.00 0.00 36.31 2.71
3804 5196 8.875803 CAAATTTCATTTCAGTGGGTGATAATG 58.124 33.333 0.00 0.00 36.27 1.90
3805 5197 8.814931 TCAAATTTCATTTCAGTGGGTGATAAT 58.185 29.630 0.00 0.00 34.17 1.28
3806 5198 8.187913 TCAAATTTCATTTCAGTGGGTGATAA 57.812 30.769 0.00 0.00 34.17 1.75
3807 5199 7.773489 TCAAATTTCATTTCAGTGGGTGATA 57.227 32.000 0.00 0.00 34.17 2.15
3808 5200 6.669125 TCAAATTTCATTTCAGTGGGTGAT 57.331 33.333 0.00 0.00 34.17 3.06
3809 5201 6.494491 AGATCAAATTTCATTTCAGTGGGTGA 59.506 34.615 0.00 0.00 0.00 4.02
3810 5202 6.588756 CAGATCAAATTTCATTTCAGTGGGTG 59.411 38.462 0.00 0.00 0.00 4.61
3811 5203 6.694447 CAGATCAAATTTCATTTCAGTGGGT 58.306 36.000 0.00 0.00 0.00 4.51
3812 5204 5.579511 GCAGATCAAATTTCATTTCAGTGGG 59.420 40.000 0.00 0.00 0.00 4.61
3813 5205 5.579511 GGCAGATCAAATTTCATTTCAGTGG 59.420 40.000 0.00 0.00 0.00 4.00
3814 5206 6.310467 CAGGCAGATCAAATTTCATTTCAGTG 59.690 38.462 0.00 0.00 0.00 3.66
3815 5207 6.395629 CAGGCAGATCAAATTTCATTTCAGT 58.604 36.000 0.00 0.00 0.00 3.41
3816 5208 5.291128 GCAGGCAGATCAAATTTCATTTCAG 59.709 40.000 0.00 0.00 0.00 3.02
3817 5209 5.046878 AGCAGGCAGATCAAATTTCATTTCA 60.047 36.000 0.00 0.00 0.00 2.69
3818 5210 5.416947 AGCAGGCAGATCAAATTTCATTTC 58.583 37.500 0.00 0.00 0.00 2.17
3819 5211 5.187186 AGAGCAGGCAGATCAAATTTCATTT 59.813 36.000 0.00 0.00 34.30 2.32
3820 5212 4.710375 AGAGCAGGCAGATCAAATTTCATT 59.290 37.500 0.00 0.00 34.30 2.57
3821 5213 4.279145 AGAGCAGGCAGATCAAATTTCAT 58.721 39.130 0.00 0.00 34.30 2.57
3822 5214 3.693085 GAGAGCAGGCAGATCAAATTTCA 59.307 43.478 0.00 0.00 34.30 2.69
3823 5215 3.693085 TGAGAGCAGGCAGATCAAATTTC 59.307 43.478 0.00 0.00 34.30 2.17
3824 5216 3.693807 TGAGAGCAGGCAGATCAAATTT 58.306 40.909 0.00 0.00 34.30 1.82
3825 5217 3.361281 TGAGAGCAGGCAGATCAAATT 57.639 42.857 0.00 0.00 34.30 1.82
3826 5218 3.579534 ATGAGAGCAGGCAGATCAAAT 57.420 42.857 0.00 0.00 34.30 2.32
3827 5219 3.276857 GAATGAGAGCAGGCAGATCAAA 58.723 45.455 0.00 0.00 34.30 2.69
3828 5220 2.237893 TGAATGAGAGCAGGCAGATCAA 59.762 45.455 0.00 0.00 34.30 2.57
3829 5221 1.835531 TGAATGAGAGCAGGCAGATCA 59.164 47.619 0.00 0.00 34.30 2.92
3830 5222 2.613133 GTTGAATGAGAGCAGGCAGATC 59.387 50.000 0.00 0.00 0.00 2.75
3831 5223 2.641305 GTTGAATGAGAGCAGGCAGAT 58.359 47.619 0.00 0.00 0.00 2.90
3832 5224 1.673923 CGTTGAATGAGAGCAGGCAGA 60.674 52.381 0.00 0.00 0.00 4.26
3833 5225 0.725686 CGTTGAATGAGAGCAGGCAG 59.274 55.000 0.00 0.00 0.00 4.85
3834 5226 1.300971 GCGTTGAATGAGAGCAGGCA 61.301 55.000 0.00 0.00 0.00 4.75
3835 5227 1.427020 GCGTTGAATGAGAGCAGGC 59.573 57.895 0.00 0.00 0.00 4.85
3836 5228 1.712081 CGCGTTGAATGAGAGCAGG 59.288 57.895 0.00 0.00 0.00 4.85
3837 5229 1.059994 GCGCGTTGAATGAGAGCAG 59.940 57.895 8.43 0.00 0.00 4.24
3838 5230 1.374631 AGCGCGTTGAATGAGAGCA 60.375 52.632 8.43 0.00 33.18 4.26
3839 5231 1.059994 CAGCGCGTTGAATGAGAGC 59.940 57.895 18.92 0.00 0.00 4.09
3840 5232 1.712081 CCAGCGCGTTGAATGAGAG 59.288 57.895 25.28 1.32 0.00 3.20
3841 5233 2.390599 GCCAGCGCGTTGAATGAGA 61.391 57.895 25.28 0.00 0.00 3.27
3842 5234 2.099062 GCCAGCGCGTTGAATGAG 59.901 61.111 25.28 8.16 0.00 2.90
3843 5235 1.585267 ATTGCCAGCGCGTTGAATGA 61.585 50.000 25.28 7.57 38.08 2.57
3844 5236 0.733566 AATTGCCAGCGCGTTGAATG 60.734 50.000 25.28 8.94 38.08 2.67
3845 5237 0.038343 AAATTGCCAGCGCGTTGAAT 60.038 45.000 25.28 13.86 38.08 2.57
3846 5238 1.361993 AAATTGCCAGCGCGTTGAA 59.638 47.368 25.28 12.02 38.08 2.69
3847 5239 3.038280 AAATTGCCAGCGCGTTGA 58.962 50.000 25.28 4.73 38.08 3.18


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

AutoCloner maintained by Alex Coulton.