Multiple sequence alignment - TraesCS4D01G066300

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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 TraesCS4D01G066300 chr4D 100.000 2962 0 0 1 2962 40957161 40954200 0.000000e+00 5470.0
1 TraesCS4D01G066300 chr4A 88.843 1694 85 44 516 2163 558648337 558649972 0.000000e+00 1986.0
2 TraesCS4D01G066300 chr4A 87.121 660 27 25 2313 2962 558650038 558650649 0.000000e+00 695.0
3 TraesCS4D01G066300 chr4A 97.500 40 1 0 445 484 558644283 558644322 5.300000e-08 69.4
4 TraesCS4D01G066300 chr4A 81.250 80 10 4 2302 2378 592547835 592547758 3.190000e-05 60.2
5 TraesCS4D01G066300 chr4A 81.250 80 10 4 2302 2378 592834205 592834128 3.190000e-05 60.2
6 TraesCS4D01G066300 chr4B 87.965 1720 70 53 606 2234 60086252 60084579 0.000000e+00 1903.0
7 TraesCS4D01G066300 chr4B 90.105 667 25 19 2310 2962 60084552 60083913 0.000000e+00 828.0
8 TraesCS4D01G066300 chr4B 81.250 80 10 4 2302 2378 20277511 20277588 3.190000e-05 60.2
9 TraesCS4D01G066300 chr2A 95.763 236 10 0 1 236 261666127 261666362 5.990000e-102 381.0
10 TraesCS4D01G066300 chr2A 97.260 219 5 1 229 446 261666866 261667084 1.300000e-98 370.0
11 TraesCS4D01G066300 chr2B 93.478 92 6 0 1070 1161 132036113 132036022 1.430000e-28 137.0
12 TraesCS4D01G066300 chr6D 93.407 91 6 0 1070 1160 224452647 224452737 5.150000e-28 135.0
13 TraesCS4D01G066300 chr2D 92.222 90 7 0 1072 1161 323756428 323756517 8.620000e-26 128.0
14 TraesCS4D01G066300 chr2D 93.333 45 3 0 2304 2348 580191379 580191335 1.910000e-07 67.6
15 TraesCS4D01G066300 chr5B 91.111 90 8 0 1072 1161 134309003 134309092 4.010000e-24 122.0
16 TraesCS4D01G066300 chr5B 91.111 45 4 0 2304 2348 701152608 701152564 8.860000e-06 62.1
17 TraesCS4D01G066300 chr3B 90.217 92 9 0 1070 1161 253787147 253787056 1.440000e-23 121.0
18 TraesCS4D01G066300 chr1D 89.130 92 10 0 1070 1161 415694433 415694524 6.710000e-22 115.0
19 TraesCS4D01G066300 chr7B 89.610 77 8 0 1084 1160 466953503 466953579 6.760000e-17 99.0
20 TraesCS4D01G066300 chr7B 95.000 40 1 1 2303 2342 245993827 245993865 8.860000e-06 62.1
21 TraesCS4D01G066300 chr3D 93.023 43 2 1 2306 2348 567408807 567408766 8.860000e-06 62.1
22 TraesCS4D01G066300 chrUn 81.250 80 10 4 2302 2378 308089992 308089915 3.190000e-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 TraesCS4D01G066300 chr4D 40954200 40957161 2961 True 5470.0 5470 100.0000 1 2962 1 chr4D.!!$R1 2961
1 TraesCS4D01G066300 chr4A 558648337 558650649 2312 False 1340.5 1986 87.9820 516 2962 2 chr4A.!!$F2 2446
2 TraesCS4D01G066300 chr4B 60083913 60086252 2339 True 1365.5 1903 89.0350 606 2962 2 chr4B.!!$R1 2356
3 TraesCS4D01G066300 chr2A 261666127 261667084 957 False 375.5 381 96.5115 1 446 2 chr2A.!!$F1 445

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
804 1325 0.03831 CCTCGCTTTCCCCTTTCCTT 59.962 55.0 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2282 2941 0.09473 GGACGCAACGCAACTGTATC 59.905 55.0 0.0 0.0 0.0 2.24 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
21 22 1.467920 CCAAGCCCAGAAATCAGACC 58.532 55.000 0.00 0.00 0.00 3.85
46 47 6.418226 CGCACTCTTGAACTAAGTGGTATATC 59.582 42.308 4.14 0.00 40.57 1.63
85 86 6.966534 ATCTTGTTCAATGAAGTGTTCCTT 57.033 33.333 0.00 0.00 35.59 3.36
135 136 2.810400 GCCCCATCAATAAGCTCGCTAA 60.810 50.000 0.00 0.00 0.00 3.09
185 186 7.360361 GTGCACATATTGGCCTAAGTTTATAC 58.640 38.462 13.17 0.00 0.00 1.47
208 209 3.523157 TCTCTGGGAAGCCAATTGTCATA 59.477 43.478 4.43 0.00 0.00 2.15
289 801 3.250762 TCTTTTCCTTCATTGACAGCACG 59.749 43.478 0.00 0.00 0.00 5.34
338 850 3.251479 TGTGCATCCAGTAGATCACAC 57.749 47.619 0.00 0.00 37.73 3.82
392 905 2.083774 TCAACGAATCAGGATGTTGCC 58.916 47.619 7.32 0.00 41.03 4.52
453 966 9.708092 ATTAAAAAGTTCTATATCTACGGGCTC 57.292 33.333 0.00 0.00 0.00 4.70
454 967 6.726490 AAAAGTTCTATATCTACGGGCTCA 57.274 37.500 0.00 0.00 0.00 4.26
455 968 6.726490 AAAGTTCTATATCTACGGGCTCAA 57.274 37.500 0.00 0.00 0.00 3.02
456 969 6.726490 AAGTTCTATATCTACGGGCTCAAA 57.274 37.500 0.00 0.00 0.00 2.69
457 970 6.086785 AGTTCTATATCTACGGGCTCAAAC 57.913 41.667 0.00 0.00 0.00 2.93
458 971 5.834204 AGTTCTATATCTACGGGCTCAAACT 59.166 40.000 0.00 0.00 0.00 2.66
459 972 7.002879 AGTTCTATATCTACGGGCTCAAACTA 58.997 38.462 0.00 0.00 0.00 2.24
460 973 7.670559 AGTTCTATATCTACGGGCTCAAACTAT 59.329 37.037 0.00 0.00 0.00 2.12
461 974 7.392494 TCTATATCTACGGGCTCAAACTATG 57.608 40.000 0.00 0.00 0.00 2.23
462 975 6.946583 TCTATATCTACGGGCTCAAACTATGT 59.053 38.462 0.00 0.00 0.00 2.29
463 976 3.520290 TCTACGGGCTCAAACTATGTG 57.480 47.619 0.00 0.00 0.00 3.21
464 977 2.167693 TCTACGGGCTCAAACTATGTGG 59.832 50.000 0.00 0.00 0.00 4.17
465 978 0.981183 ACGGGCTCAAACTATGTGGA 59.019 50.000 0.00 0.00 0.00 4.02
466 979 1.559682 ACGGGCTCAAACTATGTGGAT 59.440 47.619 0.00 0.00 0.00 3.41
467 980 2.213499 CGGGCTCAAACTATGTGGATC 58.787 52.381 0.00 0.00 0.00 3.36
468 981 2.419990 CGGGCTCAAACTATGTGGATCA 60.420 50.000 0.00 0.00 0.00 2.92
469 982 3.209410 GGGCTCAAACTATGTGGATCAG 58.791 50.000 0.00 0.00 0.00 2.90
470 983 3.118261 GGGCTCAAACTATGTGGATCAGA 60.118 47.826 0.00 0.00 0.00 3.27
471 984 4.445448 GGGCTCAAACTATGTGGATCAGAT 60.445 45.833 0.00 0.00 0.00 2.90
472 985 4.754114 GGCTCAAACTATGTGGATCAGATC 59.246 45.833 1.18 1.18 0.00 2.75
484 997 2.009774 GATCAGATCCAACCAACGTGG 58.990 52.381 0.00 0.00 45.02 4.94
485 998 0.605319 TCAGATCCAACCAACGTGGC 60.605 55.000 0.00 0.00 42.67 5.01
486 999 1.671054 AGATCCAACCAACGTGGCG 60.671 57.895 0.00 0.00 42.67 5.69
487 1000 2.671619 ATCCAACCAACGTGGCGG 60.672 61.111 0.00 0.00 42.67 6.13
488 1001 3.485346 ATCCAACCAACGTGGCGGT 62.485 57.895 0.00 0.00 42.67 5.68
489 1002 3.959975 CCAACCAACGTGGCGGTG 61.960 66.667 5.42 0.00 44.86 4.94
502 1015 3.315796 CGGTGACCGTGTGTGAAC 58.684 61.111 17.28 0.00 42.73 3.18
503 1016 2.582265 CGGTGACCGTGTGTGAACG 61.582 63.158 17.28 0.00 42.73 3.95
504 1017 1.227031 GGTGACCGTGTGTGAACGA 60.227 57.895 0.00 0.00 46.49 3.85
505 1018 0.806884 GGTGACCGTGTGTGAACGAA 60.807 55.000 0.00 0.00 46.49 3.85
506 1019 0.299597 GTGACCGTGTGTGAACGAAC 59.700 55.000 0.00 0.00 46.49 3.95
507 1020 0.173935 TGACCGTGTGTGAACGAACT 59.826 50.000 0.00 0.00 46.49 3.01
508 1021 1.283736 GACCGTGTGTGAACGAACTT 58.716 50.000 0.00 0.00 46.49 2.66
509 1022 2.159268 TGACCGTGTGTGAACGAACTTA 60.159 45.455 0.00 0.00 46.49 2.24
510 1023 2.195922 ACCGTGTGTGAACGAACTTAC 58.804 47.619 0.00 0.00 46.49 2.34
511 1024 1.523934 CCGTGTGTGAACGAACTTACC 59.476 52.381 0.00 0.00 46.49 2.85
512 1025 2.195096 CGTGTGTGAACGAACTTACCA 58.805 47.619 0.00 0.00 46.49 3.25
513 1026 2.217847 CGTGTGTGAACGAACTTACCAG 59.782 50.000 0.00 0.00 46.49 4.00
514 1027 3.192466 GTGTGTGAACGAACTTACCAGT 58.808 45.455 0.00 0.00 33.11 4.00
530 1043 2.127708 CCAGTACTTGGGCCCTTATCT 58.872 52.381 25.70 12.01 43.75 1.98
538 1051 1.846439 TGGGCCCTTATCTCTTTCAGG 59.154 52.381 25.70 0.00 0.00 3.86
547 1060 1.741770 CTCTTTCAGGGCCGAACCG 60.742 63.158 9.75 5.63 40.62 4.44
549 1062 1.302192 CTTTCAGGGCCGAACCGAA 60.302 57.895 9.75 1.63 40.62 4.30
550 1063 0.676782 CTTTCAGGGCCGAACCGAAT 60.677 55.000 9.75 0.00 40.62 3.34
551 1064 0.958382 TTTCAGGGCCGAACCGAATG 60.958 55.000 9.75 0.00 40.62 2.67
553 1066 2.046314 AGGGCCGAACCGAATGTG 60.046 61.111 0.00 0.00 40.62 3.21
555 1068 1.078988 GGGCCGAACCGAATGTGTA 60.079 57.895 0.00 0.00 40.62 2.90
556 1069 1.363885 GGGCCGAACCGAATGTGTAC 61.364 60.000 0.00 0.00 40.62 2.90
559 1073 0.248289 CCGAACCGAATGTGTACCCT 59.752 55.000 0.00 0.00 0.00 4.34
562 1076 1.997606 GAACCGAATGTGTACCCTTCG 59.002 52.381 12.15 12.15 40.96 3.79
567 1081 3.499157 CCGAATGTGTACCCTTCGAAAAA 59.501 43.478 17.82 0.00 43.24 1.94
583 1097 1.991121 AAAAAGAACCGGGTTCCTCC 58.009 50.000 31.05 11.73 42.85 4.30
599 1113 2.888534 CCGTATGGGCGTTCACCG 60.889 66.667 0.00 0.00 40.40 4.94
675 1190 4.120331 GAAGGCATGGCACGGCAC 62.120 66.667 22.64 0.00 32.78 5.01
734 1249 0.250510 GGAGCCCCAGAAATCCGATC 60.251 60.000 0.00 0.00 0.00 3.69
739 1254 0.179018 CCCAGAAATCCGATCCCACC 60.179 60.000 0.00 0.00 0.00 4.61
748 1263 2.362369 CGATCCCACCTGTCTGCCT 61.362 63.158 0.00 0.00 0.00 4.75
751 1266 0.043334 ATCCCACCTGTCTGCCTACT 59.957 55.000 0.00 0.00 0.00 2.57
752 1267 0.614979 TCCCACCTGTCTGCCTACTC 60.615 60.000 0.00 0.00 0.00 2.59
802 1323 0.393132 CTCCTCGCTTTCCCCTTTCC 60.393 60.000 0.00 0.00 0.00 3.13
803 1324 0.840722 TCCTCGCTTTCCCCTTTCCT 60.841 55.000 0.00 0.00 0.00 3.36
804 1325 0.038310 CCTCGCTTTCCCCTTTCCTT 59.962 55.000 0.00 0.00 0.00 3.36
805 1326 1.454201 CTCGCTTTCCCCTTTCCTTC 58.546 55.000 0.00 0.00 0.00 3.46
858 1392 2.665603 GCCAGAGAACCTTCGCCT 59.334 61.111 0.00 0.00 0.00 5.52
961 1509 2.994699 CTCCACCCCGTTGGCATA 59.005 61.111 0.00 0.00 37.83 3.14
963 1511 2.439519 CCACCCCGTTGGCATACC 60.440 66.667 0.00 0.00 37.83 2.73
964 1512 2.439519 CACCCCGTTGGCATACCC 60.440 66.667 0.00 0.00 37.83 3.69
966 1514 2.124320 CCCCGTTGGCATACCCAG 60.124 66.667 0.00 0.00 46.39 4.45
1185 1751 0.240411 AGTGTGCGTAACTCGTCTCC 59.760 55.000 0.00 0.00 42.13 3.71
1203 1769 5.238868 CGTCTCCTTCGATTCCTCAATACTA 59.761 44.000 0.00 0.00 0.00 1.82
1363 1929 2.073816 CAACATCTGGAACCACCGTAC 58.926 52.381 0.00 0.00 42.61 3.67
1370 1936 3.953612 TCTGGAACCACCGTACGTATTAT 59.046 43.478 15.21 0.00 42.61 1.28
1525 2116 1.296715 GCACGAGAGGGTGTTCCAT 59.703 57.895 0.00 0.00 40.08 3.41
1539 2130 3.499737 CCATCAGGTGTTCGGCGC 61.500 66.667 0.00 0.00 0.00 6.53
1591 2182 0.324738 CCTGCTACCTCTCCACCTCA 60.325 60.000 0.00 0.00 0.00 3.86
1627 2218 1.429825 CACGCTCTACCTCTCCACG 59.570 63.158 0.00 0.00 0.00 4.94
1724 2315 1.630369 ACTACAAGGCAAGCATCCTCA 59.370 47.619 0.00 0.00 32.45 3.86
1731 2338 2.097825 GGCAAGCATCCTCACTTCATT 58.902 47.619 0.00 0.00 0.00 2.57
1753 2360 1.002033 GCTTCAGTTCACTTGGCACTG 60.002 52.381 0.00 0.00 39.51 3.66
1968 2579 4.222847 GCCGTCCCTGACCGATCC 62.223 72.222 0.00 0.00 0.00 3.36
1971 2582 3.537874 GTCCCTGACCGATCCCCG 61.538 72.222 0.00 0.00 38.18 5.73
1975 2586 3.900892 CTGACCGATCCCCGTCCG 61.901 72.222 0.00 0.00 36.31 4.79
2005 2617 2.532256 GCACCATCGCAGCTGCTAG 61.532 63.158 34.22 22.84 39.32 3.42
2006 2618 1.886313 CACCATCGCAGCTGCTAGG 60.886 63.158 34.22 30.90 39.32 3.02
2007 2619 2.060383 ACCATCGCAGCTGCTAGGA 61.060 57.895 33.57 25.85 39.32 2.94
2008 2620 1.300775 CCATCGCAGCTGCTAGGAG 60.301 63.158 34.22 19.56 39.32 3.69
2009 2621 1.440893 CATCGCAGCTGCTAGGAGT 59.559 57.895 34.22 7.71 39.32 3.85
2010 2622 0.670706 CATCGCAGCTGCTAGGAGTA 59.329 55.000 34.22 12.34 39.32 2.59
2173 2795 0.037139 CCGTCGGTATCACCAACCAA 60.037 55.000 2.08 0.00 38.47 3.67
2174 2796 1.355971 CGTCGGTATCACCAACCAAG 58.644 55.000 0.00 0.00 38.47 3.61
2175 2797 1.067425 CGTCGGTATCACCAACCAAGA 60.067 52.381 0.00 0.00 38.47 3.02
2176 2798 2.610976 CGTCGGTATCACCAACCAAGAA 60.611 50.000 0.00 0.00 38.47 2.52
2178 2800 2.027561 TCGGTATCACCAACCAAGAAGG 60.028 50.000 0.00 0.00 38.47 3.46
2179 2801 2.723273 GGTATCACCAACCAAGAAGGG 58.277 52.381 0.00 0.00 39.13 3.95
2180 2802 2.041216 GGTATCACCAACCAAGAAGGGT 59.959 50.000 0.00 0.00 45.04 4.34
2191 2813 5.735285 ACCAAGAAGGGTGTTACTACTAC 57.265 43.478 0.00 0.00 43.89 2.73
2193 2815 6.555711 ACCAAGAAGGGTGTTACTACTACTA 58.444 40.000 0.00 0.00 43.89 1.82
2194 2816 7.012607 ACCAAGAAGGGTGTTACTACTACTAA 58.987 38.462 0.00 0.00 43.89 2.24
2195 2817 7.677319 ACCAAGAAGGGTGTTACTACTACTAAT 59.323 37.037 0.00 0.00 43.89 1.73
2196 2818 8.196103 CCAAGAAGGGTGTTACTACTACTAATC 58.804 40.741 0.00 0.00 0.00 1.75
2197 2819 8.746530 CAAGAAGGGTGTTACTACTACTAATCA 58.253 37.037 0.00 0.00 0.00 2.57
2198 2820 9.490083 AAGAAGGGTGTTACTACTACTAATCAT 57.510 33.333 0.00 0.00 0.00 2.45
2199 2821 9.134055 AGAAGGGTGTTACTACTACTAATCATC 57.866 37.037 0.00 0.00 0.00 2.92
2200 2822 7.507733 AGGGTGTTACTACTACTAATCATCG 57.492 40.000 0.00 0.00 0.00 3.84
2201 2823 7.285566 AGGGTGTTACTACTACTAATCATCGA 58.714 38.462 0.00 0.00 0.00 3.59
2202 2824 7.943447 AGGGTGTTACTACTACTAATCATCGAT 59.057 37.037 0.00 0.00 0.00 3.59
2203 2825 9.224267 GGGTGTTACTACTACTAATCATCGATA 57.776 37.037 0.00 0.00 0.00 2.92
2206 2828 8.944029 TGTTACTACTACTAATCATCGATAGGC 58.056 37.037 0.00 0.00 0.00 3.93
2207 2829 8.944029 GTTACTACTACTAATCATCGATAGGCA 58.056 37.037 0.00 0.00 0.00 4.75
2208 2830 7.618502 ACTACTACTAATCATCGATAGGCAG 57.381 40.000 0.00 0.00 0.00 4.85
2209 2831 5.317733 ACTACTAATCATCGATAGGCAGC 57.682 43.478 0.00 0.00 0.00 5.25
2210 2832 3.223423 ACTAATCATCGATAGGCAGCG 57.777 47.619 0.00 0.00 34.05 5.18
2211 2833 1.923204 CTAATCATCGATAGGCAGCGC 59.077 52.381 0.00 0.00 32.39 5.92
2236 2858 5.956642 GGATACGGATAAGAAAGCTCTAGG 58.043 45.833 0.00 0.00 0.00 3.02
2237 2859 3.737032 ACGGATAAGAAAGCTCTAGGC 57.263 47.619 0.00 0.00 42.19 3.93
2238 2860 2.365941 ACGGATAAGAAAGCTCTAGGCC 59.634 50.000 0.00 0.00 43.05 5.19
2239 2861 2.630580 CGGATAAGAAAGCTCTAGGCCT 59.369 50.000 11.78 11.78 43.05 5.19
2240 2862 3.305744 CGGATAAGAAAGCTCTAGGCCTC 60.306 52.174 9.68 0.00 43.05 4.70
2241 2863 3.305744 GGATAAGAAAGCTCTAGGCCTCG 60.306 52.174 9.68 1.83 43.05 4.63
2242 2864 0.176910 AAGAAAGCTCTAGGCCTCGC 59.823 55.000 9.68 11.43 43.05 5.03
2243 2865 0.972983 AGAAAGCTCTAGGCCTCGCA 60.973 55.000 9.68 0.00 43.05 5.10
2244 2866 0.108138 GAAAGCTCTAGGCCTCGCAA 60.108 55.000 9.68 0.00 43.05 4.85
2245 2867 0.107945 AAAGCTCTAGGCCTCGCAAG 60.108 55.000 9.68 0.00 43.05 4.01
2246 2868 2.585791 AAGCTCTAGGCCTCGCAAGC 62.586 60.000 9.68 14.50 43.05 4.01
2266 2925 2.802816 GCACCAGCTATTTCATACTCGG 59.197 50.000 0.00 0.00 37.91 4.63
2273 2932 5.343593 CAGCTATTTCATACTCGGATTCGTC 59.656 44.000 0.00 0.00 37.69 4.20
2276 2935 1.306148 TCATACTCGGATTCGTCGCT 58.694 50.000 0.00 0.00 37.69 4.93
2278 2937 0.311165 ATACTCGGATTCGTCGCTGG 59.689 55.000 0.00 0.00 37.69 4.85
2279 2938 0.745486 TACTCGGATTCGTCGCTGGA 60.745 55.000 0.00 0.00 37.69 3.86
2280 2939 1.360551 CTCGGATTCGTCGCTGGAT 59.639 57.895 0.00 0.00 37.69 3.41
2281 2940 0.249073 CTCGGATTCGTCGCTGGATT 60.249 55.000 0.00 0.00 37.69 3.01
2282 2941 0.527600 TCGGATTCGTCGCTGGATTG 60.528 55.000 0.00 0.00 37.69 2.67
2283 2942 0.527600 CGGATTCGTCGCTGGATTGA 60.528 55.000 0.00 0.00 0.00 2.57
2284 2943 1.869754 CGGATTCGTCGCTGGATTGAT 60.870 52.381 0.00 0.00 0.00 2.57
2285 2944 2.607038 CGGATTCGTCGCTGGATTGATA 60.607 50.000 0.00 0.00 0.00 2.15
2286 2945 2.731976 GGATTCGTCGCTGGATTGATAC 59.268 50.000 0.00 0.00 0.00 2.24
2287 2946 2.951457 TTCGTCGCTGGATTGATACA 57.049 45.000 0.00 0.00 0.00 2.29
2288 2947 2.492019 TCGTCGCTGGATTGATACAG 57.508 50.000 0.00 0.00 41.81 2.74
2289 2948 1.749063 TCGTCGCTGGATTGATACAGT 59.251 47.619 5.18 0.00 40.95 3.55
2290 2949 2.165641 TCGTCGCTGGATTGATACAGTT 59.834 45.455 5.18 0.00 40.95 3.16
2291 2950 2.282555 CGTCGCTGGATTGATACAGTTG 59.717 50.000 5.18 0.00 40.95 3.16
2292 2951 2.030946 GTCGCTGGATTGATACAGTTGC 59.969 50.000 5.18 0.00 40.95 4.17
2293 2952 1.004610 CGCTGGATTGATACAGTTGCG 60.005 52.381 5.18 0.19 40.95 4.85
2294 2953 2.009774 GCTGGATTGATACAGTTGCGT 58.990 47.619 5.18 0.00 40.95 5.24
2295 2954 2.420022 GCTGGATTGATACAGTTGCGTT 59.580 45.455 5.18 0.00 40.95 4.84
2296 2955 3.728864 GCTGGATTGATACAGTTGCGTTG 60.729 47.826 5.18 0.00 40.95 4.10
2297 2956 2.161410 TGGATTGATACAGTTGCGTTGC 59.839 45.455 0.00 0.00 0.00 4.17
2298 2957 2.430956 GATTGATACAGTTGCGTTGCG 58.569 47.619 0.00 0.00 0.00 4.85
2299 2958 1.222300 TTGATACAGTTGCGTTGCGT 58.778 45.000 0.00 0.00 0.00 5.24
2300 2959 0.787787 TGATACAGTTGCGTTGCGTC 59.212 50.000 0.00 0.00 0.00 5.19
2301 2960 0.094730 GATACAGTTGCGTTGCGTCC 59.905 55.000 0.00 0.00 0.00 4.79
2302 2961 0.601576 ATACAGTTGCGTTGCGTCCA 60.602 50.000 0.00 0.00 0.00 4.02
2303 2962 0.810426 TACAGTTGCGTTGCGTCCAA 60.810 50.000 0.00 0.00 0.00 3.53
2304 2963 1.063327 CAGTTGCGTTGCGTCCAAA 59.937 52.632 0.00 0.00 31.68 3.28
2305 2964 0.317770 CAGTTGCGTTGCGTCCAAAT 60.318 50.000 0.00 0.00 31.68 2.32
2306 2965 0.383949 AGTTGCGTTGCGTCCAAATT 59.616 45.000 0.00 0.00 31.68 1.82
2307 2966 1.202359 AGTTGCGTTGCGTCCAAATTT 60.202 42.857 0.00 0.00 31.68 1.82
2308 2967 2.033550 AGTTGCGTTGCGTCCAAATTTA 59.966 40.909 0.00 0.00 31.68 1.40
2309 2968 2.323939 TGCGTTGCGTCCAAATTTAG 57.676 45.000 0.00 0.00 31.68 1.85
2310 2969 0.981956 GCGTTGCGTCCAAATTTAGC 59.018 50.000 0.00 0.00 31.68 3.09
2311 2970 1.401018 GCGTTGCGTCCAAATTTAGCT 60.401 47.619 0.00 0.00 31.68 3.32
2345 3011 7.176075 CGATCCATATTAATTGTCGCAGATTC 58.824 38.462 0.00 0.00 40.67 2.52
2355 3021 3.880591 GCAGATTCAGCGCTGTGA 58.119 55.556 34.70 24.80 34.66 3.58
2356 3022 1.423056 GCAGATTCAGCGCTGTGAC 59.577 57.895 34.70 24.73 34.66 3.67
2357 3023 1.706301 CAGATTCAGCGCTGTGACG 59.294 57.895 34.70 17.75 0.00 4.35
2358 3024 0.733909 CAGATTCAGCGCTGTGACGA 60.734 55.000 34.70 14.63 34.06 4.20
2459 3125 2.568062 TGTAACCCTGAACCTCGCATAA 59.432 45.455 0.00 0.00 0.00 1.90
2564 3234 4.575236 TGCCTCACAATTTACAACAACGTA 59.425 37.500 0.00 0.00 0.00 3.57
2613 3295 5.106118 CGTCGATCCATCTTGGTCTGTATAT 60.106 44.000 0.00 0.00 39.03 0.86
2614 3296 6.093633 CGTCGATCCATCTTGGTCTGTATATA 59.906 42.308 0.00 0.00 39.03 0.86
2615 3297 7.476667 GTCGATCCATCTTGGTCTGTATATAG 58.523 42.308 0.00 0.00 39.03 1.31
2616 3298 7.337184 GTCGATCCATCTTGGTCTGTATATAGA 59.663 40.741 0.00 0.00 39.03 1.98
2617 3299 7.554476 TCGATCCATCTTGGTCTGTATATAGAG 59.446 40.741 0.00 0.35 39.03 2.43
2618 3300 7.338196 CGATCCATCTTGGTCTGTATATAGAGT 59.662 40.741 6.78 0.00 39.03 3.24
2619 3301 8.964533 ATCCATCTTGGTCTGTATATAGAGTT 57.035 34.615 6.78 0.00 39.03 3.01
2620 3302 8.410673 TCCATCTTGGTCTGTATATAGAGTTC 57.589 38.462 6.78 2.56 39.03 3.01
2633 3315 8.641541 TGTATATAGAGTTCAGTTCATCATGCA 58.358 33.333 0.00 0.00 0.00 3.96
2634 3316 9.650539 GTATATAGAGTTCAGTTCATCATGCAT 57.349 33.333 0.00 0.00 0.00 3.96
2635 3317 6.862711 ATAGAGTTCAGTTCATCATGCATG 57.137 37.500 21.07 21.07 0.00 4.06
2636 3318 3.945921 AGAGTTCAGTTCATCATGCATGG 59.054 43.478 25.97 11.53 32.64 3.66
2637 3319 2.426024 AGTTCAGTTCATCATGCATGGC 59.574 45.455 25.97 11.43 32.64 4.40
2638 3320 2.131776 TCAGTTCATCATGCATGGCA 57.868 45.000 25.97 8.77 44.86 4.92
2639 3321 2.448453 TCAGTTCATCATGCATGGCAA 58.552 42.857 25.97 13.29 43.62 4.52
2640 3322 3.028130 TCAGTTCATCATGCATGGCAAT 58.972 40.909 25.97 10.10 43.62 3.56
2674 3372 2.158959 GGCGGACGACGTGAATGAG 61.159 63.158 4.58 0.00 46.52 2.90
2697 3395 2.551270 GACAAGCACGGCGAAGTG 59.449 61.111 16.62 8.50 44.47 3.16
2698 3396 2.954753 GACAAGCACGGCGAAGTGG 61.955 63.158 16.62 2.12 42.09 4.00
2699 3397 4.389576 CAAGCACGGCGAAGTGGC 62.390 66.667 16.62 9.02 42.09 5.01
2760 3460 6.125029 GGGTATAATTGATGGATGGATGGAG 58.875 44.000 0.00 0.00 0.00 3.86
2761 3461 6.125029 GGTATAATTGATGGATGGATGGAGG 58.875 44.000 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 2.724977 TAGTTCAAGAGTGCGGTCTG 57.275 50.000 0.00 0.00 0.00 3.51
21 22 2.755650 ACCACTTAGTTCAAGAGTGCG 58.244 47.619 0.00 0.00 39.48 5.34
111 112 2.417719 CGAGCTTATTGATGGGGCTAC 58.582 52.381 0.00 0.00 33.13 3.58
135 136 3.099141 CACAAAATCCCCCTATGCTTGT 58.901 45.455 0.00 0.00 0.00 3.16
185 186 2.290514 TGACAATTGGCTTCCCAGAGAG 60.291 50.000 13.62 0.00 43.37 3.20
256 768 3.716872 TGAAGGAAAAGAGGTTCTGTCCT 59.283 43.478 5.99 5.99 41.22 3.85
289 801 1.648467 GAATCCCTCGCAAGTGTGGC 61.648 60.000 0.00 0.00 39.48 5.01
317 829 3.261643 AGTGTGATCTACTGGATGCACAA 59.738 43.478 0.00 0.00 40.48 3.33
338 850 5.344743 TCAAAGCAAGGTACTATCCTGAG 57.655 43.478 0.00 0.00 38.49 3.35
392 905 2.684843 GGCAAGCTTGGCGACTCAG 61.685 63.158 33.68 3.72 43.97 3.35
446 959 0.981183 TCCACATAGTTTGAGCCCGT 59.019 50.000 0.00 0.00 0.00 5.28
447 960 2.213499 GATCCACATAGTTTGAGCCCG 58.787 52.381 0.00 0.00 0.00 6.13
448 961 3.118261 TCTGATCCACATAGTTTGAGCCC 60.118 47.826 0.00 0.00 0.00 5.19
449 962 4.142609 TCTGATCCACATAGTTTGAGCC 57.857 45.455 0.00 0.00 0.00 4.70
450 963 5.921004 GATCTGATCCACATAGTTTGAGC 57.079 43.478 6.37 0.00 0.00 4.26
463 976 3.258380 CCACGTTGGTTGGATCTGATCC 61.258 54.545 26.36 26.36 40.39 3.36
464 977 2.009774 CCACGTTGGTTGGATCTGATC 58.990 52.381 9.18 9.18 31.35 2.92
465 978 1.950484 GCCACGTTGGTTGGATCTGAT 60.950 52.381 6.02 0.00 40.46 2.90
466 979 0.605319 GCCACGTTGGTTGGATCTGA 60.605 55.000 6.02 0.00 40.46 3.27
467 980 1.875963 GCCACGTTGGTTGGATCTG 59.124 57.895 6.02 0.00 40.46 2.90
468 981 1.671054 CGCCACGTTGGTTGGATCT 60.671 57.895 6.02 0.00 40.46 2.75
469 982 2.686816 CCGCCACGTTGGTTGGATC 61.687 63.158 9.96 0.00 40.46 3.36
470 983 2.671619 CCGCCACGTTGGTTGGAT 60.672 61.111 9.96 0.00 40.46 3.41
471 984 4.178169 ACCGCCACGTTGGTTGGA 62.178 61.111 17.50 0.00 40.46 3.53
472 985 3.959975 CACCGCCACGTTGGTTGG 61.960 66.667 1.25 8.07 40.46 3.77
473 986 2.897846 TCACCGCCACGTTGGTTG 60.898 61.111 1.25 0.00 40.46 3.77
474 987 2.898343 GTCACCGCCACGTTGGTT 60.898 61.111 1.25 0.00 40.46 3.67
475 988 4.922026 GGTCACCGCCACGTTGGT 62.922 66.667 6.02 2.42 40.46 3.67
486 999 0.806884 TTCGTTCACACACGGTCACC 60.807 55.000 0.00 0.00 40.74 4.02
487 1000 0.299597 GTTCGTTCACACACGGTCAC 59.700 55.000 0.00 0.00 40.74 3.67
488 1001 0.173935 AGTTCGTTCACACACGGTCA 59.826 50.000 0.00 0.00 40.74 4.02
489 1002 1.283736 AAGTTCGTTCACACACGGTC 58.716 50.000 0.00 0.00 40.74 4.79
490 1003 2.195922 GTAAGTTCGTTCACACACGGT 58.804 47.619 0.00 0.00 40.74 4.83
491 1004 1.523934 GGTAAGTTCGTTCACACACGG 59.476 52.381 0.00 0.00 40.74 4.94
492 1005 2.195096 TGGTAAGTTCGTTCACACACG 58.805 47.619 0.00 0.00 41.78 4.49
493 1006 3.192466 ACTGGTAAGTTCGTTCACACAC 58.808 45.455 0.00 0.00 30.14 3.82
494 1007 3.530265 ACTGGTAAGTTCGTTCACACA 57.470 42.857 0.00 0.00 30.14 3.72
495 1008 4.614946 AGTACTGGTAAGTTCGTTCACAC 58.385 43.478 0.00 0.00 37.88 3.82
496 1009 4.924305 AGTACTGGTAAGTTCGTTCACA 57.076 40.909 0.00 0.00 37.88 3.58
497 1010 4.446719 CCAAGTACTGGTAAGTTCGTTCAC 59.553 45.833 0.00 0.00 40.78 3.18
498 1011 4.501915 CCCAAGTACTGGTAAGTTCGTTCA 60.502 45.833 0.00 0.00 44.76 3.18
499 1012 3.992427 CCCAAGTACTGGTAAGTTCGTTC 59.008 47.826 0.00 0.00 44.76 3.95
500 1013 3.804759 GCCCAAGTACTGGTAAGTTCGTT 60.805 47.826 0.00 0.00 44.76 3.85
501 1014 2.289257 GCCCAAGTACTGGTAAGTTCGT 60.289 50.000 0.00 0.00 44.76 3.85
502 1015 2.344025 GCCCAAGTACTGGTAAGTTCG 58.656 52.381 0.00 0.00 44.76 3.95
503 1016 2.617276 GGGCCCAAGTACTGGTAAGTTC 60.617 54.545 19.95 0.00 44.76 3.01
504 1017 1.353358 GGGCCCAAGTACTGGTAAGTT 59.647 52.381 19.95 0.00 44.76 2.66
505 1018 0.989602 GGGCCCAAGTACTGGTAAGT 59.010 55.000 19.95 0.00 44.76 2.24
506 1019 1.286248 AGGGCCCAAGTACTGGTAAG 58.714 55.000 27.56 0.00 44.76 2.34
507 1020 1.750022 AAGGGCCCAAGTACTGGTAA 58.250 50.000 27.56 0.00 44.76 2.85
508 1021 2.645951 TAAGGGCCCAAGTACTGGTA 57.354 50.000 27.56 0.00 44.76 3.25
509 1022 1.844497 GATAAGGGCCCAAGTACTGGT 59.156 52.381 27.56 0.00 44.76 4.00
510 1023 2.104963 GAGATAAGGGCCCAAGTACTGG 59.895 54.545 27.56 0.00 45.97 4.00
511 1024 3.041946 AGAGATAAGGGCCCAAGTACTG 58.958 50.000 27.56 0.00 0.00 2.74
512 1025 3.423058 AGAGATAAGGGCCCAAGTACT 57.577 47.619 27.56 16.12 0.00 2.73
513 1026 4.080526 TGAAAGAGATAAGGGCCCAAGTAC 60.081 45.833 27.56 11.22 0.00 2.73
514 1027 4.108570 TGAAAGAGATAAGGGCCCAAGTA 58.891 43.478 27.56 13.69 0.00 2.24
530 1043 1.760479 TTCGGTTCGGCCCTGAAAGA 61.760 55.000 0.00 0.00 34.07 2.52
538 1051 1.363885 GGTACACATTCGGTTCGGCC 61.364 60.000 0.00 0.00 0.00 6.13
567 1081 3.066198 CGGAGGAACCCGGTTCTT 58.934 61.111 26.03 20.77 45.43 2.52
576 1090 0.808847 GAACGCCCATACGGAGGAAC 60.809 60.000 0.00 0.00 35.30 3.62
581 1095 2.580276 GGTGAACGCCCATACGGA 59.420 61.111 0.00 0.00 37.37 4.69
582 1096 2.888534 CGGTGAACGCCCATACGG 60.889 66.667 0.00 0.00 37.37 4.02
599 1113 3.127533 GGTGCGGCACTGGATCAC 61.128 66.667 29.92 10.03 34.40 3.06
692 1207 4.498520 CGGGATCTCTGCGTGCGT 62.499 66.667 0.00 0.00 0.00 5.24
719 1234 0.179018 GTGGGATCGGATTTCTGGGG 60.179 60.000 0.00 0.00 0.00 4.96
726 1241 0.833287 CAGACAGGTGGGATCGGATT 59.167 55.000 0.00 0.00 0.00 3.01
727 1242 1.690219 GCAGACAGGTGGGATCGGAT 61.690 60.000 0.00 0.00 0.00 4.18
728 1243 2.359169 GCAGACAGGTGGGATCGGA 61.359 63.158 0.00 0.00 0.00 4.55
729 1244 2.187946 GCAGACAGGTGGGATCGG 59.812 66.667 0.00 0.00 0.00 4.18
730 1245 1.043116 TAGGCAGACAGGTGGGATCG 61.043 60.000 0.00 0.00 0.00 3.69
731 1246 0.466124 GTAGGCAGACAGGTGGGATC 59.534 60.000 0.00 0.00 0.00 3.36
734 1249 1.901085 GAGTAGGCAGACAGGTGGG 59.099 63.158 0.00 0.00 0.00 4.61
739 1254 2.095750 TACGCGAGTAGGCAGACAG 58.904 57.895 15.93 0.00 46.88 3.51
751 1266 0.235926 CAGCTGATCGAGATACGCGA 59.764 55.000 15.93 0.00 40.20 5.87
752 1267 1.333584 GCAGCTGATCGAGATACGCG 61.334 60.000 20.43 3.53 42.26 6.01
802 1323 1.146263 CGGAAAGGATCGGGGGAAG 59.854 63.158 0.00 0.00 0.00 3.46
803 1324 0.910566 TTCGGAAAGGATCGGGGGAA 60.911 55.000 0.00 0.00 0.00 3.97
804 1325 1.306312 TTCGGAAAGGATCGGGGGA 60.306 57.895 0.00 0.00 0.00 4.81
805 1326 1.153229 GTTCGGAAAGGATCGGGGG 60.153 63.158 0.00 0.00 0.00 5.40
858 1392 0.467474 ATCGGAGGTAGTGGCGATGA 60.467 55.000 0.00 0.00 0.00 2.92
956 1504 3.553096 CGATGAGTTAGTCTGGGTATGCC 60.553 52.174 0.00 0.00 0.00 4.40
957 1505 3.643763 CGATGAGTTAGTCTGGGTATGC 58.356 50.000 0.00 0.00 0.00 3.14
958 1506 3.643763 GCGATGAGTTAGTCTGGGTATG 58.356 50.000 0.00 0.00 0.00 2.39
959 1507 2.293677 CGCGATGAGTTAGTCTGGGTAT 59.706 50.000 0.00 0.00 0.00 2.73
961 1509 0.456221 CGCGATGAGTTAGTCTGGGT 59.544 55.000 0.00 0.00 0.00 4.51
963 1511 1.550065 CACGCGATGAGTTAGTCTGG 58.450 55.000 15.93 0.00 0.00 3.86
964 1512 0.917259 GCACGCGATGAGTTAGTCTG 59.083 55.000 15.93 0.00 0.00 3.51
966 1514 2.288969 GGCACGCGATGAGTTAGTC 58.711 57.895 15.93 0.00 0.00 2.59
1116 1669 1.373812 GACCTGCACGTAGGGGTTT 59.626 57.895 9.18 0.00 42.35 3.27
1155 1708 2.670934 GCACACTGGCAGGTGGAG 60.671 66.667 26.56 16.78 41.09 3.86
1185 1751 7.033530 ACAGAGTAGTATTGAGGAATCGAAG 57.966 40.000 0.00 0.00 0.00 3.79
1298 1864 2.435586 CCGTCCTCCAGCAGCTTG 60.436 66.667 0.00 0.00 0.00 4.01
1363 1929 3.679980 CCGAAGCAGGGATGAATAATACG 59.320 47.826 0.00 0.00 0.00 3.06
1370 1936 1.203237 TGATCCGAAGCAGGGATGAA 58.797 50.000 7.80 0.00 38.45 2.57
1693 2284 1.475213 GCCTTGTAGTACATGGGCTCC 60.475 57.143 27.68 13.38 42.01 4.70
1724 2315 5.471456 CCAAGTGAACTGAAGCTAATGAAGT 59.529 40.000 0.00 0.00 0.00 3.01
1731 2338 2.104792 AGTGCCAAGTGAACTGAAGCTA 59.895 45.455 0.00 0.00 0.00 3.32
1753 2360 2.159517 GCCGGTGAATGAGATTGTTGAC 60.160 50.000 1.90 0.00 0.00 3.18
1971 2582 4.773117 GCAGACGGACGGACGGAC 62.773 72.222 6.00 0.32 38.39 4.79
1975 2586 3.296709 ATGGTGCAGACGGACGGAC 62.297 63.158 0.00 0.00 33.50 4.79
2006 2618 4.612943 CCGAAGAACTGGAGCTTATACTC 58.387 47.826 0.00 0.00 35.86 2.59
2007 2619 3.181474 GCCGAAGAACTGGAGCTTATACT 60.181 47.826 0.00 0.00 0.00 2.12
2008 2620 3.124560 GCCGAAGAACTGGAGCTTATAC 58.875 50.000 0.00 0.00 0.00 1.47
2009 2621 2.764010 TGCCGAAGAACTGGAGCTTATA 59.236 45.455 0.00 0.00 0.00 0.98
2010 2622 1.555075 TGCCGAAGAACTGGAGCTTAT 59.445 47.619 0.00 0.00 0.00 1.73
2122 2734 7.107542 ACGGAGCTTTATTGGTGTCTTATAAA 58.892 34.615 0.00 0.00 0.00 1.40
2173 2795 9.134055 GATGATTAGTAGTAGTAACACCCTTCT 57.866 37.037 0.00 0.00 0.00 2.85
2174 2796 8.074972 CGATGATTAGTAGTAGTAACACCCTTC 58.925 40.741 0.00 0.00 0.00 3.46
2175 2797 7.776969 TCGATGATTAGTAGTAGTAACACCCTT 59.223 37.037 0.00 0.00 0.00 3.95
2176 2798 7.285566 TCGATGATTAGTAGTAGTAACACCCT 58.714 38.462 0.00 0.00 0.00 4.34
2180 2802 8.944029 GCCTATCGATGATTAGTAGTAGTAACA 58.056 37.037 8.54 2.10 0.00 2.41
2181 2803 8.944029 TGCCTATCGATGATTAGTAGTAGTAAC 58.056 37.037 8.54 0.00 0.00 2.50
2182 2804 9.163899 CTGCCTATCGATGATTAGTAGTAGTAA 57.836 37.037 8.54 0.00 0.00 2.24
2183 2805 7.280428 GCTGCCTATCGATGATTAGTAGTAGTA 59.720 40.741 8.54 0.00 0.00 1.82
2184 2806 6.094325 GCTGCCTATCGATGATTAGTAGTAGT 59.906 42.308 8.54 0.00 0.00 2.73
2185 2807 6.491394 GCTGCCTATCGATGATTAGTAGTAG 58.509 44.000 8.54 0.00 0.00 2.57
2186 2808 5.064834 CGCTGCCTATCGATGATTAGTAGTA 59.935 44.000 8.54 0.00 0.00 1.82
2188 2810 4.346970 CGCTGCCTATCGATGATTAGTAG 58.653 47.826 8.54 2.36 0.00 2.57
2190 2812 2.672478 GCGCTGCCTATCGATGATTAGT 60.672 50.000 8.54 0.00 0.00 2.24
2191 2813 1.923204 GCGCTGCCTATCGATGATTAG 59.077 52.381 8.54 2.86 0.00 1.73
2193 2815 0.671781 GGCGCTGCCTATCGATGATT 60.672 55.000 8.54 0.00 46.69 2.57
2194 2816 1.079543 GGCGCTGCCTATCGATGAT 60.080 57.895 8.54 0.00 46.69 2.45
2195 2817 2.340078 GGCGCTGCCTATCGATGA 59.660 61.111 8.54 0.00 46.69 2.92
2212 2834 4.506886 AGAGCTTTCTTATCCGTATCCG 57.493 45.455 0.00 0.00 0.00 4.18
2213 2835 5.622687 GCCTAGAGCTTTCTTATCCGTATCC 60.623 48.000 0.00 0.00 38.99 2.59
2214 2836 5.404096 GCCTAGAGCTTTCTTATCCGTATC 58.596 45.833 0.00 0.00 38.99 2.24
2215 2837 4.221041 GGCCTAGAGCTTTCTTATCCGTAT 59.779 45.833 0.00 0.00 43.05 3.06
2216 2838 3.573110 GGCCTAGAGCTTTCTTATCCGTA 59.427 47.826 0.00 0.00 43.05 4.02
2217 2839 2.365941 GGCCTAGAGCTTTCTTATCCGT 59.634 50.000 0.00 0.00 43.05 4.69
2218 2840 2.630580 AGGCCTAGAGCTTTCTTATCCG 59.369 50.000 1.29 0.00 43.05 4.18
2219 2841 3.305744 CGAGGCCTAGAGCTTTCTTATCC 60.306 52.174 4.42 0.00 43.05 2.59
2220 2842 3.859252 GCGAGGCCTAGAGCTTTCTTATC 60.859 52.174 18.16 0.00 43.05 1.75
2221 2843 2.036604 GCGAGGCCTAGAGCTTTCTTAT 59.963 50.000 18.16 0.00 43.05 1.73
2222 2844 1.409427 GCGAGGCCTAGAGCTTTCTTA 59.591 52.381 18.16 0.00 43.05 2.10
2223 2845 0.176910 GCGAGGCCTAGAGCTTTCTT 59.823 55.000 18.16 0.00 43.05 2.52
2224 2846 0.972983 TGCGAGGCCTAGAGCTTTCT 60.973 55.000 18.16 0.00 43.05 2.52
2225 2847 0.108138 TTGCGAGGCCTAGAGCTTTC 60.108 55.000 18.16 0.00 43.05 2.62
2226 2848 0.107945 CTTGCGAGGCCTAGAGCTTT 60.108 55.000 18.16 0.00 43.05 3.51
2227 2849 1.519719 CTTGCGAGGCCTAGAGCTT 59.480 57.895 18.16 0.00 43.05 3.74
2228 2850 3.087666 GCTTGCGAGGCCTAGAGCT 62.088 63.158 18.16 0.00 43.05 4.09
2229 2851 2.587473 GCTTGCGAGGCCTAGAGC 60.587 66.667 18.16 17.79 42.60 4.09
2230 2852 1.520342 GTGCTTGCGAGGCCTAGAG 60.520 63.158 18.16 7.14 0.00 2.43
2231 2853 2.579201 GTGCTTGCGAGGCCTAGA 59.421 61.111 18.16 0.00 0.00 2.43
2232 2854 2.512515 GGTGCTTGCGAGGCCTAG 60.513 66.667 4.42 6.97 0.00 3.02
2233 2855 3.315142 CTGGTGCTTGCGAGGCCTA 62.315 63.158 4.42 0.00 0.00 3.93
2234 2856 4.711949 CTGGTGCTTGCGAGGCCT 62.712 66.667 3.86 3.86 0.00 5.19
2245 2867 2.802816 CCGAGTATGAAATAGCTGGTGC 59.197 50.000 0.00 0.00 40.05 5.01
2246 2868 4.322080 TCCGAGTATGAAATAGCTGGTG 57.678 45.455 0.00 0.00 0.00 4.17
2266 2925 3.381045 TGTATCAATCCAGCGACGAATC 58.619 45.455 0.00 0.00 0.00 2.52
2273 2932 1.004610 CGCAACTGTATCAATCCAGCG 60.005 52.381 0.00 0.00 36.62 5.18
2276 2935 2.161410 GCAACGCAACTGTATCAATCCA 59.839 45.455 0.00 0.00 0.00 3.41
2278 2937 2.159707 ACGCAACGCAACTGTATCAATC 60.160 45.455 0.00 0.00 0.00 2.67
2279 2938 1.804151 ACGCAACGCAACTGTATCAAT 59.196 42.857 0.00 0.00 0.00 2.57
2280 2939 1.193650 GACGCAACGCAACTGTATCAA 59.806 47.619 0.00 0.00 0.00 2.57
2281 2940 0.787787 GACGCAACGCAACTGTATCA 59.212 50.000 0.00 0.00 0.00 2.15
2282 2941 0.094730 GGACGCAACGCAACTGTATC 59.905 55.000 0.00 0.00 0.00 2.24
2283 2942 0.601576 TGGACGCAACGCAACTGTAT 60.602 50.000 0.00 0.00 0.00 2.29
2284 2943 0.810426 TTGGACGCAACGCAACTGTA 60.810 50.000 0.00 0.00 0.00 2.74
2285 2944 1.649390 TTTGGACGCAACGCAACTGT 61.649 50.000 0.00 0.00 0.00 3.55
2286 2945 0.317770 ATTTGGACGCAACGCAACTG 60.318 50.000 0.00 0.00 0.00 3.16
2287 2946 0.383949 AATTTGGACGCAACGCAACT 59.616 45.000 0.00 0.00 0.00 3.16
2288 2947 1.204792 AAATTTGGACGCAACGCAAC 58.795 45.000 0.00 0.00 0.00 4.17
2289 2948 2.656085 CTAAATTTGGACGCAACGCAA 58.344 42.857 0.00 0.00 0.00 4.85
2290 2949 1.664588 GCTAAATTTGGACGCAACGCA 60.665 47.619 5.63 0.00 0.00 5.24
2291 2950 0.981956 GCTAAATTTGGACGCAACGC 59.018 50.000 5.63 0.00 0.00 4.84
2292 2951 2.241722 CAGCTAAATTTGGACGCAACG 58.758 47.619 5.63 0.00 0.00 4.10
2293 2952 1.985684 GCAGCTAAATTTGGACGCAAC 59.014 47.619 5.63 0.00 0.00 4.17
2294 2953 1.885887 AGCAGCTAAATTTGGACGCAA 59.114 42.857 5.63 0.00 0.00 4.85
2295 2954 1.468520 GAGCAGCTAAATTTGGACGCA 59.531 47.619 5.63 0.00 0.00 5.24
2296 2955 1.202188 GGAGCAGCTAAATTTGGACGC 60.202 52.381 5.63 6.62 0.00 5.19
2297 2956 1.401905 GGGAGCAGCTAAATTTGGACG 59.598 52.381 5.63 0.00 0.00 4.79
2298 2957 2.685388 GAGGGAGCAGCTAAATTTGGAC 59.315 50.000 5.63 0.00 0.00 4.02
2299 2958 2.357154 GGAGGGAGCAGCTAAATTTGGA 60.357 50.000 5.63 0.00 0.00 3.53
2300 2959 2.027385 GGAGGGAGCAGCTAAATTTGG 58.973 52.381 0.00 0.00 0.00 3.28
2301 2960 1.672881 CGGAGGGAGCAGCTAAATTTG 59.327 52.381 0.00 0.00 0.00 2.32
2302 2961 1.559682 TCGGAGGGAGCAGCTAAATTT 59.440 47.619 0.00 0.00 0.00 1.82
2303 2962 1.204146 TCGGAGGGAGCAGCTAAATT 58.796 50.000 0.00 0.00 0.00 1.82
2304 2963 1.346068 GATCGGAGGGAGCAGCTAAAT 59.654 52.381 0.00 0.00 0.00 1.40
2305 2964 0.753262 GATCGGAGGGAGCAGCTAAA 59.247 55.000 0.00 0.00 0.00 1.85
2306 2965 1.115930 GGATCGGAGGGAGCAGCTAA 61.116 60.000 0.00 0.00 30.89 3.09
2307 2966 1.531840 GGATCGGAGGGAGCAGCTA 60.532 63.158 0.00 0.00 30.89 3.32
2308 2967 2.841988 GGATCGGAGGGAGCAGCT 60.842 66.667 0.00 0.00 30.89 4.24
2309 2968 1.188219 TATGGATCGGAGGGAGCAGC 61.188 60.000 0.00 0.00 30.89 5.25
2310 2969 1.566211 ATATGGATCGGAGGGAGCAG 58.434 55.000 0.00 0.00 30.89 4.24
2311 2970 2.030027 AATATGGATCGGAGGGAGCA 57.970 50.000 0.00 0.00 30.89 4.26
2345 3011 2.188837 TACTAATCGTCACAGCGCTG 57.811 50.000 34.89 34.89 0.00 5.18
2351 3017 3.552068 CCGCATCCATACTAATCGTCACA 60.552 47.826 0.00 0.00 0.00 3.58
2352 3018 2.987149 CCGCATCCATACTAATCGTCAC 59.013 50.000 0.00 0.00 0.00 3.67
2353 3019 2.888414 TCCGCATCCATACTAATCGTCA 59.112 45.455 0.00 0.00 0.00 4.35
2354 3020 3.502920 CTCCGCATCCATACTAATCGTC 58.497 50.000 0.00 0.00 0.00 4.20
2355 3021 2.231478 CCTCCGCATCCATACTAATCGT 59.769 50.000 0.00 0.00 0.00 3.73
2356 3022 2.417379 CCCTCCGCATCCATACTAATCG 60.417 54.545 0.00 0.00 0.00 3.34
2357 3023 2.832129 TCCCTCCGCATCCATACTAATC 59.168 50.000 0.00 0.00 0.00 1.75
2358 3024 2.834549 CTCCCTCCGCATCCATACTAAT 59.165 50.000 0.00 0.00 0.00 1.73
2564 3234 2.360801 ACGGCAACAGTTTTGCTATGTT 59.639 40.909 13.40 0.00 44.36 2.71
2613 3295 5.121105 CCATGCATGATGAACTGAACTCTA 58.879 41.667 28.31 0.00 33.31 2.43
2614 3296 3.945921 CCATGCATGATGAACTGAACTCT 59.054 43.478 28.31 0.00 33.31 3.24
2615 3297 3.488721 GCCATGCATGATGAACTGAACTC 60.489 47.826 28.31 0.00 33.31 3.01
2616 3298 2.426024 GCCATGCATGATGAACTGAACT 59.574 45.455 28.31 0.00 33.31 3.01
2617 3299 2.164827 TGCCATGCATGATGAACTGAAC 59.835 45.455 28.31 4.63 33.31 3.18
2618 3300 2.448453 TGCCATGCATGATGAACTGAA 58.552 42.857 28.31 0.40 33.31 3.02
2619 3301 2.131776 TGCCATGCATGATGAACTGA 57.868 45.000 28.31 0.00 33.31 3.41
2620 3302 2.951457 TTGCCATGCATGATGAACTG 57.049 45.000 28.31 10.23 38.76 3.16
2633 3315 2.984435 TCTCCATGCCATATTGCCAT 57.016 45.000 0.00 0.00 0.00 4.40
2634 3316 2.984435 ATCTCCATGCCATATTGCCA 57.016 45.000 0.00 0.00 0.00 4.92
2635 3317 3.635373 CCATATCTCCATGCCATATTGCC 59.365 47.826 0.00 0.00 0.00 4.52
2636 3318 3.067742 GCCATATCTCCATGCCATATTGC 59.932 47.826 0.00 0.00 0.00 3.56
2637 3319 3.314357 CGCCATATCTCCATGCCATATTG 59.686 47.826 0.00 0.00 0.00 1.90
2638 3320 3.548770 CGCCATATCTCCATGCCATATT 58.451 45.455 0.00 0.00 0.00 1.28
2639 3321 2.158711 CCGCCATATCTCCATGCCATAT 60.159 50.000 0.00 0.00 0.00 1.78
2640 3322 1.210234 CCGCCATATCTCCATGCCATA 59.790 52.381 0.00 0.00 0.00 2.74
2760 3460 3.820843 ATTGATCCGGCCCACCCC 61.821 66.667 0.00 0.00 0.00 4.95
2761 3461 2.519302 CATTGATCCGGCCCACCC 60.519 66.667 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.