Multiple sequence alignment - TraesCS4D01G358700

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 TraesCS4D01G358700 chr4D 100.000 3151 0 0 1 3151 506203857 506207007 0.000000e+00 5819.0
1 TraesCS4D01G358700 chr5A 89.223 2459 117 56 632 3040 702501490 702503850 0.000000e+00 2937.0
2 TraesCS4D01G358700 chr5A 83.765 579 57 14 3 566 702500931 702501487 6.030000e-142 514.0
3 TraesCS4D01G358700 chr5A 89.831 59 6 0 562 620 636423606 636423664 3.370000e-10 76.8
4 TraesCS4D01G358700 chr4B 87.721 1075 82 29 1295 2357 662401397 662402433 0.000000e+00 1208.0
5 TraesCS4D01G358700 chr4B 88.540 986 68 18 3 969 662399708 662400667 0.000000e+00 1153.0
6 TraesCS4D01G358700 chr4B 94.792 288 15 0 972 1259 662401030 662401317 1.720000e-122 449.0
7 TraesCS4D01G358700 chr7D 81.136 546 93 8 1574 2114 462673549 462674089 2.250000e-116 429.0
8 TraesCS4D01G358700 chr7B 80.952 546 94 8 1574 2114 485833423 485833963 1.040000e-114 424.0
9 TraesCS4D01G358700 chr7A 80.917 545 96 6 1574 2114 537518281 537517741 1.040000e-114 424.0
10 TraesCS4D01G358700 chr1A 88.136 59 7 0 562 620 52542108 52542050 1.570000e-08 71.3
11 TraesCS4D01G358700 chr1A 87.097 62 6 2 563 624 386422063 386422004 5.640000e-08 69.4
12 TraesCS4D01G358700 chr1D 95.122 41 2 0 563 603 238068745 238068785 7.290000e-07 65.8
13 TraesCS4D01G358700 chr1D 88.235 51 6 0 555 605 162713712 162713762 9.440000e-06 62.1
14 TraesCS4D01G358700 chr1D 86.538 52 4 2 564 612 451859089 451859038 2.000000e-03 54.7
15 TraesCS4D01G358700 chr2D 92.857 42 3 0 564 605 383338144 383338103 9.440000e-06 62.1
16 TraesCS4D01G358700 chr1B 88.235 51 3 2 564 612 621487508 621487459 1.220000e-04 58.4


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 TraesCS4D01G358700 chr4D 506203857 506207007 3150 False 5819.000000 5819 100.000 1 3151 1 chr4D.!!$F1 3150
1 TraesCS4D01G358700 chr5A 702500931 702503850 2919 False 1725.500000 2937 86.494 3 3040 2 chr5A.!!$F2 3037
2 TraesCS4D01G358700 chr4B 662399708 662402433 2725 False 936.666667 1208 90.351 3 2357 3 chr4B.!!$F1 2354
3 TraesCS4D01G358700 chr7D 462673549 462674089 540 False 429.000000 429 81.136 1574 2114 1 chr7D.!!$F1 540
4 TraesCS4D01G358700 chr7B 485833423 485833963 540 False 424.000000 424 80.952 1574 2114 1 chr7B.!!$F1 540
5 TraesCS4D01G358700 chr7A 537517741 537518281 540 True 424.000000 424 80.917 1574 2114 1 chr7A.!!$R1 540

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
797 833 0.325933 TCTCAGCAATCACCAGTGGG 59.674 55.0 15.21 2.47 41.29 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2521 3021 0.098025 CGTGAAAGCCAAACGTGTGT 59.902 50.0 4.73 0.0 32.79 3.72 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
25 26 2.093869 CCAAATTGGTGGATCAAGCAGG 60.094 50.000 3.34 0.00 41.65 4.85
114 127 3.963428 AAAGTAGTGCAGTACTCCAGG 57.037 47.619 29.73 0.00 40.89 4.45
230 246 2.303163 AAGTTTTTGCCGTCAAACCC 57.697 45.000 0.00 0.00 41.48 4.11
278 294 5.774498 GGATTGGATCCTGTGGTTTATTC 57.226 43.478 14.23 0.00 46.19 1.75
285 301 5.106555 GGATCCTGTGGTTTATTCGCATATG 60.107 44.000 3.84 0.00 0.00 1.78
335 351 0.670162 ATTTGCATACGATGGCAGCC 59.330 50.000 3.66 3.66 41.68 4.85
374 390 6.126079 GCACGTTTAAAATGGTCAAATGTTG 58.874 36.000 0.00 0.00 30.88 3.33
386 403 1.901159 CAAATGTTGGCCCAATCTCCA 59.099 47.619 0.00 0.00 0.00 3.86
452 470 4.664688 AGTGTTCCCTCCATCTCAAATT 57.335 40.909 0.00 0.00 0.00 1.82
464 482 8.082242 CCTCCATCTCAAATTTAAGACGTTTTT 58.918 33.333 0.00 0.00 0.00 1.94
506 528 5.701855 ACGCTTAGACTAAGTCTCAGAAAC 58.298 41.667 20.71 3.17 42.40 2.78
509 531 6.151004 GCTTAGACTAAGTCTCAGAAACGTT 58.849 40.000 20.71 0.00 42.40 3.99
577 599 4.079901 TCATCCTAACTACTCCCTTCGTCT 60.080 45.833 0.00 0.00 0.00 4.18
579 601 3.265221 TCCTAACTACTCCCTTCGTCTCA 59.735 47.826 0.00 0.00 0.00 3.27
590 612 8.343168 ACTCCCTTCGTCTCATAATATAAGAG 57.657 38.462 0.00 0.00 0.00 2.85
591 613 7.945664 ACTCCCTTCGTCTCATAATATAAGAGT 59.054 37.037 0.00 0.00 0.00 3.24
643 665 7.086230 AGACGGAATGAGTACTTACTTACAG 57.914 40.000 0.00 0.00 36.50 2.74
667 689 1.507141 CGACCTTGCAACCACAGGAC 61.507 60.000 8.39 1.31 0.00 3.85
719 746 3.554692 CACCCGATTCTGCGCGTC 61.555 66.667 8.43 0.00 0.00 5.19
721 748 4.812476 CCCGATTCTGCGCGTCCA 62.812 66.667 8.43 0.00 0.00 4.02
722 749 2.586079 CCGATTCTGCGCGTCCAT 60.586 61.111 8.43 0.00 0.00 3.41
723 750 2.589492 CCGATTCTGCGCGTCCATC 61.589 63.158 8.43 3.85 0.00 3.51
724 751 1.878069 CGATTCTGCGCGTCCATCA 60.878 57.895 8.43 0.00 0.00 3.07
725 752 1.420641 CGATTCTGCGCGTCCATCAA 61.421 55.000 8.43 0.00 0.00 2.57
796 832 1.002888 AGTCTCAGCAATCACCAGTGG 59.997 52.381 7.91 7.91 0.00 4.00
797 833 0.325933 TCTCAGCAATCACCAGTGGG 59.674 55.000 15.21 2.47 41.29 4.61
798 834 1.303561 TCAGCAATCACCAGTGGGC 60.304 57.895 15.21 6.68 37.90 5.36
799 835 1.604308 CAGCAATCACCAGTGGGCA 60.604 57.895 15.21 0.00 37.90 5.36
800 836 1.303888 AGCAATCACCAGTGGGCAG 60.304 57.895 15.21 2.98 37.90 4.85
801 837 1.604593 GCAATCACCAGTGGGCAGT 60.605 57.895 15.21 0.00 37.90 4.40
802 838 1.870055 GCAATCACCAGTGGGCAGTG 61.870 60.000 15.21 9.78 37.90 3.66
882 918 3.009714 GGGACCCACCTCACTCCC 61.010 72.222 5.33 0.00 38.98 4.30
887 923 2.343758 CCACCTCACTCCCACACG 59.656 66.667 0.00 0.00 0.00 4.49
905 941 1.884579 ACGACACTACATATAGCCCCG 59.115 52.381 0.00 0.00 30.75 5.73
1015 1411 4.924462 CAGAGAAGATGATGACGATGATGG 59.076 45.833 0.00 0.00 0.00 3.51
1044 1440 3.444850 GCCACATATTGCCATCCCT 57.555 52.632 0.00 0.00 0.00 4.20
1083 1479 2.512286 GCCGTGATGCTGCTGCTA 60.512 61.111 17.00 3.79 40.48 3.49
1263 1659 1.080230 CAGCTCAGGTCAGTCACGG 60.080 63.158 0.00 0.00 0.00 4.94
1265 1661 2.936912 GCTCAGGTCAGTCACGGCT 61.937 63.158 0.00 0.00 0.00 5.52
1365 1821 6.106673 TCACCTAACTAATCAAGCTGCTAAC 58.893 40.000 0.90 0.00 0.00 2.34
1372 1828 7.793927 ACTAATCAAGCTGCTAACTAATTCC 57.206 36.000 0.90 0.00 0.00 3.01
1375 1831 6.690194 ATCAAGCTGCTAACTAATTCCTTG 57.310 37.500 0.90 0.00 0.00 3.61
1377 1833 5.643777 TCAAGCTGCTAACTAATTCCTTGTC 59.356 40.000 0.90 0.00 32.52 3.18
1378 1834 4.184629 AGCTGCTAACTAATTCCTTGTCG 58.815 43.478 0.00 0.00 0.00 4.35
1379 1835 4.081642 AGCTGCTAACTAATTCCTTGTCGA 60.082 41.667 0.00 0.00 0.00 4.20
1380 1836 4.033014 GCTGCTAACTAATTCCTTGTCGAC 59.967 45.833 9.11 9.11 0.00 4.20
1383 1845 5.867716 TGCTAACTAATTCCTTGTCGACTTC 59.132 40.000 17.92 0.00 0.00 3.01
1385 1847 3.846360 ACTAATTCCTTGTCGACTTCCG 58.154 45.455 17.92 1.72 40.25 4.30
1409 1871 1.002366 CAGCGGATTCAAGTCGAAGG 58.998 55.000 0.00 0.00 36.95 3.46
1419 1881 3.073101 GTCGAAGGGGGCGTACCT 61.073 66.667 0.00 0.00 40.96 3.08
1533 2010 2.548480 CCACCGTCTTTTCTTCTTGGAC 59.452 50.000 0.00 0.00 0.00 4.02
1541 2018 4.997395 TCTTTTCTTCTTGGACCGATCTTG 59.003 41.667 0.00 0.00 0.00 3.02
1554 2032 5.520649 GGACCGATCTTGATTCTTAACTGAC 59.479 44.000 0.00 0.00 0.00 3.51
1567 2045 5.587289 TCTTAACTGACGCAAGCAAAAATT 58.413 33.333 0.00 0.00 45.62 1.82
1568 2046 6.730175 TCTTAACTGACGCAAGCAAAAATTA 58.270 32.000 0.00 0.00 45.62 1.40
1572 2050 5.288804 ACTGACGCAAGCAAAAATTAATGT 58.711 33.333 0.00 0.00 45.62 2.71
1601 2079 2.118076 AACGAGGTGTACCCGGGA 59.882 61.111 32.02 8.25 38.74 5.14
2172 2657 9.308318 GCTAGTCTGCTATATATTTTTAGCTCC 57.692 37.037 6.74 0.00 41.13 4.70
2174 2659 8.123639 AGTCTGCTATATATTTTTAGCTCCGA 57.876 34.615 6.74 0.00 41.13 4.55
2175 2660 8.247562 AGTCTGCTATATATTTTTAGCTCCGAG 58.752 37.037 6.74 0.00 41.13 4.63
2176 2661 7.009723 GTCTGCTATATATTTTTAGCTCCGAGC 59.990 40.741 12.80 12.80 41.13 5.03
2191 2676 4.505808 CTCCGAGCTCCGAGTATAAGATA 58.494 47.826 20.16 0.00 41.76 1.98
2326 2823 9.715121 ATTTATACGGTGATTCGGTTATGTATT 57.285 29.630 0.00 0.00 0.00 1.89
2338 2835 9.778741 ATTCGGTTATGTATTTGTGTGAGATAT 57.221 29.630 0.00 0.00 0.00 1.63
2388 2888 0.610687 AAGGTCTAGCAGGCTGACAC 59.389 55.000 20.86 7.80 32.84 3.67
2389 2889 1.153745 GGTCTAGCAGGCTGACACG 60.154 63.158 20.86 2.86 32.84 4.49
2390 2890 1.587054 GTCTAGCAGGCTGACACGT 59.413 57.895 20.86 0.00 0.00 4.49
2416 2916 6.414402 GCGTACTCTGTCTAAGTTATTGCTAC 59.586 42.308 0.00 0.00 0.00 3.58
2431 2931 2.483876 TGCTACTTGTGAGACACTTGC 58.516 47.619 0.00 0.00 35.11 4.01
2462 2962 3.624777 GATGATGGACATTTGGACCTGT 58.375 45.455 0.00 0.00 39.56 4.00
2483 2983 6.403636 CCTGTAATCTGCACCTTTTGATACAC 60.404 42.308 0.00 0.00 0.00 2.90
2496 2996 7.038154 CTTTTGATACACAGAAAAAGGTCCA 57.962 36.000 0.00 0.00 36.45 4.02
2520 3020 8.147704 CCAAATTTTAGTACACCACCTTTTGAT 58.852 33.333 0.00 0.00 0.00 2.57
2524 3024 7.733402 TTTAGTACACCACCTTTTGATACAC 57.267 36.000 0.00 0.00 0.00 2.90
2525 3025 5.298989 AGTACACCACCTTTTGATACACA 57.701 39.130 0.00 0.00 0.00 3.72
2526 3026 5.061179 AGTACACCACCTTTTGATACACAC 58.939 41.667 0.00 0.00 0.00 3.82
2527 3027 2.875933 ACACCACCTTTTGATACACACG 59.124 45.455 0.00 0.00 0.00 4.49
2528 3028 2.875933 CACCACCTTTTGATACACACGT 59.124 45.455 0.00 0.00 0.00 4.49
2529 3029 3.314080 CACCACCTTTTGATACACACGTT 59.686 43.478 0.00 0.00 0.00 3.99
2530 3030 3.949113 ACCACCTTTTGATACACACGTTT 59.051 39.130 0.00 0.00 0.00 3.60
2531 3031 4.201970 ACCACCTTTTGATACACACGTTTG 60.202 41.667 0.00 0.00 0.00 2.93
2532 3032 4.286910 CACCTTTTGATACACACGTTTGG 58.713 43.478 6.66 0.00 0.00 3.28
2533 3033 3.243267 ACCTTTTGATACACACGTTTGGC 60.243 43.478 6.66 0.00 0.00 4.52
2534 3034 3.004315 CCTTTTGATACACACGTTTGGCT 59.996 43.478 6.66 0.00 0.00 4.75
2535 3035 4.499019 CCTTTTGATACACACGTTTGGCTT 60.499 41.667 6.66 0.00 0.00 4.35
2536 3036 4.640789 TTTGATACACACGTTTGGCTTT 57.359 36.364 6.66 0.00 0.00 3.51
2537 3037 3.889196 TGATACACACGTTTGGCTTTC 57.111 42.857 6.66 0.00 0.00 2.62
2538 3038 3.206964 TGATACACACGTTTGGCTTTCA 58.793 40.909 6.66 1.02 0.00 2.69
2539 3039 3.002862 TGATACACACGTTTGGCTTTCAC 59.997 43.478 6.66 0.00 0.00 3.18
2540 3040 0.098025 ACACACGTTTGGCTTTCACG 59.902 50.000 6.66 0.00 39.86 4.35
2542 3042 1.328069 CACACGTTTGGCTTTCACGTA 59.672 47.619 0.00 0.00 45.10 3.57
2543 3043 2.032377 CACACGTTTGGCTTTCACGTAT 60.032 45.455 0.00 0.00 45.10 3.06
2544 3044 3.184783 CACACGTTTGGCTTTCACGTATA 59.815 43.478 0.00 0.00 45.10 1.47
2545 3045 3.184986 ACACGTTTGGCTTTCACGTATAC 59.815 43.478 0.00 0.00 45.10 1.47
2546 3046 2.409378 ACGTTTGGCTTTCACGTATACG 59.591 45.455 23.24 23.24 45.04 3.06
2593 3093 5.106555 ACGTTTGCTATTTTCAGATGTCTGG 60.107 40.000 9.94 0.00 43.91 3.86
2595 3095 6.348458 CGTTTGCTATTTTCAGATGTCTGGAA 60.348 38.462 9.94 4.96 43.91 3.53
2597 3097 7.707624 TTGCTATTTTCAGATGTCTGGAATT 57.292 32.000 9.94 6.87 40.86 2.17
2624 3124 4.273318 TCTCTCTCACTCGATTTGGATGA 58.727 43.478 0.00 0.00 0.00 2.92
2653 3153 2.917713 TTGGTGGCTGGATTGGTTAT 57.082 45.000 0.00 0.00 0.00 1.89
2666 3183 4.381932 GGATTGGTTATCTTTTGTGCCAGG 60.382 45.833 0.00 0.00 33.53 4.45
2689 3206 1.345741 TCTGAGTGAAGCAAGAGGTGG 59.654 52.381 0.00 0.00 0.00 4.61
2690 3207 1.345741 CTGAGTGAAGCAAGAGGTGGA 59.654 52.381 0.00 0.00 0.00 4.02
2691 3208 1.345741 TGAGTGAAGCAAGAGGTGGAG 59.654 52.381 0.00 0.00 0.00 3.86
2692 3209 1.346068 GAGTGAAGCAAGAGGTGGAGT 59.654 52.381 0.00 0.00 0.00 3.85
2693 3210 1.771255 AGTGAAGCAAGAGGTGGAGTT 59.229 47.619 0.00 0.00 0.00 3.01
2694 3211 1.876156 GTGAAGCAAGAGGTGGAGTTG 59.124 52.381 0.00 0.00 0.00 3.16
2695 3212 1.202806 TGAAGCAAGAGGTGGAGTTGG 60.203 52.381 0.00 0.00 0.00 3.77
2696 3213 1.072331 GAAGCAAGAGGTGGAGTTGGA 59.928 52.381 0.00 0.00 0.00 3.53
2697 3214 0.689623 AGCAAGAGGTGGAGTTGGAG 59.310 55.000 0.00 0.00 0.00 3.86
2698 3215 0.687354 GCAAGAGGTGGAGTTGGAGA 59.313 55.000 0.00 0.00 0.00 3.71
2699 3216 1.338579 GCAAGAGGTGGAGTTGGAGAG 60.339 57.143 0.00 0.00 0.00 3.20
2700 3217 2.251818 CAAGAGGTGGAGTTGGAGAGA 58.748 52.381 0.00 0.00 0.00 3.10
2701 3218 2.230130 AGAGGTGGAGTTGGAGAGAG 57.770 55.000 0.00 0.00 0.00 3.20
2702 3219 0.534873 GAGGTGGAGTTGGAGAGAGC 59.465 60.000 0.00 0.00 0.00 4.09
2703 3220 0.178921 AGGTGGAGTTGGAGAGAGCA 60.179 55.000 0.00 0.00 0.00 4.26
2704 3221 0.248843 GGTGGAGTTGGAGAGAGCAG 59.751 60.000 0.00 0.00 0.00 4.24
2705 3222 1.261480 GTGGAGTTGGAGAGAGCAGA 58.739 55.000 0.00 0.00 0.00 4.26
2706 3223 1.204467 GTGGAGTTGGAGAGAGCAGAG 59.796 57.143 0.00 0.00 0.00 3.35
2707 3224 0.175531 GGAGTTGGAGAGAGCAGAGC 59.824 60.000 0.00 0.00 0.00 4.09
2708 3225 0.894141 GAGTTGGAGAGAGCAGAGCA 59.106 55.000 0.00 0.00 0.00 4.26
2709 3226 1.274728 GAGTTGGAGAGAGCAGAGCAA 59.725 52.381 0.00 0.00 0.00 3.91
2710 3227 1.907936 AGTTGGAGAGAGCAGAGCAAT 59.092 47.619 0.00 0.00 0.00 3.56
2711 3228 3.102972 AGTTGGAGAGAGCAGAGCAATA 58.897 45.455 0.00 0.00 0.00 1.90
2712 3229 3.132646 AGTTGGAGAGAGCAGAGCAATAG 59.867 47.826 0.00 0.00 0.00 1.73
2713 3230 1.411977 TGGAGAGAGCAGAGCAATAGC 59.588 52.381 0.00 0.00 42.56 2.97
2714 3231 1.270252 GGAGAGAGCAGAGCAATAGCC 60.270 57.143 0.00 0.00 43.56 3.93
2715 3232 0.758123 AGAGAGCAGAGCAATAGCCC 59.242 55.000 0.00 0.00 43.56 5.19
2716 3233 0.758123 GAGAGCAGAGCAATAGCCCT 59.242 55.000 0.00 0.00 43.56 5.19
2717 3234 1.140652 GAGAGCAGAGCAATAGCCCTT 59.859 52.381 0.00 0.00 43.56 3.95
2789 3306 1.470051 GGGCCGCCTTCTTTTCATTA 58.530 50.000 9.86 0.00 0.00 1.90
2849 3369 4.332543 TCACAGACAGACACACAAACATTC 59.667 41.667 0.00 0.00 0.00 2.67
2886 3406 6.183360 CGAAACATTGCTCCAAAAACAGAAAA 60.183 34.615 0.00 0.00 0.00 2.29
2895 3415 7.491048 TGCTCCAAAAACAGAAAATACAAACTC 59.509 33.333 0.00 0.00 0.00 3.01
2941 3461 5.487433 GCCAATTTAAGCCCAACTTACATT 58.513 37.500 0.00 0.00 40.34 2.71
2969 3489 6.605849 CACTATTCAGTGTGAGATTTGTTGG 58.394 40.000 0.00 0.00 46.03 3.77
2972 3492 5.499139 TTCAGTGTGAGATTTGTTGGTTC 57.501 39.130 0.00 0.00 0.00 3.62
3040 3560 5.591643 ACGTAGATTCATGTTGTGTCAAC 57.408 39.130 5.78 5.78 0.00 3.18
3041 3561 5.053811 ACGTAGATTCATGTTGTGTCAACA 58.946 37.500 15.83 15.83 34.31 3.33
3042 3562 5.700832 ACGTAGATTCATGTTGTGTCAACAT 59.299 36.000 18.44 18.44 41.18 2.71
3048 3568 3.631145 ATGTTGTGTCAACATGCTCAC 57.369 42.857 21.88 0.00 39.22 3.51
3049 3569 2.642427 TGTTGTGTCAACATGCTCACT 58.358 42.857 10.63 0.00 35.83 3.41
3050 3570 3.016031 TGTTGTGTCAACATGCTCACTT 58.984 40.909 10.63 0.00 35.83 3.16
3051 3571 3.443329 TGTTGTGTCAACATGCTCACTTT 59.557 39.130 10.63 0.00 35.83 2.66
3052 3572 4.082300 TGTTGTGTCAACATGCTCACTTTT 60.082 37.500 10.63 0.00 35.83 2.27
3053 3573 4.031418 TGTGTCAACATGCTCACTTTTG 57.969 40.909 0.00 0.00 0.00 2.44
3054 3574 3.693578 TGTGTCAACATGCTCACTTTTGA 59.306 39.130 0.00 0.00 0.00 2.69
3055 3575 4.338964 TGTGTCAACATGCTCACTTTTGAT 59.661 37.500 0.00 0.00 0.00 2.57
3056 3576 4.913924 GTGTCAACATGCTCACTTTTGATC 59.086 41.667 0.00 0.00 0.00 2.92
3057 3577 4.579753 TGTCAACATGCTCACTTTTGATCA 59.420 37.500 0.00 0.00 32.52 2.92
3058 3578 5.242171 TGTCAACATGCTCACTTTTGATCAT 59.758 36.000 0.00 0.00 38.81 2.45
3059 3579 6.154445 GTCAACATGCTCACTTTTGATCATT 58.846 36.000 0.00 0.00 36.62 2.57
3060 3580 6.643770 GTCAACATGCTCACTTTTGATCATTT 59.356 34.615 0.00 0.00 36.62 2.32
3061 3581 7.170320 GTCAACATGCTCACTTTTGATCATTTT 59.830 33.333 0.00 0.00 36.62 1.82
3062 3582 7.711772 TCAACATGCTCACTTTTGATCATTTTT 59.288 29.630 0.00 0.00 36.62 1.94
3109 3629 8.974060 ATTATTTCTTTCTAATAGCGGGTTGA 57.026 30.769 0.00 0.00 0.00 3.18
3110 3630 8.974060 TTATTTCTTTCTAATAGCGGGTTGAT 57.026 30.769 0.00 0.00 0.00 2.57
3111 3631 7.881775 ATTTCTTTCTAATAGCGGGTTGATT 57.118 32.000 0.00 0.00 0.00 2.57
3112 3632 8.974060 ATTTCTTTCTAATAGCGGGTTGATTA 57.026 30.769 0.00 0.00 0.00 1.75
3113 3633 7.781548 TTCTTTCTAATAGCGGGTTGATTAC 57.218 36.000 0.00 0.00 0.00 1.89
3114 3634 6.880484 TCTTTCTAATAGCGGGTTGATTACA 58.120 36.000 0.00 0.00 0.00 2.41
3115 3635 7.506114 TCTTTCTAATAGCGGGTTGATTACAT 58.494 34.615 0.00 0.00 0.00 2.29
3116 3636 7.656137 TCTTTCTAATAGCGGGTTGATTACATC 59.344 37.037 0.00 0.00 0.00 3.06
3117 3637 5.466819 TCTAATAGCGGGTTGATTACATCG 58.533 41.667 0.00 0.00 0.00 3.84
3118 3638 4.330944 AATAGCGGGTTGATTACATCGA 57.669 40.909 0.00 0.00 0.00 3.59
3119 3639 1.935933 AGCGGGTTGATTACATCGAC 58.064 50.000 0.00 0.00 41.93 4.20
3120 3640 1.206132 AGCGGGTTGATTACATCGACA 59.794 47.619 6.48 0.00 43.98 4.35
3121 3641 2.004017 GCGGGTTGATTACATCGACAA 58.996 47.619 6.48 0.00 43.98 3.18
3122 3642 2.222953 GCGGGTTGATTACATCGACAAC 60.223 50.000 5.93 5.93 43.98 3.32
3127 3647 5.156804 GTTGATTACATCGACAACCCATC 57.843 43.478 3.61 0.00 42.17 3.51
3128 3648 4.753516 TGATTACATCGACAACCCATCT 57.246 40.909 0.00 0.00 0.00 2.90
3129 3649 4.441792 TGATTACATCGACAACCCATCTG 58.558 43.478 0.00 0.00 0.00 2.90
3130 3650 4.161377 TGATTACATCGACAACCCATCTGA 59.839 41.667 0.00 0.00 0.00 3.27
3131 3651 4.545208 TTACATCGACAACCCATCTGAA 57.455 40.909 0.00 0.00 0.00 3.02
3132 3652 3.417069 ACATCGACAACCCATCTGAAA 57.583 42.857 0.00 0.00 0.00 2.69
3133 3653 3.750371 ACATCGACAACCCATCTGAAAA 58.250 40.909 0.00 0.00 0.00 2.29
3134 3654 3.502211 ACATCGACAACCCATCTGAAAAC 59.498 43.478 0.00 0.00 0.00 2.43
3135 3655 2.500229 TCGACAACCCATCTGAAAACC 58.500 47.619 0.00 0.00 0.00 3.27
3136 3656 2.158740 TCGACAACCCATCTGAAAACCA 60.159 45.455 0.00 0.00 0.00 3.67
3137 3657 2.621055 CGACAACCCATCTGAAAACCAA 59.379 45.455 0.00 0.00 0.00 3.67
3138 3658 3.304659 CGACAACCCATCTGAAAACCAAG 60.305 47.826 0.00 0.00 0.00 3.61
3139 3659 2.365293 ACAACCCATCTGAAAACCAAGC 59.635 45.455 0.00 0.00 0.00 4.01
3140 3660 2.629617 CAACCCATCTGAAAACCAAGCT 59.370 45.455 0.00 0.00 0.00 3.74
3141 3661 2.962859 ACCCATCTGAAAACCAAGCTT 58.037 42.857 0.00 0.00 0.00 3.74
3142 3662 3.308401 ACCCATCTGAAAACCAAGCTTT 58.692 40.909 0.00 0.00 0.00 3.51
3143 3663 3.321968 ACCCATCTGAAAACCAAGCTTTC 59.678 43.478 0.00 0.00 34.09 2.62
3144 3664 3.568538 CCATCTGAAAACCAAGCTTTCG 58.431 45.455 0.00 0.00 35.88 3.46
3145 3665 3.004734 CCATCTGAAAACCAAGCTTTCGT 59.995 43.478 0.00 0.00 35.88 3.85
3146 3666 3.691049 TCTGAAAACCAAGCTTTCGTG 57.309 42.857 0.00 0.00 35.88 4.35
3147 3667 3.275143 TCTGAAAACCAAGCTTTCGTGA 58.725 40.909 0.00 0.00 35.88 4.35
3148 3668 3.882888 TCTGAAAACCAAGCTTTCGTGAT 59.117 39.130 0.00 0.00 35.88 3.06
3149 3669 4.338118 TCTGAAAACCAAGCTTTCGTGATT 59.662 37.500 0.00 0.00 35.88 2.57
3150 3670 5.529430 TCTGAAAACCAAGCTTTCGTGATTA 59.471 36.000 0.00 0.00 35.88 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 1.934476 GCGCGCCGAAATGAATCAC 60.934 57.895 23.24 0.00 0.00 3.06
216 232 2.829003 TGCGGGTTTGACGGCAAA 60.829 55.556 13.68 13.68 42.57 3.68
230 246 4.661125 TGTTTTCTGCAGCTAATAATGCG 58.339 39.130 9.47 0.00 45.54 4.73
278 294 2.791560 CCTCGAGACAAGAACATATGCG 59.208 50.000 15.71 0.00 0.00 4.73
285 301 1.474879 CCTCCTCCTCGAGACAAGAAC 59.525 57.143 15.71 0.00 30.97 3.01
330 346 1.114627 CTCCCAAATTAAGGGGCTGC 58.885 55.000 14.21 0.00 46.77 5.25
353 369 5.333721 GGCCAACATTTGACCATTTTAAACG 60.334 40.000 0.00 0.00 32.85 3.60
374 390 1.125633 AATTGCATGGAGATTGGGCC 58.874 50.000 0.00 0.00 0.00 5.80
386 403 4.858850 TGTCTAGATGGACCAAATTGCAT 58.141 39.130 0.00 0.00 35.54 3.96
434 452 6.183360 CGTCTTAAATTTGAGATGGAGGGAAC 60.183 42.308 19.55 4.19 0.00 3.62
484 502 4.789119 CGTTTCTGAGACTTAGTCTAAGCG 59.211 45.833 19.50 16.80 43.53 4.68
506 528 3.959943 CAAAAAGTTGGGTCCACTAACG 58.040 45.455 0.00 0.00 0.00 3.18
550 572 5.478679 CGAAGGGAGTAGTTAGGATGATCAT 59.521 44.000 8.25 8.25 0.00 2.45
551 573 4.827835 CGAAGGGAGTAGTTAGGATGATCA 59.172 45.833 0.00 0.00 0.00 2.92
604 626 8.441312 TCATTCCGTCTTTTTAAAACTAGTGT 57.559 30.769 0.00 0.00 0.00 3.55
612 634 9.768662 AGTAAGTACTCATTCCGTCTTTTTAAA 57.231 29.630 0.00 0.00 0.00 1.52
615 637 9.201127 GTAAGTAAGTACTCATTCCGTCTTTTT 57.799 33.333 0.00 0.00 34.99 1.94
643 665 1.145803 GTGGTTGCAAGGTCGTCTAC 58.854 55.000 0.00 0.00 0.00 2.59
667 689 5.804979 GCTGCTACTCTAGAGAAAAAGACAG 59.195 44.000 26.57 22.02 0.00 3.51
725 752 5.782047 TGACGCATGAGGATTTTCATTTTT 58.218 33.333 0.00 0.00 35.67 1.94
796 832 4.748277 TGGGAGTTAGTTATACACTGCC 57.252 45.455 2.35 2.35 46.49 4.85
797 833 7.041984 GCTAATTGGGAGTTAGTTATACACTGC 60.042 40.741 0.00 0.00 35.97 4.40
798 834 7.985184 TGCTAATTGGGAGTTAGTTATACACTG 59.015 37.037 0.00 0.00 35.97 3.66
799 835 8.086143 TGCTAATTGGGAGTTAGTTATACACT 57.914 34.615 0.00 0.00 39.87 3.55
800 836 8.610035 GTTGCTAATTGGGAGTTAGTTATACAC 58.390 37.037 0.00 0.00 32.90 2.90
801 837 7.771826 GGTTGCTAATTGGGAGTTAGTTATACA 59.228 37.037 0.00 0.00 32.90 2.29
802 838 7.771826 TGGTTGCTAATTGGGAGTTAGTTATAC 59.228 37.037 0.00 0.00 32.90 1.47
864 900 2.203938 GGAGTGAGGTGGGTCCCA 60.204 66.667 6.47 6.47 36.75 4.37
875 911 0.956633 GTAGTGTCGTGTGGGAGTGA 59.043 55.000 0.00 0.00 0.00 3.41
882 918 3.552273 GGGGCTATATGTAGTGTCGTGTG 60.552 52.174 0.00 0.00 0.00 3.82
887 923 2.609737 GCACGGGGCTATATGTAGTGTC 60.610 54.545 0.00 0.00 40.25 3.67
905 941 1.580845 ATTGAGCTGCCTTCACGCAC 61.581 55.000 0.00 0.00 34.35 5.34
1015 1411 3.304928 GCAATATGTGGCCTAATCTGCAC 60.305 47.826 3.32 0.00 0.00 4.57
1042 1438 0.914644 ACCACCACCATGAGATGAGG 59.085 55.000 0.00 0.00 0.00 3.86
1044 1440 2.118679 CCTACCACCACCATGAGATGA 58.881 52.381 0.00 0.00 0.00 2.92
1083 1479 2.031163 GAACGACCCTGCTGCAGT 59.969 61.111 26.41 11.50 0.00 4.40
1125 1521 1.272872 ACCTTGGAGCTCGGGTAGTAA 60.273 52.381 18.76 1.92 0.00 2.24
1152 1548 1.817099 CCACTGCGAGAAGGGCATC 60.817 63.158 0.00 0.00 40.09 3.91
1222 1618 2.750657 CCATCCAGAGGGTGAGGGC 61.751 68.421 0.00 0.00 34.93 5.19
1288 1684 5.169836 TGAGCACTACGTACATATGAGTG 57.830 43.478 10.38 12.79 40.39 3.51
1350 1806 7.829211 ACAAGGAATTAGTTAGCAGCTTGATTA 59.171 33.333 0.00 0.00 0.00 1.75
1356 1812 4.081642 TCGACAAGGAATTAGTTAGCAGCT 60.082 41.667 0.00 0.00 0.00 4.24
1365 1821 2.603560 GCGGAAGTCGACAAGGAATTAG 59.396 50.000 19.50 1.51 42.43 1.73
1372 1828 2.383527 GCCTGCGGAAGTCGACAAG 61.384 63.158 19.50 6.77 42.43 3.16
1375 1831 2.811317 CTGCCTGCGGAAGTCGAC 60.811 66.667 7.70 7.70 42.43 4.20
1385 1847 1.986575 GACTTGAATCCGCTGCCTGC 61.987 60.000 0.00 0.00 38.57 4.85
1390 1852 1.002366 CCTTCGACTTGAATCCGCTG 58.998 55.000 0.00 0.00 35.63 5.18
1396 1858 1.078426 CGCCCCCTTCGACTTGAAT 60.078 57.895 0.00 0.00 35.63 2.57
1419 1881 2.126228 CGCCGAAGTAGCCGTTCA 60.126 61.111 0.00 0.00 0.00 3.18
1515 1992 1.798813 CGGTCCAAGAAGAAAAGACGG 59.201 52.381 0.00 0.00 0.00 4.79
1516 1993 2.750948 TCGGTCCAAGAAGAAAAGACG 58.249 47.619 0.00 0.00 0.00 4.18
1517 1994 4.570930 AGATCGGTCCAAGAAGAAAAGAC 58.429 43.478 0.00 0.00 0.00 3.01
1519 1996 4.997395 TCAAGATCGGTCCAAGAAGAAAAG 59.003 41.667 0.00 0.00 0.00 2.27
1533 2010 4.026475 GCGTCAGTTAAGAATCAAGATCGG 60.026 45.833 0.00 0.00 0.00 4.18
1541 2018 4.404507 TTGCTTGCGTCAGTTAAGAATC 57.595 40.909 0.00 0.00 0.00 2.52
1554 2032 5.345741 ACAGCTACATTAATTTTTGCTTGCG 59.654 36.000 0.00 0.00 0.00 4.85
1567 2045 4.163458 TCGTTGTTCGACAGCTACATTA 57.837 40.909 0.00 0.00 44.01 1.90
1568 2046 2.987149 CTCGTTGTTCGACAGCTACATT 59.013 45.455 0.00 0.00 44.01 2.71
1572 2050 0.956633 ACCTCGTTGTTCGACAGCTA 59.043 50.000 0.00 0.00 44.01 3.32
2172 2657 4.936411 TCCTTATCTTATACTCGGAGCTCG 59.064 45.833 7.83 3.33 40.90 5.03
2174 2659 5.184287 GCTTCCTTATCTTATACTCGGAGCT 59.816 44.000 4.58 0.00 0.00 4.09
2175 2660 5.184287 AGCTTCCTTATCTTATACTCGGAGC 59.816 44.000 4.58 0.00 0.00 4.70
2176 2661 6.127842 GGAGCTTCCTTATCTTATACTCGGAG 60.128 46.154 2.83 2.83 32.53 4.63
2177 2662 5.711036 GGAGCTTCCTTATCTTATACTCGGA 59.289 44.000 0.00 0.00 32.53 4.55
2178 2663 5.392165 CGGAGCTTCCTTATCTTATACTCGG 60.392 48.000 0.00 0.00 33.30 4.63
2179 2664 5.411977 TCGGAGCTTCCTTATCTTATACTCG 59.588 44.000 0.00 0.00 33.30 4.18
2180 2665 6.624204 GCTCGGAGCTTCCTTATCTTATACTC 60.624 46.154 22.32 0.00 38.45 2.59
2181 2666 5.184287 GCTCGGAGCTTCCTTATCTTATACT 59.816 44.000 22.32 0.00 38.45 2.12
2182 2667 5.404096 GCTCGGAGCTTCCTTATCTTATAC 58.596 45.833 22.32 0.00 38.45 1.47
2302 2798 8.980610 CAAATACATAACCGAATCACCGTATAA 58.019 33.333 0.00 0.00 0.00 0.98
2303 2799 8.143193 ACAAATACATAACCGAATCACCGTATA 58.857 33.333 0.00 0.00 0.00 1.47
2326 2823 4.082245 TCGCACTCAGAATATCTCACACAA 60.082 41.667 0.00 0.00 0.00 3.33
2338 2835 1.373873 CAGCTGCTCGCACTCAGAA 60.374 57.895 0.00 0.00 42.61 3.02
2371 2871 1.153745 CGTGTCAGCCTGCTAGACC 60.154 63.158 14.67 8.46 0.00 3.85
2388 2888 2.896243 ACTTAGACAGAGTACGCACG 57.104 50.000 0.00 0.00 0.00 5.34
2389 2889 5.004535 GCAATAACTTAGACAGAGTACGCAC 59.995 44.000 0.00 0.00 0.00 5.34
2390 2890 5.100259 GCAATAACTTAGACAGAGTACGCA 58.900 41.667 0.00 0.00 0.00 5.24
2416 2916 1.334869 GTTGGGCAAGTGTCTCACAAG 59.665 52.381 2.80 0.00 36.74 3.16
2431 2931 3.862877 TGTCCATCATCCATAGTTGGG 57.137 47.619 0.00 0.00 43.81 4.12
2462 2962 6.472016 TCTGTGTATCAAAAGGTGCAGATTA 58.528 36.000 0.00 0.00 0.00 1.75
2483 2983 9.244799 GTGTACTAAAATTTGGACCTTTTTCTG 57.755 33.333 0.00 0.00 0.00 3.02
2494 2994 7.493367 TCAAAAGGTGGTGTACTAAAATTTGG 58.507 34.615 0.00 0.00 0.00 3.28
2520 3020 1.328069 CGTGAAAGCCAAACGTGTGTA 59.672 47.619 4.73 0.00 32.79 2.90
2521 3021 0.098025 CGTGAAAGCCAAACGTGTGT 59.902 50.000 4.73 0.00 32.79 3.72
2522 3022 2.853457 CGTGAAAGCCAAACGTGTG 58.147 52.632 0.00 0.00 32.79 3.82
2526 3026 3.016177 CGTATACGTGAAAGCCAAACG 57.984 47.619 17.16 0.00 42.82 3.60
2543 3043 9.320352 TGGTACTAAAACGATACATAGTACGTA 57.680 33.333 12.98 0.00 45.91 3.57
2544 3044 8.122952 GTGGTACTAAAACGATACATAGTACGT 58.877 37.037 12.98 0.00 45.91 3.57
2545 3045 7.318909 CGTGGTACTAAAACGATACATAGTACG 59.681 40.741 12.98 4.37 45.91 3.67
2546 3046 8.122952 ACGTGGTACTAAAACGATACATAGTAC 58.877 37.037 14.58 11.59 44.99 2.73
2593 3093 5.317733 TCGAGTGAGAGAGAGGAAAATTC 57.682 43.478 0.00 0.00 0.00 2.17
2595 3095 5.930837 AATCGAGTGAGAGAGAGGAAAAT 57.069 39.130 0.00 0.00 0.00 1.82
2597 3097 4.081972 CCAAATCGAGTGAGAGAGAGGAAA 60.082 45.833 0.55 0.00 0.00 3.13
2608 3108 3.996363 CACAAGTCATCCAAATCGAGTGA 59.004 43.478 0.55 0.00 0.00 3.41
2609 3109 3.425359 GCACAAGTCATCCAAATCGAGTG 60.425 47.826 0.00 0.00 0.00 3.51
2624 3124 0.461135 CAGCCACCAAAAGCACAAGT 59.539 50.000 0.00 0.00 0.00 3.16
2653 3153 1.133823 TCAGAAGCCTGGCACAAAAGA 60.134 47.619 22.65 7.90 40.76 2.52
2689 3206 0.894141 TGCTCTGCTCTCTCCAACTC 59.106 55.000 0.00 0.00 0.00 3.01
2690 3207 1.346062 TTGCTCTGCTCTCTCCAACT 58.654 50.000 0.00 0.00 0.00 3.16
2691 3208 2.399916 ATTGCTCTGCTCTCTCCAAC 57.600 50.000 0.00 0.00 0.00 3.77
2692 3209 2.158986 GCTATTGCTCTGCTCTCTCCAA 60.159 50.000 0.00 0.00 36.03 3.53
2693 3210 1.411977 GCTATTGCTCTGCTCTCTCCA 59.588 52.381 0.00 0.00 36.03 3.86
2694 3211 1.270252 GGCTATTGCTCTGCTCTCTCC 60.270 57.143 0.00 0.00 39.59 3.71
2695 3212 1.270252 GGGCTATTGCTCTGCTCTCTC 60.270 57.143 0.00 0.00 36.57 3.20
2696 3213 0.758123 GGGCTATTGCTCTGCTCTCT 59.242 55.000 0.00 0.00 36.57 3.10
2697 3214 3.304041 GGGCTATTGCTCTGCTCTC 57.696 57.895 0.00 0.00 36.57 3.20
2704 3221 3.696051 TCATGTGAAAAGGGCTATTGCTC 59.304 43.478 0.00 0.00 40.76 4.26
2705 3222 3.700538 TCATGTGAAAAGGGCTATTGCT 58.299 40.909 0.00 0.00 39.59 3.91
2706 3223 4.158394 TCTTCATGTGAAAAGGGCTATTGC 59.842 41.667 0.00 0.00 33.07 3.56
2707 3224 5.902613 TCTTCATGTGAAAAGGGCTATTG 57.097 39.130 0.00 0.00 33.07 1.90
2708 3225 5.105595 GCTTCTTCATGTGAAAAGGGCTATT 60.106 40.000 13.99 0.00 33.07 1.73
2709 3226 4.400567 GCTTCTTCATGTGAAAAGGGCTAT 59.599 41.667 13.99 0.00 33.07 2.97
2710 3227 3.758554 GCTTCTTCATGTGAAAAGGGCTA 59.241 43.478 13.99 0.00 33.07 3.93
2711 3228 2.560105 GCTTCTTCATGTGAAAAGGGCT 59.440 45.455 13.99 0.00 33.07 5.19
2712 3229 2.297033 TGCTTCTTCATGTGAAAAGGGC 59.703 45.455 13.99 0.37 33.07 5.19
2713 3230 4.491676 CATGCTTCTTCATGTGAAAAGGG 58.508 43.478 13.99 0.00 39.10 3.95
2714 3231 4.491676 CCATGCTTCTTCATGTGAAAAGG 58.508 43.478 13.99 0.00 41.60 3.11
2715 3232 4.219070 TCCCATGCTTCTTCATGTGAAAAG 59.781 41.667 0.00 5.47 41.60 2.27
2716 3233 4.151121 TCCCATGCTTCTTCATGTGAAAA 58.849 39.130 0.00 0.00 41.60 2.29
2717 3234 3.765381 TCCCATGCTTCTTCATGTGAAA 58.235 40.909 0.00 0.00 41.60 2.69
2810 3327 6.291377 TGTCTGTGAGCTAAAGTTTCTTCAT 58.709 36.000 0.00 0.00 0.00 2.57
2811 3328 5.670485 TGTCTGTGAGCTAAAGTTTCTTCA 58.330 37.500 0.00 0.00 0.00 3.02
2812 3329 5.986135 TCTGTCTGTGAGCTAAAGTTTCTTC 59.014 40.000 0.00 0.00 0.00 2.87
2813 3330 5.755861 GTCTGTCTGTGAGCTAAAGTTTCTT 59.244 40.000 0.00 0.00 0.00 2.52
2814 3331 5.163405 TGTCTGTCTGTGAGCTAAAGTTTCT 60.163 40.000 0.00 0.00 0.00 2.52
2815 3332 5.050490 TGTCTGTCTGTGAGCTAAAGTTTC 58.950 41.667 0.00 0.00 0.00 2.78
2818 3335 3.384789 TGTGTCTGTCTGTGAGCTAAAGT 59.615 43.478 0.00 0.00 0.00 2.66
2819 3336 3.738282 GTGTGTCTGTCTGTGAGCTAAAG 59.262 47.826 0.00 0.00 0.00 1.85
2957 3477 6.697395 TCGATAGAAGAACCAACAAATCTCA 58.303 36.000 0.00 0.00 46.15 3.27
2999 3519 8.948853 TCTACGTTGTCATGAAAATTCAAATC 57.051 30.769 0.61 0.00 41.13 2.17
3084 3604 8.974060 TCAACCCGCTATTAGAAAGAAATAAT 57.026 30.769 0.00 0.00 0.00 1.28
3085 3605 8.974060 ATCAACCCGCTATTAGAAAGAAATAA 57.026 30.769 0.00 0.00 0.00 1.40
3086 3606 8.974060 AATCAACCCGCTATTAGAAAGAAATA 57.026 30.769 0.00 0.00 0.00 1.40
3087 3607 7.881775 AATCAACCCGCTATTAGAAAGAAAT 57.118 32.000 0.00 0.00 0.00 2.17
3088 3608 7.825270 TGTAATCAACCCGCTATTAGAAAGAAA 59.175 33.333 0.00 0.00 0.00 2.52
3089 3609 7.332557 TGTAATCAACCCGCTATTAGAAAGAA 58.667 34.615 0.00 0.00 0.00 2.52
3090 3610 6.880484 TGTAATCAACCCGCTATTAGAAAGA 58.120 36.000 0.00 0.00 0.00 2.52
3091 3611 7.359264 CGATGTAATCAACCCGCTATTAGAAAG 60.359 40.741 0.00 0.00 45.97 2.62
3092 3612 6.422701 CGATGTAATCAACCCGCTATTAGAAA 59.577 38.462 0.00 0.00 45.97 2.52
3093 3613 5.924254 CGATGTAATCAACCCGCTATTAGAA 59.076 40.000 0.00 0.00 45.97 2.10
3094 3614 5.242171 TCGATGTAATCAACCCGCTATTAGA 59.758 40.000 0.00 0.00 45.97 2.10
3095 3615 5.345202 GTCGATGTAATCAACCCGCTATTAG 59.655 44.000 0.00 0.00 45.97 1.73
3096 3616 5.221283 TGTCGATGTAATCAACCCGCTATTA 60.221 40.000 0.00 0.00 45.97 0.98
3097 3617 4.056050 GTCGATGTAATCAACCCGCTATT 58.944 43.478 0.00 0.00 45.97 1.73
3098 3618 3.069016 TGTCGATGTAATCAACCCGCTAT 59.931 43.478 0.00 0.00 45.97 2.97
3099 3619 2.427812 TGTCGATGTAATCAACCCGCTA 59.572 45.455 0.00 0.00 45.97 4.26
3100 3620 1.206132 TGTCGATGTAATCAACCCGCT 59.794 47.619 0.00 0.00 45.97 5.52
3101 3621 1.647346 TGTCGATGTAATCAACCCGC 58.353 50.000 0.00 0.00 45.97 6.13
3102 3622 3.651562 GTTGTCGATGTAATCAACCCG 57.348 47.619 3.61 0.00 45.97 5.28
3105 3625 4.876107 AGATGGGTTGTCGATGTAATCAAC 59.124 41.667 5.93 5.93 45.97 3.18
3106 3626 4.875536 CAGATGGGTTGTCGATGTAATCAA 59.124 41.667 0.00 0.00 45.97 2.57
3107 3627 4.161377 TCAGATGGGTTGTCGATGTAATCA 59.839 41.667 0.00 0.00 45.97 2.57
3108 3628 4.693283 TCAGATGGGTTGTCGATGTAATC 58.307 43.478 0.00 0.00 40.89 1.75
3109 3629 4.753516 TCAGATGGGTTGTCGATGTAAT 57.246 40.909 0.00 0.00 0.00 1.89
3110 3630 4.545208 TTCAGATGGGTTGTCGATGTAA 57.455 40.909 0.00 0.00 0.00 2.41
3111 3631 4.545208 TTTCAGATGGGTTGTCGATGTA 57.455 40.909 0.00 0.00 0.00 2.29
3112 3632 3.417069 TTTCAGATGGGTTGTCGATGT 57.583 42.857 0.00 0.00 0.00 3.06
3113 3633 3.119849 GGTTTTCAGATGGGTTGTCGATG 60.120 47.826 0.00 0.00 0.00 3.84
3114 3634 3.081804 GGTTTTCAGATGGGTTGTCGAT 58.918 45.455 0.00 0.00 0.00 3.59
3115 3635 2.158740 TGGTTTTCAGATGGGTTGTCGA 60.159 45.455 0.00 0.00 0.00 4.20
3116 3636 2.226330 TGGTTTTCAGATGGGTTGTCG 58.774 47.619 0.00 0.00 0.00 4.35
3117 3637 3.552890 GCTTGGTTTTCAGATGGGTTGTC 60.553 47.826 0.00 0.00 0.00 3.18
3118 3638 2.365293 GCTTGGTTTTCAGATGGGTTGT 59.635 45.455 0.00 0.00 0.00 3.32
3119 3639 2.629617 AGCTTGGTTTTCAGATGGGTTG 59.370 45.455 0.00 0.00 0.00 3.77
3120 3640 2.962859 AGCTTGGTTTTCAGATGGGTT 58.037 42.857 0.00 0.00 0.00 4.11
3121 3641 2.683211 AGCTTGGTTTTCAGATGGGT 57.317 45.000 0.00 0.00 0.00 4.51
3122 3642 3.612479 CGAAAGCTTGGTTTTCAGATGGG 60.612 47.826 0.00 0.00 33.46 4.00
3123 3643 3.004734 ACGAAAGCTTGGTTTTCAGATGG 59.995 43.478 0.00 0.00 33.46 3.51
3124 3644 3.976942 CACGAAAGCTTGGTTTTCAGATG 59.023 43.478 0.00 0.00 33.46 2.90
3125 3645 3.882888 TCACGAAAGCTTGGTTTTCAGAT 59.117 39.130 0.00 0.00 33.46 2.90
3126 3646 3.275143 TCACGAAAGCTTGGTTTTCAGA 58.725 40.909 0.00 0.00 33.46 3.27
3127 3647 3.691049 TCACGAAAGCTTGGTTTTCAG 57.309 42.857 0.00 0.00 33.46 3.02
3128 3648 4.647424 AATCACGAAAGCTTGGTTTTCA 57.353 36.364 0.00 0.00 33.46 2.69


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

AutoCloner maintained by Alex Coulton.