Multiple sequence alignment - TraesCS5D01G361800

Loading Multiple Alignment...

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 TraesCS5D01G361800 chr5D 100.000 2582 0 0 1 2582 440937522 440940103 0.000000e+00 4769
1 TraesCS5D01G361800 chr5D 86.733 799 56 26 783 1571 440947696 440948454 0.000000e+00 843
2 TraesCS5D01G361800 chr5D 87.425 501 50 10 984 1481 440965616 440966106 4.820000e-157 564
3 TraesCS5D01G361800 chr5D 86.458 96 7 4 17 112 440947513 440947602 1.630000e-17 100
4 TraesCS5D01G361800 chr5B 85.714 2226 178 66 1 2139 536383293 536385465 0.000000e+00 2220
5 TraesCS5D01G361800 chr5B 86.045 1340 91 47 6 1290 536424767 536426065 0.000000e+00 1351
6 TraesCS5D01G361800 chr5B 87.703 740 61 18 848 1571 536476156 536476881 0.000000e+00 835
7 TraesCS5D01G361800 chr5B 85.428 549 69 6 984 1528 536505501 536506042 6.240000e-156 560
8 TraesCS5D01G361800 chr5B 87.052 502 50 12 984 1481 536508539 536509029 1.040000e-153 553
9 TraesCS5D01G361800 chr5B 84.242 495 34 18 1573 2043 536426317 536426791 2.360000e-120 442
10 TraesCS5D01G361800 chr5B 81.629 528 33 34 60 564 536463665 536464151 1.880000e-101 379
11 TraesCS5D01G361800 chr5B 79.143 350 31 20 2243 2579 536375811 536376131 1.210000e-48 204
12 TraesCS5D01G361800 chr5B 82.684 231 13 8 648 853 536475673 536475901 2.040000e-41 180
13 TraesCS5D01G361800 chr5B 79.839 248 19 16 1960 2188 536477380 536477615 4.450000e-33 152
14 TraesCS5D01G361800 chr5A 85.686 1537 92 50 678 2139 557076457 557077940 0.000000e+00 1502
15 TraesCS5D01G361800 chr5A 91.719 640 27 10 1 627 557071695 557072321 0.000000e+00 865
16 TraesCS5D01G361800 chr5A 85.965 798 69 24 783 1571 557081588 557082351 0.000000e+00 813
17 TraesCS5D01G361800 chr5A 79.017 753 70 40 50 751 557080779 557081494 3.950000e-118 435
18 TraesCS5D01G361800 chr5A 77.291 251 28 13 1960 2191 556739731 556739491 1.250000e-23 121
19 TraesCS5D01G361800 chr5A 77.419 248 27 13 1960 2188 557087996 557088233 1.250000e-23 121


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 TraesCS5D01G361800 chr5D 440937522 440940103 2581 False 4769.000000 4769 100.000000 1 2582 1 chr5D.!!$F1 2581
1 TraesCS5D01G361800 chr5D 440947513 440948454 941 False 471.500000 843 86.595500 17 1571 2 chr5D.!!$F3 1554
2 TraesCS5D01G361800 chr5B 536383293 536385465 2172 False 2220.000000 2220 85.714000 1 2139 1 chr5B.!!$F2 2138
3 TraesCS5D01G361800 chr5B 536424767 536426791 2024 False 896.500000 1351 85.143500 6 2043 2 chr5B.!!$F4 2037
4 TraesCS5D01G361800 chr5B 536505501 536509029 3528 False 556.500000 560 86.240000 984 1528 2 chr5B.!!$F6 544
5 TraesCS5D01G361800 chr5B 536475673 536477615 1942 False 389.000000 835 83.408667 648 2188 3 chr5B.!!$F5 1540
6 TraesCS5D01G361800 chr5A 557076457 557082351 5894 False 916.666667 1502 83.556000 50 2139 3 chr5A.!!$F3 2089
7 TraesCS5D01G361800 chr5A 557071695 557072321 626 False 865.000000 865 91.719000 1 627 1 chr5A.!!$F1 626

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
458 477 0.032515 TGGCCGTGGAATCTCTCCTA 60.033 55.0 0.0 0.0 45.64 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2197 7856 0.030101 ACCGGTCGTTGCATTTGTTG 59.97 50.0 0.0 0.0 0.0 3.33 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
51 53 2.472695 TTCACCGATGAACCCTCAAG 57.527 50.000 0.00 0.00 40.01 3.02
125 133 2.672381 GGACTATAGGACGCGCTAGTAG 59.328 54.545 5.73 5.30 0.00 2.57
224 235 1.909376 CGCCTATGTTATCCGGATCG 58.091 55.000 23.08 11.98 0.00 3.69
309 320 1.797441 CTGACTCTGGTCGGTCTCG 59.203 63.158 0.00 0.00 44.83 4.04
310 321 0.956410 CTGACTCTGGTCGGTCTCGT 60.956 60.000 0.00 0.00 44.83 4.18
311 322 0.954449 TGACTCTGGTCGGTCTCGTC 60.954 60.000 0.00 0.00 44.83 4.20
312 323 0.674269 GACTCTGGTCGGTCTCGTCT 60.674 60.000 0.00 0.00 37.69 4.18
313 324 0.674269 ACTCTGGTCGGTCTCGTCTC 60.674 60.000 0.00 0.00 37.69 3.36
322 339 1.524848 GGTCTCGTCTCACTCTCACA 58.475 55.000 0.00 0.00 0.00 3.58
336 353 1.067565 TCTCACATCACGTTGCTCCTC 60.068 52.381 0.00 0.00 0.00 3.71
456 475 0.035439 TTTGGCCGTGGAATCTCTCC 60.035 55.000 0.00 0.00 45.64 3.71
457 476 0.909610 TTGGCCGTGGAATCTCTCCT 60.910 55.000 0.00 0.00 45.64 3.69
458 477 0.032515 TGGCCGTGGAATCTCTCCTA 60.033 55.000 0.00 0.00 45.64 2.94
459 478 0.389757 GGCCGTGGAATCTCTCCTAC 59.610 60.000 0.00 0.00 45.64 3.18
538 575 4.831107 TCACTACACTTAAGATGCATGCA 58.169 39.130 25.04 25.04 0.00 3.96
579 623 5.105752 GTGACTAGGAGCAAAGTGATAGTG 58.894 45.833 0.00 0.00 0.00 2.74
583 627 6.166982 ACTAGGAGCAAAGTGATAGTGAAAC 58.833 40.000 0.00 0.00 0.00 2.78
597 641 3.505449 GTGAAACTGTAACGTCTGCAG 57.495 47.619 7.63 7.63 43.03 4.41
610 654 3.036783 CTGCAGCTCCGCTTGAAGC 62.037 63.158 7.20 7.20 36.40 3.86
621 665 1.792993 CGCTTGAAGCTGCAGCATTAC 60.793 52.381 38.24 24.76 45.16 1.89
676 720 2.254152 AAGACTAGGAGTGGCATGGA 57.746 50.000 0.00 0.00 0.00 3.41
879 1249 4.134563 CCAATCCCAGACCCTATAAAACG 58.865 47.826 0.00 0.00 0.00 3.60
880 1250 2.994186 TCCCAGACCCTATAAAACGC 57.006 50.000 0.00 0.00 0.00 4.84
881 1251 1.137479 TCCCAGACCCTATAAAACGCG 59.863 52.381 3.53 3.53 0.00 6.01
882 1252 1.578583 CCAGACCCTATAAAACGCGG 58.421 55.000 12.47 0.00 0.00 6.46
883 1253 1.134610 CCAGACCCTATAAAACGCGGT 60.135 52.381 12.47 0.00 0.00 5.68
884 1254 2.101249 CCAGACCCTATAAAACGCGGTA 59.899 50.000 12.47 0.00 0.00 4.02
885 1255 3.118542 CAGACCCTATAAAACGCGGTAC 58.881 50.000 12.47 0.00 0.00 3.34
910 1305 1.002792 CCAGCTCTTCCCTCCTCCT 59.997 63.158 0.00 0.00 0.00 3.69
911 1306 1.048160 CCAGCTCTTCCCTCCTCCTC 61.048 65.000 0.00 0.00 0.00 3.71
912 1307 1.048160 CAGCTCTTCCCTCCTCCTCC 61.048 65.000 0.00 0.00 0.00 4.30
913 1308 1.764454 GCTCTTCCCTCCTCCTCCC 60.764 68.421 0.00 0.00 0.00 4.30
914 1309 1.706575 CTCTTCCCTCCTCCTCCCA 59.293 63.158 0.00 0.00 0.00 4.37
917 1312 0.252927 CTTCCCTCCTCCTCCCACTT 60.253 60.000 0.00 0.00 0.00 3.16
922 1317 1.689892 CCTCCTCCTCCCACTTCCTAC 60.690 61.905 0.00 0.00 0.00 3.18
955 1357 1.077068 AGAGACCTCCCTGCTCTCG 60.077 63.158 0.00 0.00 34.01 4.04
959 1361 0.968393 GACCTCCCTGCTCTCGTCTT 60.968 60.000 0.00 0.00 0.00 3.01
960 1362 0.543174 ACCTCCCTGCTCTCGTCTTT 60.543 55.000 0.00 0.00 0.00 2.52
961 1363 1.272536 ACCTCCCTGCTCTCGTCTTTA 60.273 52.381 0.00 0.00 0.00 1.85
962 1364 2.035632 CCTCCCTGCTCTCGTCTTTAT 58.964 52.381 0.00 0.00 0.00 1.40
963 1365 2.035321 CCTCCCTGCTCTCGTCTTTATC 59.965 54.545 0.00 0.00 0.00 1.75
1147 6569 3.797546 GCTTCCTGCTCTGCGTGC 61.798 66.667 0.00 0.00 38.95 5.34
1206 6628 4.148825 CCCTCCGCCTTCTCCGTG 62.149 72.222 0.00 0.00 0.00 4.94
1437 6859 2.049063 GTCGACGTCTGGCTGCTT 60.049 61.111 14.70 0.00 0.00 3.91
1502 6930 4.992740 TGCCCAATTGCCAGCGGT 62.993 61.111 0.00 0.00 0.00 5.68
1535 6963 1.571460 CTCCTCAAACGTGCTGTGC 59.429 57.895 0.00 0.00 0.00 4.57
1627 7114 9.874215 GTACATATACGACATACGCATGTATAT 57.126 33.333 0.07 5.87 45.58 0.86
1638 7125 5.257082 ACGCATGTATATATATGGTCGCA 57.743 39.130 18.01 0.00 0.00 5.10
1647 7171 1.917273 ATATGGTCGCACACGTACAC 58.083 50.000 0.00 0.00 41.18 2.90
1648 7172 0.109179 TATGGTCGCACACGTACACC 60.109 55.000 0.00 0.00 41.18 4.16
1679 7211 0.111266 CAAACTGTACAGCGTGCGAC 60.111 55.000 22.90 0.00 0.00 5.19
1754 7297 8.784043 ACTTGTACATCACCTTCAGTTAATTTC 58.216 33.333 0.00 0.00 0.00 2.17
1757 7300 6.481954 ACATCACCTTCAGTTAATTTCGAC 57.518 37.500 0.00 0.00 0.00 4.20
1785 7328 3.895232 ATACGGTCTCTGACAAATGCT 57.105 42.857 0.07 0.00 33.68 3.79
1799 7370 1.165270 AATGCTGGTCAAAGGTACGC 58.835 50.000 0.00 0.00 0.00 4.42
1800 7371 0.676782 ATGCTGGTCAAAGGTACGCC 60.677 55.000 0.00 0.00 0.00 5.68
1807 7378 2.162716 CAAAGGTACGCCTGTGCTC 58.837 57.895 0.00 0.00 46.33 4.26
1844 7444 1.150827 GTACGGCACCTACGCTTTTT 58.849 50.000 0.00 0.00 34.00 1.94
1931 7544 0.404426 GCAAGAGGGGTGGGTAAAGT 59.596 55.000 0.00 0.00 0.00 2.66
2060 7700 1.144298 GGGTGGGATATTTTAGGCCGT 59.856 52.381 0.00 0.00 0.00 5.68
2064 7704 4.142038 GTGGGATATTTTAGGCCGTGATT 58.858 43.478 0.00 0.00 0.00 2.57
2080 7725 4.333372 CCGTGATTTGATGTGATGTGATGA 59.667 41.667 0.00 0.00 0.00 2.92
2167 7813 1.065764 CGCCATGAACGATCGAGGA 59.934 57.895 24.34 4.56 0.00 3.71
2171 7817 1.539065 CCATGAACGATCGAGGAAGGG 60.539 57.143 24.34 11.24 0.00 3.95
2179 7838 2.802106 CGAGGAAGGGCTCTCGTC 59.198 66.667 0.00 0.00 45.27 4.20
2193 7852 3.186047 CGTCCGGTTCATGGCGAC 61.186 66.667 0.00 0.00 0.00 5.19
2194 7853 3.186047 GTCCGGTTCATGGCGACG 61.186 66.667 0.00 0.00 0.00 5.12
2195 7854 3.687102 TCCGGTTCATGGCGACGT 61.687 61.111 0.00 0.00 0.00 4.34
2215 7994 2.794941 CAACAAATGCAACGACCGG 58.205 52.632 0.00 0.00 0.00 5.28
2238 8017 2.881441 CGTACGCGCCATCAACTAT 58.119 52.632 5.73 0.00 0.00 2.12
2239 8018 0.502695 CGTACGCGCCATCAACTATG 59.497 55.000 5.73 0.00 35.15 2.23
2240 8019 0.232303 GTACGCGCCATCAACTATGC 59.768 55.000 5.73 0.00 33.92 3.14
2241 8020 2.246397 CGCGCCATCAACTATGCG 59.754 61.111 0.00 0.00 37.82 4.73
2242 8021 2.051882 GCGCCATCAACTATGCGC 60.052 61.111 12.02 12.02 46.13 6.09
2243 8022 2.246397 CGCCATCAACTATGCGCG 59.754 61.111 0.00 0.00 43.66 6.86
2244 8023 2.525248 CGCCATCAACTATGCGCGT 61.525 57.895 8.43 7.55 43.90 6.01
2245 8024 1.010797 GCCATCAACTATGCGCGTG 60.011 57.895 13.61 4.91 33.92 5.34
2246 8025 1.705337 GCCATCAACTATGCGCGTGT 61.705 55.000 13.61 5.60 33.92 4.49
2247 8026 0.726827 CCATCAACTATGCGCGTGTT 59.273 50.000 13.61 11.63 33.92 3.32
2248 8027 1.130373 CCATCAACTATGCGCGTGTTT 59.870 47.619 13.61 1.67 33.92 2.83
2249 8028 2.168384 CATCAACTATGCGCGTGTTTG 58.832 47.619 13.61 14.73 0.00 2.93
2250 8029 0.110419 TCAACTATGCGCGTGTTTGC 60.110 50.000 13.61 0.00 0.00 3.68
2251 8030 1.065031 CAACTATGCGCGTGTTTGCC 61.065 55.000 13.61 0.00 0.00 4.52
2252 8031 1.234615 AACTATGCGCGTGTTTGCCT 61.235 50.000 13.61 0.00 0.00 4.75
2253 8032 1.234615 ACTATGCGCGTGTTTGCCTT 61.235 50.000 13.61 0.00 0.00 4.35
2254 8033 0.109781 CTATGCGCGTGTTTGCCTTT 60.110 50.000 13.61 0.00 0.00 3.11
2255 8034 0.386605 TATGCGCGTGTTTGCCTTTG 60.387 50.000 13.61 0.00 0.00 2.77
2256 8035 2.278531 GCGCGTGTTTGCCTTTGT 60.279 55.556 8.43 0.00 0.00 2.83
2258 8037 2.576002 CGCGTGTTTGCCTTTGTGC 61.576 57.895 0.00 0.00 0.00 4.57
2259 8038 1.518133 GCGTGTTTGCCTTTGTGCA 60.518 52.632 0.00 0.00 40.07 4.57
2260 8039 0.875474 GCGTGTTTGCCTTTGTGCAT 60.875 50.000 0.00 0.00 41.70 3.96
2261 8040 1.569708 CGTGTTTGCCTTTGTGCATT 58.430 45.000 0.00 0.00 41.70 3.56
2265 8044 2.359214 TGTTTGCCTTTGTGCATTCGTA 59.641 40.909 0.00 0.00 41.70 3.43
2266 8045 3.005261 TGTTTGCCTTTGTGCATTCGTAT 59.995 39.130 0.00 0.00 41.70 3.06
2267 8046 3.485947 TTGCCTTTGTGCATTCGTATC 57.514 42.857 0.00 0.00 41.70 2.24
2268 8047 2.710377 TGCCTTTGTGCATTCGTATCT 58.290 42.857 0.00 0.00 36.04 1.98
2269 8048 2.419673 TGCCTTTGTGCATTCGTATCTG 59.580 45.455 0.00 0.00 36.04 2.90
2271 8050 3.009723 CCTTTGTGCATTCGTATCTGGT 58.990 45.455 0.00 0.00 0.00 4.00
2272 8051 3.440173 CCTTTGTGCATTCGTATCTGGTT 59.560 43.478 0.00 0.00 0.00 3.67
2274 8053 3.052455 TGTGCATTCGTATCTGGTTGT 57.948 42.857 0.00 0.00 0.00 3.32
2275 8054 3.407698 TGTGCATTCGTATCTGGTTGTT 58.592 40.909 0.00 0.00 0.00 2.83
2276 8055 3.818210 TGTGCATTCGTATCTGGTTGTTT 59.182 39.130 0.00 0.00 0.00 2.83
2277 8056 4.158384 GTGCATTCGTATCTGGTTGTTTG 58.842 43.478 0.00 0.00 0.00 2.93
2278 8057 3.818210 TGCATTCGTATCTGGTTGTTTGT 59.182 39.130 0.00 0.00 0.00 2.83
2282 8061 1.136085 CGTATCTGGTTGTTTGTGCGG 60.136 52.381 0.00 0.00 0.00 5.69
2284 8063 1.686355 ATCTGGTTGTTTGTGCGGAA 58.314 45.000 0.00 0.00 0.00 4.30
2285 8064 1.464734 TCTGGTTGTTTGTGCGGAAA 58.535 45.000 0.00 0.00 0.00 3.13
2287 8066 2.428890 TCTGGTTGTTTGTGCGGAAAAT 59.571 40.909 0.00 0.00 0.00 1.82
2288 8067 3.632604 TCTGGTTGTTTGTGCGGAAAATA 59.367 39.130 0.00 0.00 0.00 1.40
2289 8068 3.707793 TGGTTGTTTGTGCGGAAAATAC 58.292 40.909 0.00 0.00 0.00 1.89
2290 8069 3.130516 TGGTTGTTTGTGCGGAAAATACA 59.869 39.130 0.00 0.00 0.00 2.29
2291 8070 4.202161 TGGTTGTTTGTGCGGAAAATACAT 60.202 37.500 0.00 0.00 0.00 2.29
2296 8780 4.368874 TTGTGCGGAAAATACATGGATG 57.631 40.909 0.00 0.00 0.00 3.51
2299 8783 4.142491 TGTGCGGAAAATACATGGATGAAC 60.142 41.667 0.00 0.00 0.00 3.18
2300 8784 3.380004 TGCGGAAAATACATGGATGAACC 59.620 43.478 0.00 0.00 39.54 3.62
2303 8787 4.036734 CGGAAAATACATGGATGAACCTGG 59.963 45.833 0.00 0.00 39.86 4.45
2304 8788 4.342092 GGAAAATACATGGATGAACCTGGG 59.658 45.833 0.00 0.00 39.86 4.45
2307 8791 4.706842 ATACATGGATGAACCTGGGTAC 57.293 45.455 0.00 0.00 39.86 3.34
2309 8793 2.852449 ACATGGATGAACCTGGGTACAT 59.148 45.455 0.00 0.31 39.86 2.29
2313 8797 3.181445 TGGATGAACCTGGGTACATATGC 60.181 47.826 1.58 0.00 39.86 3.14
2316 8800 4.085357 TGAACCTGGGTACATATGCATC 57.915 45.455 0.19 0.00 0.00 3.91
2317 8801 3.181445 TGAACCTGGGTACATATGCATCC 60.181 47.826 0.19 0.00 0.00 3.51
2320 8804 3.398967 ACCTGGGTACATATGCATCCATT 59.601 43.478 8.43 0.00 32.85 3.16
2322 8806 4.834496 CCTGGGTACATATGCATCCATTTT 59.166 41.667 8.43 0.00 32.85 1.82
2326 8810 6.382282 TGGGTACATATGCATCCATTTTGAAA 59.618 34.615 3.58 0.00 32.85 2.69
2327 8811 7.093156 TGGGTACATATGCATCCATTTTGAAAA 60.093 33.333 3.58 0.00 32.85 2.29
2368 8852 4.911514 AAAAAGTTGCACGGTTACATCT 57.088 36.364 0.00 0.00 0.00 2.90
2370 8854 4.483476 AAAGTTGCACGGTTACATCTTC 57.517 40.909 0.00 0.00 0.00 2.87
2372 8856 2.806244 AGTTGCACGGTTACATCTTCAC 59.194 45.455 0.00 0.00 0.00 3.18
2373 8857 1.424403 TGCACGGTTACATCTTCACG 58.576 50.000 0.00 0.00 0.00 4.35
2374 8858 1.269883 TGCACGGTTACATCTTCACGT 60.270 47.619 0.00 0.00 34.61 4.49
2376 8860 2.159881 GCACGGTTACATCTTCACGTTC 60.160 50.000 0.00 0.00 31.61 3.95
2378 8862 4.478699 CACGGTTACATCTTCACGTTCTA 58.521 43.478 0.00 0.00 31.61 2.10
2379 8863 5.100259 CACGGTTACATCTTCACGTTCTAT 58.900 41.667 0.00 0.00 31.61 1.98
2381 8865 5.100259 CGGTTACATCTTCACGTTCTATGT 58.900 41.667 7.48 7.48 35.16 2.29
2383 8867 6.414109 CGGTTACATCTTCACGTTCTATGTAG 59.586 42.308 8.79 0.00 35.22 2.74
2384 8868 6.198591 GGTTACATCTTCACGTTCTATGTAGC 59.801 42.308 11.95 11.95 35.22 3.58
2385 8869 4.683832 ACATCTTCACGTTCTATGTAGCC 58.316 43.478 0.00 0.00 0.00 3.93
2387 8871 4.106029 TCTTCACGTTCTATGTAGCCAC 57.894 45.455 0.00 0.00 0.00 5.01
2388 8872 3.508402 TCTTCACGTTCTATGTAGCCACA 59.492 43.478 0.00 0.00 39.52 4.17
2389 8873 3.945981 TCACGTTCTATGTAGCCACAA 57.054 42.857 0.00 0.00 38.42 3.33
2390 8874 3.845178 TCACGTTCTATGTAGCCACAAG 58.155 45.455 0.00 0.00 38.42 3.16
2391 8875 3.508402 TCACGTTCTATGTAGCCACAAGA 59.492 43.478 0.00 0.00 38.42 3.02
2392 8876 4.021807 TCACGTTCTATGTAGCCACAAGAA 60.022 41.667 0.00 0.00 38.42 2.52
2393 8877 4.327357 CACGTTCTATGTAGCCACAAGAAG 59.673 45.833 9.04 0.14 38.42 2.85
2394 8878 4.219944 ACGTTCTATGTAGCCACAAGAAGA 59.780 41.667 9.04 2.12 38.42 2.87
2395 8879 5.105310 ACGTTCTATGTAGCCACAAGAAGAT 60.105 40.000 9.04 1.43 38.42 2.40
2396 8880 5.812642 CGTTCTATGTAGCCACAAGAAGATT 59.187 40.000 9.04 0.00 38.42 2.40
2397 8881 6.019479 CGTTCTATGTAGCCACAAGAAGATTC 60.019 42.308 9.04 0.00 38.42 2.52
2398 8882 5.592054 TCTATGTAGCCACAAGAAGATTCG 58.408 41.667 0.00 0.00 38.42 3.34
2399 8883 3.678056 TGTAGCCACAAGAAGATTCGT 57.322 42.857 0.00 0.00 0.00 3.85
2400 8884 3.325870 TGTAGCCACAAGAAGATTCGTG 58.674 45.455 6.91 6.91 41.49 4.35
2437 9407 4.662468 TTTGGCATGTGCTAAAAAGACA 57.338 36.364 13.11 0.00 46.09 3.41
2443 9413 5.752955 GGCATGTGCTAAAAAGACAAAGAAA 59.247 36.000 4.84 0.00 41.70 2.52
2445 9415 7.041848 GGCATGTGCTAAAAAGACAAAGAAAAT 60.042 33.333 4.84 0.00 41.70 1.82
2446 9416 8.006027 GCATGTGCTAAAAAGACAAAGAAAATC 58.994 33.333 0.00 0.00 38.21 2.17
2447 9417 8.490355 CATGTGCTAAAAAGACAAAGAAAATCC 58.510 33.333 0.00 0.00 0.00 3.01
2449 9419 7.147742 TGTGCTAAAAAGACAAAGAAAATCCCT 60.148 33.333 0.00 0.00 0.00 4.20
2450 9420 7.382488 GTGCTAAAAAGACAAAGAAAATCCCTC 59.618 37.037 0.00 0.00 0.00 4.30
2452 9422 6.465439 AAAAAGACAAAGAAAATCCCTCGT 57.535 33.333 0.00 0.00 0.00 4.18
2453 9423 5.438761 AAAGACAAAGAAAATCCCTCGTG 57.561 39.130 0.00 0.00 0.00 4.35
2465 9435 3.644966 TCCCTCGTGGAATGCTATTTT 57.355 42.857 4.76 0.00 41.40 1.82
2466 9436 3.541632 TCCCTCGTGGAATGCTATTTTC 58.458 45.455 4.76 0.00 41.40 2.29
2467 9437 3.199946 TCCCTCGTGGAATGCTATTTTCT 59.800 43.478 4.76 0.00 41.40 2.52
2469 9439 4.752101 CCCTCGTGGAATGCTATTTTCTAG 59.248 45.833 4.76 0.00 35.39 2.43
2470 9440 4.212214 CCTCGTGGAATGCTATTTTCTAGC 59.788 45.833 0.00 0.00 36.96 3.42
2471 9441 6.198222 CCTCGTGGAATGCTATTTTCTAGCA 61.198 44.000 9.17 9.17 44.35 3.49
2472 9442 8.150896 CCTCGTGGAATGCTATTTTCTAGCAC 62.151 46.154 8.96 0.00 43.64 4.40
2513 9483 8.340618 TGCAGAGACAAAATAAAAGAATAGCT 57.659 30.769 0.00 0.00 0.00 3.32
2514 9484 8.796475 TGCAGAGACAAAATAAAAGAATAGCTT 58.204 29.630 0.00 0.00 38.88 3.74
2529 9499 9.435688 AAAGAATAGCTTTTCACAAAACTTTGT 57.564 25.926 17.60 1.94 46.67 2.83
2549 9519 2.269172 TGCCATGCACATATTTTTGCG 58.731 42.857 0.00 0.00 41.96 4.85
2550 9520 1.593933 GCCATGCACATATTTTTGCGG 59.406 47.619 0.00 0.00 41.96 5.69
2552 9522 3.117794 CCATGCACATATTTTTGCGGAG 58.882 45.455 0.00 0.00 41.96 4.63
2553 9523 3.181488 CCATGCACATATTTTTGCGGAGA 60.181 43.478 0.00 0.00 41.96 3.71
2554 9524 4.422840 CATGCACATATTTTTGCGGAGAA 58.577 39.130 0.00 0.00 41.96 2.87
2555 9525 4.095410 TGCACATATTTTTGCGGAGAAG 57.905 40.909 0.00 0.00 41.96 2.85
2556 9526 3.505680 TGCACATATTTTTGCGGAGAAGT 59.494 39.130 0.00 0.00 41.96 3.01
2557 9527 4.697828 TGCACATATTTTTGCGGAGAAGTA 59.302 37.500 0.00 0.00 41.96 2.24
2558 9528 5.356751 TGCACATATTTTTGCGGAGAAGTAT 59.643 36.000 0.00 0.00 41.96 2.12
2559 9529 5.682862 GCACATATTTTTGCGGAGAAGTATG 59.317 40.000 16.88 16.88 33.93 2.39
2560 9530 6.201517 CACATATTTTTGCGGAGAAGTATGG 58.798 40.000 20.53 10.27 32.77 2.74
2562 9532 6.772716 ACATATTTTTGCGGAGAAGTATGGAT 59.227 34.615 20.53 4.59 32.77 3.41
2563 9533 4.963276 TTTTTGCGGAGAAGTATGGATG 57.037 40.909 0.00 0.00 0.00 3.51
2564 9534 3.904800 TTTGCGGAGAAGTATGGATGA 57.095 42.857 0.00 0.00 0.00 2.92
2566 9536 4.422073 TTGCGGAGAAGTATGGATGAAT 57.578 40.909 0.00 0.00 0.00 2.57
2567 9537 4.422073 TGCGGAGAAGTATGGATGAATT 57.578 40.909 0.00 0.00 0.00 2.17
2568 9538 4.780815 TGCGGAGAAGTATGGATGAATTT 58.219 39.130 0.00 0.00 0.00 1.82
2569 9539 5.192927 TGCGGAGAAGTATGGATGAATTTT 58.807 37.500 0.00 0.00 0.00 1.82
2570 9540 5.066375 TGCGGAGAAGTATGGATGAATTTTG 59.934 40.000 0.00 0.00 0.00 2.44
2573 9543 7.538575 CGGAGAAGTATGGATGAATTTTGTTT 58.461 34.615 0.00 0.00 0.00 2.83
2574 9544 7.698130 CGGAGAAGTATGGATGAATTTTGTTTC 59.302 37.037 0.00 0.00 0.00 2.78
2575 9545 8.522830 GGAGAAGTATGGATGAATTTTGTTTCA 58.477 33.333 0.00 0.00 39.77 2.69
2576 9546 9.565213 GAGAAGTATGGATGAATTTTGTTTCAG 57.435 33.333 0.00 0.00 38.90 3.02
2577 9547 9.300681 AGAAGTATGGATGAATTTTGTTTCAGA 57.699 29.630 0.00 0.00 38.90 3.27
2578 9548 9.912634 GAAGTATGGATGAATTTTGTTTCAGAA 57.087 29.630 0.00 0.00 38.90 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
125 133 2.035066 ACGTACACTTGGTCACCTGTAC 59.965 50.000 12.81 12.81 36.95 2.90
224 235 3.605634 AGCCAAACCAAAACCAAAAGTC 58.394 40.909 0.00 0.00 0.00 3.01
274 285 0.904649 CAGCAGACCCATGTGTAGGA 59.095 55.000 0.00 0.00 0.00 2.94
309 320 2.983136 CAACGTGATGTGAGAGTGAGAC 59.017 50.000 0.00 0.00 0.00 3.36
310 321 2.608016 GCAACGTGATGTGAGAGTGAGA 60.608 50.000 0.00 0.00 0.00 3.27
311 322 1.723542 GCAACGTGATGTGAGAGTGAG 59.276 52.381 0.00 0.00 0.00 3.51
312 323 1.341209 AGCAACGTGATGTGAGAGTGA 59.659 47.619 0.00 0.00 0.00 3.41
313 324 1.723542 GAGCAACGTGATGTGAGAGTG 59.276 52.381 0.00 0.00 0.00 3.51
322 339 2.145397 TAGAGGAGGAGCAACGTGAT 57.855 50.000 0.00 0.00 0.00 3.06
336 353 1.007271 CGCCCACGTAGCATAGAGG 60.007 63.158 10.05 0.00 33.53 3.69
456 475 0.895530 TGAAAGAGGGGCACGAGTAG 59.104 55.000 0.00 0.00 0.00 2.57
457 476 0.895530 CTGAAAGAGGGGCACGAGTA 59.104 55.000 0.00 0.00 34.07 2.59
458 477 0.832135 TCTGAAAGAGGGGCACGAGT 60.832 55.000 0.00 0.00 38.67 4.18
459 478 1.975327 TCTGAAAGAGGGGCACGAG 59.025 57.895 0.00 0.00 38.67 4.18
538 575 2.045634 AGTGCATGCGACAGCCAT 60.046 55.556 14.09 0.00 44.33 4.40
579 623 2.135933 AGCTGCAGACGTTACAGTTTC 58.864 47.619 20.43 0.00 33.87 2.78
583 627 1.073216 CGGAGCTGCAGACGTTACAG 61.073 60.000 20.43 8.55 34.48 2.74
610 654 2.283298 ACCGAATCAGTAATGCTGCAG 58.717 47.619 10.11 10.11 44.66 4.41
644 688 9.508642 CCACTCCTAGTCTTTCTTTTCTTAATT 57.491 33.333 0.00 0.00 0.00 1.40
645 689 7.608376 GCCACTCCTAGTCTTTCTTTTCTTAAT 59.392 37.037 0.00 0.00 0.00 1.40
646 690 6.935208 GCCACTCCTAGTCTTTCTTTTCTTAA 59.065 38.462 0.00 0.00 0.00 1.85
665 709 5.376625 TGGACTAATAAATCCATGCCACTC 58.623 41.667 0.00 0.00 40.17 3.51
676 720 3.492137 GCGACCGGTCTGGACTAATAAAT 60.492 47.826 30.92 0.00 42.00 1.40
789 895 1.936547 GCTCATGCTTAGTGGCACTAC 59.063 52.381 26.21 16.36 45.36 2.73
910 1305 1.151413 AGTGGGAAGTAGGAAGTGGGA 59.849 52.381 0.00 0.00 0.00 4.37
911 1306 1.555533 GAGTGGGAAGTAGGAAGTGGG 59.444 57.143 0.00 0.00 0.00 4.61
912 1307 1.555533 GGAGTGGGAAGTAGGAAGTGG 59.444 57.143 0.00 0.00 0.00 4.00
913 1308 2.028020 GTGGAGTGGGAAGTAGGAAGTG 60.028 54.545 0.00 0.00 0.00 3.16
914 1309 2.258109 GTGGAGTGGGAAGTAGGAAGT 58.742 52.381 0.00 0.00 0.00 3.01
917 1312 1.132977 TGTGTGGAGTGGGAAGTAGGA 60.133 52.381 0.00 0.00 0.00 2.94
922 1317 1.001406 GTCTCTGTGTGGAGTGGGAAG 59.999 57.143 0.00 0.00 35.11 3.46
955 1357 4.883083 TGTGTGTGACAGGAGATAAAGAC 58.117 43.478 0.00 0.00 0.00 3.01
979 1382 5.333416 GCATTTTTCTCGTTCGTTCTCTTCT 60.333 40.000 0.00 0.00 0.00 2.85
980 1383 4.841306 GCATTTTTCTCGTTCGTTCTCTTC 59.159 41.667 0.00 0.00 0.00 2.87
1095 6517 1.138883 GATGAGCAGCGTGTCCGTA 59.861 57.895 0.00 0.00 36.15 4.02
1233 6655 3.626729 CCTTCTTCTTGATCCCCTTGCAT 60.627 47.826 0.00 0.00 0.00 3.96
1289 6711 2.125753 CCTCCGTGCTCTGCTGTC 60.126 66.667 0.00 0.00 0.00 3.51
1437 6859 2.840753 GGGGCAGGTGGAGTTGGAA 61.841 63.158 0.00 0.00 0.00 3.53
1502 6930 2.359404 GAGGGGGAGACTCGGTGA 59.641 66.667 0.00 0.00 0.00 4.02
1626 7113 3.551454 GGTGTACGTGTGCGACCATATAT 60.551 47.826 0.00 0.00 42.00 0.86
1627 7114 2.223548 GGTGTACGTGTGCGACCATATA 60.224 50.000 0.00 0.00 42.00 0.86
1647 7171 3.915437 ACAGTTTGCATTTTCTACGGG 57.085 42.857 0.00 0.00 0.00 5.28
1648 7172 5.351233 TGTACAGTTTGCATTTTCTACGG 57.649 39.130 0.00 0.00 0.00 4.02
1754 7297 3.545078 CAGAGACCGTATAAAAACCGTCG 59.455 47.826 0.00 0.00 34.21 5.12
1757 7300 4.487948 TGTCAGAGACCGTATAAAAACCG 58.512 43.478 0.00 0.00 0.00 4.44
1807 7378 0.930310 ACGTGCGCTGTATATGCAAG 59.070 50.000 9.73 0.00 40.83 4.01
1844 7444 8.181573 GGACGATGATATTTTTGTTTAGCTCAA 58.818 33.333 0.00 0.00 0.00 3.02
1845 7445 7.465379 CGGACGATGATATTTTTGTTTAGCTCA 60.465 37.037 0.00 0.00 0.00 4.26
1846 7446 6.846283 CGGACGATGATATTTTTGTTTAGCTC 59.154 38.462 0.00 0.00 0.00 4.09
1847 7447 6.315393 ACGGACGATGATATTTTTGTTTAGCT 59.685 34.615 0.00 0.00 0.00 3.32
1848 7448 6.483687 ACGGACGATGATATTTTTGTTTAGC 58.516 36.000 0.00 0.00 0.00 3.09
1849 7449 6.839301 CGACGGACGATGATATTTTTGTTTAG 59.161 38.462 0.00 0.00 45.77 1.85
1850 7450 6.310956 ACGACGGACGATGATATTTTTGTTTA 59.689 34.615 6.90 0.00 45.77 2.01
1851 7451 5.121142 ACGACGGACGATGATATTTTTGTTT 59.879 36.000 6.90 0.00 45.77 2.83
1852 7452 4.628333 ACGACGGACGATGATATTTTTGTT 59.372 37.500 6.90 0.00 45.77 2.83
1853 7453 4.178540 ACGACGGACGATGATATTTTTGT 58.821 39.130 6.90 0.00 45.77 2.83
1854 7454 4.266739 TGACGACGGACGATGATATTTTTG 59.733 41.667 6.90 0.00 45.77 2.44
1931 7544 1.270625 CCTCCACTTGACCACGCTTTA 60.271 52.381 0.00 0.00 0.00 1.85
2020 7647 3.283684 CGCCACCACTTTTGCCGA 61.284 61.111 0.00 0.00 0.00 5.54
2043 7670 4.447138 AATCACGGCCTAAAATATCCCA 57.553 40.909 0.00 0.00 0.00 4.37
2060 7700 7.104939 TGTACTCATCACATCACATCAAATCA 58.895 34.615 0.00 0.00 0.00 2.57
2064 7704 6.041423 ACTGTACTCATCACATCACATCAA 57.959 37.500 0.00 0.00 0.00 2.57
2144 7789 2.871427 GATCGTTCATGGCGACGGC 61.871 63.158 15.43 15.43 41.33 5.68
2147 7793 1.209275 CCTCGATCGTTCATGGCGAC 61.209 60.000 15.94 8.44 41.33 5.19
2158 7804 1.657556 GAGAGCCCTTCCTCGATCG 59.342 63.158 9.36 9.36 36.95 3.69
2167 7813 2.603776 AACCGGACGAGAGCCCTT 60.604 61.111 9.46 0.00 0.00 3.95
2171 7817 1.519455 CCATGAACCGGACGAGAGC 60.519 63.158 9.46 0.00 0.00 4.09
2179 7838 3.487202 CACGTCGCCATGAACCGG 61.487 66.667 0.00 0.00 0.00 5.28
2197 7856 0.030101 ACCGGTCGTTGCATTTGTTG 59.970 50.000 0.00 0.00 0.00 3.33
2198 7857 0.309612 GACCGGTCGTTGCATTTGTT 59.690 50.000 20.85 0.00 0.00 2.83
2200 7859 1.154488 CGACCGGTCGTTGCATTTG 60.154 57.895 41.62 16.49 46.99 2.32
2201 7860 3.249999 CGACCGGTCGTTGCATTT 58.750 55.556 41.62 0.24 46.99 2.32
2220 7999 0.502695 CATAGTTGATGGCGCGTACG 59.497 55.000 11.84 11.84 44.07 3.67
2221 8000 0.232303 GCATAGTTGATGGCGCGTAC 59.768 55.000 8.43 1.23 35.91 3.67
2223 8002 2.525248 CGCATAGTTGATGGCGCGT 61.525 57.895 8.43 0.00 38.03 6.01
2226 8005 2.246397 CGCGCATAGTTGATGGCG 59.754 61.111 8.75 0.00 43.70 5.69
2230 8009 1.465689 GCAAACACGCGCATAGTTGAT 60.466 47.619 5.73 0.00 0.00 2.57
2235 8014 0.109781 AAAGGCAAACACGCGCATAG 60.110 50.000 5.73 0.00 0.00 2.23
2238 8017 2.278466 CAAAGGCAAACACGCGCA 60.278 55.556 5.73 0.00 0.00 6.09
2239 8018 2.278531 ACAAAGGCAAACACGCGC 60.279 55.556 5.73 0.00 0.00 6.86
2240 8019 2.576002 GCACAAAGGCAAACACGCG 61.576 57.895 3.53 3.53 0.00 6.01
2241 8020 1.518133 TGCACAAAGGCAAACACGC 60.518 52.632 0.00 0.00 41.65 5.34
2242 8021 4.802424 TGCACAAAGGCAAACACG 57.198 50.000 0.00 0.00 41.65 4.49
2249 8028 2.223340 CCAGATACGAATGCACAAAGGC 60.223 50.000 0.00 0.00 0.00 4.35
2250 8029 3.009723 ACCAGATACGAATGCACAAAGG 58.990 45.455 0.00 0.00 0.00 3.11
2251 8030 4.083324 ACAACCAGATACGAATGCACAAAG 60.083 41.667 0.00 0.00 0.00 2.77
2252 8031 3.818210 ACAACCAGATACGAATGCACAAA 59.182 39.130 0.00 0.00 0.00 2.83
2253 8032 3.407698 ACAACCAGATACGAATGCACAA 58.592 40.909 0.00 0.00 0.00 3.33
2254 8033 3.052455 ACAACCAGATACGAATGCACA 57.948 42.857 0.00 0.00 0.00 4.57
2255 8034 4.158384 CAAACAACCAGATACGAATGCAC 58.842 43.478 0.00 0.00 0.00 4.57
2256 8035 3.818210 ACAAACAACCAGATACGAATGCA 59.182 39.130 0.00 0.00 0.00 3.96
2258 8037 4.158384 GCACAAACAACCAGATACGAATG 58.842 43.478 0.00 0.00 0.00 2.67
2259 8038 3.120338 CGCACAAACAACCAGATACGAAT 60.120 43.478 0.00 0.00 0.00 3.34
2260 8039 2.222213 CGCACAAACAACCAGATACGAA 59.778 45.455 0.00 0.00 0.00 3.85
2261 8040 1.795872 CGCACAAACAACCAGATACGA 59.204 47.619 0.00 0.00 0.00 3.43
2265 8044 1.686355 TTCCGCACAAACAACCAGAT 58.314 45.000 0.00 0.00 0.00 2.90
2266 8045 1.464734 TTTCCGCACAAACAACCAGA 58.535 45.000 0.00 0.00 0.00 3.86
2267 8046 2.285827 TTTTCCGCACAAACAACCAG 57.714 45.000 0.00 0.00 0.00 4.00
2268 8047 2.969628 ATTTTCCGCACAAACAACCA 57.030 40.000 0.00 0.00 0.00 3.67
2269 8048 3.707793 TGTATTTTCCGCACAAACAACC 58.292 40.909 0.00 0.00 0.00 3.77
2271 8050 4.038042 TCCATGTATTTTCCGCACAAACAA 59.962 37.500 0.00 0.00 0.00 2.83
2272 8051 3.570125 TCCATGTATTTTCCGCACAAACA 59.430 39.130 0.00 0.00 0.00 2.83
2274 8053 4.460731 TCATCCATGTATTTTCCGCACAAA 59.539 37.500 0.00 0.00 0.00 2.83
2275 8054 4.013050 TCATCCATGTATTTTCCGCACAA 58.987 39.130 0.00 0.00 0.00 3.33
2276 8055 3.615155 TCATCCATGTATTTTCCGCACA 58.385 40.909 0.00 0.00 0.00 4.57
2277 8056 4.351192 GTTCATCCATGTATTTTCCGCAC 58.649 43.478 0.00 0.00 0.00 5.34
2278 8057 3.380004 GGTTCATCCATGTATTTTCCGCA 59.620 43.478 0.00 0.00 35.97 5.69
2282 8061 4.956075 ACCCAGGTTCATCCATGTATTTTC 59.044 41.667 0.00 0.00 39.02 2.29
2284 8063 4.608170 ACCCAGGTTCATCCATGTATTT 57.392 40.909 0.00 0.00 39.02 1.40
2285 8064 4.476846 TGTACCCAGGTTCATCCATGTATT 59.523 41.667 0.00 0.00 39.02 1.89
2287 8066 3.455849 TGTACCCAGGTTCATCCATGTA 58.544 45.455 0.00 0.00 39.02 2.29
2288 8067 2.274542 TGTACCCAGGTTCATCCATGT 58.725 47.619 0.00 0.00 39.02 3.21
2289 8068 3.582998 ATGTACCCAGGTTCATCCATG 57.417 47.619 3.31 0.00 39.02 3.66
2290 8069 4.507335 GCATATGTACCCAGGTTCATCCAT 60.507 45.833 11.70 0.05 37.34 3.41
2291 8070 3.181445 GCATATGTACCCAGGTTCATCCA 60.181 47.826 11.70 0.00 37.34 3.41
2296 8780 3.181445 TGGATGCATATGTACCCAGGTTC 60.181 47.826 2.10 0.00 0.00 3.62
2299 8783 3.726557 ATGGATGCATATGTACCCAGG 57.273 47.619 12.90 0.00 0.00 4.45
2300 8784 5.535783 TCAAAATGGATGCATATGTACCCAG 59.464 40.000 12.90 0.00 0.00 4.45
2303 8787 8.715191 TTTTTCAAAATGGATGCATATGTACC 57.285 30.769 0.00 0.00 0.00 3.34
2347 8831 4.911514 AGATGTAACCGTGCAACTTTTT 57.088 36.364 0.00 0.00 31.75 1.94
2348 8832 4.336993 TGAAGATGTAACCGTGCAACTTTT 59.663 37.500 0.00 0.00 33.61 2.27
2349 8833 3.880490 TGAAGATGTAACCGTGCAACTTT 59.120 39.130 0.00 0.00 33.61 2.66
2350 8834 3.250040 GTGAAGATGTAACCGTGCAACTT 59.750 43.478 0.00 0.00 35.63 2.66
2351 8835 2.806244 GTGAAGATGTAACCGTGCAACT 59.194 45.455 0.00 0.00 31.75 3.16
2352 8836 2.411031 CGTGAAGATGTAACCGTGCAAC 60.411 50.000 0.00 0.00 0.00 4.17
2355 8839 1.425412 ACGTGAAGATGTAACCGTGC 58.575 50.000 0.00 0.00 0.00 5.34
2356 8840 3.314553 AGAACGTGAAGATGTAACCGTG 58.685 45.455 0.00 0.00 0.00 4.94
2357 8841 3.655276 AGAACGTGAAGATGTAACCGT 57.345 42.857 0.00 0.00 0.00 4.83
2358 8842 5.100259 ACATAGAACGTGAAGATGTAACCG 58.900 41.667 0.00 0.00 0.00 4.44
2359 8843 6.198591 GCTACATAGAACGTGAAGATGTAACC 59.801 42.308 11.61 5.32 33.74 2.85
2360 8844 6.198591 GGCTACATAGAACGTGAAGATGTAAC 59.801 42.308 11.61 8.57 33.74 2.50
2363 8847 4.159693 TGGCTACATAGAACGTGAAGATGT 59.840 41.667 9.65 9.65 35.09 3.06
2364 8848 4.504461 GTGGCTACATAGAACGTGAAGATG 59.496 45.833 0.00 0.00 0.00 2.90
2367 8851 3.845178 TGTGGCTACATAGAACGTGAAG 58.155 45.455 0.00 0.00 0.00 3.02
2368 8852 3.945981 TGTGGCTACATAGAACGTGAA 57.054 42.857 0.00 0.00 0.00 3.18
2370 8854 3.845178 TCTTGTGGCTACATAGAACGTG 58.155 45.455 2.83 0.00 36.53 4.49
2372 8856 4.744570 TCTTCTTGTGGCTACATAGAACG 58.255 43.478 17.45 14.59 36.53 3.95
2373 8857 6.019479 CGAATCTTCTTGTGGCTACATAGAAC 60.019 42.308 17.45 12.00 36.53 3.01
2374 8858 6.042777 CGAATCTTCTTGTGGCTACATAGAA 58.957 40.000 19.06 19.06 36.53 2.10
2376 8860 5.233050 CACGAATCTTCTTGTGGCTACATAG 59.767 44.000 2.83 4.98 36.53 2.23
2378 8862 3.935203 CACGAATCTTCTTGTGGCTACAT 59.065 43.478 2.83 0.00 36.53 2.29
2379 8863 3.325870 CACGAATCTTCTTGTGGCTACA 58.674 45.455 0.00 0.00 34.31 2.74
2381 8865 2.972625 CCACGAATCTTCTTGTGGCTA 58.027 47.619 0.00 0.00 44.69 3.93
2414 8898 5.423015 TGTCTTTTTAGCACATGCCAAAAA 58.577 33.333 17.82 17.82 44.73 1.94
2416 8900 4.662468 TGTCTTTTTAGCACATGCCAAA 57.338 36.364 0.00 0.00 43.38 3.28
2417 8901 4.662468 TTGTCTTTTTAGCACATGCCAA 57.338 36.364 0.00 0.00 43.38 4.52
2419 8903 4.870363 TCTTTGTCTTTTTAGCACATGCC 58.130 39.130 0.00 0.00 43.38 4.40
2420 8904 6.826893 TTTCTTTGTCTTTTTAGCACATGC 57.173 33.333 0.00 0.00 42.49 4.06
2421 8905 8.490355 GGATTTTCTTTGTCTTTTTAGCACATG 58.510 33.333 0.00 0.00 0.00 3.21
2423 8907 6.983890 GGGATTTTCTTTGTCTTTTTAGCACA 59.016 34.615 0.00 0.00 0.00 4.57
2424 8908 7.210174 AGGGATTTTCTTTGTCTTTTTAGCAC 58.790 34.615 0.00 0.00 0.00 4.40
2425 8909 7.360113 AGGGATTTTCTTTGTCTTTTTAGCA 57.640 32.000 0.00 0.00 0.00 3.49
2429 9399 6.273071 CACGAGGGATTTTCTTTGTCTTTTT 58.727 36.000 0.00 0.00 0.00 1.94
2435 9405 3.502123 TCCACGAGGGATTTTCTTTGT 57.498 42.857 0.00 0.00 42.15 2.83
2445 9415 3.199946 AGAAAATAGCATTCCACGAGGGA 59.800 43.478 0.00 0.00 46.61 4.20
2446 9416 3.545703 AGAAAATAGCATTCCACGAGGG 58.454 45.455 0.00 0.00 34.83 4.30
2447 9417 4.212214 GCTAGAAAATAGCATTCCACGAGG 59.788 45.833 0.00 0.00 40.14 4.63
2449 9419 4.765273 TGCTAGAAAATAGCATTCCACGA 58.235 39.130 5.50 0.00 44.65 4.35
2486 9456 9.410556 GCTATTCTTTTATTTTGTCTCTGCAAA 57.589 29.630 0.00 0.00 36.67 3.68
2487 9457 8.796475 AGCTATTCTTTTATTTTGTCTCTGCAA 58.204 29.630 0.00 0.00 0.00 4.08
2488 9458 8.340618 AGCTATTCTTTTATTTTGTCTCTGCA 57.659 30.769 0.00 0.00 0.00 4.41
2489 9459 9.631452 AAAGCTATTCTTTTATTTTGTCTCTGC 57.369 29.630 0.00 0.00 42.06 4.26
2529 9499 2.269172 CGCAAAAATATGTGCATGGCA 58.731 42.857 0.00 0.00 40.94 4.92
2530 9500 1.593933 CCGCAAAAATATGTGCATGGC 59.406 47.619 0.00 0.00 40.94 4.40
2531 9501 3.117794 CTCCGCAAAAATATGTGCATGG 58.882 45.455 0.00 2.12 40.94 3.66
2532 9502 4.031418 TCTCCGCAAAAATATGTGCATG 57.969 40.909 0.00 0.00 40.94 4.06
2535 9505 4.096732 ACTTCTCCGCAAAAATATGTGC 57.903 40.909 0.00 0.00 37.40 4.57
2536 9506 6.038161 TCCATACTTCTCCGCAAAAATATGTG 59.962 38.462 0.00 0.00 0.00 3.21
2538 9508 6.618287 TCCATACTTCTCCGCAAAAATATG 57.382 37.500 0.00 0.00 0.00 1.78
2539 9509 6.998074 TCATCCATACTTCTCCGCAAAAATAT 59.002 34.615 0.00 0.00 0.00 1.28
2540 9510 6.353323 TCATCCATACTTCTCCGCAAAAATA 58.647 36.000 0.00 0.00 0.00 1.40
2541 9511 5.192927 TCATCCATACTTCTCCGCAAAAAT 58.807 37.500 0.00 0.00 0.00 1.82
2542 9512 4.584874 TCATCCATACTTCTCCGCAAAAA 58.415 39.130 0.00 0.00 0.00 1.94
2544 9514 3.904800 TCATCCATACTTCTCCGCAAA 57.095 42.857 0.00 0.00 0.00 3.68
2545 9515 3.904800 TTCATCCATACTTCTCCGCAA 57.095 42.857 0.00 0.00 0.00 4.85
2546 9516 4.422073 AATTCATCCATACTTCTCCGCA 57.578 40.909 0.00 0.00 0.00 5.69
2547 9517 5.066505 ACAAAATTCATCCATACTTCTCCGC 59.933 40.000 0.00 0.00 0.00 5.54
2548 9518 6.683974 ACAAAATTCATCCATACTTCTCCG 57.316 37.500 0.00 0.00 0.00 4.63
2549 9519 8.522830 TGAAACAAAATTCATCCATACTTCTCC 58.477 33.333 0.00 0.00 34.50 3.71
2550 9520 9.565213 CTGAAACAAAATTCATCCATACTTCTC 57.435 33.333 0.00 0.00 38.55 2.87
2552 9522 9.912634 TTCTGAAACAAAATTCATCCATACTTC 57.087 29.630 0.00 0.00 38.55 3.01


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

AutoCloner maintained by Alex Coulton.