Multiple sequence alignment - TraesCS2A01G294800

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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 TraesCS2A01G294800 chr2A 100.000 3261 0 0 1 3261 507427713 507430973 0.000000e+00 6023.0
1 TraesCS2A01G294800 chr2A 84.337 166 24 2 2884 3048 278942295 278942459 9.360000e-36 161.0
2 TraesCS2A01G294800 chr2B 90.195 2774 150 55 14 2726 445249999 445252711 0.000000e+00 3504.0
3 TraesCS2A01G294800 chr2B 88.000 150 15 3 3104 3250 445256144 445256293 1.200000e-39 174.0
4 TraesCS2A01G294800 chr2D 91.350 1526 59 33 133 1616 375145157 375146651 0.000000e+00 2019.0
5 TraesCS2A01G294800 chr2D 90.930 1279 52 26 1609 2830 375146728 375147999 0.000000e+00 1661.0
6 TraesCS2A01G294800 chr2D 89.655 145 14 1 3104 3248 375148056 375148199 2.000000e-42 183.0
7 TraesCS2A01G294800 chr2D 100.000 51 0 0 86 136 375145081 375145131 9.630000e-16 95.3
8 TraesCS2A01G294800 chr4A 92.647 136 10 0 1526 1661 667247957 667248092 2.570000e-46 196.0
9 TraesCS2A01G294800 chr4A 92.647 136 10 0 1526 1661 667269993 667270128 2.570000e-46 196.0
10 TraesCS2A01G294800 chr4A 91.912 136 11 0 1526 1661 667293545 667293680 1.190000e-44 191.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G294800 chr2A 507427713 507430973 3260 False 6023.000 6023 100.00000 1 3261 1 chr2A.!!$F2 3260
1 TraesCS2A01G294800 chr2B 445249999 445256293 6294 False 1839.000 3504 89.09750 14 3250 2 chr2B.!!$F1 3236
2 TraesCS2A01G294800 chr2D 375145081 375148199 3118 False 989.575 2019 92.98375 86 3248 4 chr2D.!!$F1 3162

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
503 547 0.546122 CTGCCCTGCCCTGTGTATAA 59.454 55.0 0.00 0.00 0.00 0.98 F
1016 1088 0.395311 AAGATGGGGAGTACTCGCGA 60.395 55.0 27.68 25.58 42.66 5.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1349 1422 0.660595 CTACGAGGGTAGCATTCGCG 60.661 60.0 15.21 0.00 45.49 5.87 R
2938 6488 0.034059 CGGGGCTATCAAGGTAGCAG 59.966 60.0 13.80 1.82 46.97 4.24 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
23 24 5.000012 AGATCAAGTACTCATTGACGACC 58.000 43.478 0.00 0.00 39.36 4.79
45 46 2.476051 GAGGAACGCACGTGCATG 59.524 61.111 37.03 25.09 42.21 4.06
46 47 3.027170 GAGGAACGCACGTGCATGG 62.027 63.158 37.03 24.38 42.21 3.66
58 59 1.456923 CGTGCATGGCATATCTACACG 59.543 52.381 18.04 18.04 41.91 4.49
61 62 4.055360 GTGCATGGCATATCTACACGTAA 58.945 43.478 0.00 0.00 41.91 3.18
77 78 1.984990 CGTAAATGCATGTGTGGCAAC 59.015 47.619 0.00 0.00 45.60 4.17
154 185 5.607171 CGGCCCCTCCTAATTCCTATATATT 59.393 44.000 0.00 0.00 0.00 1.28
204 240 0.741221 AGAGCGCGGGAAGAATTGAC 60.741 55.000 8.83 0.00 0.00 3.18
361 397 1.936203 GCATGCACGGTGAAATTGCTT 60.936 47.619 14.21 0.00 37.16 3.91
363 399 2.987413 TGCACGGTGAAATTGCTTAG 57.013 45.000 13.29 0.00 37.16 2.18
440 479 1.071605 GCACCGTAACTCTCTGCAAG 58.928 55.000 0.00 0.00 0.00 4.01
441 480 1.071605 CACCGTAACTCTCTGCAAGC 58.928 55.000 0.00 0.00 0.00 4.01
442 481 0.679505 ACCGTAACTCTCTGCAAGCA 59.320 50.000 0.00 0.00 0.00 3.91
443 482 1.070134 ACCGTAACTCTCTGCAAGCAA 59.930 47.619 0.00 0.00 0.00 3.91
503 547 0.546122 CTGCCCTGCCCTGTGTATAA 59.454 55.000 0.00 0.00 0.00 0.98
514 558 5.070446 TGCCCTGTGTATAAATAGGAGACTG 59.930 44.000 7.27 0.00 43.88 3.51
519 563 5.304614 TGTGTATAAATAGGAGACTGGAGCC 59.695 44.000 0.00 0.00 43.88 4.70
520 564 5.304614 GTGTATAAATAGGAGACTGGAGCCA 59.695 44.000 0.00 0.00 43.88 4.75
607 651 4.211986 GAGAGCTCGAGGTCGACT 57.788 61.111 32.31 19.61 46.33 4.18
690 734 3.119225 GGCCTACGACCTCATCTCT 57.881 57.895 0.00 0.00 0.00 3.10
768 820 1.521681 CGAATCGCCTCACCTTCCC 60.522 63.158 0.00 0.00 0.00 3.97
804 856 2.159028 GGACCTTGCATCTCCAGTAGAC 60.159 54.545 0.00 0.00 36.93 2.59
805 857 2.763448 GACCTTGCATCTCCAGTAGACT 59.237 50.000 0.00 0.00 36.93 3.24
949 1021 6.016276 CCCCTATTTATTTGCGCATTCTACTT 60.016 38.462 12.75 0.00 0.00 2.24
1016 1088 0.395311 AAGATGGGGAGTACTCGCGA 60.395 55.000 27.68 25.58 42.66 5.87
1142 1215 4.502645 GGTTCGGATTTCACTGTGTTTTTG 59.497 41.667 7.79 0.00 0.00 2.44
1211 1284 0.901580 TTGGGTACACCGGTCCTCTC 60.902 60.000 2.59 0.00 44.64 3.20
1298 1371 3.371034 TCCGGTTGATATCAAGACCAGA 58.629 45.455 18.47 12.55 36.39 3.86
1340 1413 2.674220 GGGGCCTCTTCACAGGGAG 61.674 68.421 0.84 0.00 33.58 4.30
1349 1422 1.823169 TTCACAGGGAGTACACCGCC 61.823 60.000 3.06 0.00 0.00 6.13
1402 1475 2.351726 ACATCGCGGTAATTTTGCTCTC 59.648 45.455 6.13 0.00 0.00 3.20
1481 1585 2.095213 TGCGTTTCACTGTGTTCTTGTC 59.905 45.455 7.79 0.00 0.00 3.18
1565 1669 2.548480 GGTGAAGTACAAGCTGGACAAC 59.452 50.000 0.00 0.00 32.29 3.32
1744 1934 4.517075 TGATCCTCAAAACGTTTGTATGCA 59.483 37.500 15.46 4.90 0.00 3.96
1759 1949 4.983090 GCATTGACTGCGGATTCG 57.017 55.556 0.00 0.00 41.97 3.34
1992 2182 4.824166 CGGCAGGGTACGTCGTCG 62.824 72.222 0.00 0.00 43.34 5.12
2120 2324 1.267574 GGTGCAGGTGAGGGAGATGA 61.268 60.000 0.00 0.00 0.00 2.92
2264 2469 3.617143 AACGGGAAGCCGTAAGCCC 62.617 63.158 0.00 0.00 46.11 5.19
2306 2511 5.469084 CGATGTTTGGAGATGATGATGATGT 59.531 40.000 0.00 0.00 0.00 3.06
2390 2597 4.809426 GCAAGTCGTGTTAGCATATAGGTT 59.191 41.667 0.00 0.00 0.00 3.50
2406 2636 7.576236 CATATAGGTTTGCTTTATCGGTCTTG 58.424 38.462 0.00 0.00 0.00 3.02
2443 2673 8.150296 GGTTAAGTAAGTGTTAGGTCTTTGGTA 58.850 37.037 0.00 0.00 0.00 3.25
2456 2686 4.338400 GGTCTTTGGTATCTGTAAATGGGC 59.662 45.833 0.00 0.00 0.00 5.36
2458 2688 4.017958 TCTTTGGTATCTGTAAATGGGCCA 60.018 41.667 9.61 9.61 0.00 5.36
2531 2765 9.878599 CTAATCAACAAAGTTTCACTTTACGAT 57.121 29.630 1.60 2.66 45.84 3.73
2570 2804 1.287730 CTGTGCGTCTTGCTCTGACC 61.288 60.000 0.00 0.00 46.63 4.02
2575 2809 1.803519 GTCTTGCTCTGACCTCGCG 60.804 63.158 0.00 0.00 0.00 5.87
2643 2883 1.135024 TCGTAACGAGAAATTCCCCCG 60.135 52.381 0.00 0.00 0.00 5.73
2655 2895 3.929955 ATTCCCCCGAAAAATACCGTA 57.070 42.857 0.00 0.00 0.00 4.02
2780 4147 6.264067 TCCTTATAGGAAACTTACGTAGCCTC 59.736 42.308 0.00 0.00 42.51 4.70
2787 4154 3.975168 ACTTACGTAGCCTCATTTGGT 57.025 42.857 0.00 0.00 0.00 3.67
2795 4163 2.800250 AGCCTCATTTGGTTGGAAGAG 58.200 47.619 0.00 0.00 0.00 2.85
2835 4223 3.897505 CACCCTCTGAAATTGGGAGTTTT 59.102 43.478 6.71 0.00 43.47 2.43
2840 4228 6.010219 CCTCTGAAATTGGGAGTTTTAGGAA 58.990 40.000 0.00 0.00 0.00 3.36
2844 4232 5.773176 TGAAATTGGGAGTTTTAGGAAGGAC 59.227 40.000 0.00 0.00 0.00 3.85
2847 4235 3.593942 TGGGAGTTTTAGGAAGGACAGA 58.406 45.455 0.00 0.00 0.00 3.41
2854 4242 7.664318 GGAGTTTTAGGAAGGACAGAAACATAA 59.336 37.037 0.00 0.00 31.36 1.90
2866 6416 6.311935 GGACAGAAACATAACATTACGTAGCA 59.688 38.462 0.00 0.00 0.00 3.49
2867 6417 7.057149 ACAGAAACATAACATTACGTAGCAC 57.943 36.000 0.00 0.00 0.00 4.40
2884 6434 0.996462 CACGTTATGCAGGTGTACGG 59.004 55.000 11.62 0.95 36.65 4.02
2885 6435 0.604578 ACGTTATGCAGGTGTACGGT 59.395 50.000 11.62 0.00 36.60 4.83
2886 6436 0.996462 CGTTATGCAGGTGTACGGTG 59.004 55.000 0.00 0.00 0.00 4.94
2887 6437 0.725117 GTTATGCAGGTGTACGGTGC 59.275 55.000 6.90 6.90 37.73 5.01
2889 6439 2.280524 TGCAGGTGTACGGTGCAC 60.281 61.111 19.34 19.34 42.20 4.57
2890 6440 2.030562 GCAGGTGTACGGTGCACT 59.969 61.111 24.89 11.25 37.16 4.40
2891 6441 2.317609 GCAGGTGTACGGTGCACTG 61.318 63.158 24.22 24.22 37.16 3.66
2892 6442 1.365999 CAGGTGTACGGTGCACTGA 59.634 57.895 31.98 12.82 37.07 3.41
2893 6443 0.667487 CAGGTGTACGGTGCACTGAG 60.667 60.000 31.98 17.86 37.07 3.35
2894 6444 2.027625 GGTGTACGGTGCACTGAGC 61.028 63.158 31.98 21.76 45.96 4.26
2895 6445 1.006102 GTGTACGGTGCACTGAGCT 60.006 57.895 31.98 12.53 45.94 4.09
2896 6446 0.242825 GTGTACGGTGCACTGAGCTA 59.757 55.000 31.98 11.44 45.94 3.32
2897 6447 0.526211 TGTACGGTGCACTGAGCTAG 59.474 55.000 31.98 9.65 45.94 3.42
2898 6448 0.179134 GTACGGTGCACTGAGCTAGG 60.179 60.000 31.98 6.44 45.94 3.02
2899 6449 0.323087 TACGGTGCACTGAGCTAGGA 60.323 55.000 31.98 5.13 45.94 2.94
2900 6450 1.153745 CGGTGCACTGAGCTAGGAC 60.154 63.158 21.59 0.00 45.94 3.85
2901 6451 1.153745 GGTGCACTGAGCTAGGACG 60.154 63.158 17.98 0.00 45.94 4.79
2902 6452 1.595993 GGTGCACTGAGCTAGGACGA 61.596 60.000 17.98 0.00 45.94 4.20
2903 6453 0.457851 GTGCACTGAGCTAGGACGAT 59.542 55.000 10.32 0.00 45.94 3.73
2904 6454 0.741326 TGCACTGAGCTAGGACGATC 59.259 55.000 0.00 0.00 45.94 3.69
2905 6455 0.317436 GCACTGAGCTAGGACGATCG 60.317 60.000 14.88 14.88 41.15 3.69
2906 6456 1.300481 CACTGAGCTAGGACGATCGA 58.700 55.000 24.34 0.00 0.00 3.59
2907 6457 1.003331 CACTGAGCTAGGACGATCGAC 60.003 57.143 24.34 16.38 0.00 4.20
2908 6458 1.300481 CTGAGCTAGGACGATCGACA 58.700 55.000 24.34 0.00 0.00 4.35
2909 6459 1.876799 CTGAGCTAGGACGATCGACAT 59.123 52.381 24.34 16.55 0.00 3.06
2910 6460 3.067833 CTGAGCTAGGACGATCGACATA 58.932 50.000 24.34 16.82 0.00 2.29
2911 6461 3.067833 TGAGCTAGGACGATCGACATAG 58.932 50.000 26.81 26.81 0.00 2.23
2912 6462 2.417239 GAGCTAGGACGATCGACATAGG 59.583 54.545 29.87 17.43 0.00 2.57
2913 6463 1.469308 GCTAGGACGATCGACATAGGG 59.531 57.143 29.87 14.76 0.00 3.53
2914 6464 2.874861 GCTAGGACGATCGACATAGGGA 60.875 54.545 29.87 6.79 0.00 4.20
2915 6465 1.898902 AGGACGATCGACATAGGGAG 58.101 55.000 24.34 0.00 0.00 4.30
2916 6466 1.420514 AGGACGATCGACATAGGGAGA 59.579 52.381 24.34 0.00 0.00 3.71
2917 6467 1.536331 GGACGATCGACATAGGGAGAC 59.464 57.143 24.34 0.00 0.00 3.36
2930 6480 3.775654 GAGACCACCGGCTGGGAG 61.776 72.222 18.00 9.17 45.78 4.30
2944 6494 4.228567 GGAGCCGCCCTCTGCTAC 62.229 72.222 2.06 0.00 40.57 3.58
2945 6495 4.228567 GAGCCGCCCTCTGCTACC 62.229 72.222 0.00 0.00 38.11 3.18
2946 6496 4.787280 AGCCGCCCTCTGCTACCT 62.787 66.667 0.00 0.00 35.69 3.08
2947 6497 3.787001 GCCGCCCTCTGCTACCTT 61.787 66.667 0.00 0.00 38.05 3.50
2948 6498 2.187946 CCGCCCTCTGCTACCTTG 59.812 66.667 0.00 0.00 38.05 3.61
2949 6499 2.359169 CCGCCCTCTGCTACCTTGA 61.359 63.158 0.00 0.00 38.05 3.02
2950 6500 1.690219 CCGCCCTCTGCTACCTTGAT 61.690 60.000 0.00 0.00 38.05 2.57
2951 6501 1.040646 CGCCCTCTGCTACCTTGATA 58.959 55.000 0.00 0.00 38.05 2.15
2952 6502 1.000283 CGCCCTCTGCTACCTTGATAG 60.000 57.143 0.00 0.00 38.05 2.08
2953 6503 1.270571 GCCCTCTGCTACCTTGATAGC 60.271 57.143 0.00 0.00 46.58 2.97
2954 6504 1.346068 CCCTCTGCTACCTTGATAGCC 59.654 57.143 2.51 0.00 45.95 3.93
2955 6505 1.346068 CCTCTGCTACCTTGATAGCCC 59.654 57.143 2.51 0.00 45.95 5.19
2956 6506 1.346068 CTCTGCTACCTTGATAGCCCC 59.654 57.143 2.51 0.00 45.95 5.80
2957 6507 0.034059 CTGCTACCTTGATAGCCCCG 59.966 60.000 2.51 0.00 45.95 5.73
2958 6508 1.301795 GCTACCTTGATAGCCCCGC 60.302 63.158 0.00 0.00 41.55 6.13
2959 6509 1.759459 GCTACCTTGATAGCCCCGCT 61.759 60.000 0.00 0.00 41.55 5.52
2960 6510 1.629043 CTACCTTGATAGCCCCGCTA 58.371 55.000 0.00 0.00 45.55 4.26
2961 6511 1.546476 CTACCTTGATAGCCCCGCTAG 59.454 57.143 0.00 0.00 44.66 3.42
2962 6512 0.398664 ACCTTGATAGCCCCGCTAGT 60.399 55.000 0.00 0.00 44.66 2.57
2963 6513 0.318762 CCTTGATAGCCCCGCTAGTC 59.681 60.000 0.00 0.00 44.66 2.59
2964 6514 1.040646 CTTGATAGCCCCGCTAGTCA 58.959 55.000 0.00 1.74 44.66 3.41
2965 6515 1.620819 CTTGATAGCCCCGCTAGTCAT 59.379 52.381 0.00 0.00 44.66 3.06
2966 6516 1.717032 TGATAGCCCCGCTAGTCATT 58.283 50.000 0.00 0.00 44.66 2.57
2967 6517 1.344438 TGATAGCCCCGCTAGTCATTG 59.656 52.381 0.00 0.00 44.66 2.82
2968 6518 0.687354 ATAGCCCCGCTAGTCATTGG 59.313 55.000 0.00 0.00 44.66 3.16
2969 6519 0.689745 TAGCCCCGCTAGTCATTGGT 60.690 55.000 0.00 0.00 40.44 3.67
2970 6520 1.819632 GCCCCGCTAGTCATTGGTG 60.820 63.158 0.00 0.00 0.00 4.17
2971 6521 1.819632 CCCCGCTAGTCATTGGTGC 60.820 63.158 0.00 0.00 0.00 5.01
2972 6522 1.221840 CCCGCTAGTCATTGGTGCT 59.778 57.895 0.00 0.00 0.00 4.40
2973 6523 1.091771 CCCGCTAGTCATTGGTGCTG 61.092 60.000 0.00 0.00 0.00 4.41
2974 6524 1.091771 CCGCTAGTCATTGGTGCTGG 61.092 60.000 0.00 0.00 0.00 4.85
2975 6525 0.391661 CGCTAGTCATTGGTGCTGGT 60.392 55.000 0.00 0.00 0.00 4.00
2976 6526 1.826385 GCTAGTCATTGGTGCTGGTT 58.174 50.000 0.00 0.00 0.00 3.67
2977 6527 2.676750 CGCTAGTCATTGGTGCTGGTTA 60.677 50.000 0.00 0.00 0.00 2.85
2978 6528 3.545703 GCTAGTCATTGGTGCTGGTTAT 58.454 45.455 0.00 0.00 0.00 1.89
2979 6529 3.313526 GCTAGTCATTGGTGCTGGTTATG 59.686 47.826 0.00 0.00 0.00 1.90
2980 6530 3.439857 AGTCATTGGTGCTGGTTATGT 57.560 42.857 0.00 0.00 0.00 2.29
2981 6531 3.766545 AGTCATTGGTGCTGGTTATGTT 58.233 40.909 0.00 0.00 0.00 2.71
2982 6532 4.151883 AGTCATTGGTGCTGGTTATGTTT 58.848 39.130 0.00 0.00 0.00 2.83
2983 6533 4.218417 AGTCATTGGTGCTGGTTATGTTTC 59.782 41.667 0.00 0.00 0.00 2.78
2984 6534 4.022416 GTCATTGGTGCTGGTTATGTTTCA 60.022 41.667 0.00 0.00 0.00 2.69
2985 6535 4.218200 TCATTGGTGCTGGTTATGTTTCAG 59.782 41.667 0.00 0.00 0.00 3.02
2989 6539 2.989422 GCTGGTTATGTTTCAGCGTT 57.011 45.000 0.00 0.00 43.28 4.84
2990 6540 2.584791 GCTGGTTATGTTTCAGCGTTG 58.415 47.619 0.00 0.00 43.28 4.10
2991 6541 2.584791 CTGGTTATGTTTCAGCGTTGC 58.415 47.619 0.00 0.00 0.00 4.17
2992 6542 1.069568 TGGTTATGTTTCAGCGTTGCG 60.070 47.619 0.00 0.00 0.00 4.85
2993 6543 1.069500 GGTTATGTTTCAGCGTTGCGT 60.069 47.619 0.00 0.00 0.00 5.24
2994 6544 2.230864 GTTATGTTTCAGCGTTGCGTC 58.769 47.619 0.00 0.00 0.00 5.19
2995 6545 0.436913 TATGTTTCAGCGTTGCGTCG 59.563 50.000 0.00 0.00 0.00 5.12
3003 6553 3.722295 CGTTGCGTCGCCCATGTT 61.722 61.111 15.88 0.00 0.00 2.71
3004 6554 2.126888 GTTGCGTCGCCCATGTTG 60.127 61.111 15.88 0.00 0.00 3.33
3005 6555 4.036804 TTGCGTCGCCCATGTTGC 62.037 61.111 15.88 0.00 0.00 4.17
3008 6558 2.125310 CGTCGCCCATGTTGCCTA 60.125 61.111 0.00 0.00 0.00 3.93
3009 6559 1.523711 CGTCGCCCATGTTGCCTAT 60.524 57.895 0.00 0.00 0.00 2.57
3010 6560 1.775039 CGTCGCCCATGTTGCCTATG 61.775 60.000 0.00 0.00 0.00 2.23
3011 6561 1.152984 TCGCCCATGTTGCCTATGG 60.153 57.895 0.00 0.00 43.77 2.74
3027 6577 5.983333 CCTATGGCATATATCCCTTTCCT 57.017 43.478 7.81 0.00 0.00 3.36
3028 6578 6.332976 CCTATGGCATATATCCCTTTCCTT 57.667 41.667 7.81 0.00 0.00 3.36
3029 6579 6.735556 CCTATGGCATATATCCCTTTCCTTT 58.264 40.000 7.81 0.00 0.00 3.11
3030 6580 7.184862 CCTATGGCATATATCCCTTTCCTTTT 58.815 38.462 7.81 0.00 0.00 2.27
3031 6581 7.340487 CCTATGGCATATATCCCTTTCCTTTTC 59.660 40.741 7.81 0.00 0.00 2.29
3032 6582 5.070001 TGGCATATATCCCTTTCCTTTTCG 58.930 41.667 0.00 0.00 0.00 3.46
3033 6583 5.070685 GGCATATATCCCTTTCCTTTTCGT 58.929 41.667 0.00 0.00 0.00 3.85
3034 6584 6.183361 TGGCATATATCCCTTTCCTTTTCGTA 60.183 38.462 0.00 0.00 0.00 3.43
3035 6585 6.371825 GGCATATATCCCTTTCCTTTTCGTAG 59.628 42.308 0.00 0.00 0.00 3.51
3036 6586 7.159372 GCATATATCCCTTTCCTTTTCGTAGA 58.841 38.462 0.00 0.00 0.00 2.59
3037 6587 7.660208 GCATATATCCCTTTCCTTTTCGTAGAA 59.340 37.037 0.00 0.00 45.90 2.10
3038 6588 8.989980 CATATATCCCTTTCCTTTTCGTAGAAC 58.010 37.037 0.00 0.00 45.90 3.01
3039 6589 4.968971 TCCCTTTCCTTTTCGTAGAACT 57.031 40.909 0.00 0.00 45.90 3.01
3040 6590 5.300411 TCCCTTTCCTTTTCGTAGAACTT 57.700 39.130 0.00 0.00 45.90 2.66
3041 6591 5.061179 TCCCTTTCCTTTTCGTAGAACTTG 58.939 41.667 0.00 0.00 45.90 3.16
3042 6592 5.061179 CCCTTTCCTTTTCGTAGAACTTGA 58.939 41.667 0.00 0.00 45.90 3.02
3043 6593 5.049612 CCCTTTCCTTTTCGTAGAACTTGAC 60.050 44.000 0.00 0.00 45.90 3.18
3044 6594 5.758784 CCTTTCCTTTTCGTAGAACTTGACT 59.241 40.000 0.00 0.00 45.90 3.41
3045 6595 6.260271 CCTTTCCTTTTCGTAGAACTTGACTT 59.740 38.462 0.00 0.00 45.90 3.01
3046 6596 7.201705 CCTTTCCTTTTCGTAGAACTTGACTTT 60.202 37.037 0.00 0.00 45.90 2.66
3047 6597 6.598753 TCCTTTTCGTAGAACTTGACTTTG 57.401 37.500 0.00 0.00 45.90 2.77
3048 6598 6.110707 TCCTTTTCGTAGAACTTGACTTTGT 58.889 36.000 0.00 0.00 45.90 2.83
3049 6599 6.036735 TCCTTTTCGTAGAACTTGACTTTGTG 59.963 38.462 0.00 0.00 45.90 3.33
3050 6600 6.036735 CCTTTTCGTAGAACTTGACTTTGTGA 59.963 38.462 0.00 0.00 45.90 3.58
3051 6601 6.971527 TTTCGTAGAACTTGACTTTGTGAA 57.028 33.333 0.00 0.00 45.90 3.18
3052 6602 5.961395 TCGTAGAACTTGACTTTGTGAAC 57.039 39.130 0.00 0.00 0.00 3.18
3053 6603 5.657474 TCGTAGAACTTGACTTTGTGAACT 58.343 37.500 0.00 0.00 0.00 3.01
3054 6604 5.747197 TCGTAGAACTTGACTTTGTGAACTC 59.253 40.000 0.00 0.00 0.00 3.01
3055 6605 5.331607 CGTAGAACTTGACTTTGTGAACTCG 60.332 44.000 0.00 0.00 0.00 4.18
3056 6606 4.504858 AGAACTTGACTTTGTGAACTCGT 58.495 39.130 0.00 0.00 0.00 4.18
3057 6607 5.657474 AGAACTTGACTTTGTGAACTCGTA 58.343 37.500 0.00 0.00 0.00 3.43
3058 6608 6.103997 AGAACTTGACTTTGTGAACTCGTAA 58.896 36.000 0.00 0.00 0.00 3.18
3059 6609 5.968387 ACTTGACTTTGTGAACTCGTAAG 57.032 39.130 0.00 0.00 0.00 2.34
3060 6610 4.809426 ACTTGACTTTGTGAACTCGTAAGG 59.191 41.667 0.00 0.00 38.47 2.69
3070 6620 3.644861 CTCGTAAGGGCCTTGGTTT 57.355 52.632 28.88 4.20 38.47 3.27
3071 6621 2.773993 CTCGTAAGGGCCTTGGTTTA 57.226 50.000 28.88 5.17 38.47 2.01
3072 6622 3.062122 CTCGTAAGGGCCTTGGTTTAA 57.938 47.619 28.88 4.33 38.47 1.52
3073 6623 3.007635 CTCGTAAGGGCCTTGGTTTAAG 58.992 50.000 28.88 10.65 35.24 1.85
3074 6624 2.638855 TCGTAAGGGCCTTGGTTTAAGA 59.361 45.455 28.88 12.90 36.81 2.10
3075 6625 2.745821 CGTAAGGGCCTTGGTTTAAGAC 59.254 50.000 28.88 14.61 38.76 3.01
3076 6626 6.616988 TCGTAAGGGCCTTGGTTTAAGACC 62.617 50.000 28.88 2.81 43.73 3.85
3084 6634 1.880894 GGTTTAAGACCGGGCAAGC 59.119 57.895 11.69 0.00 39.00 4.01
3085 6635 1.500396 GTTTAAGACCGGGCAAGCG 59.500 57.895 11.69 0.00 0.00 4.68
3086 6636 2.329614 TTTAAGACCGGGCAAGCGC 61.330 57.895 11.69 0.00 37.44 5.92
3134 6684 0.798009 CGTAGCATTTTTGGCCGCAG 60.798 55.000 0.00 0.00 0.00 5.18
3182 6732 7.572724 GCATCTCATAACATAGCATCTCAAACC 60.573 40.741 0.00 0.00 0.00 3.27
3199 6749 2.717639 ACCAGAGTGCAGACTTTTGT 57.282 45.000 0.00 0.00 30.16 2.83
3200 6750 3.838244 ACCAGAGTGCAGACTTTTGTA 57.162 42.857 0.00 0.00 30.16 2.41
3225 6778 4.254745 CGGAGCTCGGTATTAACAAAAC 57.745 45.455 12.89 0.00 34.75 2.43
3226 6779 3.241868 CGGAGCTCGGTATTAACAAAACG 60.242 47.826 12.89 0.00 34.75 3.60
3237 6790 8.903723 CGGTATTAACAAAACGAAAAAGCATAA 58.096 29.630 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.411781 GGTCGTCAATGAGTACTTGATCTT 58.588 41.667 0.00 0.00 35.26 2.40
2 3 4.113354 GGGTCGTCAATGAGTACTTGATC 58.887 47.826 0.00 0.00 35.26 2.92
3 4 3.428999 CGGGTCGTCAATGAGTACTTGAT 60.429 47.826 0.00 0.00 35.26 2.57
4 5 2.094906 CGGGTCGTCAATGAGTACTTGA 60.095 50.000 0.00 0.00 0.00 3.02
5 6 2.259618 CGGGTCGTCAATGAGTACTTG 58.740 52.381 0.00 0.00 0.00 3.16
6 7 1.403780 GCGGGTCGTCAATGAGTACTT 60.404 52.381 0.00 0.00 0.00 2.24
7 8 0.172803 GCGGGTCGTCAATGAGTACT 59.827 55.000 0.00 0.00 0.00 2.73
8 9 1.138047 CGCGGGTCGTCAATGAGTAC 61.138 60.000 0.00 0.00 0.00 2.73
9 10 1.138036 CGCGGGTCGTCAATGAGTA 59.862 57.895 0.00 0.00 0.00 2.59
10 11 2.126071 CGCGGGTCGTCAATGAGT 60.126 61.111 0.00 0.00 0.00 3.41
11 12 2.885644 CCGCGGGTCGTCAATGAG 60.886 66.667 20.10 0.00 36.19 2.90
12 13 3.350909 CTCCGCGGGTCGTCAATGA 62.351 63.158 27.83 0.00 36.19 2.57
13 14 2.885644 CTCCGCGGGTCGTCAATG 60.886 66.667 27.83 0.00 36.19 2.82
14 15 4.143333 CCTCCGCGGGTCGTCAAT 62.143 66.667 27.83 0.00 36.19 2.57
17 18 4.790861 GTTCCTCCGCGGGTCGTC 62.791 72.222 27.83 10.00 36.19 4.20
45 46 5.179368 ACATGCATTTACGTGTAGATATGCC 59.821 40.000 0.00 0.00 38.01 4.40
46 47 6.073369 CACATGCATTTACGTGTAGATATGC 58.927 40.000 0.00 1.19 37.70 3.14
58 59 3.057315 AGAGTTGCCACACATGCATTTAC 60.057 43.478 0.00 0.00 38.76 2.01
61 62 1.624336 AGAGTTGCCACACATGCATT 58.376 45.000 0.00 0.00 38.76 3.56
77 78 3.532542 GTCCGGTCATTTTTCCCTAGAG 58.467 50.000 0.00 0.00 0.00 2.43
154 185 9.288576 ACAATAGATGATCACTTCAAGAAAACA 57.711 29.630 0.00 0.00 38.03 2.83
161 192 9.506018 TCTTTGAACAATAGATGATCACTTCAA 57.494 29.630 0.00 2.06 40.16 2.69
162 193 9.159364 CTCTTTGAACAATAGATGATCACTTCA 57.841 33.333 0.00 0.00 40.16 3.02
238 274 1.623081 CCACGTCGTGTATGCACCAC 61.623 60.000 23.01 4.95 42.39 4.16
239 275 1.373622 CCACGTCGTGTATGCACCA 60.374 57.895 23.01 0.00 42.39 4.17
240 276 1.076533 CTCCACGTCGTGTATGCACC 61.077 60.000 23.01 0.00 42.39 5.01
242 278 1.214325 CCTCCACGTCGTGTATGCA 59.786 57.895 23.01 0.00 0.00 3.96
244 280 0.522705 CGTCCTCCACGTCGTGTATG 60.523 60.000 23.01 12.37 44.07 2.39
287 323 1.301716 CACGTCCTCCACACCCTTG 60.302 63.158 0.00 0.00 0.00 3.61
440 479 0.682209 ATGTGGCCCATCACTCTTGC 60.682 55.000 0.00 0.00 38.40 4.01
441 480 3.583054 ATGTGGCCCATCACTCTTG 57.417 52.632 0.00 0.00 38.40 3.02
462 501 2.184579 GGTCAGGTCGCCACTAGC 59.815 66.667 0.00 0.00 38.52 3.42
464 503 1.076014 TCAGGTCAGGTCGCCACTA 59.924 57.895 0.00 0.00 0.00 2.74
503 547 2.903135 GCTATGGCTCCAGTCTCCTATT 59.097 50.000 0.00 0.00 35.22 1.73
519 563 1.539065 CCGGTGAAGGTGCTAGCTATG 60.539 57.143 17.23 0.00 0.00 2.23
520 564 0.753262 CCGGTGAAGGTGCTAGCTAT 59.247 55.000 17.23 0.00 0.00 2.97
690 734 2.786495 GCAGGGCCTCGATCGAGAA 61.786 63.158 39.64 10.77 44.53 2.87
768 820 2.856222 AGGTCCTGCAAAAAGACAGAG 58.144 47.619 0.00 0.00 35.90 3.35
820 872 1.828768 GATGCTCTGGTCCTGGGAG 59.171 63.158 0.00 1.71 0.00 4.30
887 939 1.612950 TGCTTAATTGTGGCACTGTGG 59.387 47.619 19.83 5.49 0.00 4.17
1016 1088 0.182061 AATGGCTGATGCATCTCCGT 59.818 50.000 26.32 22.95 41.91 4.69
1142 1215 4.641989 GGATGGTTGGGCATATCATACATC 59.358 45.833 0.00 0.00 32.14 3.06
1340 1413 4.218478 GCATTCGCGGCGGTGTAC 62.218 66.667 23.46 5.10 0.00 2.90
1349 1422 0.660595 CTACGAGGGTAGCATTCGCG 60.661 60.000 15.21 0.00 45.49 5.87
1402 1475 1.081708 GGTAAGCGGCGTTTGGTTG 60.082 57.895 19.40 0.00 0.00 3.77
1481 1585 1.148157 GCATCGACCGATCACACAGG 61.148 60.000 1.46 0.00 31.62 4.00
1508 1612 3.200593 CCAGCAGCATCCTCGCAC 61.201 66.667 0.00 0.00 0.00 5.34
1565 1669 2.295885 GAAGGAGAGTGCCAATGGATG 58.704 52.381 2.05 0.00 0.00 3.51
1664 1852 1.063649 CCGGTACAGGATCGACACG 59.936 63.158 6.11 0.00 31.20 4.49
1744 1934 2.699954 AGAAACGAATCCGCAGTCAAT 58.300 42.857 0.00 0.00 39.95 2.57
1759 1949 5.684550 ACCAAACGGTCAAATCTAGAAAC 57.315 39.130 0.00 0.00 26.76 2.78
1876 2066 4.764336 CGCAGCGGCCACATGTTG 62.764 66.667 7.00 0.00 36.38 3.33
1992 2182 0.958876 CTGGTTTGGAGGCCGGTTAC 60.959 60.000 1.90 0.00 0.00 2.50
1993 2183 1.377229 CTGGTTTGGAGGCCGGTTA 59.623 57.895 1.90 0.00 0.00 2.85
1994 2184 2.115266 CTGGTTTGGAGGCCGGTT 59.885 61.111 1.90 0.00 0.00 4.44
1995 2185 1.420532 TAACTGGTTTGGAGGCCGGT 61.421 55.000 1.90 0.00 45.55 5.28
2277 2482 3.097877 TCATCTCCAAACATCGATCGG 57.902 47.619 16.41 2.12 0.00 4.18
2306 2511 2.473816 CAAAGACGAGAGACACTGCAA 58.526 47.619 0.00 0.00 0.00 4.08
2390 2597 3.002791 CAGAGCAAGACCGATAAAGCAA 58.997 45.455 0.00 0.00 0.00 3.91
2406 2636 7.203255 ACACTTACTTAACCAAATTCAGAGC 57.797 36.000 0.00 0.00 0.00 4.09
2443 2673 1.496429 CCTCCTGGCCCATTTACAGAT 59.504 52.381 0.00 0.00 34.21 2.90
2456 2686 1.473965 CGATCACATCAACCCTCCTGG 60.474 57.143 0.00 0.00 41.37 4.45
2458 2688 1.866015 TCGATCACATCAACCCTCCT 58.134 50.000 0.00 0.00 0.00 3.69
2531 2765 5.934043 CACAGTTTTCATGACCATCACTAGA 59.066 40.000 0.00 0.00 0.00 2.43
2575 2809 2.266055 CAGTTCCTCACCGCCTCC 59.734 66.667 0.00 0.00 0.00 4.30
2655 2895 3.081804 GGGTTTCATCCAAGACGTCATT 58.918 45.455 19.50 6.38 0.00 2.57
2811 4179 1.635487 CTCCCAATTTCAGAGGGTGGA 59.365 52.381 0.00 0.00 43.31 4.02
2835 4223 7.762615 CGTAATGTTATGTTTCTGTCCTTCCTA 59.237 37.037 0.00 0.00 0.00 2.94
2840 4228 6.534079 GCTACGTAATGTTATGTTTCTGTCCT 59.466 38.462 0.00 0.00 34.83 3.85
2844 4232 6.175770 CGTGCTACGTAATGTTATGTTTCTG 58.824 40.000 0.00 0.00 36.74 3.02
2866 6416 0.604578 ACCGTACACCTGCATAACGT 59.395 50.000 0.00 0.00 31.87 3.99
2867 6417 0.996462 CACCGTACACCTGCATAACG 59.004 55.000 0.00 0.00 0.00 3.18
2868 6418 0.725117 GCACCGTACACCTGCATAAC 59.275 55.000 0.00 0.00 0.00 1.89
2869 6419 0.321996 TGCACCGTACACCTGCATAA 59.678 50.000 5.26 0.00 36.00 1.90
2870 6420 0.390603 GTGCACCGTACACCTGCATA 60.391 55.000 5.22 0.00 42.65 3.14
2871 6421 1.671054 GTGCACCGTACACCTGCAT 60.671 57.895 5.22 0.00 42.65 3.96
2872 6422 2.280524 GTGCACCGTACACCTGCA 60.281 61.111 5.22 5.26 38.60 4.41
2873 6423 2.030562 AGTGCACCGTACACCTGC 59.969 61.111 14.63 0.00 38.87 4.85
2874 6424 0.667487 CTCAGTGCACCGTACACCTG 60.667 60.000 14.63 2.34 38.87 4.00
2875 6425 1.666011 CTCAGTGCACCGTACACCT 59.334 57.895 14.63 0.00 38.87 4.00
2876 6426 2.027625 GCTCAGTGCACCGTACACC 61.028 63.158 14.63 0.00 42.31 4.16
2877 6427 0.242825 TAGCTCAGTGCACCGTACAC 59.757 55.000 14.63 0.00 45.94 2.90
2878 6428 0.526211 CTAGCTCAGTGCACCGTACA 59.474 55.000 14.63 0.00 45.94 2.90
2879 6429 0.179134 CCTAGCTCAGTGCACCGTAC 60.179 60.000 14.63 0.85 45.94 3.67
2880 6430 0.323087 TCCTAGCTCAGTGCACCGTA 60.323 55.000 14.63 0.00 45.94 4.02
2881 6431 1.606601 TCCTAGCTCAGTGCACCGT 60.607 57.895 14.63 0.00 45.94 4.83
2882 6432 1.153745 GTCCTAGCTCAGTGCACCG 60.154 63.158 14.63 2.63 45.94 4.94
2883 6433 1.153745 CGTCCTAGCTCAGTGCACC 60.154 63.158 14.63 0.00 45.94 5.01
2884 6434 0.457851 ATCGTCCTAGCTCAGTGCAC 59.542 55.000 9.40 9.40 45.94 4.57
2885 6435 0.741326 GATCGTCCTAGCTCAGTGCA 59.259 55.000 0.00 0.00 45.94 4.57
2886 6436 0.317436 CGATCGTCCTAGCTCAGTGC 60.317 60.000 7.03 0.00 43.29 4.40
2887 6437 1.003331 GTCGATCGTCCTAGCTCAGTG 60.003 57.143 15.94 0.00 0.00 3.66
2888 6438 1.301423 GTCGATCGTCCTAGCTCAGT 58.699 55.000 15.94 0.00 0.00 3.41
2889 6439 1.300481 TGTCGATCGTCCTAGCTCAG 58.700 55.000 15.94 0.00 0.00 3.35
2890 6440 1.968704 ATGTCGATCGTCCTAGCTCA 58.031 50.000 15.94 3.75 0.00 4.26
2891 6441 2.417239 CCTATGTCGATCGTCCTAGCTC 59.583 54.545 15.94 0.00 0.00 4.09
2892 6442 2.428491 CCTATGTCGATCGTCCTAGCT 58.572 52.381 15.94 0.00 0.00 3.32
2893 6443 1.469308 CCCTATGTCGATCGTCCTAGC 59.531 57.143 15.94 0.88 0.00 3.42
2894 6444 3.004171 CTCCCTATGTCGATCGTCCTAG 58.996 54.545 15.94 15.02 0.00 3.02
2895 6445 2.636403 TCTCCCTATGTCGATCGTCCTA 59.364 50.000 15.94 6.11 0.00 2.94
2896 6446 1.420514 TCTCCCTATGTCGATCGTCCT 59.579 52.381 15.94 5.16 0.00 3.85
2897 6447 1.536331 GTCTCCCTATGTCGATCGTCC 59.464 57.143 15.94 7.77 0.00 4.79
2898 6448 1.536331 GGTCTCCCTATGTCGATCGTC 59.464 57.143 15.94 10.48 0.00 4.20
2899 6449 1.133884 TGGTCTCCCTATGTCGATCGT 60.134 52.381 15.94 0.00 0.00 3.73
2900 6450 1.267261 GTGGTCTCCCTATGTCGATCG 59.733 57.143 9.36 9.36 0.00 3.69
2901 6451 1.614413 GGTGGTCTCCCTATGTCGATC 59.386 57.143 0.00 0.00 0.00 3.69
2902 6452 1.705873 GGTGGTCTCCCTATGTCGAT 58.294 55.000 0.00 0.00 0.00 3.59
2903 6453 0.750546 CGGTGGTCTCCCTATGTCGA 60.751 60.000 0.00 0.00 0.00 4.20
2904 6454 1.734137 CGGTGGTCTCCCTATGTCG 59.266 63.158 0.00 0.00 0.00 4.35
2905 6455 2.029307 GCCGGTGGTCTCCCTATGTC 62.029 65.000 1.90 0.00 0.00 3.06
2906 6456 2.064581 GCCGGTGGTCTCCCTATGT 61.065 63.158 1.90 0.00 0.00 2.29
2907 6457 1.762460 AGCCGGTGGTCTCCCTATG 60.762 63.158 1.90 0.00 0.00 2.23
2908 6458 1.762460 CAGCCGGTGGTCTCCCTAT 60.762 63.158 1.90 0.00 0.00 2.57
2909 6459 2.363795 CAGCCGGTGGTCTCCCTA 60.364 66.667 1.90 0.00 0.00 3.53
2913 6463 3.775654 CTCCCAGCCGGTGGTCTC 61.776 72.222 15.42 0.00 46.37 3.36
2933 6483 1.270571 GCTATCAAGGTAGCAGAGGGC 60.271 57.143 7.45 0.00 45.03 5.19
2934 6484 1.346068 GGCTATCAAGGTAGCAGAGGG 59.654 57.143 13.80 0.00 46.97 4.30
2935 6485 1.346068 GGGCTATCAAGGTAGCAGAGG 59.654 57.143 13.80 0.00 46.97 3.69
2936 6486 1.346068 GGGGCTATCAAGGTAGCAGAG 59.654 57.143 13.80 0.00 46.97 3.35
2937 6487 1.424638 GGGGCTATCAAGGTAGCAGA 58.575 55.000 13.80 0.00 46.97 4.26
2938 6488 0.034059 CGGGGCTATCAAGGTAGCAG 59.966 60.000 13.80 1.82 46.97 4.24
2939 6489 2.040009 GCGGGGCTATCAAGGTAGCA 62.040 60.000 13.80 0.00 46.97 3.49
2940 6490 1.301795 GCGGGGCTATCAAGGTAGC 60.302 63.158 3.75 3.75 44.96 3.58
2941 6491 1.546476 CTAGCGGGGCTATCAAGGTAG 59.454 57.143 0.00 0.00 40.54 3.18
2942 6492 1.133262 ACTAGCGGGGCTATCAAGGTA 60.133 52.381 0.00 0.00 40.54 3.08
2943 6493 0.398664 ACTAGCGGGGCTATCAAGGT 60.399 55.000 0.00 0.00 40.54 3.50
2944 6494 0.318762 GACTAGCGGGGCTATCAAGG 59.681 60.000 0.00 0.00 40.54 3.61
2945 6495 1.040646 TGACTAGCGGGGCTATCAAG 58.959 55.000 0.00 0.00 40.54 3.02
2946 6496 1.717032 ATGACTAGCGGGGCTATCAA 58.283 50.000 11.14 0.00 40.54 2.57
2947 6497 1.344438 CAATGACTAGCGGGGCTATCA 59.656 52.381 0.00 5.32 40.54 2.15
2948 6498 1.338200 CCAATGACTAGCGGGGCTATC 60.338 57.143 0.00 0.23 40.54 2.08
2949 6499 0.687354 CCAATGACTAGCGGGGCTAT 59.313 55.000 0.00 0.00 40.54 2.97
2950 6500 0.689745 ACCAATGACTAGCGGGGCTA 60.690 55.000 0.00 0.00 40.44 3.93
2951 6501 1.995626 ACCAATGACTAGCGGGGCT 60.996 57.895 0.00 0.00 43.41 5.19
2952 6502 1.819632 CACCAATGACTAGCGGGGC 60.820 63.158 0.00 0.00 0.00 5.80
2953 6503 1.819632 GCACCAATGACTAGCGGGG 60.820 63.158 0.00 0.00 0.00 5.73
2954 6504 1.091771 CAGCACCAATGACTAGCGGG 61.092 60.000 0.00 0.00 0.00 6.13
2955 6505 1.091771 CCAGCACCAATGACTAGCGG 61.092 60.000 0.00 0.00 0.00 5.52
2956 6506 0.391661 ACCAGCACCAATGACTAGCG 60.392 55.000 0.00 0.00 0.00 4.26
2957 6507 1.826385 AACCAGCACCAATGACTAGC 58.174 50.000 0.00 0.00 0.00 3.42
2958 6508 4.517285 ACATAACCAGCACCAATGACTAG 58.483 43.478 0.00 0.00 0.00 2.57
2959 6509 4.568072 ACATAACCAGCACCAATGACTA 57.432 40.909 0.00 0.00 0.00 2.59
2960 6510 3.439857 ACATAACCAGCACCAATGACT 57.560 42.857 0.00 0.00 0.00 3.41
2961 6511 4.022416 TGAAACATAACCAGCACCAATGAC 60.022 41.667 0.00 0.00 0.00 3.06
2962 6512 4.148079 TGAAACATAACCAGCACCAATGA 58.852 39.130 0.00 0.00 0.00 2.57
2963 6513 4.487948 CTGAAACATAACCAGCACCAATG 58.512 43.478 0.00 0.00 0.00 2.82
2964 6514 4.789012 CTGAAACATAACCAGCACCAAT 57.211 40.909 0.00 0.00 0.00 3.16
2971 6521 2.584791 GCAACGCTGAAACATAACCAG 58.415 47.619 0.00 0.00 0.00 4.00
2972 6522 1.069568 CGCAACGCTGAAACATAACCA 60.070 47.619 0.00 0.00 0.00 3.67
2973 6523 1.069500 ACGCAACGCTGAAACATAACC 60.069 47.619 0.00 0.00 0.00 2.85
2974 6524 2.230864 GACGCAACGCTGAAACATAAC 58.769 47.619 0.00 0.00 0.00 1.89
2975 6525 1.136474 CGACGCAACGCTGAAACATAA 60.136 47.619 0.00 0.00 0.00 1.90
2976 6526 0.436913 CGACGCAACGCTGAAACATA 59.563 50.000 0.00 0.00 0.00 2.29
2977 6527 1.204062 CGACGCAACGCTGAAACAT 59.796 52.632 0.00 0.00 0.00 2.71
2978 6528 2.623718 CGACGCAACGCTGAAACA 59.376 55.556 0.00 0.00 0.00 2.83
2986 6536 3.722295 AACATGGGCGACGCAACG 61.722 61.111 23.09 9.11 0.00 4.10
2987 6537 2.126888 CAACATGGGCGACGCAAC 60.127 61.111 23.09 14.29 0.00 4.17
2988 6538 4.036804 GCAACATGGGCGACGCAA 62.037 61.111 23.09 9.71 0.00 4.85
2991 6541 1.523711 ATAGGCAACATGGGCGACG 60.524 57.895 0.00 0.00 38.57 5.12
2992 6542 1.447317 CCATAGGCAACATGGGCGAC 61.447 60.000 0.00 0.00 39.88 5.19
2993 6543 1.152984 CCATAGGCAACATGGGCGA 60.153 57.895 0.00 0.00 39.88 5.54
2994 6544 3.435590 CCATAGGCAACATGGGCG 58.564 61.111 0.00 0.00 39.88 6.13
3005 6555 5.983333 AGGAAAGGGATATATGCCATAGG 57.017 43.478 23.67 0.00 41.29 2.57
3006 6556 7.066284 CGAAAAGGAAAGGGATATATGCCATAG 59.934 40.741 23.67 1.46 41.29 2.23
3007 6557 6.884295 CGAAAAGGAAAGGGATATATGCCATA 59.116 38.462 23.67 0.00 41.29 2.74
3008 6558 5.711976 CGAAAAGGAAAGGGATATATGCCAT 59.288 40.000 23.67 10.57 41.29 4.40
3009 6559 5.070001 CGAAAAGGAAAGGGATATATGCCA 58.930 41.667 23.67 0.00 41.29 4.92
3010 6560 5.070685 ACGAAAAGGAAAGGGATATATGCC 58.929 41.667 15.17 15.17 38.77 4.40
3011 6561 7.159372 TCTACGAAAAGGAAAGGGATATATGC 58.841 38.462 0.00 0.00 0.00 3.14
3012 6562 8.989980 GTTCTACGAAAAGGAAAGGGATATATG 58.010 37.037 0.00 0.00 0.00 1.78
3013 6563 8.935741 AGTTCTACGAAAAGGAAAGGGATATAT 58.064 33.333 0.00 0.00 0.00 0.86
3014 6564 8.315220 AGTTCTACGAAAAGGAAAGGGATATA 57.685 34.615 0.00 0.00 0.00 0.86
3015 6565 7.196637 AGTTCTACGAAAAGGAAAGGGATAT 57.803 36.000 0.00 0.00 0.00 1.63
3016 6566 6.616237 AGTTCTACGAAAAGGAAAGGGATA 57.384 37.500 0.00 0.00 0.00 2.59
3017 6567 5.500546 AGTTCTACGAAAAGGAAAGGGAT 57.499 39.130 0.00 0.00 0.00 3.85
3018 6568 4.968971 AGTTCTACGAAAAGGAAAGGGA 57.031 40.909 0.00 0.00 0.00 4.20
3019 6569 5.049612 GTCAAGTTCTACGAAAAGGAAAGGG 60.050 44.000 0.00 0.00 0.00 3.95
3020 6570 5.758784 AGTCAAGTTCTACGAAAAGGAAAGG 59.241 40.000 0.00 0.00 0.00 3.11
3021 6571 6.846325 AGTCAAGTTCTACGAAAAGGAAAG 57.154 37.500 0.00 0.00 0.00 2.62
3022 6572 7.120138 ACAAAGTCAAGTTCTACGAAAAGGAAA 59.880 33.333 0.00 0.00 0.00 3.13
3023 6573 6.596497 ACAAAGTCAAGTTCTACGAAAAGGAA 59.404 34.615 0.00 0.00 0.00 3.36
3024 6574 6.036735 CACAAAGTCAAGTTCTACGAAAAGGA 59.963 38.462 0.00 0.00 0.00 3.36
3025 6575 6.036735 TCACAAAGTCAAGTTCTACGAAAAGG 59.963 38.462 0.00 0.00 0.00 3.11
3026 6576 7.000575 TCACAAAGTCAAGTTCTACGAAAAG 57.999 36.000 0.00 0.00 0.00 2.27
3027 6577 6.971527 TCACAAAGTCAAGTTCTACGAAAA 57.028 33.333 0.00 0.00 0.00 2.29
3028 6578 6.592607 AGTTCACAAAGTCAAGTTCTACGAAA 59.407 34.615 0.00 0.00 0.00 3.46
3029 6579 6.103997 AGTTCACAAAGTCAAGTTCTACGAA 58.896 36.000 0.00 0.00 0.00 3.85
3030 6580 5.657474 AGTTCACAAAGTCAAGTTCTACGA 58.343 37.500 0.00 0.00 0.00 3.43
3031 6581 5.331607 CGAGTTCACAAAGTCAAGTTCTACG 60.332 44.000 0.00 0.00 34.96 3.51
3032 6582 5.519206 ACGAGTTCACAAAGTCAAGTTCTAC 59.481 40.000 0.00 0.00 34.96 2.59
3033 6583 5.657474 ACGAGTTCACAAAGTCAAGTTCTA 58.343 37.500 0.00 0.00 34.96 2.10
3034 6584 4.504858 ACGAGTTCACAAAGTCAAGTTCT 58.495 39.130 0.00 0.00 34.96 3.01
3035 6585 4.859629 ACGAGTTCACAAAGTCAAGTTC 57.140 40.909 0.00 0.00 34.96 3.01
3036 6586 5.293569 CCTTACGAGTTCACAAAGTCAAGTT 59.706 40.000 0.00 0.00 34.96 2.66
3037 6587 4.809426 CCTTACGAGTTCACAAAGTCAAGT 59.191 41.667 0.00 0.00 34.96 3.16
3038 6588 4.211374 CCCTTACGAGTTCACAAAGTCAAG 59.789 45.833 0.00 0.00 34.96 3.02
3039 6589 4.124238 CCCTTACGAGTTCACAAAGTCAA 58.876 43.478 0.00 0.00 34.96 3.18
3040 6590 3.724374 CCCTTACGAGTTCACAAAGTCA 58.276 45.455 0.00 0.00 34.96 3.41
3041 6591 2.479275 GCCCTTACGAGTTCACAAAGTC 59.521 50.000 0.00 0.00 0.00 3.01
3042 6592 2.490991 GCCCTTACGAGTTCACAAAGT 58.509 47.619 0.00 0.00 0.00 2.66
3043 6593 1.804748 GGCCCTTACGAGTTCACAAAG 59.195 52.381 0.00 0.00 0.00 2.77
3044 6594 1.418637 AGGCCCTTACGAGTTCACAAA 59.581 47.619 0.00 0.00 0.00 2.83
3045 6595 1.053424 AGGCCCTTACGAGTTCACAA 58.947 50.000 0.00 0.00 0.00 3.33
3046 6596 1.053424 AAGGCCCTTACGAGTTCACA 58.947 50.000 0.00 0.00 0.00 3.58
3047 6597 1.439679 CAAGGCCCTTACGAGTTCAC 58.560 55.000 0.00 0.00 0.00 3.18
3048 6598 0.323629 CCAAGGCCCTTACGAGTTCA 59.676 55.000 0.00 0.00 0.00 3.18
3049 6599 0.323957 ACCAAGGCCCTTACGAGTTC 59.676 55.000 0.00 0.00 0.00 3.01
3050 6600 0.769247 AACCAAGGCCCTTACGAGTT 59.231 50.000 0.00 0.00 0.00 3.01
3051 6601 0.769247 AAACCAAGGCCCTTACGAGT 59.231 50.000 0.00 0.00 0.00 4.18
3052 6602 2.773993 TAAACCAAGGCCCTTACGAG 57.226 50.000 0.00 0.00 0.00 4.18
3053 6603 2.638855 TCTTAAACCAAGGCCCTTACGA 59.361 45.455 0.00 0.00 34.76 3.43
3054 6604 2.745821 GTCTTAAACCAAGGCCCTTACG 59.254 50.000 0.00 0.00 32.32 3.18
3066 6616 1.880894 GCTTGCCCGGTCTTAAACC 59.119 57.895 0.00 0.00 45.45 3.27
3067 6617 1.500396 CGCTTGCCCGGTCTTAAAC 59.500 57.895 0.00 0.00 0.00 2.01
3068 6618 2.329614 GCGCTTGCCCGGTCTTAAA 61.330 57.895 0.00 0.00 0.00 1.52
3069 6619 2.744709 GCGCTTGCCCGGTCTTAA 60.745 61.111 0.00 0.00 0.00 1.85
3099 6649 2.413634 GCTACGCCTGCATAACGTTTTT 60.414 45.455 5.91 0.00 40.99 1.94
3100 6650 1.129811 GCTACGCCTGCATAACGTTTT 59.870 47.619 5.91 0.00 40.99 2.43
3101 6651 0.725117 GCTACGCCTGCATAACGTTT 59.275 50.000 5.91 0.00 40.99 3.60
3102 6652 0.390603 TGCTACGCCTGCATAACGTT 60.391 50.000 13.01 5.88 40.99 3.99
3111 6661 0.458370 GGCCAAAAATGCTACGCCTG 60.458 55.000 0.00 0.00 33.50 4.85
3138 6688 0.886490 GCTCTTATCCCCACGGCATG 60.886 60.000 0.00 0.00 0.00 4.06
3182 6732 3.743396 GGTCTACAAAAGTCTGCACTCTG 59.257 47.826 0.00 0.00 29.93 3.35


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

AutoCloner maintained by Alex Coulton.