Multiple sequence alignment - TraesCS4B01G012200

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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 TraesCS4B01G012200 chr4B 100.000 3062 0 0 1 3062 7832784 7829723 0.000000e+00 5655.0
1 TraesCS4B01G012200 chr4D 90.845 1409 56 32 671 2067 4800576 4799229 0.000000e+00 1820.0
2 TraesCS4B01G012200 chr4D 84.254 489 25 15 2433 2891 4798895 4798429 2.180000e-116 429.0
3 TraesCS4B01G012200 chr4A 90.210 1430 70 27 674 2071 598732258 598730867 0.000000e+00 1801.0
4 TraesCS4B01G012200 chr4A 86.553 528 31 19 2487 2981 598730549 598730029 2.080000e-151 545.0
5 TraesCS4B01G012200 chr4A 84.146 82 2 5 2314 2384 598730657 598730576 5.480000e-08 69.4
6 TraesCS4B01G012200 chr6B 99.403 670 4 0 2 671 85717192 85716523 0.000000e+00 1216.0
7 TraesCS4B01G012200 chr6B 95.010 501 22 3 1561 2061 134669882 134670379 0.000000e+00 784.0
8 TraesCS4B01G012200 chr3A 99.403 670 4 0 2 671 739333801 739333132 0.000000e+00 1216.0
9 TraesCS4B01G012200 chr3A 99.254 670 4 1 2 670 724106944 724107613 0.000000e+00 1208.0
10 TraesCS4B01G012200 chr6A 99.402 669 4 0 2 670 465322755 465322087 0.000000e+00 1214.0
11 TraesCS4B01G012200 chr3B 99.402 669 4 0 2 670 72184367 72185035 0.000000e+00 1214.0
12 TraesCS4B01G012200 chr2A 99.402 669 4 0 2 670 655885142 655885810 0.000000e+00 1214.0
13 TraesCS4B01G012200 chr5A 99.254 670 5 0 2 671 342345854 342345185 0.000000e+00 1210.0
14 TraesCS4B01G012200 chrUn 99.253 669 5 0 2 670 77520532 77521200 0.000000e+00 1208.0
15 TraesCS4B01G012200 chr2B 99.253 669 5 0 2 670 31447457 31446789 0.000000e+00 1208.0


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 TraesCS4B01G012200 chr4B 7829723 7832784 3061 True 5655.000000 5655 100.000000 1 3062 1 chr4B.!!$R1 3061
1 TraesCS4B01G012200 chr4D 4798429 4800576 2147 True 1124.500000 1820 87.549500 671 2891 2 chr4D.!!$R1 2220
2 TraesCS4B01G012200 chr4A 598730029 598732258 2229 True 805.133333 1801 86.969667 674 2981 3 chr4A.!!$R1 2307
3 TraesCS4B01G012200 chr6B 85716523 85717192 669 True 1216.000000 1216 99.403000 2 671 1 chr6B.!!$R1 669
4 TraesCS4B01G012200 chr3A 739333132 739333801 669 True 1216.000000 1216 99.403000 2 671 1 chr3A.!!$R1 669
5 TraesCS4B01G012200 chr3A 724106944 724107613 669 False 1208.000000 1208 99.254000 2 670 1 chr3A.!!$F1 668
6 TraesCS4B01G012200 chr6A 465322087 465322755 668 True 1214.000000 1214 99.402000 2 670 1 chr6A.!!$R1 668
7 TraesCS4B01G012200 chr3B 72184367 72185035 668 False 1214.000000 1214 99.402000 2 670 1 chr3B.!!$F1 668
8 TraesCS4B01G012200 chr2A 655885142 655885810 668 False 1214.000000 1214 99.402000 2 670 1 chr2A.!!$F1 668
9 TraesCS4B01G012200 chr5A 342345185 342345854 669 True 1210.000000 1210 99.254000 2 671 1 chr5A.!!$R1 669
10 TraesCS4B01G012200 chrUn 77520532 77521200 668 False 1208.000000 1208 99.253000 2 670 1 chrUn.!!$F1 668
11 TraesCS4B01G012200 chr2B 31446789 31447457 668 True 1208.000000 1208 99.253000 2 670 1 chr2B.!!$R1 668

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
763 771 0.245539 AAATTCCCTCGTTCGCTCGA 59.754 50.0 2.34 2.34 38.19 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2431 2529 0.036732 TCTTTCTCGGCCAAGCACAT 59.963 50.0 2.24 0.0 0.0 3.21 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
245 246 5.357742 TGCTACTGCAGAGATTATTTGGA 57.642 39.130 23.35 0.00 45.31 3.53
393 394 3.880047 TGACTATCACTTTGTACGGGG 57.120 47.619 0.00 0.00 0.00 5.73
650 652 2.197324 GGGTTGTGCTGGTTCCCA 59.803 61.111 0.00 0.00 38.15 4.37
716 719 3.818210 AGAGATCATGGAGCAGTACGTAG 59.182 47.826 0.00 0.00 0.00 3.51
718 721 4.715713 AGATCATGGAGCAGTACGTAGTA 58.284 43.478 1.81 0.00 45.11 1.82
721 724 5.027293 TCATGGAGCAGTACGTAGTAGTA 57.973 43.478 1.81 0.00 46.11 1.82
761 769 1.007580 GGAAATTCCCTCGTTCGCTC 58.992 55.000 0.00 0.00 0.00 5.03
763 771 0.245539 AAATTCCCTCGTTCGCTCGA 59.754 50.000 2.34 2.34 38.19 4.04
791 799 5.909477 TCTAATCAATAAACATCGGACCGT 58.091 37.500 14.79 0.00 0.00 4.83
889 899 1.580815 GCTACGCGTACTACTCTCCT 58.419 55.000 16.41 0.00 0.00 3.69
890 900 2.748605 GCTACGCGTACTACTCTCCTA 58.251 52.381 16.41 0.00 0.00 2.94
891 901 3.126831 GCTACGCGTACTACTCTCCTAA 58.873 50.000 16.41 0.00 0.00 2.69
892 902 3.745458 GCTACGCGTACTACTCTCCTAAT 59.255 47.826 16.41 0.00 0.00 1.73
893 903 4.143137 GCTACGCGTACTACTCTCCTAATC 60.143 50.000 16.41 0.00 0.00 1.75
894 904 3.137533 ACGCGTACTACTCTCCTAATCC 58.862 50.000 11.67 0.00 0.00 3.01
895 905 3.181456 ACGCGTACTACTCTCCTAATCCT 60.181 47.826 11.67 0.00 0.00 3.24
896 906 4.039730 ACGCGTACTACTCTCCTAATCCTA 59.960 45.833 11.67 0.00 0.00 2.94
897 907 4.993584 CGCGTACTACTCTCCTAATCCTAA 59.006 45.833 0.00 0.00 0.00 2.69
898 908 5.642919 CGCGTACTACTCTCCTAATCCTAAT 59.357 44.000 0.00 0.00 0.00 1.73
899 909 6.183360 CGCGTACTACTCTCCTAATCCTAATC 60.183 46.154 0.00 0.00 0.00 1.75
900 910 6.093909 GCGTACTACTCTCCTAATCCTAATCC 59.906 46.154 0.00 0.00 0.00 3.01
901 911 7.396418 CGTACTACTCTCCTAATCCTAATCCT 58.604 42.308 0.00 0.00 0.00 3.24
902 912 8.538701 CGTACTACTCTCCTAATCCTAATCCTA 58.461 40.741 0.00 0.00 0.00 2.94
903 913 9.895138 GTACTACTCTCCTAATCCTAATCCTAG 57.105 40.741 0.00 0.00 0.00 3.02
904 914 7.407729 ACTACTCTCCTAATCCTAATCCTAGC 58.592 42.308 0.00 0.00 0.00 3.42
934 944 0.797249 CGGTTGACGGTCGTGAGATC 60.797 60.000 0.00 0.00 45.19 2.75
974 993 2.781595 TTCGCCCTCTTCTTGCCGTC 62.782 60.000 0.00 0.00 0.00 4.79
975 994 2.665603 GCCCTCTTCTTGCCGTCT 59.334 61.111 0.00 0.00 0.00 4.18
987 1006 2.103143 CCGTCTGCGAGTGCTAGG 59.897 66.667 0.00 0.00 43.34 3.02
988 1007 2.701780 CCGTCTGCGAGTGCTAGGT 61.702 63.158 0.00 0.00 43.34 3.08
993 1012 1.934220 CTGCGAGTGCTAGGTTCCGA 61.934 60.000 0.00 0.00 43.34 4.55
1257 1279 2.182030 GTCGAGGAAGTCCAGGCG 59.818 66.667 0.00 0.89 38.89 5.52
1258 1280 2.035155 TCGAGGAAGTCCAGGCGA 59.965 61.111 0.00 3.28 38.89 5.54
1279 1307 2.030562 CCTCCACAAAGCCGACGT 59.969 61.111 0.00 0.00 0.00 4.34
1285 1313 3.419759 CAAAGCCGACGTTCCCCG 61.420 66.667 0.00 0.00 44.03 5.73
1306 1334 4.899239 CATCTGCGGCGGGGACTC 62.899 72.222 9.78 0.00 0.00 3.36
2085 2131 4.610714 GCCCCGCCCGAGAGATTC 62.611 72.222 0.00 0.00 0.00 2.52
2087 2133 2.435693 CCCCGCCCGAGAGATTCTT 61.436 63.158 0.00 0.00 0.00 2.52
2089 2135 1.068250 CCGCCCGAGAGATTCTTCC 59.932 63.158 0.00 0.00 0.00 3.46
2090 2136 1.299468 CGCCCGAGAGATTCTTCCG 60.299 63.158 0.00 0.00 0.00 4.30
2091 2137 1.817209 GCCCGAGAGATTCTTCCGT 59.183 57.895 7.53 0.00 0.00 4.69
2093 2139 0.386113 CCCGAGAGATTCTTCCGTCC 59.614 60.000 7.53 0.00 0.00 4.79
2094 2140 0.386113 CCGAGAGATTCTTCCGTCCC 59.614 60.000 7.53 0.00 0.00 4.46
2096 2142 1.202313 CGAGAGATTCTTCCGTCCCAC 60.202 57.143 0.00 0.00 0.00 4.61
2100 2146 1.550976 AGATTCTTCCGTCCCACTGTC 59.449 52.381 0.00 0.00 0.00 3.51
2108 2154 2.756760 TCCGTCCCACTGTCATTACTAC 59.243 50.000 0.00 0.00 0.00 2.73
2110 2156 2.494471 CGTCCCACTGTCATTACTACCA 59.506 50.000 0.00 0.00 0.00 3.25
2111 2157 3.675228 CGTCCCACTGTCATTACTACCAC 60.675 52.174 0.00 0.00 0.00 4.16
2112 2158 2.835764 TCCCACTGTCATTACTACCACC 59.164 50.000 0.00 0.00 0.00 4.61
2113 2159 2.838202 CCCACTGTCATTACTACCACCT 59.162 50.000 0.00 0.00 0.00 4.00
2114 2160 4.028131 CCCACTGTCATTACTACCACCTA 58.972 47.826 0.00 0.00 0.00 3.08
2115 2161 4.099573 CCCACTGTCATTACTACCACCTAG 59.900 50.000 0.00 0.00 0.00 3.02
2116 2162 4.441634 CCACTGTCATTACTACCACCTAGC 60.442 50.000 0.00 0.00 0.00 3.42
2117 2163 3.705072 ACTGTCATTACTACCACCTAGCC 59.295 47.826 0.00 0.00 0.00 3.93
2118 2164 2.691526 TGTCATTACTACCACCTAGCCG 59.308 50.000 0.00 0.00 0.00 5.52
2121 2167 0.819582 TTACTACCACCTAGCCGTGC 59.180 55.000 0.00 0.00 32.10 5.34
2122 2168 1.039233 TACTACCACCTAGCCGTGCC 61.039 60.000 0.00 0.00 32.10 5.01
2123 2169 3.078836 TACCACCTAGCCGTGCCC 61.079 66.667 0.00 0.00 32.10 5.36
2141 2187 2.029290 GCCCTGTATGTATGTACTCCGG 60.029 54.545 0.00 0.00 0.00 5.14
2144 2190 1.610038 TGTATGTATGTACTCCGGCCG 59.390 52.381 21.04 21.04 0.00 6.13
2145 2191 1.068055 GTATGTATGTACTCCGGCCGG 60.068 57.143 39.13 39.13 0.00 6.13
2146 2192 0.757935 ATGTATGTACTCCGGCCGGT 60.758 55.000 41.57 27.50 36.47 5.28
2147 2193 1.361632 GTATGTACTCCGGCCGGTC 59.638 63.158 41.57 28.26 36.47 4.79
2177 2223 1.957877 GATTCTTCTCCCTCCGTCGAT 59.042 52.381 0.00 0.00 0.00 3.59
2179 2225 0.814410 TCTTCTCCCTCCGTCGATCG 60.814 60.000 9.36 9.36 39.52 3.69
2180 2226 1.077930 TTCTCCCTCCGTCGATCGT 60.078 57.895 15.94 0.00 37.94 3.73
2181 2227 0.178767 TTCTCCCTCCGTCGATCGTA 59.821 55.000 15.94 0.00 37.94 3.43
2182 2228 0.249784 TCTCCCTCCGTCGATCGTAG 60.250 60.000 15.94 10.10 37.94 3.51
2183 2229 0.532417 CTCCCTCCGTCGATCGTAGT 60.532 60.000 15.94 0.00 37.94 2.73
2189 2235 3.349176 CTCCGTCGATCGTAGTACAAAC 58.651 50.000 15.94 2.00 37.94 2.93
2190 2236 2.741517 TCCGTCGATCGTAGTACAAACA 59.258 45.455 15.94 0.00 37.94 2.83
2191 2237 3.096461 CCGTCGATCGTAGTACAAACAG 58.904 50.000 15.94 0.50 37.94 3.16
2193 2239 4.020518 CGTCGATCGTAGTACAAACAGAG 58.979 47.826 15.94 0.00 34.52 3.35
2194 2240 3.784994 GTCGATCGTAGTACAAACAGAGC 59.215 47.826 15.94 0.00 0.00 4.09
2199 2245 3.251729 TCGTAGTACAAACAGAGCGAAGT 59.748 43.478 0.38 0.00 0.00 3.01
2201 2247 3.728076 AGTACAAACAGAGCGAAGTCA 57.272 42.857 0.00 0.00 0.00 3.41
2204 2250 0.508641 CAAACAGAGCGAAGTCACCG 59.491 55.000 0.00 0.00 0.00 4.94
2245 2312 2.537401 CCTTTCCCGACGTTGATAGTC 58.463 52.381 3.74 0.00 35.41 2.59
2246 2313 2.537401 CTTTCCCGACGTTGATAGTCC 58.463 52.381 3.74 0.00 35.33 3.85
2247 2314 0.452987 TTCCCGACGTTGATAGTCCG 59.547 55.000 3.74 0.00 35.33 4.79
2248 2315 0.677731 TCCCGACGTTGATAGTCCGT 60.678 55.000 3.74 0.00 37.56 4.69
2251 2318 1.542544 CGACGTTGATAGTCCGTTCC 58.457 55.000 0.00 0.00 34.51 3.62
2254 2321 1.131883 ACGTTGATAGTCCGTTCCTCG 59.868 52.381 0.00 0.00 39.52 4.63
2308 2375 4.545610 GAGCCAATCAAATCAACAACGAA 58.454 39.130 0.00 0.00 0.00 3.85
2310 2377 3.119463 GCCAATCAAATCAACAACGAACG 59.881 43.478 0.00 0.00 0.00 3.95
2347 2430 2.456577 TCGACAAGGAGATCACCATCA 58.543 47.619 12.05 0.00 0.00 3.07
2384 2482 3.129287 CAGCTTCCAAATGGCGTAGATTT 59.871 43.478 0.00 0.00 34.44 2.17
2385 2483 4.335315 CAGCTTCCAAATGGCGTAGATTTA 59.665 41.667 0.00 0.00 34.44 1.40
2386 2484 4.576463 AGCTTCCAAATGGCGTAGATTTAG 59.424 41.667 0.00 0.00 34.44 1.85
2387 2485 4.789802 GCTTCCAAATGGCGTAGATTTAGC 60.790 45.833 0.00 0.00 34.44 3.09
2388 2486 2.869801 TCCAAATGGCGTAGATTTAGCG 59.130 45.455 0.00 0.00 34.44 4.26
2389 2487 2.612212 CCAAATGGCGTAGATTTAGCGT 59.388 45.455 0.00 0.00 0.00 5.07
2390 2488 3.303132 CCAAATGGCGTAGATTTAGCGTC 60.303 47.826 0.00 0.00 0.00 5.19
2391 2489 1.767289 ATGGCGTAGATTTAGCGTCG 58.233 50.000 0.00 0.00 32.43 5.12
2392 2490 0.734309 TGGCGTAGATTTAGCGTCGA 59.266 50.000 0.00 0.00 32.43 4.20
2393 2491 1.335810 TGGCGTAGATTTAGCGTCGAT 59.664 47.619 0.00 0.00 32.43 3.59
2394 2492 1.977412 GGCGTAGATTTAGCGTCGATC 59.023 52.381 0.00 0.00 0.00 3.69
2395 2493 1.638040 GCGTAGATTTAGCGTCGATCG 59.362 52.381 9.36 9.36 43.12 3.69
2396 2494 2.661169 GCGTAGATTTAGCGTCGATCGA 60.661 50.000 15.15 15.15 42.86 3.59
2397 2495 3.734031 CGTAGATTTAGCGTCGATCGAT 58.266 45.455 22.50 8.10 42.86 3.59
2398 2496 3.774579 CGTAGATTTAGCGTCGATCGATC 59.225 47.826 22.50 15.68 42.86 3.69
2399 2497 4.434461 CGTAGATTTAGCGTCGATCGATCT 60.434 45.833 22.50 21.64 42.86 2.75
2400 2498 4.491234 AGATTTAGCGTCGATCGATCTT 57.509 40.909 22.50 11.77 42.86 2.40
2401 2499 4.468643 AGATTTAGCGTCGATCGATCTTC 58.531 43.478 22.50 14.62 42.86 2.87
2402 2500 3.965292 TTTAGCGTCGATCGATCTTCT 57.035 42.857 22.50 16.68 42.86 2.85
2403 2501 3.523142 TTAGCGTCGATCGATCTTCTC 57.477 47.619 22.50 6.07 42.86 2.87
2404 2502 1.300481 AGCGTCGATCGATCTTCTCA 58.700 50.000 22.50 0.00 42.86 3.27
2405 2503 1.262950 AGCGTCGATCGATCTTCTCAG 59.737 52.381 22.50 6.62 42.86 3.35
2406 2504 1.261885 GCGTCGATCGATCTTCTCAGA 59.738 52.381 22.50 8.88 42.86 3.27
2407 2505 2.095969 GCGTCGATCGATCTTCTCAGAT 60.096 50.000 22.50 0.00 43.03 2.90
2408 2506 3.478063 CGTCGATCGATCTTCTCAGATG 58.522 50.000 22.50 12.47 40.14 2.90
2409 2507 3.185391 CGTCGATCGATCTTCTCAGATGA 59.815 47.826 22.50 6.78 40.14 2.92
2410 2508 4.463209 GTCGATCGATCTTCTCAGATGAC 58.537 47.826 22.50 14.41 40.14 3.06
2411 2509 4.024472 GTCGATCGATCTTCTCAGATGACA 60.024 45.833 22.50 0.00 40.14 3.58
2412 2510 4.213059 TCGATCGATCTTCTCAGATGACAG 59.787 45.833 22.43 2.68 40.14 3.51
2413 2511 3.706802 TCGATCTTCTCAGATGACAGC 57.293 47.619 0.00 0.00 40.14 4.40
2414 2512 3.286353 TCGATCTTCTCAGATGACAGCT 58.714 45.455 0.00 0.00 40.14 4.24
2415 2513 3.314913 TCGATCTTCTCAGATGACAGCTC 59.685 47.826 0.00 0.00 40.14 4.09
2416 2514 3.550639 CGATCTTCTCAGATGACAGCTCC 60.551 52.174 0.00 0.00 40.14 4.70
2417 2515 2.106566 TCTTCTCAGATGACAGCTCCC 58.893 52.381 0.00 0.00 0.00 4.30
2418 2516 2.109774 CTTCTCAGATGACAGCTCCCT 58.890 52.381 0.00 0.00 0.00 4.20
2419 2517 3.053320 TCTTCTCAGATGACAGCTCCCTA 60.053 47.826 0.00 0.00 0.00 3.53
2420 2518 3.388552 TCTCAGATGACAGCTCCCTAA 57.611 47.619 0.00 0.00 0.00 2.69
2421 2519 3.295093 TCTCAGATGACAGCTCCCTAAG 58.705 50.000 0.00 0.00 0.00 2.18
2444 2542 2.361483 ATGCATGTGCTTGGCCGA 60.361 55.556 0.00 0.00 42.66 5.54
2453 2551 1.746991 GCTTGGCCGAGAAAGAGGG 60.747 63.158 25.25 0.00 0.00 4.30
2474 2572 3.823330 GCTGCCTGCCTGCATCAC 61.823 66.667 0.00 0.00 41.16 3.06
2475 2573 3.138798 CTGCCTGCCTGCATCACC 61.139 66.667 0.00 0.00 41.16 4.02
2478 2576 4.415150 CCTGCCTGCATCACCGGT 62.415 66.667 0.00 0.00 0.00 5.28
2479 2577 2.360350 CTGCCTGCATCACCGGTT 60.360 61.111 2.97 0.00 0.00 4.44
2481 2579 2.672996 GCCTGCATCACCGGTTGT 60.673 61.111 2.97 0.00 0.00 3.32
2482 2580 2.981560 GCCTGCATCACCGGTTGTG 61.982 63.158 2.97 8.14 46.88 3.33
2483 2581 2.334946 CCTGCATCACCGGTTGTGG 61.335 63.158 2.97 5.21 45.48 4.17
2484 2582 1.600636 CTGCATCACCGGTTGTGGT 60.601 57.895 2.97 0.00 45.48 4.16
2485 2583 1.152860 TGCATCACCGGTTGTGGTT 60.153 52.632 2.97 0.00 45.48 3.67
2576 2680 4.406173 CGGTCTCACGCTCACGCT 62.406 66.667 0.00 0.00 45.53 5.07
2577 2681 2.505118 GGTCTCACGCTCACGCTC 60.505 66.667 0.00 0.00 45.53 5.03
2578 2682 2.255554 GTCTCACGCTCACGCTCA 59.744 61.111 0.00 0.00 45.53 4.26
2579 2683 2.083522 GTCTCACGCTCACGCTCAC 61.084 63.158 0.00 0.00 45.53 3.51
2580 2684 3.168604 CTCACGCTCACGCTCACG 61.169 66.667 0.00 0.00 45.53 4.35
2707 2823 0.882042 CATGCAGCTACCGGTGGATC 60.882 60.000 23.78 10.22 44.81 3.36
2869 3014 3.062466 CCACGTCGGGCTCTGAGA 61.062 66.667 9.28 0.00 0.00 3.27
2929 3076 2.983192 TCAAACCCTTCATACTGGTCCA 59.017 45.455 0.00 0.00 0.00 4.02
2947 3094 2.761208 TCCAAATGTTCGGGTTGTTTGT 59.239 40.909 0.00 0.00 0.00 2.83
2971 3118 1.696063 CCTCAAACCCAGCCCATATG 58.304 55.000 0.00 0.00 0.00 1.78
2976 3123 0.106519 AACCCAGCCCATATGTCTGC 60.107 55.000 13.73 8.33 0.00 4.26
2981 3128 1.893808 GCCCATATGTCTGCCACCG 60.894 63.158 1.24 0.00 0.00 4.94
2982 3129 1.526887 CCCATATGTCTGCCACCGT 59.473 57.895 1.24 0.00 0.00 4.83
2983 3130 0.107214 CCCATATGTCTGCCACCGTT 60.107 55.000 1.24 0.00 0.00 4.44
2984 3131 1.681780 CCCATATGTCTGCCACCGTTT 60.682 52.381 1.24 0.00 0.00 3.60
2985 3132 1.401552 CCATATGTCTGCCACCGTTTG 59.598 52.381 1.24 0.00 0.00 2.93
2986 3133 2.083774 CATATGTCTGCCACCGTTTGT 58.916 47.619 0.00 0.00 0.00 2.83
2987 3134 1.803334 TATGTCTGCCACCGTTTGTC 58.197 50.000 0.00 0.00 0.00 3.18
2988 3135 0.179032 ATGTCTGCCACCGTTTGTCA 60.179 50.000 0.00 0.00 0.00 3.58
2989 3136 1.092921 TGTCTGCCACCGTTTGTCAC 61.093 55.000 0.00 0.00 0.00 3.67
2998 3145 3.142796 CGTTTGTCACGCCTCAAAC 57.857 52.632 15.20 15.20 43.37 2.93
2999 3146 0.316689 CGTTTGTCACGCCTCAAACC 60.317 55.000 17.66 6.74 45.77 3.27
3000 3147 0.030235 GTTTGTCACGCCTCAAACCC 59.970 55.000 14.62 0.00 44.03 4.11
3001 3148 0.394488 TTTGTCACGCCTCAAACCCA 60.394 50.000 0.00 0.00 0.00 4.51
3002 3149 0.394488 TTGTCACGCCTCAAACCCAA 60.394 50.000 0.00 0.00 0.00 4.12
3003 3150 1.098712 TGTCACGCCTCAAACCCAAC 61.099 55.000 0.00 0.00 0.00 3.77
3004 3151 1.527380 TCACGCCTCAAACCCAACC 60.527 57.895 0.00 0.00 0.00 3.77
3005 3152 2.203437 ACGCCTCAAACCCAACCC 60.203 61.111 0.00 0.00 0.00 4.11
3006 3153 2.203422 CGCCTCAAACCCAACCCA 60.203 61.111 0.00 0.00 0.00 4.51
3007 3154 1.606313 CGCCTCAAACCCAACCCAT 60.606 57.895 0.00 0.00 0.00 4.00
3008 3155 0.322997 CGCCTCAAACCCAACCCATA 60.323 55.000 0.00 0.00 0.00 2.74
3009 3156 1.684869 CGCCTCAAACCCAACCCATAT 60.685 52.381 0.00 0.00 0.00 1.78
3010 3157 2.422235 CGCCTCAAACCCAACCCATATA 60.422 50.000 0.00 0.00 0.00 0.86
3011 3158 3.750599 CGCCTCAAACCCAACCCATATAT 60.751 47.826 0.00 0.00 0.00 0.86
3012 3159 3.826729 GCCTCAAACCCAACCCATATATC 59.173 47.826 0.00 0.00 0.00 1.63
3013 3160 4.447762 GCCTCAAACCCAACCCATATATCT 60.448 45.833 0.00 0.00 0.00 1.98
3014 3161 5.072741 CCTCAAACCCAACCCATATATCTG 58.927 45.833 0.00 0.00 0.00 2.90
3015 3162 5.060427 TCAAACCCAACCCATATATCTGG 57.940 43.478 0.03 0.03 35.95 3.86
3016 3163 3.525800 AACCCAACCCATATATCTGGC 57.474 47.619 1.52 0.00 34.77 4.85
3017 3164 2.427872 ACCCAACCCATATATCTGGCA 58.572 47.619 1.52 0.00 34.77 4.92
3018 3165 2.108250 ACCCAACCCATATATCTGGCAC 59.892 50.000 1.52 0.00 34.77 5.01
3019 3166 2.555227 CCCAACCCATATATCTGGCACC 60.555 54.545 1.52 0.00 34.77 5.01
3020 3167 2.108075 CCAACCCATATATCTGGCACCA 59.892 50.000 1.52 0.00 34.77 4.17
3021 3168 3.149196 CAACCCATATATCTGGCACCAC 58.851 50.000 1.52 0.00 34.77 4.16
3022 3169 1.347707 ACCCATATATCTGGCACCACG 59.652 52.381 1.52 0.00 34.77 4.94
3023 3170 1.623311 CCCATATATCTGGCACCACGA 59.377 52.381 1.52 0.00 34.77 4.35
3024 3171 2.612972 CCCATATATCTGGCACCACGAC 60.613 54.545 1.52 0.00 34.77 4.34
3025 3172 2.328473 CATATATCTGGCACCACGACG 58.672 52.381 0.00 0.00 0.00 5.12
3026 3173 1.682740 TATATCTGGCACCACGACGA 58.317 50.000 0.00 0.00 0.00 4.20
3027 3174 1.040646 ATATCTGGCACCACGACGAT 58.959 50.000 0.00 0.00 0.00 3.73
3028 3175 0.102300 TATCTGGCACCACGACGATG 59.898 55.000 0.00 0.00 0.00 3.84
3029 3176 1.604147 ATCTGGCACCACGACGATGA 61.604 55.000 0.00 0.00 0.00 2.92
3030 3177 2.048597 TGGCACCACGACGATGAC 60.049 61.111 0.00 0.00 0.00 3.06
3031 3178 3.179265 GGCACCACGACGATGACG 61.179 66.667 0.00 0.00 45.75 4.35
3041 3188 2.882876 CGATGACGTCCCTTCGGT 59.117 61.111 14.12 0.00 34.94 4.69
3042 3189 1.226603 CGATGACGTCCCTTCGGTC 60.227 63.158 14.12 0.00 34.94 4.79
3043 3190 1.226603 GATGACGTCCCTTCGGTCG 60.227 63.158 14.12 0.00 44.95 4.79
3054 3201 3.490759 TCGGTCGTCGACGCCTAC 61.491 66.667 32.91 26.15 43.74 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
393 394 3.318017 AGTTGCTTCTGTGATACACGTC 58.682 45.455 0.00 0.00 37.14 4.34
718 721 9.197306 TCCATGACATTAACATAGTGTAGTACT 57.803 33.333 0.00 0.00 43.56 2.73
719 722 9.811995 TTCCATGACATTAACATAGTGTAGTAC 57.188 33.333 0.00 0.00 0.00 2.73
721 724 9.905713 ATTTCCATGACATTAACATAGTGTAGT 57.094 29.630 0.00 0.00 0.00 2.73
761 769 6.401474 CCGATGTTTATTGATTAGAGGCATCG 60.401 42.308 13.82 13.82 46.93 3.84
763 771 6.428159 GTCCGATGTTTATTGATTAGAGGCAT 59.572 38.462 0.00 0.00 0.00 4.40
813 823 1.401552 GGCAATTTATGAGCACGAGCA 59.598 47.619 7.77 0.00 45.49 4.26
882 892 6.477901 AGCTAGGATTAGGATTAGGAGAGT 57.522 41.667 0.00 0.00 0.00 3.24
883 893 7.773690 GTCTAGCTAGGATTAGGATTAGGAGAG 59.226 44.444 20.58 0.00 0.00 3.20
884 894 7.581853 CGTCTAGCTAGGATTAGGATTAGGAGA 60.582 44.444 20.58 0.00 0.00 3.71
887 897 6.316890 GTCGTCTAGCTAGGATTAGGATTAGG 59.683 46.154 20.58 3.39 0.00 2.69
888 898 6.036300 CGTCGTCTAGCTAGGATTAGGATTAG 59.964 46.154 20.58 5.19 0.00 1.73
889 899 5.873712 CGTCGTCTAGCTAGGATTAGGATTA 59.126 44.000 20.58 0.00 0.00 1.75
890 900 4.696402 CGTCGTCTAGCTAGGATTAGGATT 59.304 45.833 20.58 0.00 0.00 3.01
891 901 4.020396 TCGTCGTCTAGCTAGGATTAGGAT 60.020 45.833 20.58 0.00 0.00 3.24
892 902 3.323115 TCGTCGTCTAGCTAGGATTAGGA 59.677 47.826 20.58 9.35 0.00 2.94
893 903 3.432933 GTCGTCGTCTAGCTAGGATTAGG 59.567 52.174 20.58 7.17 0.00 2.69
894 904 3.121611 CGTCGTCGTCTAGCTAGGATTAG 59.878 52.174 20.58 9.92 0.00 1.73
895 905 3.055591 CGTCGTCGTCTAGCTAGGATTA 58.944 50.000 20.58 0.00 0.00 1.75
896 906 1.865970 CGTCGTCGTCTAGCTAGGATT 59.134 52.381 20.58 0.00 0.00 3.01
897 907 1.500108 CGTCGTCGTCTAGCTAGGAT 58.500 55.000 20.58 0.00 0.00 3.24
898 908 0.529337 CCGTCGTCGTCTAGCTAGGA 60.529 60.000 20.58 8.20 35.01 2.94
899 909 0.809241 ACCGTCGTCGTCTAGCTAGG 60.809 60.000 20.58 5.81 35.01 3.02
900 910 1.005340 AACCGTCGTCGTCTAGCTAG 58.995 55.000 15.01 15.01 35.01 3.42
901 911 0.723414 CAACCGTCGTCGTCTAGCTA 59.277 55.000 0.71 0.00 35.01 3.32
902 912 0.952497 TCAACCGTCGTCGTCTAGCT 60.952 55.000 0.71 0.00 35.01 3.32
903 913 0.792356 GTCAACCGTCGTCGTCTAGC 60.792 60.000 0.71 0.00 35.01 3.42
904 914 0.517946 CGTCAACCGTCGTCGTCTAG 60.518 60.000 0.71 0.00 35.01 2.43
934 944 2.573369 TGCGTAGGTAGCTAGGAGAAG 58.427 52.381 22.27 0.00 35.28 2.85
974 993 1.517257 CGGAACCTAGCACTCGCAG 60.517 63.158 0.00 0.00 42.27 5.18
975 994 1.974875 TCGGAACCTAGCACTCGCA 60.975 57.895 0.00 0.00 42.27 5.10
987 1006 3.245315 CGCATCGTCGGTCGGAAC 61.245 66.667 0.00 0.00 40.32 3.62
988 1007 4.485834 CCGCATCGTCGGTCGGAA 62.486 66.667 12.97 0.00 44.23 4.30
1257 1279 2.335712 CGGCTTTGTGGAGGCCTTC 61.336 63.158 6.77 4.87 43.29 3.46
1258 1280 2.282462 CGGCTTTGTGGAGGCCTT 60.282 61.111 6.77 0.00 43.29 4.35
1279 1307 2.264480 CGCAGATGACACGGGGAA 59.736 61.111 0.00 0.00 0.00 3.97
1440 1468 3.916392 CTCCGACGTGTCCCAGTGC 62.916 68.421 0.00 0.00 0.00 4.40
2068 2114 4.610714 GAATCTCTCGGGCGGGGC 62.611 72.222 0.00 0.00 0.00 5.80
2069 2115 2.370647 GAAGAATCTCTCGGGCGGGG 62.371 65.000 0.00 0.00 0.00 5.73
2070 2116 1.068250 GAAGAATCTCTCGGGCGGG 59.932 63.158 0.00 0.00 0.00 6.13
2071 2117 1.068250 GGAAGAATCTCTCGGGCGG 59.932 63.158 0.00 0.00 0.00 6.13
2072 2118 1.299468 CGGAAGAATCTCTCGGGCG 60.299 63.158 0.00 0.00 0.00 6.13
2073 2119 0.249114 GACGGAAGAATCTCTCGGGC 60.249 60.000 9.30 1.64 0.00 6.13
2074 2120 0.386113 GGACGGAAGAATCTCTCGGG 59.614 60.000 9.30 0.00 0.00 5.14
2075 2121 0.386113 GGGACGGAAGAATCTCTCGG 59.614 60.000 9.30 4.94 0.00 4.63
2076 2122 1.103803 TGGGACGGAAGAATCTCTCG 58.896 55.000 4.19 4.19 0.00 4.04
2077 2123 2.104170 AGTGGGACGGAAGAATCTCTC 58.896 52.381 0.00 0.00 0.00 3.20
2078 2124 1.827969 CAGTGGGACGGAAGAATCTCT 59.172 52.381 0.00 0.00 0.00 3.10
2084 2130 1.348064 AATGACAGTGGGACGGAAGA 58.652 50.000 0.00 0.00 0.00 2.87
2085 2131 2.233922 AGTAATGACAGTGGGACGGAAG 59.766 50.000 0.00 0.00 0.00 3.46
2087 2133 1.933021 AGTAATGACAGTGGGACGGA 58.067 50.000 0.00 0.00 0.00 4.69
2089 2135 2.494471 TGGTAGTAATGACAGTGGGACG 59.506 50.000 0.00 0.00 0.00 4.79
2090 2136 3.369157 GGTGGTAGTAATGACAGTGGGAC 60.369 52.174 0.00 0.00 0.00 4.46
2091 2137 2.835764 GGTGGTAGTAATGACAGTGGGA 59.164 50.000 0.00 0.00 0.00 4.37
2093 2139 4.441634 GCTAGGTGGTAGTAATGACAGTGG 60.442 50.000 0.00 0.00 0.00 4.00
2094 2140 4.441634 GGCTAGGTGGTAGTAATGACAGTG 60.442 50.000 0.00 0.00 0.00 3.66
2096 2142 3.243434 CGGCTAGGTGGTAGTAATGACAG 60.243 52.174 0.00 0.00 0.00 3.51
2100 2146 2.802057 GCACGGCTAGGTGGTAGTAATG 60.802 54.545 1.94 0.00 38.36 1.90
2108 2154 4.473520 CAGGGCACGGCTAGGTGG 62.474 72.222 1.94 0.00 38.36 4.61
2110 2156 1.382695 ATACAGGGCACGGCTAGGT 60.383 57.895 0.00 0.00 0.00 3.08
2111 2157 1.069765 CATACAGGGCACGGCTAGG 59.930 63.158 0.00 0.00 0.00 3.02
2112 2158 1.037493 TACATACAGGGCACGGCTAG 58.963 55.000 0.00 0.00 0.00 3.42
2113 2159 1.343142 CATACATACAGGGCACGGCTA 59.657 52.381 0.00 0.00 0.00 3.93
2114 2160 0.106708 CATACATACAGGGCACGGCT 59.893 55.000 0.00 0.00 0.00 5.52
2115 2161 0.179056 ACATACATACAGGGCACGGC 60.179 55.000 0.00 0.00 0.00 5.68
2116 2162 2.364324 AGTACATACATACAGGGCACGG 59.636 50.000 0.00 0.00 0.00 4.94
2117 2163 3.552273 GGAGTACATACATACAGGGCACG 60.552 52.174 0.00 0.00 0.00 5.34
2118 2164 3.552273 CGGAGTACATACATACAGGGCAC 60.552 52.174 0.00 0.00 0.00 5.01
2121 2167 2.029290 GCCGGAGTACATACATACAGGG 60.029 54.545 5.05 0.00 0.00 4.45
2122 2168 2.029290 GGCCGGAGTACATACATACAGG 60.029 54.545 5.05 0.00 0.00 4.00
2123 2169 2.351447 CGGCCGGAGTACATACATACAG 60.351 54.545 20.10 0.00 0.00 2.74
2145 2191 4.814294 AGAATCACGGCGGGCGAC 62.814 66.667 31.03 14.59 0.00 5.19
2146 2192 4.077184 AAGAATCACGGCGGGCGA 62.077 61.111 31.03 9.61 0.00 5.54
2147 2193 3.564027 GAAGAATCACGGCGGGCG 61.564 66.667 23.00 23.00 0.00 6.13
2149 2195 1.521681 GGAGAAGAATCACGGCGGG 60.522 63.158 13.24 7.61 0.00 6.13
2151 2197 0.528684 GAGGGAGAAGAATCACGGCG 60.529 60.000 4.80 4.80 0.00 6.46
2152 2198 0.179070 GGAGGGAGAAGAATCACGGC 60.179 60.000 0.00 0.00 0.00 5.68
2154 2200 0.818296 ACGGAGGGAGAAGAATCACG 59.182 55.000 0.00 0.00 0.00 4.35
2155 2201 1.202313 CGACGGAGGGAGAAGAATCAC 60.202 57.143 0.00 0.00 0.00 3.06
2156 2202 1.103803 CGACGGAGGGAGAAGAATCA 58.896 55.000 0.00 0.00 0.00 2.57
2157 2203 1.390565 TCGACGGAGGGAGAAGAATC 58.609 55.000 0.00 0.00 0.00 2.52
2158 2204 1.957877 GATCGACGGAGGGAGAAGAAT 59.042 52.381 0.00 0.00 0.00 2.40
2159 2205 1.390565 GATCGACGGAGGGAGAAGAA 58.609 55.000 0.00 0.00 0.00 2.52
2160 2206 0.814410 CGATCGACGGAGGGAGAAGA 60.814 60.000 10.26 0.00 38.46 2.87
2161 2207 1.649815 CGATCGACGGAGGGAGAAG 59.350 63.158 10.26 0.00 38.46 2.85
2177 2223 3.251729 ACTTCGCTCTGTTTGTACTACGA 59.748 43.478 0.00 0.00 0.00 3.43
2179 2225 4.382160 GTGACTTCGCTCTGTTTGTACTAC 59.618 45.833 0.00 0.00 0.00 2.73
2180 2226 4.543692 GTGACTTCGCTCTGTTTGTACTA 58.456 43.478 0.00 0.00 0.00 1.82
2181 2227 3.381949 GTGACTTCGCTCTGTTTGTACT 58.618 45.455 0.00 0.00 0.00 2.73
2182 2228 2.475487 GGTGACTTCGCTCTGTTTGTAC 59.525 50.000 0.00 0.00 0.00 2.90
2183 2229 2.750948 GGTGACTTCGCTCTGTTTGTA 58.249 47.619 0.00 0.00 0.00 2.41
2189 2235 1.217882 AAAACGGTGACTTCGCTCTG 58.782 50.000 0.00 0.00 0.00 3.35
2190 2236 1.949465 AAAAACGGTGACTTCGCTCT 58.051 45.000 0.00 0.00 0.00 4.09
2215 2261 4.772687 GGGAAAGGGACGTCGGGC 62.773 72.222 9.92 0.00 0.00 6.13
2216 2262 4.446413 CGGGAAAGGGACGTCGGG 62.446 72.222 9.92 0.00 0.00 5.14
2247 2314 3.570926 TCGCCATATGATACGAGGAAC 57.429 47.619 3.65 0.00 0.00 3.62
2248 2315 4.801330 AATCGCCATATGATACGAGGAA 57.199 40.909 16.66 0.23 38.04 3.36
2251 2318 5.164233 AGTCAAATCGCCATATGATACGAG 58.836 41.667 16.66 7.45 38.04 4.18
2254 2321 6.204688 TCCAAAGTCAAATCGCCATATGATAC 59.795 38.462 3.65 0.00 0.00 2.24
2283 2350 4.488879 GTTGTTGATTTGATTGGCTCCTC 58.511 43.478 0.00 0.00 0.00 3.71
2285 2352 3.057596 TCGTTGTTGATTTGATTGGCTCC 60.058 43.478 0.00 0.00 0.00 4.70
2384 2482 2.476997 CTGAGAAGATCGATCGACGCTA 59.523 50.000 22.06 5.05 42.26 4.26
2385 2483 1.262950 CTGAGAAGATCGATCGACGCT 59.737 52.381 22.06 17.64 42.26 5.07
2386 2484 1.261885 TCTGAGAAGATCGATCGACGC 59.738 52.381 22.06 15.53 42.26 5.19
2387 2485 3.185391 TCATCTGAGAAGATCGATCGACG 59.815 47.826 22.06 2.86 44.09 5.12
2388 2486 4.024472 TGTCATCTGAGAAGATCGATCGAC 60.024 45.833 22.06 14.23 0.00 4.20
2389 2487 4.130118 TGTCATCTGAGAAGATCGATCGA 58.870 43.478 21.86 21.86 0.00 3.59
2390 2488 4.465921 CTGTCATCTGAGAAGATCGATCG 58.534 47.826 19.33 9.36 0.00 3.69
2391 2489 4.022935 AGCTGTCATCTGAGAAGATCGATC 60.023 45.833 17.91 17.91 0.00 3.69
2392 2490 3.890756 AGCTGTCATCTGAGAAGATCGAT 59.109 43.478 0.00 0.00 0.00 3.59
2393 2491 3.286353 AGCTGTCATCTGAGAAGATCGA 58.714 45.455 0.00 0.00 0.00 3.59
2394 2492 3.550639 GGAGCTGTCATCTGAGAAGATCG 60.551 52.174 0.00 0.00 29.77 3.69
2395 2493 3.243839 GGGAGCTGTCATCTGAGAAGATC 60.244 52.174 0.00 0.00 0.00 2.75
2396 2494 2.699846 GGGAGCTGTCATCTGAGAAGAT 59.300 50.000 0.00 0.00 0.00 2.40
2397 2495 2.106566 GGGAGCTGTCATCTGAGAAGA 58.893 52.381 0.00 0.00 0.00 2.87
2398 2496 2.109774 AGGGAGCTGTCATCTGAGAAG 58.890 52.381 0.00 0.00 0.00 2.85
2399 2497 2.244486 AGGGAGCTGTCATCTGAGAA 57.756 50.000 0.00 0.00 0.00 2.87
2400 2498 3.295093 CTTAGGGAGCTGTCATCTGAGA 58.705 50.000 0.00 0.00 0.00 3.27
2401 2499 3.731652 CTTAGGGAGCTGTCATCTGAG 57.268 52.381 0.00 0.00 0.00 3.35
2425 2523 2.510691 GGCCAAGCACATGCATGC 60.511 61.111 26.53 15.62 46.50 4.06
2426 2524 2.202690 CGGCCAAGCACATGCATG 60.203 61.111 25.09 25.09 45.16 4.06
2427 2525 2.361483 TCGGCCAAGCACATGCAT 60.361 55.556 2.24 0.00 45.16 3.96
2428 2526 3.057548 CTCGGCCAAGCACATGCA 61.058 61.111 2.24 0.00 45.16 3.96
2429 2527 1.865788 TTTCTCGGCCAAGCACATGC 61.866 55.000 2.24 0.00 42.49 4.06
2430 2528 0.169672 CTTTCTCGGCCAAGCACATG 59.830 55.000 2.24 0.00 0.00 3.21
2431 2529 0.036732 TCTTTCTCGGCCAAGCACAT 59.963 50.000 2.24 0.00 0.00 3.21
2436 2534 0.674895 CACCCTCTTTCTCGGCCAAG 60.675 60.000 2.24 0.00 0.00 3.61
2444 2542 2.759795 GCAGCCCACCCTCTTTCT 59.240 61.111 0.00 0.00 0.00 2.52
2473 2571 1.000646 AACCACAACCACAACCGGT 60.001 52.632 0.00 0.00 42.71 5.28
2474 2572 1.032657 TCAACCACAACCACAACCGG 61.033 55.000 0.00 0.00 0.00 5.28
2475 2573 0.099791 GTCAACCACAACCACAACCG 59.900 55.000 0.00 0.00 0.00 4.44
2476 2574 1.134175 CAGTCAACCACAACCACAACC 59.866 52.381 0.00 0.00 0.00 3.77
2477 2575 1.469079 GCAGTCAACCACAACCACAAC 60.469 52.381 0.00 0.00 0.00 3.32
2478 2576 0.814457 GCAGTCAACCACAACCACAA 59.186 50.000 0.00 0.00 0.00 3.33
2479 2577 1.034838 GGCAGTCAACCACAACCACA 61.035 55.000 0.00 0.00 0.00 4.17
2481 2579 1.821759 CGGCAGTCAACCACAACCA 60.822 57.895 0.00 0.00 0.00 3.67
2482 2580 2.551912 CCGGCAGTCAACCACAACC 61.552 63.158 0.00 0.00 0.00 3.77
2483 2581 3.030652 CCGGCAGTCAACCACAAC 58.969 61.111 0.00 0.00 0.00 3.32
2484 2582 2.904866 GCCGGCAGTCAACCACAA 60.905 61.111 24.80 0.00 0.00 3.33
2485 2583 4.947147 GGCCGGCAGTCAACCACA 62.947 66.667 30.85 0.00 0.00 4.17
2508 2606 3.081409 AGTAATGGCGGCCGAGGT 61.081 61.111 33.48 13.06 0.00 3.85
2509 2607 2.588877 CAGTAATGGCGGCCGAGG 60.589 66.667 33.48 0.00 0.00 4.63
2510 2608 3.272334 GCAGTAATGGCGGCCGAG 61.272 66.667 33.48 0.00 0.00 4.63
2579 2683 2.637025 CCAAACACAACGCCTCCG 59.363 61.111 0.00 0.00 41.14 4.63
2580 2684 2.335011 GCCAAACACAACGCCTCC 59.665 61.111 0.00 0.00 0.00 4.30
2590 2694 3.790416 AAGCGCTCCCTGCCAAACA 62.790 57.895 12.06 0.00 38.78 2.83
2869 3014 2.929964 AATGACCGGTGGGGCCAAT 61.930 57.895 14.63 0.00 42.67 3.16
2894 3041 1.269361 GGTTTGATCGGTTGCGGTTTT 60.269 47.619 0.00 0.00 0.00 2.43
2897 3044 1.969589 GGGTTTGATCGGTTGCGGT 60.970 57.895 0.00 0.00 0.00 5.68
2929 3076 3.732471 CGTGACAAACAACCCGAACATTT 60.732 43.478 0.00 0.00 0.00 2.32
2947 3094 2.281484 GCTGGGTTTGAGGCGTGA 60.281 61.111 0.00 0.00 0.00 4.35
2971 3118 4.134623 TGACAAACGGTGGCAGAC 57.865 55.556 0.00 0.00 41.83 3.51
2982 3129 0.394488 TGGGTTTGAGGCGTGACAAA 60.394 50.000 0.00 0.00 34.33 2.83
2983 3130 0.394488 TTGGGTTTGAGGCGTGACAA 60.394 50.000 0.00 0.00 0.00 3.18
2984 3131 1.098712 GTTGGGTTTGAGGCGTGACA 61.099 55.000 0.00 0.00 0.00 3.58
2985 3132 1.652563 GTTGGGTTTGAGGCGTGAC 59.347 57.895 0.00 0.00 0.00 3.67
2986 3133 1.527380 GGTTGGGTTTGAGGCGTGA 60.527 57.895 0.00 0.00 0.00 4.35
2987 3134 2.561037 GGGTTGGGTTTGAGGCGTG 61.561 63.158 0.00 0.00 0.00 5.34
2988 3135 2.203437 GGGTTGGGTTTGAGGCGT 60.203 61.111 0.00 0.00 0.00 5.68
2989 3136 0.322997 TATGGGTTGGGTTTGAGGCG 60.323 55.000 0.00 0.00 0.00 5.52
2990 3137 2.159179 ATATGGGTTGGGTTTGAGGC 57.841 50.000 0.00 0.00 0.00 4.70
2991 3138 5.072741 CAGATATATGGGTTGGGTTTGAGG 58.927 45.833 0.00 0.00 0.00 3.86
2992 3139 5.072741 CCAGATATATGGGTTGGGTTTGAG 58.927 45.833 8.61 0.00 36.64 3.02
2993 3140 4.691376 GCCAGATATATGGGTTGGGTTTGA 60.691 45.833 17.90 0.00 40.97 2.69
2994 3141 3.573967 GCCAGATATATGGGTTGGGTTTG 59.426 47.826 17.90 0.00 40.97 2.93
2995 3142 3.206412 TGCCAGATATATGGGTTGGGTTT 59.794 43.478 17.90 0.00 40.97 3.27
2996 3143 2.788807 TGCCAGATATATGGGTTGGGTT 59.211 45.455 17.90 0.00 40.97 4.11
2997 3144 2.108250 GTGCCAGATATATGGGTTGGGT 59.892 50.000 17.90 0.00 40.97 4.51
2998 3145 2.555227 GGTGCCAGATATATGGGTTGGG 60.555 54.545 17.90 0.00 40.97 4.12
2999 3146 2.108075 TGGTGCCAGATATATGGGTTGG 59.892 50.000 17.90 0.81 40.97 3.77
3000 3147 3.149196 GTGGTGCCAGATATATGGGTTG 58.851 50.000 17.90 0.00 40.97 3.77
3001 3148 2.224523 CGTGGTGCCAGATATATGGGTT 60.225 50.000 17.90 0.00 40.97 4.11
3002 3149 1.347707 CGTGGTGCCAGATATATGGGT 59.652 52.381 17.90 0.00 40.97 4.51
3003 3150 1.623311 TCGTGGTGCCAGATATATGGG 59.377 52.381 17.90 0.39 40.97 4.00
3004 3151 2.688507 GTCGTGGTGCCAGATATATGG 58.311 52.381 12.24 12.24 43.72 2.74
3005 3152 2.030274 TCGTCGTGGTGCCAGATATATG 60.030 50.000 0.00 0.00 0.00 1.78
3006 3153 2.235891 TCGTCGTGGTGCCAGATATAT 58.764 47.619 0.00 0.00 0.00 0.86
3007 3154 1.682740 TCGTCGTGGTGCCAGATATA 58.317 50.000 0.00 0.00 0.00 0.86
3008 3155 1.040646 ATCGTCGTGGTGCCAGATAT 58.959 50.000 0.00 0.00 0.00 1.63
3009 3156 0.102300 CATCGTCGTGGTGCCAGATA 59.898 55.000 0.00 0.00 0.00 1.98
3010 3157 1.153568 CATCGTCGTGGTGCCAGAT 60.154 57.895 0.00 0.00 0.00 2.90
3011 3158 2.261361 CATCGTCGTGGTGCCAGA 59.739 61.111 0.00 0.00 0.00 3.86
3012 3159 2.094659 GTCATCGTCGTGGTGCCAG 61.095 63.158 0.00 0.00 0.00 4.85
3013 3160 2.048597 GTCATCGTCGTGGTGCCA 60.049 61.111 0.00 0.00 0.00 4.92
3014 3161 3.179265 CGTCATCGTCGTGGTGCC 61.179 66.667 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.