Multiple sequence alignment - TraesCS3B01G147100

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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 TraesCS3B01G147100 chr3B 100.000 4452 0 0 1 4452 137329901 137325450 0.000000e+00 8222.0
1 TraesCS3B01G147100 chr3B 97.333 75 2 0 4228 4302 137325600 137325526 1.300000e-25 128.0
2 TraesCS3B01G147100 chr3B 97.333 75 2 0 4302 4376 137325674 137325600 1.300000e-25 128.0
3 TraesCS3B01G147100 chr3B 86.813 91 11 1 3798 3888 285272313 285272402 2.830000e-17 100.0
4 TraesCS3B01G147100 chr3A 93.731 2967 102 30 749 3650 104422410 104419463 0.000000e+00 4372.0
5 TraesCS3B01G147100 chr3A 81.935 620 81 16 76 674 104423868 104423259 3.090000e-136 496.0
6 TraesCS3B01G147100 chr3A 90.909 242 18 2 3552 3789 104419463 104419222 5.560000e-84 322.0
7 TraesCS3B01G147100 chr3A 80.315 254 11 10 4057 4302 104418234 104418012 5.960000e-34 156.0
8 TraesCS3B01G147100 chr3A 90.385 104 5 2 4302 4400 104418091 104417988 1.000000e-26 132.0
9 TraesCS3B01G147100 chr3A 80.435 92 13 5 4362 4452 104417981 104417894 1.030000e-06 65.8
10 TraesCS3B01G147100 chr3D 91.957 2499 105 36 698 3118 87932053 87929573 0.000000e+00 3413.0
11 TraesCS3B01G147100 chr3D 91.286 700 41 4 3106 3799 87929553 87928868 0.000000e+00 937.0
12 TraesCS3B01G147100 chr3D 91.297 609 45 5 1 608 87938101 87937500 0.000000e+00 824.0
13 TraesCS3B01G147100 chr3D 89.272 261 11 7 4052 4302 87927324 87927071 1.200000e-80 311.0
14 TraesCS3B01G147100 chr3D 85.795 176 16 5 3890 4056 87928857 87928682 1.270000e-40 178.0
15 TraesCS3B01G147100 chr3D 89.320 103 6 2 4303 4400 87927149 87927047 1.680000e-24 124.0
16 TraesCS3B01G147100 chr3D 83.838 99 15 1 3957 4055 113572236 113572139 4.740000e-15 93.5
17 TraesCS3B01G147100 chr3D 100.000 49 0 0 613 661 87933413 87933365 1.710000e-14 91.6
18 TraesCS3B01G147100 chr3D 92.453 53 2 2 125 176 175543117 175543168 1.720000e-09 75.0
19 TraesCS3B01G147100 chr2A 89.109 101 11 0 3956 4056 492460544 492460644 4.670000e-25 126.0
20 TraesCS3B01G147100 chr2A 87.037 54 6 1 133 186 587740817 587740869 4.810000e-05 60.2
21 TraesCS3B01G147100 chr7D 89.000 100 10 1 3957 4055 467684385 467684286 6.050000e-24 122.0
22 TraesCS3B01G147100 chr2D 88.776 98 10 1 3956 4052 365356459 365356556 7.820000e-23 119.0
23 TraesCS3B01G147100 chr2D 85.263 95 14 0 3961 4055 365357277 365357183 1.020000e-16 99.0
24 TraesCS3B01G147100 chr2D 80.808 99 9 2 125 213 5729566 5729468 7.990000e-08 69.4
25 TraesCS3B01G147100 chr5D 86.538 104 13 1 3953 4056 26473719 26473617 3.640000e-21 113.0
26 TraesCS3B01G147100 chr1D 86.735 98 13 0 3957 4054 491411675 491411578 4.710000e-20 110.0
27 TraesCS3B01G147100 chr6B 85.859 99 14 0 3956 4054 566632156 566632254 6.090000e-19 106.0
28 TraesCS3B01G147100 chr6B 82.051 78 13 1 3798 3875 3867905 3867829 1.030000e-06 65.8
29 TraesCS3B01G147100 chr2B 85.882 85 11 1 3798 3881 228577748 228577664 6.130000e-14 89.8
30 TraesCS3B01G147100 chr5B 84.706 85 11 2 3798 3881 711047773 711047856 2.850000e-12 84.2
31 TraesCS3B01G147100 chr5B 100.000 31 0 0 3808 3838 110128517 110128547 1.730000e-04 58.4
32 TraesCS3B01G147100 chr4A 95.833 48 1 1 130 176 605647125 605647172 4.780000e-10 76.8
33 TraesCS3B01G147100 chrUn 92.157 51 3 1 127 176 82713312 82713362 2.220000e-08 71.3
34 TraesCS3B01G147100 chr7A 92.157 51 3 1 127 176 171555369 171555419 2.220000e-08 71.3
35 TraesCS3B01G147100 chr6D 83.951 81 5 4 134 206 91851890 91851810 2.220000e-08 71.3
36 TraesCS3B01G147100 chr7B 91.489 47 3 1 3846 3891 226183057 226183011 3.720000e-06 63.9
37 TraesCS3B01G147100 chr4B 85.714 63 6 3 3786 3846 468660952 468660891 3.720000e-06 63.9


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 TraesCS3B01G147100 chr3B 137325450 137329901 4451 True 8222.000000 8222 100.000000 1 4452 1 chr3B.!!$R1 4451
1 TraesCS3B01G147100 chr3A 104417894 104423868 5974 True 923.966667 4372 86.285000 76 4452 6 chr3A.!!$R1 4376
2 TraesCS3B01G147100 chr3D 87927047 87933413 6366 True 842.433333 3413 91.271667 613 4400 6 chr3D.!!$R3 3787
3 TraesCS3B01G147100 chr3D 87937500 87938101 601 True 824.000000 824 91.297000 1 608 1 chr3D.!!$R1 607

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
535 543 0.251165 ATCCTGTTGGGTTGGTTCCG 60.251 55.0 0.00 0.00 36.25 4.30 F
983 2842 1.428448 TGAGCTTTCGTTCATCCACG 58.572 50.0 0.00 0.00 41.78 4.94 F
2409 4303 1.826385 GTGGATTTAGTGCACTGGCT 58.174 50.0 29.57 12.83 44.86 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2500 4394 1.134965 AGTGATAGAGACGCCTGCAAC 60.135 52.381 0.00 0.0 0.00 4.17 R
2650 4544 2.760650 CCCATGGCTAGTTCCTTTTTCC 59.239 50.000 6.09 0.0 0.00 3.13 R
3744 5832 0.323629 AAAATCTGCCCTCGACGGAA 59.676 50.000 4.46 0.0 33.16 4.30 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
147 148 5.632034 ACTAAAATGTACTCCCTCCATCC 57.368 43.478 0.00 0.00 0.00 3.51
207 208 5.727434 TCTTACATTTTAAGACGGAGGGAC 58.273 41.667 0.00 0.00 0.00 4.46
357 359 9.553064 GAAAGAAGAAGGAATCTCTATGCAATA 57.447 33.333 0.00 0.00 37.42 1.90
441 447 1.993370 GTCGACGGGAACATCTCTTTG 59.007 52.381 0.00 0.00 0.00 2.77
461 467 1.441738 CACTGAATGCACATCACCGA 58.558 50.000 0.00 0.00 0.00 4.69
466 472 2.884012 TGAATGCACATCACCGAAAGTT 59.116 40.909 0.00 0.00 0.00 2.66
477 485 8.977505 CACATCACCGAAAGTTTTCAAATAAAT 58.022 29.630 5.55 0.00 37.01 1.40
496 504 3.680642 ATTCAGAAAATGCGACCATCG 57.319 42.857 0.00 0.00 43.89 3.84
535 543 0.251165 ATCCTGTTGGGTTGGTTCCG 60.251 55.000 0.00 0.00 36.25 4.30
554 562 3.008157 TCCGCCACAAAACTCTAACCATA 59.992 43.478 0.00 0.00 0.00 2.74
565 573 6.808321 AACTCTAACCATATGAGCTACCAA 57.192 37.500 3.65 0.00 0.00 3.67
566 574 6.808321 ACTCTAACCATATGAGCTACCAAA 57.192 37.500 3.65 0.00 0.00 3.28
567 575 7.380423 ACTCTAACCATATGAGCTACCAAAT 57.620 36.000 3.65 0.00 0.00 2.32
568 576 7.445945 ACTCTAACCATATGAGCTACCAAATC 58.554 38.462 3.65 0.00 0.00 2.17
598 614 6.035866 TGCATTGAAAACAAATAATGGATCGC 59.964 34.615 0.00 0.00 32.59 4.58
667 1740 3.458872 TGGATCACCAAGTCATCGC 57.541 52.632 0.00 0.00 43.91 4.58
677 1750 2.029666 GTCATCGCCCTGATCCCG 59.970 66.667 0.00 0.00 34.13 5.14
678 1751 3.928779 TCATCGCCCTGATCCCGC 61.929 66.667 0.00 0.00 34.13 6.13
684 1757 2.749839 CCCTGATCCCGCGCAAAA 60.750 61.111 8.75 0.00 0.00 2.44
685 1758 2.339556 CCCTGATCCCGCGCAAAAA 61.340 57.895 8.75 0.00 0.00 1.94
830 2683 2.343758 GTCCGAGAAGGCAGTGCA 59.656 61.111 18.61 0.00 40.77 4.57
945 2804 2.278857 CCCGTCCGCAATCTCTCG 60.279 66.667 0.00 0.00 0.00 4.04
983 2842 1.428448 TGAGCTTTCGTTCATCCACG 58.572 50.000 0.00 0.00 41.78 4.94
1010 2869 3.036819 GTTAAACCCTACCGATCTCCCT 58.963 50.000 0.00 0.00 0.00 4.20
1069 2929 1.950630 GCGGTTGCCTGCTGTTTTG 60.951 57.895 0.00 0.00 33.98 2.44
1195 3056 6.438741 ACCTTCATCAGTTCATAGTTCTGAGA 59.561 38.462 0.00 0.00 40.70 3.27
1223 3084 3.859386 CCCATTTATTTTCGCTCAACTGC 59.141 43.478 0.00 0.00 0.00 4.40
1291 3152 5.609533 TCATTGGGACCTAGTAAGCTAAC 57.390 43.478 0.00 0.00 0.00 2.34
1438 3307 7.337689 GCATATCATGTCTAGAGATGAGACTCT 59.662 40.741 29.70 18.83 43.08 3.24
1482 3351 5.473504 ACCAAAAATCCACATGTGTAGAGTC 59.526 40.000 23.79 0.00 0.00 3.36
1483 3352 5.473162 CCAAAAATCCACATGTGTAGAGTCA 59.527 40.000 23.79 0.00 0.00 3.41
1484 3353 6.348786 CCAAAAATCCACATGTGTAGAGTCAG 60.349 42.308 23.79 6.61 0.00 3.51
1485 3354 3.533606 ATCCACATGTGTAGAGTCAGC 57.466 47.619 23.79 0.00 0.00 4.26
1486 3355 2.247358 TCCACATGTGTAGAGTCAGCA 58.753 47.619 23.79 0.00 0.00 4.41
1489 3358 3.118847 CCACATGTGTAGAGTCAGCATCT 60.119 47.826 23.79 0.00 0.00 2.90
1490 3359 3.864003 CACATGTGTAGAGTCAGCATCTG 59.136 47.826 18.03 0.00 0.00 2.90
1492 3361 3.857549 TGTGTAGAGTCAGCATCTGTC 57.142 47.619 0.00 0.00 32.61 3.51
1528 3411 7.987458 GCTATAAGGCAGCCATTATTATGTCTA 59.013 37.037 15.80 0.00 32.68 2.59
1817 3709 2.965831 TCGTTAGCTTCTGGGCATCTAT 59.034 45.455 0.00 0.00 34.17 1.98
1818 3710 3.388024 TCGTTAGCTTCTGGGCATCTATT 59.612 43.478 0.00 0.00 34.17 1.73
1819 3711 3.496130 CGTTAGCTTCTGGGCATCTATTG 59.504 47.826 0.00 0.00 34.17 1.90
1820 3712 4.455606 GTTAGCTTCTGGGCATCTATTGT 58.544 43.478 0.00 0.00 34.17 2.71
1821 3713 3.205784 AGCTTCTGGGCATCTATTGTC 57.794 47.619 0.00 0.00 34.17 3.18
1835 3727 6.753744 GCATCTATTGTCCATTTGTCCTTTTC 59.246 38.462 0.00 0.00 0.00 2.29
1899 3792 7.154656 GCTTCCAATTTATCAAAGAACCAACT 58.845 34.615 0.00 0.00 0.00 3.16
1931 3824 5.628193 CACTATGAGCTTTTGTCAAGCAAAG 59.372 40.000 9.16 3.48 46.40 2.77
1967 3861 5.048852 TGTTGCGATTTTGATCTCATGTTCA 60.049 36.000 0.00 0.00 0.00 3.18
1985 3879 5.788450 TGTTCACACAATGACCTTGTTTTT 58.212 33.333 0.00 0.00 45.98 1.94
1986 3880 6.925211 TGTTCACACAATGACCTTGTTTTTA 58.075 32.000 0.00 0.00 45.98 1.52
2409 4303 1.826385 GTGGATTTAGTGCACTGGCT 58.174 50.000 29.57 12.83 44.86 4.75
2462 4356 2.876581 TCTCAGAACCAGCTGTCAGTA 58.123 47.619 13.81 0.00 37.20 2.74
2500 4394 9.565090 TGAAATCCCTAAATCATATCTTGTCTG 57.435 33.333 0.00 0.00 0.00 3.51
2626 4520 8.777865 TGATGTACTTTCAGTTTTAGATGGAG 57.222 34.615 0.00 0.00 0.00 3.86
2636 4530 7.004086 TCAGTTTTAGATGGAGGACAATTGTT 58.996 34.615 13.36 0.00 0.00 2.83
2647 4541 5.985530 GGAGGACAATTGTTTCAAAAAGGAG 59.014 40.000 13.36 0.00 0.00 3.69
2650 4544 7.267857 AGGACAATTGTTTCAAAAAGGAGAAG 58.732 34.615 13.36 0.00 0.00 2.85
2651 4545 6.479990 GGACAATTGTTTCAAAAAGGAGAAGG 59.520 38.462 13.36 0.00 0.00 3.46
3104 5028 3.042560 GCACCAGGCAAGTGAACC 58.957 61.111 10.68 0.00 43.97 3.62
3120 5076 5.316488 GTGAACCGATCATCACTATTTCG 57.684 43.478 13.29 0.00 42.07 3.46
3173 5129 2.341846 TGGTGGTTGACTTGTTCTCC 57.658 50.000 0.00 0.00 0.00 3.71
3203 5161 4.042934 TCTTCAGAAAGGGGAACTTAAGGG 59.957 45.833 7.53 0.00 38.85 3.95
3274 5232 7.741108 AGTGAAACAAGCTACAGTATGTTAGCT 60.741 37.037 0.00 0.00 46.25 3.32
3309 5267 3.027412 GGATGCTTCCTCTCTGAGTACA 58.973 50.000 11.34 0.00 39.14 2.90
3314 5272 5.077564 TGCTTCCTCTCTGAGTACACTTTA 58.922 41.667 4.32 0.00 0.00 1.85
3321 5279 6.072618 CCTCTCTGAGTACACTTTAACTCGAA 60.073 42.308 4.32 0.00 44.14 3.71
3329 5287 4.945246 ACACTTTAACTCGAAGCTCTTCA 58.055 39.130 9.92 0.00 39.46 3.02
3343 5301 2.481952 GCTCTTCATGTGGTGTTCTGTC 59.518 50.000 0.00 0.00 0.00 3.51
3350 5308 1.740585 TGTGGTGTTCTGTCGTTTTGG 59.259 47.619 0.00 0.00 0.00 3.28
3354 5312 1.721133 GTTCTGTCGTTTTGGCGCG 60.721 57.895 0.00 0.00 0.00 6.86
3368 5326 0.385390 GGCGCGGGATTTTCATCATT 59.615 50.000 8.83 0.00 0.00 2.57
3419 5377 3.057245 GGTTCCAAGAGCATCCAAGTTTC 60.057 47.826 0.00 0.00 33.66 2.78
3448 5406 7.887996 TCATGACAAATAAATGCCACTTTTC 57.112 32.000 0.00 0.00 0.00 2.29
3449 5407 7.440198 TCATGACAAATAAATGCCACTTTTCA 58.560 30.769 0.00 0.00 0.00 2.69
3451 5409 8.723311 CATGACAAATAAATGCCACTTTTCAAT 58.277 29.630 0.00 0.00 0.00 2.57
3452 5410 9.941325 ATGACAAATAAATGCCACTTTTCAATA 57.059 25.926 0.00 0.00 0.00 1.90
3487 5448 7.874016 TGTACGTTGTAATAGTCAGGTGATTTT 59.126 33.333 0.00 0.00 0.00 1.82
3550 5511 7.066525 GCAGTAATAAATGGTTAGGCTGTTACA 59.933 37.037 0.00 0.00 0.00 2.41
3616 5703 4.280436 TGTGTAATCATCCGTTTCCACT 57.720 40.909 0.00 0.00 0.00 4.00
3656 5743 0.114168 AGGCTTGTGGGGTTGCATTA 59.886 50.000 0.00 0.00 0.00 1.90
3732 5820 2.286365 AACCTGCCCAAATCGAAGAA 57.714 45.000 0.00 0.00 43.58 2.52
3733 5821 1.826385 ACCTGCCCAAATCGAAGAAG 58.174 50.000 0.00 0.00 43.58 2.85
3734 5822 1.098050 CCTGCCCAAATCGAAGAAGG 58.902 55.000 0.00 0.00 43.58 3.46
3735 5823 1.614317 CCTGCCCAAATCGAAGAAGGT 60.614 52.381 0.00 0.00 43.58 3.50
3736 5824 2.355716 CCTGCCCAAATCGAAGAAGGTA 60.356 50.000 0.00 0.00 43.58 3.08
3739 5827 2.678336 GCCCAAATCGAAGAAGGTAGTG 59.322 50.000 0.00 0.00 43.58 2.74
3741 5829 2.678336 CCAAATCGAAGAAGGTAGTGGC 59.322 50.000 0.00 0.00 43.58 5.01
3744 5832 1.471119 TCGAAGAAGGTAGTGGCGAT 58.529 50.000 0.00 0.00 0.00 4.58
3745 5833 1.822990 TCGAAGAAGGTAGTGGCGATT 59.177 47.619 0.00 0.00 0.00 3.34
3746 5834 2.159282 TCGAAGAAGGTAGTGGCGATTC 60.159 50.000 0.00 0.00 0.00 2.52
3769 5860 1.631388 TCGAGGGCAGATTTTGGGTTA 59.369 47.619 0.00 0.00 0.00 2.85
3803 5894 8.738645 AATCAAAACAGATGAGTAATACTCCC 57.261 34.615 16.89 9.34 44.44 4.30
3804 5895 6.650120 TCAAAACAGATGAGTAATACTCCCC 58.350 40.000 16.89 9.02 44.44 4.81
3805 5896 5.632034 AAACAGATGAGTAATACTCCCCC 57.368 43.478 16.89 6.79 44.44 5.40
3806 5897 3.231818 ACAGATGAGTAATACTCCCCCG 58.768 50.000 16.89 6.69 44.44 5.73
3807 5898 2.563179 CAGATGAGTAATACTCCCCCGG 59.437 54.545 16.89 0.00 44.44 5.73
3808 5899 2.179424 AGATGAGTAATACTCCCCCGGT 59.821 50.000 16.89 0.00 44.44 5.28
3809 5900 2.077687 TGAGTAATACTCCCCCGGTC 57.922 55.000 16.89 0.00 44.44 4.79
3810 5901 1.572415 TGAGTAATACTCCCCCGGTCT 59.428 52.381 16.89 0.00 44.44 3.85
3811 5902 2.237643 GAGTAATACTCCCCCGGTCTC 58.762 57.143 9.19 0.00 39.28 3.36
3812 5903 1.572415 AGTAATACTCCCCCGGTCTCA 59.428 52.381 0.00 0.00 0.00 3.27
3813 5904 2.179424 AGTAATACTCCCCCGGTCTCAT 59.821 50.000 0.00 0.00 0.00 2.90
3814 5905 3.400322 AGTAATACTCCCCCGGTCTCATA 59.600 47.826 0.00 0.00 0.00 2.15
3815 5906 3.339713 AATACTCCCCCGGTCTCATAA 57.660 47.619 0.00 0.00 0.00 1.90
3816 5907 3.562108 ATACTCCCCCGGTCTCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
3817 5908 1.424638 ACTCCCCCGGTCTCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
3818 5909 1.344087 ACTCCCCCGGTCTCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
3819 5910 2.090943 ACTCCCCCGGTCTCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
3820 5911 2.969950 CTCCCCCGGTCTCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
3821 5912 2.969950 TCCCCCGGTCTCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
3822 5913 2.969950 CCCCCGGTCTCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
3823 5914 3.244112 CCCCCGGTCTCATAATGTAAGAC 60.244 52.174 0.00 0.00 38.94 3.01
3824 5915 3.552273 CCCCGGTCTCATAATGTAAGACG 60.552 52.174 0.00 0.00 40.25 4.18
3825 5916 3.067742 CCCGGTCTCATAATGTAAGACGT 59.932 47.826 0.00 0.00 40.25 4.34
3826 5917 4.441079 CCCGGTCTCATAATGTAAGACGTT 60.441 45.833 0.00 0.00 40.25 3.99
3827 5918 5.107133 CCGGTCTCATAATGTAAGACGTTT 58.893 41.667 0.00 0.00 40.25 3.60
3828 5919 5.579511 CCGGTCTCATAATGTAAGACGTTTT 59.420 40.000 0.00 0.00 40.25 2.43
3829 5920 6.091713 CCGGTCTCATAATGTAAGACGTTTTT 59.908 38.462 0.00 0.00 40.25 1.94
3830 5921 7.276218 CCGGTCTCATAATGTAAGACGTTTTTA 59.724 37.037 0.00 0.00 40.25 1.52
3831 5922 8.649841 CGGTCTCATAATGTAAGACGTTTTTAA 58.350 33.333 0.00 0.00 40.25 1.52
3832 5923 9.750882 GGTCTCATAATGTAAGACGTTTTTAAC 57.249 33.333 0.00 0.00 40.25 2.01
3839 5930 6.201556 TGTAAGACGTTTTTAACACTAGCG 57.798 37.500 0.00 0.00 0.00 4.26
3840 5931 5.748152 TGTAAGACGTTTTTAACACTAGCGT 59.252 36.000 0.00 0.00 0.00 5.07
3841 5932 6.915300 TGTAAGACGTTTTTAACACTAGCGTA 59.085 34.615 0.00 0.00 0.00 4.42
3842 5933 6.443876 AAGACGTTTTTAACACTAGCGTAG 57.556 37.500 0.00 0.00 0.00 3.51
3843 5934 5.523369 AGACGTTTTTAACACTAGCGTAGT 58.477 37.500 0.00 0.00 40.28 2.73
3844 5935 6.668323 AGACGTTTTTAACACTAGCGTAGTA 58.332 36.000 0.00 0.00 37.23 1.82
3845 5936 7.308435 AGACGTTTTTAACACTAGCGTAGTAT 58.692 34.615 0.00 0.00 37.23 2.12
3846 5937 7.483059 AGACGTTTTTAACACTAGCGTAGTATC 59.517 37.037 0.00 0.00 37.23 2.24
3847 5938 7.083858 ACGTTTTTAACACTAGCGTAGTATCA 58.916 34.615 0.00 0.00 37.23 2.15
3848 5939 7.594758 ACGTTTTTAACACTAGCGTAGTATCAA 59.405 33.333 0.00 0.00 37.23 2.57
3849 5940 8.427012 CGTTTTTAACACTAGCGTAGTATCAAA 58.573 33.333 0.00 0.00 37.23 2.69
3875 5966 6.119240 ATGTCATACATTATGGGACAGAGG 57.881 41.667 16.89 0.00 37.35 3.69
3876 5967 5.013495 ATGTCATACATTATGGGACAGAGGG 59.987 44.000 16.89 0.00 37.35 4.30
3877 5968 7.156848 ATGTCATACATTATGGGACAGAGGGA 61.157 42.308 16.89 0.14 37.35 4.20
3878 5969 8.894248 ATGTCATACATTATGGGACAGAGGGAG 61.894 44.444 16.89 0.00 37.35 4.30
3885 5976 2.537143 TGGGACAGAGGGAGTAACTTC 58.463 52.381 0.00 0.00 0.00 3.01
3932 6025 2.905415 TGTGAAAATGCCCCAGATCT 57.095 45.000 0.00 0.00 0.00 2.75
3964 6057 9.965902 AAAGGATCAACAACAATAGAGATAAGT 57.034 29.630 0.00 0.00 0.00 2.24
3965 6058 9.606631 AAGGATCAACAACAATAGAGATAAGTC 57.393 33.333 0.00 0.00 0.00 3.01
3986 6079 7.598759 AGTCCATATTACAACCTCGAACTAT 57.401 36.000 0.00 0.00 0.00 2.12
4002 6095 7.813148 CCTCGAACTATCACTGAAGTCTAAAAA 59.187 37.037 0.00 0.00 0.00 1.94
4023 6123 1.591158 ACAACTGTGAACTACGCAACG 59.409 47.619 0.00 0.00 38.59 4.10
4032 6132 4.498323 GTGAACTACGCAACGGTCTAATAG 59.502 45.833 0.00 0.00 0.00 1.73
4043 6143 4.091549 ACGGTCTAATAGACAACCCTCAA 58.908 43.478 20.57 0.00 46.79 3.02
4047 6147 6.473758 GGTCTAATAGACAACCCTCAACTTT 58.526 40.000 20.57 0.00 46.79 2.66
4063 7622 5.546526 TCAACTTTCAAAACCAAAACAGCT 58.453 33.333 0.00 0.00 0.00 4.24
4106 7665 5.273674 TCAGCAAATGTCATCCACAAAAA 57.726 34.783 0.00 0.00 38.97 1.94
4154 7714 5.598005 TGAAATGTGAAAACTGAACCAGGAT 59.402 36.000 0.00 0.00 35.51 3.24
4200 7762 4.388577 AACAACTCCTTATGCCCTCTTT 57.611 40.909 0.00 0.00 0.00 2.52
4257 7822 5.861787 GTGTTTCTTGTTGCACTGTAACTTT 59.138 36.000 10.83 0.00 0.00 2.66
4280 7847 3.034635 ACTCTGCTATGTAACCCTCCTG 58.965 50.000 0.00 0.00 0.00 3.86
4281 7848 2.366916 CTCTGCTATGTAACCCTCCTGG 59.633 54.545 0.00 0.00 41.37 4.45
4282 7849 2.023404 TCTGCTATGTAACCCTCCTGGA 60.023 50.000 0.00 0.00 38.00 3.86
4283 7850 2.975489 CTGCTATGTAACCCTCCTGGAT 59.025 50.000 0.00 0.00 38.00 3.41
4284 7851 3.392616 CTGCTATGTAACCCTCCTGGATT 59.607 47.826 0.00 0.00 38.00 3.01
4285 7852 3.391296 TGCTATGTAACCCTCCTGGATTC 59.609 47.826 0.00 0.00 38.00 2.52
4286 7853 3.555168 GCTATGTAACCCTCCTGGATTCG 60.555 52.174 0.00 0.00 38.00 3.34
4287 7854 0.539986 TGTAACCCTCCTGGATTCGC 59.460 55.000 0.00 0.00 38.00 4.70
4288 7855 0.831307 GTAACCCTCCTGGATTCGCT 59.169 55.000 0.00 0.00 38.00 4.93
4289 7856 2.037144 GTAACCCTCCTGGATTCGCTA 58.963 52.381 0.00 0.00 38.00 4.26
4290 7857 1.807814 AACCCTCCTGGATTCGCTAT 58.192 50.000 0.00 0.00 38.00 2.97
4291 7858 1.343069 ACCCTCCTGGATTCGCTATC 58.657 55.000 0.00 0.00 38.00 2.08
4292 7859 1.342074 CCCTCCTGGATTCGCTATCA 58.658 55.000 0.00 0.00 34.77 2.15
4293 7860 1.694150 CCCTCCTGGATTCGCTATCAA 59.306 52.381 0.00 0.00 34.77 2.57
4294 7861 2.548920 CCCTCCTGGATTCGCTATCAAC 60.549 54.545 0.00 0.00 34.77 3.18
4295 7862 2.103094 CCTCCTGGATTCGCTATCAACA 59.897 50.000 0.00 0.00 34.77 3.33
4296 7863 3.432186 CCTCCTGGATTCGCTATCAACAA 60.432 47.826 0.00 0.00 34.77 2.83
4297 7864 4.384056 CTCCTGGATTCGCTATCAACAAT 58.616 43.478 0.00 0.00 34.77 2.71
4298 7865 4.129380 TCCTGGATTCGCTATCAACAATG 58.871 43.478 0.00 0.00 34.77 2.82
4299 7866 3.879295 CCTGGATTCGCTATCAACAATGT 59.121 43.478 0.00 0.00 34.77 2.71
4300 7867 5.056480 CCTGGATTCGCTATCAACAATGTA 58.944 41.667 0.00 0.00 34.77 2.29
4301 7868 5.527214 CCTGGATTCGCTATCAACAATGTAA 59.473 40.000 0.00 0.00 34.77 2.41
4302 7869 6.205464 CCTGGATTCGCTATCAACAATGTAAT 59.795 38.462 0.00 0.00 34.77 1.89
4303 7870 7.387673 CCTGGATTCGCTATCAACAATGTAATA 59.612 37.037 0.00 0.00 34.77 0.98
4304 7871 8.310406 TGGATTCGCTATCAACAATGTAATAG 57.690 34.615 9.90 9.90 34.77 1.73
4305 7872 7.931407 TGGATTCGCTATCAACAATGTAATAGT 59.069 33.333 13.68 0.00 34.77 2.12
4306 7873 9.419297 GGATTCGCTATCAACAATGTAATAGTA 57.581 33.333 13.68 4.41 34.77 1.82
4308 7875 9.982651 ATTCGCTATCAACAATGTAATAGTAGT 57.017 29.630 13.68 2.43 0.00 2.73
4309 7876 8.797266 TCGCTATCAACAATGTAATAGTAGTG 57.203 34.615 13.68 7.51 0.00 2.74
4310 7877 8.410912 TCGCTATCAACAATGTAATAGTAGTGT 58.589 33.333 13.68 0.00 0.00 3.55
4311 7878 9.031360 CGCTATCAACAATGTAATAGTAGTGTT 57.969 33.333 13.68 0.00 0.00 3.32
4320 7887 9.329913 CAATGTAATAGTAGTGTTTCTTGTTGC 57.670 33.333 0.00 0.00 0.00 4.17
4321 7888 8.615878 ATGTAATAGTAGTGTTTCTTGTTGCA 57.384 30.769 0.00 0.00 0.00 4.08
4322 7889 7.857569 TGTAATAGTAGTGTTTCTTGTTGCAC 58.142 34.615 0.00 0.00 0.00 4.57
4323 7890 7.713507 TGTAATAGTAGTGTTTCTTGTTGCACT 59.286 33.333 0.00 0.00 43.55 4.40
4324 7891 4.882671 AGTAGTGTTTCTTGTTGCACTG 57.117 40.909 6.33 0.00 41.58 3.66
4325 7892 4.261801 AGTAGTGTTTCTTGTTGCACTGT 58.738 39.130 6.33 0.00 41.58 3.55
4326 7893 5.424757 AGTAGTGTTTCTTGTTGCACTGTA 58.575 37.500 6.33 0.00 41.58 2.74
4327 7894 5.878116 AGTAGTGTTTCTTGTTGCACTGTAA 59.122 36.000 6.33 0.00 41.58 2.41
4328 7895 4.981794 AGTGTTTCTTGTTGCACTGTAAC 58.018 39.130 3.21 3.21 40.24 2.50
4329 7896 4.700213 AGTGTTTCTTGTTGCACTGTAACT 59.300 37.500 10.83 0.00 40.24 2.24
4330 7897 5.183140 AGTGTTTCTTGTTGCACTGTAACTT 59.817 36.000 10.83 0.00 40.24 2.66
4331 7898 5.861787 GTGTTTCTTGTTGCACTGTAACTTT 59.138 36.000 10.83 0.00 0.00 2.66
4332 7899 5.861251 TGTTTCTTGTTGCACTGTAACTTTG 59.139 36.000 10.83 2.56 0.00 2.77
4333 7900 5.888691 TTCTTGTTGCACTGTAACTTTGA 57.111 34.783 10.83 4.49 0.00 2.69
4334 7901 5.229921 TCTTGTTGCACTGTAACTTTGAC 57.770 39.130 10.83 0.00 0.00 3.18
4335 7902 4.941263 TCTTGTTGCACTGTAACTTTGACT 59.059 37.500 10.83 0.00 0.00 3.41
4336 7903 4.875544 TGTTGCACTGTAACTTTGACTC 57.124 40.909 10.83 0.00 0.00 3.36
4337 7904 4.513442 TGTTGCACTGTAACTTTGACTCT 58.487 39.130 10.83 0.00 0.00 3.24
4338 7905 4.332543 TGTTGCACTGTAACTTTGACTCTG 59.667 41.667 10.83 0.00 0.00 3.35
4339 7906 2.872245 TGCACTGTAACTTTGACTCTGC 59.128 45.455 0.00 0.00 0.00 4.26
4340 7907 3.134458 GCACTGTAACTTTGACTCTGCT 58.866 45.455 0.00 0.00 0.00 4.24
4341 7908 4.202212 TGCACTGTAACTTTGACTCTGCTA 60.202 41.667 0.00 0.00 0.00 3.49
4342 7909 4.932200 GCACTGTAACTTTGACTCTGCTAT 59.068 41.667 0.00 0.00 0.00 2.97
4343 7910 5.163913 GCACTGTAACTTTGACTCTGCTATG 60.164 44.000 0.00 0.00 0.00 2.23
4344 7911 5.928839 CACTGTAACTTTGACTCTGCTATGT 59.071 40.000 0.00 0.00 0.00 2.29
4345 7912 7.090808 CACTGTAACTTTGACTCTGCTATGTA 58.909 38.462 0.00 0.00 0.00 2.29
4346 7913 7.598869 CACTGTAACTTTGACTCTGCTATGTAA 59.401 37.037 0.00 0.00 0.00 2.41
4347 7914 7.599245 ACTGTAACTTTGACTCTGCTATGTAAC 59.401 37.037 0.00 0.00 0.00 2.50
4348 7915 6.872020 TGTAACTTTGACTCTGCTATGTAACC 59.128 38.462 0.00 0.00 0.00 2.85
4349 7916 5.483685 ACTTTGACTCTGCTATGTAACCA 57.516 39.130 0.00 0.00 0.00 3.67
4350 7917 6.054860 ACTTTGACTCTGCTATGTAACCAT 57.945 37.500 0.00 0.00 34.97 3.55
4351 7918 6.109359 ACTTTGACTCTGCTATGTAACCATC 58.891 40.000 0.00 0.00 32.29 3.51
4352 7919 4.672587 TGACTCTGCTATGTAACCATCC 57.327 45.455 0.00 0.00 32.29 3.51
4353 7920 4.290093 TGACTCTGCTATGTAACCATCCT 58.710 43.478 0.00 0.00 32.29 3.24
4354 7921 4.100035 TGACTCTGCTATGTAACCATCCTG 59.900 45.833 0.00 0.00 32.29 3.86
4355 7922 3.389329 ACTCTGCTATGTAACCATCCTGG 59.611 47.826 0.00 0.00 45.02 4.45
4356 7923 3.643320 CTCTGCTATGTAACCATCCTGGA 59.357 47.826 0.00 0.00 40.96 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
195 196 5.360429 GTCTAAAAGATAGTCCCTCCGTCTT 59.640 44.000 0.00 0.00 0.00 3.01
202 203 8.068733 AGATAACCAGTCTAAAAGATAGTCCCT 58.931 37.037 0.00 0.00 0.00 4.20
270 271 8.713708 TTGGAAGATGTAAAAAGGGTAATTGA 57.286 30.769 0.00 0.00 0.00 2.57
299 301 1.349627 GTTGCATGTCGCTCCATCG 59.650 57.895 0.00 0.00 43.06 3.84
309 311 1.518325 TCGAATCAACCGTTGCATGT 58.482 45.000 6.37 0.00 0.00 3.21
409 415 2.559668 TCCCGTCGACTACAAAGACATT 59.440 45.455 14.70 0.00 34.80 2.71
411 417 1.608055 TCCCGTCGACTACAAAGACA 58.392 50.000 14.70 0.00 34.80 3.41
426 432 1.466167 CAGTGCAAAGAGATGTTCCCG 59.534 52.381 0.00 0.00 0.00 5.14
466 472 8.707839 GGTCGCATTTTCTGAATTTATTTGAAA 58.292 29.630 0.00 0.00 0.00 2.69
477 485 1.737236 CCGATGGTCGCATTTTCTGAA 59.263 47.619 0.00 0.00 38.82 3.02
535 543 5.449177 GCTCATATGGTTAGAGTTTTGTGGC 60.449 44.000 2.13 0.00 0.00 5.01
544 552 7.445121 TGATTTGGTAGCTCATATGGTTAGAG 58.555 38.462 2.13 0.00 0.00 2.43
554 562 4.081406 TGCAAACTGATTTGGTAGCTCAT 58.919 39.130 0.00 0.00 44.64 2.90
567 575 8.557864 CCATTATTTGTTTTCAATGCAAACTGA 58.442 29.630 9.62 0.00 39.70 3.41
568 576 8.557864 TCCATTATTTGTTTTCAATGCAAACTG 58.442 29.630 9.62 0.00 39.70 3.16
598 614 3.009301 GGAGTACAACCGACCGATATG 57.991 52.381 0.00 0.00 0.00 1.78
667 1740 2.339556 TTTTTGCGCGGGATCAGGG 61.340 57.895 8.83 0.00 0.00 4.45
844 2703 3.171388 CCGGGGGATTGAGGAGGG 61.171 72.222 0.00 0.00 0.00 4.30
945 2804 0.252197 ATACCTCGAAACCCAGTGGC 59.748 55.000 2.61 0.00 33.59 5.01
983 2842 6.416631 AGATCGGTAGGGTTTAACTAATCC 57.583 41.667 0.00 0.00 37.27 3.01
1010 2869 4.563580 GGATCTAGATGCGCCCAGAAATTA 60.564 45.833 10.74 0.00 0.00 1.40
1195 3056 6.293004 TGAGCGAAAATAAATGGGGAAAAT 57.707 33.333 0.00 0.00 0.00 1.82
1291 3152 2.144482 ACTGTAAACGAGTGAACCGG 57.856 50.000 0.00 0.00 0.00 5.28
1408 3277 8.868103 TCTCATCTCTAGACATGATATGCTTTT 58.132 33.333 10.67 0.00 0.00 2.27
1438 3307 8.469147 TTTTGGTTAAAATATATGGGGCCACCA 61.469 37.037 14.47 14.47 41.21 4.17
1528 3411 7.618019 TGGTAGAGAACTATAGCATCCATTT 57.382 36.000 0.00 0.00 30.97 2.32
1817 3709 2.955660 AGCGAAAAGGACAAATGGACAA 59.044 40.909 0.00 0.00 0.00 3.18
1818 3710 2.552315 GAGCGAAAAGGACAAATGGACA 59.448 45.455 0.00 0.00 0.00 4.02
1819 3711 2.814336 AGAGCGAAAAGGACAAATGGAC 59.186 45.455 0.00 0.00 0.00 4.02
1820 3712 2.813754 CAGAGCGAAAAGGACAAATGGA 59.186 45.455 0.00 0.00 0.00 3.41
1821 3713 2.554032 ACAGAGCGAAAAGGACAAATGG 59.446 45.455 0.00 0.00 0.00 3.16
1822 3714 3.558505 CACAGAGCGAAAAGGACAAATG 58.441 45.455 0.00 0.00 0.00 2.32
1823 3715 2.030805 GCACAGAGCGAAAAGGACAAAT 60.031 45.455 0.00 0.00 0.00 2.32
1824 3716 1.333619 GCACAGAGCGAAAAGGACAAA 59.666 47.619 0.00 0.00 0.00 2.83
1899 3792 6.206438 TGACAAAAGCTCATAGTGCAACATTA 59.794 34.615 0.00 0.00 41.43 1.90
1948 3842 5.930405 TGTGTGAACATGAGATCAAAATCG 58.070 37.500 0.00 0.00 36.97 3.34
1985 3879 6.038161 CGGTCTGCTTTTCCAATTATCATGTA 59.962 38.462 0.00 0.00 0.00 2.29
1986 3880 5.163622 CGGTCTGCTTTTCCAATTATCATGT 60.164 40.000 0.00 0.00 0.00 3.21
1995 3889 1.305201 GACACGGTCTGCTTTTCCAA 58.695 50.000 0.00 0.00 0.00 3.53
2237 4131 5.900425 TCATGCCATGCGTATTTTTGTTAT 58.100 33.333 0.00 0.00 0.00 1.89
2328 4222 4.041444 ACTGGATTCTCCTTGATATCCTGC 59.959 45.833 0.00 0.00 37.46 4.85
2409 4303 4.385199 CCATATTGCTGGAGGACCTTAACA 60.385 45.833 0.00 0.00 38.69 2.41
2462 4356 3.782992 AGGGATTTCAGAGGCACAATTT 58.217 40.909 0.00 0.00 0.00 1.82
2500 4394 1.134965 AGTGATAGAGACGCCTGCAAC 60.135 52.381 0.00 0.00 0.00 4.17
2537 4431 6.815089 ACACTCTCCTTGAGCTTCATATTAG 58.185 40.000 0.00 0.00 46.41 1.73
2626 4520 6.479990 CCTTCTCCTTTTTGAAACAATTGTCC 59.520 38.462 12.39 7.71 0.00 4.02
2636 4530 7.180229 AGTTCCTTTTTCCTTCTCCTTTTTGAA 59.820 33.333 0.00 0.00 0.00 2.69
2647 4541 4.158579 CCATGGCTAGTTCCTTTTTCCTTC 59.841 45.833 0.00 0.00 0.00 3.46
2650 4544 2.760650 CCCATGGCTAGTTCCTTTTTCC 59.239 50.000 6.09 0.00 0.00 3.13
2651 4545 3.697166 TCCCATGGCTAGTTCCTTTTTC 58.303 45.455 6.09 0.00 0.00 2.29
2900 4824 4.037803 CCATTTGTCATTTCCGCCATGATA 59.962 41.667 0.00 0.00 33.22 2.15
3104 5028 4.504097 TGCTGAACGAAATAGTGATGATCG 59.496 41.667 0.00 0.00 39.30 3.69
3120 5076 2.636830 AGCTGGATACACATGCTGAAC 58.363 47.619 0.00 0.00 46.17 3.18
3173 5129 6.820335 AGTTCCCCTTTCTGAAGAAAATTTG 58.180 36.000 6.92 0.00 42.72 2.32
3203 5161 2.550606 TGTGCGGAATCACCAAGTAAAC 59.449 45.455 0.00 0.00 38.90 2.01
3309 5267 5.406780 CACATGAAGAGCTTCGAGTTAAAGT 59.593 40.000 0.00 0.00 42.28 2.66
3314 5272 2.037772 ACCACATGAAGAGCTTCGAGTT 59.962 45.455 0.00 0.00 42.28 3.01
3321 5279 2.105477 ACAGAACACCACATGAAGAGCT 59.895 45.455 0.00 0.00 0.00 4.09
3329 5287 2.357637 CCAAAACGACAGAACACCACAT 59.642 45.455 0.00 0.00 0.00 3.21
3343 5301 1.341369 GAAAATCCCGCGCCAAAACG 61.341 55.000 0.00 0.00 0.00 3.60
3350 5308 1.202290 ACAATGATGAAAATCCCGCGC 60.202 47.619 0.00 0.00 0.00 6.86
3354 5312 3.934579 GGCAACACAATGATGAAAATCCC 59.065 43.478 0.00 0.00 0.00 3.85
3368 5326 1.252215 CCATCATGGCTGGCAACACA 61.252 55.000 8.35 0.00 46.17 3.72
3419 5377 5.062058 GTGGCATTTATTTGTCATGAAACGG 59.938 40.000 0.00 0.00 33.09 4.44
3487 5448 7.582719 AGCCCAAAGTATATAGAATCCAAACA 58.417 34.615 0.00 0.00 0.00 2.83
3656 5743 8.375506 TTACACAGGTAAGTTCTGAATTCAGAT 58.624 33.333 33.02 22.77 41.92 2.90
3732 5820 1.814527 GACGGAATCGCCACTACCT 59.185 57.895 0.00 0.00 40.63 3.08
3733 5821 1.588139 CGACGGAATCGCCACTACC 60.588 63.158 0.00 0.00 45.52 3.18
3734 5822 3.993103 CGACGGAATCGCCACTAC 58.007 61.111 0.00 0.00 45.52 2.73
3744 5832 0.323629 AAAATCTGCCCTCGACGGAA 59.676 50.000 4.46 0.00 33.16 4.30
3745 5833 0.391130 CAAAATCTGCCCTCGACGGA 60.391 55.000 4.46 0.00 33.16 4.69
3746 5834 1.369091 CCAAAATCTGCCCTCGACGG 61.369 60.000 0.00 0.00 0.00 4.79
3792 5883 1.572415 TGAGACCGGGGGAGTATTACT 59.428 52.381 6.32 0.00 0.00 2.24
3799 5890 1.424638 ACATTATGAGACCGGGGGAG 58.575 55.000 6.32 0.00 0.00 4.30
3801 5892 2.969950 TCTTACATTATGAGACCGGGGG 59.030 50.000 6.32 0.00 0.00 5.40
3802 5893 3.552273 CGTCTTACATTATGAGACCGGGG 60.552 52.174 6.32 0.00 40.13 5.73
3803 5894 3.067742 ACGTCTTACATTATGAGACCGGG 59.932 47.826 6.32 0.00 40.13 5.73
3804 5895 4.303086 ACGTCTTACATTATGAGACCGG 57.697 45.455 0.00 0.00 40.13 5.28
3805 5896 6.642683 AAAACGTCTTACATTATGAGACCG 57.357 37.500 0.00 2.59 40.13 4.79
3806 5897 9.750882 GTTAAAAACGTCTTACATTATGAGACC 57.249 33.333 0.00 0.00 40.13 3.85
3813 5904 8.427012 CGCTAGTGTTAAAAACGTCTTACATTA 58.573 33.333 0.00 0.00 0.00 1.90
3814 5905 7.042523 ACGCTAGTGTTAAAAACGTCTTACATT 60.043 33.333 2.24 0.00 0.00 2.71
3815 5906 6.421801 ACGCTAGTGTTAAAAACGTCTTACAT 59.578 34.615 2.24 0.00 0.00 2.29
3816 5907 5.748152 ACGCTAGTGTTAAAAACGTCTTACA 59.252 36.000 2.24 0.00 0.00 2.41
3817 5908 6.202815 ACGCTAGTGTTAAAAACGTCTTAC 57.797 37.500 2.24 0.00 0.00 2.34
3818 5909 7.138736 ACTACGCTAGTGTTAAAAACGTCTTA 58.861 34.615 15.28 0.00 37.69 2.10
3819 5910 5.979517 ACTACGCTAGTGTTAAAAACGTCTT 59.020 36.000 15.28 0.00 37.69 3.01
3820 5911 5.523369 ACTACGCTAGTGTTAAAAACGTCT 58.477 37.500 15.28 0.00 37.69 4.18
3821 5912 5.812665 ACTACGCTAGTGTTAAAAACGTC 57.187 39.130 15.28 0.00 37.69 4.34
3822 5913 7.083858 TGATACTACGCTAGTGTTAAAAACGT 58.916 34.615 15.28 2.86 39.81 3.99
3823 5914 7.496704 TGATACTACGCTAGTGTTAAAAACG 57.503 36.000 15.28 0.00 39.81 3.60
3848 5939 8.821686 TCTGTCCCATAATGTATGACATTTTT 57.178 30.769 9.92 0.00 45.80 1.94
3849 5940 7.503566 CCTCTGTCCCATAATGTATGACATTTT 59.496 37.037 9.92 0.33 45.80 1.82
3850 5941 7.000472 CCTCTGTCCCATAATGTATGACATTT 59.000 38.462 9.92 0.00 45.80 2.32
3852 5943 5.013495 CCCTCTGTCCCATAATGTATGACAT 59.987 44.000 0.00 0.00 41.31 3.06
3853 5944 4.347876 CCCTCTGTCCCATAATGTATGACA 59.652 45.833 0.00 0.00 38.45 3.58
3854 5945 4.593206 TCCCTCTGTCCCATAATGTATGAC 59.407 45.833 0.00 0.00 38.45 3.06
3855 5946 4.826616 TCCCTCTGTCCCATAATGTATGA 58.173 43.478 0.00 0.00 38.45 2.15
3856 5947 4.594920 ACTCCCTCTGTCCCATAATGTATG 59.405 45.833 0.00 0.00 35.94 2.39
3857 5948 4.832492 ACTCCCTCTGTCCCATAATGTAT 58.168 43.478 0.00 0.00 0.00 2.29
3858 5949 4.280789 ACTCCCTCTGTCCCATAATGTA 57.719 45.455 0.00 0.00 0.00 2.29
3859 5950 3.136641 ACTCCCTCTGTCCCATAATGT 57.863 47.619 0.00 0.00 0.00 2.71
3860 5951 4.656112 AGTTACTCCCTCTGTCCCATAATG 59.344 45.833 0.00 0.00 0.00 1.90
3861 5952 4.897051 AGTTACTCCCTCTGTCCCATAAT 58.103 43.478 0.00 0.00 0.00 1.28
3862 5953 4.348020 AGTTACTCCCTCTGTCCCATAA 57.652 45.455 0.00 0.00 0.00 1.90
3863 5954 4.016479 AGAAGTTACTCCCTCTGTCCCATA 60.016 45.833 0.00 0.00 0.00 2.74
3864 5955 2.950990 AGTTACTCCCTCTGTCCCAT 57.049 50.000 0.00 0.00 0.00 4.00
3865 5956 2.111972 AGAAGTTACTCCCTCTGTCCCA 59.888 50.000 0.00 0.00 0.00 4.37
3866 5957 2.822697 AGAAGTTACTCCCTCTGTCCC 58.177 52.381 0.00 0.00 0.00 4.46
3867 5958 5.997384 TTTAGAAGTTACTCCCTCTGTCC 57.003 43.478 0.00 0.00 0.00 4.02
3868 5959 8.850007 AATTTTTAGAAGTTACTCCCTCTGTC 57.150 34.615 0.00 0.00 0.00 3.51
3869 5960 8.661345 AGAATTTTTAGAAGTTACTCCCTCTGT 58.339 33.333 0.00 0.00 0.00 3.41
3870 5961 8.940952 CAGAATTTTTAGAAGTTACTCCCTCTG 58.059 37.037 0.00 0.00 0.00 3.35
3871 5962 8.881262 TCAGAATTTTTAGAAGTTACTCCCTCT 58.119 33.333 0.00 0.00 0.00 3.69
3872 5963 9.503399 TTCAGAATTTTTAGAAGTTACTCCCTC 57.497 33.333 0.00 0.00 0.00 4.30
3873 5964 9.862149 TTTCAGAATTTTTAGAAGTTACTCCCT 57.138 29.630 0.00 0.00 0.00 4.20
3909 6000 4.347583 AGATCTGGGGCATTTTCACAAAAA 59.652 37.500 0.00 0.00 38.66 1.94
3914 6005 8.635765 TTATAATAGATCTGGGGCATTTTCAC 57.364 34.615 5.18 0.00 0.00 3.18
3915 6006 9.300681 CTTTATAATAGATCTGGGGCATTTTCA 57.699 33.333 5.18 0.00 0.00 2.69
3916 6007 8.743714 CCTTTATAATAGATCTGGGGCATTTTC 58.256 37.037 5.18 0.00 0.00 2.29
3921 6012 6.735229 TGATCCTTTATAATAGATCTGGGGCA 59.265 38.462 18.73 0.00 36.82 5.36
3964 6057 7.287005 AGTGATAGTTCGAGGTTGTAATATGGA 59.713 37.037 0.00 0.00 0.00 3.41
3965 6058 7.382488 CAGTGATAGTTCGAGGTTGTAATATGG 59.618 40.741 0.00 0.00 0.00 2.74
3973 6066 4.810790 ACTTCAGTGATAGTTCGAGGTTG 58.189 43.478 0.00 0.00 0.00 3.77
4002 6095 2.029970 CGTTGCGTAGTTCACAGTTGTT 59.970 45.455 0.00 0.00 0.00 2.83
4007 6100 0.782384 GACCGTTGCGTAGTTCACAG 59.218 55.000 0.00 0.00 0.00 3.66
4008 6101 0.386476 AGACCGTTGCGTAGTTCACA 59.614 50.000 0.00 0.00 0.00 3.58
4009 6102 2.336554 TAGACCGTTGCGTAGTTCAC 57.663 50.000 0.00 0.00 0.00 3.18
4010 6103 3.581024 ATTAGACCGTTGCGTAGTTCA 57.419 42.857 0.00 0.00 0.00 3.18
4011 6104 4.732442 GTCTATTAGACCGTTGCGTAGTTC 59.268 45.833 12.06 0.00 39.28 3.01
4014 6107 4.282950 TGTCTATTAGACCGTTGCGTAG 57.717 45.455 18.81 0.00 44.44 3.51
4015 6108 4.414852 GTTGTCTATTAGACCGTTGCGTA 58.585 43.478 18.81 0.00 44.44 4.42
4016 6109 3.248266 GTTGTCTATTAGACCGTTGCGT 58.752 45.455 18.81 0.00 44.44 5.24
4017 6110 2.601763 GGTTGTCTATTAGACCGTTGCG 59.398 50.000 18.81 0.00 44.44 4.85
4019 6112 4.081862 TGAGGGTTGTCTATTAGACCGTTG 60.082 45.833 18.81 0.00 44.44 4.10
4023 6123 5.678955 AGTTGAGGGTTGTCTATTAGACC 57.321 43.478 18.81 6.47 44.44 3.85
4032 6132 4.081917 TGGTTTTGAAAGTTGAGGGTTGTC 60.082 41.667 0.00 0.00 0.00 3.18
4043 6143 5.304778 ACAAGCTGTTTTGGTTTTGAAAGT 58.695 33.333 0.00 0.00 32.32 2.66
4047 6147 6.876257 ACATTTACAAGCTGTTTTGGTTTTGA 59.124 30.769 0.00 0.00 32.32 2.69
4086 7645 8.851541 AAATATTTTTGTGGATGACATTTGCT 57.148 26.923 0.00 0.00 33.40 3.91
4154 7714 5.127845 TGTGTTTGTGCCATAGAAAAAGGAA 59.872 36.000 0.00 0.00 0.00 3.36
4200 7762 0.675837 GAGCTTCAGCATCAGCCACA 60.676 55.000 0.75 0.00 45.16 4.17
4257 7822 3.031736 GGAGGGTTACATAGCAGAGTCA 58.968 50.000 0.00 0.00 0.00 3.41
4280 7847 8.311650 ACTATTACATTGTTGATAGCGAATCC 57.688 34.615 14.76 0.00 33.22 3.01
4282 7849 9.982651 ACTACTATTACATTGTTGATAGCGAAT 57.017 29.630 14.76 2.62 0.00 3.34
4283 7850 9.244799 CACTACTATTACATTGTTGATAGCGAA 57.755 33.333 14.76 5.60 0.00 4.70
4284 7851 8.410912 ACACTACTATTACATTGTTGATAGCGA 58.589 33.333 14.76 7.05 0.00 4.93
4285 7852 8.575565 ACACTACTATTACATTGTTGATAGCG 57.424 34.615 14.76 10.85 0.00 4.26
4294 7861 9.329913 GCAACAAGAAACACTACTATTACATTG 57.670 33.333 0.00 0.00 0.00 2.82
4295 7862 9.062524 TGCAACAAGAAACACTACTATTACATT 57.937 29.630 0.00 0.00 0.00 2.71
4296 7863 8.504005 GTGCAACAAGAAACACTACTATTACAT 58.496 33.333 0.00 0.00 36.32 2.29
4297 7864 7.713507 AGTGCAACAAGAAACACTACTATTACA 59.286 33.333 0.00 0.00 41.41 2.41
4298 7865 8.009974 CAGTGCAACAAGAAACACTACTATTAC 58.990 37.037 0.00 0.00 41.28 1.89
4299 7866 7.713507 ACAGTGCAACAAGAAACACTACTATTA 59.286 33.333 0.00 0.00 41.28 0.98
4300 7867 6.542370 ACAGTGCAACAAGAAACACTACTATT 59.458 34.615 0.00 0.00 41.28 1.73
4301 7868 6.055588 ACAGTGCAACAAGAAACACTACTAT 58.944 36.000 0.00 0.00 41.28 2.12
4302 7869 5.424757 ACAGTGCAACAAGAAACACTACTA 58.575 37.500 0.00 0.00 41.28 1.82
4303 7870 4.261801 ACAGTGCAACAAGAAACACTACT 58.738 39.130 0.00 0.00 41.28 2.57
4304 7871 4.616181 ACAGTGCAACAAGAAACACTAC 57.384 40.909 0.00 0.00 41.28 2.73
4305 7872 5.878116 AGTTACAGTGCAACAAGAAACACTA 59.122 36.000 8.90 0.00 41.28 2.74
4306 7873 4.700213 AGTTACAGTGCAACAAGAAACACT 59.300 37.500 8.90 0.00 43.92 3.55
4307 7874 4.981794 AGTTACAGTGCAACAAGAAACAC 58.018 39.130 8.90 0.00 41.43 3.32
4308 7875 5.637006 AAGTTACAGTGCAACAAGAAACA 57.363 34.783 8.90 0.00 41.43 2.83
4309 7876 6.033513 GTCAAAGTTACAGTGCAACAAGAAAC 59.966 38.462 8.90 0.00 41.43 2.78
4310 7877 6.072175 AGTCAAAGTTACAGTGCAACAAGAAA 60.072 34.615 8.90 0.00 41.43 2.52
4311 7878 5.414454 AGTCAAAGTTACAGTGCAACAAGAA 59.586 36.000 8.90 0.00 41.43 2.52
4312 7879 4.941263 AGTCAAAGTTACAGTGCAACAAGA 59.059 37.500 8.90 0.94 41.43 3.02
4313 7880 5.065218 AGAGTCAAAGTTACAGTGCAACAAG 59.935 40.000 8.90 0.00 41.43 3.16
4314 7881 4.941263 AGAGTCAAAGTTACAGTGCAACAA 59.059 37.500 8.90 0.00 41.43 2.83
4315 7882 4.332543 CAGAGTCAAAGTTACAGTGCAACA 59.667 41.667 8.90 0.00 41.43 3.33
4316 7883 4.786609 GCAGAGTCAAAGTTACAGTGCAAC 60.787 45.833 0.00 0.00 31.58 4.17
4317 7884 3.312421 GCAGAGTCAAAGTTACAGTGCAA 59.688 43.478 0.00 0.00 31.58 4.08
4318 7885 2.872245 GCAGAGTCAAAGTTACAGTGCA 59.128 45.455 0.00 0.00 31.58 4.57
4319 7886 3.134458 AGCAGAGTCAAAGTTACAGTGC 58.866 45.455 0.00 0.00 0.00 4.40
4320 7887 5.928839 ACATAGCAGAGTCAAAGTTACAGTG 59.071 40.000 0.00 0.00 0.00 3.66
4321 7888 6.102897 ACATAGCAGAGTCAAAGTTACAGT 57.897 37.500 0.00 0.00 0.00 3.55
4322 7889 7.063544 GGTTACATAGCAGAGTCAAAGTTACAG 59.936 40.741 0.00 0.00 0.00 2.74
4323 7890 6.872020 GGTTACATAGCAGAGTCAAAGTTACA 59.128 38.462 0.00 0.00 0.00 2.41
4324 7891 6.872020 TGGTTACATAGCAGAGTCAAAGTTAC 59.128 38.462 0.00 0.00 0.00 2.50
4325 7892 6.999950 TGGTTACATAGCAGAGTCAAAGTTA 58.000 36.000 0.00 0.00 0.00 2.24
4326 7893 5.865085 TGGTTACATAGCAGAGTCAAAGTT 58.135 37.500 0.00 0.00 0.00 2.66
4327 7894 5.483685 TGGTTACATAGCAGAGTCAAAGT 57.516 39.130 0.00 0.00 0.00 2.66
4328 7895 5.525378 GGATGGTTACATAGCAGAGTCAAAG 59.475 44.000 0.00 0.00 37.47 2.77
4329 7896 5.189736 AGGATGGTTACATAGCAGAGTCAAA 59.810 40.000 0.00 0.00 37.47 2.69
4330 7897 4.716784 AGGATGGTTACATAGCAGAGTCAA 59.283 41.667 0.00 0.00 37.47 3.18
4331 7898 4.100035 CAGGATGGTTACATAGCAGAGTCA 59.900 45.833 0.00 0.00 37.47 3.41
4332 7899 4.626042 CAGGATGGTTACATAGCAGAGTC 58.374 47.826 0.00 0.00 37.47 3.36
4333 7900 4.679373 CAGGATGGTTACATAGCAGAGT 57.321 45.455 0.00 0.00 37.47 3.24
4342 7909 8.549952 GTTGATAGCAAATCCAGGATGGTTACA 61.550 40.741 1.44 0.54 46.76 2.41
4343 7910 6.238759 GTTGATAGCAAATCCAGGATGGTTAC 60.239 42.308 1.44 0.00 46.76 2.50
4344 7911 5.827797 GTTGATAGCAAATCCAGGATGGTTA 59.172 40.000 1.44 1.66 46.76 2.85
4345 7912 4.646492 GTTGATAGCAAATCCAGGATGGTT 59.354 41.667 1.44 0.00 46.76 3.67
4346 7913 4.210331 GTTGATAGCAAATCCAGGATGGT 58.790 43.478 1.44 0.88 46.76 3.55
4348 7915 5.840243 TTGTTGATAGCAAATCCAGGATG 57.160 39.130 1.44 0.00 35.42 3.51
4349 7916 5.895534 ACATTGTTGATAGCAAATCCAGGAT 59.104 36.000 0.00 0.00 35.42 3.24
4350 7917 5.263599 ACATTGTTGATAGCAAATCCAGGA 58.736 37.500 0.00 0.00 35.42 3.86
4351 7918 5.587388 ACATTGTTGATAGCAAATCCAGG 57.413 39.130 0.00 0.00 35.42 4.45
4352 7919 7.765307 AGTTACATTGTTGATAGCAAATCCAG 58.235 34.615 0.00 0.00 35.42 3.86
4353 7920 7.701539 AGTTACATTGTTGATAGCAAATCCA 57.298 32.000 0.00 0.00 35.42 3.41
4354 7921 8.028938 ACAAGTTACATTGTTGATAGCAAATCC 58.971 33.333 0.00 0.00 40.47 3.01
4355 7922 8.970691 ACAAGTTACATTGTTGATAGCAAATC 57.029 30.769 0.00 0.00 40.47 2.17
4356 7923 8.796475 AGACAAGTTACATTGTTGATAGCAAAT 58.204 29.630 0.00 0.00 43.32 2.32
4417 8026 9.929180 ACACGTGCTTAATGAGACATATATATT 57.071 29.630 17.22 0.00 0.00 1.28


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

AutoCloner maintained by Alex Coulton.