Multiple sequence alignment - TraesCS7D01G445300

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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 TraesCS7D01G445300 chr7D 100.000 3233 0 0 1 3233 566190886 566194118 0.000000e+00 5971.0
1 TraesCS7D01G445300 chr7D 92.411 224 17 0 3010 3233 395223694 395223917 1.450000e-83 320.0
2 TraesCS7D01G445300 chr7D 84.028 144 15 6 350 490 575594133 575593995 7.280000e-27 132.0
3 TraesCS7D01G445300 chr7A 90.422 2370 150 36 1 2356 652506446 652508752 0.000000e+00 3048.0
4 TraesCS7D01G445300 chr7A 87.342 316 29 8 2353 2667 466301159 466301464 5.130000e-93 351.0
5 TraesCS7D01G445300 chr7A 92.342 222 17 0 3010 3231 466301767 466301988 1.870000e-82 316.0
6 TraesCS7D01G445300 chr7A 81.148 122 11 9 2181 2299 68326654 68326766 1.600000e-13 87.9
7 TraesCS7D01G445300 chr7B 92.376 1456 65 23 723 2172 617827709 617829124 0.000000e+00 2032.0
8 TraesCS7D01G445300 chr7B 86.322 658 52 15 54 699 617826828 617827459 0.000000e+00 682.0
9 TraesCS7D01G445300 chr7B 79.570 279 43 12 589 860 427713811 427713540 1.530000e-43 187.0
10 TraesCS7D01G445300 chr7B 83.562 146 18 4 350 493 505937463 505937322 7.280000e-27 132.0
11 TraesCS7D01G445300 chr7B 82.353 136 15 6 2209 2343 56921455 56921328 3.410000e-20 110.0
12 TraesCS7D01G445300 chr4D 90.034 291 19 8 2371 2657 428552526 428552242 5.100000e-98 368.0
13 TraesCS7D01G445300 chr4D 75.969 387 54 19 492 865 421897278 421896918 2.580000e-36 163.0
14 TraesCS7D01G445300 chr4D 83.673 147 19 3 346 490 74079505 74079362 2.020000e-27 134.0
15 TraesCS7D01G445300 chr4D 80.337 178 26 9 2181 2356 75046433 75046603 3.390000e-25 126.0
16 TraesCS7D01G445300 chr4D 82.550 149 20 4 344 490 296729391 296729535 3.390000e-25 126.0
17 TraesCS7D01G445300 chr4D 82.550 149 19 5 350 496 483111484 483111341 1.220000e-24 124.0
18 TraesCS7D01G445300 chr4D 81.879 149 22 3 344 490 14438065 14438210 1.580000e-23 121.0
19 TraesCS7D01G445300 chr4D 82.639 144 18 7 350 490 119822897 119822758 1.580000e-23 121.0
20 TraesCS7D01G445300 chr4D 81.690 142 20 5 347 487 230472846 230472982 2.640000e-21 113.0
21 TraesCS7D01G445300 chr4D 79.730 148 21 7 347 490 134125770 134125912 7.380000e-17 99.0
22 TraesCS7D01G445300 chr4D 86.441 59 4 3 612 667 8993432 8993489 9.680000e-06 62.1
23 TraesCS7D01G445300 chr3D 87.087 333 23 16 2353 2676 110811687 110811366 3.070000e-95 359.0
24 TraesCS7D01G445300 chr3D 92.857 224 16 0 3010 3233 47746344 47746121 3.110000e-85 326.0
25 TraesCS7D01G445300 chr3D 80.935 278 33 11 623 887 26208870 26208600 5.470000e-48 202.0
26 TraesCS7D01G445300 chr3D 81.081 185 23 6 593 774 540154057 540154232 1.560000e-28 137.0
27 TraesCS7D01G445300 chr6D 89.310 290 23 4 2944 3233 294847 295128 1.100000e-94 357.0
28 TraesCS7D01G445300 chr6D 92.857 224 16 0 3010 3233 439931736 439931513 3.110000e-85 326.0
29 TraesCS7D01G445300 chr6D 84.615 143 16 4 350 490 256728599 256728461 1.560000e-28 137.0
30 TraesCS7D01G445300 chr6D 84.615 143 16 4 350 490 256729396 256729258 1.560000e-28 137.0
31 TraesCS7D01G445300 chr6D 83.784 148 18 4 345 490 392273228 392273085 5.630000e-28 135.0
32 TraesCS7D01G445300 chr6D 83.333 144 18 5 347 488 410398279 410398418 9.410000e-26 128.0
33 TraesCS7D01G445300 chr6D 82.432 148 18 5 346 490 429020993 429020851 4.380000e-24 122.0
34 TraesCS7D01G445300 chrUn 89.041 292 19 11 2371 2656 93439357 93439073 1.850000e-92 350.0
35 TraesCS7D01G445300 chrUn 86.420 324 31 9 2356 2676 154482611 154482924 3.090000e-90 342.0
36 TraesCS7D01G445300 chrUn 87.500 304 29 8 2376 2676 159539633 159539336 3.090000e-90 342.0
37 TraesCS7D01G445300 chrUn 86.420 324 31 9 2356 2676 332010518 332010831 3.090000e-90 342.0
38 TraesCS7D01G445300 chrUn 75.817 306 49 17 631 917 348170626 348170327 7.280000e-27 132.0
39 TraesCS7D01G445300 chrUn 82.857 140 18 4 351 490 22163659 22163792 1.580000e-23 121.0
40 TraesCS7D01G445300 chrUn 79.874 159 18 9 2177 2333 374044465 374044611 1.590000e-18 104.0
41 TraesCS7D01G445300 chrUn 80.808 99 16 3 347 442 147088675 147088773 1.240000e-09 75.0
42 TraesCS7D01G445300 chrUn 80.392 102 17 3 350 448 210791176 210791075 1.240000e-09 75.0
43 TraesCS7D01G445300 chrUn 80.808 99 16 3 347 442 374481046 374481144 1.240000e-09 75.0
44 TraesCS7D01G445300 chrUn 79.798 99 17 3 347 442 146902790 146902888 5.790000e-08 69.4
45 TraesCS7D01G445300 chrUn 79.798 99 17 3 347 442 146930253 146930351 5.790000e-08 69.4
46 TraesCS7D01G445300 chrUn 79.798 99 17 3 347 442 147063443 147063541 5.790000e-08 69.4
47 TraesCS7D01G445300 chrUn 79.412 102 18 3 350 448 210807708 210807607 5.790000e-08 69.4
48 TraesCS7D01G445300 chrUn 79.798 99 17 3 347 442 306657560 306657658 5.790000e-08 69.4
49 TraesCS7D01G445300 chr2D 88.040 301 23 10 2357 2657 636884610 636884323 8.590000e-91 344.0
50 TraesCS7D01G445300 chr2D 92.035 226 18 0 3008 3233 560982494 560982269 5.200000e-83 318.0
51 TraesCS7D01G445300 chr2D 81.053 285 33 16 590 865 590031401 590031673 1.180000e-49 207.0
52 TraesCS7D01G445300 chr2D 83.221 149 18 4 344 490 221650735 221650878 2.620000e-26 130.0
53 TraesCS7D01G445300 chr2D 79.874 159 18 9 2180 2336 4324165 4324019 1.590000e-18 104.0
54 TraesCS7D01G445300 chr2D 79.874 159 18 9 2180 2336 4349364 4349218 1.590000e-18 104.0
55 TraesCS7D01G445300 chr1D 87.702 309 20 11 2357 2657 447369174 447369472 8.590000e-91 344.0
56 TraesCS7D01G445300 chr1D 79.822 337 52 9 592 917 108102200 108102531 6.980000e-57 231.0
57 TraesCS7D01G445300 chr1D 77.705 305 48 15 593 887 440397621 440397327 5.550000e-38 169.0
58 TraesCS7D01G445300 chr1D 77.116 319 51 13 615 917 62690755 62690443 7.180000e-37 165.0
59 TraesCS7D01G445300 chr1D 76.056 355 47 23 590 917 483843491 483843834 2.010000e-32 150.0
60 TraesCS7D01G445300 chr1D 82.313 147 19 6 347 490 314013536 314013678 1.580000e-23 121.0
61 TraesCS7D01G445300 chr5D 86.478 318 30 9 2920 3233 192656618 192656310 1.440000e-88 337.0
62 TraesCS7D01G445300 chr5D 77.064 327 44 18 615 916 5154612 5154292 3.340000e-35 159.0
63 TraesCS7D01G445300 chr5D 81.356 177 25 5 2181 2356 114976500 114976669 1.560000e-28 137.0
64 TraesCS7D01G445300 chr5D 83.893 149 19 3 344 490 175300060 175299915 1.560000e-28 137.0
65 TraesCS7D01G445300 chr1A 92.857 224 16 0 3010 3233 579426747 579426970 3.110000e-85 326.0
66 TraesCS7D01G445300 chr1A 86.822 129 11 4 593 718 394236549 394236674 4.350000e-29 139.0
67 TraesCS7D01G445300 chr1A 84.615 143 17 3 350 490 155857856 155857717 1.560000e-28 137.0
68 TraesCS7D01G445300 chr2B 92.825 223 16 0 3011 3233 439735133 439735355 1.120000e-84 324.0
69 TraesCS7D01G445300 chr1B 78.963 328 47 13 593 908 423933367 423933684 1.520000e-48 204.0
70 TraesCS7D01G445300 chr6A 77.778 288 45 12 590 865 582085560 582085840 3.340000e-35 159.0
71 TraesCS7D01G445300 chr6A 83.108 148 19 4 345 490 538097833 538097690 2.620000e-26 130.0
72 TraesCS7D01G445300 chr6A 82.692 104 17 1 2253 2356 15632103 15632205 1.240000e-14 91.6
73 TraesCS7D01G445300 chr4A 82.584 178 22 4 2181 2356 512543362 512543192 7.230000e-32 148.0
74 TraesCS7D01G445300 chr4A 85.827 127 13 3 596 719 609924862 609924986 2.620000e-26 130.0
75 TraesCS7D01G445300 chr3A 84.354 147 17 5 346 490 582283368 582283226 4.350000e-29 139.0
76 TraesCS7D01G445300 chr4B 84.354 147 16 5 346 490 146469368 146469227 1.560000e-28 137.0
77 TraesCS7D01G445300 chr4B 77.200 250 36 13 593 831 177235344 177235583 3.390000e-25 126.0
78 TraesCS7D01G445300 chr2A 83.019 159 18 7 346 499 549290427 549290273 5.630000e-28 135.0
79 TraesCS7D01G445300 chr6B 81.707 164 22 4 2181 2343 26227818 26227974 2.620000e-26 130.0
80 TraesCS7D01G445300 chr6B 77.439 164 29 5 2181 2343 26012833 26012677 1.240000e-14 91.6
81 TraesCS7D01G445300 chr5B 93.750 48 3 0 839 886 705461516 705461469 4.470000e-09 73.1


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 TraesCS7D01G445300 chr7D 566190886 566194118 3232 False 5971.0 5971 100.000 1 3233 1 chr7D.!!$F2 3232
1 TraesCS7D01G445300 chr7A 652506446 652508752 2306 False 3048.0 3048 90.422 1 2356 1 chr7A.!!$F2 2355
2 TraesCS7D01G445300 chr7A 466301159 466301988 829 False 333.5 351 89.842 2353 3231 2 chr7A.!!$F3 878
3 TraesCS7D01G445300 chr7B 617826828 617829124 2296 False 1357.0 2032 89.349 54 2172 2 chr7B.!!$F1 2118

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
296 299 0.857935 GCATTTCGCTCTCAGATCCG 59.142 55.0 0.0 0.0 37.77 4.18 F
1688 1946 0.337773 AGATGCAGAGGGAGGAGTCA 59.662 55.0 0.0 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1884 2142 0.108233 CTCCTTCCACTGCTCAGCTC 60.108 60.0 0.0 0.0 0.0 4.09 R
3004 3318 0.107508 AGGAAGACATGGCGGTGATG 60.108 55.0 0.0 0.0 0.0 3.07 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
50 51 9.221775 GCAAATGCAATACAAATGTACTACTAC 57.778 33.333 0.00 0.00 41.59 2.73
51 52 9.420966 CAAATGCAATACAAATGTACTACTACG 57.579 33.333 0.00 0.00 32.72 3.51
52 53 8.712285 AATGCAATACAAATGTACTACTACGT 57.288 30.769 0.00 0.00 32.72 3.57
77 78 1.680338 CGAATGAAATCCCACCCTCC 58.320 55.000 0.00 0.00 0.00 4.30
219 222 2.086869 AGTGCCATGTCGATCTTTTGG 58.913 47.619 0.00 0.00 0.00 3.28
296 299 0.857935 GCATTTCGCTCTCAGATCCG 59.142 55.000 0.00 0.00 37.77 4.18
300 303 1.025113 TTCGCTCTCAGATCCGACGT 61.025 55.000 0.00 0.00 0.00 4.34
398 403 9.953565 TGTTTTAGATATGGTAATATGGGCTAC 57.046 33.333 0.00 0.00 0.00 3.58
514 529 2.519780 GGGGCGTTTTGGTGACCA 60.520 61.111 0.00 0.00 0.00 4.02
518 533 2.637025 CGTTTTGGTGACCAGGCG 59.363 61.111 3.77 7.27 33.81 5.52
665 684 9.952188 TGTGTGTAAAAATTCACGATGAAATAA 57.048 25.926 0.00 0.00 40.12 1.40
712 731 8.597662 AAACAAATTCATGGACTTTGAGAATG 57.402 30.769 16.97 0.00 36.28 2.67
718 737 6.932356 TCATGGACTTTGAGAATGAATAGC 57.068 37.500 0.00 0.00 0.00 2.97
887 1133 2.242882 AATTGCAAATGGAGGCCTCT 57.757 45.000 31.36 11.02 0.00 3.69
908 1154 1.026718 CGAAGCTCGGCCTCCAAAAT 61.027 55.000 0.00 0.00 36.00 1.82
917 1163 3.576118 TCGGCCTCCAAAATCAATTTTCA 59.424 39.130 0.00 0.00 37.86 2.69
926 1172 6.072733 CCAAAATCAATTTTCATGTGAACGC 58.927 36.000 0.00 0.00 37.86 4.84
927 1173 5.499268 AAATCAATTTTCATGTGAACGCG 57.501 34.783 3.53 3.53 33.13 6.01
932 1178 1.573829 TTTCATGTGAACGCGGAGGC 61.574 55.000 12.47 0.00 33.13 4.70
1406 1655 2.939103 GGTAAATCTGCTTGCAGATCGT 59.061 45.455 30.47 24.13 40.72 3.73
1500 1749 1.876322 CATCTTCTTCATCGGGAGCC 58.124 55.000 0.00 0.00 0.00 4.70
1569 1827 4.699522 ACGACAAGGAAGGGCGGC 62.700 66.667 0.00 0.00 0.00 6.53
1688 1946 0.337773 AGATGCAGAGGGAGGAGTCA 59.662 55.000 0.00 0.00 0.00 3.41
1767 2025 3.192633 GGCCTTCTAGAGATTCTCGATCC 59.807 52.174 8.01 1.39 35.36 3.36
1770 2028 5.622007 GCCTTCTAGAGATTCTCGATCCATG 60.622 48.000 8.01 0.00 35.36 3.66
1771 2029 5.476599 CCTTCTAGAGATTCTCGATCCATGT 59.523 44.000 8.01 0.00 35.36 3.21
1772 2030 6.657117 CCTTCTAGAGATTCTCGATCCATGTA 59.343 42.308 8.01 0.00 35.36 2.29
1773 2031 7.361713 CCTTCTAGAGATTCTCGATCCATGTAC 60.362 44.444 8.01 0.00 35.36 2.90
1774 2032 4.757799 AGAGATTCTCGATCCATGTACG 57.242 45.455 8.01 0.00 35.36 3.67
1775 2033 4.138290 AGAGATTCTCGATCCATGTACGT 58.862 43.478 8.01 0.00 35.36 3.57
1776 2034 5.306394 AGAGATTCTCGATCCATGTACGTA 58.694 41.667 8.01 0.00 35.36 3.57
1818 2076 9.312904 TGCATGGCTAGCATCTATATATATGTA 57.687 33.333 18.24 2.13 37.02 2.29
1820 2078 9.780413 CATGGCTAGCATCTATATATATGTACG 57.220 37.037 18.24 0.00 0.00 3.67
1862 2120 1.938625 AACTGTGCATGTTTGTTGGC 58.061 45.000 0.00 0.00 0.00 4.52
1873 2131 2.224572 TGTTTGTTGGCACGTAGGGTAT 60.225 45.455 0.00 0.00 0.00 2.73
1874 2132 3.007723 TGTTTGTTGGCACGTAGGGTATA 59.992 43.478 0.00 0.00 0.00 1.47
1875 2133 2.965572 TGTTGGCACGTAGGGTATAC 57.034 50.000 0.00 0.00 0.00 1.47
1877 2135 2.166870 TGTTGGCACGTAGGGTATACTG 59.833 50.000 2.25 0.00 0.00 2.74
1878 2136 2.428171 GTTGGCACGTAGGGTATACTGA 59.572 50.000 2.25 0.00 0.00 3.41
1879 2137 2.304092 TGGCACGTAGGGTATACTGAG 58.696 52.381 2.25 0.00 0.00 3.35
1880 2138 1.612463 GGCACGTAGGGTATACTGAGG 59.388 57.143 2.25 0.00 0.00 3.86
1881 2139 2.579873 GCACGTAGGGTATACTGAGGA 58.420 52.381 2.25 0.00 0.00 3.71
1882 2140 2.292845 GCACGTAGGGTATACTGAGGAC 59.707 54.545 2.25 0.00 0.00 3.85
1883 2141 3.818180 CACGTAGGGTATACTGAGGACT 58.182 50.000 2.25 0.00 0.00 3.85
1884 2142 3.564644 CACGTAGGGTATACTGAGGACTG 59.435 52.174 2.25 0.00 0.00 3.51
1885 2143 3.457380 ACGTAGGGTATACTGAGGACTGA 59.543 47.826 2.25 0.00 0.00 3.41
1906 2164 2.270527 GAGCAGTGGAAGGAGCCC 59.729 66.667 0.00 0.00 0.00 5.19
1927 2185 5.368989 CCCAGAGGAACCAACAGATATTAC 58.631 45.833 0.00 0.00 33.47 1.89
1951 2210 6.264518 ACGTTGTTTGGTTCCTCATTCTTAAT 59.735 34.615 0.00 0.00 0.00 1.40
2069 2330 9.130312 GTTCTTAACTATATGGCTCGTCTATTG 57.870 37.037 0.00 0.00 0.00 1.90
2158 2420 4.941657 TCTCTATCTACACATGCAAGCTG 58.058 43.478 0.00 0.00 0.00 4.24
2343 2605 8.627487 TTTTATTAATCAATTACCGCAGCAAG 57.373 30.769 0.00 0.00 0.00 4.01
2345 2607 3.764885 AATCAATTACCGCAGCAAGAC 57.235 42.857 0.00 0.00 0.00 3.01
2366 2628 3.374988 ACGCATGGTATCTGTTGAACATG 59.625 43.478 0.00 0.00 36.68 3.21
2367 2629 3.699067 GCATGGTATCTGTTGAACATGC 58.301 45.455 8.94 8.94 43.87 4.06
2368 2630 3.129113 GCATGGTATCTGTTGAACATGCA 59.871 43.478 17.59 0.00 46.24 3.96
2369 2631 4.380761 GCATGGTATCTGTTGAACATGCAA 60.381 41.667 17.59 0.00 46.24 4.08
2394 2656 2.532843 ACATGTACGTAGGTCTGGGTT 58.467 47.619 0.00 0.00 0.00 4.11
2426 2688 1.997040 ACCTGTAGTGTCTCTCTCCCT 59.003 52.381 0.00 0.00 0.00 4.20
2433 2695 4.601406 AGTGTCTCTCTCCCTCTGTATT 57.399 45.455 0.00 0.00 0.00 1.89
2462 2724 2.829094 TTGGGAGACAAGACACCGA 58.171 52.632 0.00 0.00 33.18 4.69
2463 2725 1.348064 TTGGGAGACAAGACACCGAT 58.652 50.000 0.00 0.00 33.18 4.18
2464 2726 0.895530 TGGGAGACAAGACACCGATC 59.104 55.000 0.00 0.00 0.00 3.69
2470 2732 1.079819 CAAGACACCGATCGCACCT 60.080 57.895 10.32 0.57 0.00 4.00
2509 2771 1.939974 GCCTAGTGCACGATCAATCA 58.060 50.000 12.01 0.00 40.77 2.57
2512 2774 3.059325 GCCTAGTGCACGATCAATCAATC 60.059 47.826 12.01 0.00 40.77 2.67
2527 2789 5.068067 TCAATCAATCATCGATGCACCAAAT 59.932 36.000 20.81 4.87 0.00 2.32
2590 2852 4.603946 CGCCTAACCCTAGCCGCC 62.604 72.222 0.00 0.00 0.00 6.13
2675 2952 4.671569 CTAGCCGCCTGCCCGATC 62.672 72.222 0.00 0.00 42.71 3.69
2682 2959 2.515071 GCCTGCCCGATCTCCATCT 61.515 63.158 0.00 0.00 0.00 2.90
2684 2961 0.831288 CCTGCCCGATCTCCATCTCT 60.831 60.000 0.00 0.00 0.00 3.10
2686 2963 0.187117 TGCCCGATCTCCATCTCTCT 59.813 55.000 0.00 0.00 0.00 3.10
2687 2964 1.425448 TGCCCGATCTCCATCTCTCTA 59.575 52.381 0.00 0.00 0.00 2.43
2689 2966 2.554344 GCCCGATCTCCATCTCTCTAGT 60.554 54.545 0.00 0.00 0.00 2.57
2690 2967 3.343617 CCCGATCTCCATCTCTCTAGTC 58.656 54.545 0.00 0.00 0.00 2.59
2691 2968 3.000041 CCGATCTCCATCTCTCTAGTCG 59.000 54.545 0.00 0.00 0.00 4.18
2693 2970 1.872388 TCTCCATCTCTCTAGTCGCG 58.128 55.000 0.00 0.00 0.00 5.87
2694 2971 1.139256 TCTCCATCTCTCTAGTCGCGT 59.861 52.381 5.77 0.00 0.00 6.01
2695 2972 1.529438 CTCCATCTCTCTAGTCGCGTC 59.471 57.143 5.77 0.00 0.00 5.19
2696 2973 0.233590 CCATCTCTCTAGTCGCGTCG 59.766 60.000 5.77 0.00 0.00 5.12
2698 2975 0.931702 ATCTCTCTAGTCGCGTCGTG 59.068 55.000 5.77 0.00 0.00 4.35
2699 2976 1.297012 CTCTCTAGTCGCGTCGTGC 60.297 63.158 5.77 0.00 41.47 5.34
2700 2977 1.967597 CTCTCTAGTCGCGTCGTGCA 61.968 60.000 5.77 0.00 46.97 4.57
2701 2978 1.863880 CTCTAGTCGCGTCGTGCAC 60.864 63.158 6.82 6.82 46.97 4.57
2702 2979 2.127003 CTAGTCGCGTCGTGCACA 60.127 61.111 18.64 0.81 46.97 4.57
2703 2980 2.127003 TAGTCGCGTCGTGCACAG 60.127 61.111 18.64 9.95 46.97 3.66
2711 2988 4.560743 TCGTGCACAGCCAGCCAA 62.561 61.111 18.64 0.00 0.00 4.52
2712 2989 3.367743 CGTGCACAGCCAGCCAAT 61.368 61.111 18.64 0.00 0.00 3.16
2713 2990 2.570181 GTGCACAGCCAGCCAATC 59.430 61.111 13.17 0.00 0.00 2.67
2714 2991 2.677524 TGCACAGCCAGCCAATCC 60.678 61.111 0.00 0.00 0.00 3.01
2715 2992 3.455469 GCACAGCCAGCCAATCCC 61.455 66.667 0.00 0.00 0.00 3.85
2716 2993 3.136123 CACAGCCAGCCAATCCCG 61.136 66.667 0.00 0.00 0.00 5.14
2717 2994 4.431131 ACAGCCAGCCAATCCCGG 62.431 66.667 0.00 0.00 0.00 5.73
2718 2995 4.431131 CAGCCAGCCAATCCCGGT 62.431 66.667 0.00 0.00 0.00 5.28
2719 2996 4.115199 AGCCAGCCAATCCCGGTC 62.115 66.667 0.00 0.00 0.00 4.79
2722 2999 4.776322 CAGCCAATCCCGGTCGCA 62.776 66.667 0.00 0.00 0.00 5.10
2723 3000 3.797353 AGCCAATCCCGGTCGCAT 61.797 61.111 0.00 0.00 0.00 4.73
2724 3001 3.279875 GCCAATCCCGGTCGCATC 61.280 66.667 0.00 0.00 0.00 3.91
2725 3002 2.967076 CCAATCCCGGTCGCATCG 60.967 66.667 0.00 0.00 0.00 3.84
2726 3003 3.640000 CAATCCCGGTCGCATCGC 61.640 66.667 0.00 0.00 0.00 4.58
2739 3016 4.286320 ATCGCGCCTCATCCCGTC 62.286 66.667 0.00 0.00 0.00 4.79
2742 3019 4.933064 GCGCCTCATCCCGTCTCG 62.933 72.222 0.00 0.00 0.00 4.04
2743 3020 4.933064 CGCCTCATCCCGTCTCGC 62.933 72.222 0.00 0.00 0.00 5.03
2745 3022 2.415010 CCTCATCCCGTCTCGCAG 59.585 66.667 0.00 0.00 0.00 5.18
2747 3024 2.755876 TCATCCCGTCTCGCAGCT 60.756 61.111 0.00 0.00 0.00 4.24
2748 3025 1.448119 CTCATCCCGTCTCGCAGCTA 61.448 60.000 0.00 0.00 0.00 3.32
2751 3028 4.577246 CCCGTCTCGCAGCTAGCC 62.577 72.222 12.13 0.00 41.38 3.93
2753 3030 2.580867 CGTCTCGCAGCTAGCCAC 60.581 66.667 12.13 2.38 41.38 5.01
2755 3032 3.461773 TCTCGCAGCTAGCCACCC 61.462 66.667 12.13 0.00 41.38 4.61
2762 3039 4.937431 GCTAGCCACCCATCCCGC 62.937 72.222 2.29 0.00 0.00 6.13
2771 3049 4.301027 CCATCCCGCCTCGCTACC 62.301 72.222 0.00 0.00 0.00 3.18
2817 3095 4.778143 CTAGCCACCCGTGCCACC 62.778 72.222 0.00 0.00 0.00 4.61
2836 3114 4.301027 CATCCCGCCTCGCTACCC 62.301 72.222 0.00 0.00 0.00 3.69
2847 3125 4.712425 GCTACCCGCGTCGTGTGT 62.712 66.667 4.92 1.72 0.00 3.72
2848 3126 2.503375 CTACCCGCGTCGTGTGTC 60.503 66.667 4.92 0.00 0.00 3.67
2849 3127 3.958822 CTACCCGCGTCGTGTGTCC 62.959 68.421 4.92 0.00 0.00 4.02
2854 3132 4.059459 GCGTCGTGTGTCCGCTTG 62.059 66.667 0.00 0.00 43.81 4.01
2855 3133 4.059459 CGTCGTGTGTCCGCTTGC 62.059 66.667 0.00 0.00 0.00 4.01
2856 3134 2.661866 GTCGTGTGTCCGCTTGCT 60.662 61.111 0.00 0.00 0.00 3.91
2857 3135 2.108157 TCGTGTGTCCGCTTGCTT 59.892 55.556 0.00 0.00 0.00 3.91
2858 3136 1.954146 TCGTGTGTCCGCTTGCTTC 60.954 57.895 0.00 0.00 0.00 3.86
2859 3137 2.946762 GTGTGTCCGCTTGCTTCC 59.053 61.111 0.00 0.00 0.00 3.46
2860 3138 1.598130 GTGTGTCCGCTTGCTTCCT 60.598 57.895 0.00 0.00 0.00 3.36
2861 3139 1.597854 TGTGTCCGCTTGCTTCCTG 60.598 57.895 0.00 0.00 0.00 3.86
2862 3140 2.669569 TGTCCGCTTGCTTCCTGC 60.670 61.111 0.00 0.00 43.25 4.85
2863 3141 3.435186 GTCCGCTTGCTTCCTGCC 61.435 66.667 0.00 0.00 42.00 4.85
2864 3142 3.952508 TCCGCTTGCTTCCTGCCA 61.953 61.111 0.00 0.00 42.00 4.92
2865 3143 3.741476 CCGCTTGCTTCCTGCCAC 61.741 66.667 0.00 0.00 42.00 5.01
2866 3144 4.093952 CGCTTGCTTCCTGCCACG 62.094 66.667 0.00 0.00 42.00 4.94
2867 3145 4.410743 GCTTGCTTCCTGCCACGC 62.411 66.667 0.00 0.00 42.00 5.34
2868 3146 4.093952 CTTGCTTCCTGCCACGCG 62.094 66.667 3.53 3.53 42.00 6.01
2888 3166 2.161486 CGCACCACTAGCTTCGCTC 61.161 63.158 0.00 0.00 40.44 5.03
2891 3169 2.344203 ACCACTAGCTTCGCTCGCT 61.344 57.895 0.00 0.00 40.44 4.93
2892 3170 1.030488 ACCACTAGCTTCGCTCGCTA 61.030 55.000 0.00 0.00 40.44 4.26
2893 3171 0.100682 CCACTAGCTTCGCTCGCTAA 59.899 55.000 0.00 0.00 40.44 3.09
2896 3174 0.930742 CTAGCTTCGCTCGCTAACCG 60.931 60.000 0.00 0.00 40.44 4.44
2898 3176 2.506217 CTTCGCTCGCTAACCGCA 60.506 61.111 0.00 0.00 39.08 5.69
2899 3177 2.789203 CTTCGCTCGCTAACCGCAC 61.789 63.158 0.00 0.00 39.08 5.34
2902 3180 2.432628 GCTCGCTAACCGCACTGT 60.433 61.111 0.00 0.00 39.08 3.55
2903 3181 2.730672 GCTCGCTAACCGCACTGTG 61.731 63.158 2.76 2.76 39.08 3.66
2924 3202 3.933722 CCGCCAGCTGATCCCGAT 61.934 66.667 17.39 0.00 0.00 4.18
2925 3203 2.356793 CGCCAGCTGATCCCGATC 60.357 66.667 17.39 0.00 38.29 3.69
2957 3242 3.021788 GCTCGCTAGCTTCGCTCG 61.022 66.667 13.93 0.00 45.85 5.03
2958 3243 2.710086 CTCGCTAGCTTCGCTCGA 59.290 61.111 13.93 0.00 40.44 4.04
2960 3245 3.013990 CGCTAGCTTCGCTCGACG 61.014 66.667 13.93 0.00 40.44 5.12
2961 3246 3.316278 GCTAGCTTCGCTCGACGC 61.316 66.667 7.70 11.97 43.23 5.19
2963 3248 4.531912 TAGCTTCGCTCGACGCCG 62.532 66.667 15.46 0.00 43.23 6.46
3031 3345 1.144936 CATGTCTTCCTCCGCCTCC 59.855 63.158 0.00 0.00 0.00 4.30
3046 3360 0.691413 CCTCCTCCTACTCCAACCCC 60.691 65.000 0.00 0.00 0.00 4.95
3052 3366 1.265454 CCTACTCCAACCCCTTCGCT 61.265 60.000 0.00 0.00 0.00 4.93
3055 3369 2.528127 TCCAACCCCTTCGCTGGA 60.528 61.111 0.00 0.00 35.58 3.86
3058 3372 4.016706 AACCCCTTCGCTGGACCG 62.017 66.667 0.00 0.00 0.00 4.79
3068 3382 2.038329 CTGGACCGGACCCCACTA 59.962 66.667 20.56 0.00 0.00 2.74
3076 3390 1.153229 GGACCCCACTAACATCCGC 60.153 63.158 0.00 0.00 0.00 5.54
3094 3408 0.370273 GCGACATCAACATCCACGAC 59.630 55.000 0.00 0.00 0.00 4.34
3115 3429 1.226603 CGTTCCCGTCATCCTCGAC 60.227 63.158 0.00 0.00 0.00 4.20
3130 3444 3.630148 GACGCCATCGATGCCACG 61.630 66.667 20.25 22.20 39.41 4.94
3181 3495 0.391597 TCTTCCGCGAGAACAACCTT 59.608 50.000 8.23 0.00 0.00 3.50
3183 3497 0.105224 TTCCGCGAGAACAACCTTGA 59.895 50.000 8.23 0.00 0.00 3.02
3203 3517 2.126071 ATCACGTTGACGGCTCCG 60.126 61.111 6.79 6.79 44.95 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 4.874977 GTCGGCTAGCGCTCCCAC 62.875 72.222 16.34 4.90 36.09 4.61
47 48 3.182572 GGATTTCATTCGCTGCTACGTAG 59.817 47.826 18.47 18.47 0.00 3.51
48 49 3.120792 GGATTTCATTCGCTGCTACGTA 58.879 45.455 0.00 0.00 0.00 3.57
49 50 1.933853 GGATTTCATTCGCTGCTACGT 59.066 47.619 0.00 0.00 0.00 3.57
50 51 1.261619 GGGATTTCATTCGCTGCTACG 59.738 52.381 0.00 0.00 0.00 3.51
51 52 2.032178 GTGGGATTTCATTCGCTGCTAC 59.968 50.000 0.00 0.00 0.00 3.58
52 53 2.288666 GTGGGATTTCATTCGCTGCTA 58.711 47.619 0.00 0.00 0.00 3.49
77 78 2.283617 CGCTTTCTCGTGAATCCTGATG 59.716 50.000 0.02 0.00 31.56 3.07
219 222 1.502163 GATGCCATGTGAGCTACGCC 61.502 60.000 0.00 0.00 0.00 5.68
263 266 5.031740 GCGAAATGCTAAGCTTTTGCGTC 62.032 47.826 3.20 7.97 45.94 5.19
296 299 2.593257 CTCGAGGTGGTTTCTTACGTC 58.407 52.381 3.91 0.00 0.00 4.34
300 303 4.710375 AGATAAGCTCGAGGTGGTTTCTTA 59.290 41.667 19.39 12.68 0.00 2.10
461 476 9.113838 CACAAATATAAGATGTTCTGCTAACCT 57.886 33.333 0.91 0.00 0.00 3.50
490 505 1.971695 CCAAAACGCCCCACTCCTC 60.972 63.158 0.00 0.00 0.00 3.71
518 533 3.056891 TCAAAAATTTCGGGCTCCATGTC 60.057 43.478 0.00 0.00 0.00 3.06
609 628 5.627499 TTCATCCTTGTACACTTGAATGC 57.373 39.130 0.00 0.00 0.00 3.56
610 629 7.596494 ACATTTCATCCTTGTACACTTGAATG 58.404 34.615 0.00 3.41 0.00 2.67
655 674 4.957967 GTCGCATGTCAAGTTATTTCATCG 59.042 41.667 0.00 0.00 0.00 3.84
665 684 2.831685 TTACAGGTCGCATGTCAAGT 57.168 45.000 0.65 0.00 32.02 3.16
774 1019 4.668837 CACGTGTGTAAATTTTCTGAACGG 59.331 41.667 7.58 6.84 33.09 4.44
908 1154 2.550180 TCCGCGTTCACATGAAAATTGA 59.450 40.909 4.92 0.00 35.58 2.57
917 1163 1.141881 CTAGCCTCCGCGTTCACAT 59.858 57.895 4.92 0.00 41.18 3.21
932 1178 0.669077 CGTGGTGGGTAGCTAGCTAG 59.331 60.000 24.78 16.84 0.00 3.42
1290 1536 3.925630 TTACAGCAGCAGCAGGGGC 62.926 63.158 3.17 0.00 45.49 5.80
1291 1537 2.042831 GTTACAGCAGCAGCAGGGG 61.043 63.158 3.17 0.00 45.49 4.79
1292 1538 1.002868 AGTTACAGCAGCAGCAGGG 60.003 57.895 3.17 0.00 45.49 4.45
1293 1539 1.023513 GGAGTTACAGCAGCAGCAGG 61.024 60.000 3.17 0.00 45.49 4.85
1406 1655 1.425267 CGACGTTGTTGACAGCACCA 61.425 55.000 0.00 0.00 0.00 4.17
1569 1827 0.517316 GCGTCTACCTTGCACCTTTG 59.483 55.000 0.00 0.00 0.00 2.77
1688 1946 0.610232 GGTCCTGCAGCTTGTTCCAT 60.610 55.000 8.66 0.00 0.00 3.41
1770 2028 8.929827 TGCATCTAGACTCTAGATATACGTAC 57.070 38.462 22.91 10.73 33.34 3.67
1771 2029 9.535878 CATGCATCTAGACTCTAGATATACGTA 57.464 37.037 22.91 13.47 33.34 3.57
1772 2030 7.497579 CCATGCATCTAGACTCTAGATATACGT 59.502 40.741 22.91 15.53 33.34 3.57
1773 2031 7.519809 GCCATGCATCTAGACTCTAGATATACG 60.520 44.444 22.91 14.35 33.34 3.06
1774 2032 7.502226 AGCCATGCATCTAGACTCTAGATATAC 59.498 40.741 22.91 16.91 33.34 1.47
1775 2033 7.581814 AGCCATGCATCTAGACTCTAGATATA 58.418 38.462 22.91 16.54 33.34 0.86
1776 2034 6.434302 AGCCATGCATCTAGACTCTAGATAT 58.566 40.000 22.91 14.08 33.34 1.63
1839 2097 4.150451 GCCAACAAACATGCACAGTTTATC 59.850 41.667 16.12 4.03 37.10 1.75
1840 2098 4.057432 GCCAACAAACATGCACAGTTTAT 58.943 39.130 16.12 5.37 37.10 1.40
1841 2099 3.118992 TGCCAACAAACATGCACAGTTTA 60.119 39.130 16.12 0.98 37.10 2.01
1842 2100 2.278854 GCCAACAAACATGCACAGTTT 58.721 42.857 12.03 12.03 39.61 2.66
1843 2101 1.206610 TGCCAACAAACATGCACAGTT 59.793 42.857 0.00 0.00 0.00 3.16
1844 2102 0.822811 TGCCAACAAACATGCACAGT 59.177 45.000 0.00 0.00 0.00 3.55
1845 2103 3.663644 TGCCAACAAACATGCACAG 57.336 47.368 0.00 0.00 0.00 3.66
1851 2109 1.243902 CCCTACGTGCCAACAAACAT 58.756 50.000 0.00 0.00 0.00 2.71
1855 2113 2.833338 AGTATACCCTACGTGCCAACAA 59.167 45.455 0.00 0.00 0.00 2.83
1862 2120 3.564644 CAGTCCTCAGTATACCCTACGTG 59.435 52.174 0.00 0.00 0.00 4.49
1873 2131 1.272147 TGCTCAGCTCAGTCCTCAGTA 60.272 52.381 0.00 0.00 0.00 2.74
1874 2132 0.541530 TGCTCAGCTCAGTCCTCAGT 60.542 55.000 0.00 0.00 0.00 3.41
1875 2133 0.173935 CTGCTCAGCTCAGTCCTCAG 59.826 60.000 0.00 0.00 0.00 3.35
1877 2135 0.108709 CACTGCTCAGCTCAGTCCTC 60.109 60.000 3.66 0.00 42.38 3.71
1878 2136 1.543065 CCACTGCTCAGCTCAGTCCT 61.543 60.000 3.66 0.00 42.38 3.85
1879 2137 1.079266 CCACTGCTCAGCTCAGTCC 60.079 63.158 3.66 0.00 42.38 3.85
1880 2138 0.319728 TTCCACTGCTCAGCTCAGTC 59.680 55.000 3.66 0.00 42.38 3.51
1881 2139 0.321021 CTTCCACTGCTCAGCTCAGT 59.679 55.000 0.00 0.83 44.87 3.41
1882 2140 0.391395 CCTTCCACTGCTCAGCTCAG 60.391 60.000 0.00 0.00 37.56 3.35
1883 2141 0.833409 TCCTTCCACTGCTCAGCTCA 60.833 55.000 0.00 0.00 0.00 4.26
1884 2142 0.108233 CTCCTTCCACTGCTCAGCTC 60.108 60.000 0.00 0.00 0.00 4.09
1885 2143 1.981636 CTCCTTCCACTGCTCAGCT 59.018 57.895 0.00 0.00 0.00 4.24
1906 2164 5.661458 ACGTAATATCTGTTGGTTCCTCTG 58.339 41.667 0.00 0.00 0.00 3.35
1927 2185 4.568152 AAGAATGAGGAACCAAACAACG 57.432 40.909 0.00 0.00 0.00 4.10
1951 2210 4.561500 TCAATGGGTCGATGAAGGTAAA 57.438 40.909 0.00 0.00 0.00 2.01
2158 2420 7.279313 TGGTTAGATAGAGAAAAACGTTATGCC 59.721 37.037 0.00 0.00 0.00 4.40
2288 2550 6.598850 GGGTGGATAACGTAAGAACCAAATTA 59.401 38.462 8.90 0.00 43.62 1.40
2334 2596 4.170062 CCATGCGTCTTGCTGCGG 62.170 66.667 0.00 0.00 46.63 5.69
2343 2605 3.000041 TGTTCAACAGATACCATGCGTC 59.000 45.455 0.00 0.00 0.00 5.19
2345 2607 3.789791 GCATGTTCAACAGATACCATGCG 60.790 47.826 6.66 0.00 35.56 4.73
2366 2628 3.841643 ACCTACGTACATGTACACTTGC 58.158 45.455 30.17 7.68 35.87 4.01
2367 2629 5.093457 CAGACCTACGTACATGTACACTTG 58.907 45.833 30.17 18.59 35.87 3.16
2368 2630 4.157289 CCAGACCTACGTACATGTACACTT 59.843 45.833 30.17 18.29 35.87 3.16
2369 2631 3.693085 CCAGACCTACGTACATGTACACT 59.307 47.826 30.17 18.97 35.87 3.55
2394 2656 1.002659 ACTACAGGTGCGGCATACAAA 59.997 47.619 5.72 0.00 0.00 2.83
2419 2681 8.472007 AGATACAAGTAAATACAGAGGGAGAG 57.528 38.462 0.00 0.00 0.00 3.20
2426 2688 8.475639 GTCTCCCAAGATACAAGTAAATACAGA 58.524 37.037 0.00 0.00 33.08 3.41
2462 2724 8.851145 CATATATATAGGTACAAGAGGTGCGAT 58.149 37.037 0.00 0.00 32.16 4.58
2463 2725 7.832685 ACATATATATAGGTACAAGAGGTGCGA 59.167 37.037 8.25 0.00 32.16 5.10
2464 2726 7.915923 CACATATATATAGGTACAAGAGGTGCG 59.084 40.741 9.58 0.00 32.16 5.34
2508 2770 4.295857 TGATTTGGTGCATCGATGATTG 57.704 40.909 29.20 4.25 0.00 2.67
2509 2771 5.301045 AGAATGATTTGGTGCATCGATGATT 59.699 36.000 29.20 15.09 0.00 2.57
2512 2774 4.275196 AGAGAATGATTTGGTGCATCGATG 59.725 41.667 21.27 21.27 0.00 3.84
2527 2789 6.659242 TGCGATAGATACCATGTAGAGAATGA 59.341 38.462 0.00 0.00 39.76 2.57
2667 2944 0.187117 AGAGAGATGGAGATCGGGCA 59.813 55.000 0.00 0.00 33.34 5.36
2668 2945 2.091541 CTAGAGAGATGGAGATCGGGC 58.908 57.143 0.00 0.00 33.34 6.13
2670 2947 3.000041 CGACTAGAGAGATGGAGATCGG 59.000 54.545 0.00 0.00 33.34 4.18
2673 2950 2.224426 ACGCGACTAGAGAGATGGAGAT 60.224 50.000 15.93 0.00 0.00 2.75
2675 2952 1.529438 GACGCGACTAGAGAGATGGAG 59.471 57.143 15.93 0.00 0.00 3.86
2676 2953 1.584175 GACGCGACTAGAGAGATGGA 58.416 55.000 15.93 0.00 0.00 3.41
2679 2956 0.931702 CACGACGCGACTAGAGAGAT 59.068 55.000 15.93 0.00 0.00 2.75
2682 2959 2.030958 TGCACGACGCGACTAGAGA 61.031 57.895 15.93 0.00 46.97 3.10
2684 2961 2.175078 GTGCACGACGCGACTAGA 59.825 61.111 15.93 0.00 46.97 2.43
2686 2963 2.127003 CTGTGCACGACGCGACTA 60.127 61.111 15.93 0.00 46.97 2.59
2694 2971 3.848301 ATTGGCTGGCTGTGCACGA 62.848 57.895 13.13 0.33 0.00 4.35
2695 2972 3.332493 GATTGGCTGGCTGTGCACG 62.332 63.158 13.13 8.32 0.00 5.34
2696 2973 2.570181 GATTGGCTGGCTGTGCAC 59.430 61.111 10.75 10.75 0.00 4.57
2698 2975 3.455469 GGGATTGGCTGGCTGTGC 61.455 66.667 2.00 0.00 0.00 4.57
2699 2976 3.136123 CGGGATTGGCTGGCTGTG 61.136 66.667 2.00 0.00 0.00 3.66
2700 2977 4.431131 CCGGGATTGGCTGGCTGT 62.431 66.667 2.00 0.00 0.00 4.40
2701 2978 4.431131 ACCGGGATTGGCTGGCTG 62.431 66.667 6.32 0.00 0.00 4.85
2702 2979 4.115199 GACCGGGATTGGCTGGCT 62.115 66.667 6.32 0.00 0.00 4.75
2705 2982 4.776322 TGCGACCGGGATTGGCTG 62.776 66.667 6.32 0.00 0.00 4.85
2706 2983 3.757248 GATGCGACCGGGATTGGCT 62.757 63.158 6.32 0.00 0.00 4.75
2707 2984 3.279875 GATGCGACCGGGATTGGC 61.280 66.667 6.32 0.00 0.00 4.52
2708 2985 2.967076 CGATGCGACCGGGATTGG 60.967 66.667 6.32 0.00 0.00 3.16
2709 2986 3.640000 GCGATGCGACCGGGATTG 61.640 66.667 6.32 0.00 0.00 2.67
2721 2998 4.592192 ACGGGATGAGGCGCGATG 62.592 66.667 12.10 0.00 45.63 3.84
2722 2999 4.286320 GACGGGATGAGGCGCGAT 62.286 66.667 12.10 0.00 45.63 4.58
2725 3002 4.933064 CGAGACGGGATGAGGCGC 62.933 72.222 0.00 0.00 0.00 6.53
2726 3003 4.933064 GCGAGACGGGATGAGGCG 62.933 72.222 0.00 0.00 0.00 5.52
2727 3004 3.781770 CTGCGAGACGGGATGAGGC 62.782 68.421 0.00 0.00 0.00 4.70
2728 3005 2.415010 CTGCGAGACGGGATGAGG 59.585 66.667 0.00 0.00 0.00 3.86
2729 3006 1.448119 TAGCTGCGAGACGGGATGAG 61.448 60.000 0.00 0.00 0.00 2.90
2730 3007 1.448119 CTAGCTGCGAGACGGGATGA 61.448 60.000 3.47 0.00 0.00 2.92
2731 3008 1.007964 CTAGCTGCGAGACGGGATG 60.008 63.158 3.47 0.00 0.00 3.51
2739 3016 2.985512 GATGGGTGGCTAGCTGCGAG 62.986 65.000 15.72 5.33 44.05 5.03
2740 3017 3.083349 ATGGGTGGCTAGCTGCGA 61.083 61.111 15.72 0.00 44.05 5.10
2742 3019 2.203266 GGATGGGTGGCTAGCTGC 60.203 66.667 15.72 7.58 41.94 5.25
2743 3020 2.512896 GGGATGGGTGGCTAGCTG 59.487 66.667 15.72 0.00 0.00 4.24
2745 3022 4.937431 GCGGGATGGGTGGCTAGC 62.937 72.222 6.04 6.04 0.00 3.42
2747 3024 4.815973 AGGCGGGATGGGTGGCTA 62.816 66.667 0.00 0.00 36.67 3.93
2753 3030 4.301027 GTAGCGAGGCGGGATGGG 62.301 72.222 0.00 0.00 0.00 4.00
2755 3032 4.301027 GGGTAGCGAGGCGGGATG 62.301 72.222 0.00 0.00 0.00 3.51
2817 3095 4.301027 GTAGCGAGGCGGGATGGG 62.301 72.222 0.00 0.00 0.00 4.00
2819 3097 4.301027 GGGTAGCGAGGCGGGATG 62.301 72.222 0.00 0.00 0.00 3.51
2831 3109 2.503375 GACACACGACGCGGGTAG 60.503 66.667 12.47 8.36 43.59 3.18
2832 3110 4.041917 GGACACACGACGCGGGTA 62.042 66.667 12.47 0.00 43.59 3.69
2839 3117 2.159272 GAAGCAAGCGGACACACGAC 62.159 60.000 0.00 0.00 35.47 4.34
2840 3118 1.954146 GAAGCAAGCGGACACACGA 60.954 57.895 0.00 0.00 35.47 4.35
2841 3119 2.551270 GAAGCAAGCGGACACACG 59.449 61.111 0.00 0.00 0.00 4.49
2842 3120 1.598130 AGGAAGCAAGCGGACACAC 60.598 57.895 0.00 0.00 0.00 3.82
2843 3121 1.597854 CAGGAAGCAAGCGGACACA 60.598 57.895 0.00 0.00 0.00 3.72
2844 3122 2.970974 GCAGGAAGCAAGCGGACAC 61.971 63.158 0.00 0.00 44.79 3.67
2845 3123 2.669569 GCAGGAAGCAAGCGGACA 60.670 61.111 0.00 0.00 44.79 4.02
2867 3145 3.188786 GAAGCTAGTGGTGCGGCG 61.189 66.667 0.51 0.51 35.28 6.46
2868 3146 3.188786 CGAAGCTAGTGGTGCGGC 61.189 66.667 0.00 0.00 38.93 6.53
2907 3185 3.873026 GATCGGGATCAGCTGGCGG 62.873 68.421 15.13 2.75 37.74 6.13
2911 3189 1.005275 ATGCGATCGGGATCAGCTG 60.005 57.895 18.30 7.63 37.82 4.24
2912 3190 1.291588 GATGCGATCGGGATCAGCT 59.708 57.895 18.30 9.88 42.57 4.24
3004 3318 0.107508 AGGAAGACATGGCGGTGATG 60.108 55.000 0.00 0.00 0.00 3.07
3005 3319 0.179000 GAGGAAGACATGGCGGTGAT 59.821 55.000 0.00 0.00 0.00 3.06
3006 3320 1.596934 GAGGAAGACATGGCGGTGA 59.403 57.895 0.00 0.00 0.00 4.02
3007 3321 1.450312 GGAGGAAGACATGGCGGTG 60.450 63.158 0.00 0.00 0.00 4.94
3008 3322 2.990479 GGAGGAAGACATGGCGGT 59.010 61.111 0.00 0.00 0.00 5.68
3009 3323 2.202932 CGGAGGAAGACATGGCGG 60.203 66.667 0.00 0.00 0.00 6.13
3010 3324 2.892425 GCGGAGGAAGACATGGCG 60.892 66.667 0.00 0.00 0.00 5.69
3011 3325 2.514824 GGCGGAGGAAGACATGGC 60.515 66.667 0.00 0.00 0.00 4.40
3031 3345 0.824759 CGAAGGGGTTGGAGTAGGAG 59.175 60.000 0.00 0.00 0.00 3.69
3046 3360 4.452733 GGGTCCGGTCCAGCGAAG 62.453 72.222 19.75 0.00 0.00 3.79
3052 3366 1.914764 GTTAGTGGGGTCCGGTCCA 60.915 63.158 19.75 14.05 0.00 4.02
3055 3369 1.269703 GGATGTTAGTGGGGTCCGGT 61.270 60.000 0.00 0.00 0.00 5.28
3058 3372 1.153229 GCGGATGTTAGTGGGGTCC 60.153 63.158 0.00 0.00 0.00 4.46
3068 3382 1.665679 GATGTTGATGTCGCGGATGTT 59.334 47.619 6.13 0.00 0.00 2.71
3076 3390 0.999406 GGTCGTGGATGTTGATGTCG 59.001 55.000 0.00 0.00 0.00 4.35
3120 3434 1.515519 GCGAAGTACGTGGCATCGA 60.516 57.895 18.64 0.00 44.60 3.59
3130 3444 2.346884 CGTCTTCCACGCGAAGTAC 58.653 57.895 15.93 5.91 46.97 2.73
3181 3495 1.080093 GCCGTCAACGTGATCCTCA 60.080 57.895 1.48 0.00 37.74 3.86
3183 3497 1.215647 GAGCCGTCAACGTGATCCT 59.784 57.895 1.48 0.00 37.74 3.24
3203 3517 2.509336 CATGGCACGGGAGTCGAC 60.509 66.667 7.70 7.70 44.67 4.20


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

AutoCloner maintained by Alex Coulton.