Multiple sequence alignment - TraesCS1B01G380700

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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 TraesCS1B01G380700 chr1B 100.000 2515 0 0 1 2515 613344282 613346796 0.000000e+00 4645.0
1 TraesCS1B01G380700 chr1B 93.870 261 15 1 2237 2497 613407955 613408214 2.800000e-105 392.0
2 TraesCS1B01G380700 chr1B 100.000 179 0 0 2822 3000 613347103 613347281 6.200000e-87 331.0
3 TraesCS1B01G380700 chr1B 83.601 311 14 18 1956 2243 613396414 613396710 1.070000e-64 257.0
4 TraesCS1B01G380700 chr1B 97.321 112 2 1 2822 2932 613408744 613408855 3.950000e-44 189.0
5 TraesCS1B01G380700 chr1B 80.645 93 17 1 89 181 313450840 313450749 1.490000e-08 71.3
6 TraesCS1B01G380700 chr1D 91.992 1486 69 22 667 2134 447918118 447919571 0.000000e+00 2039.0
7 TraesCS1B01G380700 chr1D 90.588 680 43 13 1 668 447917261 447917931 0.000000e+00 881.0
8 TraesCS1B01G380700 chr1D 94.000 50 2 1 2931 2980 348037658 348037706 1.150000e-09 75.0
9 TraesCS1B01G380700 chr1A 90.021 1443 83 28 661 2090 544041908 544043302 0.000000e+00 1810.0
10 TraesCS1B01G380700 chr1A 91.470 551 38 4 1 542 544041191 544041741 0.000000e+00 749.0
11 TraesCS1B01G380700 chr7B 98.529 68 1 0 2931 2998 623935352 623935419 1.460000e-23 121.0
12 TraesCS1B01G380700 chr7B 86.567 67 7 2 74 139 667267857 667267792 4.150000e-09 73.1
13 TraesCS1B01G380700 chr7B 100.000 38 0 0 2963 3000 4801207 4801170 1.490000e-08 71.3
14 TraesCS1B01G380700 chr4B 98.507 67 1 0 2934 3000 364039588 364039522 5.250000e-23 119.0
15 TraesCS1B01G380700 chr2B 95.775 71 3 0 2930 3000 553657240 553657170 6.800000e-22 115.0
16 TraesCS1B01G380700 chr2B 82.105 95 15 2 2835 2927 447493681 447493775 2.480000e-11 80.5
17 TraesCS1B01G380700 chr3D 90.805 87 5 3 2844 2929 300928062 300928146 2.440000e-21 113.0
18 TraesCS1B01G380700 chr4D 93.333 75 4 1 2926 3000 483466792 483466719 3.160000e-20 110.0
19 TraesCS1B01G380700 chr7D 84.071 113 14 3 78 187 71339578 71339689 4.090000e-19 106.0
20 TraesCS1B01G380700 chr5D 91.429 70 6 0 2931 3000 563204259 563204328 2.460000e-16 97.1
21 TraesCS1B01G380700 chr2D 89.706 68 7 0 2932 2999 545738810 545738877 1.480000e-13 87.9
22 TraesCS1B01G380700 chr6D 80.357 112 19 3 74 185 453241419 453241527 6.890000e-12 82.4
23 TraesCS1B01G380700 chrUn 81.818 99 13 4 89 185 71170017 71169922 8.920000e-11 78.7
24 TraesCS1B01G380700 chr4A 97.297 37 0 1 2946 2982 661438897 661438932 8.980000e-06 62.1
25 TraesCS1B01G380700 chr7A 88.235 51 5 1 89 139 686253288 686253337 3.230000e-05 60.2


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 TraesCS1B01G380700 chr1B 613344282 613347281 2999 False 2488.0 4645 100.0000 1 3000 2 chr1B.!!$F2 2999
1 TraesCS1B01G380700 chr1B 613407955 613408855 900 False 290.5 392 95.5955 2237 2932 2 chr1B.!!$F3 695
2 TraesCS1B01G380700 chr1D 447917261 447919571 2310 False 1460.0 2039 91.2900 1 2134 2 chr1D.!!$F2 2133
3 TraesCS1B01G380700 chr1A 544041191 544043302 2111 False 1279.5 1810 90.7455 1 2090 2 chr1A.!!$F1 2089

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
799 1009 0.103937 GAGAGAGCATCCAGTTCCGG 59.896 60.0 0.0 0.0 33.66 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2440 2691 0.394352 ACTTGAATGATGGGGCGGTC 60.394 55.0 0.0 0.0 0.0 4.79 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
82 83 7.970102 TGTAACAAATGTAAAGTACTCTCCCT 58.030 34.615 0.00 0.00 0.00 4.20
232 241 5.888161 ACAAGTTCAACTCAGGACAAATCTT 59.112 36.000 0.00 0.00 0.00 2.40
261 270 4.133078 CAATTTATCTGGAGCAGAGGGAC 58.867 47.826 0.00 0.00 44.08 4.46
351 360 2.360801 GCAGAAGCTTTGTACCCAAACA 59.639 45.455 0.00 0.00 35.67 2.83
352 361 3.005791 GCAGAAGCTTTGTACCCAAACAT 59.994 43.478 0.00 0.00 35.67 2.71
436 446 0.589729 CAACGCCACAAGCATATCGC 60.590 55.000 0.00 0.00 44.04 4.58
439 449 2.180204 GCCACAAGCATATCGCCGT 61.180 57.895 0.00 0.00 44.04 5.68
453 463 1.141019 GCCGTCGATGTTCCTAGCA 59.859 57.895 3.52 0.00 0.00 3.49
454 464 0.459585 GCCGTCGATGTTCCTAGCAA 60.460 55.000 3.52 0.00 0.00 3.91
455 465 1.806623 GCCGTCGATGTTCCTAGCAAT 60.807 52.381 3.52 0.00 0.00 3.56
473 486 3.276857 CAATAACATCTGGCTGCAGACT 58.723 45.455 22.80 0.66 33.58 3.24
492 512 0.878416 TTTGCGATCAAAAGACCCCG 59.122 50.000 0.00 0.00 39.08 5.73
499 519 1.208844 TCAAAAGACCCCGGGGCATA 61.209 55.000 40.67 15.28 39.32 3.14
521 542 5.284861 ACCGGCTTTTCCAATAAAAGTTT 57.715 34.783 0.00 0.00 38.96 2.66
615 636 3.675225 CGTTGCGATCATAGAGGTAATGG 59.325 47.826 0.00 0.00 0.00 3.16
662 683 1.751351 GGCTTTTGGGAGATGCTAACC 59.249 52.381 0.00 0.00 0.00 2.85
663 684 2.621668 GGCTTTTGGGAGATGCTAACCT 60.622 50.000 0.00 0.00 0.00 3.50
674 884 4.385825 AGATGCTAACCTGAACGTCAAAA 58.614 39.130 0.00 0.00 0.00 2.44
685 895 6.039270 ACCTGAACGTCAAAATTCTTGATTCA 59.961 34.615 13.07 13.07 30.98 2.57
799 1009 0.103937 GAGAGAGCATCCAGTTCCGG 59.896 60.000 0.00 0.00 33.66 5.14
895 1107 2.754946 TCACCAGCTACTTTAACCCG 57.245 50.000 0.00 0.00 0.00 5.28
919 1131 9.070149 CCGTATAAGTACACTTGTTCTTAGAAC 57.930 37.037 17.34 17.34 39.87 3.01
925 1137 9.490379 AAGTACACTTGTTCTTAGAACATTAGG 57.510 33.333 25.69 17.75 34.57 2.69
976 1188 1.210478 CTGGTGTTATAGCCCTGCTGT 59.790 52.381 0.00 0.00 40.10 4.40
1053 1266 7.765360 TCAGTTTCATTTTCAGTCAAGCAAATT 59.235 29.630 0.00 0.00 0.00 1.82
1075 1288 7.747155 ATTGGATTCTCATCACATCTGAATC 57.253 36.000 0.00 0.00 41.04 2.52
1220 1436 1.135859 GCGTTCACTCCATTGCTGAAG 60.136 52.381 0.00 0.00 0.00 3.02
1235 1451 0.183492 TGAAGTTCCAAGCTGCACCT 59.817 50.000 1.02 0.00 0.00 4.00
1290 1506 3.471244 GAGGAGGATGGTCGCGTCG 62.471 68.421 5.77 0.00 0.00 5.12
1517 1753 4.628160 GATCGGCAAGATCGCGTA 57.372 55.556 5.77 0.00 45.35 4.42
1518 1754 2.881441 GATCGGCAAGATCGCGTAA 58.119 52.632 5.77 0.00 45.35 3.18
1519 1755 1.205657 GATCGGCAAGATCGCGTAAA 58.794 50.000 5.77 0.00 45.35 2.01
1520 1756 0.928229 ATCGGCAAGATCGCGTAAAC 59.072 50.000 5.77 0.00 33.45 2.01
1521 1757 1.013755 CGGCAAGATCGCGTAAACG 60.014 57.895 5.77 0.00 43.27 3.60
1522 1758 1.347221 GGCAAGATCGCGTAAACGG 59.653 57.895 5.77 0.00 40.23 4.44
1523 1759 1.296649 GCAAGATCGCGTAAACGGC 60.297 57.895 5.77 0.42 40.23 5.68
1524 1760 1.962092 GCAAGATCGCGTAAACGGCA 61.962 55.000 5.77 0.00 40.23 5.69
1525 1761 0.650512 CAAGATCGCGTAAACGGCAT 59.349 50.000 5.77 0.00 40.23 4.40
1526 1762 1.855978 CAAGATCGCGTAAACGGCATA 59.144 47.619 5.77 0.00 40.23 3.14
1527 1763 2.433868 AGATCGCGTAAACGGCATAT 57.566 45.000 5.77 0.00 40.23 1.78
1528 1764 3.564235 AGATCGCGTAAACGGCATATA 57.436 42.857 5.77 0.00 40.23 0.86
1529 1765 4.106029 AGATCGCGTAAACGGCATATAT 57.894 40.909 5.77 0.00 40.23 0.86
1530 1766 3.857665 AGATCGCGTAAACGGCATATATG 59.142 43.478 5.77 8.45 40.23 1.78
1531 1767 3.285816 TCGCGTAAACGGCATATATGA 57.714 42.857 17.10 0.00 40.23 2.15
1532 1768 3.840468 TCGCGTAAACGGCATATATGAT 58.160 40.909 17.10 0.00 40.23 2.45
1533 1769 4.984205 TCGCGTAAACGGCATATATGATA 58.016 39.130 17.10 0.00 40.23 2.15
1534 1770 4.794762 TCGCGTAAACGGCATATATGATAC 59.205 41.667 17.10 9.16 40.23 2.24
1535 1771 4.316171 CGCGTAAACGGCATATATGATACG 60.316 45.833 17.10 18.75 40.23 3.06
1536 1772 4.027132 GCGTAAACGGCATATATGATACGG 60.027 45.833 17.10 5.97 40.23 4.02
1539 1775 3.165058 ACGGCATATATGATACGGCAG 57.835 47.619 17.10 3.23 0.00 4.85
1565 1802 2.945668 GTGCTTTTCTTGACTGGACTGT 59.054 45.455 0.00 0.00 0.00 3.55
1573 1810 1.887242 GACTGGACTGTTGCGTGCA 60.887 57.895 0.00 0.00 34.03 4.57
2008 2252 4.201724 CGCAAGAATTACTAAGTGGTCAGC 60.202 45.833 0.00 0.00 43.02 4.26
2012 2256 3.955650 ATTACTAAGTGGTCAGCGTGT 57.044 42.857 0.00 0.00 0.00 4.49
2013 2257 5.184479 AGAATTACTAAGTGGTCAGCGTGTA 59.816 40.000 0.00 0.00 0.00 2.90
2014 2258 2.719426 ACTAAGTGGTCAGCGTGTAC 57.281 50.000 0.00 0.00 0.00 2.90
2015 2259 2.236766 ACTAAGTGGTCAGCGTGTACT 58.763 47.619 0.00 0.00 0.00 2.73
2016 2260 2.626743 ACTAAGTGGTCAGCGTGTACTT 59.373 45.455 0.00 0.00 35.86 2.24
2017 2261 3.822735 ACTAAGTGGTCAGCGTGTACTTA 59.177 43.478 0.00 0.00 33.93 2.24
2018 2262 2.719426 AGTGGTCAGCGTGTACTTAC 57.281 50.000 0.00 0.00 0.00 2.34
2019 2263 2.236766 AGTGGTCAGCGTGTACTTACT 58.763 47.619 0.00 0.00 0.00 2.24
2020 2264 3.415212 AGTGGTCAGCGTGTACTTACTA 58.585 45.455 0.00 0.00 0.00 1.82
2021 2265 3.190118 AGTGGTCAGCGTGTACTTACTAC 59.810 47.826 0.00 0.00 0.00 2.73
2022 2266 3.190118 GTGGTCAGCGTGTACTTACTACT 59.810 47.826 0.00 0.00 0.00 2.57
2023 2267 3.438087 TGGTCAGCGTGTACTTACTACTC 59.562 47.826 0.00 0.00 0.00 2.59
2024 2268 3.438087 GGTCAGCGTGTACTTACTACTCA 59.562 47.826 0.00 0.00 0.00 3.41
2025 2269 4.437121 GGTCAGCGTGTACTTACTACTCAG 60.437 50.000 0.00 0.00 0.00 3.35
2026 2270 4.153835 GTCAGCGTGTACTTACTACTCAGT 59.846 45.833 0.00 0.00 38.91 3.41
2027 2271 5.349817 GTCAGCGTGTACTTACTACTCAGTA 59.650 44.000 0.00 0.00 36.14 2.74
2028 2272 5.349817 TCAGCGTGTACTTACTACTCAGTAC 59.650 44.000 3.04 3.04 43.91 2.73
2029 2273 5.350914 CAGCGTGTACTTACTACTCAGTACT 59.649 44.000 10.09 0.00 43.96 2.73
2030 2274 6.533012 CAGCGTGTACTTACTACTCAGTACTA 59.467 42.308 10.09 0.00 43.96 1.82
2031 2275 6.533367 AGCGTGTACTTACTACTCAGTACTAC 59.467 42.308 10.09 6.54 43.96 2.73
2063 2307 0.834612 ATGGCAAATTCATGGCTGGG 59.165 50.000 5.42 0.00 45.45 4.45
2071 2315 0.615331 TTCATGGCTGGGTCTCTGTC 59.385 55.000 0.00 0.00 0.00 3.51
2090 2337 2.535984 GTCGTACAGATTGATTCGGCTG 59.464 50.000 0.00 0.00 34.65 4.85
2135 2386 7.553881 GCTTAATGCAGGAGATTTACTACAA 57.446 36.000 0.00 0.00 42.31 2.41
2136 2387 7.634522 GCTTAATGCAGGAGATTTACTACAAG 58.365 38.462 0.00 0.00 42.31 3.16
2137 2388 7.254932 GCTTAATGCAGGAGATTTACTACAAGG 60.255 40.741 0.00 0.00 42.31 3.61
2138 2389 3.873910 TGCAGGAGATTTACTACAAGGC 58.126 45.455 0.00 0.00 0.00 4.35
2139 2390 2.866762 GCAGGAGATTTACTACAAGGCG 59.133 50.000 0.00 0.00 0.00 5.52
2140 2391 3.430374 GCAGGAGATTTACTACAAGGCGA 60.430 47.826 0.00 0.00 0.00 5.54
2141 2392 4.113354 CAGGAGATTTACTACAAGGCGAC 58.887 47.826 0.00 0.00 0.00 5.19
2142 2393 3.767673 AGGAGATTTACTACAAGGCGACA 59.232 43.478 0.00 0.00 0.00 4.35
2143 2394 4.406003 AGGAGATTTACTACAAGGCGACAT 59.594 41.667 0.00 0.00 0.00 3.06
2144 2395 4.508124 GGAGATTTACTACAAGGCGACATG 59.492 45.833 0.00 0.00 34.56 3.21
2145 2396 4.442706 AGATTTACTACAAGGCGACATGG 58.557 43.478 0.00 0.00 32.07 3.66
2146 2397 3.688694 TTTACTACAAGGCGACATGGT 57.311 42.857 0.00 0.00 32.07 3.55
2147 2398 3.688694 TTACTACAAGGCGACATGGTT 57.311 42.857 0.00 0.00 32.07 3.67
2148 2399 2.561478 ACTACAAGGCGACATGGTTT 57.439 45.000 0.00 0.00 32.07 3.27
2149 2400 2.151202 ACTACAAGGCGACATGGTTTG 58.849 47.619 0.00 0.00 32.07 2.93
2150 2401 1.468520 CTACAAGGCGACATGGTTTGG 59.531 52.381 0.00 0.00 32.07 3.28
2151 2402 0.467290 ACAAGGCGACATGGTTTGGT 60.467 50.000 0.00 0.00 32.07 3.67
2152 2403 1.202830 ACAAGGCGACATGGTTTGGTA 60.203 47.619 0.00 0.00 32.07 3.25
2153 2404 1.199097 CAAGGCGACATGGTTTGGTAC 59.801 52.381 0.00 0.00 0.00 3.34
2154 2405 0.690762 AGGCGACATGGTTTGGTACT 59.309 50.000 0.00 0.00 0.00 2.73
2155 2406 1.084289 GGCGACATGGTTTGGTACTC 58.916 55.000 0.00 0.00 0.00 2.59
2156 2407 1.338769 GGCGACATGGTTTGGTACTCT 60.339 52.381 0.00 0.00 0.00 3.24
2157 2408 2.000447 GCGACATGGTTTGGTACTCTC 59.000 52.381 0.00 0.00 0.00 3.20
2158 2409 2.259618 CGACATGGTTTGGTACTCTCG 58.740 52.381 0.00 0.00 0.00 4.04
2159 2410 2.094906 CGACATGGTTTGGTACTCTCGA 60.095 50.000 0.00 0.00 0.00 4.04
2160 2411 3.613193 CGACATGGTTTGGTACTCTCGAA 60.613 47.826 0.00 0.00 0.00 3.71
2161 2412 4.504858 GACATGGTTTGGTACTCTCGAAT 58.495 43.478 0.00 0.00 0.00 3.34
2162 2413 4.253685 ACATGGTTTGGTACTCTCGAATG 58.746 43.478 0.00 0.00 0.00 2.67
2163 2414 4.020573 ACATGGTTTGGTACTCTCGAATGA 60.021 41.667 0.00 0.00 0.00 2.57
2164 2415 3.921677 TGGTTTGGTACTCTCGAATGAC 58.078 45.455 0.00 0.00 0.00 3.06
2165 2416 3.322541 TGGTTTGGTACTCTCGAATGACA 59.677 43.478 0.00 0.00 0.00 3.58
2166 2417 4.202274 TGGTTTGGTACTCTCGAATGACAA 60.202 41.667 0.00 0.00 0.00 3.18
2167 2418 4.151867 GGTTTGGTACTCTCGAATGACAAC 59.848 45.833 0.00 0.00 0.00 3.32
2168 2419 4.594123 TTGGTACTCTCGAATGACAACA 57.406 40.909 0.00 0.00 0.00 3.33
2169 2420 4.594123 TGGTACTCTCGAATGACAACAA 57.406 40.909 0.00 0.00 0.00 2.83
2170 2421 4.951254 TGGTACTCTCGAATGACAACAAA 58.049 39.130 0.00 0.00 0.00 2.83
2171 2422 5.361427 TGGTACTCTCGAATGACAACAAAA 58.639 37.500 0.00 0.00 0.00 2.44
2172 2423 5.995282 TGGTACTCTCGAATGACAACAAAAT 59.005 36.000 0.00 0.00 0.00 1.82
2173 2424 7.156000 TGGTACTCTCGAATGACAACAAAATA 58.844 34.615 0.00 0.00 0.00 1.40
2174 2425 7.658167 TGGTACTCTCGAATGACAACAAAATAA 59.342 33.333 0.00 0.00 0.00 1.40
2175 2426 8.665685 GGTACTCTCGAATGACAACAAAATAAT 58.334 33.333 0.00 0.00 0.00 1.28
2182 2433 9.914923 TCGAATGACAACAAAATAATATTCTCG 57.085 29.630 0.00 0.00 0.00 4.04
2183 2434 9.914923 CGAATGACAACAAAATAATATTCTCGA 57.085 29.630 0.00 0.00 0.00 4.04
2196 2447 9.667107 AATAATATTCTCGAAGAAGAAACCACA 57.333 29.630 0.00 0.00 37.69 4.17
2197 2448 7.979444 AATATTCTCGAAGAAGAAACCACAA 57.021 32.000 0.00 0.00 37.69 3.33
2198 2449 5.674933 ATTCTCGAAGAAGAAACCACAAC 57.325 39.130 0.00 0.00 37.69 3.32
2199 2450 4.131649 TCTCGAAGAAGAAACCACAACA 57.868 40.909 0.00 0.00 34.09 3.33
2200 2451 4.509616 TCTCGAAGAAGAAACCACAACAA 58.490 39.130 0.00 0.00 34.09 2.83
2201 2452 4.570772 TCTCGAAGAAGAAACCACAACAAG 59.429 41.667 0.00 0.00 34.09 3.16
2202 2453 4.509616 TCGAAGAAGAAACCACAACAAGA 58.490 39.130 0.00 0.00 0.00 3.02
2203 2454 4.938832 TCGAAGAAGAAACCACAACAAGAA 59.061 37.500 0.00 0.00 0.00 2.52
2204 2455 5.028375 CGAAGAAGAAACCACAACAAGAAC 58.972 41.667 0.00 0.00 0.00 3.01
2205 2456 5.391523 CGAAGAAGAAACCACAACAAGAACA 60.392 40.000 0.00 0.00 0.00 3.18
2206 2457 5.975693 AGAAGAAACCACAACAAGAACAA 57.024 34.783 0.00 0.00 0.00 2.83
2207 2458 5.709966 AGAAGAAACCACAACAAGAACAAC 58.290 37.500 0.00 0.00 0.00 3.32
2208 2459 5.242838 AGAAGAAACCACAACAAGAACAACA 59.757 36.000 0.00 0.00 0.00 3.33
2209 2460 5.461032 AGAAACCACAACAAGAACAACAA 57.539 34.783 0.00 0.00 0.00 2.83
2210 2461 5.227152 AGAAACCACAACAAGAACAACAAC 58.773 37.500 0.00 0.00 0.00 3.32
2211 2462 3.210358 ACCACAACAAGAACAACAACG 57.790 42.857 0.00 0.00 0.00 4.10
2212 2463 2.814919 ACCACAACAAGAACAACAACGA 59.185 40.909 0.00 0.00 0.00 3.85
2213 2464 3.442273 ACCACAACAAGAACAACAACGAT 59.558 39.130 0.00 0.00 0.00 3.73
2214 2465 3.790820 CCACAACAAGAACAACAACGATG 59.209 43.478 0.00 0.00 0.00 3.84
2215 2466 4.438065 CCACAACAAGAACAACAACGATGA 60.438 41.667 0.00 0.00 0.00 2.92
2216 2467 5.273170 CACAACAAGAACAACAACGATGAT 58.727 37.500 0.00 0.00 0.00 2.45
2217 2468 5.171874 CACAACAAGAACAACAACGATGATG 59.828 40.000 0.00 0.00 35.60 3.07
2218 2469 5.065859 ACAACAAGAACAACAACGATGATGA 59.934 36.000 9.88 0.00 33.82 2.92
2219 2470 5.947228 ACAAGAACAACAACGATGATGAT 57.053 34.783 9.88 0.00 33.82 2.45
2220 2471 5.692814 ACAAGAACAACAACGATGATGATG 58.307 37.500 9.88 5.83 33.82 3.07
2221 2472 5.469760 ACAAGAACAACAACGATGATGATGA 59.530 36.000 9.88 0.00 33.82 2.92
2222 2473 6.149973 ACAAGAACAACAACGATGATGATGAT 59.850 34.615 9.88 0.00 33.82 2.45
2223 2474 6.115450 AGAACAACAACGATGATGATGATG 57.885 37.500 9.88 0.00 33.82 3.07
2224 2475 5.876460 AGAACAACAACGATGATGATGATGA 59.124 36.000 9.88 0.00 33.82 2.92
2225 2476 6.541278 AGAACAACAACGATGATGATGATGAT 59.459 34.615 9.88 0.00 33.82 2.45
2226 2477 6.056428 ACAACAACGATGATGATGATGATG 57.944 37.500 9.88 0.00 33.82 3.07
2227 2478 5.587443 ACAACAACGATGATGATGATGATGT 59.413 36.000 9.88 0.00 33.82 3.06
2228 2479 5.919272 ACAACGATGATGATGATGATGTC 57.081 39.130 0.00 0.00 0.00 3.06
2229 2480 4.446719 ACAACGATGATGATGATGATGTCG 59.553 41.667 0.00 0.00 0.00 4.35
2230 2481 4.510038 ACGATGATGATGATGATGTCGA 57.490 40.909 3.97 0.00 0.00 4.20
2231 2482 5.069501 ACGATGATGATGATGATGTCGAT 57.930 39.130 3.97 0.00 0.00 3.59
2232 2483 4.863131 ACGATGATGATGATGATGTCGATG 59.137 41.667 3.97 0.00 0.00 3.84
2233 2484 5.100259 CGATGATGATGATGATGTCGATGA 58.900 41.667 0.00 0.00 0.00 2.92
2234 2485 5.575606 CGATGATGATGATGATGTCGATGAA 59.424 40.000 0.00 0.00 0.00 2.57
2235 2486 6.453922 CGATGATGATGATGATGTCGATGAAC 60.454 42.308 0.00 0.00 0.00 3.18
2270 2521 6.119240 AGAGAGAAGTCCATGTTTCAATCA 57.881 37.500 0.00 0.00 0.00 2.57
2316 2567 7.593825 AGAATCAACCCTAAACTTTGAAATCG 58.406 34.615 0.00 0.00 33.13 3.34
2365 2616 2.094234 ACCCATGCAAGATTTTAACCGC 60.094 45.455 0.00 0.00 0.00 5.68
2367 2618 3.430651 CCCATGCAAGATTTTAACCGCAT 60.431 43.478 0.00 0.00 40.55 4.73
2368 2619 4.183101 CCATGCAAGATTTTAACCGCATT 58.817 39.130 0.00 0.00 37.98 3.56
2369 2620 4.630940 CCATGCAAGATTTTAACCGCATTT 59.369 37.500 0.00 0.00 37.98 2.32
2370 2621 5.122082 CCATGCAAGATTTTAACCGCATTTT 59.878 36.000 0.00 0.00 37.98 1.82
2371 2622 6.348376 CCATGCAAGATTTTAACCGCATTTTT 60.348 34.615 0.00 0.00 37.98 1.94
2411 2662 2.622436 CCCTCTCCTCACATCGTTTTC 58.378 52.381 0.00 0.00 0.00 2.29
2440 2691 5.912892 AGTTGGACATGTTTTAACCCTTTG 58.087 37.500 0.00 0.00 0.00 2.77
2465 2716 1.382522 CCCATCATTCAAGTGACCCG 58.617 55.000 0.00 0.00 0.00 5.28
2497 2748 2.093658 CAGTCCACTTAACGTAGCCCAT 60.094 50.000 0.00 0.00 0.00 4.00
2512 2763 1.755265 GCCCATGCTCTCTCTCTCTCT 60.755 57.143 0.00 0.00 33.53 3.10
2514 2765 2.158564 CCCATGCTCTCTCTCTCTCTCT 60.159 54.545 0.00 0.00 0.00 3.10
2902 3359 3.727726 TGATCAACACCTACACACACAG 58.272 45.455 0.00 0.00 0.00 3.66
2932 3389 1.667722 GCTTGGCCCCAAACAGAAG 59.332 57.895 0.00 0.00 35.33 2.85
2933 3390 1.820010 GCTTGGCCCCAAACAGAAGG 61.820 60.000 0.00 0.00 35.33 3.46
2934 3391 1.152355 TTGGCCCCAAACAGAAGGG 60.152 57.895 0.00 0.00 45.04 3.95
2939 3396 3.288099 CCCAAACAGAAGGGGGATG 57.712 57.895 0.00 0.00 43.57 3.51
2940 3397 0.704076 CCCAAACAGAAGGGGGATGA 59.296 55.000 0.00 0.00 43.57 2.92
2941 3398 1.288932 CCCAAACAGAAGGGGGATGAT 59.711 52.381 0.00 0.00 43.57 2.45
2942 3399 2.513738 CCCAAACAGAAGGGGGATGATA 59.486 50.000 0.00 0.00 43.57 2.15
2943 3400 3.435601 CCCAAACAGAAGGGGGATGATAG 60.436 52.174 0.00 0.00 43.57 2.08
2944 3401 3.435601 CCAAACAGAAGGGGGATGATAGG 60.436 52.174 0.00 0.00 0.00 2.57
2945 3402 1.439543 ACAGAAGGGGGATGATAGGC 58.560 55.000 0.00 0.00 0.00 3.93
2946 3403 0.322975 CAGAAGGGGGATGATAGGCG 59.677 60.000 0.00 0.00 0.00 5.52
2947 3404 1.003233 GAAGGGGGATGATAGGCGC 60.003 63.158 0.00 0.00 0.00 6.53
2948 3405 2.470938 GAAGGGGGATGATAGGCGCC 62.471 65.000 21.89 21.89 36.47 6.53
2949 3406 4.394712 GGGGGATGATAGGCGCCG 62.395 72.222 23.20 0.00 37.94 6.46
2950 3407 4.394712 GGGGATGATAGGCGCCGG 62.395 72.222 23.20 0.00 0.00 6.13
2951 3408 3.626924 GGGATGATAGGCGCCGGT 61.627 66.667 23.20 14.30 0.00 5.28
2952 3409 2.357517 GGATGATAGGCGCCGGTG 60.358 66.667 23.20 11.67 0.00 4.94
2953 3410 3.044305 GATGATAGGCGCCGGTGC 61.044 66.667 31.86 31.86 0.00 5.01
2954 3411 3.807631 GATGATAGGCGCCGGTGCA 62.808 63.158 38.40 22.04 37.32 4.57
2955 3412 4.830765 TGATAGGCGCCGGTGCAC 62.831 66.667 38.40 27.37 37.32 4.57
2967 3424 3.223589 GTGCACCGGCCCAAACTT 61.224 61.111 5.22 0.00 40.13 2.66
2968 3425 2.443016 TGCACCGGCCCAAACTTT 60.443 55.556 0.00 0.00 40.13 2.66
2969 3426 2.028925 GCACCGGCCCAAACTTTG 59.971 61.111 0.00 0.00 0.00 2.77
2978 3435 2.642700 CAAACTTTGGGCCGGTCG 59.357 61.111 1.90 0.00 0.00 4.79
2979 3436 3.292159 AAACTTTGGGCCGGTCGC 61.292 61.111 1.90 4.53 0.00 5.19
2980 3437 4.572571 AACTTTGGGCCGGTCGCA 62.573 61.111 1.90 7.47 40.31 5.10
2991 3448 3.792736 GGTCGCACCCCAGCCATA 61.793 66.667 0.00 0.00 30.04 2.74
2992 3449 2.513897 GTCGCACCCCAGCCATAC 60.514 66.667 0.00 0.00 0.00 2.39
2993 3450 4.155733 TCGCACCCCAGCCATACG 62.156 66.667 0.00 0.00 0.00 3.06
2994 3451 4.155733 CGCACCCCAGCCATACGA 62.156 66.667 0.00 0.00 0.00 3.43
2995 3452 2.510906 GCACCCCAGCCATACGAT 59.489 61.111 0.00 0.00 0.00 3.73
2996 3453 1.893808 GCACCCCAGCCATACGATG 60.894 63.158 0.00 0.00 0.00 3.84
2997 3454 1.893808 CACCCCAGCCATACGATGC 60.894 63.158 0.00 0.00 0.00 3.91
2998 3455 2.666190 CCCCAGCCATACGATGCG 60.666 66.667 0.00 0.00 0.00 4.73
2999 3456 2.421314 CCCAGCCATACGATGCGA 59.579 61.111 0.00 0.00 0.00 5.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 83 8.463930 ACTAGAACTTCAATTGATTTGGAACA 57.536 30.769 9.40 0.00 35.92 3.18
232 241 7.554118 CCTCTGCTCCAGATAAATTGAAGTTAA 59.446 37.037 0.00 0.00 39.92 2.01
330 339 2.360801 TGTTTGGGTACAAAGCTTCTGC 59.639 45.455 0.00 0.00 46.47 4.26
351 360 4.631813 GGTACAAAGCTTCTCAATGTCGAT 59.368 41.667 0.00 0.00 0.00 3.59
352 361 3.994392 GGTACAAAGCTTCTCAATGTCGA 59.006 43.478 0.00 0.00 0.00 4.20
436 446 2.225068 ATTGCTAGGAACATCGACGG 57.775 50.000 0.00 0.00 0.00 4.79
448 458 3.208594 TGCAGCCAGATGTTATTGCTAG 58.791 45.455 0.00 0.00 33.00 3.42
473 486 0.878416 CGGGGTCTTTTGATCGCAAA 59.122 50.000 0.00 0.00 41.94 3.68
492 512 2.125326 GGAAAAGCCGGTATGCCCC 61.125 63.158 1.90 0.00 0.00 5.80
499 519 4.948341 AACTTTTATTGGAAAAGCCGGT 57.052 36.364 1.90 0.00 40.04 5.28
589 610 4.380841 ACCTCTATGATCGCAACGTTTA 57.619 40.909 0.00 0.00 0.00 2.01
643 664 2.424956 CAGGTTAGCATCTCCCAAAAGC 59.575 50.000 0.00 0.00 0.00 3.51
662 683 8.422457 CAATGAATCAAGAATTTTGACGTTCAG 58.578 33.333 15.99 7.59 33.57 3.02
663 684 7.096106 GCAATGAATCAAGAATTTTGACGTTCA 60.096 33.333 14.60 14.60 34.17 3.18
701 911 4.081198 AGGAACATGCTCTTCTTCACCTAG 60.081 45.833 0.00 0.00 0.00 3.02
775 985 3.134442 GGAACTGGATGCTCTCTCTTGAT 59.866 47.826 0.00 0.00 0.00 2.57
799 1009 9.941325 ATGATGATGAGAAATATAAGTGGAGAC 57.059 33.333 0.00 0.00 0.00 3.36
829 1039 1.131883 GCAGCTGGCAAGATTGTAGTG 59.868 52.381 17.12 0.00 43.97 2.74
963 1175 4.711846 CCAGATATGTACAGCAGGGCTATA 59.288 45.833 0.33 0.00 36.40 1.31
976 1188 3.328535 TGCCTCCACTCCAGATATGTA 57.671 47.619 0.00 0.00 0.00 2.29
1151 1365 1.960689 TGGGACAAAACAAAGCTAGCC 59.039 47.619 12.13 0.00 31.92 3.93
1202 1418 3.057946 GGAACTTCAGCAATGGAGTGAAC 60.058 47.826 0.00 0.00 0.00 3.18
1211 1427 1.271656 GCAGCTTGGAACTTCAGCAAT 59.728 47.619 4.43 0.00 0.00 3.56
1220 1436 1.136891 ACAAAAGGTGCAGCTTGGAAC 59.863 47.619 30.27 0.00 0.00 3.62
1235 1451 1.803625 GCTGCTGCTGCTGAAACAAAA 60.804 47.619 23.39 0.00 40.01 2.44
1277 1493 1.140407 CTTCTTCGACGCGACCATCC 61.140 60.000 15.93 0.00 34.89 3.51
1290 1506 2.675348 CCCGACTTTCATGAGCTTCTTC 59.325 50.000 0.00 0.00 0.00 2.87
1406 1622 1.985447 GTCGTACTCCACGGCGATGA 61.985 60.000 16.62 8.53 46.68 2.92
1517 1753 3.932710 CTGCCGTATCATATATGCCGTTT 59.067 43.478 7.92 0.00 0.00 3.60
1518 1754 3.194755 TCTGCCGTATCATATATGCCGTT 59.805 43.478 7.92 0.00 0.00 4.44
1519 1755 2.758423 TCTGCCGTATCATATATGCCGT 59.242 45.455 7.92 0.00 0.00 5.68
1520 1756 3.375642 CTCTGCCGTATCATATATGCCG 58.624 50.000 7.92 9.47 0.00 5.69
1521 1757 3.126831 GCTCTGCCGTATCATATATGCC 58.873 50.000 7.92 0.00 0.00 4.40
1522 1758 3.126831 GGCTCTGCCGTATCATATATGC 58.873 50.000 7.92 0.00 39.62 3.14
1535 1771 1.518903 AAGAAAAGCACGGCTCTGCC 61.519 55.000 0.00 0.00 46.75 4.85
1536 1772 0.386478 CAAGAAAAGCACGGCTCTGC 60.386 55.000 0.00 0.00 38.25 4.26
1539 1775 1.069636 CAGTCAAGAAAAGCACGGCTC 60.070 52.381 0.00 0.00 38.25 4.70
1565 1802 1.792367 GATCTACGCATATGCACGCAA 59.208 47.619 26.52 8.65 42.21 4.85
1573 1810 3.257873 AGCTCAGCTTGATCTACGCATAT 59.742 43.478 0.00 0.00 33.89 1.78
1651 1888 4.147449 CGGATCACTGGCGAGCCA 62.147 66.667 16.67 16.67 41.75 4.75
1660 1897 4.148825 GCCAGCGACCGGATCACT 62.149 66.667 9.46 0.00 0.00 3.41
1999 2236 2.236766 AGTAAGTACACGCTGACCACT 58.763 47.619 0.00 0.00 0.00 4.00
2013 2257 9.328845 GCTAATGAGTAGTACTGAGTAGTAAGT 57.671 37.037 20.40 0.24 40.89 2.24
2014 2258 9.550406 AGCTAATGAGTAGTACTGAGTAGTAAG 57.450 37.037 20.40 3.92 40.89 2.34
2017 2261 8.926374 TCTAGCTAATGAGTAGTACTGAGTAGT 58.074 37.037 20.40 12.40 33.62 2.73
2018 2262 9.767228 TTCTAGCTAATGAGTAGTACTGAGTAG 57.233 37.037 16.79 16.79 34.08 2.57
2020 2264 9.062524 CATTCTAGCTAATGAGTAGTACTGAGT 57.937 37.037 7.76 0.44 38.84 3.41
2021 2265 8.511321 CCATTCTAGCTAATGAGTAGTACTGAG 58.489 40.741 7.76 1.04 38.84 3.35
2022 2266 7.040340 GCCATTCTAGCTAATGAGTAGTACTGA 60.040 40.741 7.76 0.00 38.84 3.41
2023 2267 7.087639 GCCATTCTAGCTAATGAGTAGTACTG 58.912 42.308 7.76 0.00 38.84 2.74
2024 2268 6.778069 TGCCATTCTAGCTAATGAGTAGTACT 59.222 38.462 10.26 1.37 38.84 2.73
2025 2269 6.982852 TGCCATTCTAGCTAATGAGTAGTAC 58.017 40.000 10.26 0.00 38.84 2.73
2026 2270 7.597288 TTGCCATTCTAGCTAATGAGTAGTA 57.403 36.000 10.26 0.00 38.84 1.82
2027 2271 6.485830 TTGCCATTCTAGCTAATGAGTAGT 57.514 37.500 10.26 0.00 38.84 2.73
2028 2272 7.976135 ATTTGCCATTCTAGCTAATGAGTAG 57.024 36.000 10.26 0.00 38.84 2.57
2029 2273 7.992608 TGAATTTGCCATTCTAGCTAATGAGTA 59.007 33.333 10.26 0.00 38.84 2.59
2030 2274 6.830324 TGAATTTGCCATTCTAGCTAATGAGT 59.170 34.615 10.26 0.00 38.84 3.41
2031 2275 7.268199 TGAATTTGCCATTCTAGCTAATGAG 57.732 36.000 10.26 3.04 38.84 2.90
2071 2315 1.860950 CCAGCCGAATCAATCTGTACG 59.139 52.381 0.00 0.00 0.00 3.67
2118 2369 2.866762 CGCCTTGTAGTAAATCTCCTGC 59.133 50.000 0.00 0.00 0.00 4.85
2134 2385 1.073284 AGTACCAAACCATGTCGCCTT 59.927 47.619 0.00 0.00 0.00 4.35
2135 2386 0.690762 AGTACCAAACCATGTCGCCT 59.309 50.000 0.00 0.00 0.00 5.52
2136 2387 1.084289 GAGTACCAAACCATGTCGCC 58.916 55.000 0.00 0.00 0.00 5.54
2137 2388 2.000447 GAGAGTACCAAACCATGTCGC 59.000 52.381 0.00 0.00 0.00 5.19
2138 2389 2.094906 TCGAGAGTACCAAACCATGTCG 60.095 50.000 0.00 0.00 0.00 4.35
2139 2390 3.587797 TCGAGAGTACCAAACCATGTC 57.412 47.619 0.00 0.00 0.00 3.06
2140 2391 4.020573 TCATTCGAGAGTACCAAACCATGT 60.021 41.667 0.00 0.00 0.00 3.21
2141 2392 4.330074 GTCATTCGAGAGTACCAAACCATG 59.670 45.833 0.00 0.00 0.00 3.66
2142 2393 4.020573 TGTCATTCGAGAGTACCAAACCAT 60.021 41.667 0.00 0.00 0.00 3.55
2143 2394 3.322541 TGTCATTCGAGAGTACCAAACCA 59.677 43.478 0.00 0.00 0.00 3.67
2144 2395 3.921677 TGTCATTCGAGAGTACCAAACC 58.078 45.455 0.00 0.00 0.00 3.27
2145 2396 4.748102 TGTTGTCATTCGAGAGTACCAAAC 59.252 41.667 0.00 0.00 0.00 2.93
2146 2397 4.951254 TGTTGTCATTCGAGAGTACCAAA 58.049 39.130 0.00 0.00 0.00 3.28
2147 2398 4.594123 TGTTGTCATTCGAGAGTACCAA 57.406 40.909 0.00 0.00 0.00 3.67
2148 2399 4.594123 TTGTTGTCATTCGAGAGTACCA 57.406 40.909 0.00 0.00 0.00 3.25
2149 2400 5.917541 TTTTGTTGTCATTCGAGAGTACC 57.082 39.130 0.00 0.00 0.00 3.34
2156 2407 9.914923 CGAGAATATTATTTTGTTGTCATTCGA 57.085 29.630 0.00 0.00 0.00 3.71
2157 2408 9.914923 TCGAGAATATTATTTTGTTGTCATTCG 57.085 29.630 0.00 0.00 0.00 3.34
2170 2421 9.667107 TGTGGTTTCTTCTTCGAGAATATTATT 57.333 29.630 0.00 0.00 35.70 1.40
2171 2422 9.667107 TTGTGGTTTCTTCTTCGAGAATATTAT 57.333 29.630 0.00 0.00 35.70 1.28
2172 2423 8.932791 GTTGTGGTTTCTTCTTCGAGAATATTA 58.067 33.333 0.00 0.00 35.70 0.98
2173 2424 7.444183 TGTTGTGGTTTCTTCTTCGAGAATATT 59.556 33.333 0.00 0.00 35.70 1.28
2174 2425 6.934645 TGTTGTGGTTTCTTCTTCGAGAATAT 59.065 34.615 0.00 0.00 35.70 1.28
2175 2426 6.285224 TGTTGTGGTTTCTTCTTCGAGAATA 58.715 36.000 0.00 0.00 35.70 1.75
2176 2427 5.123227 TGTTGTGGTTTCTTCTTCGAGAAT 58.877 37.500 0.00 0.00 35.70 2.40
2177 2428 4.509616 TGTTGTGGTTTCTTCTTCGAGAA 58.490 39.130 0.00 0.00 34.00 2.87
2178 2429 4.131649 TGTTGTGGTTTCTTCTTCGAGA 57.868 40.909 0.00 0.00 0.00 4.04
2179 2430 4.570772 TCTTGTTGTGGTTTCTTCTTCGAG 59.429 41.667 0.00 0.00 0.00 4.04
2180 2431 4.509616 TCTTGTTGTGGTTTCTTCTTCGA 58.490 39.130 0.00 0.00 0.00 3.71
2181 2432 4.875544 TCTTGTTGTGGTTTCTTCTTCG 57.124 40.909 0.00 0.00 0.00 3.79
2182 2433 5.949735 TGTTCTTGTTGTGGTTTCTTCTTC 58.050 37.500 0.00 0.00 0.00 2.87
2183 2434 5.975693 TGTTCTTGTTGTGGTTTCTTCTT 57.024 34.783 0.00 0.00 0.00 2.52
2184 2435 5.242838 TGTTGTTCTTGTTGTGGTTTCTTCT 59.757 36.000 0.00 0.00 0.00 2.85
2185 2436 5.465935 TGTTGTTCTTGTTGTGGTTTCTTC 58.534 37.500 0.00 0.00 0.00 2.87
2186 2437 5.461032 TGTTGTTCTTGTTGTGGTTTCTT 57.539 34.783 0.00 0.00 0.00 2.52
2187 2438 5.227152 GTTGTTGTTCTTGTTGTGGTTTCT 58.773 37.500 0.00 0.00 0.00 2.52
2188 2439 4.089351 CGTTGTTGTTCTTGTTGTGGTTTC 59.911 41.667 0.00 0.00 0.00 2.78
2189 2440 3.984633 CGTTGTTGTTCTTGTTGTGGTTT 59.015 39.130 0.00 0.00 0.00 3.27
2190 2441 3.253677 TCGTTGTTGTTCTTGTTGTGGTT 59.746 39.130 0.00 0.00 0.00 3.67
2191 2442 2.814919 TCGTTGTTGTTCTTGTTGTGGT 59.185 40.909 0.00 0.00 0.00 4.16
2192 2443 3.479505 TCGTTGTTGTTCTTGTTGTGG 57.520 42.857 0.00 0.00 0.00 4.17
2193 2444 4.657055 TCATCGTTGTTGTTCTTGTTGTG 58.343 39.130 0.00 0.00 0.00 3.33
2194 2445 4.955925 TCATCGTTGTTGTTCTTGTTGT 57.044 36.364 0.00 0.00 0.00 3.32
2195 2446 5.509771 TCATCATCGTTGTTGTTCTTGTTG 58.490 37.500 4.84 0.00 0.00 3.33
2196 2447 5.749596 TCATCATCGTTGTTGTTCTTGTT 57.250 34.783 4.84 0.00 0.00 2.83
2197 2448 5.469760 TCATCATCATCGTTGTTGTTCTTGT 59.530 36.000 4.84 0.00 0.00 3.16
2198 2449 5.930405 TCATCATCATCGTTGTTGTTCTTG 58.070 37.500 4.84 1.28 0.00 3.02
2199 2450 6.372381 TCATCATCATCATCGTTGTTGTTCTT 59.628 34.615 4.84 0.00 0.00 2.52
2200 2451 5.876460 TCATCATCATCATCGTTGTTGTTCT 59.124 36.000 4.84 0.00 0.00 3.01
2201 2452 6.110543 TCATCATCATCATCGTTGTTGTTC 57.889 37.500 4.84 0.00 0.00 3.18
2202 2453 6.094464 ACATCATCATCATCATCGTTGTTGTT 59.906 34.615 4.84 0.00 0.00 2.83
2203 2454 5.587443 ACATCATCATCATCATCGTTGTTGT 59.413 36.000 4.84 0.00 0.00 3.32
2204 2455 6.056428 ACATCATCATCATCATCGTTGTTG 57.944 37.500 0.00 0.00 0.00 3.33
2205 2456 5.050567 CGACATCATCATCATCATCGTTGTT 60.051 40.000 0.00 0.00 0.00 2.83
2206 2457 4.446719 CGACATCATCATCATCATCGTTGT 59.553 41.667 0.00 0.00 0.00 3.32
2207 2458 4.682860 TCGACATCATCATCATCATCGTTG 59.317 41.667 0.00 0.00 0.00 4.10
2208 2459 4.874970 TCGACATCATCATCATCATCGTT 58.125 39.130 0.00 0.00 0.00 3.85
2209 2460 4.510038 TCGACATCATCATCATCATCGT 57.490 40.909 0.00 0.00 0.00 3.73
2210 2461 5.100259 TCATCGACATCATCATCATCATCG 58.900 41.667 0.00 0.00 0.00 3.84
2211 2462 6.183360 GGTTCATCGACATCATCATCATCATC 60.183 42.308 0.00 0.00 0.00 2.92
2212 2463 5.642491 GGTTCATCGACATCATCATCATCAT 59.358 40.000 0.00 0.00 0.00 2.45
2213 2464 4.992951 GGTTCATCGACATCATCATCATCA 59.007 41.667 0.00 0.00 0.00 3.07
2214 2465 4.992951 TGGTTCATCGACATCATCATCATC 59.007 41.667 0.00 0.00 0.00 2.92
2215 2466 4.753610 GTGGTTCATCGACATCATCATCAT 59.246 41.667 0.00 0.00 0.00 2.45
2216 2467 4.122046 GTGGTTCATCGACATCATCATCA 58.878 43.478 0.00 0.00 0.00 3.07
2217 2468 4.122046 TGTGGTTCATCGACATCATCATC 58.878 43.478 0.00 0.00 30.18 2.92
2218 2469 4.141233 TGTGGTTCATCGACATCATCAT 57.859 40.909 0.00 0.00 30.18 2.45
2219 2470 3.608316 TGTGGTTCATCGACATCATCA 57.392 42.857 0.00 0.00 30.18 3.07
2220 2471 4.944962 TTTGTGGTTCATCGACATCATC 57.055 40.909 0.00 0.00 34.93 2.92
2221 2472 6.374053 TGTTATTTGTGGTTCATCGACATCAT 59.626 34.615 0.00 0.00 34.93 2.45
2222 2473 5.703130 TGTTATTTGTGGTTCATCGACATCA 59.297 36.000 0.00 0.00 34.93 3.07
2223 2474 6.176975 TGTTATTTGTGGTTCATCGACATC 57.823 37.500 0.00 0.00 34.93 3.06
2224 2475 6.429692 TCTTGTTATTTGTGGTTCATCGACAT 59.570 34.615 0.00 0.00 34.93 3.06
2225 2476 5.760743 TCTTGTTATTTGTGGTTCATCGACA 59.239 36.000 0.00 0.00 33.18 4.35
2226 2477 6.147164 TCTCTTGTTATTTGTGGTTCATCGAC 59.853 38.462 0.00 0.00 0.00 4.20
2227 2478 6.227522 TCTCTTGTTATTTGTGGTTCATCGA 58.772 36.000 0.00 0.00 0.00 3.59
2228 2479 6.368791 TCTCTCTTGTTATTTGTGGTTCATCG 59.631 38.462 0.00 0.00 0.00 3.84
2229 2480 7.672983 TCTCTCTTGTTATTTGTGGTTCATC 57.327 36.000 0.00 0.00 0.00 2.92
2230 2481 7.721399 ACTTCTCTCTTGTTATTTGTGGTTCAT 59.279 33.333 0.00 0.00 0.00 2.57
2231 2482 7.054124 ACTTCTCTCTTGTTATTTGTGGTTCA 58.946 34.615 0.00 0.00 0.00 3.18
2232 2483 7.308049 GGACTTCTCTCTTGTTATTTGTGGTTC 60.308 40.741 0.00 0.00 0.00 3.62
2233 2484 6.486993 GGACTTCTCTCTTGTTATTTGTGGTT 59.513 38.462 0.00 0.00 0.00 3.67
2234 2485 5.998363 GGACTTCTCTCTTGTTATTTGTGGT 59.002 40.000 0.00 0.00 0.00 4.16
2235 2486 5.997746 TGGACTTCTCTCTTGTTATTTGTGG 59.002 40.000 0.00 0.00 0.00 4.17
2295 2546 6.059484 AGACGATTTCAAAGTTTAGGGTTGA 58.941 36.000 0.00 0.00 0.00 3.18
2316 2567 7.481642 TGATCGTCTAGGATTGAAACTTAGAC 58.518 38.462 12.61 12.61 40.81 2.59
2370 2621 2.288152 GCAGGGTCGAATCTTGCAAAAA 60.288 45.455 15.78 0.00 0.00 1.94
2371 2622 1.269448 GCAGGGTCGAATCTTGCAAAA 59.731 47.619 15.78 0.00 0.00 2.44
2372 2623 0.881118 GCAGGGTCGAATCTTGCAAA 59.119 50.000 15.78 0.00 0.00 3.68
2373 2624 0.960364 GGCAGGGTCGAATCTTGCAA 60.960 55.000 20.10 0.00 0.00 4.08
2374 2625 1.377202 GGCAGGGTCGAATCTTGCA 60.377 57.895 20.10 0.00 0.00 4.08
2411 2662 3.996150 AAAACATGTCCAACTCAGCAG 57.004 42.857 0.00 0.00 0.00 4.24
2440 2691 0.394352 ACTTGAATGATGGGGCGGTC 60.394 55.000 0.00 0.00 0.00 4.79
2465 2716 2.359850 TGGACTGATTGGCGTGGC 60.360 61.111 0.00 0.00 0.00 5.01
2473 2724 3.369157 GGGCTACGTTAAGTGGACTGATT 60.369 47.826 0.00 0.00 39.61 2.57
2924 3381 2.175715 GCCTATCATCCCCCTTCTGTTT 59.824 50.000 0.00 0.00 0.00 2.83
2932 3389 4.394712 CGGCGCCTATCATCCCCC 62.395 72.222 26.68 0.00 0.00 5.40
2933 3390 4.394712 CCGGCGCCTATCATCCCC 62.395 72.222 26.68 0.00 0.00 4.81
2934 3391 3.626924 ACCGGCGCCTATCATCCC 61.627 66.667 26.68 0.00 0.00 3.85
2935 3392 2.357517 CACCGGCGCCTATCATCC 60.358 66.667 26.68 0.00 0.00 3.51
2936 3393 3.044305 GCACCGGCGCCTATCATC 61.044 66.667 26.68 4.65 0.00 2.92
2937 3394 3.860605 TGCACCGGCGCCTATCAT 61.861 61.111 26.68 1.42 45.35 2.45
2938 3395 4.830765 GTGCACCGGCGCCTATCA 62.831 66.667 26.68 13.88 44.75 2.15
2950 3407 2.791868 AAAGTTTGGGCCGGTGCAC 61.792 57.895 8.80 8.80 43.03 4.57
2951 3408 2.443016 AAAGTTTGGGCCGGTGCA 60.443 55.556 1.90 0.00 40.13 4.57
2952 3409 2.028925 CAAAGTTTGGGCCGGTGC 59.971 61.111 7.78 0.00 0.00 5.01
2961 3418 2.642700 CGACCGGCCCAAAGTTTG 59.357 61.111 8.73 8.73 0.00 2.93
2962 3419 3.292159 GCGACCGGCCCAAAGTTT 61.292 61.111 0.00 0.00 34.80 2.66
2963 3420 4.572571 TGCGACCGGCCCAAAGTT 62.573 61.111 0.00 0.00 42.61 2.66
2974 3431 3.792736 TATGGCTGGGGTGCGACC 61.793 66.667 0.00 0.00 37.60 4.79
2975 3432 2.513897 GTATGGCTGGGGTGCGAC 60.514 66.667 0.00 0.00 0.00 5.19
2976 3433 4.155733 CGTATGGCTGGGGTGCGA 62.156 66.667 0.00 0.00 0.00 5.10
2977 3434 3.460672 ATCGTATGGCTGGGGTGCG 62.461 63.158 0.00 0.00 0.00 5.34
2978 3435 1.893808 CATCGTATGGCTGGGGTGC 60.894 63.158 0.00 0.00 0.00 5.01
2979 3436 1.893808 GCATCGTATGGCTGGGGTG 60.894 63.158 0.00 0.00 0.00 4.61
2980 3437 2.510906 GCATCGTATGGCTGGGGT 59.489 61.111 0.00 0.00 0.00 4.95
2981 3438 2.666190 CGCATCGTATGGCTGGGG 60.666 66.667 0.00 0.00 0.00 4.96
2982 3439 2.421314 TCGCATCGTATGGCTGGG 59.579 61.111 0.00 0.00 0.00 4.45


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

AutoCloner maintained by Alex Coulton.