Multiple sequence alignment - TraesCS4B01G362700

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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 TraesCS4B01G362700 chr4B 100.000 2315 0 0 1 2315 651870791 651868477 0.000000e+00 4276.0
1 TraesCS4B01G362700 chr4B 98.343 1569 19 5 1 1562 651808543 651806975 0.000000e+00 2747.0
2 TraesCS4B01G362700 chr4B 92.344 836 63 1 509 1344 495081023 495081857 0.000000e+00 1188.0
3 TraesCS4B01G362700 chr4B 97.327 449 11 1 1593 2041 651806980 651806533 0.000000e+00 761.0
4 TraesCS4B01G362700 chr4B 87.805 533 35 18 1533 2041 630086068 630086594 4.260000e-167 597.0
5 TraesCS4B01G362700 chr4B 98.195 277 5 0 2039 2315 651790014 651789738 3.460000e-133 484.0
6 TraesCS4B01G362700 chr4B 94.946 277 14 0 2039 2315 607251572 607251848 3.530000e-118 435.0
7 TraesCS4B01G362700 chr4B 90.714 280 20 4 1 280 630085336 630085609 3.630000e-98 368.0
8 TraesCS4B01G362700 chr4B 94.118 51 3 0 59 109 87714691 87714641 6.860000e-11 78.7
9 TraesCS4B01G362700 chr1B 94.160 839 45 4 509 1343 401563066 401563904 0.000000e+00 1275.0
10 TraesCS4B01G362700 chr1B 90.323 93 5 4 269 358 300581248 300581339 4.040000e-23 119.0
11 TraesCS4B01G362700 chr2B 92.840 838 57 3 509 1345 796309400 796310235 0.000000e+00 1212.0
12 TraesCS4B01G362700 chr2B 83.571 560 91 1 509 1068 675504991 675505549 7.330000e-145 523.0
13 TraesCS4B01G362700 chr5A 92.593 837 62 0 509 1345 708679459 708680295 0.000000e+00 1203.0
14 TraesCS4B01G362700 chr5A 91.159 837 74 0 509 1345 647001304 647002140 0.000000e+00 1136.0
15 TraesCS4B01G362700 chr5A 81.743 723 88 30 1341 2041 671997011 671997711 4.320000e-157 564.0
16 TraesCS4B01G362700 chr5A 84.932 584 41 28 1495 2041 689446508 689447081 4.350000e-152 547.0
17 TraesCS4B01G362700 chr5A 95.833 120 5 0 1659 1778 689482655 689482774 6.530000e-46 195.0
18 TraesCS4B01G362700 chr5A 92.308 117 8 1 371 486 671996845 671996961 5.120000e-37 165.0
19 TraesCS4B01G362700 chr5A 95.122 82 3 1 278 358 570777193 570777112 6.710000e-26 128.0
20 TraesCS4B01G362700 chr5A 94.048 84 2 3 278 358 526875316 526875399 8.680000e-25 124.0
21 TraesCS4B01G362700 chr5A 90.000 100 4 1 1804 1897 689482773 689482872 8.680000e-25 124.0
22 TraesCS4B01G362700 chr4A 92.354 837 63 1 509 1345 26018543 26017708 0.000000e+00 1190.0
23 TraesCS4B01G362700 chr2A 91.856 835 68 0 509 1343 41173378 41172544 0.000000e+00 1166.0
24 TraesCS4B01G362700 chr6A 93.359 527 33 2 820 1345 608259174 608259699 0.000000e+00 778.0
25 TraesCS4B01G362700 chr4D 83.718 737 60 34 1345 2036 505242669 505243390 1.940000e-180 641.0
26 TraesCS4B01G362700 chr4D 83.062 738 64 35 1341 2041 490418156 490418869 4.230000e-172 614.0
27 TraesCS4B01G362700 chr4D 94.946 277 14 0 2039 2315 451112792 451112516 3.530000e-118 435.0
28 TraesCS4B01G362700 chr4D 94.643 280 12 2 1 280 505242258 505242534 4.570000e-117 431.0
29 TraesCS4B01G362700 chr4D 92.473 279 17 3 3 280 490417704 490417979 1.670000e-106 396.0
30 TraesCS4B01G362700 chr4D 92.188 128 9 1 360 486 490417979 490418106 1.830000e-41 180.0
31 TraesCS4B01G362700 chr4D 95.349 86 1 2 276 358 19442649 19442564 1.440000e-27 134.0
32 TraesCS4B01G362700 chr4D 92.135 89 4 3 360 448 505242534 505242619 3.120000e-24 122.0
33 TraesCS4B01G362700 chr5B 96.377 276 10 0 2040 2315 300330966 300330691 2.710000e-124 455.0
34 TraesCS4B01G362700 chr3B 95.307 277 13 0 2039 2315 117382171 117381895 7.590000e-120 440.0
35 TraesCS4B01G362700 chr3B 89.474 57 6 0 48 104 307918342 307918286 3.190000e-09 73.1
36 TraesCS4B01G362700 chr3B 89.474 57 6 0 48 104 308037647 308037591 3.190000e-09 73.1
37 TraesCS4B01G362700 chr6B 95.290 276 13 0 2040 2315 288357027 288356752 2.730000e-119 438.0
38 TraesCS4B01G362700 chr6B 92.222 90 4 3 278 364 705518233 705518144 8.680000e-25 124.0
39 TraesCS4B01G362700 chr2D 95.290 276 13 0 2040 2315 587669414 587669689 2.730000e-119 438.0
40 TraesCS4B01G362700 chr2D 94.946 277 14 0 2039 2315 2127447 2127171 3.530000e-118 435.0
41 TraesCS4B01G362700 chr2D 94.048 84 2 2 278 358 432744302 432744385 8.680000e-25 124.0
42 TraesCS4B01G362700 chr2D 93.333 45 3 0 147 191 47619270 47619226 1.480000e-07 67.6
43 TraesCS4B01G362700 chr7B 94.946 277 14 0 2039 2315 68650264 68649988 3.530000e-118 435.0
44 TraesCS4B01G362700 chr7B 93.103 87 3 3 278 361 173865875 173865789 8.680000e-25 124.0
45 TraesCS4B01G362700 chr3D 86.239 109 8 4 256 358 409967816 409967709 6.760000e-21 111.0
46 TraesCS4B01G362700 chr3D 87.342 79 9 1 113 191 305311776 305311699 3.170000e-14 89.8
47 TraesCS4B01G362700 chr7D 88.608 79 8 1 113 191 304924484 304924407 6.810000e-16 95.3
48 TraesCS4B01G362700 chr6D 92.000 50 3 1 48 97 459744187 459744235 4.130000e-08 69.4
49 TraesCS4B01G362700 chr1D 87.500 56 7 0 53 108 273938126 273938071 5.340000e-07 65.8


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 TraesCS4B01G362700 chr4B 651868477 651870791 2314 True 4276.000000 4276 100.000000 1 2315 1 chr4B.!!$R3 2314
1 TraesCS4B01G362700 chr4B 651806533 651808543 2010 True 1754.000000 2747 97.835000 1 2041 2 chr4B.!!$R4 2040
2 TraesCS4B01G362700 chr4B 495081023 495081857 834 False 1188.000000 1188 92.344000 509 1344 1 chr4B.!!$F1 835
3 TraesCS4B01G362700 chr4B 630085336 630086594 1258 False 482.500000 597 89.259500 1 2041 2 chr4B.!!$F3 2040
4 TraesCS4B01G362700 chr1B 401563066 401563904 838 False 1275.000000 1275 94.160000 509 1343 1 chr1B.!!$F2 834
5 TraesCS4B01G362700 chr2B 796309400 796310235 835 False 1212.000000 1212 92.840000 509 1345 1 chr2B.!!$F2 836
6 TraesCS4B01G362700 chr2B 675504991 675505549 558 False 523.000000 523 83.571000 509 1068 1 chr2B.!!$F1 559
7 TraesCS4B01G362700 chr5A 708679459 708680295 836 False 1203.000000 1203 92.593000 509 1345 1 chr5A.!!$F4 836
8 TraesCS4B01G362700 chr5A 647001304 647002140 836 False 1136.000000 1136 91.159000 509 1345 1 chr5A.!!$F2 836
9 TraesCS4B01G362700 chr5A 689446508 689447081 573 False 547.000000 547 84.932000 1495 2041 1 chr5A.!!$F3 546
10 TraesCS4B01G362700 chr5A 671996845 671997711 866 False 364.500000 564 87.025500 371 2041 2 chr5A.!!$F5 1670
11 TraesCS4B01G362700 chr4A 26017708 26018543 835 True 1190.000000 1190 92.354000 509 1345 1 chr4A.!!$R1 836
12 TraesCS4B01G362700 chr2A 41172544 41173378 834 True 1166.000000 1166 91.856000 509 1343 1 chr2A.!!$R1 834
13 TraesCS4B01G362700 chr6A 608259174 608259699 525 False 778.000000 778 93.359000 820 1345 1 chr6A.!!$F1 525
14 TraesCS4B01G362700 chr4D 505242258 505243390 1132 False 398.000000 641 90.165333 1 2036 3 chr4D.!!$F2 2035
15 TraesCS4B01G362700 chr4D 490417704 490418869 1165 False 396.666667 614 89.241000 3 2041 3 chr4D.!!$F1 2038

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
691 720 1.227823 CCAGTGCTTTCCACCGTCA 60.228 57.895 0.0 0.0 45.83 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2134 2341 0.035317 TGCAGCTCTGTCCAATCGTT 59.965 50.0 0.0 0.0 0.0 3.85 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
432 437 2.519013 GTCAGCAACTTCCCCATCTTT 58.481 47.619 0.00 0.00 0.00 2.52
550 568 4.404073 GGGACGAGGCTATCATCTATGATT 59.596 45.833 10.55 0.00 44.70 2.57
664 683 2.957402 TGATATGACCCATGGGAAGC 57.043 50.000 38.07 24.09 38.96 3.86
691 720 1.227823 CCAGTGCTTTCCACCGTCA 60.228 57.895 0.00 0.00 45.83 4.35
1565 1730 0.914551 CGGAACTGAACGATAGCACG 59.085 55.000 0.00 0.00 42.67 5.34
1636 1807 2.069273 CTGAAACTGAAGGTGGCGTAG 58.931 52.381 0.00 0.00 0.00 3.51
1944 2148 1.359168 GGTGGAGGAGGGTAGTTTGT 58.641 55.000 0.00 0.00 0.00 2.83
1955 2159 2.821969 GGGTAGTTTGTAGGAGACGACA 59.178 50.000 0.00 0.00 44.62 4.35
2041 2248 2.360475 GTTGGAGCAGGGCTGGAC 60.360 66.667 0.00 0.00 39.88 4.02
2042 2249 4.020617 TTGGAGCAGGGCTGGACG 62.021 66.667 0.00 0.00 39.88 4.79
2044 2251 3.706373 GGAGCAGGGCTGGACGAA 61.706 66.667 0.00 0.00 39.88 3.85
2045 2252 2.586792 GAGCAGGGCTGGACGAAT 59.413 61.111 0.00 0.00 39.88 3.34
2046 2253 1.522580 GAGCAGGGCTGGACGAATC 60.523 63.158 0.00 0.00 39.88 2.52
2047 2254 2.892425 GCAGGGCTGGACGAATCG 60.892 66.667 0.00 0.00 0.00 3.34
2048 2255 2.892425 CAGGGCTGGACGAATCGC 60.892 66.667 1.15 0.00 0.00 4.58
2049 2256 4.162690 AGGGCTGGACGAATCGCC 62.163 66.667 1.15 5.84 41.75 5.54
2050 2257 4.467084 GGGCTGGACGAATCGCCA 62.467 66.667 15.57 15.57 44.23 5.69
2051 2258 2.435938 GGCTGGACGAATCGCCAA 60.436 61.111 16.72 0.00 42.06 4.52
2052 2259 2.464459 GGCTGGACGAATCGCCAAG 61.464 63.158 16.72 4.74 42.06 3.61
2053 2260 1.741770 GCTGGACGAATCGCCAAGT 60.742 57.895 16.72 0.00 34.13 3.16
2054 2261 1.970917 GCTGGACGAATCGCCAAGTG 61.971 60.000 16.72 8.95 34.13 3.16
2055 2262 1.361668 CTGGACGAATCGCCAAGTGG 61.362 60.000 16.72 5.01 34.13 4.00
2056 2263 2.106683 GGACGAATCGCCAAGTGGG 61.107 63.158 1.15 0.00 40.85 4.61
2066 2273 3.056213 CCAAGTGGGCCATTGAACT 57.944 52.632 22.32 8.66 0.00 3.01
2067 2274 1.341080 CCAAGTGGGCCATTGAACTT 58.659 50.000 22.32 13.50 33.20 2.66
2068 2275 1.001181 CCAAGTGGGCCATTGAACTTG 59.999 52.381 21.01 21.01 45.81 3.16
2069 2276 1.001181 CAAGTGGGCCATTGAACTTGG 59.999 52.381 20.47 7.18 43.64 3.61
2070 2277 0.542702 AGTGGGCCATTGAACTTGGG 60.543 55.000 10.70 0.00 34.66 4.12
2073 2280 4.118584 GCCATTGAACTTGGGCCT 57.881 55.556 4.53 0.00 40.55 5.19
2074 2281 1.893062 GCCATTGAACTTGGGCCTC 59.107 57.895 4.53 0.00 40.55 4.70
2075 2282 0.899717 GCCATTGAACTTGGGCCTCA 60.900 55.000 4.53 0.00 40.55 3.86
2076 2283 1.856629 CCATTGAACTTGGGCCTCAT 58.143 50.000 4.53 0.00 0.00 2.90
2077 2284 1.479323 CCATTGAACTTGGGCCTCATG 59.521 52.381 4.53 4.12 0.00 3.07
2078 2285 1.479323 CATTGAACTTGGGCCTCATGG 59.521 52.381 4.53 0.00 0.00 3.66
2079 2286 0.482446 TTGAACTTGGGCCTCATGGT 59.518 50.000 4.53 0.00 35.27 3.55
2080 2287 0.482446 TGAACTTGGGCCTCATGGTT 59.518 50.000 4.53 7.61 35.27 3.67
2081 2288 1.133199 TGAACTTGGGCCTCATGGTTT 60.133 47.619 4.53 0.00 35.27 3.27
2082 2289 2.109128 TGAACTTGGGCCTCATGGTTTA 59.891 45.455 4.53 2.50 35.27 2.01
2083 2290 2.990740 ACTTGGGCCTCATGGTTTAA 57.009 45.000 4.53 0.00 35.27 1.52
2084 2291 3.252554 ACTTGGGCCTCATGGTTTAAA 57.747 42.857 4.53 0.00 35.27 1.52
2085 2292 3.582164 ACTTGGGCCTCATGGTTTAAAA 58.418 40.909 4.53 0.00 35.27 1.52
2086 2293 4.167319 ACTTGGGCCTCATGGTTTAAAAT 58.833 39.130 4.53 0.00 35.27 1.82
2087 2294 5.337788 ACTTGGGCCTCATGGTTTAAAATA 58.662 37.500 4.53 0.00 35.27 1.40
2088 2295 5.963865 ACTTGGGCCTCATGGTTTAAAATAT 59.036 36.000 4.53 0.00 35.27 1.28
2089 2296 5.867903 TGGGCCTCATGGTTTAAAATATG 57.132 39.130 4.53 6.60 35.27 1.78
2090 2297 5.276440 TGGGCCTCATGGTTTAAAATATGT 58.724 37.500 4.53 0.00 35.27 2.29
2091 2298 5.128499 TGGGCCTCATGGTTTAAAATATGTG 59.872 40.000 4.53 9.11 35.27 3.21
2092 2299 5.049828 GGCCTCATGGTTTAAAATATGTGC 58.950 41.667 0.00 12.89 35.27 4.57
2093 2300 5.049828 GCCTCATGGTTTAAAATATGTGCC 58.950 41.667 10.85 0.00 35.27 5.01
2094 2301 5.395103 GCCTCATGGTTTAAAATATGTGCCA 60.395 40.000 10.85 4.07 35.27 4.92
2095 2302 6.042143 CCTCATGGTTTAAAATATGTGCCAC 58.958 40.000 10.85 0.00 0.00 5.01
2096 2303 6.350864 CCTCATGGTTTAAAATATGTGCCACA 60.351 38.462 0.00 0.00 0.00 4.17
2097 2304 6.393990 TCATGGTTTAAAATATGTGCCACAC 58.606 36.000 0.00 0.00 34.56 3.82
2107 2314 3.231734 GTGCCACACACTGCTATCA 57.768 52.632 0.00 0.00 46.41 2.15
2108 2315 1.522668 GTGCCACACACTGCTATCAA 58.477 50.000 0.00 0.00 46.41 2.57
2109 2316 1.879380 GTGCCACACACTGCTATCAAA 59.121 47.619 0.00 0.00 46.41 2.69
2110 2317 2.489329 GTGCCACACACTGCTATCAAAT 59.511 45.455 0.00 0.00 46.41 2.32
2111 2318 2.749076 TGCCACACACTGCTATCAAATC 59.251 45.455 0.00 0.00 0.00 2.17
2112 2319 3.012518 GCCACACACTGCTATCAAATCT 58.987 45.455 0.00 0.00 0.00 2.40
2113 2320 3.064545 GCCACACACTGCTATCAAATCTC 59.935 47.826 0.00 0.00 0.00 2.75
2114 2321 4.256110 CCACACACTGCTATCAAATCTCA 58.744 43.478 0.00 0.00 0.00 3.27
2115 2322 4.696877 CCACACACTGCTATCAAATCTCAA 59.303 41.667 0.00 0.00 0.00 3.02
2116 2323 5.163784 CCACACACTGCTATCAAATCTCAAG 60.164 44.000 0.00 0.00 0.00 3.02
2117 2324 4.394300 ACACACTGCTATCAAATCTCAAGC 59.606 41.667 0.00 0.00 0.00 4.01
2118 2325 4.393990 CACACTGCTATCAAATCTCAAGCA 59.606 41.667 0.00 0.00 40.68 3.91
2119 2326 4.394300 ACACTGCTATCAAATCTCAAGCAC 59.606 41.667 0.00 0.00 38.22 4.40
2120 2327 4.634883 CACTGCTATCAAATCTCAAGCACT 59.365 41.667 0.00 0.00 38.22 4.40
2121 2328 4.634883 ACTGCTATCAAATCTCAAGCACTG 59.365 41.667 0.00 0.00 38.22 3.66
2122 2329 3.943381 TGCTATCAAATCTCAAGCACTGG 59.057 43.478 0.00 0.00 38.22 4.00
2123 2330 3.944015 GCTATCAAATCTCAAGCACTGGT 59.056 43.478 0.00 0.00 33.38 4.00
2124 2331 4.201891 GCTATCAAATCTCAAGCACTGGTG 60.202 45.833 0.00 0.00 33.38 4.17
2125 2332 2.507484 TCAAATCTCAAGCACTGGTGG 58.493 47.619 2.84 0.00 0.00 4.61
2126 2333 2.106338 TCAAATCTCAAGCACTGGTGGA 59.894 45.455 2.84 0.00 0.00 4.02
2127 2334 3.087031 CAAATCTCAAGCACTGGTGGAT 58.913 45.455 2.84 0.00 0.00 3.41
2128 2335 3.446442 AATCTCAAGCACTGGTGGATT 57.554 42.857 2.84 0.72 0.00 3.01
2129 2336 2.957402 TCTCAAGCACTGGTGGATTT 57.043 45.000 2.84 0.00 0.00 2.17
2130 2337 2.783135 TCTCAAGCACTGGTGGATTTC 58.217 47.619 2.84 0.00 0.00 2.17
2131 2338 2.106338 TCTCAAGCACTGGTGGATTTCA 59.894 45.455 2.84 0.00 0.00 2.69
2132 2339 3.087031 CTCAAGCACTGGTGGATTTCAT 58.913 45.455 2.84 0.00 0.00 2.57
2133 2340 3.084039 TCAAGCACTGGTGGATTTCATC 58.916 45.455 2.84 0.00 0.00 2.92
2134 2341 2.821378 CAAGCACTGGTGGATTTCATCA 59.179 45.455 2.84 0.00 34.86 3.07
2135 2342 3.159213 AGCACTGGTGGATTTCATCAA 57.841 42.857 2.84 0.00 35.83 2.57
2136 2343 2.821969 AGCACTGGTGGATTTCATCAAC 59.178 45.455 2.84 0.00 35.83 3.18
2137 2344 2.414559 GCACTGGTGGATTTCATCAACG 60.415 50.000 2.84 0.00 35.83 4.10
2138 2345 3.073678 CACTGGTGGATTTCATCAACGA 58.926 45.455 0.00 0.00 35.83 3.85
2139 2346 3.691118 CACTGGTGGATTTCATCAACGAT 59.309 43.478 0.00 0.00 35.83 3.73
2140 2347 4.156556 CACTGGTGGATTTCATCAACGATT 59.843 41.667 0.00 0.00 35.83 3.34
2141 2348 4.156556 ACTGGTGGATTTCATCAACGATTG 59.843 41.667 0.00 0.00 35.83 2.67
2142 2349 3.443329 TGGTGGATTTCATCAACGATTGG 59.557 43.478 0.00 0.00 32.74 3.16
2143 2350 3.694072 GGTGGATTTCATCAACGATTGGA 59.306 43.478 0.00 0.00 33.88 3.53
2144 2351 4.438744 GGTGGATTTCATCAACGATTGGAC 60.439 45.833 0.00 0.00 33.88 4.02
2145 2352 4.155826 GTGGATTTCATCAACGATTGGACA 59.844 41.667 0.00 0.00 0.00 4.02
2146 2353 4.395854 TGGATTTCATCAACGATTGGACAG 59.604 41.667 0.00 0.00 0.00 3.51
2147 2354 4.635765 GGATTTCATCAACGATTGGACAGA 59.364 41.667 0.00 0.00 0.00 3.41
2148 2355 5.220739 GGATTTCATCAACGATTGGACAGAG 60.221 44.000 0.00 0.00 0.00 3.35
2149 2356 2.621338 TCATCAACGATTGGACAGAGC 58.379 47.619 0.00 0.00 0.00 4.09
2150 2357 2.234661 TCATCAACGATTGGACAGAGCT 59.765 45.455 0.00 0.00 0.00 4.09
2151 2358 2.084610 TCAACGATTGGACAGAGCTG 57.915 50.000 0.00 0.00 0.00 4.24
2152 2359 0.445436 CAACGATTGGACAGAGCTGC 59.555 55.000 0.00 0.00 0.00 5.25
2153 2360 0.035317 AACGATTGGACAGAGCTGCA 59.965 50.000 1.02 0.00 0.00 4.41
2154 2361 0.390866 ACGATTGGACAGAGCTGCAG 60.391 55.000 10.11 10.11 0.00 4.41
2155 2362 0.108472 CGATTGGACAGAGCTGCAGA 60.108 55.000 20.43 0.00 0.00 4.26
2156 2363 1.472904 CGATTGGACAGAGCTGCAGAT 60.473 52.381 20.43 12.64 0.00 2.90
2157 2364 2.223900 CGATTGGACAGAGCTGCAGATA 60.224 50.000 20.43 0.00 0.00 1.98
2158 2365 2.680312 TTGGACAGAGCTGCAGATAC 57.320 50.000 20.43 5.55 0.00 2.24
2159 2366 0.826715 TGGACAGAGCTGCAGATACC 59.173 55.000 20.43 13.37 0.00 2.73
2160 2367 1.118838 GGACAGAGCTGCAGATACCT 58.881 55.000 20.43 4.25 0.00 3.08
2161 2368 1.202510 GGACAGAGCTGCAGATACCTG 60.203 57.143 20.43 18.12 43.22 4.00
2162 2369 1.753649 GACAGAGCTGCAGATACCTGA 59.246 52.381 23.01 0.00 43.02 3.86
2163 2370 2.167281 GACAGAGCTGCAGATACCTGAA 59.833 50.000 23.01 0.00 43.02 3.02
2164 2371 2.168106 ACAGAGCTGCAGATACCTGAAG 59.832 50.000 23.01 0.00 46.84 3.02
2171 2378 3.347216 TGCAGATACCTGAAGAAAAGCC 58.653 45.455 0.00 0.00 43.02 4.35
2172 2379 2.352960 GCAGATACCTGAAGAAAAGCCG 59.647 50.000 0.00 0.00 43.02 5.52
2173 2380 2.939103 CAGATACCTGAAGAAAAGCCGG 59.061 50.000 0.00 0.00 43.02 6.13
2174 2381 2.838202 AGATACCTGAAGAAAAGCCGGA 59.162 45.455 5.05 0.00 0.00 5.14
2175 2382 3.456277 AGATACCTGAAGAAAAGCCGGAT 59.544 43.478 5.05 0.00 0.00 4.18
2176 2383 4.654262 AGATACCTGAAGAAAAGCCGGATA 59.346 41.667 5.05 0.00 0.00 2.59
2177 2384 3.713826 ACCTGAAGAAAAGCCGGATAA 57.286 42.857 5.05 0.00 0.00 1.75
2178 2385 3.344515 ACCTGAAGAAAAGCCGGATAAC 58.655 45.455 5.05 0.00 0.00 1.89
2179 2386 3.244770 ACCTGAAGAAAAGCCGGATAACA 60.245 43.478 5.05 0.00 0.00 2.41
2180 2387 3.127030 CCTGAAGAAAAGCCGGATAACAC 59.873 47.826 5.05 0.00 0.00 3.32
2181 2388 3.745799 TGAAGAAAAGCCGGATAACACA 58.254 40.909 5.05 0.00 0.00 3.72
2182 2389 4.331968 TGAAGAAAAGCCGGATAACACAT 58.668 39.130 5.05 0.00 0.00 3.21
2183 2390 5.492895 TGAAGAAAAGCCGGATAACACATA 58.507 37.500 5.05 0.00 0.00 2.29
2184 2391 6.119536 TGAAGAAAAGCCGGATAACACATAT 58.880 36.000 5.05 0.00 0.00 1.78
2185 2392 6.601613 TGAAGAAAAGCCGGATAACACATATT 59.398 34.615 5.05 0.00 0.00 1.28
2186 2393 7.771361 TGAAGAAAAGCCGGATAACACATATTA 59.229 33.333 5.05 0.00 0.00 0.98
2187 2394 7.730364 AGAAAAGCCGGATAACACATATTAG 57.270 36.000 5.05 0.00 0.00 1.73
2188 2395 7.506114 AGAAAAGCCGGATAACACATATTAGA 58.494 34.615 5.05 0.00 0.00 2.10
2189 2396 7.441458 AGAAAAGCCGGATAACACATATTAGAC 59.559 37.037 5.05 0.00 0.00 2.59
2190 2397 6.420913 AAGCCGGATAACACATATTAGACT 57.579 37.500 5.05 0.00 0.00 3.24
2191 2398 7.534723 AAGCCGGATAACACATATTAGACTA 57.465 36.000 5.05 0.00 0.00 2.59
2192 2399 7.719871 AGCCGGATAACACATATTAGACTAT 57.280 36.000 5.05 0.00 0.00 2.12
2193 2400 8.135382 AGCCGGATAACACATATTAGACTATT 57.865 34.615 5.05 0.00 0.00 1.73
2194 2401 8.251721 AGCCGGATAACACATATTAGACTATTC 58.748 37.037 5.05 0.00 0.00 1.75
2195 2402 8.033038 GCCGGATAACACATATTAGACTATTCA 58.967 37.037 5.05 0.00 0.00 2.57
2196 2403 9.355215 CCGGATAACACATATTAGACTATTCAC 57.645 37.037 0.00 0.00 0.00 3.18
2203 2410 9.302345 ACACATATTAGACTATTCACTTTGACG 57.698 33.333 0.00 0.00 0.00 4.35
2204 2411 8.755941 CACATATTAGACTATTCACTTTGACGG 58.244 37.037 0.00 0.00 0.00 4.79
2205 2412 7.926555 ACATATTAGACTATTCACTTTGACGGG 59.073 37.037 0.00 0.00 0.00 5.28
2206 2413 5.733620 TTAGACTATTCACTTTGACGGGT 57.266 39.130 0.00 0.00 0.00 5.28
2207 2414 4.189639 AGACTATTCACTTTGACGGGTC 57.810 45.455 0.00 0.00 0.00 4.46
2208 2415 3.056035 AGACTATTCACTTTGACGGGTCC 60.056 47.826 0.00 0.00 0.00 4.46
2209 2416 2.635915 ACTATTCACTTTGACGGGTCCA 59.364 45.455 0.00 0.00 0.00 4.02
2210 2417 2.185004 ATTCACTTTGACGGGTCCAG 57.815 50.000 0.00 0.00 0.00 3.86
2211 2418 0.107831 TTCACTTTGACGGGTCCAGG 59.892 55.000 0.00 0.00 0.00 4.45
2212 2419 1.966451 CACTTTGACGGGTCCAGGC 60.966 63.158 0.00 0.00 0.00 4.85
2213 2420 2.429930 CTTTGACGGGTCCAGGCA 59.570 61.111 0.00 0.00 0.00 4.75
2214 2421 1.228124 CTTTGACGGGTCCAGGCAA 60.228 57.895 6.14 6.14 34.33 4.52
2215 2422 0.609131 CTTTGACGGGTCCAGGCAAT 60.609 55.000 11.42 0.00 36.38 3.56
2216 2423 0.178975 TTTGACGGGTCCAGGCAATT 60.179 50.000 11.42 0.00 36.38 2.32
2217 2424 0.893270 TTGACGGGTCCAGGCAATTG 60.893 55.000 6.14 0.00 30.57 2.32
2218 2425 2.035626 ACGGGTCCAGGCAATTGG 59.964 61.111 7.72 0.00 39.70 3.16
2219 2426 2.354729 CGGGTCCAGGCAATTGGA 59.645 61.111 7.72 0.17 44.84 3.53
2224 2431 2.791253 TCCAGGCAATTGGAGGTCT 58.209 52.632 7.72 0.00 42.24 3.85
2225 2432 0.620556 TCCAGGCAATTGGAGGTCTC 59.379 55.000 7.72 0.00 42.24 3.36
2226 2433 0.745845 CCAGGCAATTGGAGGTCTCG 60.746 60.000 7.72 0.00 40.87 4.04
2227 2434 0.745845 CAGGCAATTGGAGGTCTCGG 60.746 60.000 7.72 0.00 0.00 4.63
2228 2435 1.452108 GGCAATTGGAGGTCTCGGG 60.452 63.158 7.72 0.00 0.00 5.14
2229 2436 1.452108 GCAATTGGAGGTCTCGGGG 60.452 63.158 7.72 0.00 0.00 5.73
2230 2437 1.224592 CAATTGGAGGTCTCGGGGG 59.775 63.158 0.00 0.00 0.00 5.40
2231 2438 2.680370 AATTGGAGGTCTCGGGGGC 61.680 63.158 0.00 0.00 0.00 5.80
2232 2439 3.642741 ATTGGAGGTCTCGGGGGCT 62.643 63.158 0.00 0.00 0.00 5.19
2235 2442 4.779733 GAGGTCTCGGGGGCTGGA 62.780 72.222 0.00 0.00 0.00 3.86
2236 2443 4.787280 AGGTCTCGGGGGCTGGAG 62.787 72.222 0.00 0.00 0.00 3.86
2238 2445 3.462678 GTCTCGGGGGCTGGAGTC 61.463 72.222 0.00 0.00 0.00 3.36
2243 2450 3.637273 GGGGGCTGGAGTCGTGTT 61.637 66.667 0.00 0.00 0.00 3.32
2244 2451 2.288025 GGGGGCTGGAGTCGTGTTA 61.288 63.158 0.00 0.00 0.00 2.41
2245 2452 1.218316 GGGGCTGGAGTCGTGTTAG 59.782 63.158 0.00 0.00 0.00 2.34
2246 2453 1.448013 GGGCTGGAGTCGTGTTAGC 60.448 63.158 0.00 0.00 0.00 3.09
2247 2454 1.592223 GGCTGGAGTCGTGTTAGCT 59.408 57.895 0.00 0.00 34.89 3.32
2248 2455 0.037232 GGCTGGAGTCGTGTTAGCTT 60.037 55.000 0.00 0.00 34.89 3.74
2249 2456 1.351153 GCTGGAGTCGTGTTAGCTTC 58.649 55.000 0.00 0.00 0.00 3.86
2250 2457 1.997669 CTGGAGTCGTGTTAGCTTCC 58.002 55.000 0.00 0.00 0.00 3.46
2251 2458 0.606604 TGGAGTCGTGTTAGCTTCCC 59.393 55.000 0.00 0.00 0.00 3.97
2252 2459 0.108281 GGAGTCGTGTTAGCTTCCCC 60.108 60.000 0.00 0.00 0.00 4.81
2253 2460 0.896226 GAGTCGTGTTAGCTTCCCCT 59.104 55.000 0.00 0.00 0.00 4.79
2254 2461 0.896226 AGTCGTGTTAGCTTCCCCTC 59.104 55.000 0.00 0.00 0.00 4.30
2255 2462 0.458025 GTCGTGTTAGCTTCCCCTCG 60.458 60.000 0.00 0.00 0.00 4.63
2256 2463 0.609957 TCGTGTTAGCTTCCCCTCGA 60.610 55.000 0.00 0.00 0.00 4.04
2257 2464 0.179134 CGTGTTAGCTTCCCCTCGAG 60.179 60.000 5.13 5.13 0.00 4.04
2258 2465 0.175989 GTGTTAGCTTCCCCTCGAGG 59.824 60.000 25.36 25.36 0.00 4.63
2259 2466 0.252103 TGTTAGCTTCCCCTCGAGGT 60.252 55.000 29.25 12.78 0.00 3.85
2260 2467 0.175989 GTTAGCTTCCCCTCGAGGTG 59.824 60.000 29.25 19.59 0.00 4.00
2261 2468 0.040646 TTAGCTTCCCCTCGAGGTGA 59.959 55.000 29.25 21.81 0.00 4.02
2262 2469 0.683504 TAGCTTCCCCTCGAGGTGAC 60.684 60.000 29.25 13.11 0.00 3.67
2263 2470 2.283529 GCTTCCCCTCGAGGTGACA 61.284 63.158 29.25 13.37 0.00 3.58
2264 2471 1.827399 GCTTCCCCTCGAGGTGACAA 61.827 60.000 29.25 14.58 0.00 3.18
2265 2472 0.685097 CTTCCCCTCGAGGTGACAAA 59.315 55.000 29.25 14.22 0.00 2.83
2266 2473 1.279271 CTTCCCCTCGAGGTGACAAAT 59.721 52.381 29.25 0.00 0.00 2.32
2267 2474 1.358152 TCCCCTCGAGGTGACAAATT 58.642 50.000 29.25 0.00 0.00 1.82
2268 2475 1.702957 TCCCCTCGAGGTGACAAATTT 59.297 47.619 29.25 0.00 0.00 1.82
2269 2476 2.107552 TCCCCTCGAGGTGACAAATTTT 59.892 45.455 29.25 0.00 0.00 1.82
2270 2477 2.228822 CCCCTCGAGGTGACAAATTTTG 59.771 50.000 29.25 9.62 0.00 2.44
2272 2479 3.317993 CCCTCGAGGTGACAAATTTTGTT 59.682 43.478 29.25 0.26 45.52 2.83
2273 2480 4.517453 CCCTCGAGGTGACAAATTTTGTTA 59.483 41.667 29.25 9.26 45.52 2.41
2274 2481 5.183140 CCCTCGAGGTGACAAATTTTGTTAT 59.817 40.000 29.25 3.30 45.52 1.89
2275 2482 6.086222 CCTCGAGGTGACAAATTTTGTTATG 58.914 40.000 24.04 4.76 45.52 1.90
2276 2483 6.293955 CCTCGAGGTGACAAATTTTGTTATGT 60.294 38.462 24.04 3.98 45.52 2.29
2277 2484 6.434596 TCGAGGTGACAAATTTTGTTATGTG 58.565 36.000 15.54 5.83 45.52 3.21
2278 2485 5.116983 CGAGGTGACAAATTTTGTTATGTGC 59.883 40.000 15.54 3.31 45.52 4.57
2279 2486 6.160576 AGGTGACAAATTTTGTTATGTGCT 57.839 33.333 15.54 0.00 45.52 4.40
2280 2487 7.283625 AGGTGACAAATTTTGTTATGTGCTA 57.716 32.000 15.54 0.00 45.52 3.49
2281 2488 7.145323 AGGTGACAAATTTTGTTATGTGCTAC 58.855 34.615 15.54 1.35 45.52 3.58
2282 2489 6.087555 GGTGACAAATTTTGTTATGTGCTACG 59.912 38.462 15.54 0.00 45.52 3.51
2283 2490 6.087555 GTGACAAATTTTGTTATGTGCTACGG 59.912 38.462 15.54 0.00 45.52 4.02
2284 2491 6.079424 ACAAATTTTGTTATGTGCTACGGT 57.921 33.333 8.97 0.00 42.22 4.83
2285 2492 6.508777 ACAAATTTTGTTATGTGCTACGGTT 58.491 32.000 8.97 0.00 42.22 4.44
2286 2493 6.419413 ACAAATTTTGTTATGTGCTACGGTTG 59.581 34.615 8.97 0.00 42.22 3.77
2287 2494 5.950758 ATTTTGTTATGTGCTACGGTTGA 57.049 34.783 0.00 0.00 0.00 3.18
2288 2495 5.950758 TTTTGTTATGTGCTACGGTTGAT 57.049 34.783 0.00 0.00 0.00 2.57
2289 2496 4.937696 TTGTTATGTGCTACGGTTGATG 57.062 40.909 0.00 0.00 0.00 3.07
2290 2497 3.932822 TGTTATGTGCTACGGTTGATGT 58.067 40.909 0.00 0.00 0.00 3.06
2291 2498 4.320023 TGTTATGTGCTACGGTTGATGTT 58.680 39.130 0.00 0.00 0.00 2.71
2292 2499 4.757657 TGTTATGTGCTACGGTTGATGTTT 59.242 37.500 0.00 0.00 0.00 2.83
2293 2500 5.106869 TGTTATGTGCTACGGTTGATGTTTC 60.107 40.000 0.00 0.00 0.00 2.78
2294 2501 2.147958 TGTGCTACGGTTGATGTTTCC 58.852 47.619 0.00 0.00 0.00 3.13
2295 2502 1.467342 GTGCTACGGTTGATGTTTCCC 59.533 52.381 0.00 0.00 0.00 3.97
2296 2503 1.349688 TGCTACGGTTGATGTTTCCCT 59.650 47.619 0.00 0.00 0.00 4.20
2297 2504 1.737793 GCTACGGTTGATGTTTCCCTG 59.262 52.381 0.00 0.00 0.00 4.45
2298 2505 2.874457 GCTACGGTTGATGTTTCCCTGT 60.874 50.000 0.00 0.00 0.00 4.00
2299 2506 3.618019 GCTACGGTTGATGTTTCCCTGTA 60.618 47.826 0.00 0.00 0.00 2.74
2300 2507 2.774687 ACGGTTGATGTTTCCCTGTAC 58.225 47.619 0.00 0.00 0.00 2.90
2301 2508 2.370849 ACGGTTGATGTTTCCCTGTACT 59.629 45.455 0.00 0.00 0.00 2.73
2302 2509 3.579586 ACGGTTGATGTTTCCCTGTACTA 59.420 43.478 0.00 0.00 0.00 1.82
2303 2510 4.040706 ACGGTTGATGTTTCCCTGTACTAA 59.959 41.667 0.00 0.00 0.00 2.24
2304 2511 4.390909 CGGTTGATGTTTCCCTGTACTAAC 59.609 45.833 0.00 0.00 0.00 2.34
2305 2512 5.310451 GGTTGATGTTTCCCTGTACTAACA 58.690 41.667 0.00 0.00 35.25 2.41
2306 2513 5.766174 GGTTGATGTTTCCCTGTACTAACAA 59.234 40.000 0.00 0.00 34.49 2.83
2307 2514 6.433093 GGTTGATGTTTCCCTGTACTAACAAT 59.567 38.462 0.00 0.00 34.49 2.71
2308 2515 7.305474 GTTGATGTTTCCCTGTACTAACAATG 58.695 38.462 0.00 0.00 34.49 2.82
2309 2516 5.414454 TGATGTTTCCCTGTACTAACAATGC 59.586 40.000 0.00 0.00 34.49 3.56
2310 2517 4.720046 TGTTTCCCTGTACTAACAATGCA 58.280 39.130 0.00 0.00 34.49 3.96
2311 2518 4.759693 TGTTTCCCTGTACTAACAATGCAG 59.240 41.667 0.00 0.00 34.49 4.41
2312 2519 2.985896 TCCCTGTACTAACAATGCAGC 58.014 47.619 0.00 0.00 34.49 5.25
2313 2520 2.571653 TCCCTGTACTAACAATGCAGCT 59.428 45.455 0.00 0.00 34.49 4.24
2314 2521 2.679837 CCCTGTACTAACAATGCAGCTG 59.320 50.000 10.11 10.11 34.49 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
432 437 6.648192 TGTATCCACATTATGATCACACACA 58.352 36.000 0.00 0.00 0.00 3.72
550 568 3.575805 AGGAAACCAGCCATTCTTTTCA 58.424 40.909 0.00 0.00 0.00 2.69
675 704 0.180406 ACTTGACGGTGGAAAGCACT 59.820 50.000 0.00 0.00 0.00 4.40
1565 1730 0.727122 GTGCAAGCAGAACGCATGAC 60.727 55.000 0.00 0.00 41.97 3.06
1571 1736 1.660607 ACGATATGTGCAAGCAGAACG 59.339 47.619 0.00 5.28 0.00 3.95
1603 1774 6.208599 CCTTCAGTTTCAGTTTTATTAGCCCA 59.791 38.462 0.00 0.00 0.00 5.36
1636 1807 3.366739 GACGACCCCATCCACGTCC 62.367 68.421 0.00 0.00 45.76 4.79
1955 2159 0.456221 CCGACCAGAAGATACACGCT 59.544 55.000 0.00 0.00 0.00 5.07
2025 2232 4.020617 CGTCCAGCCCTGCTCCAA 62.021 66.667 0.00 0.00 36.40 3.53
2048 2255 1.001181 CAAGTTCAATGGCCCACTTGG 59.999 52.381 15.81 0.00 41.59 3.61
2049 2256 1.001181 CCAAGTTCAATGGCCCACTTG 59.999 52.381 16.33 16.33 43.85 3.16
2050 2257 1.341080 CCAAGTTCAATGGCCCACTT 58.659 50.000 0.00 0.00 0.00 3.16
2051 2258 0.542702 CCCAAGTTCAATGGCCCACT 60.543 55.000 0.00 0.00 36.58 4.00
2052 2259 1.974543 CCCAAGTTCAATGGCCCAC 59.025 57.895 0.00 0.00 36.58 4.61
2053 2260 1.912763 GCCCAAGTTCAATGGCCCA 60.913 57.895 0.00 0.00 37.94 5.36
2054 2261 2.981302 GCCCAAGTTCAATGGCCC 59.019 61.111 0.00 0.00 37.94 5.80
2056 2263 0.899717 TGAGGCCCAAGTTCAATGGC 60.900 55.000 0.00 0.00 43.26 4.40
2057 2264 1.479323 CATGAGGCCCAAGTTCAATGG 59.521 52.381 0.00 0.00 37.71 3.16
2058 2265 1.479323 CCATGAGGCCCAAGTTCAATG 59.521 52.381 0.00 0.00 0.00 2.82
2059 2266 1.077663 ACCATGAGGCCCAAGTTCAAT 59.922 47.619 0.00 0.00 39.06 2.57
2060 2267 0.482446 ACCATGAGGCCCAAGTTCAA 59.518 50.000 0.00 0.00 39.06 2.69
2061 2268 0.482446 AACCATGAGGCCCAAGTTCA 59.518 50.000 0.00 0.00 39.06 3.18
2062 2269 1.632589 AAACCATGAGGCCCAAGTTC 58.367 50.000 0.00 0.00 39.06 3.01
2063 2270 2.990740 TAAACCATGAGGCCCAAGTT 57.009 45.000 0.00 3.31 39.06 2.66
2064 2271 2.990740 TTAAACCATGAGGCCCAAGT 57.009 45.000 0.00 0.00 39.06 3.16
2065 2272 4.824479 ATTTTAAACCATGAGGCCCAAG 57.176 40.909 0.00 0.00 39.06 3.61
2066 2273 5.723887 ACATATTTTAAACCATGAGGCCCAA 59.276 36.000 0.00 0.00 39.06 4.12
2067 2274 5.128499 CACATATTTTAAACCATGAGGCCCA 59.872 40.000 0.00 0.00 39.06 5.36
2068 2275 5.600696 CACATATTTTAAACCATGAGGCCC 58.399 41.667 0.00 0.00 39.06 5.80
2069 2276 5.049828 GCACATATTTTAAACCATGAGGCC 58.950 41.667 12.84 0.00 39.06 5.19
2070 2277 5.049828 GGCACATATTTTAAACCATGAGGC 58.950 41.667 12.84 12.80 39.06 4.70
2071 2278 6.042143 GTGGCACATATTTTAAACCATGAGG 58.958 40.000 13.86 7.35 44.52 3.86
2072 2279 6.531240 GTGTGGCACATATTTTAAACCATGAG 59.469 38.462 24.95 7.77 44.52 2.90
2073 2280 6.015095 TGTGTGGCACATATTTTAAACCATGA 60.015 34.615 24.95 0.00 44.52 3.07
2074 2281 6.090628 GTGTGTGGCACATATTTTAAACCATG 59.909 38.462 24.95 6.65 46.32 3.66
2075 2282 6.162777 GTGTGTGGCACATATTTTAAACCAT 58.837 36.000 24.95 0.00 46.32 3.55
2076 2283 5.533482 GTGTGTGGCACATATTTTAAACCA 58.467 37.500 24.95 9.81 46.32 3.67
2090 2297 2.268762 TTTGATAGCAGTGTGTGGCA 57.731 45.000 0.00 0.00 0.00 4.92
2091 2298 3.012518 AGATTTGATAGCAGTGTGTGGC 58.987 45.455 0.00 0.00 0.00 5.01
2092 2299 4.256110 TGAGATTTGATAGCAGTGTGTGG 58.744 43.478 0.00 0.00 0.00 4.17
2093 2300 5.673068 GCTTGAGATTTGATAGCAGTGTGTG 60.673 44.000 0.00 0.00 0.00 3.82
2094 2301 4.394300 GCTTGAGATTTGATAGCAGTGTGT 59.606 41.667 0.00 0.00 0.00 3.72
2095 2302 4.393990 TGCTTGAGATTTGATAGCAGTGTG 59.606 41.667 0.00 0.00 36.96 3.82
2096 2303 4.394300 GTGCTTGAGATTTGATAGCAGTGT 59.606 41.667 0.00 0.00 41.98 3.55
2097 2304 4.634883 AGTGCTTGAGATTTGATAGCAGTG 59.365 41.667 0.00 0.00 42.25 3.66
2098 2305 4.634883 CAGTGCTTGAGATTTGATAGCAGT 59.365 41.667 0.00 0.00 44.06 4.40
2099 2306 4.035324 CCAGTGCTTGAGATTTGATAGCAG 59.965 45.833 0.00 0.00 41.98 4.24
2100 2307 3.943381 CCAGTGCTTGAGATTTGATAGCA 59.057 43.478 0.00 0.00 39.35 3.49
2101 2308 3.944015 ACCAGTGCTTGAGATTTGATAGC 59.056 43.478 0.00 0.00 0.00 2.97
2102 2309 4.334759 CCACCAGTGCTTGAGATTTGATAG 59.665 45.833 0.00 0.00 0.00 2.08
2103 2310 4.019411 TCCACCAGTGCTTGAGATTTGATA 60.019 41.667 0.00 0.00 0.00 2.15
2104 2311 3.087031 CCACCAGTGCTTGAGATTTGAT 58.913 45.455 0.00 0.00 0.00 2.57
2105 2312 2.106338 TCCACCAGTGCTTGAGATTTGA 59.894 45.455 0.00 0.00 0.00 2.69
2106 2313 2.507484 TCCACCAGTGCTTGAGATTTG 58.493 47.619 0.00 0.00 0.00 2.32
2107 2314 2.957402 TCCACCAGTGCTTGAGATTT 57.043 45.000 0.00 0.00 0.00 2.17
2108 2315 3.446442 AATCCACCAGTGCTTGAGATT 57.554 42.857 0.00 0.00 0.00 2.40
2109 2316 3.245016 TGAAATCCACCAGTGCTTGAGAT 60.245 43.478 0.00 0.00 0.00 2.75
2110 2317 2.106338 TGAAATCCACCAGTGCTTGAGA 59.894 45.455 0.00 0.00 0.00 3.27
2111 2318 2.507484 TGAAATCCACCAGTGCTTGAG 58.493 47.619 0.00 0.00 0.00 3.02
2112 2319 2.655090 TGAAATCCACCAGTGCTTGA 57.345 45.000 0.00 0.00 0.00 3.02
2113 2320 2.821378 TGATGAAATCCACCAGTGCTTG 59.179 45.455 0.00 0.00 44.73 4.01
2114 2321 3.159213 TGATGAAATCCACCAGTGCTT 57.841 42.857 0.00 0.00 44.73 3.91
2115 2322 2.821969 GTTGATGAAATCCACCAGTGCT 59.178 45.455 0.00 0.00 44.73 4.40
2116 2323 2.414559 CGTTGATGAAATCCACCAGTGC 60.415 50.000 0.00 0.00 44.73 4.40
2117 2324 3.073678 TCGTTGATGAAATCCACCAGTG 58.926 45.455 0.00 0.00 44.73 3.66
2118 2325 3.417069 TCGTTGATGAAATCCACCAGT 57.583 42.857 0.00 0.00 44.73 4.00
2119 2326 4.439153 CCAATCGTTGATGAAATCCACCAG 60.439 45.833 0.15 0.00 44.73 4.00
2120 2327 3.443329 CCAATCGTTGATGAAATCCACCA 59.557 43.478 0.15 0.00 44.73 4.17
2121 2328 3.694072 TCCAATCGTTGATGAAATCCACC 59.306 43.478 0.15 0.00 44.73 4.61
2122 2329 4.155826 TGTCCAATCGTTGATGAAATCCAC 59.844 41.667 0.15 0.00 44.73 4.02
2123 2330 4.331108 TGTCCAATCGTTGATGAAATCCA 58.669 39.130 0.15 0.00 44.73 3.41
2124 2331 4.635765 TCTGTCCAATCGTTGATGAAATCC 59.364 41.667 0.15 0.00 44.73 3.01
2125 2332 5.728898 GCTCTGTCCAATCGTTGATGAAATC 60.729 44.000 0.15 0.00 45.83 2.17
2126 2333 4.095483 GCTCTGTCCAATCGTTGATGAAAT 59.905 41.667 0.15 0.00 0.00 2.17
2127 2334 3.436704 GCTCTGTCCAATCGTTGATGAAA 59.563 43.478 0.15 0.00 0.00 2.69
2128 2335 3.002791 GCTCTGTCCAATCGTTGATGAA 58.997 45.455 0.15 0.00 0.00 2.57
2129 2336 2.234661 AGCTCTGTCCAATCGTTGATGA 59.765 45.455 0.15 0.00 0.00 2.92
2130 2337 2.350804 CAGCTCTGTCCAATCGTTGATG 59.649 50.000 0.00 0.00 0.00 3.07
2131 2338 2.625737 CAGCTCTGTCCAATCGTTGAT 58.374 47.619 0.00 0.00 0.00 2.57
2132 2339 1.941209 GCAGCTCTGTCCAATCGTTGA 60.941 52.381 0.00 0.00 0.00 3.18
2133 2340 0.445436 GCAGCTCTGTCCAATCGTTG 59.555 55.000 0.00 0.00 0.00 4.10
2134 2341 0.035317 TGCAGCTCTGTCCAATCGTT 59.965 50.000 0.00 0.00 0.00 3.85
2135 2342 0.390866 CTGCAGCTCTGTCCAATCGT 60.391 55.000 0.00 0.00 0.00 3.73
2136 2343 0.108472 TCTGCAGCTCTGTCCAATCG 60.108 55.000 9.47 0.00 0.00 3.34
2137 2344 2.328819 ATCTGCAGCTCTGTCCAATC 57.671 50.000 9.47 0.00 0.00 2.67
2138 2345 2.158842 GGTATCTGCAGCTCTGTCCAAT 60.159 50.000 9.47 0.00 0.00 3.16
2139 2346 1.208052 GGTATCTGCAGCTCTGTCCAA 59.792 52.381 9.47 0.00 0.00 3.53
2140 2347 0.826715 GGTATCTGCAGCTCTGTCCA 59.173 55.000 9.47 0.00 0.00 4.02
2141 2348 1.118838 AGGTATCTGCAGCTCTGTCC 58.881 55.000 9.47 5.55 0.00 4.02
2142 2349 1.753649 TCAGGTATCTGCAGCTCTGTC 59.246 52.381 9.47 0.00 40.69 3.51
2143 2350 1.857965 TCAGGTATCTGCAGCTCTGT 58.142 50.000 9.47 0.00 40.69 3.41
2144 2351 2.429971 TCTTCAGGTATCTGCAGCTCTG 59.570 50.000 9.47 12.98 40.69 3.35
2145 2352 2.744760 TCTTCAGGTATCTGCAGCTCT 58.255 47.619 9.47 0.36 40.69 4.09
2146 2353 3.533606 TTCTTCAGGTATCTGCAGCTC 57.466 47.619 9.47 1.34 40.69 4.09
2147 2354 3.988976 TTTCTTCAGGTATCTGCAGCT 57.011 42.857 9.47 0.82 40.69 4.24
2148 2355 3.181502 GCTTTTCTTCAGGTATCTGCAGC 60.182 47.826 9.47 0.00 40.69 5.25
2149 2356 3.376546 GGCTTTTCTTCAGGTATCTGCAG 59.623 47.826 7.63 7.63 40.69 4.41
2150 2357 3.347216 GGCTTTTCTTCAGGTATCTGCA 58.653 45.455 0.00 0.00 40.69 4.41
2151 2358 2.352960 CGGCTTTTCTTCAGGTATCTGC 59.647 50.000 0.00 0.00 40.69 4.26
2152 2359 2.939103 CCGGCTTTTCTTCAGGTATCTG 59.061 50.000 0.00 0.00 42.21 2.90
2153 2360 2.838202 TCCGGCTTTTCTTCAGGTATCT 59.162 45.455 0.00 0.00 0.00 1.98
2154 2361 3.261981 TCCGGCTTTTCTTCAGGTATC 57.738 47.619 0.00 0.00 0.00 2.24
2155 2362 3.933861 ATCCGGCTTTTCTTCAGGTAT 57.066 42.857 0.00 0.00 0.00 2.73
2156 2363 4.020039 TGTTATCCGGCTTTTCTTCAGGTA 60.020 41.667 0.00 0.00 0.00 3.08
2157 2364 3.244770 TGTTATCCGGCTTTTCTTCAGGT 60.245 43.478 0.00 0.00 0.00 4.00
2158 2365 3.127030 GTGTTATCCGGCTTTTCTTCAGG 59.873 47.826 0.00 0.00 0.00 3.86
2159 2366 3.751175 TGTGTTATCCGGCTTTTCTTCAG 59.249 43.478 0.00 0.00 0.00 3.02
2160 2367 3.745799 TGTGTTATCCGGCTTTTCTTCA 58.254 40.909 0.00 0.00 0.00 3.02
2161 2368 4.965119 ATGTGTTATCCGGCTTTTCTTC 57.035 40.909 0.00 0.00 0.00 2.87
2162 2369 7.990886 TCTAATATGTGTTATCCGGCTTTTCTT 59.009 33.333 0.00 0.00 0.00 2.52
2163 2370 7.441458 GTCTAATATGTGTTATCCGGCTTTTCT 59.559 37.037 0.00 0.00 0.00 2.52
2164 2371 7.441458 AGTCTAATATGTGTTATCCGGCTTTTC 59.559 37.037 0.00 0.00 0.00 2.29
2165 2372 7.280356 AGTCTAATATGTGTTATCCGGCTTTT 58.720 34.615 0.00 0.00 0.00 2.27
2166 2373 6.827727 AGTCTAATATGTGTTATCCGGCTTT 58.172 36.000 0.00 0.00 0.00 3.51
2167 2374 6.420913 AGTCTAATATGTGTTATCCGGCTT 57.579 37.500 0.00 0.00 0.00 4.35
2168 2375 7.719871 ATAGTCTAATATGTGTTATCCGGCT 57.280 36.000 0.00 0.00 0.00 5.52
2169 2376 8.033038 TGAATAGTCTAATATGTGTTATCCGGC 58.967 37.037 0.00 0.00 0.00 6.13
2170 2377 9.355215 GTGAATAGTCTAATATGTGTTATCCGG 57.645 37.037 0.00 0.00 0.00 5.14
2177 2384 9.302345 CGTCAAAGTGAATAGTCTAATATGTGT 57.698 33.333 0.00 0.00 0.00 3.72
2178 2385 8.755941 CCGTCAAAGTGAATAGTCTAATATGTG 58.244 37.037 0.00 0.00 0.00 3.21
2179 2386 7.926555 CCCGTCAAAGTGAATAGTCTAATATGT 59.073 37.037 0.00 0.00 0.00 2.29
2180 2387 7.926555 ACCCGTCAAAGTGAATAGTCTAATATG 59.073 37.037 0.00 0.00 0.00 1.78
2181 2388 8.019656 ACCCGTCAAAGTGAATAGTCTAATAT 57.980 34.615 0.00 0.00 0.00 1.28
2182 2389 7.414222 ACCCGTCAAAGTGAATAGTCTAATA 57.586 36.000 0.00 0.00 0.00 0.98
2183 2390 6.295719 ACCCGTCAAAGTGAATAGTCTAAT 57.704 37.500 0.00 0.00 0.00 1.73
2184 2391 5.337009 GGACCCGTCAAAGTGAATAGTCTAA 60.337 44.000 0.00 0.00 0.00 2.10
2185 2392 4.159135 GGACCCGTCAAAGTGAATAGTCTA 59.841 45.833 0.00 0.00 0.00 2.59
2186 2393 3.056035 GGACCCGTCAAAGTGAATAGTCT 60.056 47.826 0.00 0.00 0.00 3.24
2187 2394 3.259902 GGACCCGTCAAAGTGAATAGTC 58.740 50.000 0.00 0.00 0.00 2.59
2188 2395 2.635915 TGGACCCGTCAAAGTGAATAGT 59.364 45.455 0.00 0.00 0.00 2.12
2189 2396 3.262420 CTGGACCCGTCAAAGTGAATAG 58.738 50.000 0.00 0.00 0.00 1.73
2190 2397 2.027561 CCTGGACCCGTCAAAGTGAATA 60.028 50.000 0.00 0.00 0.00 1.75
2191 2398 1.271379 CCTGGACCCGTCAAAGTGAAT 60.271 52.381 0.00 0.00 0.00 2.57
2192 2399 0.107831 CCTGGACCCGTCAAAGTGAA 59.892 55.000 0.00 0.00 0.00 3.18
2193 2400 1.752198 CCTGGACCCGTCAAAGTGA 59.248 57.895 0.00 0.00 0.00 3.41
2194 2401 1.966451 GCCTGGACCCGTCAAAGTG 60.966 63.158 0.00 0.00 0.00 3.16
2195 2402 1.990160 TTGCCTGGACCCGTCAAAGT 61.990 55.000 0.00 0.00 0.00 2.66
2196 2403 0.609131 ATTGCCTGGACCCGTCAAAG 60.609 55.000 0.00 0.00 0.00 2.77
2197 2404 0.178975 AATTGCCTGGACCCGTCAAA 60.179 50.000 0.00 0.00 0.00 2.69
2198 2405 0.893270 CAATTGCCTGGACCCGTCAA 60.893 55.000 0.00 0.00 0.00 3.18
2199 2406 1.303236 CAATTGCCTGGACCCGTCA 60.303 57.895 0.00 0.00 0.00 4.35
2200 2407 2.046285 CCAATTGCCTGGACCCGTC 61.046 63.158 0.00 0.00 38.96 4.79
2201 2408 2.035626 CCAATTGCCTGGACCCGT 59.964 61.111 0.00 0.00 38.96 5.28
2202 2409 1.750399 CTCCAATTGCCTGGACCCG 60.750 63.158 0.00 0.00 40.71 5.28
2203 2410 1.380380 CCTCCAATTGCCTGGACCC 60.380 63.158 0.00 0.00 40.71 4.46
2204 2411 0.681243 GACCTCCAATTGCCTGGACC 60.681 60.000 13.92 0.00 40.71 4.46
2205 2412 0.329596 AGACCTCCAATTGCCTGGAC 59.670 55.000 13.92 9.22 40.71 4.02
2206 2413 0.620556 GAGACCTCCAATTGCCTGGA 59.379 55.000 13.92 0.80 43.45 3.86
2207 2414 0.745845 CGAGACCTCCAATTGCCTGG 60.746 60.000 0.00 4.11 37.87 4.45
2208 2415 0.745845 CCGAGACCTCCAATTGCCTG 60.746 60.000 0.00 0.00 0.00 4.85
2209 2416 1.604378 CCGAGACCTCCAATTGCCT 59.396 57.895 0.00 0.00 0.00 4.75
2210 2417 1.452108 CCCGAGACCTCCAATTGCC 60.452 63.158 0.00 0.00 0.00 4.52
2211 2418 1.452108 CCCCGAGACCTCCAATTGC 60.452 63.158 0.00 0.00 0.00 3.56
2212 2419 1.224592 CCCCCGAGACCTCCAATTG 59.775 63.158 0.00 0.00 0.00 2.32
2213 2420 2.680370 GCCCCCGAGACCTCCAATT 61.680 63.158 0.00 0.00 0.00 2.32
2214 2421 3.090532 GCCCCCGAGACCTCCAAT 61.091 66.667 0.00 0.00 0.00 3.16
2215 2422 4.332543 AGCCCCCGAGACCTCCAA 62.333 66.667 0.00 0.00 0.00 3.53
2218 2425 4.779733 TCCAGCCCCCGAGACCTC 62.780 72.222 0.00 0.00 0.00 3.85
2219 2426 4.787280 CTCCAGCCCCCGAGACCT 62.787 72.222 0.00 0.00 0.00 3.85
2221 2428 3.462678 GACTCCAGCCCCCGAGAC 61.463 72.222 0.00 0.00 0.00 3.36
2226 2433 2.240162 CTAACACGACTCCAGCCCCC 62.240 65.000 0.00 0.00 0.00 5.40
2227 2434 1.218316 CTAACACGACTCCAGCCCC 59.782 63.158 0.00 0.00 0.00 5.80
2228 2435 1.448013 GCTAACACGACTCCAGCCC 60.448 63.158 0.00 0.00 0.00 5.19
2229 2436 0.037232 AAGCTAACACGACTCCAGCC 60.037 55.000 0.00 0.00 32.58 4.85
2230 2437 1.351153 GAAGCTAACACGACTCCAGC 58.649 55.000 0.00 0.00 0.00 4.85
2231 2438 1.404315 GGGAAGCTAACACGACTCCAG 60.404 57.143 0.00 0.00 0.00 3.86
2232 2439 0.606604 GGGAAGCTAACACGACTCCA 59.393 55.000 0.00 0.00 0.00 3.86
2233 2440 0.108281 GGGGAAGCTAACACGACTCC 60.108 60.000 0.00 0.00 0.00 3.85
2234 2441 0.896226 AGGGGAAGCTAACACGACTC 59.104 55.000 0.00 0.00 0.00 3.36
2235 2442 0.896226 GAGGGGAAGCTAACACGACT 59.104 55.000 0.00 0.00 0.00 4.18
2236 2443 0.458025 CGAGGGGAAGCTAACACGAC 60.458 60.000 0.00 0.00 0.00 4.34
2237 2444 0.609957 TCGAGGGGAAGCTAACACGA 60.610 55.000 0.00 0.00 0.00 4.35
2238 2445 0.179134 CTCGAGGGGAAGCTAACACG 60.179 60.000 3.91 0.00 0.00 4.49
2239 2446 0.175989 CCTCGAGGGGAAGCTAACAC 59.824 60.000 24.62 0.00 0.00 3.32
2240 2447 0.252103 ACCTCGAGGGGAAGCTAACA 60.252 55.000 34.04 0.00 40.27 2.41
2241 2448 0.175989 CACCTCGAGGGGAAGCTAAC 59.824 60.000 34.04 0.00 42.67 2.34
2242 2449 0.040646 TCACCTCGAGGGGAAGCTAA 59.959 55.000 34.23 10.55 46.41 3.09
2243 2450 1.695465 TCACCTCGAGGGGAAGCTA 59.305 57.895 34.23 11.40 46.41 3.32
2244 2451 2.445614 TCACCTCGAGGGGAAGCT 59.554 61.111 34.23 9.31 46.41 3.74
2249 2456 2.200373 AAATTTGTCACCTCGAGGGG 57.800 50.000 34.04 31.60 40.94 4.79
2250 2457 2.884639 ACAAAATTTGTCACCTCGAGGG 59.115 45.455 34.04 22.55 40.56 4.30
2251 2458 4.568152 AACAAAATTTGTCACCTCGAGG 57.432 40.909 30.11 30.11 44.59 4.63
2252 2459 6.578545 CACATAACAAAATTTGTCACCTCGAG 59.421 38.462 12.11 5.13 44.59 4.04
2253 2460 6.434596 CACATAACAAAATTTGTCACCTCGA 58.565 36.000 12.11 0.00 44.59 4.04
2254 2461 5.116983 GCACATAACAAAATTTGTCACCTCG 59.883 40.000 12.11 1.50 44.59 4.63
2255 2462 6.215845 AGCACATAACAAAATTTGTCACCTC 58.784 36.000 12.11 1.17 44.59 3.85
2256 2463 6.160576 AGCACATAACAAAATTTGTCACCT 57.839 33.333 12.11 0.00 44.59 4.00
2257 2464 6.087555 CGTAGCACATAACAAAATTTGTCACC 59.912 38.462 12.11 0.00 44.59 4.02
2258 2465 6.087555 CCGTAGCACATAACAAAATTTGTCAC 59.912 38.462 12.11 0.00 44.59 3.67
2259 2466 6.146216 CCGTAGCACATAACAAAATTTGTCA 58.854 36.000 12.11 0.00 44.59 3.58
2260 2467 6.146898 ACCGTAGCACATAACAAAATTTGTC 58.853 36.000 12.11 0.00 44.59 3.18
2262 2469 6.638873 TCAACCGTAGCACATAACAAAATTTG 59.361 34.615 3.89 3.89 0.00 2.32
2263 2470 6.740110 TCAACCGTAGCACATAACAAAATTT 58.260 32.000 0.00 0.00 0.00 1.82
2264 2471 6.320494 TCAACCGTAGCACATAACAAAATT 57.680 33.333 0.00 0.00 0.00 1.82
2265 2472 5.950758 TCAACCGTAGCACATAACAAAAT 57.049 34.783 0.00 0.00 0.00 1.82
2266 2473 5.239744 ACATCAACCGTAGCACATAACAAAA 59.760 36.000 0.00 0.00 0.00 2.44
2267 2474 4.757657 ACATCAACCGTAGCACATAACAAA 59.242 37.500 0.00 0.00 0.00 2.83
2268 2475 4.320023 ACATCAACCGTAGCACATAACAA 58.680 39.130 0.00 0.00 0.00 2.83
2269 2476 3.932822 ACATCAACCGTAGCACATAACA 58.067 40.909 0.00 0.00 0.00 2.41
2270 2477 4.939509 AACATCAACCGTAGCACATAAC 57.060 40.909 0.00 0.00 0.00 1.89
2271 2478 4.393680 GGAAACATCAACCGTAGCACATAA 59.606 41.667 0.00 0.00 0.00 1.90
2272 2479 3.936453 GGAAACATCAACCGTAGCACATA 59.064 43.478 0.00 0.00 0.00 2.29
2273 2480 2.747446 GGAAACATCAACCGTAGCACAT 59.253 45.455 0.00 0.00 0.00 3.21
2274 2481 2.147958 GGAAACATCAACCGTAGCACA 58.852 47.619 0.00 0.00 0.00 4.57
2275 2482 1.467342 GGGAAACATCAACCGTAGCAC 59.533 52.381 0.00 0.00 0.00 4.40
2276 2483 1.349688 AGGGAAACATCAACCGTAGCA 59.650 47.619 0.00 0.00 0.00 3.49
2277 2484 1.737793 CAGGGAAACATCAACCGTAGC 59.262 52.381 0.00 0.00 0.00 3.58
2278 2485 3.053831 ACAGGGAAACATCAACCGTAG 57.946 47.619 0.00 0.00 0.00 3.51
2279 2486 3.579586 AGTACAGGGAAACATCAACCGTA 59.420 43.478 0.00 0.00 0.00 4.02
2280 2487 2.370849 AGTACAGGGAAACATCAACCGT 59.629 45.455 0.00 0.00 0.00 4.83
2281 2488 3.053831 AGTACAGGGAAACATCAACCG 57.946 47.619 0.00 0.00 0.00 4.44
2282 2489 5.310451 TGTTAGTACAGGGAAACATCAACC 58.690 41.667 0.00 0.00 0.00 3.77
2283 2490 6.870971 TTGTTAGTACAGGGAAACATCAAC 57.129 37.500 0.00 0.00 35.28 3.18
2284 2491 6.072175 GCATTGTTAGTACAGGGAAACATCAA 60.072 38.462 0.00 0.00 35.28 2.57
2285 2492 5.414454 GCATTGTTAGTACAGGGAAACATCA 59.586 40.000 0.00 0.00 35.28 3.07
2286 2493 5.414454 TGCATTGTTAGTACAGGGAAACATC 59.586 40.000 0.00 0.00 35.28 3.06
2287 2494 5.321102 TGCATTGTTAGTACAGGGAAACAT 58.679 37.500 0.00 0.00 35.28 2.71
2288 2495 4.720046 TGCATTGTTAGTACAGGGAAACA 58.280 39.130 0.00 0.00 35.28 2.83
2289 2496 4.379499 GCTGCATTGTTAGTACAGGGAAAC 60.379 45.833 0.00 0.00 35.28 2.78
2290 2497 3.756434 GCTGCATTGTTAGTACAGGGAAA 59.244 43.478 0.00 0.00 35.28 3.13
2291 2498 3.009033 AGCTGCATTGTTAGTACAGGGAA 59.991 43.478 1.02 0.00 35.28 3.97
2292 2499 2.571653 AGCTGCATTGTTAGTACAGGGA 59.428 45.455 1.02 0.00 35.28 4.20
2293 2500 2.679837 CAGCTGCATTGTTAGTACAGGG 59.320 50.000 0.00 0.00 35.28 4.45


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

AutoCloner maintained by Alex Coulton.