Multiple sequence alignment - TraesCS4B01G222200

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4B01G222200 chr4B 100.000 2990 0 0 1 2990 466785487 466788476 0.000000e+00 5522.0
1 TraesCS4B01G222200 chr4B 93.258 89 5 1 2247 2335 366928524 366928437 2.420000e-26 130.0
2 TraesCS4B01G222200 chr4D 92.432 2286 86 20 1 2248 379573360 379575596 0.000000e+00 3182.0
3 TraesCS4B01G222200 chr4D 91.765 85 7 0 2247 2331 337138549 337138465 5.240000e-23 119.0
4 TraesCS4B01G222200 chr4A 91.543 2152 102 19 1 2123 84898576 84896476 0.000000e+00 2892.0
5 TraesCS4B01G222200 chr4A 85.619 299 25 7 2562 2858 84895753 84895471 6.270000e-77 298.0
6 TraesCS4B01G222200 chr2B 79.134 254 37 13 2488 2735 619001998 619002241 8.580000e-36 161.0
7 TraesCS4B01G222200 chr1D 87.850 107 10 3 2235 2338 302256608 302256714 4.050000e-24 122.0
8 TraesCS4B01G222200 chr1A 90.909 88 8 0 2244 2331 13940187 13940274 5.240000e-23 119.0
9 TraesCS4B01G222200 chr1A 91.765 85 7 0 2247 2331 14652135 14652051 5.240000e-23 119.0
10 TraesCS4B01G222200 chr7D 88.889 90 10 0 2247 2336 10855093 10855004 8.760000e-21 111.0
11 TraesCS4B01G222200 chr7D 83.784 111 12 6 2546 2654 620701454 620701348 1.900000e-17 100.0
12 TraesCS4B01G222200 chr6B 88.889 90 10 0 2247 2336 713960610 713960521 8.760000e-21 111.0
13 TraesCS4B01G222200 chr2D 89.011 91 9 1 2247 2336 19055463 19055553 8.760000e-21 111.0
14 TraesCS4B01G222200 chr6D 88.043 92 11 0 2240 2331 47081385 47081294 3.150000e-20 110.0
15 TraesCS4B01G222200 chr7A 83.333 114 15 4 2542 2654 714507323 714507433 5.270000e-18 102.0
16 TraesCS4B01G222200 chr7A 85.714 77 9 2 2542 2618 714563646 714563720 2.470000e-11 80.5
17 TraesCS4B01G222200 chr7B 76.382 199 33 14 2542 2735 715549030 715548841 8.820000e-16 95.3
18 TraesCS4B01G222200 chr7B 79.310 145 20 10 2542 2683 715574495 715574358 3.170000e-15 93.5
19 TraesCS4B01G222200 chr7B 81.739 115 15 5 2542 2654 715764101 715764211 1.140000e-14 91.6
20 TraesCS4B01G222200 chr7B 81.081 111 17 4 2542 2651 715818984 715819091 5.310000e-13 86.1
21 TraesCS4B01G222200 chr3B 81.818 99 16 2 2638 2735 808674942 808674845 6.870000e-12 82.4


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 TraesCS4B01G222200 chr4B 466785487 466788476 2989 False 5522 5522 100.000 1 2990 1 chr4B.!!$F1 2989
1 TraesCS4B01G222200 chr4D 379573360 379575596 2236 False 3182 3182 92.432 1 2248 1 chr4D.!!$F1 2247
2 TraesCS4B01G222200 chr4A 84895471 84898576 3105 True 1595 2892 88.581 1 2858 2 chr4A.!!$R1 2857

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
717 753 0.806102 GTCACCCGTCGATCATGTGG 60.806 60.0 0.0 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2513 2893 1.467734 GTCGTGTATGAGAGACCGTGT 59.532 52.381 0.0 0.0 0.0 4.49 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
40 41 8.494347 CCATTGTTTACATGTTGGTTAATGTTG 58.506 33.333 2.30 0.00 38.05 3.33
48 49 4.141287 TGTTGGTTAATGTTGTCCTCCAG 58.859 43.478 0.00 0.00 0.00 3.86
50 51 4.286297 TGGTTAATGTTGTCCTCCAGAG 57.714 45.455 0.00 0.00 0.00 3.35
63 64 3.515502 TCCTCCAGAGTCACTACAAATGG 59.484 47.826 0.00 0.00 0.00 3.16
77 78 7.041372 TCACTACAAATGGAGAAGTTGTTTAGC 60.041 37.037 0.00 0.00 44.34 3.09
109 110 4.228317 TGTCATGTTGATGAATTTGTGCG 58.772 39.130 0.00 0.00 40.39 5.34
120 121 4.676546 TGAATTTGTGCGTCACATCAAAA 58.323 34.783 12.33 5.67 44.16 2.44
130 131 4.466828 CGTCACATCAAAATTCACTCCAC 58.533 43.478 0.00 0.00 0.00 4.02
136 137 1.871039 CAAAATTCACTCCACGGTCGT 59.129 47.619 0.00 0.00 0.00 4.34
164 165 1.869132 GCCGACGTAAAGGAAAAGTGT 59.131 47.619 8.21 0.00 0.00 3.55
170 171 2.031157 CGTAAAGGAAAAGTGTGCAGGG 60.031 50.000 0.00 0.00 0.00 4.45
194 197 5.470777 GCACTACCTGTTATGTTGGTTGTTA 59.529 40.000 0.00 0.00 37.63 2.41
195 198 6.150474 GCACTACCTGTTATGTTGGTTGTTAT 59.850 38.462 0.00 0.00 37.63 1.89
196 199 7.625606 GCACTACCTGTTATGTTGGTTGTTATC 60.626 40.741 0.00 0.00 37.63 1.75
198 201 6.817765 ACCTGTTATGTTGGTTGTTATCTG 57.182 37.500 0.00 0.00 0.00 2.90
199 202 5.183140 ACCTGTTATGTTGGTTGTTATCTGC 59.817 40.000 0.00 0.00 0.00 4.26
200 203 5.182950 CCTGTTATGTTGGTTGTTATCTGCA 59.817 40.000 0.00 0.00 0.00 4.41
201 204 6.294453 CCTGTTATGTTGGTTGTTATCTGCAA 60.294 38.462 0.00 0.00 0.00 4.08
204 207 7.981789 TGTTATGTTGGTTGTTATCTGCAAAAA 59.018 29.630 0.00 0.00 0.00 1.94
249 252 6.040878 CCTTTGAGACCGAGATAATAAACGT 58.959 40.000 0.00 0.00 0.00 3.99
500 530 3.211045 GCGCCATTAAGGTTAATCAGGA 58.789 45.455 0.00 0.00 40.61 3.86
501 531 3.251004 GCGCCATTAAGGTTAATCAGGAG 59.749 47.826 0.00 2.32 40.61 3.69
502 532 3.815401 CGCCATTAAGGTTAATCAGGAGG 59.185 47.826 3.95 0.00 40.61 4.30
717 753 0.806102 GTCACCCGTCGATCATGTGG 60.806 60.000 0.00 0.00 0.00 4.17
720 756 1.884464 CCCGTCGATCATGTGGCAG 60.884 63.158 0.00 0.00 0.00 4.85
1182 1220 4.052229 CTCGACGACGCCAAGGGT 62.052 66.667 1.48 0.00 39.58 4.34
1284 1322 2.968206 GGGTACGTGCTCTTCCGT 59.032 61.111 3.01 0.00 40.87 4.69
1320 1358 3.339464 CACAACAACGCCGCGGTA 61.339 61.111 28.70 0.00 0.00 4.02
1891 1929 1.699656 CGCGATGGAGCTGTTCAAGG 61.700 60.000 0.00 0.00 34.40 3.61
1892 1930 0.391661 GCGATGGAGCTGTTCAAGGA 60.392 55.000 0.00 0.00 0.00 3.36
1904 1942 1.366111 TTCAAGGATAACTGCGCCGC 61.366 55.000 4.18 0.00 0.00 6.53
2097 2147 6.709397 TCTTCTTCACCATGCTATGATTGATC 59.291 38.462 0.00 0.00 0.00 2.92
2178 2555 2.425312 AGAGTGTCGAGCTACTGGATTG 59.575 50.000 2.01 0.00 0.00 2.67
2198 2575 6.098266 GGATTGCAGTATTATCCCCACTTTTT 59.902 38.462 3.32 0.00 33.26 1.94
2210 2587 6.259346 TCCCCACTTTTTGAATGGATTTTT 57.741 33.333 0.00 0.00 35.33 1.94
2211 2588 6.060788 TCCCCACTTTTTGAATGGATTTTTG 58.939 36.000 0.00 0.00 35.33 2.44
2251 2629 7.541162 ACCCTTTTTGCGTTATTTATTACTCC 58.459 34.615 0.00 0.00 0.00 3.85
2252 2630 7.395206 ACCCTTTTTGCGTTATTTATTACTCCT 59.605 33.333 0.00 0.00 0.00 3.69
2253 2631 8.248253 CCCTTTTTGCGTTATTTATTACTCCTT 58.752 33.333 0.00 0.00 0.00 3.36
2254 2632 9.285770 CCTTTTTGCGTTATTTATTACTCCTTC 57.714 33.333 0.00 0.00 0.00 3.46
2255 2633 9.285770 CTTTTTGCGTTATTTATTACTCCTTCC 57.714 33.333 0.00 0.00 0.00 3.46
2256 2634 6.592798 TTGCGTTATTTATTACTCCTTCCG 57.407 37.500 0.00 0.00 0.00 4.30
2257 2635 5.663456 TGCGTTATTTATTACTCCTTCCGT 58.337 37.500 0.00 0.00 0.00 4.69
2258 2636 6.804677 TGCGTTATTTATTACTCCTTCCGTA 58.195 36.000 0.00 0.00 0.00 4.02
2259 2637 7.264221 TGCGTTATTTATTACTCCTTCCGTAA 58.736 34.615 0.00 0.00 0.00 3.18
2260 2638 7.763528 TGCGTTATTTATTACTCCTTCCGTAAA 59.236 33.333 0.00 0.00 31.36 2.01
2261 2639 8.058328 GCGTTATTTATTACTCCTTCCGTAAAC 58.942 37.037 0.00 0.00 31.36 2.01
2262 2640 9.305925 CGTTATTTATTACTCCTTCCGTAAACT 57.694 33.333 0.00 0.00 31.36 2.66
2273 2651 9.322773 ACTCCTTCCGTAAACTAATATAAAAGC 57.677 33.333 0.00 0.00 0.00 3.51
2274 2652 9.321562 CTCCTTCCGTAAACTAATATAAAAGCA 57.678 33.333 0.00 0.00 0.00 3.91
2275 2653 9.841295 TCCTTCCGTAAACTAATATAAAAGCAT 57.159 29.630 0.00 0.00 0.00 3.79
2305 2683 9.662947 AATTACTATTTTAGTGACCTAAACGCT 57.337 29.630 0.00 0.00 41.64 5.07
2306 2684 9.662947 ATTACTATTTTAGTGACCTAAACGCTT 57.337 29.630 0.00 0.00 41.64 4.68
2307 2685 7.974482 ACTATTTTAGTGACCTAAACGCTTT 57.026 32.000 0.00 0.00 41.64 3.51
2308 2686 8.387190 ACTATTTTAGTGACCTAAACGCTTTT 57.613 30.769 0.00 0.00 41.64 2.27
2309 2687 9.492973 ACTATTTTAGTGACCTAAACGCTTTTA 57.507 29.630 0.00 0.00 41.64 1.52
2316 2694 8.331730 AGTGACCTAAACGCTTTTATATTTGT 57.668 30.769 0.00 0.00 0.00 2.83
2317 2695 8.789762 AGTGACCTAAACGCTTTTATATTTGTT 58.210 29.630 0.00 0.00 0.00 2.83
2318 2696 9.401873 GTGACCTAAACGCTTTTATATTTGTTT 57.598 29.630 0.00 0.00 34.32 2.83
2325 2703 9.620660 AAACGCTTTTATATTTGTTTACAGAGG 57.379 29.630 0.00 0.00 0.00 3.69
2326 2704 7.758495 ACGCTTTTATATTTGTTTACAGAGGG 58.242 34.615 0.00 0.00 0.00 4.30
2327 2705 7.608761 ACGCTTTTATATTTGTTTACAGAGGGA 59.391 33.333 0.00 0.00 0.00 4.20
2328 2706 8.122952 CGCTTTTATATTTGTTTACAGAGGGAG 58.877 37.037 0.00 0.00 0.00 4.30
2341 2719 9.070179 GTTTACAGAGGGAGTAATTTTTACCAA 57.930 33.333 0.00 0.00 32.07 3.67
2368 2746 1.796796 GGCAACTTGAGATCGCCAC 59.203 57.895 0.00 0.00 42.50 5.01
2380 2758 0.601576 ATCGCCACGTGCTTGTTACA 60.602 50.000 10.91 0.00 38.05 2.41
2383 2761 1.334599 CGCCACGTGCTTGTTACAATT 60.335 47.619 10.91 0.00 38.05 2.32
2429 2807 8.910351 ACTCTTATCTTATTTTCATGGCTACC 57.090 34.615 0.00 0.00 0.00 3.18
2430 2808 8.718656 ACTCTTATCTTATTTTCATGGCTACCT 58.281 33.333 0.00 0.00 0.00 3.08
2443 2821 0.914902 GCTACCTCACCCCTTCCCTT 60.915 60.000 0.00 0.00 0.00 3.95
2445 2823 0.797579 TACCTCACCCCTTCCCTTCT 59.202 55.000 0.00 0.00 0.00 2.85
2446 2824 0.797579 ACCTCACCCCTTCCCTTCTA 59.202 55.000 0.00 0.00 0.00 2.10
2447 2825 1.273896 ACCTCACCCCTTCCCTTCTAG 60.274 57.143 0.00 0.00 0.00 2.43
2458 2836 6.351966 CCCCTTCCCTTCTAGTAAACTGTAAG 60.352 46.154 0.00 0.00 42.29 2.34
2464 2842 5.294552 CCTTCTAGTAAACTGTAAGGCATGC 59.705 44.000 9.90 9.90 39.30 4.06
2466 2844 5.419542 TCTAGTAAACTGTAAGGCATGCTG 58.580 41.667 18.92 3.98 39.30 4.41
2467 2845 2.749621 AGTAAACTGTAAGGCATGCTGC 59.250 45.455 18.92 2.54 44.08 5.25
2469 2847 1.915141 AACTGTAAGGCATGCTGCTT 58.085 45.000 18.92 15.40 44.28 3.91
2470 2848 1.457346 ACTGTAAGGCATGCTGCTTC 58.543 50.000 18.92 8.09 44.28 3.86
2474 2852 2.489329 TGTAAGGCATGCTGCTTCTTTC 59.511 45.455 18.92 10.05 44.28 2.62
2475 2853 1.920610 AAGGCATGCTGCTTCTTTCT 58.079 45.000 18.92 0.00 44.28 2.52
2479 2857 2.735134 GGCATGCTGCTTCTTTCTTTTG 59.265 45.455 18.92 0.00 44.28 2.44
2480 2858 2.157085 GCATGCTGCTTCTTTCTTTTGC 59.843 45.455 11.37 0.00 40.96 3.68
2483 2861 2.689471 TGCTGCTTCTTTCTTTTGCTGA 59.311 40.909 0.00 0.00 0.00 4.26
2484 2862 3.130869 TGCTGCTTCTTTCTTTTGCTGAA 59.869 39.130 0.00 0.00 0.00 3.02
2518 2898 1.135689 GGCATGCTTGACTTTACACGG 60.136 52.381 18.92 0.00 0.00 4.94
2519 2899 1.535462 GCATGCTTGACTTTACACGGT 59.465 47.619 11.37 0.00 0.00 4.83
2520 2900 2.412847 GCATGCTTGACTTTACACGGTC 60.413 50.000 11.37 0.00 0.00 4.79
2524 2904 2.987821 GCTTGACTTTACACGGTCTCTC 59.012 50.000 0.00 0.00 34.01 3.20
2532 2912 1.817357 ACACGGTCTCTCATACACGA 58.183 50.000 0.00 0.00 0.00 4.35
2533 2913 1.467734 ACACGGTCTCTCATACACGAC 59.532 52.381 0.00 0.00 0.00 4.34
2534 2914 1.738350 CACGGTCTCTCATACACGACT 59.262 52.381 0.00 0.00 0.00 4.18
2536 2916 2.818432 ACGGTCTCTCATACACGACTTT 59.182 45.455 0.00 0.00 0.00 2.66
2537 2917 3.172050 CGGTCTCTCATACACGACTTTG 58.828 50.000 0.00 0.00 0.00 2.77
2538 2918 3.119955 CGGTCTCTCATACACGACTTTGA 60.120 47.826 0.00 0.00 0.00 2.69
2540 2920 5.038033 GGTCTCTCATACACGACTTTGATC 58.962 45.833 0.00 0.00 0.00 2.92
2541 2921 5.393135 GGTCTCTCATACACGACTTTGATCA 60.393 44.000 0.00 0.00 0.00 2.92
2542 2922 6.269315 GTCTCTCATACACGACTTTGATCAT 58.731 40.000 0.00 0.00 0.00 2.45
2544 2924 7.915923 GTCTCTCATACACGACTTTGATCATTA 59.084 37.037 0.00 0.00 0.00 1.90
2545 2925 8.466798 TCTCTCATACACGACTTTGATCATTAA 58.533 33.333 0.00 0.00 0.00 1.40
2742 3177 3.491104 GCGAAGGAGGGAGTATTGTGTAG 60.491 52.174 0.00 0.00 0.00 2.74
2756 3191 7.117397 AGTATTGTGTAGACCTGCTAGTAGAA 58.883 38.462 9.72 0.00 0.00 2.10
2760 3195 6.631016 TGTGTAGACCTGCTAGTAGAATTTG 58.369 40.000 9.72 0.00 0.00 2.32
2761 3196 6.436218 TGTGTAGACCTGCTAGTAGAATTTGA 59.564 38.462 9.72 0.00 0.00 2.69
2762 3197 7.039293 TGTGTAGACCTGCTAGTAGAATTTGAA 60.039 37.037 9.72 0.00 0.00 2.69
2763 3198 7.489757 GTGTAGACCTGCTAGTAGAATTTGAAG 59.510 40.741 9.72 0.00 0.00 3.02
2764 3199 5.423886 AGACCTGCTAGTAGAATTTGAAGC 58.576 41.667 9.72 0.00 0.00 3.86
2765 3200 5.046304 AGACCTGCTAGTAGAATTTGAAGCA 60.046 40.000 9.72 0.00 37.62 3.91
2766 3201 4.938226 ACCTGCTAGTAGAATTTGAAGCAC 59.062 41.667 9.72 0.00 35.20 4.40
2767 3202 4.033358 CCTGCTAGTAGAATTTGAAGCACG 59.967 45.833 9.72 0.00 35.20 5.34
2768 3203 3.370978 TGCTAGTAGAATTTGAAGCACGC 59.629 43.478 0.00 0.00 35.20 5.34
2769 3204 3.542291 GCTAGTAGAATTTGAAGCACGCG 60.542 47.826 3.53 3.53 0.00 6.01
2770 3205 2.413837 AGTAGAATTTGAAGCACGCGT 58.586 42.857 5.58 5.58 0.00 6.01
2771 3206 2.157668 AGTAGAATTTGAAGCACGCGTG 59.842 45.455 34.01 34.01 0.00 5.34
2787 3222 0.657368 CGTGCTTTGCTCACCGTTTC 60.657 55.000 0.00 0.00 0.00 2.78
2811 3246 0.308376 TTGCGAGTGTTTTTACGGGC 59.692 50.000 0.00 0.00 0.00 6.13
2812 3247 0.533308 TGCGAGTGTTTTTACGGGCT 60.533 50.000 0.00 0.00 0.00 5.19
2830 3265 6.692486 ACGGGCTATTACAATTAGAGATCAG 58.308 40.000 0.00 0.00 0.00 2.90
2842 3277 8.887717 ACAATTAGAGATCAGCACTTTTACATC 58.112 33.333 0.00 0.00 0.00 3.06
2862 3297 9.832445 TTACATCTAAAAGTGAAGAGTCAAACT 57.168 29.630 0.00 0.00 34.87 2.66
2863 3298 8.147642 ACATCTAAAAGTGAAGAGTCAAACTG 57.852 34.615 0.00 0.00 34.87 3.16
2864 3299 7.987458 ACATCTAAAAGTGAAGAGTCAAACTGA 59.013 33.333 0.00 0.00 34.87 3.41
2865 3300 8.830580 CATCTAAAAGTGAAGAGTCAAACTGAA 58.169 33.333 0.00 0.00 34.87 3.02
2866 3301 8.197988 TCTAAAAGTGAAGAGTCAAACTGAAC 57.802 34.615 0.00 0.00 34.87 3.18
2867 3302 8.041323 TCTAAAAGTGAAGAGTCAAACTGAACT 58.959 33.333 0.00 0.00 34.87 3.01
2868 3303 6.428385 AAAGTGAAGAGTCAAACTGAACTG 57.572 37.500 0.00 0.00 34.87 3.16
2869 3304 5.344743 AGTGAAGAGTCAAACTGAACTGA 57.655 39.130 0.00 0.00 34.87 3.41
2870 3305 5.355596 AGTGAAGAGTCAAACTGAACTGAG 58.644 41.667 0.00 0.00 34.87 3.35
2871 3306 5.105146 AGTGAAGAGTCAAACTGAACTGAGT 60.105 40.000 0.00 0.00 34.87 3.41
2872 3307 5.582665 GTGAAGAGTCAAACTGAACTGAGTT 59.417 40.000 0.00 0.00 37.81 3.01
2873 3308 5.582269 TGAAGAGTCAAACTGAACTGAGTTG 59.418 40.000 0.90 0.00 36.28 3.16
2874 3309 5.344743 AGAGTCAAACTGAACTGAGTTGA 57.655 39.130 0.90 0.00 36.28 3.18
2875 3310 5.923204 AGAGTCAAACTGAACTGAGTTGAT 58.077 37.500 0.90 0.00 36.28 2.57
2876 3311 5.988561 AGAGTCAAACTGAACTGAGTTGATC 59.011 40.000 0.90 0.00 36.28 2.92
2877 3312 4.747108 AGTCAAACTGAACTGAGTTGATCG 59.253 41.667 0.90 0.00 36.28 3.69
2878 3313 4.745125 GTCAAACTGAACTGAGTTGATCGA 59.255 41.667 0.90 0.00 36.28 3.59
2879 3314 5.406780 GTCAAACTGAACTGAGTTGATCGAT 59.593 40.000 0.90 0.00 36.28 3.59
2880 3315 6.586463 GTCAAACTGAACTGAGTTGATCGATA 59.414 38.462 0.90 0.00 36.28 2.92
2881 3316 7.276658 GTCAAACTGAACTGAGTTGATCGATAT 59.723 37.037 0.90 0.00 36.28 1.63
2882 3317 7.819415 TCAAACTGAACTGAGTTGATCGATATT 59.181 33.333 0.90 0.00 36.28 1.28
2883 3318 8.446273 CAAACTGAACTGAGTTGATCGATATTT 58.554 33.333 0.90 0.00 36.28 1.40
2884 3319 7.763172 ACTGAACTGAGTTGATCGATATTTC 57.237 36.000 0.90 0.00 0.00 2.17
2885 3320 6.473778 ACTGAACTGAGTTGATCGATATTTCG 59.526 38.462 0.90 0.00 46.87 3.46
2886 3321 5.748630 TGAACTGAGTTGATCGATATTTCGG 59.251 40.000 0.90 2.11 45.53 4.30
2887 3322 5.515797 ACTGAGTTGATCGATATTTCGGA 57.484 39.130 0.00 0.00 45.53 4.55
2888 3323 6.090483 ACTGAGTTGATCGATATTTCGGAT 57.910 37.500 0.00 0.00 45.53 4.18
2889 3324 6.516718 ACTGAGTTGATCGATATTTCGGATT 58.483 36.000 0.00 0.00 45.53 3.01
2890 3325 6.986817 ACTGAGTTGATCGATATTTCGGATTT 59.013 34.615 0.00 0.00 45.53 2.17
2891 3326 8.141909 ACTGAGTTGATCGATATTTCGGATTTA 58.858 33.333 0.00 0.00 45.53 1.40
2892 3327 9.144747 CTGAGTTGATCGATATTTCGGATTTAT 57.855 33.333 0.00 0.00 45.53 1.40
2893 3328 9.489084 TGAGTTGATCGATATTTCGGATTTATT 57.511 29.630 0.00 0.00 45.53 1.40
2897 3332 9.938280 TTGATCGATATTTCGGATTTATTAGGT 57.062 29.630 0.00 0.00 45.53 3.08
2898 3333 9.938280 TGATCGATATTTCGGATTTATTAGGTT 57.062 29.630 0.00 0.00 45.53 3.50
2905 3340 8.897872 ATTTCGGATTTATTAGGTTATGACGT 57.102 30.769 0.00 0.00 0.00 4.34
2906 3341 8.721019 TTTCGGATTTATTAGGTTATGACGTT 57.279 30.769 0.00 0.00 0.00 3.99
2907 3342 7.935338 TCGGATTTATTAGGTTATGACGTTC 57.065 36.000 0.00 0.00 0.00 3.95
2908 3343 6.638063 TCGGATTTATTAGGTTATGACGTTCG 59.362 38.462 0.00 0.00 0.00 3.95
2909 3344 6.638063 CGGATTTATTAGGTTATGACGTTCGA 59.362 38.462 0.00 0.00 0.00 3.71
2910 3345 7.327761 CGGATTTATTAGGTTATGACGTTCGAT 59.672 37.037 0.00 0.00 0.00 3.59
2911 3346 8.433126 GGATTTATTAGGTTATGACGTTCGATG 58.567 37.037 0.00 0.00 0.00 3.84
2912 3347 7.703298 TTTATTAGGTTATGACGTTCGATGG 57.297 36.000 0.00 0.00 0.00 3.51
2913 3348 4.724074 TTAGGTTATGACGTTCGATGGT 57.276 40.909 0.00 0.00 0.00 3.55
2914 3349 2.888594 AGGTTATGACGTTCGATGGTG 58.111 47.619 0.00 0.00 0.00 4.17
2915 3350 2.232941 AGGTTATGACGTTCGATGGTGT 59.767 45.455 0.00 0.00 0.00 4.16
2916 3351 2.601763 GGTTATGACGTTCGATGGTGTC 59.398 50.000 0.00 0.00 0.00 3.67
2917 3352 3.508762 GTTATGACGTTCGATGGTGTCT 58.491 45.455 0.00 0.00 32.64 3.41
2918 3353 2.743636 ATGACGTTCGATGGTGTCTT 57.256 45.000 0.00 0.95 32.64 3.01
2919 3354 2.060326 TGACGTTCGATGGTGTCTTC 57.940 50.000 0.00 0.00 32.64 2.87
2920 3355 1.338655 TGACGTTCGATGGTGTCTTCA 59.661 47.619 0.00 0.00 32.64 3.02
2921 3356 2.029380 TGACGTTCGATGGTGTCTTCAT 60.029 45.455 0.00 0.00 32.64 2.57
2922 3357 2.599082 GACGTTCGATGGTGTCTTCATC 59.401 50.000 0.00 0.00 38.04 2.92
2923 3358 2.231478 ACGTTCGATGGTGTCTTCATCT 59.769 45.455 0.00 0.00 38.95 2.90
2924 3359 2.854777 CGTTCGATGGTGTCTTCATCTC 59.145 50.000 0.00 0.00 38.95 2.75
2925 3360 3.428180 CGTTCGATGGTGTCTTCATCTCT 60.428 47.826 0.00 0.00 38.95 3.10
2926 3361 4.201920 CGTTCGATGGTGTCTTCATCTCTA 60.202 45.833 0.00 0.00 38.95 2.43
2927 3362 5.651530 GTTCGATGGTGTCTTCATCTCTAA 58.348 41.667 0.00 0.00 38.95 2.10
2928 3363 6.276847 GTTCGATGGTGTCTTCATCTCTAAT 58.723 40.000 0.00 0.00 38.95 1.73
2929 3364 6.471233 TCGATGGTGTCTTCATCTCTAATT 57.529 37.500 0.00 0.00 38.95 1.40
2930 3365 6.276091 TCGATGGTGTCTTCATCTCTAATTG 58.724 40.000 0.00 0.00 38.95 2.32
2931 3366 6.045318 CGATGGTGTCTTCATCTCTAATTGT 58.955 40.000 0.00 0.00 38.95 2.71
2932 3367 6.536582 CGATGGTGTCTTCATCTCTAATTGTT 59.463 38.462 0.00 0.00 38.95 2.83
2933 3368 7.065085 CGATGGTGTCTTCATCTCTAATTGTTT 59.935 37.037 0.00 0.00 38.95 2.83
2934 3369 8.641498 ATGGTGTCTTCATCTCTAATTGTTTT 57.359 30.769 0.00 0.00 0.00 2.43
2935 3370 8.463930 TGGTGTCTTCATCTCTAATTGTTTTT 57.536 30.769 0.00 0.00 0.00 1.94
2953 3388 1.798283 TTTTCGGGTGTACCATCACG 58.202 50.000 3.11 0.00 40.22 4.35
2954 3389 0.671163 TTTCGGGTGTACCATCACGC 60.671 55.000 3.11 0.00 44.20 5.34
2955 3390 1.537814 TTCGGGTGTACCATCACGCT 61.538 55.000 3.11 0.00 45.03 5.07
2956 3391 1.079405 CGGGTGTACCATCACGCTT 60.079 57.895 3.11 0.00 45.03 4.68
2957 3392 0.672401 CGGGTGTACCATCACGCTTT 60.672 55.000 3.11 0.00 45.03 3.51
2958 3393 1.530323 GGGTGTACCATCACGCTTTT 58.470 50.000 3.11 0.00 44.24 2.27
2959 3394 1.883926 GGGTGTACCATCACGCTTTTT 59.116 47.619 3.11 0.00 44.24 1.94
2960 3395 3.075884 GGGTGTACCATCACGCTTTTTA 58.924 45.455 3.11 0.00 44.24 1.52
2961 3396 3.692593 GGGTGTACCATCACGCTTTTTAT 59.307 43.478 3.11 0.00 44.24 1.40
2962 3397 4.201881 GGGTGTACCATCACGCTTTTTATC 60.202 45.833 3.11 0.00 44.24 1.75
2963 3398 4.201881 GGTGTACCATCACGCTTTTTATCC 60.202 45.833 0.00 0.00 39.00 2.59
2964 3399 4.634443 GTGTACCATCACGCTTTTTATCCT 59.366 41.667 0.00 0.00 0.00 3.24
2965 3400 4.634004 TGTACCATCACGCTTTTTATCCTG 59.366 41.667 0.00 0.00 0.00 3.86
2966 3401 2.423538 ACCATCACGCTTTTTATCCTGC 59.576 45.455 0.00 0.00 0.00 4.85
2967 3402 2.423185 CCATCACGCTTTTTATCCTGCA 59.577 45.455 0.00 0.00 0.00 4.41
2968 3403 3.067180 CCATCACGCTTTTTATCCTGCAT 59.933 43.478 0.00 0.00 0.00 3.96
2969 3404 4.275689 CCATCACGCTTTTTATCCTGCATA 59.724 41.667 0.00 0.00 0.00 3.14
2970 3405 5.221028 CCATCACGCTTTTTATCCTGCATAA 60.221 40.000 0.00 0.00 0.00 1.90
2971 3406 5.888691 TCACGCTTTTTATCCTGCATAAA 57.111 34.783 0.00 0.00 35.49 1.40
2972 3407 6.449635 TCACGCTTTTTATCCTGCATAAAT 57.550 33.333 0.00 0.00 36.91 1.40
2973 3408 6.494842 TCACGCTTTTTATCCTGCATAAATC 58.505 36.000 0.00 0.00 36.91 2.17
2974 3409 5.396362 CACGCTTTTTATCCTGCATAAATCG 59.604 40.000 0.00 0.00 36.91 3.34
2975 3410 4.911610 CGCTTTTTATCCTGCATAAATCGG 59.088 41.667 0.00 0.00 36.91 4.18
2976 3411 5.277779 CGCTTTTTATCCTGCATAAATCGGA 60.278 40.000 0.00 0.00 36.91 4.55
2977 3412 6.568462 CGCTTTTTATCCTGCATAAATCGGAT 60.568 38.462 7.91 7.91 36.91 4.18
2978 3413 7.147976 GCTTTTTATCCTGCATAAATCGGATT 58.852 34.615 8.09 0.00 36.91 3.01
2979 3414 7.115378 GCTTTTTATCCTGCATAAATCGGATTG 59.885 37.037 8.09 0.00 36.91 2.67
2980 3415 7.815840 TTTTATCCTGCATAAATCGGATTGA 57.184 32.000 8.09 0.00 36.91 2.57
2981 3416 6.801539 TTATCCTGCATAAATCGGATTGAC 57.198 37.500 8.09 0.00 37.45 3.18
2982 3417 4.422073 TCCTGCATAAATCGGATTGACT 57.578 40.909 3.59 0.00 0.00 3.41
2983 3418 5.545063 TCCTGCATAAATCGGATTGACTA 57.455 39.130 3.59 0.00 0.00 2.59
2984 3419 6.114187 TCCTGCATAAATCGGATTGACTAT 57.886 37.500 3.59 0.00 0.00 2.12
2985 3420 6.533730 TCCTGCATAAATCGGATTGACTATT 58.466 36.000 3.59 0.00 0.00 1.73
2986 3421 7.676004 TCCTGCATAAATCGGATTGACTATTA 58.324 34.615 3.59 0.00 0.00 0.98
2987 3422 7.819415 TCCTGCATAAATCGGATTGACTATTAG 59.181 37.037 3.59 1.06 0.00 1.73
2988 3423 7.819415 CCTGCATAAATCGGATTGACTATTAGA 59.181 37.037 3.59 0.00 0.00 2.10
2989 3424 9.376075 CTGCATAAATCGGATTGACTATTAGAT 57.624 33.333 3.59 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 7.707035 GGACAACATTAACCAACATGTAAACAA 59.293 33.333 0.00 0.00 33.11 2.83
40 41 4.499183 CATTTGTAGTGACTCTGGAGGAC 58.501 47.826 0.00 0.00 0.00 3.85
48 49 5.992217 ACAACTTCTCCATTTGTAGTGACTC 59.008 40.000 0.00 0.00 31.65 3.36
50 51 6.619801 AACAACTTCTCCATTTGTAGTGAC 57.380 37.500 0.00 0.00 33.10 3.67
63 64 3.813529 ATGCACGCTAAACAACTTCTC 57.186 42.857 0.00 0.00 0.00 2.87
77 78 5.571277 TCATCAACATGACAAATATGCACG 58.429 37.500 0.00 0.00 33.80 5.34
109 110 4.466828 CGTGGAGTGAATTTTGATGTGAC 58.533 43.478 0.00 0.00 0.00 3.67
120 121 0.243907 CAGACGACCGTGGAGTGAAT 59.756 55.000 0.00 0.00 0.00 2.57
136 137 1.200716 CCTTTACGTCGGCTACACAGA 59.799 52.381 0.00 0.00 0.00 3.41
170 171 3.818773 ACAACCAACATAACAGGTAGTGC 59.181 43.478 0.00 0.00 34.63 4.40
205 208 5.675684 AGGAGTGAACAACCAACATTTTT 57.324 34.783 0.00 0.00 0.00 1.94
206 209 5.675684 AAGGAGTGAACAACCAACATTTT 57.324 34.783 0.00 0.00 0.00 1.82
207 210 5.186797 TCAAAGGAGTGAACAACCAACATTT 59.813 36.000 0.00 0.00 0.00 2.32
208 211 4.709397 TCAAAGGAGTGAACAACCAACATT 59.291 37.500 0.00 0.00 0.00 2.71
226 229 6.750501 TCACGTTTATTATCTCGGTCTCAAAG 59.249 38.462 0.00 0.00 0.00 2.77
249 252 9.243637 CTCTTAAATTTGATTTGAAACCGTTCA 57.756 29.630 0.00 0.00 42.12 3.18
438 464 2.601067 TTGTACGAGTGGCCCGGA 60.601 61.111 0.73 0.00 0.00 5.14
441 467 1.375523 CACCTTGTACGAGTGGCCC 60.376 63.158 9.32 0.00 0.00 5.80
500 530 3.699894 CTCGCCTGCCTGTCACCT 61.700 66.667 0.00 0.00 0.00 4.00
970 1008 3.179265 CCACCGCGTCGCTGTAAG 61.179 66.667 14.10 5.39 0.00 2.34
1182 1220 3.678717 GAAGAGGCGCACGCTCGTA 62.679 63.158 15.36 0.00 41.60 3.43
1455 1493 2.815589 GCCCATTATGAAGATCGGCCTT 60.816 50.000 0.00 0.00 0.00 4.35
1461 1499 2.555757 GTGGCAGCCCATTATGAAGATC 59.444 50.000 9.64 0.00 44.51 2.75
1891 1929 3.330853 CTCCGCGGCGCAGTTATC 61.331 66.667 32.61 0.00 0.00 1.75
1892 1930 3.659089 AACTCCGCGGCGCAGTTAT 62.659 57.895 28.37 7.41 0.00 1.89
1904 1942 3.121030 CCTGCGCCTTGAACTCCG 61.121 66.667 4.18 0.00 0.00 4.63
1914 1952 4.681978 AAGTCCGTCACCTGCGCC 62.682 66.667 4.18 0.00 0.00 6.53
1971 2021 4.079850 CACAGCCTGCTCCTCGCT 62.080 66.667 0.00 0.00 40.11 4.93
2006 2056 1.864176 GCCGTTGTAACAACCTCCG 59.136 57.895 0.00 0.00 0.00 4.63
2097 2147 2.432628 GCCCGTCAGTCCAAGTCG 60.433 66.667 0.00 0.00 0.00 4.18
2178 2555 6.524101 TTCAAAAAGTGGGGATAATACTGC 57.476 37.500 0.00 0.00 0.00 4.40
2198 2575 5.655488 ACAAACGTGACAAAAATCCATTCA 58.345 33.333 0.00 0.00 0.00 2.57
2210 2587 5.388408 AAAGGGTAAAAACAAACGTGACA 57.612 34.783 0.00 0.00 0.00 3.58
2211 2588 6.527089 CAAAAAGGGTAAAAACAAACGTGAC 58.473 36.000 0.00 0.00 0.00 3.67
2248 2626 9.321562 TGCTTTTATATTAGTTTACGGAAGGAG 57.678 33.333 0.00 0.00 0.00 3.69
2249 2627 9.841295 ATGCTTTTATATTAGTTTACGGAAGGA 57.159 29.630 0.00 0.00 0.00 3.36
2290 2668 9.439500 ACAAATATAAAAGCGTTTAGGTCACTA 57.561 29.630 10.55 0.00 32.76 2.74
2291 2669 8.331730 ACAAATATAAAAGCGTTTAGGTCACT 57.668 30.769 10.55 0.00 32.76 3.41
2292 2670 8.959734 AACAAATATAAAAGCGTTTAGGTCAC 57.040 30.769 10.55 0.00 32.76 3.67
2299 2677 9.620660 CCTCTGTAAACAAATATAAAAGCGTTT 57.379 29.630 2.53 2.53 0.00 3.60
2300 2678 8.241367 CCCTCTGTAAACAAATATAAAAGCGTT 58.759 33.333 0.00 0.00 0.00 4.84
2301 2679 7.608761 TCCCTCTGTAAACAAATATAAAAGCGT 59.391 33.333 0.00 0.00 0.00 5.07
2302 2680 7.981142 TCCCTCTGTAAACAAATATAAAAGCG 58.019 34.615 0.00 0.00 0.00 4.68
2303 2681 8.957466 ACTCCCTCTGTAAACAAATATAAAAGC 58.043 33.333 0.00 0.00 0.00 3.51
2313 2691 9.070179 GGTAAAAATTACTCCCTCTGTAAACAA 57.930 33.333 0.80 0.00 34.20 2.83
2314 2692 8.219178 TGGTAAAAATTACTCCCTCTGTAAACA 58.781 33.333 0.80 0.00 34.20 2.83
2315 2693 8.625786 TGGTAAAAATTACTCCCTCTGTAAAC 57.374 34.615 0.80 0.00 34.20 2.01
2316 2694 9.070179 GTTGGTAAAAATTACTCCCTCTGTAAA 57.930 33.333 0.80 0.00 34.20 2.01
2317 2695 8.442374 AGTTGGTAAAAATTACTCCCTCTGTAA 58.558 33.333 0.80 0.00 34.87 2.41
2318 2696 7.981142 AGTTGGTAAAAATTACTCCCTCTGTA 58.019 34.615 0.80 0.00 0.00 2.74
2319 2697 6.849151 AGTTGGTAAAAATTACTCCCTCTGT 58.151 36.000 0.80 0.00 0.00 3.41
2320 2698 7.336176 GGTAGTTGGTAAAAATTACTCCCTCTG 59.664 40.741 0.80 0.00 0.00 3.35
2321 2699 7.400439 GGTAGTTGGTAAAAATTACTCCCTCT 58.600 38.462 0.80 0.00 0.00 3.69
2322 2700 6.314648 CGGTAGTTGGTAAAAATTACTCCCTC 59.685 42.308 0.80 0.00 0.00 4.30
2323 2701 6.175471 CGGTAGTTGGTAAAAATTACTCCCT 58.825 40.000 0.80 0.00 0.00 4.20
2324 2702 5.355071 CCGGTAGTTGGTAAAAATTACTCCC 59.645 44.000 0.00 0.00 0.00 4.30
2325 2703 5.163723 GCCGGTAGTTGGTAAAAATTACTCC 60.164 44.000 1.90 0.00 0.00 3.85
2326 2704 5.446340 CGCCGGTAGTTGGTAAAAATTACTC 60.446 44.000 1.90 0.00 0.00 2.59
2327 2705 4.392754 CGCCGGTAGTTGGTAAAAATTACT 59.607 41.667 1.90 0.00 0.00 2.24
2328 2706 4.437255 CCGCCGGTAGTTGGTAAAAATTAC 60.437 45.833 1.90 0.00 0.00 1.89
2341 2719 2.358247 CAAGTTGCCGCCGGTAGT 60.358 61.111 4.45 0.00 0.00 2.73
2368 2746 6.299966 CGAACTTTCTAATTGTAACAAGCACG 59.700 38.462 0.00 0.00 0.00 5.34
2404 2782 8.718656 AGGTAGCCATGAAAATAAGATAAGAGT 58.281 33.333 0.00 0.00 0.00 3.24
2408 2786 7.719633 GGTGAGGTAGCCATGAAAATAAGATAA 59.280 37.037 0.00 0.00 0.00 1.75
2409 2787 7.224297 GGTGAGGTAGCCATGAAAATAAGATA 58.776 38.462 0.00 0.00 0.00 1.98
2415 2793 3.018423 GGGTGAGGTAGCCATGAAAAT 57.982 47.619 0.00 0.00 46.44 1.82
2429 2807 2.255770 ACTAGAAGGGAAGGGGTGAG 57.744 55.000 0.00 0.00 0.00 3.51
2430 2808 3.842436 GTTTACTAGAAGGGAAGGGGTGA 59.158 47.826 0.00 0.00 0.00 4.02
2443 2821 5.419542 CAGCATGCCTTACAGTTTACTAGA 58.580 41.667 15.66 0.00 0.00 2.43
2464 2842 6.651755 TTTTTCAGCAAAAGAAAGAAGCAG 57.348 33.333 0.00 0.00 36.45 4.24
2513 2893 1.467734 GTCGTGTATGAGAGACCGTGT 59.532 52.381 0.00 0.00 0.00 4.49
2518 2898 5.641709 TGATCAAAGTCGTGTATGAGAGAC 58.358 41.667 0.00 0.00 0.00 3.36
2519 2899 5.897377 TGATCAAAGTCGTGTATGAGAGA 57.103 39.130 0.00 0.00 0.00 3.10
2520 2900 8.634475 TTAATGATCAAAGTCGTGTATGAGAG 57.366 34.615 0.00 0.00 0.00 3.20
2621 3055 8.292448 GTCTACAAATTGGTATGAAGGCATATG 58.708 37.037 0.00 0.00 39.09 1.78
2710 3145 4.199310 CTCCCTCCTTCGCAAAATATCAA 58.801 43.478 0.00 0.00 0.00 2.57
2712 3147 3.809905 ACTCCCTCCTTCGCAAAATATC 58.190 45.455 0.00 0.00 0.00 1.63
2742 3177 5.064071 GTGCTTCAAATTCTACTAGCAGGTC 59.936 44.000 0.00 0.00 39.08 3.85
2764 3199 2.425773 GTGAGCAAAGCACGCGTG 60.426 61.111 34.01 34.01 0.00 5.34
2765 3200 3.649986 GGTGAGCAAAGCACGCGT 61.650 61.111 5.58 5.58 37.13 6.01
2766 3201 4.724697 CGGTGAGCAAAGCACGCG 62.725 66.667 3.53 3.53 37.13 6.01
2767 3202 2.662091 AAACGGTGAGCAAAGCACGC 62.662 55.000 0.00 0.00 37.13 5.34
2768 3203 0.657368 GAAACGGTGAGCAAAGCACG 60.657 55.000 0.00 0.00 37.13 5.34
2769 3204 0.663153 AGAAACGGTGAGCAAAGCAC 59.337 50.000 0.00 0.00 35.56 4.40
2770 3205 0.944386 GAGAAACGGTGAGCAAAGCA 59.056 50.000 0.00 0.00 0.00 3.91
2771 3206 0.110644 CGAGAAACGGTGAGCAAAGC 60.111 55.000 0.00 0.00 38.46 3.51
2792 3227 0.308376 GCCCGTAAAAACACTCGCAA 59.692 50.000 0.00 0.00 0.00 4.85
2842 3277 8.119226 CAGTTCAGTTTGACTCTTCACTTTTAG 58.881 37.037 0.00 0.00 0.00 1.85
2848 3283 5.112686 ACTCAGTTCAGTTTGACTCTTCAC 58.887 41.667 0.00 0.00 0.00 3.18
2849 3284 5.344743 ACTCAGTTCAGTTTGACTCTTCA 57.655 39.130 0.00 0.00 0.00 3.02
2850 3285 5.812642 TCAACTCAGTTCAGTTTGACTCTTC 59.187 40.000 0.00 0.00 34.17 2.87
2851 3286 5.734720 TCAACTCAGTTCAGTTTGACTCTT 58.265 37.500 0.00 0.00 34.17 2.85
2853 3288 5.107683 CGATCAACTCAGTTCAGTTTGACTC 60.108 44.000 0.00 0.00 34.17 3.36
2854 3289 4.747108 CGATCAACTCAGTTCAGTTTGACT 59.253 41.667 0.00 0.00 34.17 3.41
2855 3290 4.745125 TCGATCAACTCAGTTCAGTTTGAC 59.255 41.667 0.00 0.00 34.17 3.18
2856 3291 4.944048 TCGATCAACTCAGTTCAGTTTGA 58.056 39.130 0.00 0.00 34.17 2.69
2857 3292 5.852738 ATCGATCAACTCAGTTCAGTTTG 57.147 39.130 0.00 0.00 34.17 2.93
2858 3293 8.553459 AAATATCGATCAACTCAGTTCAGTTT 57.447 30.769 0.00 0.00 34.17 2.66
2859 3294 8.190888 GAAATATCGATCAACTCAGTTCAGTT 57.809 34.615 0.00 0.00 37.05 3.16
2860 3295 7.763172 GAAATATCGATCAACTCAGTTCAGT 57.237 36.000 0.00 0.00 0.00 3.41
2879 3314 9.985730 ACGTCATAACCTAATAAATCCGAAATA 57.014 29.630 0.00 0.00 0.00 1.40
2880 3315 8.897872 ACGTCATAACCTAATAAATCCGAAAT 57.102 30.769 0.00 0.00 0.00 2.17
2881 3316 8.721019 AACGTCATAACCTAATAAATCCGAAA 57.279 30.769 0.00 0.00 0.00 3.46
2882 3317 7.167968 CGAACGTCATAACCTAATAAATCCGAA 59.832 37.037 0.00 0.00 0.00 4.30
2883 3318 6.638063 CGAACGTCATAACCTAATAAATCCGA 59.362 38.462 0.00 0.00 0.00 4.55
2884 3319 6.638063 TCGAACGTCATAACCTAATAAATCCG 59.362 38.462 0.00 0.00 0.00 4.18
2885 3320 7.935338 TCGAACGTCATAACCTAATAAATCC 57.065 36.000 0.00 0.00 0.00 3.01
2886 3321 8.433126 CCATCGAACGTCATAACCTAATAAATC 58.567 37.037 0.00 0.00 0.00 2.17
2887 3322 7.929785 ACCATCGAACGTCATAACCTAATAAAT 59.070 33.333 0.00 0.00 0.00 1.40
2888 3323 7.223193 CACCATCGAACGTCATAACCTAATAAA 59.777 37.037 0.00 0.00 0.00 1.40
2889 3324 6.698329 CACCATCGAACGTCATAACCTAATAA 59.302 38.462 0.00 0.00 0.00 1.40
2890 3325 6.183360 ACACCATCGAACGTCATAACCTAATA 60.183 38.462 0.00 0.00 0.00 0.98
2891 3326 5.047847 CACCATCGAACGTCATAACCTAAT 58.952 41.667 0.00 0.00 0.00 1.73
2892 3327 4.082081 ACACCATCGAACGTCATAACCTAA 60.082 41.667 0.00 0.00 0.00 2.69
2893 3328 3.444742 ACACCATCGAACGTCATAACCTA 59.555 43.478 0.00 0.00 0.00 3.08
2894 3329 2.232941 ACACCATCGAACGTCATAACCT 59.767 45.455 0.00 0.00 0.00 3.50
2895 3330 2.601763 GACACCATCGAACGTCATAACC 59.398 50.000 0.00 0.00 0.00 2.85
2896 3331 3.508762 AGACACCATCGAACGTCATAAC 58.491 45.455 0.00 0.00 0.00 1.89
2897 3332 3.861276 AGACACCATCGAACGTCATAA 57.139 42.857 0.00 0.00 0.00 1.90
2898 3333 3.191791 TGAAGACACCATCGAACGTCATA 59.808 43.478 0.00 0.00 0.00 2.15
2899 3334 2.029380 TGAAGACACCATCGAACGTCAT 60.029 45.455 0.00 0.00 0.00 3.06
2900 3335 1.338655 TGAAGACACCATCGAACGTCA 59.661 47.619 0.00 0.00 0.00 4.35
2901 3336 2.060326 TGAAGACACCATCGAACGTC 57.940 50.000 0.00 0.00 0.00 4.34
2902 3337 2.231478 AGATGAAGACACCATCGAACGT 59.769 45.455 0.00 0.00 43.73 3.99
2903 3338 2.854777 GAGATGAAGACACCATCGAACG 59.145 50.000 0.00 0.00 43.73 3.95
2904 3339 4.116747 AGAGATGAAGACACCATCGAAC 57.883 45.455 0.00 0.00 43.73 3.95
2905 3340 5.914898 TTAGAGATGAAGACACCATCGAA 57.085 39.130 0.00 0.00 43.73 3.71
2906 3341 6.127338 ACAATTAGAGATGAAGACACCATCGA 60.127 38.462 0.00 0.00 43.73 3.59
2907 3342 6.045318 ACAATTAGAGATGAAGACACCATCG 58.955 40.000 0.00 0.00 43.73 3.84
2908 3343 7.856145 AACAATTAGAGATGAAGACACCATC 57.144 36.000 0.00 0.00 40.40 3.51
2909 3344 8.641498 AAAACAATTAGAGATGAAGACACCAT 57.359 30.769 0.00 0.00 0.00 3.55
2910 3345 8.463930 AAAAACAATTAGAGATGAAGACACCA 57.536 30.769 0.00 0.00 0.00 4.17
2943 3378 4.495844 GCAGGATAAAAAGCGTGATGGTAC 60.496 45.833 0.00 0.00 0.00 3.34
2944 3379 3.625764 GCAGGATAAAAAGCGTGATGGTA 59.374 43.478 0.00 0.00 0.00 3.25
2945 3380 2.423538 GCAGGATAAAAAGCGTGATGGT 59.576 45.455 0.00 0.00 0.00 3.55
2946 3381 2.423185 TGCAGGATAAAAAGCGTGATGG 59.577 45.455 0.00 0.00 0.00 3.51
2947 3382 3.763097 TGCAGGATAAAAAGCGTGATG 57.237 42.857 0.00 0.00 0.00 3.07
2948 3383 6.449635 TTTATGCAGGATAAAAAGCGTGAT 57.550 33.333 4.69 0.00 34.21 3.06
2949 3384 5.888691 TTTATGCAGGATAAAAAGCGTGA 57.111 34.783 4.69 0.00 34.21 4.35
2950 3385 5.396362 CGATTTATGCAGGATAAAAAGCGTG 59.604 40.000 10.81 0.00 39.46 5.34
2951 3386 5.505654 CCGATTTATGCAGGATAAAAAGCGT 60.506 40.000 10.81 0.00 39.46 5.07
2952 3387 4.911610 CCGATTTATGCAGGATAAAAAGCG 59.088 41.667 10.81 13.30 39.46 4.68
2953 3388 6.072112 TCCGATTTATGCAGGATAAAAAGC 57.928 37.500 10.81 3.94 39.46 3.51
2954 3389 8.352201 TCAATCCGATTTATGCAGGATAAAAAG 58.648 33.333 10.81 7.96 42.17 2.27
2955 3390 8.134895 GTCAATCCGATTTATGCAGGATAAAAA 58.865 33.333 10.81 0.00 42.17 1.94
2956 3391 7.502226 AGTCAATCCGATTTATGCAGGATAAAA 59.498 33.333 10.81 0.00 42.17 1.52
2957 3392 6.998074 AGTCAATCCGATTTATGCAGGATAAA 59.002 34.615 9.34 9.34 42.17 1.40
2958 3393 6.533730 AGTCAATCCGATTTATGCAGGATAA 58.466 36.000 3.54 0.00 42.17 1.75
2959 3394 6.114187 AGTCAATCCGATTTATGCAGGATA 57.886 37.500 3.54 0.00 42.17 2.59
2960 3395 4.978099 AGTCAATCCGATTTATGCAGGAT 58.022 39.130 0.00 0.00 44.64 3.24
2961 3396 4.422073 AGTCAATCCGATTTATGCAGGA 57.578 40.909 0.00 0.00 37.17 3.86
2962 3397 6.808008 AATAGTCAATCCGATTTATGCAGG 57.192 37.500 0.00 0.00 0.00 4.85
2963 3398 8.763049 TCTAATAGTCAATCCGATTTATGCAG 57.237 34.615 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.