Multiple sequence alignment - TraesCS2D01G457200

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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 TraesCS2D01G457200 chr2D 100.000 4630 0 0 1 4630 564924521 564919892 0.000000e+00 8551.0
1 TraesCS2D01G457200 chr2D 89.022 1831 175 14 901 2721 564703490 564701676 0.000000e+00 2244.0
2 TraesCS2D01G457200 chr2D 86.667 750 63 19 3892 4630 564686280 564685557 0.000000e+00 797.0
3 TraesCS2D01G457200 chr2D 91.481 540 38 5 3205 3738 564686887 564686350 0.000000e+00 736.0
4 TraesCS2D01G457200 chr2D 84.783 276 20 7 2955 3209 564701636 564701362 1.650000e-64 257.0
5 TraesCS2D01G457200 chr2D 98.148 108 1 1 2 109 161896370 161896476 2.200000e-43 187.0
6 TraesCS2D01G457200 chr2D 97.222 108 3 0 2 109 535733185 535733292 2.850000e-42 183.0
7 TraesCS2D01G457200 chr2D 91.589 107 7 2 2743 2848 75255013 75255118 3.730000e-31 147.0
8 TraesCS2D01G457200 chr2D 88.660 97 11 0 3767 3863 566989003 566989099 8.140000e-23 119.0
9 TraesCS2D01G457200 chr2B 97.190 2954 52 9 1701 4630 676590169 676587223 0.000000e+00 4966.0
10 TraesCS2D01G457200 chr2B 90.377 1777 138 12 926 2699 676194666 676192920 0.000000e+00 2303.0
11 TraesCS2D01G457200 chr2B 89.573 1803 166 9 901 2699 676680366 676678582 0.000000e+00 2268.0
12 TraesCS2D01G457200 chr2B 87.155 1814 186 26 902 2696 676477864 676476079 0.000000e+00 2015.0
13 TraesCS2D01G457200 chr2B 86.251 1251 133 25 1500 2736 676485413 676484188 0.000000e+00 1321.0
14 TraesCS2D01G457200 chr2B 97.905 716 10 4 901 1616 676590885 676590175 0.000000e+00 1234.0
15 TraesCS2D01G457200 chr2B 90.978 787 57 10 3849 4630 676481475 676480698 0.000000e+00 1048.0
16 TraesCS2D01G457200 chr2B 88.564 787 62 14 3849 4629 676475268 676474504 0.000000e+00 929.0
17 TraesCS2D01G457200 chr2B 87.250 651 58 12 3986 4630 676191867 676191236 0.000000e+00 719.0
18 TraesCS2D01G457200 chr2B 88.850 565 48 9 901 1462 676485963 676485411 0.000000e+00 680.0
19 TraesCS2D01G457200 chr2B 88.104 538 53 7 3195 3729 676192551 676192022 3.040000e-176 628.0
20 TraesCS2D01G457200 chr2B 88.650 511 45 8 4089 4597 676677122 676676623 1.100000e-170 610.0
21 TraesCS2D01G457200 chr2B 87.684 544 42 15 109 644 765195443 765195969 1.100000e-170 610.0
22 TraesCS2D01G457200 chr2B 91.489 235 13 5 662 894 765196026 765196255 2.690000e-82 316.0
23 TraesCS2D01G457200 chr2B 86.818 220 28 1 3510 3729 676678027 676677809 1.290000e-60 244.0
24 TraesCS2D01G457200 chr2B 81.169 308 28 11 2955 3232 676476021 676475714 2.170000e-53 220.0
25 TraesCS2D01G457200 chr2B 85.621 153 21 1 3502 3654 676475536 676475385 4.790000e-35 159.0
26 TraesCS2D01G457200 chr2B 77.021 235 24 11 3035 3240 676482265 676482032 1.760000e-19 108.0
27 TraesCS2D01G457200 chr2A 89.939 1809 157 15 901 2699 705527917 705526124 0.000000e+00 2309.0
28 TraesCS2D01G457200 chr2A 86.010 772 94 9 3864 4630 705525244 705524482 0.000000e+00 815.0
29 TraesCS2D01G457200 chr2A 83.546 784 92 20 2955 3724 705526064 705525304 0.000000e+00 699.0
30 TraesCS2D01G457200 chr2A 86.667 105 13 1 3760 3864 131706238 131706135 1.050000e-21 115.0
31 TraesCS2D01G457200 chr4B 82.070 1807 242 48 907 2675 547580505 547578743 0.000000e+00 1467.0
32 TraesCS2D01G457200 chr4B 79.840 749 105 25 902 1616 547575059 547574323 5.350000e-139 505.0
33 TraesCS2D01G457200 chr4B 78.719 531 85 16 3176 3701 547567867 547567360 3.450000e-86 329.0
34 TraesCS2D01G457200 chr4B 96.552 87 3 0 2748 2834 673204473 673204559 1.340000e-30 145.0
35 TraesCS2D01G457200 chr4D 80.393 1780 278 45 902 2651 441494749 441493011 0.000000e+00 1288.0
36 TraesCS2D01G457200 chr4D 81.796 1203 166 34 1494 2675 441514127 441512957 0.000000e+00 959.0
37 TraesCS2D01G457200 chr4D 80.962 1019 158 20 929 1932 441639308 441638311 0.000000e+00 774.0
38 TraesCS2D01G457200 chr4D 83.526 692 83 15 2016 2699 441638183 441637515 6.580000e-173 617.0
39 TraesCS2D01G457200 chr4D 78.558 513 85 15 3176 3685 441492642 441492152 9.670000e-82 315.0
40 TraesCS2D01G457200 chr4D 82.061 262 34 8 3469 3720 441635754 441635496 1.310000e-50 211.0
41 TraesCS2D01G457200 chr4D 96.364 110 2 1 2 109 8881167 8881058 3.680000e-41 180.0
42 TraesCS2D01G457200 chr4D 97.647 85 2 0 2749 2833 469582356 469582272 3.730000e-31 147.0
43 TraesCS2D01G457200 chr4D 95.556 90 3 1 2744 2833 493742442 493742354 4.830000e-30 143.0
44 TraesCS2D01G457200 chr4D 88.776 98 9 2 3767 3863 503868677 503868581 8.140000e-23 119.0
45 TraesCS2D01G457200 chr4A 79.540 1784 295 44 902 2655 26064705 26066448 0.000000e+00 1208.0
46 TraesCS2D01G457200 chr4A 79.980 1019 168 23 929 1932 25802884 25803881 0.000000e+00 719.0
47 TraesCS2D01G457200 chr4A 84.522 659 80 12 2040 2693 25804107 25804748 2.350000e-177 632.0
48 TraesCS2D01G457200 chr4A 78.958 518 78 18 3176 3684 26066688 26067183 1.610000e-84 324.0
49 TraesCS2D01G457200 chr4A 83.051 295 32 11 3433 3711 26015115 26015407 7.690000e-63 252.0
50 TraesCS2D01G457200 chr4A 81.439 264 35 8 3467 3720 25807096 25807355 2.180000e-48 204.0
51 TraesCS2D01G457200 chr1A 84.410 1238 146 20 1465 2685 27296163 27297370 0.000000e+00 1173.0
52 TraesCS2D01G457200 chr1A 87.990 383 41 5 4250 4630 27307227 27307606 9.140000e-122 448.0
53 TraesCS2D01G457200 chr1A 82.707 399 38 15 3853 4250 27298190 27298558 4.470000e-85 326.0
54 TraesCS2D01G457200 chr1D 94.278 734 32 4 170 894 257405042 257404310 0.000000e+00 1114.0
55 TraesCS2D01G457200 chr1D 97.222 108 3 0 2 109 467415953 467415846 2.850000e-42 183.0
56 TraesCS2D01G457200 chr7A 84.590 915 97 22 1792 2691 701437878 701436993 0.000000e+00 869.0
57 TraesCS2D01G457200 chr7A 86.635 419 52 4 4214 4630 701431286 701430870 1.170000e-125 460.0
58 TraesCS2D01G457200 chr7A 86.944 360 34 6 3853 4208 701436181 701435831 4.340000e-105 392.0
59 TraesCS2D01G457200 chr7A 85.333 300 44 0 1471 1770 701438253 701437954 1.250000e-80 311.0
60 TraesCS2D01G457200 chr7A 89.005 191 21 0 1236 1426 701438450 701438260 2.150000e-58 237.0
61 TraesCS2D01G457200 chr7A 96.330 109 4 0 1 109 611230940 611231048 3.680000e-41 180.0
62 TraesCS2D01G457200 chr7A 88.350 103 10 2 3763 3864 85209298 85209399 6.290000e-24 122.0
63 TraesCS2D01G457200 chr7B 86.881 808 56 17 109 891 555582901 555583683 0.000000e+00 859.0
64 TraesCS2D01G457200 chr7B 84.859 568 60 20 109 666 10562207 10561656 2.440000e-152 549.0
65 TraesCS2D01G457200 chr7B 84.513 452 56 11 447 894 10561791 10561350 7.110000e-118 435.0
66 TraesCS2D01G457200 chr6B 87.109 799 54 22 110 894 85713040 85712277 0.000000e+00 859.0
67 TraesCS2D01G457200 chr6B 86.175 434 39 13 474 894 664414675 664414250 2.540000e-122 449.0
68 TraesCS2D01G457200 chr6B 96.667 90 2 1 2748 2837 472612146 472612058 1.040000e-31 148.0
69 TraesCS2D01G457200 chr6B 89.796 98 10 0 3767 3864 530560366 530560463 4.860000e-25 126.0
70 TraesCS2D01G457200 chr1B 86.203 819 49 16 109 897 230033740 230034524 0.000000e+00 828.0
71 TraesCS2D01G457200 chr1B 75.256 489 82 31 190 659 629267422 629267890 3.650000e-46 196.0
72 TraesCS2D01G457200 chr1B 87.129 101 12 1 3768 3867 67444644 67444544 3.790000e-21 113.0
73 TraesCS2D01G457200 chr3A 86.501 763 72 24 110 859 598994381 598993637 0.000000e+00 809.0
74 TraesCS2D01G457200 chr3A 97.222 108 3 0 2 109 738733095 738733202 2.850000e-42 183.0
75 TraesCS2D01G457200 chr3A 96.330 109 4 0 1 109 509555599 509555707 3.680000e-41 180.0
76 TraesCS2D01G457200 chr3A 96.330 109 4 0 1 109 732874458 732874566 3.680000e-41 180.0
77 TraesCS2D01G457200 chr3A 86.364 66 6 3 2871 2934 537743994 537744058 8.310000e-08 69.4
78 TraesCS2D01G457200 chr7D 85.818 550 39 19 109 644 519112436 519111912 8.760000e-152 547.0
79 TraesCS2D01G457200 chr7D 86.062 452 41 16 452 894 519112025 519111587 2.520000e-127 466.0
80 TraesCS2D01G457200 chr7D 88.776 98 9 2 3767 3863 424268290 424268194 8.140000e-23 119.0
81 TraesCS2D01G457200 chr6D 84.435 469 56 12 433 894 85552518 85552976 3.290000e-121 446.0
82 TraesCS2D01G457200 chr3B 84.402 468 53 15 433 892 673834845 673834390 4.250000e-120 442.0
83 TraesCS2D01G457200 chr3D 97.222 108 3 0 2 109 528097601 528097708 2.850000e-42 183.0
84 TraesCS2D01G457200 chr5B 97.647 85 2 0 2749 2833 62940323 62940407 3.730000e-31 147.0
85 TraesCS2D01G457200 chr5D 96.512 86 3 0 2749 2834 128577588 128577673 4.830000e-30 143.0
86 TraesCS2D01G457200 chr5D 89.691 97 10 0 3767 3863 553674728 553674824 1.750000e-24 124.0


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 TraesCS2D01G457200 chr2D 564919892 564924521 4629 True 8551.000000 8551 100.000000 1 4630 1 chr2D.!!$R1 4629
1 TraesCS2D01G457200 chr2D 564701362 564703490 2128 True 1250.500000 2244 86.902500 901 3209 2 chr2D.!!$R3 2308
2 TraesCS2D01G457200 chr2D 564685557 564686887 1330 True 766.500000 797 89.074000 3205 4630 2 chr2D.!!$R2 1425
3 TraesCS2D01G457200 chr2B 676587223 676590885 3662 True 3100.000000 4966 97.547500 901 4630 2 chr2B.!!$R3 3729
4 TraesCS2D01G457200 chr2B 676191236 676194666 3430 True 1216.666667 2303 88.577000 926 4630 3 chr2B.!!$R1 3704
5 TraesCS2D01G457200 chr2B 676676623 676680366 3743 True 1040.666667 2268 88.347000 901 4597 3 chr2B.!!$R4 3696
6 TraesCS2D01G457200 chr2B 676474504 676485963 11459 True 810.000000 2015 85.701125 901 4630 8 chr2B.!!$R2 3729
7 TraesCS2D01G457200 chr2B 765195443 765196255 812 False 463.000000 610 89.586500 109 894 2 chr2B.!!$F1 785
8 TraesCS2D01G457200 chr2A 705524482 705527917 3435 True 1274.333333 2309 86.498333 901 4630 3 chr2A.!!$R2 3729
9 TraesCS2D01G457200 chr4B 547574323 547580505 6182 True 986.000000 1467 80.955000 902 2675 2 chr4B.!!$R2 1773
10 TraesCS2D01G457200 chr4B 547567360 547567867 507 True 329.000000 329 78.719000 3176 3701 1 chr4B.!!$R1 525
11 TraesCS2D01G457200 chr4D 441512957 441514127 1170 True 959.000000 959 81.796000 1494 2675 1 chr4D.!!$R2 1181
12 TraesCS2D01G457200 chr4D 441492152 441494749 2597 True 801.500000 1288 79.475500 902 3685 2 chr4D.!!$R6 2783
13 TraesCS2D01G457200 chr4D 441635496 441639308 3812 True 534.000000 774 82.183000 929 3720 3 chr4D.!!$R7 2791
14 TraesCS2D01G457200 chr4A 26064705 26067183 2478 False 766.000000 1208 79.249000 902 3684 2 chr4A.!!$F3 2782
15 TraesCS2D01G457200 chr4A 25802884 25807355 4471 False 518.333333 719 81.980333 929 3720 3 chr4A.!!$F2 2791
16 TraesCS2D01G457200 chr1A 27296163 27298558 2395 False 749.500000 1173 83.558500 1465 4250 2 chr1A.!!$F2 2785
17 TraesCS2D01G457200 chr1D 257404310 257405042 732 True 1114.000000 1114 94.278000 170 894 1 chr1D.!!$R1 724
18 TraesCS2D01G457200 chr7A 701435831 701438450 2619 True 452.250000 869 86.468000 1236 4208 4 chr7A.!!$R2 2972
19 TraesCS2D01G457200 chr7B 555582901 555583683 782 False 859.000000 859 86.881000 109 891 1 chr7B.!!$F1 782
20 TraesCS2D01G457200 chr7B 10561350 10562207 857 True 492.000000 549 84.686000 109 894 2 chr7B.!!$R1 785
21 TraesCS2D01G457200 chr6B 85712277 85713040 763 True 859.000000 859 87.109000 110 894 1 chr6B.!!$R1 784
22 TraesCS2D01G457200 chr1B 230033740 230034524 784 False 828.000000 828 86.203000 109 897 1 chr1B.!!$F1 788
23 TraesCS2D01G457200 chr3A 598993637 598994381 744 True 809.000000 809 86.501000 110 859 1 chr3A.!!$R1 749
24 TraesCS2D01G457200 chr7D 519111587 519112436 849 True 506.500000 547 85.940000 109 894 2 chr7D.!!$R2 785

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
888 920 0.034059 CCTACAGCGCCCAATAGGAG 59.966 60.000 15.32 1.44 37.02 3.69 F
897 929 0.471617 CCCAATAGGAGCTCCCACTG 59.528 60.000 29.54 21.40 38.24 3.66 F
924 8123 1.030488 TCCCTTCCTCGTAGCAGTCG 61.030 60.000 0.00 0.00 0.00 4.18 F
1276 8495 1.270274 TCGACTTTGATTCCGACGGAA 59.730 47.619 30.20 30.20 46.39 4.30 F
2702 10400 0.868406 GTGGAGAAACGTTGAGCAGG 59.132 55.000 0.00 0.00 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2335 9805 1.134340 GGTCCCTAACACACACACACA 60.134 52.381 0.00 0.0 0.00 3.72 R
2336 9806 1.140252 AGGTCCCTAACACACACACAC 59.860 52.381 0.00 0.0 0.00 3.82 R
2702 10400 1.902508 TGGGAGTCTCAACATCAGTCC 59.097 52.381 1.47 0.0 0.00 3.85 R
2736 10434 3.003482 CGGAGGGAGTATCTTTCACTACG 59.997 52.174 0.00 0.0 45.07 3.51 R
4215 14985 1.198759 TGCCTAAGACCACCTGACCC 61.199 60.000 0.00 0.0 0.00 4.46 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
18 19 1.428219 TGAAAACGCGTGCGGAAAA 59.572 47.368 14.98 0.00 44.69 2.29
19 20 0.179171 TGAAAACGCGTGCGGAAAAA 60.179 45.000 14.98 0.00 44.69 1.94
21 22 2.286831 TGAAAACGCGTGCGGAAAAATA 60.287 40.909 14.98 0.00 44.69 1.40
22 23 2.402640 AAACGCGTGCGGAAAAATAA 57.597 40.000 14.98 0.00 44.69 1.40
23 24 2.402640 AACGCGTGCGGAAAAATAAA 57.597 40.000 14.98 0.00 44.69 1.40
24 25 2.402640 ACGCGTGCGGAAAAATAAAA 57.597 40.000 12.93 0.00 44.69 1.52
25 26 2.728922 ACGCGTGCGGAAAAATAAAAA 58.271 38.095 12.93 0.00 44.69 1.94
46 47 2.457366 ACAAAATCCGAAGAGAGCGT 57.543 45.000 0.00 0.00 0.00 5.07
47 48 2.338500 ACAAAATCCGAAGAGAGCGTC 58.662 47.619 0.00 0.00 0.00 5.19
50 51 0.457851 AATCCGAAGAGAGCGTCCAG 59.542 55.000 0.00 0.00 0.00 3.86
51 52 0.394488 ATCCGAAGAGAGCGTCCAGA 60.394 55.000 0.00 0.00 0.00 3.86
52 53 1.027255 TCCGAAGAGAGCGTCCAGAG 61.027 60.000 0.00 0.00 0.00 3.35
54 55 1.226547 GAAGAGAGCGTCCAGAGCG 60.227 63.158 0.00 0.00 40.04 5.03
62 63 4.702081 GTCCAGAGCGCGACACGT 62.702 66.667 12.10 0.00 46.11 4.49
63 64 4.700365 TCCAGAGCGCGACACGTG 62.700 66.667 15.48 15.48 46.11 4.49
74 75 3.027170 GACACGTGGCGAATGGCTG 62.027 63.158 21.57 0.00 42.94 4.85
75 76 2.741985 CACGTGGCGAATGGCTGA 60.742 61.111 7.95 0.00 42.94 4.26
77 78 2.125552 CGTGGCGAATGGCTGAGA 60.126 61.111 0.00 0.00 42.94 3.27
79 80 2.124983 TGGCGAATGGCTGAGAGC 60.125 61.111 0.00 0.00 42.94 4.09
80 81 3.267860 GGCGAATGGCTGAGAGCG 61.268 66.667 0.00 0.00 43.62 5.03
81 82 3.934684 GCGAATGGCTGAGAGCGC 61.935 66.667 0.00 0.00 43.62 5.92
83 84 3.934684 GAATGGCTGAGAGCGCGC 61.935 66.667 26.66 26.66 43.62 6.86
89 90 3.485431 CTGAGAGCGCGCCAAGTG 61.485 66.667 30.33 12.20 0.00 3.16
90 91 3.921767 CTGAGAGCGCGCCAAGTGA 62.922 63.158 30.33 6.19 0.00 3.41
91 92 3.482783 GAGAGCGCGCCAAGTGAC 61.483 66.667 30.33 10.54 0.00 3.67
114 115 1.291877 GATCGTTGCGAGGCAGTTGT 61.292 55.000 0.00 0.00 40.61 3.32
148 150 3.454573 CACTACGCCACCGCCCTA 61.455 66.667 0.00 0.00 38.22 3.53
713 745 2.436115 CGGAGGCCGGTCTTTTCC 60.436 66.667 11.49 6.35 44.15 3.13
714 746 2.045242 GGAGGCCGGTCTTTTCCC 60.045 66.667 11.49 1.92 0.00 3.97
715 747 2.603652 GGAGGCCGGTCTTTTCCCT 61.604 63.158 11.49 0.97 0.00 4.20
717 749 1.838073 GAGGCCGGTCTTTTCCCTGA 61.838 60.000 11.49 0.00 0.00 3.86
718 750 1.074248 GGCCGGTCTTTTCCCTGAA 59.926 57.895 1.90 0.00 0.00 3.02
719 751 1.241990 GGCCGGTCTTTTCCCTGAAC 61.242 60.000 1.90 0.00 0.00 3.18
720 752 1.241990 GCCGGTCTTTTCCCTGAACC 61.242 60.000 1.90 0.00 0.00 3.62
721 753 0.109723 CCGGTCTTTTCCCTGAACCA 59.890 55.000 0.00 0.00 0.00 3.67
722 754 1.523758 CGGTCTTTTCCCTGAACCAG 58.476 55.000 0.00 0.00 0.00 4.00
723 755 1.248486 GGTCTTTTCCCTGAACCAGC 58.752 55.000 0.00 0.00 0.00 4.85
724 756 0.875059 GTCTTTTCCCTGAACCAGCG 59.125 55.000 0.00 0.00 0.00 5.18
725 757 0.250727 TCTTTTCCCTGAACCAGCGG 60.251 55.000 0.00 0.00 0.00 5.52
726 758 1.866853 CTTTTCCCTGAACCAGCGGC 61.867 60.000 0.00 0.00 0.00 6.53
727 759 4.697756 TTCCCTGAACCAGCGGCG 62.698 66.667 0.51 0.51 0.00 6.46
743 775 2.979676 CGCAGCACAGCCCAAGAA 60.980 61.111 0.00 0.00 0.00 2.52
744 776 2.554636 CGCAGCACAGCCCAAGAAA 61.555 57.895 0.00 0.00 0.00 2.52
745 777 1.288127 GCAGCACAGCCCAAGAAAG 59.712 57.895 0.00 0.00 0.00 2.62
746 778 1.288127 CAGCACAGCCCAAGAAAGC 59.712 57.895 0.00 0.00 0.00 3.51
748 780 0.756442 AGCACAGCCCAAGAAAGCAA 60.756 50.000 0.00 0.00 0.00 3.91
749 781 0.319297 GCACAGCCCAAGAAAGCAAG 60.319 55.000 0.00 0.00 0.00 4.01
750 782 0.319297 CACAGCCCAAGAAAGCAAGC 60.319 55.000 0.00 0.00 0.00 4.01
751 783 1.080974 CAGCCCAAGAAAGCAAGCG 60.081 57.895 0.00 0.00 0.00 4.68
752 784 1.228245 AGCCCAAGAAAGCAAGCGA 60.228 52.632 0.00 0.00 0.00 4.93
753 785 0.610232 AGCCCAAGAAAGCAAGCGAT 60.610 50.000 0.00 0.00 0.00 4.58
754 786 0.457337 GCCCAAGAAAGCAAGCGATG 60.457 55.000 0.00 0.00 0.00 3.84
762 794 3.479370 GCAAGCGATGCGAGTCTT 58.521 55.556 1.74 0.00 46.87 3.01
764 796 0.166814 GCAAGCGATGCGAGTCTTTT 59.833 50.000 1.74 0.00 46.87 2.27
765 797 1.400242 GCAAGCGATGCGAGTCTTTTT 60.400 47.619 1.74 0.00 46.87 1.94
781 813 0.512952 TTTTTCTTCAGCGAGCGAGC 59.487 50.000 0.00 0.00 37.41 5.03
783 815 2.472232 TTTCTTCAGCGAGCGAGCGA 62.472 55.000 1.41 0.05 43.00 4.93
784 816 2.857380 TTCTTCAGCGAGCGAGCGAG 62.857 60.000 1.41 2.12 43.00 5.03
791 823 4.856607 GAGCGAGCGAGGGAACGG 62.857 72.222 0.00 0.00 0.00 4.44
793 825 4.430765 GCGAGCGAGGGAACGGAA 62.431 66.667 0.00 0.00 0.00 4.30
794 826 2.494918 CGAGCGAGGGAACGGAAT 59.505 61.111 0.00 0.00 0.00 3.01
795 827 1.878522 CGAGCGAGGGAACGGAATG 60.879 63.158 0.00 0.00 0.00 2.67
796 828 1.521681 GAGCGAGGGAACGGAATGG 60.522 63.158 0.00 0.00 0.00 3.16
798 830 1.521681 GCGAGGGAACGGAATGGAG 60.522 63.158 0.00 0.00 0.00 3.86
800 832 1.521681 GAGGGAACGGAATGGAGCG 60.522 63.158 0.00 0.00 0.00 5.03
801 833 1.956629 GAGGGAACGGAATGGAGCGA 61.957 60.000 0.00 0.00 0.00 4.93
802 834 1.521681 GGGAACGGAATGGAGCGAG 60.522 63.158 0.00 0.00 0.00 5.03
803 835 2.174319 GGAACGGAATGGAGCGAGC 61.174 63.158 0.00 0.00 0.00 5.03
804 836 2.509336 AACGGAATGGAGCGAGCG 60.509 61.111 0.00 0.00 0.00 5.03
805 837 2.884087 GAACGGAATGGAGCGAGCGA 62.884 60.000 0.00 0.00 0.00 4.93
807 839 2.964389 GGAATGGAGCGAGCGAGC 60.964 66.667 0.00 0.00 37.41 5.03
808 840 3.326210 GAATGGAGCGAGCGAGCG 61.326 66.667 0.00 0.00 43.00 5.03
809 841 3.758088 GAATGGAGCGAGCGAGCGA 62.758 63.158 1.41 0.00 43.00 4.93
810 842 3.144120 AATGGAGCGAGCGAGCGAT 62.144 57.895 1.41 0.00 43.00 4.58
811 843 3.550339 ATGGAGCGAGCGAGCGATC 62.550 63.158 7.00 7.00 45.11 3.69
813 845 2.025441 GAGCGAGCGAGCGATCTT 59.975 61.111 6.57 0.00 42.80 2.40
817 849 0.921347 GCGAGCGAGCGATCTTTTAA 59.079 50.000 6.57 0.00 0.00 1.52
819 851 2.657692 GCGAGCGAGCGATCTTTTAATG 60.658 50.000 6.57 0.00 0.00 1.90
820 852 2.097202 CGAGCGAGCGATCTTTTAATGG 60.097 50.000 6.57 0.00 0.00 3.16
821 853 2.213499 AGCGAGCGATCTTTTAATGGG 58.787 47.619 0.00 0.00 0.00 4.00
822 854 1.334149 GCGAGCGATCTTTTAATGGGC 60.334 52.381 0.00 0.00 0.00 5.36
823 855 1.264288 CGAGCGATCTTTTAATGGGCC 59.736 52.381 0.00 0.00 0.00 5.80
825 857 0.317854 GCGATCTTTTAATGGGCCGC 60.318 55.000 0.00 0.00 34.71 6.53
828 860 1.734388 ATCTTTTAATGGGCCGCGGC 61.734 55.000 41.63 41.63 41.06 6.53
845 877 4.415150 CCCATGGCTGGTCGCTGT 62.415 66.667 6.09 0.00 41.37 4.40
847 879 1.522355 CCATGGCTGGTCGCTGTAG 60.522 63.158 0.00 0.00 37.79 2.74
848 880 1.522355 CATGGCTGGTCGCTGTAGG 60.522 63.158 0.00 0.00 39.13 3.18
849 881 3.391665 ATGGCTGGTCGCTGTAGGC 62.392 63.158 0.00 0.00 39.13 3.93
858 890 2.266055 GCTGTAGGCGCCAGTTCT 59.734 61.111 31.54 10.27 32.41 3.01
860 892 1.153549 CTGTAGGCGCCAGTTCTCC 60.154 63.158 31.54 8.08 0.00 3.71
862 894 1.295423 GTAGGCGCCAGTTCTCCAA 59.705 57.895 31.54 0.00 0.00 3.53
863 895 1.019805 GTAGGCGCCAGTTCTCCAAC 61.020 60.000 31.54 8.08 0.00 3.77
865 897 3.423154 GCGCCAGTTCTCCAACGG 61.423 66.667 0.00 0.00 37.61 4.44
868 900 2.742372 CCAGTTCTCCAACGGGCG 60.742 66.667 0.00 0.00 40.46 6.13
869 901 3.423154 CAGTTCTCCAACGGGCGC 61.423 66.667 0.00 0.00 37.61 6.53
870 902 4.699522 AGTTCTCCAACGGGCGCC 62.700 66.667 21.18 21.18 37.61 6.53
872 904 2.998480 TTCTCCAACGGGCGCCTA 60.998 61.111 28.56 4.21 0.00 3.93
873 905 3.305177 TTCTCCAACGGGCGCCTAC 62.305 63.158 28.56 9.89 0.00 3.18
874 906 4.077184 CTCCAACGGGCGCCTACA 62.077 66.667 28.56 3.59 0.00 2.74
875 907 4.077184 TCCAACGGGCGCCTACAG 62.077 66.667 28.56 17.45 0.00 2.74
885 917 4.049393 GCCTACAGCGCCCAATAG 57.951 61.111 2.29 0.40 0.00 1.73
886 918 1.598130 GCCTACAGCGCCCAATAGG 60.598 63.158 15.85 15.85 37.79 2.57
887 919 2.040009 GCCTACAGCGCCCAATAGGA 62.040 60.000 21.62 0.00 37.02 2.94
888 920 0.034059 CCTACAGCGCCCAATAGGAG 59.966 60.000 15.32 1.44 37.02 3.69
893 925 2.427753 CGCCCAATAGGAGCTCCC 59.572 66.667 29.54 10.94 38.24 4.30
894 926 2.443394 CGCCCAATAGGAGCTCCCA 61.443 63.158 29.54 17.52 38.24 4.37
895 927 1.149401 GCCCAATAGGAGCTCCCAC 59.851 63.158 29.54 4.56 38.24 4.61
896 928 1.348775 GCCCAATAGGAGCTCCCACT 61.349 60.000 29.54 13.83 38.24 4.00
897 929 0.471617 CCCAATAGGAGCTCCCACTG 59.528 60.000 29.54 21.40 38.24 3.66
898 930 1.500474 CCAATAGGAGCTCCCACTGA 58.500 55.000 29.54 10.13 36.89 3.41
899 931 1.839994 CCAATAGGAGCTCCCACTGAA 59.160 52.381 29.54 8.47 36.89 3.02
924 8123 1.030488 TCCCTTCCTCGTAGCAGTCG 61.030 60.000 0.00 0.00 0.00 4.18
967 8168 1.841663 GCGCACAACACCTGTTCGAT 61.842 55.000 0.30 0.00 46.06 3.59
1276 8495 1.270274 TCGACTTTGATTCCGACGGAA 59.730 47.619 30.20 30.20 46.39 4.30
2702 10400 0.868406 GTGGAGAAACGTTGAGCAGG 59.132 55.000 0.00 0.00 0.00 4.85
2736 10434 6.586344 TGAGACTCCCATATTTGATGAAGAC 58.414 40.000 0.00 0.00 0.00 3.01
2869 10597 5.205056 TGTTTGTAAGGAAAATGGACAGGT 58.795 37.500 0.00 0.00 0.00 4.00
2883 10611 3.325753 AGGTGCTCCTGGGTGCTC 61.326 66.667 6.51 10.27 43.33 4.26
2952 10680 6.568869 TCAAAAAGGTCCATGTTTGTAACTG 58.431 36.000 10.17 0.00 33.62 3.16
3255 11425 5.957842 TTCCCTTGTGAATGTTGTGTATC 57.042 39.130 0.00 0.00 0.00 2.24
3259 11429 6.150976 TCCCTTGTGAATGTTGTGTATCATTC 59.849 38.462 9.90 9.90 45.59 2.67
3268 11438 6.367374 TGTTGTGTATCATTCTGTCCCTTA 57.633 37.500 0.00 0.00 0.00 2.69
3329 11600 9.540431 CAATTATTTTGGCAATTTTTAACTCCG 57.460 29.630 0.00 0.00 0.00 4.63
4054 14361 4.387026 AGACCCAATGATGAAAACAGGA 57.613 40.909 0.00 0.00 0.00 3.86
4215 14985 7.786178 TCGTGAATAATACCAATGGAAGAAG 57.214 36.000 6.16 0.00 0.00 2.85
4231 15001 2.541466 AGAAGGGTCAGGTGGTCTTAG 58.459 52.381 0.00 0.00 0.00 2.18
4400 15171 8.329502 ACCAAATAAATGTAGCTAGGAAAGTCT 58.670 33.333 0.00 0.00 0.00 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.125270 ATTTTTCCGCACGCGTTTTC 58.875 45.000 10.22 0.04 37.81 2.29
2 3 2.402640 TATTTTTCCGCACGCGTTTT 57.597 40.000 10.22 0.00 37.81 2.43
3 4 2.402640 TTATTTTTCCGCACGCGTTT 57.597 40.000 10.22 0.00 37.81 3.60
4 5 2.402640 TTTATTTTTCCGCACGCGTT 57.597 40.000 10.22 0.00 37.81 4.84
5 6 2.402640 TTTTATTTTTCCGCACGCGT 57.597 40.000 5.58 5.58 37.81 6.01
23 24 4.036380 ACGCTCTCTTCGGATTTTGTTTTT 59.964 37.500 0.00 0.00 0.00 1.94
24 25 3.564225 ACGCTCTCTTCGGATTTTGTTTT 59.436 39.130 0.00 0.00 0.00 2.43
25 26 3.139077 ACGCTCTCTTCGGATTTTGTTT 58.861 40.909 0.00 0.00 0.00 2.83
26 27 2.737252 GACGCTCTCTTCGGATTTTGTT 59.263 45.455 0.00 0.00 0.00 2.83
27 28 2.338500 GACGCTCTCTTCGGATTTTGT 58.662 47.619 0.00 0.00 0.00 2.83
28 29 1.661112 GGACGCTCTCTTCGGATTTTG 59.339 52.381 0.00 0.00 0.00 2.44
29 30 1.275291 TGGACGCTCTCTTCGGATTTT 59.725 47.619 0.00 0.00 0.00 1.82
30 31 0.895530 TGGACGCTCTCTTCGGATTT 59.104 50.000 0.00 0.00 0.00 2.17
31 32 0.457851 CTGGACGCTCTCTTCGGATT 59.542 55.000 0.00 0.00 0.00 3.01
32 33 0.394488 TCTGGACGCTCTCTTCGGAT 60.394 55.000 0.00 0.00 0.00 4.18
33 34 1.002502 TCTGGACGCTCTCTTCGGA 60.003 57.895 0.00 0.00 0.00 4.55
35 36 1.226547 GCTCTGGACGCTCTCTTCG 60.227 63.158 0.00 0.00 0.00 3.79
37 38 2.881389 CGCTCTGGACGCTCTCTT 59.119 61.111 0.00 0.00 0.00 2.85
46 47 4.700365 CACGTGTCGCGCTCTGGA 62.700 66.667 7.58 0.00 46.11 3.86
54 55 4.147322 CCATTCGCCACGTGTCGC 62.147 66.667 15.09 10.47 0.00 5.19
55 56 4.147322 GCCATTCGCCACGTGTCG 62.147 66.667 13.61 13.61 0.00 4.35
57 58 3.049674 CAGCCATTCGCCACGTGT 61.050 61.111 15.65 0.00 38.78 4.49
58 59 2.741985 TCAGCCATTCGCCACGTG 60.742 61.111 9.08 9.08 38.78 4.49
59 60 2.434884 CTCAGCCATTCGCCACGT 60.435 61.111 0.00 0.00 38.78 4.49
60 61 2.125552 TCTCAGCCATTCGCCACG 60.126 61.111 0.00 0.00 38.78 4.94
61 62 2.467826 GCTCTCAGCCATTCGCCAC 61.468 63.158 0.00 0.00 38.78 5.01
62 63 2.124983 GCTCTCAGCCATTCGCCA 60.125 61.111 0.00 0.00 38.78 5.69
63 64 3.267860 CGCTCTCAGCCATTCGCC 61.268 66.667 0.00 0.00 38.18 5.54
65 66 3.624300 CGCGCTCTCAGCCATTCG 61.624 66.667 5.56 0.00 38.18 3.34
66 67 3.934684 GCGCGCTCTCAGCCATTC 61.935 66.667 26.67 0.00 38.18 2.67
74 75 3.482783 GTCACTTGGCGCGCTCTC 61.483 66.667 32.29 15.45 0.00 3.20
92 93 2.806856 CTGCCTCGCAACGATCAGC 61.807 63.158 0.00 4.02 38.41 4.26
94 95 1.005037 AACTGCCTCGCAACGATCA 60.005 52.632 0.00 0.00 38.41 2.92
95 96 1.291877 ACAACTGCCTCGCAACGATC 61.292 55.000 0.00 0.00 38.41 3.69
96 97 0.884704 AACAACTGCCTCGCAACGAT 60.885 50.000 0.00 0.00 38.41 3.73
97 98 0.249531 TAACAACTGCCTCGCAACGA 60.250 50.000 0.00 0.00 38.41 3.85
100 101 2.248280 TTCTAACAACTGCCTCGCAA 57.752 45.000 0.00 0.00 38.41 4.85
101 102 1.871039 GTTTCTAACAACTGCCTCGCA 59.129 47.619 0.00 0.00 36.92 5.10
102 103 2.143925 AGTTTCTAACAACTGCCTCGC 58.856 47.619 0.00 0.00 35.57 5.03
103 104 2.737252 GGAGTTTCTAACAACTGCCTCG 59.263 50.000 0.00 0.00 38.76 4.63
105 106 3.477530 GTGGAGTTTCTAACAACTGCCT 58.522 45.455 3.06 0.00 42.79 4.75
107 108 2.223377 CCGTGGAGTTTCTAACAACTGC 59.777 50.000 0.00 0.00 43.51 4.40
114 115 2.322658 AGTGGTCCGTGGAGTTTCTAA 58.677 47.619 0.00 0.00 0.00 2.10
148 150 6.603599 GGAAAGGAGGCTTATATTGACAAGTT 59.396 38.462 0.00 0.00 0.00 2.66
450 481 9.273016 TCATCGGATATTAGAAAAAGTTCATCC 57.727 33.333 0.00 0.00 36.09 3.51
697 729 2.045242 GGGAAAAGACCGGCCTCC 60.045 66.667 0.00 0.00 0.00 4.30
698 730 1.377333 CAGGGAAAAGACCGGCCTC 60.377 63.158 0.00 0.00 0.00 4.70
699 731 1.423794 TTCAGGGAAAAGACCGGCCT 61.424 55.000 0.00 0.00 0.00 5.19
701 733 1.241990 GGTTCAGGGAAAAGACCGGC 61.242 60.000 0.00 0.00 0.00 6.13
703 735 1.523758 CTGGTTCAGGGAAAAGACCG 58.476 55.000 0.00 0.00 0.00 4.79
704 736 1.248486 GCTGGTTCAGGGAAAAGACC 58.752 55.000 0.00 0.00 31.21 3.85
705 737 0.875059 CGCTGGTTCAGGGAAAAGAC 59.125 55.000 6.16 0.00 45.41 3.01
706 738 0.250727 CCGCTGGTTCAGGGAAAAGA 60.251 55.000 12.56 0.00 45.41 2.52
707 739 1.866853 GCCGCTGGTTCAGGGAAAAG 61.867 60.000 12.56 0.00 45.41 2.27
709 741 2.282180 GCCGCTGGTTCAGGGAAA 60.282 61.111 12.56 0.00 45.41 3.13
710 742 4.697756 CGCCGCTGGTTCAGGGAA 62.698 66.667 12.56 0.00 45.41 3.97
726 758 2.467946 CTTTCTTGGGCTGTGCTGCG 62.468 60.000 0.00 0.00 0.00 5.18
727 759 1.288127 CTTTCTTGGGCTGTGCTGC 59.712 57.895 0.00 0.00 0.00 5.25
729 761 0.756442 TTGCTTTCTTGGGCTGTGCT 60.756 50.000 0.00 0.00 0.00 4.40
730 762 0.319297 CTTGCTTTCTTGGGCTGTGC 60.319 55.000 0.00 0.00 0.00 4.57
731 763 0.319297 GCTTGCTTTCTTGGGCTGTG 60.319 55.000 0.00 0.00 0.00 3.66
734 766 0.610232 ATCGCTTGCTTTCTTGGGCT 60.610 50.000 0.00 0.00 0.00 5.19
736 768 3.708195 CATCGCTTGCTTTCTTGGG 57.292 52.632 0.00 0.00 0.00 4.12
746 778 2.601481 AAAAAGACTCGCATCGCTTG 57.399 45.000 0.00 0.00 0.00 4.01
762 794 0.512952 GCTCGCTCGCTGAAGAAAAA 59.487 50.000 0.00 0.00 0.00 1.94
764 796 2.088763 CGCTCGCTCGCTGAAGAAA 61.089 57.895 0.00 0.00 0.00 2.52
765 797 2.504899 CGCTCGCTCGCTGAAGAA 60.505 61.111 0.00 0.00 0.00 2.52
766 798 3.388296 CTCGCTCGCTCGCTGAAGA 62.388 63.158 0.00 0.00 0.00 2.87
767 799 2.948648 CTCGCTCGCTCGCTGAAG 60.949 66.667 0.00 0.00 0.00 3.02
776 808 3.718210 ATTCCGTTCCCTCGCTCGC 62.718 63.158 0.00 0.00 0.00 5.03
777 809 1.878522 CATTCCGTTCCCTCGCTCG 60.879 63.158 0.00 0.00 0.00 5.03
778 810 1.521681 CCATTCCGTTCCCTCGCTC 60.522 63.158 0.00 0.00 0.00 5.03
779 811 1.961180 CTCCATTCCGTTCCCTCGCT 61.961 60.000 0.00 0.00 0.00 4.93
780 812 1.521681 CTCCATTCCGTTCCCTCGC 60.522 63.158 0.00 0.00 0.00 5.03
781 813 1.521681 GCTCCATTCCGTTCCCTCG 60.522 63.158 0.00 0.00 0.00 4.63
783 815 1.961180 CTCGCTCCATTCCGTTCCCT 61.961 60.000 0.00 0.00 0.00 4.20
784 816 1.521681 CTCGCTCCATTCCGTTCCC 60.522 63.158 0.00 0.00 0.00 3.97
786 818 2.517450 CGCTCGCTCCATTCCGTTC 61.517 63.158 0.00 0.00 0.00 3.95
787 819 2.509336 CGCTCGCTCCATTCCGTT 60.509 61.111 0.00 0.00 0.00 4.44
788 820 3.417275 CTCGCTCGCTCCATTCCGT 62.417 63.158 0.00 0.00 0.00 4.69
789 821 2.656651 CTCGCTCGCTCCATTCCG 60.657 66.667 0.00 0.00 0.00 4.30
790 822 2.964389 GCTCGCTCGCTCCATTCC 60.964 66.667 0.00 0.00 0.00 3.01
791 823 3.326210 CGCTCGCTCGCTCCATTC 61.326 66.667 0.00 0.00 0.00 2.67
792 824 3.144120 ATCGCTCGCTCGCTCCATT 62.144 57.895 0.00 0.00 0.00 3.16
793 825 3.550339 GATCGCTCGCTCGCTCCAT 62.550 63.158 0.00 0.00 0.00 3.41
794 826 4.257510 GATCGCTCGCTCGCTCCA 62.258 66.667 0.00 0.00 0.00 3.86
795 827 2.945398 AAAGATCGCTCGCTCGCTCC 62.945 60.000 0.00 0.00 0.00 4.70
796 828 1.142778 AAAAGATCGCTCGCTCGCTC 61.143 55.000 0.00 0.00 0.00 5.03
798 830 0.921347 TTAAAAGATCGCTCGCTCGC 59.079 50.000 0.00 0.00 0.00 5.03
800 832 2.221981 CCCATTAAAAGATCGCTCGCTC 59.778 50.000 0.00 0.00 0.00 5.03
801 833 2.213499 CCCATTAAAAGATCGCTCGCT 58.787 47.619 0.00 0.00 0.00 4.93
802 834 1.334149 GCCCATTAAAAGATCGCTCGC 60.334 52.381 0.00 0.00 0.00 5.03
803 835 1.264288 GGCCCATTAAAAGATCGCTCG 59.736 52.381 0.00 0.00 0.00 5.03
804 836 1.264288 CGGCCCATTAAAAGATCGCTC 59.736 52.381 0.00 0.00 0.00 5.03
805 837 1.308998 CGGCCCATTAAAAGATCGCT 58.691 50.000 0.00 0.00 0.00 4.93
807 839 0.041312 CGCGGCCCATTAAAAGATCG 60.041 55.000 0.00 0.00 0.00 3.69
808 840 0.310854 CCGCGGCCCATTAAAAGATC 59.689 55.000 14.67 0.00 0.00 2.75
809 841 1.734388 GCCGCGGCCCATTAAAAGAT 61.734 55.000 39.89 0.00 34.56 2.40
810 842 2.411504 GCCGCGGCCCATTAAAAGA 61.412 57.895 39.89 0.00 34.56 2.52
811 843 2.104132 GCCGCGGCCCATTAAAAG 59.896 61.111 39.89 1.92 34.56 2.27
843 875 1.476845 TTGGAGAACTGGCGCCTACA 61.477 55.000 29.70 11.29 0.00 2.74
844 876 1.019805 GTTGGAGAACTGGCGCCTAC 61.020 60.000 29.70 15.55 0.00 3.18
845 877 1.295423 GTTGGAGAACTGGCGCCTA 59.705 57.895 29.70 13.31 0.00 3.93
847 879 3.423154 CGTTGGAGAACTGGCGCC 61.423 66.667 22.73 22.73 0.00 6.53
848 880 3.423154 CCGTTGGAGAACTGGCGC 61.423 66.667 0.00 0.00 0.00 6.53
849 881 2.742372 CCCGTTGGAGAACTGGCG 60.742 66.667 0.00 0.00 30.63 5.69
851 883 2.742372 CGCCCGTTGGAGAACTGG 60.742 66.667 0.00 0.00 39.00 4.00
852 884 3.423154 GCGCCCGTTGGAGAACTG 61.423 66.667 0.00 0.00 32.25 3.16
853 885 4.699522 GGCGCCCGTTGGAGAACT 62.700 66.667 18.11 0.00 32.25 3.01
854 886 3.305177 TAGGCGCCCGTTGGAGAAC 62.305 63.158 26.15 0.00 32.25 3.01
855 887 2.998480 TAGGCGCCCGTTGGAGAA 60.998 61.111 26.15 0.00 32.25 2.87
856 888 3.766691 GTAGGCGCCCGTTGGAGA 61.767 66.667 26.15 0.00 32.25 3.71
857 889 4.077184 TGTAGGCGCCCGTTGGAG 62.077 66.667 26.15 0.00 34.00 3.86
858 890 4.077184 CTGTAGGCGCCCGTTGGA 62.077 66.667 26.15 0.00 0.00 3.53
868 900 1.598130 CCTATTGGGCGCTGTAGGC 60.598 63.158 7.64 0.00 37.64 3.93
869 901 0.034059 CTCCTATTGGGCGCTGTAGG 59.966 60.000 19.20 19.20 35.99 3.18
870 902 0.601311 GCTCCTATTGGGCGCTGTAG 60.601 60.000 7.64 4.73 42.17 2.74
872 904 2.190578 GCTCCTATTGGGCGCTGT 59.809 61.111 7.64 0.00 42.17 4.40
875 907 2.281139 GGAGCTCCTATTGGGCGC 60.281 66.667 26.25 0.00 45.51 6.53
876 908 2.427753 GGGAGCTCCTATTGGGCG 59.572 66.667 31.36 0.00 35.56 6.13
877 909 1.149401 GTGGGAGCTCCTATTGGGC 59.851 63.158 31.36 13.93 36.20 5.36
878 910 0.471617 CAGTGGGAGCTCCTATTGGG 59.528 60.000 31.36 12.92 31.97 4.12
879 911 1.500474 TCAGTGGGAGCTCCTATTGG 58.500 55.000 32.16 20.38 35.44 3.16
880 912 2.744494 GCTTCAGTGGGAGCTCCTATTG 60.744 54.545 28.98 28.98 35.92 1.90
881 913 1.488393 GCTTCAGTGGGAGCTCCTATT 59.512 52.381 31.36 20.60 36.20 1.73
882 914 1.127343 GCTTCAGTGGGAGCTCCTAT 58.873 55.000 31.36 15.20 36.20 2.57
883 915 0.978146 GGCTTCAGTGGGAGCTCCTA 60.978 60.000 31.36 24.44 36.20 2.94
884 916 2.297129 GGCTTCAGTGGGAGCTCCT 61.297 63.158 31.36 10.19 36.20 3.69
885 917 2.250741 GAGGCTTCAGTGGGAGCTCC 62.251 65.000 25.59 25.59 0.00 4.70
886 918 1.220477 GAGGCTTCAGTGGGAGCTC 59.780 63.158 4.71 4.71 0.00 4.09
887 919 1.229464 AGAGGCTTCAGTGGGAGCT 60.229 57.895 15.77 0.00 0.00 4.09
888 920 1.220477 GAGAGGCTTCAGTGGGAGC 59.780 63.158 9.98 9.98 0.00 4.70
889 921 1.621672 GGGAGAGGCTTCAGTGGGAG 61.622 65.000 0.00 0.00 0.00 4.30
890 922 1.613630 GGGAGAGGCTTCAGTGGGA 60.614 63.158 0.00 0.00 0.00 4.37
893 925 0.251634 GGAAGGGAGAGGCTTCAGTG 59.748 60.000 0.00 0.00 0.00 3.66
894 926 0.118144 AGGAAGGGAGAGGCTTCAGT 59.882 55.000 0.00 0.00 0.00 3.41
895 927 0.829990 GAGGAAGGGAGAGGCTTCAG 59.170 60.000 0.00 0.00 0.00 3.02
896 928 0.972983 CGAGGAAGGGAGAGGCTTCA 60.973 60.000 0.00 0.00 0.00 3.02
897 929 0.973496 ACGAGGAAGGGAGAGGCTTC 60.973 60.000 0.00 0.00 0.00 3.86
898 930 0.335361 TACGAGGAAGGGAGAGGCTT 59.665 55.000 0.00 0.00 0.00 4.35
899 931 0.106419 CTACGAGGAAGGGAGAGGCT 60.106 60.000 0.00 0.00 0.00 4.58
2229 9675 5.068591 TCAAAAAGTTGAAGGGTAAGCTTCC 59.931 40.000 0.00 4.16 40.87 3.46
2326 9796 8.353684 CCCTAACACACACACACAAATAAAATA 58.646 33.333 0.00 0.00 0.00 1.40
2327 9797 7.068839 TCCCTAACACACACACACAAATAAAAT 59.931 33.333 0.00 0.00 0.00 1.82
2331 9801 4.817464 GTCCCTAACACACACACACAAATA 59.183 41.667 0.00 0.00 0.00 1.40
2332 9802 3.630312 GTCCCTAACACACACACACAAAT 59.370 43.478 0.00 0.00 0.00 2.32
2333 9803 3.011119 GTCCCTAACACACACACACAAA 58.989 45.455 0.00 0.00 0.00 2.83
2334 9804 2.634600 GTCCCTAACACACACACACAA 58.365 47.619 0.00 0.00 0.00 3.33
2335 9805 1.134340 GGTCCCTAACACACACACACA 60.134 52.381 0.00 0.00 0.00 3.72
2336 9806 1.140252 AGGTCCCTAACACACACACAC 59.860 52.381 0.00 0.00 0.00 3.82
2702 10400 1.902508 TGGGAGTCTCAACATCAGTCC 59.097 52.381 1.47 0.00 0.00 3.85
2736 10434 3.003482 CGGAGGGAGTATCTTTCACTACG 59.997 52.174 0.00 0.00 45.07 3.51
2883 10611 9.359653 GAATTTGATATTCATATAGGGGGATGG 57.640 37.037 0.00 0.00 0.00 3.51
2952 10680 7.491372 GGTTTTTGGATAATAAAGCCAGTTAGC 59.509 37.037 0.00 0.00 35.46 3.09
3255 11425 6.655003 TCAGCTAAAAAGTAAGGGACAGAATG 59.345 38.462 0.00 0.00 46.00 2.67
3259 11429 5.305585 TGTCAGCTAAAAAGTAAGGGACAG 58.694 41.667 0.00 0.00 0.00 3.51
3329 11600 5.197682 ACGATTACAGAGGGCAATAGTAC 57.802 43.478 0.00 0.00 0.00 2.73
3464 13359 9.726438 ATAAGAGCTTCACTTGTAACATACTTT 57.274 29.630 0.00 0.00 0.00 2.66
3523 13656 7.361894 ACAAATGGTAATTTTCAATGCTTTGC 58.638 30.769 7.44 0.00 33.59 3.68
4215 14985 1.198759 TGCCTAAGACCACCTGACCC 61.199 60.000 0.00 0.00 0.00 4.46
4331 15101 8.575736 TTCTGGAATGGGAATTATACCTTCTA 57.424 34.615 0.00 0.00 0.00 2.10
4400 15171 3.274095 TCACCTGTTGTTGATGTGTCA 57.726 42.857 0.00 0.00 0.00 3.58
4447 15218 5.857268 AGGTAGCAATGCTTGTGAATTTTT 58.143 33.333 14.85 0.00 40.44 1.94


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

AutoCloner maintained by Alex Coulton.