Multiple sequence alignment - TraesCS2D01G277900

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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 TraesCS2D01G277900 chr2D 100.000 3132 0 0 1 3132 348198191 348195060 0.000000e+00 5784.0
1 TraesCS2D01G277900 chr2D 100.000 2302 0 0 3495 5796 348194697 348192396 0.000000e+00 4252.0
2 TraesCS2D01G277900 chr2D 89.143 175 17 2 5273 5445 541069607 541069781 3.520000e-52 217.0
3 TraesCS2D01G277900 chr2D 89.634 164 15 2 5269 5431 373883599 373883437 2.120000e-49 207.0
4 TraesCS2D01G277900 chr2D 87.200 125 12 4 5148 5270 555108715 555108593 7.830000e-29 139.0
5 TraesCS2D01G277900 chr2D 86.992 123 14 2 5148 5268 122864232 122864110 2.820000e-28 137.0
6 TraesCS2D01G277900 chr2D 92.308 65 4 1 3500 3563 24948592 24948656 2.220000e-14 91.6
7 TraesCS2D01G277900 chr2A 95.675 2312 57 15 825 3132 461696501 461698773 0.000000e+00 3675.0
8 TraesCS2D01G277900 chr2A 96.202 1369 33 11 4427 5791 461699684 461701037 0.000000e+00 2222.0
9 TraesCS2D01G277900 chr2A 97.573 618 14 1 3544 4161 461698895 461699511 0.000000e+00 1057.0
10 TraesCS2D01G277900 chr2A 89.319 749 76 3 12 758 461973741 461972995 0.000000e+00 937.0
11 TraesCS2D01G277900 chr2A 98.742 159 2 0 3958 4116 461699512 461699670 3.420000e-72 283.0
12 TraesCS2D01G277900 chr2B 96.670 1802 39 10 849 2640 413453490 413451700 0.000000e+00 2976.0
13 TraesCS2D01G277900 chr2B 93.581 1698 57 16 4117 5796 413450003 413448340 0.000000e+00 2484.0
14 TraesCS2D01G277900 chr2B 97.782 586 12 1 3495 4080 413450585 413450001 0.000000e+00 1009.0
15 TraesCS2D01G277900 chr2B 96.970 495 12 2 2638 3132 413451421 413450930 0.000000e+00 828.0
16 TraesCS2D01G277900 chr2B 87.443 438 47 8 31 464 413861676 413861243 1.120000e-136 497.0
17 TraesCS2D01G277900 chr2B 92.188 64 3 2 3500 3562 68226791 68226853 8.000000e-14 89.8
18 TraesCS2D01G277900 chr1D 91.463 164 13 1 5270 5432 488565452 488565289 2.100000e-54 224.0
19 TraesCS2D01G277900 chr6D 90.741 162 14 1 5272 5432 351233434 351233595 1.260000e-51 215.0
20 TraesCS2D01G277900 chr6D 93.333 60 2 2 3499 3558 453809415 453809358 2.880000e-13 87.9
21 TraesCS2D01G277900 chr4D 90.303 165 14 2 5270 5432 163791216 163791052 1.260000e-51 215.0
22 TraesCS2D01G277900 chr4D 87.135 171 20 2 5269 5437 421404947 421405117 5.930000e-45 193.0
23 TraesCS2D01G277900 chr4D 86.154 130 15 3 5148 5274 341693281 341693410 2.820000e-28 137.0
24 TraesCS2D01G277900 chr3A 89.820 167 16 1 5267 5432 512309567 512309733 4.550000e-51 213.0
25 TraesCS2D01G277900 chr3A 87.500 120 14 1 5149 5267 582283248 582283367 2.820000e-28 137.0
26 TraesCS2D01G277900 chr5D 86.911 191 21 4 5248 5435 461072789 461072600 1.640000e-50 211.0
27 TraesCS2D01G277900 chr5D 87.200 125 14 2 5148 5271 559421109 559421232 2.180000e-29 141.0
28 TraesCS2D01G277900 chr5D 85.938 128 16 2 5150 5275 204323265 204323392 1.010000e-27 135.0
29 TraesCS2D01G277900 chr3B 89.506 162 14 3 5273 5432 552226407 552226567 9.850000e-48 202.0
30 TraesCS2D01G277900 chr3B 92.424 66 3 2 3499 3563 156646752 156646816 6.180000e-15 93.5
31 TraesCS2D01G277900 chr3B 91.304 69 4 2 3500 3567 727790729 727790662 6.180000e-15 93.5
32 TraesCS2D01G277900 chr7A 89.024 164 15 3 5273 5435 674076623 674076462 3.540000e-47 200.0
33 TraesCS2D01G277900 chr3D 88.485 165 18 1 5273 5436 128214007 128214171 1.270000e-46 198.0
34 TraesCS2D01G277900 chr3D 86.992 123 14 2 5146 5266 315480456 315480578 2.820000e-28 137.0
35 TraesCS2D01G277900 chr3D 98.148 54 1 0 3499 3552 105124483 105124430 1.720000e-15 95.3
36 TraesCS2D01G277900 chr4A 88.095 168 17 3 5267 5432 450788266 450788432 4.580000e-46 196.0
37 TraesCS2D01G277900 chr6B 90.769 65 5 1 3499 3562 437482989 437482925 1.030000e-12 86.1
38 TraesCS2D01G277900 chr6B 90.769 65 5 1 3499 3562 437482945 437483009 1.030000e-12 86.1


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 TraesCS2D01G277900 chr2D 348192396 348198191 5795 True 5018.00 5784 100.00000 1 5796 2 chr2D.!!$R4 5795
1 TraesCS2D01G277900 chr2A 461696501 461701037 4536 False 1809.25 3675 97.04800 825 5791 4 chr2A.!!$F1 4966
2 TraesCS2D01G277900 chr2A 461972995 461973741 746 True 937.00 937 89.31900 12 758 1 chr2A.!!$R1 746
3 TraesCS2D01G277900 chr2B 413448340 413453490 5150 True 1824.25 2976 96.25075 849 5796 4 chr2B.!!$R2 4947

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
395 397 0.031716 CAGAGTGGAGGAGGGGATCA 60.032 60.000 0.0 0.0 0.00 2.92 F
774 777 0.033503 TCTGACGGCTATCACCCAGA 60.034 55.000 0.0 0.0 0.00 3.86 F
775 778 0.103208 CTGACGGCTATCACCCAGAC 59.897 60.000 0.0 0.0 0.00 3.51 F
1177 1182 0.249911 AGTCAGGAACTTGTCGTGGC 60.250 55.000 0.0 0.0 45.19 5.01 F
2794 3090 0.164647 GTCAGTCATGTGCGTTCTGC 59.835 55.000 0.0 0.0 46.70 4.26 F
3740 4036 3.118261 TGCTAATCCTGGTCATCTCAACC 60.118 47.826 0.0 0.0 37.31 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2244 2253 1.072266 ACCATGGGAACTGGCACTAA 58.928 50.000 18.09 0.0 37.27 2.24 R
2745 3040 1.202651 ACGTTTCCCTGACCTTCAGTG 60.203 52.381 2.63 0.0 42.80 3.66 R
2794 3090 1.805869 AGCACTTGCACAAGCTCTAG 58.194 50.000 10.26 0.0 45.16 2.43 R
2981 3277 0.704076 AAGATAAGCCCAAGGTGCCA 59.296 50.000 0.00 0.0 0.00 4.92 R
3943 4239 1.486310 CATCCAATCTTCCTCGTCCCA 59.514 52.381 0.00 0.0 0.00 4.37 R
5673 6001 2.811410 TCCGTGTATACTGACCTTGGT 58.189 47.619 4.17 0.0 0.00 3.67 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
28 29 3.251004 GCTCACAACGTCTTCAAATTCCT 59.749 43.478 0.00 0.00 0.00 3.36
32 33 6.898041 TCACAACGTCTTCAAATTCCTTATG 58.102 36.000 0.00 0.00 0.00 1.90
61 62 2.122954 GGGTCCACCAGAGGTCCT 59.877 66.667 0.00 0.00 39.85 3.85
65 66 0.321996 GTCCACCAGAGGTCCTTGTC 59.678 60.000 0.00 0.00 31.02 3.18
71 72 0.617413 CAGAGGTCCTTGTCCAGCAT 59.383 55.000 0.00 0.00 0.00 3.79
72 73 0.908198 AGAGGTCCTTGTCCAGCATC 59.092 55.000 0.00 0.00 0.00 3.91
80 81 1.879380 CTTGTCCAGCATCCGTTTTCA 59.121 47.619 0.00 0.00 0.00 2.69
81 82 1.522668 TGTCCAGCATCCGTTTTCAG 58.477 50.000 0.00 0.00 0.00 3.02
92 93 1.282875 GTTTTCAGCCTGCGGTGAC 59.717 57.895 0.00 0.00 45.88 3.67
105 106 3.414700 GTGACGTTGGCTCAGGCG 61.415 66.667 0.00 0.00 39.81 5.52
139 140 2.456073 TAGAAGAGGCACCCCTAGTC 57.544 55.000 0.00 0.00 43.12 2.59
142 143 3.851128 GAGGCACCCCTAGTCGCC 61.851 72.222 0.00 0.00 43.12 5.54
166 167 1.446907 GATCTCTGGTTGCACCACTG 58.553 55.000 4.16 1.68 44.79 3.66
210 211 4.993705 TGAACTGACCCTAACCATTTCT 57.006 40.909 0.00 0.00 0.00 2.52
211 212 4.906618 TGAACTGACCCTAACCATTTCTC 58.093 43.478 0.00 0.00 0.00 2.87
235 236 3.499737 GGGAGCCGCACAATCACG 61.500 66.667 0.00 0.00 0.00 4.35
258 259 0.326595 TTAGCCGCAATCAGAACCCA 59.673 50.000 0.00 0.00 0.00 4.51
301 302 1.521423 GAAACGAGTTGAGTGACCACG 59.479 52.381 0.00 0.00 36.20 4.94
317 318 4.498520 CGCAGAGCCGACGTGGAT 62.499 66.667 0.00 0.00 42.00 3.41
325 326 2.494918 CGACGTGGATGGGAGGAC 59.505 66.667 0.00 0.00 0.00 3.85
340 341 2.413765 GACCTCCGAGCACGATCC 59.586 66.667 4.70 0.00 42.66 3.36
347 348 1.371022 CGAGCACGATCCGATCCAG 60.371 63.158 0.00 0.00 42.66 3.86
348 349 1.736586 GAGCACGATCCGATCCAGT 59.263 57.895 2.69 0.00 0.00 4.00
353 354 2.228103 GCACGATCCGATCCAGTGTATA 59.772 50.000 14.31 0.00 35.46 1.47
395 397 0.031716 CAGAGTGGAGGAGGGGATCA 60.032 60.000 0.00 0.00 0.00 2.92
397 399 1.383803 AGTGGAGGAGGGGATCAGC 60.384 63.158 0.00 0.00 0.00 4.26
398 400 1.690633 GTGGAGGAGGGGATCAGCA 60.691 63.158 0.00 0.00 0.00 4.41
412 414 0.817634 TCAGCACGGGGTTTCTGTTG 60.818 55.000 0.00 0.00 31.34 3.33
414 416 1.826487 GCACGGGGTTTCTGTTGGT 60.826 57.895 0.00 0.00 31.34 3.67
438 440 2.047560 GACGTGGACGGGGGAAAG 60.048 66.667 0.00 0.00 44.95 2.62
447 449 0.916809 ACGGGGGAAAGTAGGGAATG 59.083 55.000 0.00 0.00 0.00 2.67
452 454 1.287425 GGAAAGTAGGGAATGTCGCG 58.713 55.000 0.00 0.00 34.19 5.87
455 457 0.175073 AAGTAGGGAATGTCGCGACC 59.825 55.000 34.34 20.16 36.01 4.79
464 466 4.688419 GTCGCGACCGAACCGTCA 62.688 66.667 28.61 0.00 46.34 4.35
474 476 1.001181 CCGAACCGTCACCTTCCTTTA 59.999 52.381 0.00 0.00 0.00 1.85
475 477 2.548493 CCGAACCGTCACCTTCCTTTAA 60.548 50.000 0.00 0.00 0.00 1.52
487 489 8.414003 GTCACCTTCCTTTAACTTTTTCTTGAT 58.586 33.333 0.00 0.00 0.00 2.57
488 490 8.977412 TCACCTTCCTTTAACTTTTTCTTGATT 58.023 29.630 0.00 0.00 0.00 2.57
512 514 3.434940 TTAGGGCTCCTTTTTCCTGAC 57.565 47.619 0.00 0.00 34.61 3.51
513 515 1.149101 AGGGCTCCTTTTTCCTGACA 58.851 50.000 0.00 0.00 0.00 3.58
520 522 3.674997 TCCTTTTTCCTGACAAGATCGG 58.325 45.455 0.00 0.00 0.00 4.18
524 526 5.432885 TTTTTCCTGACAAGATCGGAAAC 57.567 39.130 9.07 0.00 43.47 2.78
553 555 1.130749 TCCACGGAAACAACACAAACG 59.869 47.619 0.00 0.00 0.00 3.60
579 581 0.918983 CTAATGGGCTGGTTCCCTCA 59.081 55.000 0.12 0.00 46.67 3.86
597 599 1.888512 TCAGCTGAAAAGCCCAATCAC 59.111 47.619 15.67 0.00 34.90 3.06
608 611 1.972872 CCCAATCACCAGCATACTCC 58.027 55.000 0.00 0.00 0.00 3.85
628 631 2.021584 CTTTTGCCGCCGGAAAAGC 61.022 57.895 20.03 1.28 31.02 3.51
656 659 2.966309 GACAGCAGGAAAACGGGCG 61.966 63.158 0.00 0.00 0.00 6.13
661 664 2.282180 AGGAAAACGGGCGCACAT 60.282 55.556 11.77 0.00 0.00 3.21
669 672 0.810031 ACGGGCGCACATATCAGTTC 60.810 55.000 11.77 0.00 0.00 3.01
671 674 0.810031 GGGCGCACATATCAGTTCGT 60.810 55.000 10.83 0.00 30.89 3.85
735 738 1.816835 TCTAATGGCGTGAGAAGTCGT 59.183 47.619 0.00 0.00 0.00 4.34
758 761 4.142160 TGAACGTGTATGAGGGAAGATCTG 60.142 45.833 0.00 0.00 0.00 2.90
759 762 3.632333 ACGTGTATGAGGGAAGATCTGA 58.368 45.455 0.00 0.00 0.00 3.27
760 763 3.381908 ACGTGTATGAGGGAAGATCTGAC 59.618 47.826 0.00 0.00 0.00 3.51
761 764 3.549019 CGTGTATGAGGGAAGATCTGACG 60.549 52.174 0.00 0.00 0.00 4.35
762 765 2.959030 TGTATGAGGGAAGATCTGACGG 59.041 50.000 0.00 0.00 0.00 4.79
763 766 0.755686 ATGAGGGAAGATCTGACGGC 59.244 55.000 0.00 0.00 0.00 5.68
764 767 0.324738 TGAGGGAAGATCTGACGGCT 60.325 55.000 0.00 0.00 0.00 5.52
765 768 1.063942 TGAGGGAAGATCTGACGGCTA 60.064 52.381 0.00 0.00 0.00 3.93
766 769 2.243810 GAGGGAAGATCTGACGGCTAT 58.756 52.381 0.00 0.00 0.00 2.97
767 770 2.230266 GAGGGAAGATCTGACGGCTATC 59.770 54.545 0.00 0.00 0.00 2.08
768 771 1.964223 GGGAAGATCTGACGGCTATCA 59.036 52.381 0.00 0.00 0.00 2.15
769 772 2.288518 GGGAAGATCTGACGGCTATCAC 60.289 54.545 0.00 0.00 0.00 3.06
770 773 2.288518 GGAAGATCTGACGGCTATCACC 60.289 54.545 0.00 6.02 0.00 4.02
771 774 1.333177 AGATCTGACGGCTATCACCC 58.667 55.000 0.00 0.00 0.00 4.61
772 775 1.040646 GATCTGACGGCTATCACCCA 58.959 55.000 0.00 0.00 0.00 4.51
773 776 1.000283 GATCTGACGGCTATCACCCAG 60.000 57.143 0.00 0.00 0.00 4.45
774 777 0.033503 TCTGACGGCTATCACCCAGA 60.034 55.000 0.00 0.00 0.00 3.86
775 778 0.103208 CTGACGGCTATCACCCAGAC 59.897 60.000 0.00 0.00 0.00 3.51
777 780 2.279517 CGGCTATCACCCAGACGC 60.280 66.667 0.00 0.00 37.79 5.19
778 781 2.279517 GGCTATCACCCAGACGCG 60.280 66.667 3.53 3.53 0.00 6.01
779 782 2.782222 GGCTATCACCCAGACGCGA 61.782 63.158 15.93 0.00 0.00 5.87
780 783 1.141019 GCTATCACCCAGACGCGAA 59.859 57.895 15.93 0.00 0.00 4.70
781 784 0.459585 GCTATCACCCAGACGCGAAA 60.460 55.000 15.93 0.00 0.00 3.46
782 785 1.806623 GCTATCACCCAGACGCGAAAT 60.807 52.381 15.93 0.00 0.00 2.17
783 786 2.128035 CTATCACCCAGACGCGAAATC 58.872 52.381 15.93 0.00 0.00 2.17
784 787 0.806102 ATCACCCAGACGCGAAATCG 60.806 55.000 15.93 0.00 43.27 3.34
785 788 1.445410 CACCCAGACGCGAAATCGA 60.445 57.895 15.93 0.00 43.02 3.59
786 789 1.011968 CACCCAGACGCGAAATCGAA 61.012 55.000 15.93 0.00 43.02 3.71
787 790 1.012486 ACCCAGACGCGAAATCGAAC 61.012 55.000 15.93 0.00 43.02 3.95
788 791 1.340465 CCAGACGCGAAATCGAACG 59.660 57.895 15.93 4.23 43.02 3.95
789 792 1.340465 CAGACGCGAAATCGAACGG 59.660 57.895 15.93 0.00 43.02 4.44
790 793 1.080974 AGACGCGAAATCGAACGGT 60.081 52.632 15.93 0.00 43.02 4.83
791 794 0.665369 AGACGCGAAATCGAACGGTT 60.665 50.000 15.93 0.00 43.02 4.44
792 795 0.984109 GACGCGAAATCGAACGGTTA 59.016 50.000 15.93 0.00 43.02 2.85
793 796 1.386412 GACGCGAAATCGAACGGTTAA 59.614 47.619 15.93 0.00 43.02 2.01
794 797 1.791785 ACGCGAAATCGAACGGTTAAA 59.208 42.857 15.93 0.00 43.02 1.52
795 798 2.220593 ACGCGAAATCGAACGGTTAAAA 59.779 40.909 15.93 0.00 43.02 1.52
796 799 3.216819 CGCGAAATCGAACGGTTAAAAA 58.783 40.909 0.00 0.00 43.02 1.94
797 800 3.293605 CGCGAAATCGAACGGTTAAAAAG 59.706 43.478 0.00 0.00 43.02 2.27
798 801 4.456914 GCGAAATCGAACGGTTAAAAAGA 58.543 39.130 7.06 0.00 43.02 2.52
799 802 4.316513 GCGAAATCGAACGGTTAAAAAGAC 59.683 41.667 7.06 0.00 43.02 3.01
800 803 4.543177 CGAAATCGAACGGTTAAAAAGACG 59.457 41.667 0.00 0.00 43.02 4.18
801 804 4.394099 AATCGAACGGTTAAAAAGACGG 57.606 40.909 0.00 0.00 0.00 4.79
802 805 3.090952 TCGAACGGTTAAAAAGACGGA 57.909 42.857 0.00 0.00 0.00 4.69
803 806 3.652274 TCGAACGGTTAAAAAGACGGAT 58.348 40.909 0.00 0.00 0.00 4.18
804 807 4.804108 TCGAACGGTTAAAAAGACGGATA 58.196 39.130 0.00 0.00 0.00 2.59
805 808 4.858692 TCGAACGGTTAAAAAGACGGATAG 59.141 41.667 0.00 0.00 0.00 2.08
806 809 4.491441 CGAACGGTTAAAAAGACGGATAGC 60.491 45.833 0.00 0.00 0.00 2.97
807 810 2.925563 ACGGTTAAAAAGACGGATAGCG 59.074 45.455 0.00 0.00 0.00 4.26
808 811 2.925563 CGGTTAAAAAGACGGATAGCGT 59.074 45.455 0.00 0.00 0.00 5.07
809 812 3.241868 CGGTTAAAAAGACGGATAGCGTG 60.242 47.826 0.00 0.00 0.00 5.34
810 813 3.928375 GGTTAAAAAGACGGATAGCGTGA 59.072 43.478 0.00 0.00 0.00 4.35
811 814 4.389687 GGTTAAAAAGACGGATAGCGTGAA 59.610 41.667 0.00 0.00 0.00 3.18
812 815 5.106987 GGTTAAAAAGACGGATAGCGTGAAA 60.107 40.000 0.00 0.00 0.00 2.69
813 816 4.663636 AAAAAGACGGATAGCGTGAAAG 57.336 40.909 0.00 0.00 0.00 2.62
814 817 2.295253 AAGACGGATAGCGTGAAAGG 57.705 50.000 0.00 0.00 0.00 3.11
815 818 0.460311 AGACGGATAGCGTGAAAGGG 59.540 55.000 0.00 0.00 0.00 3.95
816 819 1.152383 GACGGATAGCGTGAAAGGGC 61.152 60.000 0.00 0.00 0.00 5.19
817 820 1.144057 CGGATAGCGTGAAAGGGCT 59.856 57.895 0.00 0.00 43.12 5.19
818 821 0.876342 CGGATAGCGTGAAAGGGCTC 60.876 60.000 0.00 0.00 40.58 4.70
819 822 0.876342 GGATAGCGTGAAAGGGCTCG 60.876 60.000 0.00 0.00 40.58 5.03
822 825 3.050275 GCGTGAAAGGGCTCGCTT 61.050 61.111 0.00 0.00 44.52 4.68
823 826 2.617274 GCGTGAAAGGGCTCGCTTT 61.617 57.895 11.02 11.02 44.52 3.51
842 845 4.034975 GCTTTAGGCTCAGTTTAGATGCTG 59.965 45.833 0.00 0.00 38.06 4.41
847 850 3.619038 GGCTCAGTTTAGATGCTGTGTAC 59.381 47.826 0.00 0.00 34.57 2.90
902 905 3.117512 AGAGCCCATCAACCGGATATTTT 60.118 43.478 9.46 0.00 33.95 1.82
903 906 4.104102 AGAGCCCATCAACCGGATATTTTA 59.896 41.667 9.46 0.00 33.95 1.52
1134 1137 2.363795 CCGCCCTCACCTGTCCTA 60.364 66.667 0.00 0.00 0.00 2.94
1169 1174 1.344763 CTCCGTTGGAGTCAGGAACTT 59.655 52.381 4.65 0.00 44.25 2.66
1177 1182 0.249911 AGTCAGGAACTTGTCGTGGC 60.250 55.000 0.00 0.00 45.19 5.01
1178 1183 1.300620 TCAGGAACTTGTCGTGGCG 60.301 57.895 0.00 0.00 41.55 5.69
1185 1190 1.085501 ACTTGTCGTGGCGTTCGTTT 61.086 50.000 0.00 0.00 0.00 3.60
1233 1238 0.818040 AGTTCGTTGACCTGGTTGCC 60.818 55.000 0.00 0.00 0.00 4.52
1328 1333 1.891150 GCTACCTATGCGGCTAACCTA 59.109 52.381 0.00 0.00 35.61 3.08
1408 1413 1.135575 GCCTTGATTGCAACTTCGAGG 60.136 52.381 23.94 23.94 43.71 4.63
1496 1501 3.554960 GGTGGAATGCTTTTCCTGTTTCC 60.555 47.826 16.65 9.54 39.31 3.13
1561 1566 6.458232 TGAATTACGGGGATTATGGTTTTG 57.542 37.500 0.00 0.00 0.00 2.44
1570 1575 6.701400 CGGGGATTATGGTTTTGATGAATTTC 59.299 38.462 0.00 0.00 0.00 2.17
1572 1577 7.365473 GGGGATTATGGTTTTGATGAATTTCCA 60.365 37.037 0.00 0.00 0.00 3.53
1573 1578 7.712205 GGGATTATGGTTTTGATGAATTTCCAG 59.288 37.037 0.00 0.00 0.00 3.86
1574 1579 8.260114 GGATTATGGTTTTGATGAATTTCCAGT 58.740 33.333 0.00 0.00 0.00 4.00
1575 1580 9.305925 GATTATGGTTTTGATGAATTTCCAGTC 57.694 33.333 0.00 0.00 0.00 3.51
1576 1581 6.669125 ATGGTTTTGATGAATTTCCAGTCA 57.331 33.333 0.00 0.00 0.00 3.41
1703 1712 4.043435 AGGCCTTCTTTTATCAAGGAGTGT 59.957 41.667 0.00 0.00 41.74 3.55
1794 1803 7.168219 TGTAAATCACTCTATTGAAGCAACCT 58.832 34.615 0.00 0.00 0.00 3.50
1864 1873 6.201806 GCTCATGAGTAATCACATAGACAACC 59.798 42.308 23.38 0.00 0.00 3.77
2059 2068 5.401531 TGTGTTCTGGGAATAGTGTAGTC 57.598 43.478 0.00 0.00 0.00 2.59
2174 2183 1.035139 CAAGTTTCACCTGCTGGCTT 58.965 50.000 9.95 1.64 36.63 4.35
2244 2253 2.236489 AACAGCAAAGTGGCCCATAT 57.764 45.000 0.00 0.00 0.00 1.78
2649 2944 8.642935 TGTTCTTATGGATTTAATCACCACAA 57.357 30.769 7.29 0.00 36.49 3.33
2794 3090 0.164647 GTCAGTCATGTGCGTTCTGC 59.835 55.000 0.00 0.00 46.70 4.26
2864 3160 8.721478 GGCTACATCATACACGATCAAAATAAT 58.279 33.333 0.00 0.00 0.00 1.28
2981 3277 7.090173 CGAAACATCACAGGGTGAATTTAAAT 58.910 34.615 2.87 0.00 45.96 1.40
3084 3380 8.143835 AGAAAGTTGTCTGTTTTCCCATATTTG 58.856 33.333 0.00 0.00 32.59 2.32
3125 3421 5.079689 TGTATTACTTTGCACATCCGAGA 57.920 39.130 0.00 0.00 0.00 4.04
3520 3816 9.383519 TCCAGTAAGATCATTTTTGACACTATC 57.616 33.333 0.00 0.00 0.00 2.08
3740 4036 3.118261 TGCTAATCCTGGTCATCTCAACC 60.118 47.826 0.00 0.00 37.31 3.77
3943 4239 8.423906 AGTCAATTCTCTATATACGTGGGATT 57.576 34.615 0.00 0.00 0.00 3.01
4121 4417 4.689612 AAGTACTCTGCTCACTTTGGAA 57.310 40.909 0.00 0.00 0.00 3.53
4149 4445 4.998672 TGGGTCTTACCAAACTTAACATCG 59.001 41.667 0.00 0.00 41.02 3.84
4176 4488 4.937015 CCCTAAATGTGCCAAGAATTTTGG 59.063 41.667 12.43 12.43 42.37 3.28
4177 4489 4.937015 CCTAAATGTGCCAAGAATTTTGGG 59.063 41.667 16.28 3.72 39.90 4.12
4178 4490 2.477845 ATGTGCCAAGAATTTTGGGC 57.522 45.000 7.46 7.46 46.58 5.36
4179 4491 1.422531 TGTGCCAAGAATTTTGGGCT 58.577 45.000 15.12 0.00 46.53 5.19
4282 4595 2.561478 TTCTACCAGGTCAAGTTGGC 57.439 50.000 0.00 0.00 38.03 4.52
4331 4644 5.428496 AATTGTCCATCGATACTGCAATG 57.572 39.130 0.00 0.00 0.00 2.82
4333 4646 4.664150 TGTCCATCGATACTGCAATGTA 57.336 40.909 0.00 0.00 0.00 2.29
4339 4652 6.037062 TCCATCGATACTGCAATGTAACTTTG 59.963 38.462 0.00 0.00 0.00 2.77
4650 4963 4.933400 GCATGATTGGAAAGAGCATTTGTT 59.067 37.500 0.00 0.00 0.00 2.83
4811 5124 0.034756 TTAGCTGCCGTGCTTCAGAA 59.965 50.000 0.00 0.00 43.74 3.02
4866 5180 1.066430 TCAAGGCGTTGTATGTCTCCC 60.066 52.381 17.96 0.00 34.98 4.30
5131 5446 6.104665 TGCAACTTCTCTCTCTAATCATGTG 58.895 40.000 0.00 0.00 0.00 3.21
5162 5479 9.233232 CTGCGTTTAAGTAACTTTTTCTGATTT 57.767 29.630 0.00 0.00 34.46 2.17
5211 5533 6.183360 TGTGTTTGTTCACTCATTTCAGTCTC 60.183 38.462 0.00 0.00 38.90 3.36
5213 5535 7.224753 GTGTTTGTTCACTCATTTCAGTCTCTA 59.775 37.037 0.00 0.00 35.68 2.43
5214 5536 7.933577 TGTTTGTTCACTCATTTCAGTCTCTAT 59.066 33.333 0.00 0.00 0.00 1.98
5215 5537 7.895975 TTGTTCACTCATTTCAGTCTCTATG 57.104 36.000 0.00 0.00 0.00 2.23
5216 5538 6.997655 TGTTCACTCATTTCAGTCTCTATGT 58.002 36.000 0.00 0.00 0.00 2.29
5217 5539 7.445121 TGTTCACTCATTTCAGTCTCTATGTT 58.555 34.615 0.00 0.00 0.00 2.71
5219 5541 9.593134 GTTCACTCATTTCAGTCTCTATGTTAT 57.407 33.333 0.00 0.00 0.00 1.89
5222 5544 9.175060 CACTCATTTCAGTCTCTATGTTATACG 57.825 37.037 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.160329 AAGACGTTGTGAGCCACAGC 61.160 55.000 10.64 10.64 45.39 4.40
1 2 0.861837 GAAGACGTTGTGAGCCACAG 59.138 55.000 7.85 1.86 45.39 3.66
2 3 0.176910 TGAAGACGTTGTGAGCCACA 59.823 50.000 4.16 4.16 43.02 4.17
3 4 1.295792 TTGAAGACGTTGTGAGCCAC 58.704 50.000 0.00 0.00 34.56 5.01
4 5 2.031258 TTTGAAGACGTTGTGAGCCA 57.969 45.000 0.00 0.00 0.00 4.75
5 6 3.555518 GAATTTGAAGACGTTGTGAGCC 58.444 45.455 0.00 0.00 0.00 4.70
6 7 3.251004 AGGAATTTGAAGACGTTGTGAGC 59.749 43.478 0.00 0.00 0.00 4.26
7 8 5.424121 AAGGAATTTGAAGACGTTGTGAG 57.576 39.130 0.00 0.00 0.00 3.51
8 9 6.072728 CCATAAGGAATTTGAAGACGTTGTGA 60.073 38.462 0.00 0.00 36.89 3.58
9 10 6.072728 TCCATAAGGAATTTGAAGACGTTGTG 60.073 38.462 0.00 0.00 42.23 3.33
10 11 6.001460 TCCATAAGGAATTTGAAGACGTTGT 58.999 36.000 0.00 0.00 42.23 3.32
28 29 3.332187 TGGACCCATGAGTGTTTCCATAA 59.668 43.478 0.00 0.00 32.32 1.90
32 33 1.534729 GTGGACCCATGAGTGTTTCC 58.465 55.000 0.00 0.00 0.00 3.13
38 39 0.911525 CCTCTGGTGGACCCATGAGT 60.912 60.000 0.00 0.00 44.15 3.41
41 42 1.604378 GACCTCTGGTGGACCCATG 59.396 63.158 0.00 0.00 44.15 3.66
45 46 1.128188 ACAAGGACCTCTGGTGGACC 61.128 60.000 0.00 2.85 41.21 4.46
46 47 0.321996 GACAAGGACCTCTGGTGGAC 59.678 60.000 0.00 0.00 35.25 4.02
61 62 1.879380 CTGAAAACGGATGCTGGACAA 59.121 47.619 0.00 0.00 0.00 3.18
65 66 0.962356 AGGCTGAAAACGGATGCTGG 60.962 55.000 0.00 0.00 0.00 4.85
71 72 2.668212 CCGCAGGCTGAAAACGGA 60.668 61.111 21.89 0.00 46.14 4.69
117 118 4.083565 GACTAGGGGTGCCTCTTCTATAG 58.916 52.174 0.00 0.00 0.00 1.31
139 140 3.376935 AACCAGAGATCCTGCGGCG 62.377 63.158 0.51 0.51 41.57 6.46
142 143 1.078918 TGCAACCAGAGATCCTGCG 60.079 57.895 5.86 3.24 41.57 5.18
169 170 0.321564 TGATCCAGCACCTTGAACGG 60.322 55.000 0.00 0.00 0.00 4.44
170 171 1.399440 CATGATCCAGCACCTTGAACG 59.601 52.381 0.00 0.00 0.00 3.95
211 212 4.785453 GTGCGGCTCCCTCCTTGG 62.785 72.222 0.00 0.00 0.00 3.61
235 236 0.393808 TTCTGATTGCGGCTAACCCC 60.394 55.000 0.00 0.00 0.00 4.95
258 259 0.549469 AAACCAAGTTCTCCACCCGT 59.451 50.000 0.00 0.00 0.00 5.28
265 266 2.727777 GTTTCGCCAAACCAAGTTCTC 58.272 47.619 0.00 0.00 36.62 2.87
301 302 2.887568 CATCCACGTCGGCTCTGC 60.888 66.667 0.00 0.00 33.14 4.26
312 313 3.648694 GGAGGTCCTCCCATCCAC 58.351 66.667 25.89 0.00 44.36 4.02
325 326 2.465097 GATCGGATCGTGCTCGGAGG 62.465 65.000 8.49 0.00 37.69 4.30
330 331 0.596083 CACTGGATCGGATCGTGCTC 60.596 60.000 11.62 0.00 0.00 4.26
333 334 3.119814 CCTATACACTGGATCGGATCGTG 60.120 52.174 18.53 18.53 0.00 4.35
335 336 2.423892 CCCTATACACTGGATCGGATCG 59.576 54.545 11.62 2.00 0.00 3.69
340 341 3.386726 TGGAAACCCTATACACTGGATCG 59.613 47.826 0.00 0.00 0.00 3.69
347 348 2.616842 CCGCATTGGAAACCCTATACAC 59.383 50.000 0.00 0.00 42.00 2.90
348 349 2.925724 CCGCATTGGAAACCCTATACA 58.074 47.619 0.00 0.00 42.00 2.29
353 354 3.061848 CGCCGCATTGGAAACCCT 61.062 61.111 0.00 0.00 42.00 4.34
381 383 1.690633 GTGCTGATCCCCTCCTCCA 60.691 63.158 0.00 0.00 0.00 3.86
395 397 1.528309 CCAACAGAAACCCCGTGCT 60.528 57.895 0.00 0.00 0.00 4.40
397 399 1.452145 CCACCAACAGAAACCCCGTG 61.452 60.000 0.00 0.00 0.00 4.94
398 400 1.152839 CCACCAACAGAAACCCCGT 60.153 57.895 0.00 0.00 0.00 5.28
412 414 2.355481 GTCCACGTCGACACCACC 60.355 66.667 17.16 0.00 32.74 4.61
414 416 3.968568 CCGTCCACGTCGACACCA 61.969 66.667 17.16 0.00 37.74 4.17
438 440 1.588139 CGGTCGCGACATTCCCTAC 60.588 63.158 37.26 18.17 0.00 3.18
447 449 4.688419 TGACGGTTCGGTCGCGAC 62.688 66.667 30.67 30.67 39.83 5.19
452 454 1.373873 GGAAGGTGACGGTTCGGTC 60.374 63.158 4.03 4.03 37.45 4.79
455 457 2.443887 TAAAGGAAGGTGACGGTTCG 57.556 50.000 0.00 0.00 0.00 3.95
512 514 0.736325 AGCCGACGTTTCCGATCTTG 60.736 55.000 0.00 0.00 37.88 3.02
513 515 0.813184 TAGCCGACGTTTCCGATCTT 59.187 50.000 0.00 0.00 37.88 2.40
520 522 1.143969 CCGTGGATAGCCGACGTTTC 61.144 60.000 16.81 0.00 37.15 2.78
524 526 1.140161 TTTCCGTGGATAGCCGACG 59.860 57.895 12.96 12.96 37.97 5.12
526 528 0.609151 TTGTTTCCGTGGATAGCCGA 59.391 50.000 0.00 0.00 36.79 5.54
527 529 0.725117 GTTGTTTCCGTGGATAGCCG 59.275 55.000 0.00 0.00 36.79 5.52
528 530 1.467342 GTGTTGTTTCCGTGGATAGCC 59.533 52.381 0.00 0.00 0.00 3.93
579 581 1.260544 GGTGATTGGGCTTTTCAGCT 58.739 50.000 0.00 0.00 46.44 4.24
582 584 0.968405 GCTGGTGATTGGGCTTTTCA 59.032 50.000 0.00 0.00 0.00 2.69
583 585 0.968405 TGCTGGTGATTGGGCTTTTC 59.032 50.000 0.00 0.00 0.00 2.29
597 599 0.099436 GCAAAAGCGGAGTATGCTGG 59.901 55.000 0.00 0.00 43.14 4.85
608 611 3.832720 TTTTCCGGCGGCAAAAGCG 62.833 57.895 21.04 0.00 35.00 4.68
630 633 2.038863 TTTCCTGCTGTCCTAAGGGA 57.961 50.000 0.00 0.00 39.70 4.20
643 646 1.302383 TATGTGCGCCCGTTTTCCTG 61.302 55.000 4.18 0.00 0.00 3.86
656 659 1.521423 GCCGTACGAACTGATATGTGC 59.479 52.381 18.76 2.68 0.00 4.57
661 664 1.093972 TTCGGCCGTACGAACTGATA 58.906 50.000 27.15 0.00 46.68 2.15
735 738 4.023980 AGATCTTCCCTCATACACGTTCA 58.976 43.478 0.00 0.00 0.00 3.18
758 761 1.065928 CGTCTGGGTGATAGCCGTC 59.934 63.158 0.00 0.00 38.98 4.79
759 762 3.077519 GCGTCTGGGTGATAGCCGT 62.078 63.158 0.00 0.00 38.98 5.68
760 763 2.279517 GCGTCTGGGTGATAGCCG 60.280 66.667 0.00 0.00 38.98 5.52
761 764 2.279517 CGCGTCTGGGTGATAGCC 60.280 66.667 0.00 0.00 36.00 3.93
762 765 0.459585 TTTCGCGTCTGGGTGATAGC 60.460 55.000 5.77 0.00 0.00 2.97
763 766 2.128035 GATTTCGCGTCTGGGTGATAG 58.872 52.381 5.77 0.00 0.00 2.08
764 767 1.535226 CGATTTCGCGTCTGGGTGATA 60.535 52.381 5.77 0.00 0.00 2.15
765 768 0.806102 CGATTTCGCGTCTGGGTGAT 60.806 55.000 5.77 0.00 0.00 3.06
766 769 1.445410 CGATTTCGCGTCTGGGTGA 60.445 57.895 5.77 0.00 0.00 4.02
767 770 1.011968 TTCGATTTCGCGTCTGGGTG 61.012 55.000 5.77 0.00 39.60 4.61
768 771 1.012486 GTTCGATTTCGCGTCTGGGT 61.012 55.000 5.77 0.00 39.60 4.51
769 772 1.708027 GTTCGATTTCGCGTCTGGG 59.292 57.895 5.77 0.00 39.60 4.45
770 773 1.340465 CGTTCGATTTCGCGTCTGG 59.660 57.895 5.77 0.00 39.60 3.86
771 774 1.340465 CCGTTCGATTTCGCGTCTG 59.660 57.895 5.77 0.00 39.60 3.51
772 775 0.665369 AACCGTTCGATTTCGCGTCT 60.665 50.000 5.77 0.00 39.60 4.18
773 776 0.984109 TAACCGTTCGATTTCGCGTC 59.016 50.000 5.77 0.00 39.60 5.19
774 777 1.417372 TTAACCGTTCGATTTCGCGT 58.583 45.000 5.77 0.00 39.60 6.01
775 778 2.490697 TTTAACCGTTCGATTTCGCG 57.509 45.000 0.00 0.00 39.60 5.87
776 779 4.316513 GTCTTTTTAACCGTTCGATTTCGC 59.683 41.667 0.00 0.00 39.60 4.70
777 780 4.543177 CGTCTTTTTAACCGTTCGATTTCG 59.457 41.667 0.00 0.00 41.45 3.46
778 781 4.842376 CCGTCTTTTTAACCGTTCGATTTC 59.158 41.667 0.00 0.00 0.00 2.17
779 782 4.511082 TCCGTCTTTTTAACCGTTCGATTT 59.489 37.500 0.00 0.00 0.00 2.17
780 783 4.057432 TCCGTCTTTTTAACCGTTCGATT 58.943 39.130 0.00 0.00 0.00 3.34
781 784 3.652274 TCCGTCTTTTTAACCGTTCGAT 58.348 40.909 0.00 0.00 0.00 3.59
782 785 3.090952 TCCGTCTTTTTAACCGTTCGA 57.909 42.857 0.00 0.00 0.00 3.71
783 786 4.491441 GCTATCCGTCTTTTTAACCGTTCG 60.491 45.833 0.00 0.00 0.00 3.95
784 787 4.491441 CGCTATCCGTCTTTTTAACCGTTC 60.491 45.833 0.00 0.00 0.00 3.95
785 788 3.368843 CGCTATCCGTCTTTTTAACCGTT 59.631 43.478 0.00 0.00 0.00 4.44
786 789 2.925563 CGCTATCCGTCTTTTTAACCGT 59.074 45.455 0.00 0.00 0.00 4.83
787 790 3.564408 CGCTATCCGTCTTTTTAACCG 57.436 47.619 0.00 0.00 0.00 4.44
799 802 0.876342 GAGCCCTTTCACGCTATCCG 60.876 60.000 0.00 0.00 44.21 4.18
800 803 0.876342 CGAGCCCTTTCACGCTATCC 60.876 60.000 0.00 0.00 34.84 2.59
801 804 1.491505 GCGAGCCCTTTCACGCTATC 61.492 60.000 0.00 0.00 46.06 2.08
802 805 1.521681 GCGAGCCCTTTCACGCTAT 60.522 57.895 0.00 0.00 46.06 2.97
803 806 2.125673 GCGAGCCCTTTCACGCTA 60.126 61.111 0.00 0.00 46.06 4.26
806 809 0.721718 CTAAAGCGAGCCCTTTCACG 59.278 55.000 0.00 0.00 36.50 4.35
807 810 1.087501 CCTAAAGCGAGCCCTTTCAC 58.912 55.000 0.00 0.00 36.50 3.18
808 811 0.676782 GCCTAAAGCGAGCCCTTTCA 60.677 55.000 0.00 0.00 36.50 2.69
809 812 2.099143 GCCTAAAGCGAGCCCTTTC 58.901 57.895 0.00 0.00 36.50 2.62
810 813 4.320910 GCCTAAAGCGAGCCCTTT 57.679 55.556 0.00 1.09 38.50 3.11
819 822 4.034975 CAGCATCTAAACTGAGCCTAAAGC 59.965 45.833 0.00 0.00 44.25 3.51
820 823 5.064452 CACAGCATCTAAACTGAGCCTAAAG 59.936 44.000 0.00 0.00 37.35 1.85
821 824 4.937620 CACAGCATCTAAACTGAGCCTAAA 59.062 41.667 0.00 0.00 37.35 1.85
822 825 4.020218 ACACAGCATCTAAACTGAGCCTAA 60.020 41.667 0.00 0.00 37.35 2.69
823 826 3.515502 ACACAGCATCTAAACTGAGCCTA 59.484 43.478 0.00 0.00 37.35 3.93
1133 1136 1.337447 CGGAGGCGGAAGTGAAAACTA 60.337 52.381 0.00 0.00 0.00 2.24
1134 1137 0.602905 CGGAGGCGGAAGTGAAAACT 60.603 55.000 0.00 0.00 0.00 2.66
1169 1174 0.248990 AGTAAACGAACGCCACGACA 60.249 50.000 0.00 0.00 34.70 4.35
1177 1182 2.664916 TCTCCCGAAAGTAAACGAACG 58.335 47.619 0.00 0.00 0.00 3.95
1178 1183 6.271566 AGATATCTCCCGAAAGTAAACGAAC 58.728 40.000 0.00 0.00 0.00 3.95
1185 1190 6.657117 CAGATCAGAGATATCTCCCGAAAGTA 59.343 42.308 25.88 5.15 43.88 2.24
1328 1333 2.427320 CATCCGGCCACGATGGAT 59.573 61.111 18.23 11.69 40.96 3.41
1496 1501 3.376234 CCAGTATCTCAAATGGTGCACTG 59.624 47.826 17.98 7.17 33.58 3.66
1561 1566 6.239120 CCCACCATAATGACTGGAAATTCATC 60.239 42.308 0.00 0.00 37.22 2.92
1570 1575 5.421693 TCAAATTTCCCACCATAATGACTGG 59.578 40.000 0.00 0.00 39.80 4.00
1572 1577 7.738437 ATTCAAATTTCCCACCATAATGACT 57.262 32.000 0.00 0.00 0.00 3.41
1573 1578 9.480053 CATATTCAAATTTCCCACCATAATGAC 57.520 33.333 0.00 0.00 0.00 3.06
1574 1579 8.649591 CCATATTCAAATTTCCCACCATAATGA 58.350 33.333 0.00 0.00 0.00 2.57
1575 1580 8.431222 ACCATATTCAAATTTCCCACCATAATG 58.569 33.333 0.00 0.00 0.00 1.90
1576 1581 8.431222 CACCATATTCAAATTTCCCACCATAAT 58.569 33.333 0.00 0.00 0.00 1.28
1728 1737 6.748658 CGCAATGATAATGAAGTGAACAACAT 59.251 34.615 0.00 0.00 0.00 2.71
1750 1759 4.671880 ACATTACGAGCAATTTTACGCA 57.328 36.364 0.00 0.00 0.00 5.24
1864 1873 2.048419 TATAGCTGCCAGCCTGCCAG 62.048 60.000 14.25 0.00 43.77 4.85
1915 1924 5.256474 AGTCAAGTGCTGGCAGTAATAAAT 58.744 37.500 17.16 0.00 29.16 1.40
2059 2068 1.808411 TAGAAGCTGAACCCGCAAAG 58.192 50.000 0.00 0.00 0.00 2.77
2174 2183 4.019792 TGCATCCTTAAAGCAAGACTCA 57.980 40.909 0.00 0.00 36.22 3.41
2244 2253 1.072266 ACCATGGGAACTGGCACTAA 58.928 50.000 18.09 0.00 37.27 2.24
2692 2987 8.100508 TCTGATACTGCTAGTATGTGTGATAC 57.899 38.462 11.86 0.00 41.21 2.24
2745 3040 1.202651 ACGTTTCCCTGACCTTCAGTG 60.203 52.381 2.63 0.00 42.80 3.66
2794 3090 1.805869 AGCACTTGCACAAGCTCTAG 58.194 50.000 10.26 0.00 45.16 2.43
2981 3277 0.704076 AAGATAAGCCCAAGGTGCCA 59.296 50.000 0.00 0.00 0.00 4.92
3520 3816 9.912634 AAATGTAAGACCATTTTTGACACTATG 57.087 29.630 0.00 0.00 41.11 2.23
3943 4239 1.486310 CATCCAATCTTCCTCGTCCCA 59.514 52.381 0.00 0.00 0.00 4.37
4121 4417 8.080363 TGTTAAGTTTGGTAAGACCCAATTTT 57.920 30.769 0.00 0.00 43.77 1.82
4339 4652 9.419297 GTACTCCAAAATAAATTCCCTTTTGTC 57.581 33.333 14.12 2.91 37.89 3.18
4629 4942 5.047802 ACGAACAAATGCTCTTTCCAATCAT 60.048 36.000 0.00 0.00 0.00 2.45
4811 5124 8.803235 TCGAACCTATATATCAGTATGCACTTT 58.197 33.333 0.00 0.00 34.76 2.66
5131 5446 5.593183 AAAGTTACTTAAACGCAGAGAGC 57.407 39.130 0.00 0.00 43.29 4.09
5263 5585 4.628661 AAGGGAGGGAGTAGATGTTACT 57.371 45.455 0.00 0.00 0.00 2.24
5264 5586 4.963628 AGAAAGGGAGGGAGTAGATGTTAC 59.036 45.833 0.00 0.00 0.00 2.50
5265 5587 5.222278 AGAAAGGGAGGGAGTAGATGTTA 57.778 43.478 0.00 0.00 0.00 2.41
5266 5588 4.081695 AGAAAGGGAGGGAGTAGATGTT 57.918 45.455 0.00 0.00 0.00 2.71
5268 5590 6.755542 ATTTAGAAAGGGAGGGAGTAGATG 57.244 41.667 0.00 0.00 0.00 2.90
5270 5592 9.603189 CTTATATTTAGAAAGGGAGGGAGTAGA 57.397 37.037 0.00 0.00 0.00 2.59
5271 5593 8.315482 GCTTATATTTAGAAAGGGAGGGAGTAG 58.685 40.741 0.00 0.00 0.00 2.57
5272 5594 7.237055 GGCTTATATTTAGAAAGGGAGGGAGTA 59.763 40.741 0.00 0.00 0.00 2.59
5273 5595 6.044520 GGCTTATATTTAGAAAGGGAGGGAGT 59.955 42.308 0.00 0.00 0.00 3.85
5274 5596 6.273495 AGGCTTATATTTAGAAAGGGAGGGAG 59.727 42.308 0.00 0.00 0.00 4.30
5408 5730 6.183361 CCACTCCCTCCGTTCCTAAATATAAA 60.183 42.308 0.00 0.00 0.00 1.40
5673 6001 2.811410 TCCGTGTATACTGACCTTGGT 58.189 47.619 4.17 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.