Multiple sequence alignment - TraesCS5D01G436600

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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 TraesCS5D01G436600 chr5D 100.000 2638 0 0 1 2638 490978318 490975681 0.000000e+00 4872.0
1 TraesCS5D01G436600 chr5D 89.453 1024 53 24 629 1639 491727244 491728225 0.000000e+00 1242.0
2 TraesCS5D01G436600 chr5D 85.864 573 48 18 629 1182 490982538 490981980 1.760000e-161 579.0
3 TraesCS5D01G436600 chr5D 92.391 368 20 4 1315 1681 490981883 490981523 3.890000e-143 518.0
4 TraesCS5D01G436600 chr5D 92.000 125 10 0 2147 2271 421502777 421502901 2.700000e-40 176.0
5 TraesCS5D01G436600 chr5D 97.030 101 3 0 2432 2532 490975817 490975717 1.260000e-38 171.0
6 TraesCS5D01G436600 chr5D 97.030 101 3 0 2502 2602 490975887 490975787 1.260000e-38 171.0
7 TraesCS5D01G436600 chr5D 88.889 108 8 4 2175 2280 433009524 433009419 2.130000e-26 130.0
8 TraesCS5D01G436600 chr5D 85.075 134 11 4 710 840 482900417 482900544 7.660000e-26 128.0
9 TraesCS5D01G436600 chr5D 96.774 31 1 0 2432 2462 490975747 490975717 5.000000e-03 52.8
10 TraesCS5D01G436600 chr5D 96.774 31 1 0 2572 2602 490975887 490975857 5.000000e-03 52.8
11 TraesCS5D01G436600 chr5A 90.437 1694 101 22 478 2138 613466171 613464506 0.000000e+00 2174.0
12 TraesCS5D01G436600 chr5A 86.124 1045 81 39 619 1639 614354982 614355986 0.000000e+00 1068.0
13 TraesCS5D01G436600 chr5A 87.370 578 39 20 629 1181 613471789 613471221 1.330000e-177 632.0
14 TraesCS5D01G436600 chr5A 89.223 399 32 6 1 389 613466915 613466518 3.050000e-134 488.0
15 TraesCS5D01G436600 chr5A 87.560 418 30 6 1315 1726 613471127 613470726 5.140000e-127 464.0
16 TraesCS5D01G436600 chr5A 93.462 260 16 1 2275 2533 613464404 613464145 4.120000e-103 385.0
17 TraesCS5D01G436600 chr5A 91.241 137 12 0 2502 2638 613464247 613464111 1.250000e-43 187.0
18 TraesCS5D01G436600 chr5A 79.902 204 24 10 710 907 603529268 603529460 1.650000e-27 134.0
19 TraesCS5D01G436600 chr5A 82.836 134 14 4 710 840 603503194 603503321 7.720000e-21 111.0
20 TraesCS5D01G436600 chr5A 92.308 39 3 0 387 425 613466203 613466165 3.670000e-04 56.5
21 TraesCS5D01G436600 chr5A 96.774 31 1 0 2572 2602 613464247 613464217 5.000000e-03 52.8
22 TraesCS5D01G436600 chr5B 92.829 1269 63 11 478 1729 605609330 605608073 0.000000e+00 1814.0
23 TraesCS5D01G436600 chr5B 92.444 900 42 9 661 1551 605532040 605531158 0.000000e+00 1262.0
24 TraesCS5D01G436600 chr5B 91.841 429 30 4 1 425 605609751 605609324 6.290000e-166 593.0
25 TraesCS5D01G436600 chr5B 90.741 432 32 5 1 425 605533701 605533271 1.060000e-158 569.0
26 TraesCS5D01G436600 chr5B 86.693 511 41 16 1315 1818 605626975 605626485 2.310000e-150 542.0
27 TraesCS5D01G436600 chr5B 90.998 411 22 8 1547 1951 605531133 605530732 8.310000e-150 540.0
28 TraesCS5D01G436600 chr5B 89.252 428 31 11 766 1182 605627500 605627077 3.010000e-144 521.0
29 TraesCS5D01G436600 chr5B 83.746 566 39 26 629 1182 606828903 606829427 1.100000e-133 486.0
30 TraesCS5D01G436600 chr5B 92.683 328 24 0 1312 1639 606829521 606829848 8.550000e-130 473.0
31 TraesCS5D01G436600 chr5B 86.029 136 15 3 493 628 605533262 605533131 2.740000e-30 143.0
32 TraesCS5D01G436600 chr1D 77.212 373 53 22 586 939 408612772 408613131 3.470000e-44 189.0
33 TraesCS5D01G436600 chr1D 88.889 99 9 2 256 352 487286978 487286880 1.280000e-23 121.0
34 TraesCS5D01G436600 chr6D 89.286 112 10 2 2167 2277 390625215 390625105 3.540000e-29 139.0
35 TraesCS5D01G436600 chr2B 87.500 112 11 3 2160 2268 775772623 775772512 2.760000e-25 126.0
36 TraesCS5D01G436600 chr6B 88.462 104 11 1 2167 2270 584005703 584005805 9.910000e-25 124.0
37 TraesCS5D01G436600 chr6A 79.286 140 24 5 2147 2283 461780107 461779970 2.800000e-15 93.5


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 TraesCS5D01G436600 chr5D 490975681 490978318 2637 True 1063.9200 4872 97.521600 1 2638 5 chr5D.!!$R2 2637
1 TraesCS5D01G436600 chr5D 491727244 491728225 981 False 1242.0000 1242 89.453000 629 1639 1 chr5D.!!$F3 1010
2 TraesCS5D01G436600 chr5D 490981523 490982538 1015 True 548.5000 579 89.127500 629 1681 2 chr5D.!!$R3 1052
3 TraesCS5D01G436600 chr5A 614354982 614355986 1004 False 1068.0000 1068 86.124000 619 1639 1 chr5A.!!$F3 1020
4 TraesCS5D01G436600 chr5A 613464111 613471789 7678 True 554.9125 2174 91.046875 1 2638 8 chr5A.!!$R1 2637
5 TraesCS5D01G436600 chr5B 605608073 605609751 1678 True 1203.5000 1814 92.335000 1 1729 2 chr5B.!!$R2 1728
6 TraesCS5D01G436600 chr5B 605530732 605533701 2969 True 628.5000 1262 90.053000 1 1951 4 chr5B.!!$R1 1950
7 TraesCS5D01G436600 chr5B 605626485 605627500 1015 True 531.5000 542 87.972500 766 1818 2 chr5B.!!$R3 1052
8 TraesCS5D01G436600 chr5B 606828903 606829848 945 False 479.5000 486 88.214500 629 1639 2 chr5B.!!$F1 1010

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
112 4987 0.322726 CCTCATCACCACACATGCCA 60.323 55.0 0.0 0.0 0.0 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1694 8090 1.263776 CAACACTCTCGATCGCTCAC 58.736 55.0 11.09 0.0 0.0 3.51 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
112 4987 0.322726 CCTCATCACCACACATGCCA 60.323 55.000 0.00 0.00 0.00 4.92
134 5010 5.811613 CCACAGTTCTTTTGAGAAAAATGCA 59.188 36.000 0.00 0.00 0.00 3.96
142 5018 2.942804 TGAGAAAAATGCACAGGGACA 58.057 42.857 0.00 0.00 0.00 4.02
145 5021 4.072131 GAGAAAAATGCACAGGGACACTA 58.928 43.478 0.00 0.00 0.00 2.74
348 5229 1.674611 GCCGAATGTGACACTCGACG 61.675 60.000 18.54 3.13 34.52 5.12
351 5232 2.223180 CCGAATGTGACACTCGACGATA 60.223 50.000 18.54 0.00 34.52 2.92
363 5250 2.676839 CTCGACGATATGGCGTATACCT 59.323 50.000 0.00 0.00 45.72 3.08
414 5618 6.262024 GTCATTTGTCAAGGACTAGGCAACT 61.262 44.000 0.00 0.00 41.46 3.16
429 5633 2.820059 CAACTTTGCTTTTCCCTCCC 57.180 50.000 0.00 0.00 0.00 4.30
430 5634 1.344438 CAACTTTGCTTTTCCCTCCCC 59.656 52.381 0.00 0.00 0.00 4.81
431 5635 0.539669 ACTTTGCTTTTCCCTCCCCG 60.540 55.000 0.00 0.00 0.00 5.73
432 5636 1.877576 CTTTGCTTTTCCCTCCCCGC 61.878 60.000 0.00 0.00 0.00 6.13
433 5637 2.648613 TTTGCTTTTCCCTCCCCGCA 62.649 55.000 0.00 0.00 0.00 5.69
434 5638 2.282887 GCTTTTCCCTCCCCGCAA 60.283 61.111 0.00 0.00 0.00 4.85
435 5639 1.906333 GCTTTTCCCTCCCCGCAAA 60.906 57.895 0.00 0.00 0.00 3.68
436 5640 1.468506 GCTTTTCCCTCCCCGCAAAA 61.469 55.000 0.00 0.00 0.00 2.44
437 5641 1.044611 CTTTTCCCTCCCCGCAAAAA 58.955 50.000 0.00 0.00 0.00 1.94
490 5694 7.412853 AAAAACTTTGCTTTTCCCTGTAGTA 57.587 32.000 0.00 0.00 0.00 1.82
491 5695 7.597288 AAAACTTTGCTTTTCCCTGTAGTAT 57.403 32.000 0.00 0.00 0.00 2.12
500 5704 5.587388 TTTCCCTGTAGTATCGGTTAGTG 57.413 43.478 0.00 0.00 0.00 2.74
512 5716 6.749118 AGTATCGGTTAGTGTTTACGATGTTC 59.251 38.462 7.98 0.27 43.25 3.18
546 5750 2.107378 GGGGAGGAAATTGGAGGATCTC 59.893 54.545 0.00 0.00 33.73 2.75
547 5751 2.224402 GGGAGGAAATTGGAGGATCTCG 60.224 54.545 0.00 0.00 33.73 4.04
549 5753 3.641906 GGAGGAAATTGGAGGATCTCGTA 59.358 47.826 0.00 0.00 33.73 3.43
596 5800 2.228822 CCAAGTGCCCAACTACATGAAC 59.771 50.000 0.00 0.00 38.56 3.18
620 5824 3.884693 ACATGTGTCAAATCAAGAGCACA 59.115 39.130 0.00 0.00 40.42 4.57
625 5829 5.049198 TGTGTCAAATCAAGAGCACATCTTC 60.049 40.000 0.00 0.00 45.50 2.87
866 7176 1.269517 CCTTACTGATCGAGCTCTGCC 60.270 57.143 12.85 0.65 0.00 4.85
867 7177 1.406898 CTTACTGATCGAGCTCTGCCA 59.593 52.381 12.85 5.46 0.00 4.92
960 7290 0.895559 CCTTCCCCTTCAGCCACAAC 60.896 60.000 0.00 0.00 0.00 3.32
972 7309 0.326264 GCCACAACCCAGTCATCTCT 59.674 55.000 0.00 0.00 0.00 3.10
1201 7550 5.861787 GGTAAGCAATCACACAACCATTAAC 59.138 40.000 0.00 0.00 0.00 2.01
1663 8050 2.040544 GTGGCACAGTCCCATTCCG 61.041 63.158 13.86 0.00 41.80 4.30
1694 8090 9.546909 CTTTACATATAGCCGAGCATTTTTATG 57.453 33.333 0.00 0.00 0.00 1.90
1778 8189 4.491234 TCGTTGTGAACTTGTGTTTGTT 57.509 36.364 0.00 0.00 36.39 2.83
1894 8309 6.395426 TGCAATTGCCTTAGGATATGAAAG 57.605 37.500 26.94 0.00 41.18 2.62
1937 8352 5.690464 AAGAGAAGGATGTGCTATTCAGT 57.310 39.130 0.00 0.00 0.00 3.41
1972 8387 7.716799 TGGCATTAGTTGTTTCTTTATGGAT 57.283 32.000 0.00 0.00 0.00 3.41
2024 8439 8.593679 TCTGGTTCTCTTATTCAACTATTGTGA 58.406 33.333 0.00 0.00 0.00 3.58
2078 8493 5.230182 TCATAGTCATTCCGTGATATGTGC 58.770 41.667 0.00 0.00 39.48 4.57
2079 8494 3.827008 AGTCATTCCGTGATATGTGCT 57.173 42.857 0.00 0.00 39.48 4.40
2080 8495 3.461061 AGTCATTCCGTGATATGTGCTG 58.539 45.455 0.00 0.00 39.48 4.41
2098 8516 4.790140 GTGCTGCAAAATATCTTGAAGACG 59.210 41.667 2.77 0.00 34.25 4.18
2180 8702 8.922058 TTTATTAGTCTAGTTGCCTTAGTTCG 57.078 34.615 0.00 0.00 0.00 3.95
2181 8703 5.972107 TTAGTCTAGTTGCCTTAGTTCGT 57.028 39.130 0.00 0.00 0.00 3.85
2182 8704 4.868314 AGTCTAGTTGCCTTAGTTCGTT 57.132 40.909 0.00 0.00 0.00 3.85
2183 8705 4.557205 AGTCTAGTTGCCTTAGTTCGTTG 58.443 43.478 0.00 0.00 0.00 4.10
2184 8706 3.123116 GTCTAGTTGCCTTAGTTCGTTGC 59.877 47.826 0.00 0.00 0.00 4.17
2185 8707 0.865769 AGTTGCCTTAGTTCGTTGCG 59.134 50.000 0.00 0.00 0.00 4.85
2186 8708 0.584876 GTTGCCTTAGTTCGTTGCGT 59.415 50.000 0.00 0.00 0.00 5.24
2187 8709 0.584396 TTGCCTTAGTTCGTTGCGTG 59.416 50.000 0.00 0.00 0.00 5.34
2188 8710 0.531090 TGCCTTAGTTCGTTGCGTGT 60.531 50.000 0.00 0.00 0.00 4.49
2189 8711 0.163146 GCCTTAGTTCGTTGCGTGTC 59.837 55.000 0.00 0.00 0.00 3.67
2190 8712 1.493772 CCTTAGTTCGTTGCGTGTCA 58.506 50.000 0.00 0.00 0.00 3.58
2191 8713 2.066262 CCTTAGTTCGTTGCGTGTCAT 58.934 47.619 0.00 0.00 0.00 3.06
2192 8714 2.159841 CCTTAGTTCGTTGCGTGTCATG 60.160 50.000 0.00 0.00 0.00 3.07
2193 8715 2.143008 TAGTTCGTTGCGTGTCATGT 57.857 45.000 0.00 0.00 0.00 3.21
2194 8716 2.143008 AGTTCGTTGCGTGTCATGTA 57.857 45.000 0.00 0.00 0.00 2.29
2195 8717 2.475818 AGTTCGTTGCGTGTCATGTAA 58.524 42.857 0.00 0.00 0.00 2.41
2196 8718 2.475111 AGTTCGTTGCGTGTCATGTAAG 59.525 45.455 0.00 0.00 0.00 2.34
2197 8719 1.424403 TCGTTGCGTGTCATGTAAGG 58.576 50.000 8.71 8.71 0.00 2.69
2198 8720 1.000052 TCGTTGCGTGTCATGTAAGGA 60.000 47.619 12.46 12.46 0.00 3.36
2199 8721 1.390123 CGTTGCGTGTCATGTAAGGAG 59.610 52.381 9.23 0.00 0.00 3.69
2200 8722 2.683968 GTTGCGTGTCATGTAAGGAGA 58.316 47.619 0.00 0.00 0.00 3.71
2201 8723 3.262420 GTTGCGTGTCATGTAAGGAGAT 58.738 45.455 0.00 0.00 0.00 2.75
2202 8724 3.610040 TGCGTGTCATGTAAGGAGATT 57.390 42.857 0.00 0.00 0.00 2.40
2203 8725 4.729227 TGCGTGTCATGTAAGGAGATTA 57.271 40.909 0.00 0.00 0.00 1.75
2204 8726 5.276461 TGCGTGTCATGTAAGGAGATTAT 57.724 39.130 0.00 0.00 0.00 1.28
2205 8727 5.049828 TGCGTGTCATGTAAGGAGATTATG 58.950 41.667 0.00 0.00 0.00 1.90
2206 8728 4.084328 GCGTGTCATGTAAGGAGATTATGC 60.084 45.833 0.00 0.00 0.00 3.14
2207 8729 5.292765 CGTGTCATGTAAGGAGATTATGCT 58.707 41.667 0.00 0.00 0.00 3.79
2208 8730 6.447162 CGTGTCATGTAAGGAGATTATGCTA 58.553 40.000 0.00 0.00 0.00 3.49
2209 8731 6.363626 CGTGTCATGTAAGGAGATTATGCTAC 59.636 42.308 0.00 0.00 0.00 3.58
2210 8732 7.437748 GTGTCATGTAAGGAGATTATGCTACT 58.562 38.462 0.00 0.00 0.00 2.57
2211 8733 8.577296 GTGTCATGTAAGGAGATTATGCTACTA 58.423 37.037 0.00 0.00 0.00 1.82
2212 8734 8.797438 TGTCATGTAAGGAGATTATGCTACTAG 58.203 37.037 0.00 0.00 0.00 2.57
2213 8735 9.015367 GTCATGTAAGGAGATTATGCTACTAGA 57.985 37.037 0.00 0.00 0.00 2.43
2214 8736 9.588096 TCATGTAAGGAGATTATGCTACTAGAA 57.412 33.333 0.00 0.00 0.00 2.10
2215 8737 9.632807 CATGTAAGGAGATTATGCTACTAGAAC 57.367 37.037 0.00 0.00 0.00 3.01
2216 8738 8.998277 TGTAAGGAGATTATGCTACTAGAACT 57.002 34.615 0.00 0.00 0.00 3.01
2217 8739 8.851145 TGTAAGGAGATTATGCTACTAGAACTG 58.149 37.037 0.00 0.00 0.00 3.16
2218 8740 6.909550 AGGAGATTATGCTACTAGAACTGG 57.090 41.667 0.00 0.00 0.00 4.00
2219 8741 5.777732 AGGAGATTATGCTACTAGAACTGGG 59.222 44.000 0.00 0.00 0.00 4.45
2220 8742 5.540719 GGAGATTATGCTACTAGAACTGGGT 59.459 44.000 0.00 0.00 0.00 4.51
2221 8743 6.042208 GGAGATTATGCTACTAGAACTGGGTT 59.958 42.308 0.00 0.00 0.00 4.11
2222 8744 7.419172 GGAGATTATGCTACTAGAACTGGGTTT 60.419 40.741 0.00 0.00 0.00 3.27
2223 8745 7.501844 AGATTATGCTACTAGAACTGGGTTTC 58.498 38.462 0.00 0.00 0.00 2.78
2224 8746 6.869206 TTATGCTACTAGAACTGGGTTTCT 57.131 37.500 0.00 0.00 39.28 2.52
2225 8747 5.763876 ATGCTACTAGAACTGGGTTTCTT 57.236 39.130 0.00 0.00 37.09 2.52
2226 8748 5.562298 TGCTACTAGAACTGGGTTTCTTT 57.438 39.130 0.00 0.00 37.09 2.52
2227 8749 6.675413 TGCTACTAGAACTGGGTTTCTTTA 57.325 37.500 0.00 0.00 37.09 1.85
2228 8750 7.253905 TGCTACTAGAACTGGGTTTCTTTAT 57.746 36.000 0.00 0.00 37.09 1.40
2229 8751 8.370266 TGCTACTAGAACTGGGTTTCTTTATA 57.630 34.615 0.00 0.00 37.09 0.98
2230 8752 8.989131 TGCTACTAGAACTGGGTTTCTTTATAT 58.011 33.333 0.00 0.00 37.09 0.86
2231 8753 9.262358 GCTACTAGAACTGGGTTTCTTTATATG 57.738 37.037 0.00 0.00 37.09 1.78
2237 8759 8.893727 AGAACTGGGTTTCTTTATATGAAATCG 58.106 33.333 5.20 0.00 35.90 3.34
2238 8760 8.801882 AACTGGGTTTCTTTATATGAAATCGA 57.198 30.769 0.00 0.00 35.90 3.59
2239 8761 8.801882 ACTGGGTTTCTTTATATGAAATCGAA 57.198 30.769 0.00 0.00 35.90 3.71
2240 8762 8.893727 ACTGGGTTTCTTTATATGAAATCGAAG 58.106 33.333 0.00 7.62 35.90 3.79
2241 8763 9.109393 CTGGGTTTCTTTATATGAAATCGAAGA 57.891 33.333 0.00 0.00 45.75 2.87
2242 8764 9.109393 TGGGTTTCTTTATATGAAATCGAAGAG 57.891 33.333 0.00 0.00 43.63 2.85
2243 8765 8.560374 GGGTTTCTTTATATGAAATCGAAGAGG 58.440 37.037 0.00 0.00 43.63 3.69
2244 8766 8.560374 GGTTTCTTTATATGAAATCGAAGAGGG 58.440 37.037 0.00 0.00 43.63 4.30
2245 8767 9.326413 GTTTCTTTATATGAAATCGAAGAGGGA 57.674 33.333 0.00 0.00 43.63 4.20
2246 8768 9.899661 TTTCTTTATATGAAATCGAAGAGGGAA 57.100 29.630 0.00 0.00 43.63 3.97
2247 8769 9.899661 TTCTTTATATGAAATCGAAGAGGGAAA 57.100 29.630 0.00 0.00 43.63 3.13
2248 8770 9.547753 TCTTTATATGAAATCGAAGAGGGAAAG 57.452 33.333 0.00 0.00 43.63 2.62
2249 8771 7.730364 TTATATGAAATCGAAGAGGGAAAGC 57.270 36.000 0.00 0.00 43.63 3.51
2250 8772 2.711542 TGAAATCGAAGAGGGAAAGCC 58.288 47.619 0.00 0.00 43.63 4.35
2251 8773 2.305927 TGAAATCGAAGAGGGAAAGCCT 59.694 45.455 0.00 0.00 43.63 4.58
2252 8774 2.700722 AATCGAAGAGGGAAAGCCTC 57.299 50.000 0.00 0.00 43.63 4.70
2253 8775 1.872773 ATCGAAGAGGGAAAGCCTCT 58.127 50.000 0.00 0.00 45.34 3.69
2254 8776 1.187087 TCGAAGAGGGAAAGCCTCTC 58.813 55.000 0.00 0.00 42.98 3.20
2255 8777 1.190643 CGAAGAGGGAAAGCCTCTCT 58.809 55.000 0.00 0.00 42.98 3.10
2256 8778 1.552792 CGAAGAGGGAAAGCCTCTCTT 59.447 52.381 6.88 6.88 45.98 2.85
2257 8779 2.027653 CGAAGAGGGAAAGCCTCTCTTT 60.028 50.000 8.41 0.00 44.65 2.52
2258 8780 3.558109 CGAAGAGGGAAAGCCTCTCTTTT 60.558 47.826 8.41 0.00 44.65 2.27
2259 8781 3.431673 AGAGGGAAAGCCTCTCTTTTG 57.568 47.619 0.00 0.00 44.58 2.44
2260 8782 1.815613 GAGGGAAAGCCTCTCTTTTGC 59.184 52.381 0.00 0.00 44.58 3.68
2261 8783 1.426983 AGGGAAAGCCTCTCTTTTGCT 59.573 47.619 0.00 0.00 44.58 3.91
2262 8784 1.815613 GGGAAAGCCTCTCTTTTGCTC 59.184 52.381 0.00 0.00 44.58 4.26
2263 8785 2.508526 GGAAAGCCTCTCTTTTGCTCA 58.491 47.619 0.00 0.00 44.58 4.26
2264 8786 2.887152 GGAAAGCCTCTCTTTTGCTCAA 59.113 45.455 0.00 0.00 44.58 3.02
2265 8787 3.319122 GGAAAGCCTCTCTTTTGCTCAAA 59.681 43.478 0.00 0.00 44.58 2.69
2266 8788 4.202151 GGAAAGCCTCTCTTTTGCTCAAAA 60.202 41.667 7.46 7.46 44.58 2.44
2267 8789 5.343307 AAAGCCTCTCTTTTGCTCAAAAA 57.657 34.783 8.83 0.00 42.06 1.94
2330 8852 6.734104 ATAAGCACAACTTCTCATCAAGAC 57.266 37.500 0.00 0.00 39.97 3.01
2337 8859 7.571026 CACAACTTCTCATCAAGACTAGTTTG 58.429 38.462 0.00 4.27 34.32 2.93
2360 8882 6.068010 TGAGTGTCTATTTTCCACAAACCAT 58.932 36.000 0.00 0.00 0.00 3.55
2361 8883 6.549364 TGAGTGTCTATTTTCCACAAACCATT 59.451 34.615 0.00 0.00 0.00 3.16
2371 8893 7.537596 TTTCCACAAACCATTATGAGACAAT 57.462 32.000 0.00 0.00 0.00 2.71
2393 8915 6.889301 ATATTTGACGAATTGGCATGAGAT 57.111 33.333 0.00 0.00 0.00 2.75
2407 8929 3.244814 GCATGAGATTGTGCTTAGAGTCG 59.755 47.826 0.00 0.00 38.30 4.18
2464 8986 9.823098 GATACATGATAGATTTCACTCAAATGC 57.177 33.333 0.00 0.00 34.60 3.56
2484 9006 2.550978 CGATGGGTACATTCAGTGTCC 58.449 52.381 0.00 0.00 42.29 4.02
2491 9013 4.243270 GGTACATTCAGTGTCCAGTGTAC 58.757 47.826 7.28 7.28 42.29 2.90
2492 9014 4.262292 GGTACATTCAGTGTCCAGTGTACA 60.262 45.833 14.17 0.00 42.06 2.90
2493 9015 4.623932 ACATTCAGTGTCCAGTGTACAT 57.376 40.909 0.00 0.00 35.77 2.29
2525 9047 7.609146 GCCATTGGAGATACATGATAGATTTCA 59.391 37.037 6.95 0.00 0.00 2.69
2526 9048 8.944029 CCATTGGAGATACATGATAGATTTCAC 58.056 37.037 0.00 0.00 0.00 3.18
2527 9049 9.722184 CATTGGAGATACATGATAGATTTCACT 57.278 33.333 0.00 0.00 0.00 3.41
2528 9050 9.941325 ATTGGAGATACATGATAGATTTCACTC 57.059 33.333 0.00 0.00 0.00 3.51
2529 9051 8.482852 TGGAGATACATGATAGATTTCACTCA 57.517 34.615 0.00 0.00 0.00 3.41
2530 9052 8.927411 TGGAGATACATGATAGATTTCACTCAA 58.073 33.333 0.00 0.00 0.00 3.02
2531 9053 9.770097 GGAGATACATGATAGATTTCACTCAAA 57.230 33.333 0.00 0.00 0.00 2.69
2534 9056 9.823098 GATACATGATAGATTTCACTCAAATGC 57.177 33.333 0.00 0.00 34.60 3.56
2535 9057 6.722301 ACATGATAGATTTCACTCAAATGCG 58.278 36.000 0.00 0.00 34.60 4.73
2536 9058 6.539826 ACATGATAGATTTCACTCAAATGCGA 59.460 34.615 0.00 0.00 34.60 5.10
2537 9059 7.228108 ACATGATAGATTTCACTCAAATGCGAT 59.772 33.333 0.00 0.00 34.60 4.58
2538 9060 6.951643 TGATAGATTTCACTCAAATGCGATG 58.048 36.000 0.00 0.00 34.60 3.84
2539 9061 4.627611 AGATTTCACTCAAATGCGATGG 57.372 40.909 0.00 0.00 34.60 3.51
2540 9062 3.379372 AGATTTCACTCAAATGCGATGGG 59.621 43.478 0.00 0.00 34.60 4.00
2541 9063 2.198827 TTCACTCAAATGCGATGGGT 57.801 45.000 0.00 0.00 29.54 4.51
2542 9064 3.342377 TTCACTCAAATGCGATGGGTA 57.658 42.857 0.00 0.00 28.22 3.69
2543 9065 2.627945 TCACTCAAATGCGATGGGTAC 58.372 47.619 0.00 0.00 28.22 3.34
2544 9066 2.027653 TCACTCAAATGCGATGGGTACA 60.028 45.455 0.00 0.00 28.22 2.90
2545 9067 2.945008 CACTCAAATGCGATGGGTACAT 59.055 45.455 0.00 0.00 40.85 2.29
2546 9068 3.378112 CACTCAAATGCGATGGGTACATT 59.622 43.478 0.00 0.00 37.47 2.71
2547 9069 3.627577 ACTCAAATGCGATGGGTACATTC 59.372 43.478 0.00 0.00 37.47 2.67
2548 9070 3.615155 TCAAATGCGATGGGTACATTCA 58.385 40.909 0.00 0.00 37.47 2.57
2549 9071 3.627123 TCAAATGCGATGGGTACATTCAG 59.373 43.478 0.00 0.00 37.47 3.02
2550 9072 3.281727 AATGCGATGGGTACATTCAGT 57.718 42.857 0.00 0.00 37.47 3.41
2551 9073 2.022764 TGCGATGGGTACATTCAGTG 57.977 50.000 0.00 0.00 37.47 3.66
2552 9074 1.277842 TGCGATGGGTACATTCAGTGT 59.722 47.619 0.00 0.00 44.95 3.55
2553 9075 1.933853 GCGATGGGTACATTCAGTGTC 59.066 52.381 0.00 0.00 42.29 3.67
2554 9076 2.550978 CGATGGGTACATTCAGTGTCC 58.449 52.381 0.00 0.00 42.29 4.02
2555 9077 2.093711 CGATGGGTACATTCAGTGTCCA 60.094 50.000 0.00 0.00 42.29 4.02
2556 9078 3.535561 GATGGGTACATTCAGTGTCCAG 58.464 50.000 0.00 0.00 42.29 3.86
2557 9079 2.334977 TGGGTACATTCAGTGTCCAGT 58.665 47.619 0.00 0.00 42.29 4.00
2558 9080 2.038426 TGGGTACATTCAGTGTCCAGTG 59.962 50.000 0.00 0.00 42.29 3.66
2559 9081 2.038557 GGGTACATTCAGTGTCCAGTGT 59.961 50.000 0.00 0.00 42.29 3.55
2560 9082 3.259876 GGGTACATTCAGTGTCCAGTGTA 59.740 47.826 0.00 0.00 42.29 2.90
2561 9083 4.243270 GGTACATTCAGTGTCCAGTGTAC 58.757 47.826 7.28 7.28 42.29 2.90
2562 9084 3.026630 ACATTCAGTGTCCAGTGTACG 57.973 47.619 2.28 0.00 35.77 3.67
2563 9085 2.364324 ACATTCAGTGTCCAGTGTACGT 59.636 45.455 0.00 0.00 35.77 3.57
2564 9086 2.502213 TTCAGTGTCCAGTGTACGTG 57.498 50.000 0.00 0.00 33.58 4.49
2565 9087 0.031585 TCAGTGTCCAGTGTACGTGC 59.968 55.000 0.00 0.00 33.58 5.34
2566 9088 0.032130 CAGTGTCCAGTGTACGTGCT 59.968 55.000 4.97 0.00 0.00 4.40
2567 9089 0.314302 AGTGTCCAGTGTACGTGCTC 59.686 55.000 4.97 0.72 0.00 4.26
2568 9090 1.002250 GTGTCCAGTGTACGTGCTCG 61.002 60.000 6.63 6.63 43.34 5.03
2569 9091 1.443872 GTCCAGTGTACGTGCTCGG 60.444 63.158 13.32 7.58 41.85 4.63
2570 9092 2.809601 CCAGTGTACGTGCTCGGC 60.810 66.667 13.32 5.66 41.85 5.54
2571 9093 2.809601 CAGTGTACGTGCTCGGCC 60.810 66.667 13.32 0.00 41.85 6.13
2572 9094 3.299977 AGTGTACGTGCTCGGCCA 61.300 61.111 13.32 5.59 41.85 5.36
2573 9095 2.125673 GTGTACGTGCTCGGCCAT 60.126 61.111 13.32 0.00 41.85 4.40
2574 9096 1.740296 GTGTACGTGCTCGGCCATT 60.740 57.895 13.32 0.00 41.85 3.16
2575 9097 1.739929 TGTACGTGCTCGGCCATTG 60.740 57.895 13.32 0.00 41.85 2.82
2576 9098 2.125310 TACGTGCTCGGCCATTGG 60.125 61.111 13.32 0.00 41.85 3.16
2577 9099 2.651105 TACGTGCTCGGCCATTGGA 61.651 57.895 13.32 0.00 41.85 3.53
2578 9100 2.572095 TACGTGCTCGGCCATTGGAG 62.572 60.000 13.32 1.65 41.85 3.86
2579 9101 2.268920 GTGCTCGGCCATTGGAGA 59.731 61.111 6.95 4.02 31.90 3.71
2580 9102 1.153086 GTGCTCGGCCATTGGAGAT 60.153 57.895 6.95 0.00 31.90 2.75
2581 9103 0.106708 GTGCTCGGCCATTGGAGATA 59.893 55.000 6.95 0.00 31.90 1.98
2582 9104 0.106708 TGCTCGGCCATTGGAGATAC 59.893 55.000 6.95 1.59 31.90 2.24
2583 9105 0.106708 GCTCGGCCATTGGAGATACA 59.893 55.000 6.95 0.00 31.90 2.29
2584 9106 1.271054 GCTCGGCCATTGGAGATACAT 60.271 52.381 6.95 0.00 31.90 2.29
2585 9107 2.420642 CTCGGCCATTGGAGATACATG 58.579 52.381 6.95 0.00 31.90 3.21
2586 9108 2.037641 CTCGGCCATTGGAGATACATGA 59.962 50.000 6.95 0.00 31.90 3.07
2587 9109 2.639347 TCGGCCATTGGAGATACATGAT 59.361 45.455 6.95 0.00 0.00 2.45
2588 9110 3.837731 TCGGCCATTGGAGATACATGATA 59.162 43.478 6.95 0.00 0.00 2.15
2589 9111 4.081476 TCGGCCATTGGAGATACATGATAG 60.081 45.833 6.95 0.00 0.00 2.08
2590 9112 4.081476 CGGCCATTGGAGATACATGATAGA 60.081 45.833 6.95 0.00 0.00 1.98
2591 9113 5.396101 CGGCCATTGGAGATACATGATAGAT 60.396 44.000 6.95 0.00 0.00 1.98
2592 9114 6.421485 GGCCATTGGAGATACATGATAGATT 58.579 40.000 6.95 0.00 0.00 2.40
2593 9115 6.888632 GGCCATTGGAGATACATGATAGATTT 59.111 38.462 6.95 0.00 0.00 2.17
2594 9116 7.066766 GGCCATTGGAGATACATGATAGATTTC 59.933 40.741 6.95 0.00 0.00 2.17
2595 9117 7.609146 GCCATTGGAGATACATGATAGATTTCA 59.391 37.037 6.95 0.00 0.00 2.69
2607 9129 9.703892 ACATGATAGATTTCACTCTAAGTATGC 57.296 33.333 0.00 0.00 31.75 3.14
2611 9133 9.703892 GATAGATTTCACTCTAAGTATGCATGT 57.296 33.333 10.16 0.00 31.75 3.21
2631 9153 4.905429 TGTTAGCTTAAGATGCCACTCAA 58.095 39.130 6.67 0.00 0.00 3.02
2634 9156 6.434028 TGTTAGCTTAAGATGCCACTCAAAAT 59.566 34.615 6.67 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
108 4983 5.398603 TTTTTCTCAAAAGAACTGTGGCA 57.601 34.783 0.00 0.00 41.23 4.92
112 4987 6.397272 TGTGCATTTTTCTCAAAAGAACTGT 58.603 32.000 0.00 0.00 41.23 3.55
134 5010 2.001269 GGCCCCATAGTGTCCCTGT 61.001 63.158 0.00 0.00 0.00 4.00
348 5229 3.630769 TCCGATCAGGTATACGCCATATC 59.369 47.826 0.00 0.00 41.99 1.63
351 5232 1.919240 TCCGATCAGGTATACGCCAT 58.081 50.000 0.00 0.00 41.99 4.40
363 5250 4.304110 GGCTTATGTTCGTATTCCGATCA 58.696 43.478 0.00 0.00 46.75 2.92
414 5618 1.906333 GCGGGGAGGGAAAAGCAAA 60.906 57.895 0.00 0.00 0.00 3.68
417 5621 1.468506 TTTTGCGGGGAGGGAAAAGC 61.469 55.000 0.00 0.00 33.19 3.51
418 5622 1.044611 TTTTTGCGGGGAGGGAAAAG 58.955 50.000 0.00 0.00 38.25 2.27
419 5623 3.225608 TTTTTGCGGGGAGGGAAAA 57.774 47.368 0.00 0.00 35.78 2.29
466 5670 6.294361 ACTACAGGGAAAAGCAAAGTTTTT 57.706 33.333 0.00 0.00 29.58 1.94
467 5671 5.932619 ACTACAGGGAAAAGCAAAGTTTT 57.067 34.783 0.00 0.00 32.18 2.43
468 5672 6.072673 CGATACTACAGGGAAAAGCAAAGTTT 60.073 38.462 0.00 0.00 0.00 2.66
469 5673 5.411669 CGATACTACAGGGAAAAGCAAAGTT 59.588 40.000 0.00 0.00 0.00 2.66
470 5674 4.935808 CGATACTACAGGGAAAAGCAAAGT 59.064 41.667 0.00 0.00 0.00 2.66
471 5675 4.332819 CCGATACTACAGGGAAAAGCAAAG 59.667 45.833 0.00 0.00 0.00 2.77
472 5676 4.258543 CCGATACTACAGGGAAAAGCAAA 58.741 43.478 0.00 0.00 0.00 3.68
473 5677 3.262405 ACCGATACTACAGGGAAAAGCAA 59.738 43.478 0.00 0.00 0.00 3.91
474 5678 2.835764 ACCGATACTACAGGGAAAAGCA 59.164 45.455 0.00 0.00 0.00 3.91
475 5679 3.538634 ACCGATACTACAGGGAAAAGC 57.461 47.619 0.00 0.00 0.00 3.51
476 5680 6.040878 CACTAACCGATACTACAGGGAAAAG 58.959 44.000 0.00 0.00 0.00 2.27
490 5694 5.717119 AGAACATCGTAAACACTAACCGAT 58.283 37.500 0.00 0.00 38.68 4.18
491 5695 5.125100 AGAACATCGTAAACACTAACCGA 57.875 39.130 0.00 0.00 0.00 4.69
500 5704 4.451096 TGCCAGAAGAAGAACATCGTAAAC 59.549 41.667 0.00 0.00 0.00 2.01
512 5716 1.078848 CTCCCCGTGCCAGAAGAAG 60.079 63.158 0.00 0.00 0.00 2.85
546 5750 1.387756 GGTTCGTCGTCCATGTTTACG 59.612 52.381 6.24 6.24 40.40 3.18
547 5751 2.410730 CAGGTTCGTCGTCCATGTTTAC 59.589 50.000 10.61 0.00 0.00 2.01
549 5753 1.508632 CAGGTTCGTCGTCCATGTTT 58.491 50.000 10.61 0.00 0.00 2.83
596 5800 4.678287 GTGCTCTTGATTTGACACATGTTG 59.322 41.667 0.00 0.00 0.00 3.33
620 5824 7.562454 TTTTTGGTCGTGTAAAAGAGAAGAT 57.438 32.000 0.00 0.00 0.00 2.40
843 7143 3.429547 GCAGAGCTCGATCAGTAAGGAAA 60.430 47.826 8.37 0.00 0.00 3.13
844 7144 2.099921 GCAGAGCTCGATCAGTAAGGAA 59.900 50.000 8.37 0.00 0.00 3.36
847 7147 1.406898 TGGCAGAGCTCGATCAGTAAG 59.593 52.381 8.37 0.00 0.00 2.34
866 7176 7.065085 GCTTTGCATGTATATATAGGGAGTGTG 59.935 40.741 0.00 0.00 0.00 3.82
867 7177 7.106239 GCTTTGCATGTATATATAGGGAGTGT 58.894 38.462 0.00 0.00 0.00 3.55
960 7290 3.740764 GCAAAGCTAGAGAGATGACTGGG 60.741 52.174 0.00 0.00 0.00 4.45
972 7309 3.259374 ACTGAGTAAGCAGCAAAGCTAGA 59.741 43.478 0.00 0.00 45.89 2.43
1297 7654 5.914033 ACACTGCAATATAGGTAACACGAT 58.086 37.500 0.00 0.00 41.41 3.73
1583 7969 2.395988 CTACCACAGCTGCCACACCA 62.396 60.000 15.27 0.00 0.00 4.17
1588 7974 1.371183 GTGACTACCACAGCTGCCA 59.629 57.895 15.27 0.00 45.03 4.92
1663 8050 4.022242 TGCTCGGCTATATGTAAAGAGGAC 60.022 45.833 0.00 0.00 0.00 3.85
1694 8090 1.263776 CAACACTCTCGATCGCTCAC 58.736 55.000 11.09 0.00 0.00 3.51
1767 8178 2.065899 TCCAGGGGAACAAACACAAG 57.934 50.000 0.00 0.00 0.00 3.16
1778 8189 5.401750 TGATTGAAGAAAATTTCCAGGGGA 58.598 37.500 1.57 0.00 0.00 4.81
1828 8240 7.441836 TCTTAAGAGCACTGACAACTTCATTA 58.558 34.615 0.00 0.00 32.17 1.90
1829 8241 6.291377 TCTTAAGAGCACTGACAACTTCATT 58.709 36.000 0.00 0.00 32.17 2.57
1830 8242 5.858381 TCTTAAGAGCACTGACAACTTCAT 58.142 37.500 0.00 0.00 32.17 2.57
1831 8243 5.276461 TCTTAAGAGCACTGACAACTTCA 57.724 39.130 0.00 0.00 0.00 3.02
1993 8408 6.299141 AGTTGAATAAGAGAACCAGAGCAAA 58.701 36.000 0.00 0.00 0.00 3.68
2067 8482 5.993891 AGATATTTTGCAGCACATATCACG 58.006 37.500 24.08 0.00 32.94 4.35
2068 8483 7.420002 TCAAGATATTTTGCAGCACATATCAC 58.580 34.615 24.08 9.07 32.94 3.06
2070 8485 8.347771 TCTTCAAGATATTTTGCAGCACATATC 58.652 33.333 18.72 18.72 0.00 1.63
2072 8487 7.475015 GTCTTCAAGATATTTTGCAGCACATA 58.525 34.615 0.00 0.00 0.00 2.29
2075 8490 4.790140 CGTCTTCAAGATATTTTGCAGCAC 59.210 41.667 0.00 1.28 0.00 4.40
2078 8493 7.008440 TGATCGTCTTCAAGATATTTTGCAG 57.992 36.000 1.10 0.54 0.00 4.41
2079 8494 6.818142 TCTGATCGTCTTCAAGATATTTTGCA 59.182 34.615 1.10 0.00 0.00 4.08
2080 8495 7.239166 TCTGATCGTCTTCAAGATATTTTGC 57.761 36.000 1.10 0.00 0.00 3.68
2167 8689 0.584876 ACGCAACGAACTAAGGCAAC 59.415 50.000 0.00 0.00 0.00 4.17
2168 8690 0.584396 CACGCAACGAACTAAGGCAA 59.416 50.000 0.00 0.00 0.00 4.52
2169 8691 0.531090 ACACGCAACGAACTAAGGCA 60.531 50.000 0.00 0.00 0.00 4.75
2170 8692 0.163146 GACACGCAACGAACTAAGGC 59.837 55.000 0.00 0.00 0.00 4.35
2171 8693 1.493772 TGACACGCAACGAACTAAGG 58.506 50.000 0.00 0.00 0.00 2.69
2172 8694 2.475111 ACATGACACGCAACGAACTAAG 59.525 45.455 0.00 0.00 0.00 2.18
2173 8695 2.475818 ACATGACACGCAACGAACTAA 58.524 42.857 0.00 0.00 0.00 2.24
2174 8696 2.143008 ACATGACACGCAACGAACTA 57.857 45.000 0.00 0.00 0.00 2.24
2175 8697 2.143008 TACATGACACGCAACGAACT 57.857 45.000 0.00 0.00 0.00 3.01
2176 8698 2.411031 CCTTACATGACACGCAACGAAC 60.411 50.000 0.00 0.00 0.00 3.95
2177 8699 1.795872 CCTTACATGACACGCAACGAA 59.204 47.619 0.00 0.00 0.00 3.85
2178 8700 1.000052 TCCTTACATGACACGCAACGA 60.000 47.619 0.00 0.00 0.00 3.85
2179 8701 1.390123 CTCCTTACATGACACGCAACG 59.610 52.381 0.00 0.00 0.00 4.10
2180 8702 2.683968 TCTCCTTACATGACACGCAAC 58.316 47.619 0.00 0.00 0.00 4.17
2181 8703 3.610040 ATCTCCTTACATGACACGCAA 57.390 42.857 0.00 0.00 0.00 4.85
2182 8704 3.610040 AATCTCCTTACATGACACGCA 57.390 42.857 0.00 0.00 0.00 5.24
2183 8705 4.084328 GCATAATCTCCTTACATGACACGC 60.084 45.833 0.00 0.00 0.00 5.34
2184 8706 5.292765 AGCATAATCTCCTTACATGACACG 58.707 41.667 0.00 0.00 0.00 4.49
2185 8707 7.437748 AGTAGCATAATCTCCTTACATGACAC 58.562 38.462 0.00 0.00 0.00 3.67
2186 8708 7.603180 AGTAGCATAATCTCCTTACATGACA 57.397 36.000 0.00 0.00 0.00 3.58
2187 8709 9.015367 TCTAGTAGCATAATCTCCTTACATGAC 57.985 37.037 0.00 0.00 0.00 3.06
2188 8710 9.588096 TTCTAGTAGCATAATCTCCTTACATGA 57.412 33.333 0.00 0.00 0.00 3.07
2189 8711 9.632807 GTTCTAGTAGCATAATCTCCTTACATG 57.367 37.037 0.00 0.00 0.00 3.21
2190 8712 9.594936 AGTTCTAGTAGCATAATCTCCTTACAT 57.405 33.333 0.00 0.00 0.00 2.29
2191 8713 8.851145 CAGTTCTAGTAGCATAATCTCCTTACA 58.149 37.037 0.00 0.00 0.00 2.41
2192 8714 8.301002 CCAGTTCTAGTAGCATAATCTCCTTAC 58.699 40.741 0.00 0.00 0.00 2.34
2193 8715 7.451877 CCCAGTTCTAGTAGCATAATCTCCTTA 59.548 40.741 0.00 0.00 0.00 2.69
2194 8716 6.268847 CCCAGTTCTAGTAGCATAATCTCCTT 59.731 42.308 0.00 0.00 0.00 3.36
2195 8717 5.777732 CCCAGTTCTAGTAGCATAATCTCCT 59.222 44.000 0.00 0.00 0.00 3.69
2196 8718 5.540719 ACCCAGTTCTAGTAGCATAATCTCC 59.459 44.000 0.00 0.00 0.00 3.71
2197 8719 6.658188 ACCCAGTTCTAGTAGCATAATCTC 57.342 41.667 0.00 0.00 0.00 2.75
2198 8720 7.345914 AGAAACCCAGTTCTAGTAGCATAATCT 59.654 37.037 0.00 0.00 36.06 2.40
2199 8721 7.501844 AGAAACCCAGTTCTAGTAGCATAATC 58.498 38.462 0.00 0.00 36.06 1.75
2200 8722 7.439108 AGAAACCCAGTTCTAGTAGCATAAT 57.561 36.000 0.00 0.00 36.06 1.28
2201 8723 6.869206 AGAAACCCAGTTCTAGTAGCATAA 57.131 37.500 0.00 0.00 36.06 1.90
2202 8724 6.869206 AAGAAACCCAGTTCTAGTAGCATA 57.131 37.500 0.00 0.00 36.84 3.14
2203 8725 5.763876 AAGAAACCCAGTTCTAGTAGCAT 57.236 39.130 0.00 0.00 36.84 3.79
2204 8726 5.562298 AAAGAAACCCAGTTCTAGTAGCA 57.438 39.130 0.00 0.00 36.84 3.49
2205 8727 9.262358 CATATAAAGAAACCCAGTTCTAGTAGC 57.738 37.037 0.00 0.00 36.84 3.58
2211 8733 8.893727 CGATTTCATATAAAGAAACCCAGTTCT 58.106 33.333 6.02 0.00 39.60 3.01
2212 8734 8.889717 TCGATTTCATATAAAGAAACCCAGTTC 58.110 33.333 6.02 0.49 37.76 3.01
2213 8735 8.801882 TCGATTTCATATAAAGAAACCCAGTT 57.198 30.769 6.02 0.00 37.76 3.16
2214 8736 8.801882 TTCGATTTCATATAAAGAAACCCAGT 57.198 30.769 6.02 0.00 37.76 4.00
2215 8737 9.109393 TCTTCGATTTCATATAAAGAAACCCAG 57.891 33.333 6.02 2.51 37.76 4.45
2216 8738 9.109393 CTCTTCGATTTCATATAAAGAAACCCA 57.891 33.333 6.02 0.00 37.76 4.51
2217 8739 8.560374 CCTCTTCGATTTCATATAAAGAAACCC 58.440 37.037 6.02 2.43 37.76 4.11
2218 8740 8.560374 CCCTCTTCGATTTCATATAAAGAAACC 58.440 37.037 6.02 0.00 37.76 3.27
2219 8741 9.326413 TCCCTCTTCGATTTCATATAAAGAAAC 57.674 33.333 6.02 1.95 37.76 2.78
2220 8742 9.899661 TTCCCTCTTCGATTTCATATAAAGAAA 57.100 29.630 6.28 6.28 39.11 2.52
2221 8743 9.899661 TTTCCCTCTTCGATTTCATATAAAGAA 57.100 29.630 0.00 0.00 0.00 2.52
2222 8744 9.547753 CTTTCCCTCTTCGATTTCATATAAAGA 57.452 33.333 0.00 0.00 0.00 2.52
2223 8745 8.286097 GCTTTCCCTCTTCGATTTCATATAAAG 58.714 37.037 0.00 0.00 0.00 1.85
2224 8746 7.228706 GGCTTTCCCTCTTCGATTTCATATAAA 59.771 37.037 0.00 0.00 0.00 1.40
2225 8747 6.710744 GGCTTTCCCTCTTCGATTTCATATAA 59.289 38.462 0.00 0.00 0.00 0.98
2226 8748 6.043243 AGGCTTTCCCTCTTCGATTTCATATA 59.957 38.462 0.00 0.00 41.21 0.86
2227 8749 5.066593 GGCTTTCCCTCTTCGATTTCATAT 58.933 41.667 0.00 0.00 0.00 1.78
2228 8750 4.164221 AGGCTTTCCCTCTTCGATTTCATA 59.836 41.667 0.00 0.00 41.21 2.15
2229 8751 3.054065 AGGCTTTCCCTCTTCGATTTCAT 60.054 43.478 0.00 0.00 41.21 2.57
2230 8752 2.305927 AGGCTTTCCCTCTTCGATTTCA 59.694 45.455 0.00 0.00 41.21 2.69
2231 8753 2.992593 AGGCTTTCCCTCTTCGATTTC 58.007 47.619 0.00 0.00 41.21 2.17
2242 8764 1.815613 GAGCAAAAGAGAGGCTTTCCC 59.184 52.381 0.73 0.00 45.85 3.97
2243 8765 2.508526 TGAGCAAAAGAGAGGCTTTCC 58.491 47.619 0.73 0.00 45.85 3.13
2244 8766 4.574599 TTTGAGCAAAAGAGAGGCTTTC 57.425 40.909 0.00 0.00 45.85 2.62
2274 8796 9.625747 TGAAAAGTGGAAATATGCATGAGTATA 57.374 29.630 10.16 0.00 0.00 1.47
2275 8797 8.523915 TGAAAAGTGGAAATATGCATGAGTAT 57.476 30.769 10.16 0.00 0.00 2.12
2276 8798 7.936496 TGAAAAGTGGAAATATGCATGAGTA 57.064 32.000 10.16 0.00 0.00 2.59
2277 8799 6.839124 TGAAAAGTGGAAATATGCATGAGT 57.161 33.333 10.16 0.00 0.00 3.41
2278 8800 8.712285 AATTGAAAAGTGGAAATATGCATGAG 57.288 30.769 10.16 0.00 0.00 2.90
2330 8852 7.962964 TGTGGAAAATAGACACTCAAACTAG 57.037 36.000 0.00 0.00 36.16 2.57
2337 8859 6.575162 ATGGTTTGTGGAAAATAGACACTC 57.425 37.500 0.00 0.00 36.16 3.51
2360 8882 8.128582 GCCAATTCGTCAAATATTGTCTCATAA 58.871 33.333 0.00 0.00 0.00 1.90
2361 8883 7.281999 TGCCAATTCGTCAAATATTGTCTCATA 59.718 33.333 0.00 0.00 0.00 2.15
2371 8893 6.095300 ACAATCTCATGCCAATTCGTCAAATA 59.905 34.615 0.00 0.00 0.00 1.40
2393 8915 5.050363 GTGATTTTGTCGACTCTAAGCACAA 60.050 40.000 26.07 8.33 0.00 3.33
2407 8929 2.943033 CCCGTGATAGGGTGATTTTGTC 59.057 50.000 0.00 0.00 46.38 3.18
2430 8952 8.449397 GTGAAATCTATCATGTATCTCCAATGC 58.551 37.037 0.00 0.00 0.00 3.56
2463 8985 1.933853 GACACTGAATGTACCCATCGC 59.066 52.381 0.00 0.00 43.56 4.58
2464 8986 2.093711 TGGACACTGAATGTACCCATCG 60.094 50.000 0.00 0.00 42.22 3.84
2484 9006 2.034104 ATGGCTGAGCATGTACACTG 57.966 50.000 6.82 0.00 0.00 3.66
2491 9013 1.982660 ATCTCCAATGGCTGAGCATG 58.017 50.000 6.82 1.70 0.00 4.06
2492 9014 2.440627 TGTATCTCCAATGGCTGAGCAT 59.559 45.455 6.82 0.00 0.00 3.79
2493 9015 1.839354 TGTATCTCCAATGGCTGAGCA 59.161 47.619 6.82 0.00 0.00 4.26
2525 9047 2.779755 TGTACCCATCGCATTTGAGT 57.220 45.000 0.00 0.00 0.00 3.41
2526 9048 3.627123 TGAATGTACCCATCGCATTTGAG 59.373 43.478 0.00 0.00 33.56 3.02
2527 9049 3.615155 TGAATGTACCCATCGCATTTGA 58.385 40.909 0.00 0.00 33.56 2.69
2528 9050 3.378112 ACTGAATGTACCCATCGCATTTG 59.622 43.478 0.00 0.00 33.56 2.32
2529 9051 3.378112 CACTGAATGTACCCATCGCATTT 59.622 43.478 0.00 0.00 33.56 2.32
2530 9052 2.945008 CACTGAATGTACCCATCGCATT 59.055 45.455 0.00 0.00 35.78 3.56
2531 9053 2.092968 ACACTGAATGTACCCATCGCAT 60.093 45.455 0.00 0.00 40.88 4.73
2532 9054 1.277842 ACACTGAATGTACCCATCGCA 59.722 47.619 0.00 0.00 40.88 5.10
2533 9055 1.933853 GACACTGAATGTACCCATCGC 59.066 52.381 0.00 0.00 43.56 4.58
2534 9056 2.093711 TGGACACTGAATGTACCCATCG 60.094 50.000 0.00 0.00 42.22 3.84
2535 9057 3.055094 ACTGGACACTGAATGTACCCATC 60.055 47.826 0.00 0.00 42.22 3.51
2536 9058 2.912956 ACTGGACACTGAATGTACCCAT 59.087 45.455 0.00 0.00 42.22 4.00
2537 9059 2.038426 CACTGGACACTGAATGTACCCA 59.962 50.000 0.00 0.00 42.22 4.51
2538 9060 2.038557 ACACTGGACACTGAATGTACCC 59.961 50.000 0.00 0.00 42.22 3.69
2539 9061 3.402628 ACACTGGACACTGAATGTACC 57.597 47.619 0.00 0.00 42.22 3.34
2540 9062 3.918591 CGTACACTGGACACTGAATGTAC 59.081 47.826 0.00 0.00 43.56 2.90
2541 9063 3.570975 ACGTACACTGGACACTGAATGTA 59.429 43.478 0.00 0.00 43.56 2.29
2543 9065 2.731451 CACGTACACTGGACACTGAATG 59.269 50.000 0.00 0.00 0.00 2.67
2544 9066 2.866460 GCACGTACACTGGACACTGAAT 60.866 50.000 0.00 0.00 0.00 2.57
2545 9067 1.537348 GCACGTACACTGGACACTGAA 60.537 52.381 0.00 0.00 0.00 3.02
2546 9068 0.031585 GCACGTACACTGGACACTGA 59.968 55.000 0.00 0.00 0.00 3.41
2547 9069 0.032130 AGCACGTACACTGGACACTG 59.968 55.000 0.00 0.00 0.00 3.66
2548 9070 0.314302 GAGCACGTACACTGGACACT 59.686 55.000 0.00 0.00 0.00 3.55
2549 9071 1.002250 CGAGCACGTACACTGGACAC 61.002 60.000 0.00 0.00 34.56 3.67
2550 9072 1.284715 CGAGCACGTACACTGGACA 59.715 57.895 0.00 0.00 34.56 4.02
2551 9073 1.443872 CCGAGCACGTACACTGGAC 60.444 63.158 2.18 0.00 37.88 4.02
2552 9074 2.959372 CCGAGCACGTACACTGGA 59.041 61.111 2.18 0.00 37.88 3.86
2553 9075 2.809601 GCCGAGCACGTACACTGG 60.810 66.667 2.18 0.00 37.88 4.00
2554 9076 2.809601 GGCCGAGCACGTACACTG 60.810 66.667 2.18 0.00 37.88 3.66
2555 9077 2.167398 AATGGCCGAGCACGTACACT 62.167 55.000 2.18 0.00 37.88 3.55
2556 9078 1.740296 AATGGCCGAGCACGTACAC 60.740 57.895 2.18 0.00 37.88 2.90
2557 9079 1.739929 CAATGGCCGAGCACGTACA 60.740 57.895 2.18 1.27 37.88 2.90
2558 9080 2.461110 CCAATGGCCGAGCACGTAC 61.461 63.158 2.18 0.00 37.88 3.67
2559 9081 2.125310 CCAATGGCCGAGCACGTA 60.125 61.111 2.18 0.00 37.88 3.57
2560 9082 3.958147 CTCCAATGGCCGAGCACGT 62.958 63.158 2.18 0.00 37.88 4.49
2561 9083 2.930385 ATCTCCAATGGCCGAGCACG 62.930 60.000 0.00 0.00 39.43 5.34
2562 9084 0.106708 TATCTCCAATGGCCGAGCAC 59.893 55.000 0.00 0.00 0.00 4.40
2563 9085 0.106708 GTATCTCCAATGGCCGAGCA 59.893 55.000 0.00 0.00 0.00 4.26
2564 9086 0.106708 TGTATCTCCAATGGCCGAGC 59.893 55.000 0.00 0.00 0.00 5.03
2565 9087 2.037641 TCATGTATCTCCAATGGCCGAG 59.962 50.000 0.00 0.00 0.00 4.63
2566 9088 2.046292 TCATGTATCTCCAATGGCCGA 58.954 47.619 0.00 0.00 0.00 5.54
2567 9089 2.549064 TCATGTATCTCCAATGGCCG 57.451 50.000 0.00 0.00 0.00 6.13
2568 9090 5.426689 TCTATCATGTATCTCCAATGGCC 57.573 43.478 0.00 0.00 0.00 5.36
2569 9091 7.609146 TGAAATCTATCATGTATCTCCAATGGC 59.391 37.037 0.00 0.00 0.00 4.40
2570 9092 8.944029 GTGAAATCTATCATGTATCTCCAATGG 58.056 37.037 0.00 0.00 0.00 3.16
2571 9093 9.722184 AGTGAAATCTATCATGTATCTCCAATG 57.278 33.333 0.00 0.00 0.00 2.82
2572 9094 9.941325 GAGTGAAATCTATCATGTATCTCCAAT 57.059 33.333 0.00 0.00 0.00 3.16
2573 9095 9.152327 AGAGTGAAATCTATCATGTATCTCCAA 57.848 33.333 0.00 0.00 0.00 3.53
2574 9096 8.718158 AGAGTGAAATCTATCATGTATCTCCA 57.282 34.615 0.00 0.00 0.00 3.86
2581 9103 9.703892 GCATACTTAGAGTGAAATCTATCATGT 57.296 33.333 0.00 0.00 31.96 3.21
2582 9104 9.702494 TGCATACTTAGAGTGAAATCTATCATG 57.298 33.333 0.00 0.00 31.96 3.07
2584 9106 9.702494 CATGCATACTTAGAGTGAAATCTATCA 57.298 33.333 0.00 0.00 31.96 2.15
2585 9107 9.703892 ACATGCATACTTAGAGTGAAATCTATC 57.296 33.333 0.00 0.00 31.96 2.08
2588 9110 9.539825 CTAACATGCATACTTAGAGTGAAATCT 57.460 33.333 14.30 0.00 0.00 2.40
2589 9111 8.279103 GCTAACATGCATACTTAGAGTGAAATC 58.721 37.037 20.26 3.91 0.00 2.17
2590 9112 7.989741 AGCTAACATGCATACTTAGAGTGAAAT 59.010 33.333 20.26 0.00 34.99 2.17
2591 9113 7.331026 AGCTAACATGCATACTTAGAGTGAAA 58.669 34.615 20.26 0.00 34.99 2.69
2592 9114 6.878317 AGCTAACATGCATACTTAGAGTGAA 58.122 36.000 20.26 0.00 34.99 3.18
2593 9115 6.471233 AGCTAACATGCATACTTAGAGTGA 57.529 37.500 20.26 0.00 34.99 3.41
2594 9116 8.648557 TTAAGCTAACATGCATACTTAGAGTG 57.351 34.615 20.26 2.74 34.99 3.51
2595 9117 8.696374 TCTTAAGCTAACATGCATACTTAGAGT 58.304 33.333 20.26 12.35 34.99 3.24
2602 9124 5.239306 TGGCATCTTAAGCTAACATGCATAC 59.761 40.000 21.09 9.65 40.44 2.39
2607 9129 4.877823 TGAGTGGCATCTTAAGCTAACATG 59.122 41.667 0.00 0.00 0.00 3.21
2611 9133 6.658816 TGATTTTGAGTGGCATCTTAAGCTAA 59.341 34.615 0.00 0.00 0.00 3.09


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

AutoCloner maintained by Alex Coulton.