Multiple sequence alignment - TraesCS5B01G052500

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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 TraesCS5B01G052500 chr5B 100.000 3589 0 0 1 3589 57506924 57510512 0.000000e+00 6628.0
1 TraesCS5B01G052500 chr5B 96.899 129 3 1 2751 2879 57518777 57518904 7.800000e-52 215.0
2 TraesCS5B01G052500 chr5D 96.332 1554 49 5 1079 2624 55000200 55001753 0.000000e+00 2547.0
3 TraesCS5B01G052500 chr5D 98.470 719 9 2 2872 3589 512404787 512404070 0.000000e+00 1266.0
4 TraesCS5B01G052500 chr5D 98.053 719 11 3 2872 3589 6249027 6249743 0.000000e+00 1247.0
5 TraesCS5B01G052500 chr5D 94.102 746 44 0 1 746 54999035 54999780 0.000000e+00 1134.0
6 TraesCS5B01G052500 chr5A 95.709 1445 58 3 1088 2529 42742790 42741347 0.000000e+00 2322.0
7 TraesCS5B01G052500 chr5A 94.807 751 34 1 1 746 42743967 42743217 0.000000e+00 1166.0
8 TraesCS5B01G052500 chr2B 98.750 720 7 2 2872 3589 683731693 683730974 0.000000e+00 1279.0
9 TraesCS5B01G052500 chr2B 96.899 129 3 1 2751 2879 4936560 4936433 7.800000e-52 215.0
10 TraesCS5B01G052500 chr3A 98.611 720 8 2 2872 3589 593310773 593310054 0.000000e+00 1273.0
11 TraesCS5B01G052500 chr3A 98.470 719 10 1 2872 3589 105552709 105553427 0.000000e+00 1266.0
12 TraesCS5B01G052500 chr1A 98.613 721 7 3 2872 3589 554486274 554485554 0.000000e+00 1273.0
13 TraesCS5B01G052500 chr3B 98.470 719 8 3 2872 3589 201477516 201476800 0.000000e+00 1264.0
14 TraesCS5B01G052500 chr3B 96.899 129 3 1 2751 2879 729926063 729926190 7.800000e-52 215.0
15 TraesCS5B01G052500 chrUn 98.331 719 10 2 2872 3589 345934981 345935698 0.000000e+00 1260.0
16 TraesCS5B01G052500 chrUn 96.124 129 4 1 2751 2879 9720828 9720701 3.630000e-50 209.0
17 TraesCS5B01G052500 chr7B 98.331 719 10 2 2872 3589 662750820 662751537 0.000000e+00 1260.0
18 TraesCS5B01G052500 chr7B 96.923 130 3 1 2750 2879 530458084 530457956 2.170000e-52 217.0
19 TraesCS5B01G052500 chr1B 98.413 126 2 0 2750 2875 649676516 649676641 4.660000e-54 222.0
20 TraesCS5B01G052500 chr1B 96.899 129 3 1 2751 2879 649678599 649678726 7.800000e-52 215.0
21 TraesCS5B01G052500 chr1B 88.235 51 6 0 495 545 334123708 334123658 1.080000e-05 62.1
22 TraesCS5B01G052500 chr4B 96.124 129 4 1 2751 2879 107779403 107779530 3.630000e-50 209.0
23 TraesCS5B01G052500 chr7A 93.478 138 8 1 2742 2879 38237348 38237212 1.690000e-48 204.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G052500 chr5B 57506924 57510512 3588 False 6628.0 6628 100.000 1 3589 1 chr5B.!!$F1 3588
1 TraesCS5B01G052500 chr5D 54999035 55001753 2718 False 1840.5 2547 95.217 1 2624 2 chr5D.!!$F2 2623
2 TraesCS5B01G052500 chr5D 512404070 512404787 717 True 1266.0 1266 98.470 2872 3589 1 chr5D.!!$R1 717
3 TraesCS5B01G052500 chr5D 6249027 6249743 716 False 1247.0 1247 98.053 2872 3589 1 chr5D.!!$F1 717
4 TraesCS5B01G052500 chr5A 42741347 42743967 2620 True 1744.0 2322 95.258 1 2529 2 chr5A.!!$R1 2528
5 TraesCS5B01G052500 chr2B 683730974 683731693 719 True 1279.0 1279 98.750 2872 3589 1 chr2B.!!$R2 717
6 TraesCS5B01G052500 chr3A 593310054 593310773 719 True 1273.0 1273 98.611 2872 3589 1 chr3A.!!$R1 717
7 TraesCS5B01G052500 chr3A 105552709 105553427 718 False 1266.0 1266 98.470 2872 3589 1 chr3A.!!$F1 717
8 TraesCS5B01G052500 chr1A 554485554 554486274 720 True 1273.0 1273 98.613 2872 3589 1 chr1A.!!$R1 717
9 TraesCS5B01G052500 chr3B 201476800 201477516 716 True 1264.0 1264 98.470 2872 3589 1 chr3B.!!$R1 717
10 TraesCS5B01G052500 chrUn 345934981 345935698 717 False 1260.0 1260 98.331 2872 3589 1 chrUn.!!$F1 717
11 TraesCS5B01G052500 chr7B 662750820 662751537 717 False 1260.0 1260 98.331 2872 3589 1 chr7B.!!$F1 717
12 TraesCS5B01G052500 chr1B 649676516 649678726 2210 False 218.5 222 97.656 2750 2879 2 chr1B.!!$F1 129

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
44 45 0.098376 GGCGCTGCTCTCTTTCATTG 59.902 55.0 7.64 0.0 0.0 2.82 F
1034 1253 0.112412 ATTCCACCAACACCACCCTC 59.888 55.0 0.00 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1049 1268 0.105593 ATATGCAGCCGGTGACTCTG 59.894 55.0 1.9 1.94 0.0 3.35 R
2632 2859 0.111639 TGTGCTAGTTTCCAACCCCC 59.888 55.0 0.0 0.00 0.0 5.40 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
22 23 1.723288 TCCCGTGGATATGTATGCCA 58.277 50.000 0.00 0.00 0.00 4.92
43 44 1.364626 CGGCGCTGCTCTCTTTCATT 61.365 55.000 7.64 0.00 0.00 2.57
44 45 0.098376 GGCGCTGCTCTCTTTCATTG 59.902 55.000 7.64 0.00 0.00 2.82
126 127 0.620700 AAAGTCTCCCCGCCCACTAT 60.621 55.000 0.00 0.00 0.00 2.12
139 140 1.134788 CCCACTATGAACCTCACGTCC 60.135 57.143 0.00 0.00 0.00 4.79
189 190 2.440796 CCAATCAGGCGGTGGCAT 60.441 61.111 0.00 0.00 42.47 4.40
247 248 1.452110 CCGCAATGAACTCCATGACA 58.548 50.000 0.00 0.00 35.24 3.58
321 322 1.612199 GGTGAATTTGTCGTAGCCCCA 60.612 52.381 0.00 0.00 0.00 4.96
336 337 2.126228 CCAGTAAGCGCCGACGAA 60.126 61.111 2.29 0.00 43.93 3.85
337 338 2.158959 CCAGTAAGCGCCGACGAAG 61.159 63.158 2.29 0.00 43.93 3.79
359 360 2.473868 CGAAAATTGCACACGTCGCTAT 60.474 45.455 7.90 3.24 0.00 2.97
361 362 2.525750 AATTGCACACGTCGCTATTG 57.474 45.000 13.04 0.00 34.31 1.90
580 581 1.378514 TTTGCCGATGGGGAAGCTC 60.379 57.895 0.19 0.00 45.07 4.09
669 670 1.579084 GAGTCTGAGACCACGACGCT 61.579 60.000 9.33 0.00 32.18 5.07
732 738 1.963679 GCAAAAAGATGCGGGTGGA 59.036 52.632 0.00 0.00 36.45 4.02
744 794 3.809013 GGTGGATGGGCCGGTGAT 61.809 66.667 1.90 0.00 40.66 3.06
759 809 1.064654 GGTGATCCTGCTTTTGATCGC 59.935 52.381 0.00 0.00 44.11 4.58
775 825 4.211125 TGATCGCCTCTTATCAACTCTCT 58.789 43.478 0.00 0.00 0.00 3.10
776 826 4.037327 TGATCGCCTCTTATCAACTCTCTG 59.963 45.833 0.00 0.00 0.00 3.35
777 827 2.690497 TCGCCTCTTATCAACTCTCTGG 59.310 50.000 0.00 0.00 0.00 3.86
778 828 2.690497 CGCCTCTTATCAACTCTCTGGA 59.310 50.000 0.00 0.00 0.00 3.86
793 843 4.034258 GGACGGTCGACTCGTGCA 62.034 66.667 30.63 0.00 45.79 4.57
794 844 2.050714 GACGGTCGACTCGTGCAA 60.051 61.111 28.41 0.00 41.22 4.08
795 845 1.659335 GACGGTCGACTCGTGCAAA 60.659 57.895 28.41 0.00 41.22 3.68
796 846 1.006571 ACGGTCGACTCGTGCAAAT 60.007 52.632 24.60 5.52 39.55 2.32
797 847 1.007336 ACGGTCGACTCGTGCAAATC 61.007 55.000 24.60 1.84 39.55 2.17
798 848 0.732880 CGGTCGACTCGTGCAAATCT 60.733 55.000 16.46 0.00 0.00 2.40
802 852 0.363512 CGACTCGTGCAAATCTCGTG 59.636 55.000 0.00 0.00 33.77 4.35
803 853 1.419374 GACTCGTGCAAATCTCGTGT 58.581 50.000 1.65 1.65 39.88 4.49
804 854 1.792949 GACTCGTGCAAATCTCGTGTT 59.207 47.619 0.00 0.00 38.14 3.32
805 855 1.526887 ACTCGTGCAAATCTCGTGTTG 59.473 47.619 0.00 0.00 35.68 3.33
806 856 0.865111 TCGTGCAAATCTCGTGTTGG 59.135 50.000 0.00 0.00 33.77 3.77
831 909 5.354054 ACGAGACGGTATGTATGTATGTC 57.646 43.478 0.00 0.00 0.00 3.06
834 912 5.608676 AGACGGTATGTATGTATGTCTCG 57.391 43.478 0.00 0.00 29.81 4.04
836 914 5.049612 AGACGGTATGTATGTATGTCTCGTG 60.050 44.000 0.00 0.00 29.81 4.35
837 915 4.577693 ACGGTATGTATGTATGTCTCGTGT 59.422 41.667 0.00 0.00 0.00 4.49
839 917 5.398416 CGGTATGTATGTATGTCTCGTGTTG 59.602 44.000 0.00 0.00 0.00 3.33
840 918 5.690409 GGTATGTATGTATGTCTCGTGTTGG 59.310 44.000 0.00 0.00 0.00 3.77
841 919 5.592104 ATGTATGTATGTCTCGTGTTGGA 57.408 39.130 0.00 0.00 0.00 3.53
843 921 6.702716 TGTATGTATGTCTCGTGTTGGATA 57.297 37.500 0.00 0.00 0.00 2.59
844 922 6.500910 TGTATGTATGTCTCGTGTTGGATAC 58.499 40.000 0.00 0.00 0.00 2.24
845 923 4.023739 TGTATGTCTCGTGTTGGATACG 57.976 45.455 0.00 0.00 42.56 3.06
846 924 3.690628 TGTATGTCTCGTGTTGGATACGA 59.309 43.478 0.00 0.00 47.00 3.43
856 934 2.357327 TTGGATACGACACGTCCTTG 57.643 50.000 0.00 0.00 41.54 3.61
858 936 1.887854 TGGATACGACACGTCCTTGAA 59.112 47.619 0.00 0.00 41.54 2.69
859 937 2.257034 GGATACGACACGTCCTTGAAC 58.743 52.381 0.00 0.00 41.54 3.18
860 938 2.352030 GGATACGACACGTCCTTGAACA 60.352 50.000 0.00 0.00 41.54 3.18
862 940 2.012937 ACGACACGTCCTTGAACAAA 57.987 45.000 0.00 0.00 33.69 2.83
863 941 2.348660 ACGACACGTCCTTGAACAAAA 58.651 42.857 0.00 0.00 33.69 2.44
864 942 2.743126 ACGACACGTCCTTGAACAAAAA 59.257 40.909 0.00 0.00 33.69 1.94
895 1086 4.748892 AGGAAGTGAATGTGTATGTCTCG 58.251 43.478 0.00 0.00 0.00 4.04
935 1131 7.635202 CGTACGAATATGAATCAGATACGTAGG 59.365 40.741 10.44 13.84 35.14 3.18
958 1164 6.271624 AGGCATTATTATAAGGTCCTACCGTT 59.728 38.462 9.57 0.00 44.90 4.44
961 1167 7.118825 GCATTATTATAAGGTCCTACCGTTTCC 59.881 40.741 0.00 0.00 44.90 3.13
963 1169 6.564557 ATTATAAGGTCCTACCGTTTCCAA 57.435 37.500 0.00 0.00 44.90 3.53
964 1170 6.564557 TTATAAGGTCCTACCGTTTCCAAT 57.435 37.500 0.00 0.00 44.90 3.16
969 1188 5.633117 AGGTCCTACCGTTTCCAATAAAAA 58.367 37.500 0.00 0.00 44.90 1.94
1003 1222 8.135529 GGGTTTTCAATTTGATATAGTACAGGC 58.864 37.037 0.00 0.00 0.00 4.85
1004 1223 8.135529 GGTTTTCAATTTGATATAGTACAGGCC 58.864 37.037 0.00 0.00 0.00 5.19
1005 1224 7.490962 TTTCAATTTGATATAGTACAGGCCG 57.509 36.000 0.00 0.00 0.00 6.13
1006 1225 5.547465 TCAATTTGATATAGTACAGGCCGG 58.453 41.667 0.00 0.00 0.00 6.13
1007 1226 3.396260 TTTGATATAGTACAGGCCGGC 57.604 47.619 21.18 21.18 0.00 6.13
1008 1227 1.263356 TGATATAGTACAGGCCGGCC 58.737 55.000 39.29 39.29 0.00 6.13
1009 1228 0.172803 GATATAGTACAGGCCGGCCG 59.827 60.000 38.88 32.87 41.95 6.13
1010 1229 1.255667 ATATAGTACAGGCCGGCCGG 61.256 60.000 39.52 39.52 41.95 6.13
1023 1242 4.476752 GCCGGCCGTATTCCACCA 62.477 66.667 26.12 0.00 0.00 4.17
1024 1243 2.269562 CCGGCCGTATTCCACCAA 59.730 61.111 26.12 0.00 0.00 3.67
1025 1244 2.110352 CCGGCCGTATTCCACCAAC 61.110 63.158 26.12 0.00 0.00 3.77
1026 1245 1.376166 CGGCCGTATTCCACCAACA 60.376 57.895 19.50 0.00 0.00 3.33
1027 1246 1.641123 CGGCCGTATTCCACCAACAC 61.641 60.000 19.50 0.00 0.00 3.32
1028 1247 1.310216 GGCCGTATTCCACCAACACC 61.310 60.000 0.00 0.00 0.00 4.16
1029 1248 0.606944 GCCGTATTCCACCAACACCA 60.607 55.000 0.00 0.00 0.00 4.17
1030 1249 1.161843 CCGTATTCCACCAACACCAC 58.838 55.000 0.00 0.00 0.00 4.16
1031 1250 1.161843 CGTATTCCACCAACACCACC 58.838 55.000 0.00 0.00 0.00 4.61
1032 1251 1.541379 GTATTCCACCAACACCACCC 58.459 55.000 0.00 0.00 0.00 4.61
1033 1252 1.074889 GTATTCCACCAACACCACCCT 59.925 52.381 0.00 0.00 0.00 4.34
1034 1253 0.112412 ATTCCACCAACACCACCCTC 59.888 55.000 0.00 0.00 0.00 4.30
1035 1254 2.281484 CCACCAACACCACCCTCG 60.281 66.667 0.00 0.00 0.00 4.63
1036 1255 2.281484 CACCAACACCACCCTCGG 60.281 66.667 0.00 0.00 0.00 4.63
1037 1256 4.265056 ACCAACACCACCCTCGGC 62.265 66.667 0.00 0.00 0.00 5.54
1038 1257 3.953775 CCAACACCACCCTCGGCT 61.954 66.667 0.00 0.00 0.00 5.52
1039 1258 2.669569 CAACACCACCCTCGGCTG 60.670 66.667 0.00 0.00 0.00 4.85
1040 1259 4.643387 AACACCACCCTCGGCTGC 62.643 66.667 0.00 0.00 0.00 5.25
1045 1264 4.790962 CACCCTCGGCTGCAGCAT 62.791 66.667 37.63 14.20 44.36 3.79
1046 1265 3.083349 ACCCTCGGCTGCAGCATA 61.083 61.111 37.63 24.11 44.36 3.14
1047 1266 2.429058 CCCTCGGCTGCAGCATAT 59.571 61.111 37.63 0.00 44.36 1.78
1048 1267 1.670406 CCCTCGGCTGCAGCATATC 60.670 63.158 37.63 20.56 44.36 1.63
1049 1268 1.670406 CCTCGGCTGCAGCATATCC 60.670 63.158 37.63 20.18 44.36 2.59
1050 1269 1.070275 CTCGGCTGCAGCATATCCA 59.930 57.895 37.63 14.48 44.36 3.41
1051 1270 0.949588 CTCGGCTGCAGCATATCCAG 60.950 60.000 37.63 19.44 44.36 3.86
1052 1271 1.070275 CGGCTGCAGCATATCCAGA 59.930 57.895 37.63 0.00 44.36 3.86
1053 1272 0.949588 CGGCTGCAGCATATCCAGAG 60.950 60.000 37.63 14.01 44.36 3.35
1054 1273 0.108207 GGCTGCAGCATATCCAGAGT 59.892 55.000 37.63 0.00 44.36 3.24
1055 1274 1.510776 GCTGCAGCATATCCAGAGTC 58.489 55.000 33.36 0.00 41.59 3.36
1056 1275 1.202615 GCTGCAGCATATCCAGAGTCA 60.203 52.381 33.36 0.00 41.59 3.41
1057 1276 2.481854 CTGCAGCATATCCAGAGTCAC 58.518 52.381 0.00 0.00 0.00 3.67
1058 1277 1.139654 TGCAGCATATCCAGAGTCACC 59.860 52.381 0.00 0.00 0.00 4.02
1059 1278 1.871408 GCAGCATATCCAGAGTCACCG 60.871 57.143 0.00 0.00 0.00 4.94
1060 1279 1.043816 AGCATATCCAGAGTCACCGG 58.956 55.000 0.00 0.00 0.00 5.28
1061 1280 0.601311 GCATATCCAGAGTCACCGGC 60.601 60.000 0.00 0.00 0.00 6.13
1062 1281 1.043816 CATATCCAGAGTCACCGGCT 58.956 55.000 0.00 0.00 0.00 5.52
1063 1282 1.043816 ATATCCAGAGTCACCGGCTG 58.956 55.000 0.00 0.00 0.00 4.85
1064 1283 1.676678 TATCCAGAGTCACCGGCTGC 61.677 60.000 0.00 0.00 0.00 5.25
1065 1284 4.007644 CCAGAGTCACCGGCTGCA 62.008 66.667 0.00 0.00 0.00 4.41
1066 1285 2.267006 CAGAGTCACCGGCTGCAT 59.733 61.111 0.00 0.00 0.00 3.96
1067 1286 1.517361 CAGAGTCACCGGCTGCATA 59.483 57.895 0.00 0.00 0.00 3.14
1068 1287 0.105593 CAGAGTCACCGGCTGCATAT 59.894 55.000 0.00 0.00 0.00 1.78
1069 1288 0.390860 AGAGTCACCGGCTGCATATC 59.609 55.000 0.00 0.00 0.00 1.63
1070 1289 0.601311 GAGTCACCGGCTGCATATCC 60.601 60.000 0.00 0.00 0.00 2.59
1071 1290 1.146041 GTCACCGGCTGCATATCCA 59.854 57.895 0.00 0.00 0.00 3.41
1072 1291 0.882042 GTCACCGGCTGCATATCCAG 60.882 60.000 0.00 0.00 35.93 3.86
1073 1292 1.048160 TCACCGGCTGCATATCCAGA 61.048 55.000 0.00 0.00 34.77 3.86
1074 1293 0.602106 CACCGGCTGCATATCCAGAG 60.602 60.000 0.00 0.00 34.77 3.35
1075 1294 1.050988 ACCGGCTGCATATCCAGAGT 61.051 55.000 0.00 0.00 34.77 3.24
1076 1295 0.320247 CCGGCTGCATATCCAGAGTC 60.320 60.000 0.00 0.00 34.77 3.36
1077 1296 0.678395 CGGCTGCATATCCAGAGTCT 59.322 55.000 0.00 0.00 34.77 3.24
1078 1297 1.336702 CGGCTGCATATCCAGAGTCTC 60.337 57.143 0.00 0.00 34.77 3.36
1079 1298 1.336702 GGCTGCATATCCAGAGTCTCG 60.337 57.143 0.00 0.00 34.77 4.04
1080 1299 1.339610 GCTGCATATCCAGAGTCTCGT 59.660 52.381 0.00 0.00 34.77 4.18
1081 1300 2.554462 GCTGCATATCCAGAGTCTCGTA 59.446 50.000 0.00 0.00 34.77 3.43
1082 1301 3.192422 GCTGCATATCCAGAGTCTCGTAT 59.808 47.826 0.00 0.00 34.77 3.06
1086 1305 5.412904 TGCATATCCAGAGTCTCGTATACAG 59.587 44.000 3.32 0.22 0.00 2.74
1135 1354 3.712881 GGACACGCAGCGTTGTCC 61.713 66.667 33.88 33.88 43.96 4.02
1167 1386 3.103911 CGCCGTTCACGAGTCCAC 61.104 66.667 0.00 0.00 43.02 4.02
1227 1446 1.941209 GCACGTGCTCAAGATCCAAGA 60.941 52.381 32.55 0.00 38.21 3.02
1306 1525 1.656587 ATGTAGGAGGCACAACTGGA 58.343 50.000 0.00 0.00 0.00 3.86
1573 1792 4.100808 CTCGAAGAATTCCTCCTCAAGGAT 59.899 45.833 0.65 0.00 46.33 3.24
1624 1843 2.164017 GGTGGTCGAGTTCCTTAGAGAC 59.836 54.545 0.00 0.00 0.00 3.36
1673 1895 2.588856 GATACCACCACCGGACTGGC 62.589 65.000 9.46 0.00 43.94 4.85
1684 1906 1.152546 GGACTGGCCCCAACACTTT 60.153 57.895 0.00 0.00 0.00 2.66
1729 1951 1.587350 CGCAGACGTGATGCTCGAT 60.587 57.895 17.48 0.00 41.61 3.59
1814 2036 1.692148 CGAGCTTTATGGCGCGTTGA 61.692 55.000 8.43 0.00 46.89 3.18
1832 2054 2.488952 TGAAAGAGCGCAACACATACA 58.511 42.857 11.47 0.00 0.00 2.29
1894 2116 2.159181 GCACTTTGCGTACACCGAT 58.841 52.632 0.00 0.00 39.56 4.18
1967 2189 2.167398 GAAGGCCGCTGACAGGTACA 62.167 60.000 4.26 0.00 0.00 2.90
2106 2328 2.732412 TGCTTCGAGTTTCTCCTCAG 57.268 50.000 0.00 0.00 0.00 3.35
2262 2484 0.313043 GAGGAAGACGACAACCACGA 59.687 55.000 0.00 0.00 34.70 4.35
2363 2585 3.318875 CGCACACGTCTTCAAGCA 58.681 55.556 0.00 0.00 33.53 3.91
2401 2623 1.506418 ACCCCTATTCATCCCGACCTA 59.494 52.381 0.00 0.00 0.00 3.08
2550 2772 1.670949 GAGCTCGGGTGCAGAGATGA 61.671 60.000 0.00 0.00 37.93 2.92
2556 2778 2.749076 TCGGGTGCAGAGATGAATTTTG 59.251 45.455 0.00 0.00 0.00 2.44
2580 2802 5.535030 GGTGAAAACAATACCTTCTCACCTT 59.465 40.000 10.37 0.00 45.13 3.50
2582 2804 5.768164 TGAAAACAATACCTTCTCACCTTCC 59.232 40.000 0.00 0.00 0.00 3.46
2612 2839 1.063567 GGAGGTAAGAGCTGGGAGAGA 60.064 57.143 0.00 0.00 0.00 3.10
2624 2851 3.743521 CTGGGAGAGAATTTGTCACACA 58.256 45.455 0.00 0.00 28.12 3.72
2625 2852 3.476552 TGGGAGAGAATTTGTCACACAC 58.523 45.455 0.00 0.00 25.30 3.82
2626 2853 3.118075 TGGGAGAGAATTTGTCACACACA 60.118 43.478 0.00 0.00 25.30 3.72
2627 2854 3.499918 GGGAGAGAATTTGTCACACACAG 59.500 47.826 0.00 0.00 35.97 3.66
2628 2855 3.499918 GGAGAGAATTTGTCACACACAGG 59.500 47.826 0.00 0.00 35.97 4.00
2629 2856 4.130118 GAGAGAATTTGTCACACACAGGT 58.870 43.478 0.00 0.00 35.97 4.00
2638 2865 4.579384 CACACAGGTGCGGGGGTT 62.579 66.667 0.00 0.00 38.37 4.11
2639 2866 4.579384 ACACAGGTGCGGGGGTTG 62.579 66.667 0.00 0.00 0.00 3.77
2642 2869 4.278513 CAGGTGCGGGGGTTGGAA 62.279 66.667 0.00 0.00 0.00 3.53
2643 2870 3.503839 AGGTGCGGGGGTTGGAAA 61.504 61.111 0.00 0.00 0.00 3.13
2658 2885 5.696260 GTTGGAAACTAGCACACAAAAAC 57.304 39.130 0.00 0.00 45.32 2.43
2659 2886 5.164954 GTTGGAAACTAGCACACAAAAACA 58.835 37.500 0.00 0.00 45.32 2.83
2660 2887 4.739195 TGGAAACTAGCACACAAAAACAC 58.261 39.130 0.00 0.00 0.00 3.32
2661 2888 4.461081 TGGAAACTAGCACACAAAAACACT 59.539 37.500 0.00 0.00 0.00 3.55
2662 2889 5.047660 TGGAAACTAGCACACAAAAACACTT 60.048 36.000 0.00 0.00 0.00 3.16
2663 2890 5.288472 GGAAACTAGCACACAAAAACACTTG 59.712 40.000 0.00 0.00 0.00 3.16
2664 2891 5.385509 AACTAGCACACAAAAACACTTGT 57.614 34.783 0.00 0.00 40.17 3.16
2672 2899 4.759516 ACAAAAACACTTGTGACGAACT 57.240 36.364 7.83 0.00 38.12 3.01
2673 2900 4.472286 ACAAAAACACTTGTGACGAACTG 58.528 39.130 7.83 0.58 38.12 3.16
2674 2901 4.214545 ACAAAAACACTTGTGACGAACTGA 59.785 37.500 7.83 0.00 38.12 3.41
2675 2902 5.150683 CAAAAACACTTGTGACGAACTGAA 58.849 37.500 7.83 0.00 0.00 3.02
2676 2903 5.560966 AAAACACTTGTGACGAACTGAAT 57.439 34.783 7.83 0.00 0.00 2.57
2677 2904 6.671614 AAAACACTTGTGACGAACTGAATA 57.328 33.333 7.83 0.00 0.00 1.75
2678 2905 5.652744 AACACTTGTGACGAACTGAATAC 57.347 39.130 7.83 0.00 0.00 1.89
2679 2906 4.945246 ACACTTGTGACGAACTGAATACT 58.055 39.130 7.83 0.00 0.00 2.12
2680 2907 6.080648 ACACTTGTGACGAACTGAATACTA 57.919 37.500 7.83 0.00 0.00 1.82
2681 2908 5.919141 ACACTTGTGACGAACTGAATACTAC 59.081 40.000 7.83 0.00 0.00 2.73
2682 2909 5.918576 CACTTGTGACGAACTGAATACTACA 59.081 40.000 0.00 0.00 0.00 2.74
2683 2910 6.419710 CACTTGTGACGAACTGAATACTACAA 59.580 38.462 0.00 0.00 0.00 2.41
2684 2911 6.420008 ACTTGTGACGAACTGAATACTACAAC 59.580 38.462 0.00 0.00 0.00 3.32
2685 2912 4.913345 TGTGACGAACTGAATACTACAACG 59.087 41.667 0.00 0.00 0.00 4.10
2686 2913 4.322804 GTGACGAACTGAATACTACAACGG 59.677 45.833 0.00 0.00 0.00 4.44
2687 2914 3.841643 ACGAACTGAATACTACAACGGG 58.158 45.455 0.00 0.00 0.00 5.28
2688 2915 3.507233 ACGAACTGAATACTACAACGGGA 59.493 43.478 0.00 0.00 0.00 5.14
2689 2916 4.022068 ACGAACTGAATACTACAACGGGAA 60.022 41.667 0.00 0.00 0.00 3.97
2690 2917 4.325472 CGAACTGAATACTACAACGGGAAC 59.675 45.833 0.00 0.00 0.00 3.62
2691 2918 4.877378 ACTGAATACTACAACGGGAACA 57.123 40.909 0.00 0.00 0.00 3.18
2692 2919 5.217978 ACTGAATACTACAACGGGAACAA 57.782 39.130 0.00 0.00 0.00 2.83
2693 2920 5.613329 ACTGAATACTACAACGGGAACAAA 58.387 37.500 0.00 0.00 0.00 2.83
2694 2921 5.699458 ACTGAATACTACAACGGGAACAAAG 59.301 40.000 0.00 0.00 0.00 2.77
2695 2922 5.613329 TGAATACTACAACGGGAACAAAGT 58.387 37.500 0.00 0.00 0.00 2.66
2696 2923 6.757237 TGAATACTACAACGGGAACAAAGTA 58.243 36.000 0.00 0.00 0.00 2.24
2697 2924 7.215789 TGAATACTACAACGGGAACAAAGTAA 58.784 34.615 0.00 0.00 0.00 2.24
2698 2925 7.879160 TGAATACTACAACGGGAACAAAGTAAT 59.121 33.333 0.00 0.00 0.00 1.89
2699 2926 9.369904 GAATACTACAACGGGAACAAAGTAATA 57.630 33.333 0.00 0.00 0.00 0.98
2700 2927 9.895138 AATACTACAACGGGAACAAAGTAATAT 57.105 29.630 0.00 0.00 0.00 1.28
2701 2928 7.838771 ACTACAACGGGAACAAAGTAATATC 57.161 36.000 0.00 0.00 0.00 1.63
2702 2929 7.388437 ACTACAACGGGAACAAAGTAATATCA 58.612 34.615 0.00 0.00 0.00 2.15
2703 2930 6.737254 ACAACGGGAACAAAGTAATATCAG 57.263 37.500 0.00 0.00 0.00 2.90
2704 2931 5.123344 ACAACGGGAACAAAGTAATATCAGC 59.877 40.000 0.00 0.00 0.00 4.26
2705 2932 4.839121 ACGGGAACAAAGTAATATCAGCA 58.161 39.130 0.00 0.00 0.00 4.41
2706 2933 5.437060 ACGGGAACAAAGTAATATCAGCAT 58.563 37.500 0.00 0.00 0.00 3.79
2707 2934 5.527582 ACGGGAACAAAGTAATATCAGCATC 59.472 40.000 0.00 0.00 0.00 3.91
2708 2935 5.527214 CGGGAACAAAGTAATATCAGCATCA 59.473 40.000 0.00 0.00 0.00 3.07
2709 2936 6.511767 CGGGAACAAAGTAATATCAGCATCAC 60.512 42.308 0.00 0.00 0.00 3.06
2710 2937 6.238759 GGGAACAAAGTAATATCAGCATCACC 60.239 42.308 0.00 0.00 0.00 4.02
2711 2938 6.543831 GGAACAAAGTAATATCAGCATCACCT 59.456 38.462 0.00 0.00 0.00 4.00
2712 2939 7.254932 GGAACAAAGTAATATCAGCATCACCTC 60.255 40.741 0.00 0.00 0.00 3.85
2713 2940 6.653020 ACAAAGTAATATCAGCATCACCTCA 58.347 36.000 0.00 0.00 0.00 3.86
2714 2941 7.285566 ACAAAGTAATATCAGCATCACCTCAT 58.714 34.615 0.00 0.00 0.00 2.90
2715 2942 7.228108 ACAAAGTAATATCAGCATCACCTCATG 59.772 37.037 0.00 0.00 0.00 3.07
2716 2943 6.430962 AGTAATATCAGCATCACCTCATGT 57.569 37.500 0.00 0.00 0.00 3.21
2717 2944 7.544804 AGTAATATCAGCATCACCTCATGTA 57.455 36.000 0.00 0.00 0.00 2.29
2718 2945 7.382110 AGTAATATCAGCATCACCTCATGTAC 58.618 38.462 0.00 0.00 0.00 2.90
2719 2946 6.430962 AATATCAGCATCACCTCATGTACT 57.569 37.500 0.00 0.00 0.00 2.73
2720 2947 7.544804 AATATCAGCATCACCTCATGTACTA 57.455 36.000 0.00 0.00 0.00 1.82
2721 2948 5.876651 ATCAGCATCACCTCATGTACTAA 57.123 39.130 0.00 0.00 0.00 2.24
2722 2949 5.011090 TCAGCATCACCTCATGTACTAAC 57.989 43.478 0.00 0.00 0.00 2.34
2723 2950 3.798878 CAGCATCACCTCATGTACTAACG 59.201 47.826 0.00 0.00 0.00 3.18
2724 2951 2.540101 GCATCACCTCATGTACTAACGC 59.460 50.000 0.00 0.00 0.00 4.84
2725 2952 3.780902 CATCACCTCATGTACTAACGCA 58.219 45.455 0.00 0.00 0.00 5.24
2726 2953 3.945981 TCACCTCATGTACTAACGCAA 57.054 42.857 0.00 0.00 0.00 4.85
2728 2955 2.930040 CACCTCATGTACTAACGCAAGG 59.070 50.000 0.00 0.00 46.39 3.61
2729 2956 2.829720 ACCTCATGTACTAACGCAAGGA 59.170 45.455 0.00 0.00 46.39 3.36
2730 2957 3.119101 ACCTCATGTACTAACGCAAGGAG 60.119 47.826 0.00 0.00 46.39 3.69
2731 2958 2.860735 CTCATGTACTAACGCAAGGAGC 59.139 50.000 0.00 0.00 46.39 4.70
2742 2969 2.543578 CAAGGAGCGTTGCTTAGCA 58.456 52.632 5.58 1.39 39.88 3.49
2743 2970 0.166814 CAAGGAGCGTTGCTTAGCAC 59.833 55.000 6.34 1.40 39.88 4.40
2744 2971 1.291877 AAGGAGCGTTGCTTAGCACG 61.292 55.000 19.21 19.21 39.88 5.34
2745 2972 1.736645 GGAGCGTTGCTTAGCACGA 60.737 57.895 24.70 4.15 39.88 4.35
2746 2973 1.289109 GGAGCGTTGCTTAGCACGAA 61.289 55.000 24.70 3.46 39.88 3.85
2747 2974 0.511221 GAGCGTTGCTTAGCACGAAA 59.489 50.000 24.70 3.12 39.88 3.46
2748 2975 0.512952 AGCGTTGCTTAGCACGAAAG 59.487 50.000 24.70 9.06 38.71 2.62
2770 2997 3.185797 GGTGTTGGAGTTGTGTCGAATAC 59.814 47.826 0.00 0.00 0.00 1.89
2811 3038 9.480053 GTTACAGTTGGACTTGTAGTTGTATTA 57.520 33.333 0.00 0.00 0.00 0.98
2874 3140 7.617723 CACTTGTATCCTAGGCCTCTCTTATAT 59.382 40.741 9.68 0.00 0.00 0.86
3129 4869 5.099042 AGCTAACTATCGACATTTTGGGT 57.901 39.130 0.00 0.00 0.00 4.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 3.353836 GCGGAACTCTTTGGCGCA 61.354 61.111 10.83 0.00 0.00 6.09
44 45 2.130073 AAAGCGGAACTCTTTGGCGC 62.130 55.000 0.00 0.00 42.19 6.53
121 122 1.909376 CGGACGTGAGGTTCATAGTG 58.091 55.000 0.00 0.00 0.00 2.74
189 190 2.044555 CGTCCTCTACTGCCCGTCA 61.045 63.158 0.00 0.00 0.00 4.35
196 197 0.457851 CTTGCCCTCGTCCTCTACTG 59.542 60.000 0.00 0.00 0.00 2.74
197 198 0.684805 CCTTGCCCTCGTCCTCTACT 60.685 60.000 0.00 0.00 0.00 2.57
234 235 4.067192 CAACATCACTGTCATGGAGTTCA 58.933 43.478 0.00 0.00 33.36 3.18
247 248 0.603707 CGGTCAGGTGCAACATCACT 60.604 55.000 3.64 0.00 39.98 3.41
302 303 1.737793 CTGGGGCTACGACAAATTCAC 59.262 52.381 0.00 0.00 0.00 3.18
321 322 2.506438 GCTTCGTCGGCGCTTACT 60.506 61.111 3.52 0.00 38.14 2.24
336 337 0.384230 CGACGTGTGCAATTTTCGCT 60.384 50.000 0.00 0.00 0.00 4.93
337 338 1.919239 GCGACGTGTGCAATTTTCGC 61.919 55.000 15.49 15.49 44.22 4.70
359 360 0.459585 CCTCGCTACGCTAAAGCCAA 60.460 55.000 0.00 0.00 36.60 4.52
361 362 2.238437 GCCTCGCTACGCTAAAGCC 61.238 63.158 0.00 0.00 36.60 4.35
398 399 3.554692 CGGGTTCGACATGCTCGC 61.555 66.667 11.34 1.54 42.62 5.03
669 670 2.203640 ACGTCAGAGCTCCCACCA 60.204 61.111 10.93 0.00 0.00 4.17
743 793 1.211457 AGAGGCGATCAAAAGCAGGAT 59.789 47.619 0.00 0.00 34.54 3.24
744 794 0.615331 AGAGGCGATCAAAAGCAGGA 59.385 50.000 0.00 0.00 34.54 3.86
759 809 3.067461 CCGTCCAGAGAGTTGATAAGAGG 59.933 52.174 0.00 0.00 0.00 3.69
775 825 4.034258 GCACGAGTCGACCGTCCA 62.034 66.667 23.25 0.00 38.29 4.02
776 826 3.547249 TTGCACGAGTCGACCGTCC 62.547 63.158 23.25 17.68 38.29 4.79
777 827 1.007336 ATTTGCACGAGTCGACCGTC 61.007 55.000 23.25 18.58 38.29 4.79
778 828 1.006571 ATTTGCACGAGTCGACCGT 60.007 52.632 21.50 21.26 41.36 4.83
798 848 0.448990 CCGTCTCGTATCCAACACGA 59.551 55.000 0.00 0.00 45.51 4.35
802 852 3.705043 ACATACCGTCTCGTATCCAAC 57.295 47.619 0.00 0.00 0.00 3.77
803 853 4.823442 ACATACATACCGTCTCGTATCCAA 59.177 41.667 0.00 0.00 0.00 3.53
804 854 4.392047 ACATACATACCGTCTCGTATCCA 58.608 43.478 0.00 0.00 0.00 3.41
805 855 6.093219 ACATACATACATACCGTCTCGTATCC 59.907 42.308 0.00 0.00 0.00 2.59
806 856 7.064371 AGACATACATACATACCGTCTCGTATC 59.936 40.741 0.00 0.00 0.00 2.24
834 912 1.068055 AGGACGTGTCGTATCCAACAC 60.068 52.381 0.00 0.00 41.37 3.32
836 914 1.990563 CAAGGACGTGTCGTATCCAAC 59.009 52.381 0.00 0.00 41.37 3.77
837 915 1.887854 TCAAGGACGTGTCGTATCCAA 59.112 47.619 0.00 0.00 41.37 3.53
839 917 2.257034 GTTCAAGGACGTGTCGTATCC 58.743 52.381 0.00 0.00 41.37 2.59
840 918 2.937591 TGTTCAAGGACGTGTCGTATC 58.062 47.619 0.00 0.00 41.37 2.24
841 919 3.374220 TTGTTCAAGGACGTGTCGTAT 57.626 42.857 0.00 0.00 41.37 3.06
843 921 2.012937 TTTGTTCAAGGACGTGTCGT 57.987 45.000 0.00 0.00 45.10 4.34
844 922 3.392769 TTTTTGTTCAAGGACGTGTCG 57.607 42.857 0.00 0.00 0.00 4.35
862 940 6.323739 ACACATTCACTTCCTATGGTGTTTTT 59.676 34.615 0.00 0.00 35.26 1.94
863 941 5.833131 ACACATTCACTTCCTATGGTGTTTT 59.167 36.000 0.00 0.00 35.26 2.43
864 942 5.385198 ACACATTCACTTCCTATGGTGTTT 58.615 37.500 0.00 0.00 35.26 2.83
865 943 4.985538 ACACATTCACTTCCTATGGTGTT 58.014 39.130 0.00 0.00 35.26 3.32
866 944 4.640771 ACACATTCACTTCCTATGGTGT 57.359 40.909 0.00 0.00 35.26 4.16
867 945 6.115446 ACATACACATTCACTTCCTATGGTG 58.885 40.000 0.00 0.00 35.06 4.17
868 946 6.156949 AGACATACACATTCACTTCCTATGGT 59.843 38.462 0.00 0.00 0.00 3.55
869 947 6.586344 AGACATACACATTCACTTCCTATGG 58.414 40.000 0.00 0.00 0.00 2.74
870 948 6.419116 CGAGACATACACATTCACTTCCTATG 59.581 42.308 0.00 0.00 0.00 2.23
872 950 5.417894 ACGAGACATACACATTCACTTCCTA 59.582 40.000 0.00 0.00 0.00 2.94
874 952 4.327357 CACGAGACATACACATTCACTTCC 59.673 45.833 0.00 0.00 0.00 3.46
875 953 4.201628 GCACGAGACATACACATTCACTTC 60.202 45.833 0.00 0.00 0.00 3.01
876 954 3.679980 GCACGAGACATACACATTCACTT 59.320 43.478 0.00 0.00 0.00 3.16
884 1065 5.803461 TGTAATTGTAGCACGAGACATACAC 59.197 40.000 0.00 0.00 0.00 2.90
895 1086 5.691508 ATTCGTACGTGTAATTGTAGCAC 57.308 39.130 16.05 0.00 0.00 4.40
912 1103 6.072119 TGCCTACGTATCTGATTCATATTCGT 60.072 38.462 16.65 16.65 31.69 3.85
935 1131 7.118825 GGAAACGGTAGGACCTTATAATAATGC 59.881 40.741 0.00 0.00 35.66 3.56
941 1137 6.564557 ATTGGAAACGGTAGGACCTTATAA 57.435 37.500 0.00 0.00 35.66 0.98
942 1138 7.673641 TTATTGGAAACGGTAGGACCTTATA 57.326 36.000 0.00 0.00 35.66 0.98
943 1139 6.564557 TTATTGGAAACGGTAGGACCTTAT 57.435 37.500 0.00 0.00 35.66 1.73
945 1141 4.914177 TTATTGGAAACGGTAGGACCTT 57.086 40.909 0.00 0.00 35.66 3.50
946 1142 4.914177 TTTATTGGAAACGGTAGGACCT 57.086 40.909 0.00 0.00 35.66 3.85
947 1143 5.963176 TTTTTATTGGAAACGGTAGGACC 57.037 39.130 0.00 0.00 34.05 4.46
983 1202 5.547465 CCGGCCTGTACTATATCAAATTGA 58.453 41.667 0.00 0.00 0.00 2.57
988 1207 1.621814 GGCCGGCCTGTACTATATCAA 59.378 52.381 38.76 0.00 0.00 2.57
989 1208 1.263356 GGCCGGCCTGTACTATATCA 58.737 55.000 38.76 0.00 0.00 2.15
990 1209 0.172803 CGGCCGGCCTGTACTATATC 59.827 60.000 41.01 12.39 0.00 1.63
992 1211 1.904865 CCGGCCGGCCTGTACTATA 60.905 63.158 41.01 0.00 0.00 1.31
1006 1225 3.980442 TTGGTGGAATACGGCCGGC 62.980 63.158 31.76 21.18 0.00 6.13
1007 1226 2.110352 GTTGGTGGAATACGGCCGG 61.110 63.158 31.76 11.88 0.00 6.13
1008 1227 1.376166 TGTTGGTGGAATACGGCCG 60.376 57.895 26.86 26.86 0.00 6.13
1009 1228 1.310216 GGTGTTGGTGGAATACGGCC 61.310 60.000 0.00 0.00 0.00 6.13
1010 1229 0.606944 TGGTGTTGGTGGAATACGGC 60.607 55.000 0.00 0.00 0.00 5.68
1011 1230 1.161843 GTGGTGTTGGTGGAATACGG 58.838 55.000 0.00 0.00 0.00 4.02
1012 1231 1.161843 GGTGGTGTTGGTGGAATACG 58.838 55.000 0.00 0.00 0.00 3.06
1013 1232 1.074889 AGGGTGGTGTTGGTGGAATAC 59.925 52.381 0.00 0.00 0.00 1.89
1014 1233 1.353022 GAGGGTGGTGTTGGTGGAATA 59.647 52.381 0.00 0.00 0.00 1.75
1015 1234 0.112412 GAGGGTGGTGTTGGTGGAAT 59.888 55.000 0.00 0.00 0.00 3.01
1016 1235 1.534697 GAGGGTGGTGTTGGTGGAA 59.465 57.895 0.00 0.00 0.00 3.53
1017 1236 2.813726 CGAGGGTGGTGTTGGTGGA 61.814 63.158 0.00 0.00 0.00 4.02
1018 1237 2.281484 CGAGGGTGGTGTTGGTGG 60.281 66.667 0.00 0.00 0.00 4.61
1019 1238 2.281484 CCGAGGGTGGTGTTGGTG 60.281 66.667 0.00 0.00 0.00 4.17
1020 1239 4.265056 GCCGAGGGTGGTGTTGGT 62.265 66.667 0.00 0.00 0.00 3.67
1021 1240 3.953775 AGCCGAGGGTGGTGTTGG 61.954 66.667 0.00 0.00 0.00 3.77
1022 1241 2.669569 CAGCCGAGGGTGGTGTTG 60.670 66.667 13.12 0.00 39.65 3.33
1023 1242 4.643387 GCAGCCGAGGGTGGTGTT 62.643 66.667 21.05 0.00 43.11 3.32
1028 1247 2.671370 ATATGCTGCAGCCGAGGGTG 62.671 60.000 34.64 16.27 45.36 4.61
1029 1248 2.388890 GATATGCTGCAGCCGAGGGT 62.389 60.000 34.64 15.17 41.18 4.34
1030 1249 1.670406 GATATGCTGCAGCCGAGGG 60.670 63.158 34.64 0.00 41.18 4.30
1031 1250 1.670406 GGATATGCTGCAGCCGAGG 60.670 63.158 34.64 0.00 41.18 4.63
1032 1251 0.949588 CTGGATATGCTGCAGCCGAG 60.950 60.000 34.64 21.00 36.44 4.63
1033 1252 1.070275 CTGGATATGCTGCAGCCGA 59.930 57.895 34.64 22.93 36.44 5.54
1034 1253 0.949588 CTCTGGATATGCTGCAGCCG 60.950 60.000 34.64 14.89 42.69 5.52
1035 1254 0.108207 ACTCTGGATATGCTGCAGCC 59.892 55.000 34.64 19.42 42.69 4.85
1036 1255 1.202615 TGACTCTGGATATGCTGCAGC 60.203 52.381 31.89 31.89 42.69 5.25
1037 1256 2.481854 GTGACTCTGGATATGCTGCAG 58.518 52.381 10.11 10.11 44.23 4.41
1038 1257 1.139654 GGTGACTCTGGATATGCTGCA 59.860 52.381 4.13 4.13 0.00 4.41
1039 1258 1.871408 CGGTGACTCTGGATATGCTGC 60.871 57.143 0.00 0.00 0.00 5.25
1040 1259 1.269988 CCGGTGACTCTGGATATGCTG 60.270 57.143 0.00 0.00 45.09 4.41
1041 1260 1.043816 CCGGTGACTCTGGATATGCT 58.956 55.000 0.00 0.00 45.09 3.79
1042 1261 0.601311 GCCGGTGACTCTGGATATGC 60.601 60.000 1.90 0.00 45.09 3.14
1043 1262 1.043816 AGCCGGTGACTCTGGATATG 58.956 55.000 1.90 0.00 45.09 1.78
1044 1263 1.043816 CAGCCGGTGACTCTGGATAT 58.956 55.000 1.90 0.00 45.09 1.63
1045 1264 1.676678 GCAGCCGGTGACTCTGGATA 61.677 60.000 1.90 0.00 45.09 2.59
1046 1265 3.023949 GCAGCCGGTGACTCTGGAT 62.024 63.158 1.90 0.00 45.09 3.41
1047 1266 3.695606 GCAGCCGGTGACTCTGGA 61.696 66.667 1.90 0.00 45.09 3.86
1048 1267 1.960040 TATGCAGCCGGTGACTCTGG 61.960 60.000 1.90 0.00 45.06 3.86
1049 1268 0.105593 ATATGCAGCCGGTGACTCTG 59.894 55.000 1.90 1.94 0.00 3.35
1050 1269 0.390860 GATATGCAGCCGGTGACTCT 59.609 55.000 1.90 0.00 0.00 3.24
1051 1270 0.601311 GGATATGCAGCCGGTGACTC 60.601 60.000 1.90 0.00 0.00 3.36
1052 1271 1.337384 TGGATATGCAGCCGGTGACT 61.337 55.000 1.90 0.00 30.53 3.41
1053 1272 0.882042 CTGGATATGCAGCCGGTGAC 60.882 60.000 11.59 0.00 31.46 3.67
1054 1273 1.048160 TCTGGATATGCAGCCGGTGA 61.048 55.000 18.71 0.00 37.86 4.02
1055 1274 0.602106 CTCTGGATATGCAGCCGGTG 60.602 60.000 18.71 0.89 37.86 4.94
1056 1275 1.050988 ACTCTGGATATGCAGCCGGT 61.051 55.000 18.71 13.60 37.86 5.28
1057 1276 0.320247 GACTCTGGATATGCAGCCGG 60.320 60.000 18.71 13.04 38.00 6.13
1058 1277 0.678395 AGACTCTGGATATGCAGCCG 59.322 55.000 18.71 13.96 30.53 5.52
1059 1278 1.336702 CGAGACTCTGGATATGCAGCC 60.337 57.143 18.71 10.37 0.00 4.85
1060 1279 1.339610 ACGAGACTCTGGATATGCAGC 59.660 52.381 18.71 5.86 0.00 5.25
1061 1280 5.412904 TGTATACGAGACTCTGGATATGCAG 59.587 44.000 17.55 17.55 0.00 4.41
1062 1281 5.313712 TGTATACGAGACTCTGGATATGCA 58.686 41.667 0.03 0.00 0.00 3.96
1063 1282 5.675071 GCTGTATACGAGACTCTGGATATGC 60.675 48.000 0.03 6.40 0.00 3.14
1064 1283 5.163703 GGCTGTATACGAGACTCTGGATATG 60.164 48.000 0.03 1.23 0.00 1.78
1065 1284 4.944930 GGCTGTATACGAGACTCTGGATAT 59.055 45.833 0.03 0.00 0.00 1.63
1066 1285 4.202430 TGGCTGTATACGAGACTCTGGATA 60.202 45.833 0.03 0.00 0.00 2.59
1067 1286 3.150767 GGCTGTATACGAGACTCTGGAT 58.849 50.000 0.03 0.00 0.00 3.41
1068 1287 2.092592 TGGCTGTATACGAGACTCTGGA 60.093 50.000 0.03 0.00 0.00 3.86
1069 1288 2.033550 GTGGCTGTATACGAGACTCTGG 59.966 54.545 0.03 0.00 0.00 3.86
1070 1289 2.286477 CGTGGCTGTATACGAGACTCTG 60.286 54.545 0.03 0.00 42.54 3.35
1071 1290 1.941294 CGTGGCTGTATACGAGACTCT 59.059 52.381 0.03 0.00 42.54 3.24
1072 1291 1.002684 CCGTGGCTGTATACGAGACTC 60.003 57.143 8.88 0.00 42.54 3.36
1073 1292 1.022735 CCGTGGCTGTATACGAGACT 58.977 55.000 8.88 0.00 42.54 3.24
1074 1293 0.737219 ACCGTGGCTGTATACGAGAC 59.263 55.000 0.00 0.12 42.54 3.36
1075 1294 1.019673 GACCGTGGCTGTATACGAGA 58.980 55.000 0.00 0.00 42.54 4.04
1076 1295 0.736636 TGACCGTGGCTGTATACGAG 59.263 55.000 0.00 0.00 42.54 4.18
1077 1296 0.452987 GTGACCGTGGCTGTATACGA 59.547 55.000 0.00 0.00 42.54 3.43
1078 1297 0.526954 GGTGACCGTGGCTGTATACG 60.527 60.000 0.00 0.00 39.83 3.06
1079 1298 0.526954 CGGTGACCGTGGCTGTATAC 60.527 60.000 17.28 0.00 42.73 1.47
1080 1299 1.669049 CCGGTGACCGTGGCTGTATA 61.669 60.000 23.73 0.00 46.80 1.47
1081 1300 2.577059 CGGTGACCGTGGCTGTAT 59.423 61.111 17.28 0.00 42.73 2.29
1082 1301 3.687102 CCGGTGACCGTGGCTGTA 61.687 66.667 23.73 0.00 46.80 2.74
1160 1379 0.822121 GTGGTGTTTGGGGTGGACTC 60.822 60.000 0.00 0.00 0.00 3.36
1167 1386 2.117423 GGAGGGTGGTGTTTGGGG 59.883 66.667 0.00 0.00 0.00 4.96
1227 1446 5.961396 GCTCTTGCTCATCCATGAATATT 57.039 39.130 0.00 0.00 36.18 1.28
1271 1490 4.968719 TCCTACATAGAAGGATTTGGAGCA 59.031 41.667 0.00 0.00 38.24 4.26
1573 1792 1.140852 CACCTGACCCAGAAACAGTCA 59.859 52.381 0.00 0.00 38.17 3.41
1654 1873 1.520666 CCAGTCCGGTGGTGGTATC 59.479 63.158 0.00 0.00 32.32 2.24
1666 1888 1.152546 AAAGTGTTGGGGCCAGTCC 60.153 57.895 4.39 0.00 0.00 3.85
1729 1951 2.513259 AAAAGTCTCCCCGCCGACA 61.513 57.895 0.00 0.00 32.68 4.35
1814 2036 3.062099 CGTATGTATGTGTTGCGCTCTTT 59.938 43.478 9.73 0.00 0.00 2.52
1826 2048 2.874086 TGTCGTCGATCCGTATGTATGT 59.126 45.455 0.00 0.00 0.00 2.29
1832 2054 2.480802 CTCTCATGTCGTCGATCCGTAT 59.519 50.000 0.00 0.00 0.00 3.06
1967 2189 0.990374 AGCTTGAGCCTCTCCATGTT 59.010 50.000 0.00 0.00 43.38 2.71
2363 2585 2.607187 GGTTCGACGATCATGTGTCTT 58.393 47.619 0.00 0.00 32.93 3.01
2370 2592 2.963101 TGAATAGGGGTTCGACGATCAT 59.037 45.455 0.00 0.00 0.00 2.45
2401 2623 5.339008 TGAAGGTAGCAATATCACGAGTT 57.661 39.130 0.00 0.00 0.00 3.01
2550 2772 8.482128 TGAGAAGGTATTGTTTTCACCAAAATT 58.518 29.630 0.00 0.00 33.98 1.82
2556 2778 5.372547 GGTGAGAAGGTATTGTTTTCACC 57.627 43.478 9.11 9.11 44.17 4.02
2580 2802 5.726793 AGCTCTTACCTCCTCTTTTAATGGA 59.273 40.000 0.00 0.00 0.00 3.41
2582 2804 5.819901 CCAGCTCTTACCTCCTCTTTTAATG 59.180 44.000 0.00 0.00 0.00 1.90
2612 2839 2.869233 GCACCTGTGTGTGACAAATT 57.131 45.000 0.00 0.00 44.65 1.82
2625 2852 3.801068 TTTCCAACCCCCGCACCTG 62.801 63.158 0.00 0.00 0.00 4.00
2626 2853 3.503839 TTTCCAACCCCCGCACCT 61.504 61.111 0.00 0.00 0.00 4.00
2627 2854 2.414658 TAGTTTCCAACCCCCGCACC 62.415 60.000 0.00 0.00 0.00 5.01
2628 2855 0.958876 CTAGTTTCCAACCCCCGCAC 60.959 60.000 0.00 0.00 0.00 5.34
2629 2856 1.377229 CTAGTTTCCAACCCCCGCA 59.623 57.895 0.00 0.00 0.00 5.69
2630 2857 2.044555 GCTAGTTTCCAACCCCCGC 61.045 63.158 0.00 0.00 0.00 6.13
2631 2858 0.958876 GTGCTAGTTTCCAACCCCCG 60.959 60.000 0.00 0.00 0.00 5.73
2632 2859 0.111639 TGTGCTAGTTTCCAACCCCC 59.888 55.000 0.00 0.00 0.00 5.40
2633 2860 1.244816 GTGTGCTAGTTTCCAACCCC 58.755 55.000 0.00 0.00 0.00 4.95
2634 2861 1.975660 TGTGTGCTAGTTTCCAACCC 58.024 50.000 0.00 0.00 0.00 4.11
2635 2862 4.379339 TTTTGTGTGCTAGTTTCCAACC 57.621 40.909 0.00 0.00 0.00 3.77
2636 2863 5.061684 GTGTTTTTGTGTGCTAGTTTCCAAC 59.938 40.000 0.00 0.00 0.00 3.77
2637 2864 5.047660 AGTGTTTTTGTGTGCTAGTTTCCAA 60.048 36.000 0.00 0.00 0.00 3.53
2638 2865 4.461081 AGTGTTTTTGTGTGCTAGTTTCCA 59.539 37.500 0.00 0.00 0.00 3.53
2639 2866 4.993905 AGTGTTTTTGTGTGCTAGTTTCC 58.006 39.130 0.00 0.00 0.00 3.13
2640 2867 5.861787 ACAAGTGTTTTTGTGTGCTAGTTTC 59.138 36.000 0.00 0.00 39.68 2.78
2641 2868 5.778862 ACAAGTGTTTTTGTGTGCTAGTTT 58.221 33.333 0.00 0.00 39.68 2.66
2642 2869 5.385509 ACAAGTGTTTTTGTGTGCTAGTT 57.614 34.783 0.00 0.00 39.68 2.24
2651 2878 4.214545 TCAGTTCGTCACAAGTGTTTTTGT 59.785 37.500 0.00 0.00 41.77 2.83
2652 2879 4.717991 TCAGTTCGTCACAAGTGTTTTTG 58.282 39.130 0.00 0.00 0.00 2.44
2653 2880 5.365403 TTCAGTTCGTCACAAGTGTTTTT 57.635 34.783 0.00 0.00 0.00 1.94
2654 2881 5.560966 ATTCAGTTCGTCACAAGTGTTTT 57.439 34.783 0.00 0.00 0.00 2.43
2655 2882 5.815740 AGTATTCAGTTCGTCACAAGTGTTT 59.184 36.000 0.00 0.00 0.00 2.83
2656 2883 5.357257 AGTATTCAGTTCGTCACAAGTGTT 58.643 37.500 0.00 0.00 0.00 3.32
2657 2884 4.945246 AGTATTCAGTTCGTCACAAGTGT 58.055 39.130 0.00 0.00 0.00 3.55
2658 2885 5.918576 TGTAGTATTCAGTTCGTCACAAGTG 59.081 40.000 0.00 0.00 0.00 3.16
2659 2886 6.080648 TGTAGTATTCAGTTCGTCACAAGT 57.919 37.500 0.00 0.00 0.00 3.16
2660 2887 6.398621 CGTTGTAGTATTCAGTTCGTCACAAG 60.399 42.308 0.00 0.00 0.00 3.16
2661 2888 5.400188 CGTTGTAGTATTCAGTTCGTCACAA 59.600 40.000 0.00 0.00 0.00 3.33
2662 2889 4.913345 CGTTGTAGTATTCAGTTCGTCACA 59.087 41.667 0.00 0.00 0.00 3.58
2663 2890 4.322804 CCGTTGTAGTATTCAGTTCGTCAC 59.677 45.833 0.00 0.00 0.00 3.67
2664 2891 4.478699 CCGTTGTAGTATTCAGTTCGTCA 58.521 43.478 0.00 0.00 0.00 4.35
2665 2892 3.855950 CCCGTTGTAGTATTCAGTTCGTC 59.144 47.826 0.00 0.00 0.00 4.20
2666 2893 3.507233 TCCCGTTGTAGTATTCAGTTCGT 59.493 43.478 0.00 0.00 0.00 3.85
2667 2894 4.100707 TCCCGTTGTAGTATTCAGTTCG 57.899 45.455 0.00 0.00 0.00 3.95
2668 2895 5.232463 TGTTCCCGTTGTAGTATTCAGTTC 58.768 41.667 0.00 0.00 0.00 3.01
2669 2896 5.217978 TGTTCCCGTTGTAGTATTCAGTT 57.782 39.130 0.00 0.00 0.00 3.16
2670 2897 4.877378 TGTTCCCGTTGTAGTATTCAGT 57.123 40.909 0.00 0.00 0.00 3.41
2671 2898 5.699458 ACTTTGTTCCCGTTGTAGTATTCAG 59.301 40.000 0.00 0.00 0.00 3.02
2672 2899 5.613329 ACTTTGTTCCCGTTGTAGTATTCA 58.387 37.500 0.00 0.00 0.00 2.57
2673 2900 7.656707 TTACTTTGTTCCCGTTGTAGTATTC 57.343 36.000 0.00 0.00 0.00 1.75
2674 2901 9.895138 ATATTACTTTGTTCCCGTTGTAGTATT 57.105 29.630 0.00 0.00 0.00 1.89
2675 2902 9.538508 GATATTACTTTGTTCCCGTTGTAGTAT 57.461 33.333 0.00 0.00 0.00 2.12
2676 2903 8.530311 TGATATTACTTTGTTCCCGTTGTAGTA 58.470 33.333 0.00 0.00 0.00 1.82
2677 2904 7.388437 TGATATTACTTTGTTCCCGTTGTAGT 58.612 34.615 0.00 0.00 0.00 2.73
2678 2905 7.465513 GCTGATATTACTTTGTTCCCGTTGTAG 60.466 40.741 0.00 0.00 0.00 2.74
2679 2906 6.314400 GCTGATATTACTTTGTTCCCGTTGTA 59.686 38.462 0.00 0.00 0.00 2.41
2680 2907 5.123344 GCTGATATTACTTTGTTCCCGTTGT 59.877 40.000 0.00 0.00 0.00 3.32
2681 2908 5.123186 TGCTGATATTACTTTGTTCCCGTTG 59.877 40.000 0.00 0.00 0.00 4.10
2682 2909 5.250200 TGCTGATATTACTTTGTTCCCGTT 58.750 37.500 0.00 0.00 0.00 4.44
2683 2910 4.839121 TGCTGATATTACTTTGTTCCCGT 58.161 39.130 0.00 0.00 0.00 5.28
2684 2911 5.527214 TGATGCTGATATTACTTTGTTCCCG 59.473 40.000 0.00 0.00 0.00 5.14
2685 2912 6.238759 GGTGATGCTGATATTACTTTGTTCCC 60.239 42.308 0.00 0.00 0.00 3.97
2686 2913 6.543831 AGGTGATGCTGATATTACTTTGTTCC 59.456 38.462 0.00 0.00 0.00 3.62
2687 2914 7.280876 TGAGGTGATGCTGATATTACTTTGTTC 59.719 37.037 0.00 0.00 0.00 3.18
2688 2915 7.112122 TGAGGTGATGCTGATATTACTTTGTT 58.888 34.615 0.00 0.00 0.00 2.83
2689 2916 6.653020 TGAGGTGATGCTGATATTACTTTGT 58.347 36.000 0.00 0.00 0.00 2.83
2690 2917 7.228108 ACATGAGGTGATGCTGATATTACTTTG 59.772 37.037 0.00 0.00 0.00 2.77
2691 2918 7.285566 ACATGAGGTGATGCTGATATTACTTT 58.714 34.615 0.00 0.00 0.00 2.66
2692 2919 6.835174 ACATGAGGTGATGCTGATATTACTT 58.165 36.000 0.00 0.00 0.00 2.24
2693 2920 6.430962 ACATGAGGTGATGCTGATATTACT 57.569 37.500 0.00 0.00 0.00 2.24
2694 2921 7.382110 AGTACATGAGGTGATGCTGATATTAC 58.618 38.462 0.00 0.00 0.00 1.89
2695 2922 7.544804 AGTACATGAGGTGATGCTGATATTA 57.455 36.000 0.00 0.00 0.00 0.98
2696 2923 6.430962 AGTACATGAGGTGATGCTGATATT 57.569 37.500 0.00 0.00 0.00 1.28
2697 2924 7.382110 GTTAGTACATGAGGTGATGCTGATAT 58.618 38.462 0.00 0.00 0.00 1.63
2698 2925 6.515035 CGTTAGTACATGAGGTGATGCTGATA 60.515 42.308 0.00 0.00 0.00 2.15
2699 2926 5.605534 GTTAGTACATGAGGTGATGCTGAT 58.394 41.667 0.00 0.00 0.00 2.90
2700 2927 4.440112 CGTTAGTACATGAGGTGATGCTGA 60.440 45.833 0.00 0.00 0.00 4.26
2701 2928 3.798878 CGTTAGTACATGAGGTGATGCTG 59.201 47.826 0.00 0.00 0.00 4.41
2702 2929 3.738281 GCGTTAGTACATGAGGTGATGCT 60.738 47.826 0.00 0.00 0.00 3.79
2703 2930 2.540101 GCGTTAGTACATGAGGTGATGC 59.460 50.000 0.00 0.00 0.00 3.91
2704 2931 3.780902 TGCGTTAGTACATGAGGTGATG 58.219 45.455 0.00 0.00 0.00 3.07
2705 2932 4.433615 CTTGCGTTAGTACATGAGGTGAT 58.566 43.478 0.00 0.00 0.00 3.06
2706 2933 3.368013 CCTTGCGTTAGTACATGAGGTGA 60.368 47.826 0.00 0.00 0.00 4.02
2707 2934 2.930040 CCTTGCGTTAGTACATGAGGTG 59.070 50.000 0.00 0.00 0.00 4.00
2708 2935 2.829720 TCCTTGCGTTAGTACATGAGGT 59.170 45.455 0.00 0.00 0.00 3.85
2709 2936 3.448686 CTCCTTGCGTTAGTACATGAGG 58.551 50.000 0.00 0.00 0.00 3.86
2710 2937 2.860735 GCTCCTTGCGTTAGTACATGAG 59.139 50.000 0.00 0.00 0.00 2.90
2711 2938 2.888594 GCTCCTTGCGTTAGTACATGA 58.111 47.619 0.00 0.00 0.00 3.07
2723 2950 1.135523 GCTAAGCAACGCTCCTTGC 59.864 57.895 0.48 0.48 45.93 4.01
2724 2951 0.166814 GTGCTAAGCAACGCTCCTTG 59.833 55.000 0.00 0.00 41.47 3.61
2725 2952 1.291877 CGTGCTAAGCAACGCTCCTT 61.292 55.000 0.00 0.00 41.47 3.36
2726 2953 1.738099 CGTGCTAAGCAACGCTCCT 60.738 57.895 0.00 0.00 41.47 3.69
2727 2954 1.289109 TTCGTGCTAAGCAACGCTCC 61.289 55.000 0.00 0.00 41.47 4.70
2728 2955 0.511221 TTTCGTGCTAAGCAACGCTC 59.489 50.000 0.00 0.00 41.47 5.03
2729 2956 0.512952 CTTTCGTGCTAAGCAACGCT 59.487 50.000 0.00 0.00 41.47 5.07
2730 2957 0.452784 CCTTTCGTGCTAAGCAACGC 60.453 55.000 0.00 0.00 41.47 4.84
2731 2958 0.865769 ACCTTTCGTGCTAAGCAACG 59.134 50.000 0.00 0.00 41.47 4.10
2732 2959 2.316119 CACCTTTCGTGCTAAGCAAC 57.684 50.000 0.00 0.00 41.47 4.17
2742 2969 2.014128 CACAACTCCAACACCTTTCGT 58.986 47.619 0.00 0.00 0.00 3.85
2743 2970 2.014128 ACACAACTCCAACACCTTTCG 58.986 47.619 0.00 0.00 0.00 3.46
2744 2971 2.031683 CGACACAACTCCAACACCTTTC 59.968 50.000 0.00 0.00 0.00 2.62
2745 2972 2.014128 CGACACAACTCCAACACCTTT 58.986 47.619 0.00 0.00 0.00 3.11
2746 2973 1.208535 TCGACACAACTCCAACACCTT 59.791 47.619 0.00 0.00 0.00 3.50
2747 2974 0.828022 TCGACACAACTCCAACACCT 59.172 50.000 0.00 0.00 0.00 4.00
2748 2975 1.658994 TTCGACACAACTCCAACACC 58.341 50.000 0.00 0.00 0.00 4.16
2770 2997 5.464030 ACTGTAACCTACCTTGTACACAG 57.536 43.478 0.00 0.00 36.09 3.66
2811 3038 7.015292 ACACGACTCCATATCCTATGTAAACAT 59.985 37.037 0.63 0.63 40.22 2.71
2874 3140 3.339141 TGCCATAATGTGTCGTTGCTAA 58.661 40.909 0.00 0.00 0.00 3.09
3129 4869 2.352651 CTCGAAGTACGTGTCCGGATAA 59.647 50.000 7.81 0.00 43.13 1.75


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

AutoCloner maintained by Alex Coulton.