Multiple sequence alignment - TraesCS2A01G037000

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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 TraesCS2A01G037000 chr2A 100.000 2843 0 0 1 2843 15814995 15817837 0.000000e+00 5251
1 TraesCS2A01G037000 chr2D 93.490 1659 60 15 1026 2676 13710644 13709026 0.000000e+00 2422
2 TraesCS2A01G037000 chr2D 89.835 787 41 16 49 814 13711746 13710978 0.000000e+00 974
3 TraesCS2A01G037000 chr2D 88.757 169 6 2 2675 2843 13708733 13708578 8.040000e-46 195
4 TraesCS2A01G037000 chr2B 84.958 472 51 10 355 814 24961067 24960604 7.180000e-126 460
5 TraesCS2A01G037000 chr2B 89.474 133 14 0 101 233 24961223 24961091 4.870000e-38 169
6 TraesCS2A01G037000 chr3D 80.229 349 61 8 220 563 421314930 421314585 3.630000e-64 255
7 TraesCS2A01G037000 chr3D 79.656 349 65 6 219 563 421291669 421291323 2.190000e-61 246
8 TraesCS2A01G037000 chr3A 80.892 314 52 8 219 527 529842930 529843240 1.020000e-59 241
9 TraesCS2A01G037000 chr3A 79.743 311 47 7 219 525 529777036 529777334 7.980000e-51 211
10 TraesCS2A01G037000 chr3B 78.674 347 70 4 220 563 548045572 548045227 7.920000e-56 228


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 TraesCS2A01G037000 chr2A 15814995 15817837 2842 False 5251.0 5251 100.000 1 2843 1 chr2A.!!$F1 2842
1 TraesCS2A01G037000 chr2D 13708578 13711746 3168 True 1197.0 2422 90.694 49 2843 3 chr2D.!!$R1 2794
2 TraesCS2A01G037000 chr2B 24960604 24961223 619 True 314.5 460 87.216 101 814 2 chr2B.!!$R1 713

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
998 1203 0.111832 AAACCGGTTCTTTCCCTCCC 59.888 55.0 22.53 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2740 3246 0.318784 AACACTCTTGCGTCTCGGTC 60.319 55.0 0.0 0.0 0.0 4.79 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 5.897377 AATTTCTAGGTACATGCAACACC 57.103 39.130 6.62 6.62 0.00 4.16
42 43 4.634012 TTTCTAGGTACATGCAACACCT 57.366 40.909 18.07 18.07 44.79 4.00
43 44 5.748670 TTTCTAGGTACATGCAACACCTA 57.251 39.130 18.31 18.31 42.65 3.08
44 45 5.950544 TTCTAGGTACATGCAACACCTAT 57.049 39.130 19.19 4.16 42.55 2.57
45 46 5.531122 TCTAGGTACATGCAACACCTATC 57.469 43.478 19.19 0.00 42.55 2.08
46 47 5.208890 TCTAGGTACATGCAACACCTATCT 58.791 41.667 19.19 3.32 42.55 1.98
47 48 4.142609 AGGTACATGCAACACCTATCTG 57.857 45.455 13.85 0.00 40.93 2.90
57 58 6.472016 TGCAACACCTATCTGTCAAATTCTA 58.528 36.000 0.00 0.00 0.00 2.10
71 72 6.016693 TGTCAAATTCTATGTTGCCTCGAAAA 60.017 34.615 0.00 0.00 0.00 2.29
152 161 3.499737 CGTGCCTTGTCCATCCGC 61.500 66.667 0.00 0.00 0.00 5.54
155 164 4.424711 GCCTTGTCCATCCGCCCA 62.425 66.667 0.00 0.00 0.00 5.36
156 165 2.124570 CCTTGTCCATCCGCCCAG 60.125 66.667 0.00 0.00 0.00 4.45
171 180 1.136305 GCCCAGAGCTTACACGACATA 59.864 52.381 0.00 0.00 38.99 2.29
173 182 3.857052 CCCAGAGCTTACACGACATAAA 58.143 45.455 0.00 0.00 0.00 1.40
538 547 2.027625 GGCGAGGTGAACGGTGAAG 61.028 63.158 0.00 0.00 0.00 3.02
567 576 2.744709 GGCGTACACCATGGCGTT 60.745 61.111 11.37 0.00 0.00 4.84
568 577 2.478746 GCGTACACCATGGCGTTG 59.521 61.111 11.37 4.90 0.00 4.10
579 588 1.019278 ATGGCGTTGTAGAAGTGGCG 61.019 55.000 0.00 0.00 0.00 5.69
621 630 1.342074 ACAAGGCAGAGCACTGAGTA 58.658 50.000 15.88 0.00 46.03 2.59
744 766 0.522915 GGTTCTTCTAGGTCGACGCG 60.523 60.000 9.92 3.53 0.00 6.01
771 793 4.189231 CGACCCATCCTTACTAAAGTTGG 58.811 47.826 0.00 0.00 35.41 3.77
772 794 4.323257 CGACCCATCCTTACTAAAGTTGGT 60.323 45.833 0.00 0.00 34.52 3.67
773 795 5.175388 ACCCATCCTTACTAAAGTTGGTC 57.825 43.478 0.00 0.00 34.52 4.02
788 810 0.618680 TGGTCTCCCAGTCCCAGATG 60.619 60.000 0.00 0.00 35.17 2.90
831 874 9.460019 AGTTCCGTTAAGAGTTACTACTATCTT 57.540 33.333 0.00 0.00 33.84 2.40
856 899 4.833478 TCTCAAGAAGAGGGAAATGGAG 57.167 45.455 0.00 0.00 44.81 3.86
857 900 3.521126 TCTCAAGAAGAGGGAAATGGAGG 59.479 47.826 0.00 0.00 44.81 4.30
858 901 3.521126 CTCAAGAAGAGGGAAATGGAGGA 59.479 47.826 0.00 0.00 40.84 3.71
859 902 3.916349 TCAAGAAGAGGGAAATGGAGGAA 59.084 43.478 0.00 0.00 0.00 3.36
860 903 4.541714 TCAAGAAGAGGGAAATGGAGGAAT 59.458 41.667 0.00 0.00 0.00 3.01
861 904 4.787135 AGAAGAGGGAAATGGAGGAATC 57.213 45.455 0.00 0.00 0.00 2.52
862 905 3.461458 AGAAGAGGGAAATGGAGGAATCC 59.539 47.826 0.00 0.00 0.00 3.01
863 906 3.157556 AGAGGGAAATGGAGGAATCCT 57.842 47.619 0.00 0.00 36.03 3.24
864 907 3.478991 AGAGGGAAATGGAGGAATCCTT 58.521 45.455 2.09 0.00 31.76 3.36
865 908 4.646157 AGAGGGAAATGGAGGAATCCTTA 58.354 43.478 2.09 0.00 31.76 2.69
875 918 9.579932 AAATGGAGGAATCCTTAATTATCTCAC 57.420 33.333 2.09 0.00 31.76 3.51
880 923 8.095452 AGGAATCCTTAATTATCTCACACAGT 57.905 34.615 0.00 0.00 0.00 3.55
889 932 2.853235 TCTCACACAGTAGGACGAGA 57.147 50.000 0.00 0.00 0.00 4.04
890 933 3.351794 TCTCACACAGTAGGACGAGAT 57.648 47.619 0.00 0.00 0.00 2.75
891 934 4.482952 TCTCACACAGTAGGACGAGATA 57.517 45.455 0.00 0.00 0.00 1.98
892 935 4.840271 TCTCACACAGTAGGACGAGATAA 58.160 43.478 0.00 0.00 0.00 1.75
893 936 5.437946 TCTCACACAGTAGGACGAGATAAT 58.562 41.667 0.00 0.00 0.00 1.28
894 937 6.589135 TCTCACACAGTAGGACGAGATAATA 58.411 40.000 0.00 0.00 0.00 0.98
895 938 7.225011 TCTCACACAGTAGGACGAGATAATAT 58.775 38.462 0.00 0.00 0.00 1.28
897 940 6.147328 TCACACAGTAGGACGAGATAATATCG 59.853 42.308 0.00 0.00 45.54 2.92
898 941 5.411977 ACACAGTAGGACGAGATAATATCGG 59.588 44.000 5.08 0.00 44.36 4.18
899 942 5.642491 CACAGTAGGACGAGATAATATCGGA 59.358 44.000 5.08 0.00 44.36 4.55
901 944 6.539464 ACAGTAGGACGAGATAATATCGGATC 59.461 42.308 5.08 0.00 44.36 3.36
902 945 5.754406 AGTAGGACGAGATAATATCGGATCG 59.246 44.000 8.29 8.29 44.36 3.69
940 1137 3.120477 GCATTGCATGGTCACAAATGTTG 60.120 43.478 3.15 0.00 0.00 3.33
950 1147 2.805671 TCACAAATGTTGGTCAGCTACG 59.194 45.455 0.00 0.00 34.12 3.51
951 1148 2.548057 CACAAATGTTGGTCAGCTACGT 59.452 45.455 0.00 0.00 34.12 3.57
952 1149 3.743911 CACAAATGTTGGTCAGCTACGTA 59.256 43.478 0.00 0.00 34.12 3.57
953 1150 3.744426 ACAAATGTTGGTCAGCTACGTAC 59.256 43.478 0.00 0.00 34.12 3.67
956 1161 0.604578 GTTGGTCAGCTACGTACCCA 59.395 55.000 2.07 0.00 31.97 4.51
959 1164 2.737544 TGGTCAGCTACGTACCCATAA 58.262 47.619 2.07 0.00 31.97 1.90
962 1167 3.119029 GGTCAGCTACGTACCCATAAACA 60.119 47.826 0.00 0.00 0.00 2.83
964 1169 4.743644 GTCAGCTACGTACCCATAAACATC 59.256 45.833 0.00 0.00 0.00 3.06
978 1183 6.706270 CCCATAAACATCGCTAATCAGTTAGT 59.294 38.462 0.00 0.00 39.60 2.24
979 1184 7.870954 CCCATAAACATCGCTAATCAGTTAGTA 59.129 37.037 0.00 0.00 39.60 1.82
983 1188 7.535489 AACATCGCTAATCAGTTAGTAAACC 57.465 36.000 0.00 0.00 39.60 3.27
984 1189 5.747197 ACATCGCTAATCAGTTAGTAAACCG 59.253 40.000 0.00 0.00 39.60 4.44
985 1190 4.675510 TCGCTAATCAGTTAGTAAACCGG 58.324 43.478 0.00 0.00 39.60 5.28
986 1191 4.158394 TCGCTAATCAGTTAGTAAACCGGT 59.842 41.667 0.00 0.00 39.60 5.28
987 1192 4.866486 CGCTAATCAGTTAGTAAACCGGTT 59.134 41.667 15.86 15.86 39.60 4.44
988 1193 5.005107 CGCTAATCAGTTAGTAAACCGGTTC 59.995 44.000 22.53 9.34 39.60 3.62
989 1194 6.104665 GCTAATCAGTTAGTAAACCGGTTCT 58.895 40.000 22.53 16.83 39.60 3.01
990 1195 6.592994 GCTAATCAGTTAGTAAACCGGTTCTT 59.407 38.462 22.53 8.74 39.60 2.52
991 1196 7.118825 GCTAATCAGTTAGTAAACCGGTTCTTT 59.881 37.037 22.53 7.89 39.60 2.52
992 1197 7.430992 AATCAGTTAGTAAACCGGTTCTTTC 57.569 36.000 22.53 11.18 36.15 2.62
993 1198 5.299949 TCAGTTAGTAAACCGGTTCTTTCC 58.700 41.667 22.53 7.48 36.15 3.13
994 1199 4.453478 CAGTTAGTAAACCGGTTCTTTCCC 59.547 45.833 22.53 8.02 36.15 3.97
995 1200 4.349048 AGTTAGTAAACCGGTTCTTTCCCT 59.651 41.667 22.53 10.26 36.15 4.20
996 1201 3.413846 AGTAAACCGGTTCTTTCCCTC 57.586 47.619 22.53 5.26 0.00 4.30
997 1202 2.039480 AGTAAACCGGTTCTTTCCCTCC 59.961 50.000 22.53 0.00 0.00 4.30
998 1203 0.111832 AAACCGGTTCTTTCCCTCCC 59.888 55.000 22.53 0.00 0.00 4.30
999 1204 0.770948 AACCGGTTCTTTCCCTCCCT 60.771 55.000 15.86 0.00 0.00 4.20
1000 1205 1.299976 CCGGTTCTTTCCCTCCCTG 59.700 63.158 0.00 0.00 0.00 4.45
1001 1206 1.299976 CGGTTCTTTCCCTCCCTGG 59.700 63.158 0.00 0.00 0.00 4.45
1002 1207 1.198759 CGGTTCTTTCCCTCCCTGGA 61.199 60.000 0.00 0.00 38.35 3.86
1003 1208 1.299939 GGTTCTTTCCCTCCCTGGAT 58.700 55.000 0.00 0.00 38.35 3.41
1004 1209 1.641192 GGTTCTTTCCCTCCCTGGATT 59.359 52.381 0.00 0.00 38.35 3.01
1005 1210 2.850568 GGTTCTTTCCCTCCCTGGATTA 59.149 50.000 0.00 0.00 38.35 1.75
1006 1211 3.268595 GGTTCTTTCCCTCCCTGGATTAA 59.731 47.826 0.00 0.00 38.35 1.40
1007 1212 4.079154 GGTTCTTTCCCTCCCTGGATTAAT 60.079 45.833 0.00 0.00 38.35 1.40
1008 1213 4.796110 TCTTTCCCTCCCTGGATTAATG 57.204 45.455 0.00 0.00 38.35 1.90
1009 1214 3.117512 TCTTTCCCTCCCTGGATTAATGC 60.118 47.826 0.00 0.00 38.35 3.56
1010 1215 2.212752 TCCCTCCCTGGATTAATGCT 57.787 50.000 8.53 0.00 38.35 3.79
1011 1216 2.057922 TCCCTCCCTGGATTAATGCTC 58.942 52.381 8.53 0.00 38.35 4.26
1012 1217 1.271054 CCCTCCCTGGATTAATGCTCG 60.271 57.143 8.53 0.00 38.35 5.03
1013 1218 1.517242 CTCCCTGGATTAATGCTCGC 58.483 55.000 8.53 0.00 0.00 5.03
1014 1219 1.071385 CTCCCTGGATTAATGCTCGCT 59.929 52.381 8.53 0.00 0.00 4.93
1015 1220 1.070758 TCCCTGGATTAATGCTCGCTC 59.929 52.381 8.53 0.00 0.00 5.03
1016 1221 1.517242 CCTGGATTAATGCTCGCTCC 58.483 55.000 8.53 0.00 0.00 4.70
1017 1222 1.202687 CCTGGATTAATGCTCGCTCCA 60.203 52.381 8.53 0.24 34.88 3.86
1018 1223 2.551721 CCTGGATTAATGCTCGCTCCAT 60.552 50.000 8.53 0.00 35.55 3.41
1019 1224 2.740981 CTGGATTAATGCTCGCTCCATC 59.259 50.000 8.53 0.00 35.55 3.51
1020 1225 1.728971 GGATTAATGCTCGCTCCATCG 59.271 52.381 0.00 0.00 0.00 3.84
1021 1226 2.610479 GGATTAATGCTCGCTCCATCGA 60.610 50.000 0.00 0.00 36.94 3.59
1022 1227 2.820059 TTAATGCTCGCTCCATCGAT 57.180 45.000 0.00 0.00 37.87 3.59
1023 1228 2.354109 TAATGCTCGCTCCATCGATC 57.646 50.000 0.00 0.00 37.87 3.69
1024 1229 0.665670 AATGCTCGCTCCATCGATCG 60.666 55.000 9.36 9.36 37.87 3.69
1042 1247 1.999735 TCGATCGTTCTTGGCATCAAC 59.000 47.619 15.94 0.00 0.00 3.18
1043 1248 1.062587 CGATCGTTCTTGGCATCAACC 59.937 52.381 7.03 0.00 0.00 3.77
1054 1259 2.000429 GCATCAACCAAGCCAACATC 58.000 50.000 0.00 0.00 0.00 3.06
1055 1260 1.733389 GCATCAACCAAGCCAACATCG 60.733 52.381 0.00 0.00 0.00 3.84
1056 1261 1.811965 CATCAACCAAGCCAACATCGA 59.188 47.619 0.00 0.00 0.00 3.59
1057 1262 2.198827 TCAACCAAGCCAACATCGAT 57.801 45.000 0.00 0.00 0.00 3.59
1058 1263 2.083774 TCAACCAAGCCAACATCGATC 58.916 47.619 0.00 0.00 0.00 3.69
1292 1498 1.884464 CCATGTCATCCTCCGCGTG 60.884 63.158 4.92 0.00 0.00 5.34
1293 1499 1.141665 CATGTCATCCTCCGCGTGA 59.858 57.895 4.92 0.00 0.00 4.35
1305 1511 1.213094 CCGCGTGAAGAACAACGACT 61.213 55.000 4.92 0.00 33.88 4.18
1651 1860 5.902681 TCTCATGTTGGAACGAGGTATTAG 58.097 41.667 0.00 0.00 0.00 1.73
1666 1875 8.897752 ACGAGGTATTAGTAACTTCTAAACGAT 58.102 33.333 0.00 0.00 34.28 3.73
1674 1883 7.803079 AGTAACTTCTAAACGATTAACGACC 57.197 36.000 0.00 0.00 45.77 4.79
1675 1884 7.370383 AGTAACTTCTAAACGATTAACGACCA 58.630 34.615 0.00 0.00 45.77 4.02
1676 1885 6.457851 AACTTCTAAACGATTAACGACCAC 57.542 37.500 0.00 0.00 45.77 4.16
1733 1942 6.870965 TCTCTCTTGTTCTTGCTATTGTCTTC 59.129 38.462 0.00 0.00 0.00 2.87
1735 1944 6.648310 TCTCTTGTTCTTGCTATTGTCTTCTG 59.352 38.462 0.00 0.00 0.00 3.02
1790 1999 1.221566 TCGAGGTCGATCGGGTGTA 59.778 57.895 16.41 0.00 44.22 2.90
1881 2090 6.209986 TCTCAGATTCTTGCCATCAAATTTGT 59.790 34.615 17.47 3.04 0.00 2.83
1897 2106 2.250921 TTGTTCCCAATGCCCATGAT 57.749 45.000 0.00 0.00 0.00 2.45
1898 2107 1.487300 TGTTCCCAATGCCCATGATG 58.513 50.000 0.00 0.00 0.00 3.07
1899 2108 1.273154 TGTTCCCAATGCCCATGATGT 60.273 47.619 0.00 0.00 0.00 3.06
1900 2109 1.410153 GTTCCCAATGCCCATGATGTC 59.590 52.381 0.00 0.00 0.00 3.06
1901 2110 0.928505 TCCCAATGCCCATGATGTCT 59.071 50.000 0.00 0.00 0.00 3.41
1902 2111 1.133699 TCCCAATGCCCATGATGTCTC 60.134 52.381 0.00 0.00 0.00 3.36
1903 2112 1.325355 CCAATGCCCATGATGTCTCC 58.675 55.000 0.00 0.00 0.00 3.71
1904 2113 0.949397 CAATGCCCATGATGTCTCCG 59.051 55.000 0.00 0.00 0.00 4.63
1905 2114 0.839277 AATGCCCATGATGTCTCCGA 59.161 50.000 0.00 0.00 0.00 4.55
1936 2145 1.193462 CCATGGGTGCAATGGTGGTT 61.193 55.000 2.85 0.00 39.87 3.67
1946 2155 5.452077 GGTGCAATGGTGGTTTAGTTTTGTA 60.452 40.000 0.00 0.00 0.00 2.41
1985 2194 0.251341 AACTGTTGATCTGTGGGGGC 60.251 55.000 0.00 0.00 0.00 5.80
2041 2250 3.560025 GCTCATATCCACCGGATTTCCAT 60.560 47.826 9.46 0.00 39.79 3.41
2049 2258 5.127491 TCCACCGGATTTCCATGTTTATAC 58.873 41.667 9.46 0.00 35.14 1.47
2073 2282 5.067153 CGGACCATGGAGCAAATATAAACAA 59.933 40.000 21.47 0.00 0.00 2.83
2095 2304 4.681744 ACACAAACAAAAGCGACATCAAT 58.318 34.783 0.00 0.00 0.00 2.57
2117 2326 8.251026 TCAATAACAAACACATGTACCAACAAA 58.749 29.630 0.00 0.00 39.58 2.83
2154 2363 7.857456 AGTCCCACACAACATTATATCAGTAA 58.143 34.615 0.00 0.00 0.00 2.24
2345 2554 7.786178 TGCATAATGTGTACAACTATTCTCC 57.214 36.000 0.00 0.00 0.00 3.71
2354 2563 7.817478 TGTGTACAACTATTCTCCAACATAGTG 59.183 37.037 0.00 0.00 36.52 2.74
2359 2568 8.567948 ACAACTATTCTCCAACATAGTGTTTTG 58.432 33.333 0.00 0.00 38.77 2.44
2363 2572 4.713553 TCTCCAACATAGTGTTTTGCTCA 58.286 39.130 0.00 0.00 38.77 4.26
2378 2587 7.809806 GTGTTTTGCTCATAGAAAGCTTTATGT 59.190 33.333 16.44 6.93 40.50 2.29
2379 2588 9.008965 TGTTTTGCTCATAGAAAGCTTTATGTA 57.991 29.630 16.44 7.16 40.50 2.29
2423 2635 8.993424 AGTAACCTTCATTCCTAAGATGTACAT 58.007 33.333 8.43 8.43 0.00 2.29
2426 2638 6.543831 ACCTTCATTCCTAAGATGTACATTGC 59.456 38.462 10.30 0.00 0.00 3.56
2488 2700 4.979197 GCTGACAATAGGATCTGACTAACG 59.021 45.833 0.00 0.00 0.00 3.18
2494 2706 7.055378 ACAATAGGATCTGACTAACGACTAGT 58.945 38.462 0.00 0.00 43.95 2.57
2515 2727 4.622260 TCATCCATGACAAAGTGAGACA 57.378 40.909 0.00 0.00 0.00 3.41
2516 2728 4.572909 TCATCCATGACAAAGTGAGACAG 58.427 43.478 0.00 0.00 0.00 3.51
2578 2790 6.735694 GCGTTATCCATCTTTGCAAACCATAT 60.736 38.462 8.05 1.59 0.00 1.78
2666 2878 7.016153 AGATTGTAGTCTATTGGACCAAACA 57.984 36.000 11.82 7.04 45.54 2.83
2698 3204 1.026584 TGAATCCATGCTGATTGCCG 58.973 50.000 2.36 0.00 42.00 5.69
2724 3230 3.440228 GACGATCCTAGTGTTGAAGAGC 58.560 50.000 0.00 0.00 0.00 4.09
2756 3262 2.637383 GGGACCGAGACGCAAGAGT 61.637 63.158 0.00 0.00 43.62 3.24
2757 3263 1.444553 GGACCGAGACGCAAGAGTG 60.445 63.158 0.00 0.00 43.62 3.51
2758 3264 1.286260 GACCGAGACGCAAGAGTGT 59.714 57.895 0.00 0.00 42.17 3.55
2759 3265 0.318784 GACCGAGACGCAAGAGTGTT 60.319 55.000 0.00 0.00 38.91 3.32
2760 3266 0.956633 ACCGAGACGCAAGAGTGTTA 59.043 50.000 0.00 0.00 38.91 2.41
2761 3267 1.335689 ACCGAGACGCAAGAGTGTTAC 60.336 52.381 0.00 0.00 38.91 2.50
2762 3268 1.337821 CGAGACGCAAGAGTGTTACC 58.662 55.000 0.00 0.00 38.91 2.85
2763 3269 1.335597 CGAGACGCAAGAGTGTTACCA 60.336 52.381 0.00 0.00 38.91 3.25
2764 3270 2.059541 GAGACGCAAGAGTGTTACCAC 58.940 52.381 0.00 0.00 38.91 4.16
2765 3271 1.145803 GACGCAAGAGTGTTACCACC 58.854 55.000 0.00 0.00 41.35 4.61
2766 3272 0.599204 ACGCAAGAGTGTTACCACCG 60.599 55.000 0.00 0.00 41.35 4.94
2767 3273 1.289109 CGCAAGAGTGTTACCACCGG 61.289 60.000 0.00 0.00 42.88 5.28
2803 3309 2.156098 TCCACCTTCCACGTTAATTGC 58.844 47.619 0.00 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 9.116067 GGTGTTGCATGTACCTAGAAATTATTA 57.884 33.333 7.15 0.00 0.00 0.98
16 17 7.834181 AGGTGTTGCATGTACCTAGAAATTATT 59.166 33.333 13.53 0.00 42.78 1.40
17 18 7.346471 AGGTGTTGCATGTACCTAGAAATTAT 58.654 34.615 13.53 0.00 42.78 1.28
18 19 6.717289 AGGTGTTGCATGTACCTAGAAATTA 58.283 36.000 13.53 0.00 42.78 1.40
19 20 5.570320 AGGTGTTGCATGTACCTAGAAATT 58.430 37.500 13.53 0.00 42.78 1.82
20 21 5.179452 AGGTGTTGCATGTACCTAGAAAT 57.821 39.130 13.53 0.00 42.78 2.17
21 22 4.634012 AGGTGTTGCATGTACCTAGAAA 57.366 40.909 13.53 0.00 42.78 2.52
22 23 5.661312 AGATAGGTGTTGCATGTACCTAGAA 59.339 40.000 21.44 8.40 46.81 2.10
23 24 5.069119 CAGATAGGTGTTGCATGTACCTAGA 59.931 44.000 21.44 8.93 46.81 2.43
24 25 5.163405 ACAGATAGGTGTTGCATGTACCTAG 60.163 44.000 21.44 14.24 46.81 3.02
26 27 3.519510 ACAGATAGGTGTTGCATGTACCT 59.480 43.478 17.71 17.71 46.13 3.08
27 28 3.871594 GACAGATAGGTGTTGCATGTACC 59.128 47.826 6.46 6.46 34.68 3.34
28 29 4.503910 TGACAGATAGGTGTTGCATGTAC 58.496 43.478 0.00 0.00 0.00 2.90
29 30 4.817318 TGACAGATAGGTGTTGCATGTA 57.183 40.909 0.00 0.00 0.00 2.29
30 31 3.701205 TGACAGATAGGTGTTGCATGT 57.299 42.857 0.00 0.00 0.00 3.21
31 32 5.571784 ATTTGACAGATAGGTGTTGCATG 57.428 39.130 0.00 0.00 0.00 4.06
32 33 5.948162 AGAATTTGACAGATAGGTGTTGCAT 59.052 36.000 0.00 0.00 0.00 3.96
33 34 5.316167 AGAATTTGACAGATAGGTGTTGCA 58.684 37.500 0.00 0.00 0.00 4.08
34 35 5.886960 AGAATTTGACAGATAGGTGTTGC 57.113 39.130 0.00 0.00 0.00 4.17
35 36 8.498054 ACATAGAATTTGACAGATAGGTGTTG 57.502 34.615 0.00 0.00 0.00 3.33
36 37 8.950210 CAACATAGAATTTGACAGATAGGTGTT 58.050 33.333 0.00 0.00 0.00 3.32
37 38 7.066284 GCAACATAGAATTTGACAGATAGGTGT 59.934 37.037 0.00 0.00 0.00 4.16
38 39 7.412853 GCAACATAGAATTTGACAGATAGGTG 58.587 38.462 0.00 0.00 0.00 4.00
39 40 6.543831 GGCAACATAGAATTTGACAGATAGGT 59.456 38.462 0.00 0.00 30.41 3.08
40 41 6.769822 AGGCAACATAGAATTTGACAGATAGG 59.230 38.462 0.00 0.00 32.67 2.57
41 42 7.307042 CGAGGCAACATAGAATTTGACAGATAG 60.307 40.741 0.00 0.00 32.67 2.08
42 43 6.479990 CGAGGCAACATAGAATTTGACAGATA 59.520 38.462 0.00 0.00 32.67 1.98
43 44 5.295292 CGAGGCAACATAGAATTTGACAGAT 59.705 40.000 0.00 0.00 32.67 2.90
44 45 4.631377 CGAGGCAACATAGAATTTGACAGA 59.369 41.667 0.00 0.00 32.67 3.41
45 46 4.631377 TCGAGGCAACATAGAATTTGACAG 59.369 41.667 0.00 0.00 32.67 3.51
46 47 4.574892 TCGAGGCAACATAGAATTTGACA 58.425 39.130 0.00 0.00 32.67 3.58
47 48 5.545658 TTCGAGGCAACATAGAATTTGAC 57.454 39.130 0.00 0.00 41.41 3.18
57 58 5.913137 TGGATAATTTTTCGAGGCAACAT 57.087 34.783 0.00 0.00 41.41 2.71
71 72 8.542080 TGCCTTTTGATCAGAAAATGGATAATT 58.458 29.630 12.48 0.00 35.06 1.40
152 161 3.520290 TTATGTCGTGTAAGCTCTGGG 57.480 47.619 0.00 0.00 0.00 4.45
155 164 5.539048 ACAAGTTTATGTCGTGTAAGCTCT 58.461 37.500 0.00 0.00 0.00 4.09
156 165 5.840940 ACAAGTTTATGTCGTGTAAGCTC 57.159 39.130 0.00 0.00 0.00 4.09
171 180 0.872881 CCGACGTCCGTGACAAGTTT 60.873 55.000 10.58 0.00 36.31 2.66
173 182 2.333938 CCGACGTCCGTGACAAGT 59.666 61.111 10.58 0.00 36.31 3.16
212 221 0.248990 GGTGACGGTGTACAACGACA 60.249 55.000 37.93 33.50 45.97 4.35
401 410 1.082117 GTTGTCATGTCCTACGCCGG 61.082 60.000 0.00 0.00 0.00 6.13
414 423 1.666553 GACCGTGCCGATGTTGTCA 60.667 57.895 0.00 0.00 0.00 3.58
520 529 2.027625 CTTCACCGTTCACCTCGCC 61.028 63.158 0.00 0.00 0.00 5.54
538 547 1.153229 GTACGCCAACATCCCCTCC 60.153 63.158 0.00 0.00 0.00 4.30
567 576 1.880894 CTCGGTCGCCACTTCTACA 59.119 57.895 0.00 0.00 0.00 2.74
568 577 1.516603 GCTCGGTCGCCACTTCTAC 60.517 63.158 0.00 0.00 0.00 2.59
579 588 2.430921 CGGCGATATGGCTCGGTC 60.431 66.667 0.00 0.00 42.02 4.79
744 766 2.770904 TAAGGATGGGTCGGGGCC 60.771 66.667 0.00 0.00 0.00 5.80
749 771 4.189231 CCAACTTTAGTAAGGATGGGTCG 58.811 47.826 12.06 0.00 38.14 4.79
771 793 0.325671 TCCATCTGGGACTGGGAGAC 60.326 60.000 0.00 0.00 42.15 3.36
772 794 2.105213 TCCATCTGGGACTGGGAGA 58.895 57.895 0.00 0.00 42.15 3.71
773 795 4.816109 TCCATCTGGGACTGGGAG 57.184 61.111 0.00 0.00 42.15 4.30
835 878 3.521126 CCTCCATTTCCCTCTTCTTGAGA 59.479 47.826 0.00 0.00 45.39 3.27
836 879 3.521126 TCCTCCATTTCCCTCTTCTTGAG 59.479 47.826 0.00 0.00 42.30 3.02
837 880 3.531059 TCCTCCATTTCCCTCTTCTTGA 58.469 45.455 0.00 0.00 0.00 3.02
838 881 4.307032 TTCCTCCATTTCCCTCTTCTTG 57.693 45.455 0.00 0.00 0.00 3.02
840 883 3.461458 GGATTCCTCCATTTCCCTCTTCT 59.539 47.826 0.00 0.00 41.64 2.85
841 884 3.461458 AGGATTCCTCCATTTCCCTCTTC 59.539 47.826 0.00 0.00 44.79 2.87
842 885 3.478991 AGGATTCCTCCATTTCCCTCTT 58.521 45.455 0.00 0.00 44.79 2.85
843 886 3.157556 AGGATTCCTCCATTTCCCTCT 57.842 47.619 0.00 0.00 44.79 3.69
844 887 3.961484 AAGGATTCCTCCATTTCCCTC 57.039 47.619 5.48 0.00 44.79 4.30
845 888 6.361304 AATTAAGGATTCCTCCATTTCCCT 57.639 37.500 5.48 0.00 44.79 4.20
846 889 8.173412 AGATAATTAAGGATTCCTCCATTTCCC 58.827 37.037 5.48 1.65 44.79 3.97
847 890 9.237187 GAGATAATTAAGGATTCCTCCATTTCC 57.763 37.037 5.48 3.69 44.79 3.13
848 891 9.799106 TGAGATAATTAAGGATTCCTCCATTTC 57.201 33.333 5.48 7.82 44.79 2.17
849 892 9.579932 GTGAGATAATTAAGGATTCCTCCATTT 57.420 33.333 5.48 3.25 44.79 2.32
850 893 8.727149 TGTGAGATAATTAAGGATTCCTCCATT 58.273 33.333 5.48 9.66 44.79 3.16
851 894 8.160106 GTGTGAGATAATTAAGGATTCCTCCAT 58.840 37.037 5.48 0.00 44.79 3.41
852 895 7.127186 TGTGTGAGATAATTAAGGATTCCTCCA 59.873 37.037 5.48 0.00 44.79 3.86
853 896 7.509546 TGTGTGAGATAATTAAGGATTCCTCC 58.490 38.462 5.48 0.00 42.43 4.30
854 897 8.207545 ACTGTGTGAGATAATTAAGGATTCCTC 58.792 37.037 5.48 0.00 30.89 3.71
855 898 8.095452 ACTGTGTGAGATAATTAAGGATTCCT 57.905 34.615 0.00 0.00 33.87 3.36
856 899 9.482627 CTACTGTGTGAGATAATTAAGGATTCC 57.517 37.037 0.00 0.00 0.00 3.01
857 900 9.482627 CCTACTGTGTGAGATAATTAAGGATTC 57.517 37.037 0.00 0.00 0.00 2.52
858 901 9.213777 TCCTACTGTGTGAGATAATTAAGGATT 57.786 33.333 0.00 0.00 0.00 3.01
859 902 8.643324 GTCCTACTGTGTGAGATAATTAAGGAT 58.357 37.037 0.00 0.00 31.42 3.24
860 903 7.201794 CGTCCTACTGTGTGAGATAATTAAGGA 60.202 40.741 0.00 0.00 0.00 3.36
861 904 6.918569 CGTCCTACTGTGTGAGATAATTAAGG 59.081 42.308 0.00 0.00 0.00 2.69
862 905 7.704271 TCGTCCTACTGTGTGAGATAATTAAG 58.296 38.462 0.00 0.00 0.00 1.85
863 906 7.555195 TCTCGTCCTACTGTGTGAGATAATTAA 59.445 37.037 0.00 0.00 0.00 1.40
864 907 7.052248 TCTCGTCCTACTGTGTGAGATAATTA 58.948 38.462 0.00 0.00 0.00 1.40
865 908 5.886474 TCTCGTCCTACTGTGTGAGATAATT 59.114 40.000 0.00 0.00 0.00 1.40
875 918 5.642491 TCCGATATTATCTCGTCCTACTGTG 59.358 44.000 2.36 0.00 34.36 3.66
880 923 4.510711 GCGATCCGATATTATCTCGTCCTA 59.489 45.833 12.57 0.00 34.36 2.94
889 932 4.579869 AGGCAAAAGCGATCCGATATTAT 58.420 39.130 0.00 0.00 0.00 1.28
890 933 4.002906 AGGCAAAAGCGATCCGATATTA 57.997 40.909 0.00 0.00 0.00 0.98
891 934 2.851195 AGGCAAAAGCGATCCGATATT 58.149 42.857 0.00 0.00 0.00 1.28
892 935 2.550830 AGGCAAAAGCGATCCGATAT 57.449 45.000 0.00 0.00 0.00 1.63
893 936 2.325583 AAGGCAAAAGCGATCCGATA 57.674 45.000 0.00 0.00 0.00 2.92
894 937 1.133025 CAAAGGCAAAAGCGATCCGAT 59.867 47.619 0.00 0.00 0.00 4.18
895 938 0.521291 CAAAGGCAAAAGCGATCCGA 59.479 50.000 0.00 0.00 0.00 4.55
897 940 2.741930 GCAAAGGCAAAAGCGATCC 58.258 52.632 0.00 0.00 40.72 3.36
918 1087 2.690786 ACATTTGTGACCATGCAATGC 58.309 42.857 0.00 0.00 44.97 3.56
936 1105 0.604578 GGGTACGTAGCTGACCAACA 59.395 55.000 22.84 0.00 34.73 3.33
940 1137 3.119029 TGTTTATGGGTACGTAGCTGACC 60.119 47.826 22.84 10.23 0.00 4.02
950 1147 5.989777 ACTGATTAGCGATGTTTATGGGTAC 59.010 40.000 0.00 0.00 0.00 3.34
951 1148 6.169557 ACTGATTAGCGATGTTTATGGGTA 57.830 37.500 0.00 0.00 0.00 3.69
952 1149 5.036117 ACTGATTAGCGATGTTTATGGGT 57.964 39.130 0.00 0.00 0.00 4.51
953 1150 6.706270 ACTAACTGATTAGCGATGTTTATGGG 59.294 38.462 0.00 0.00 41.48 4.00
959 1164 6.255020 CGGTTTACTAACTGATTAGCGATGTT 59.745 38.462 0.00 0.00 42.20 2.71
962 1167 5.163478 ACCGGTTTACTAACTGATTAGCGAT 60.163 40.000 0.00 0.00 42.20 4.58
964 1169 4.427312 ACCGGTTTACTAACTGATTAGCG 58.573 43.478 0.00 0.00 42.20 4.26
978 1183 1.352017 GGGAGGGAAAGAACCGGTTTA 59.648 52.381 23.22 0.00 0.00 2.01
979 1184 0.111832 GGGAGGGAAAGAACCGGTTT 59.888 55.000 23.22 5.28 0.00 3.27
981 1186 1.151877 AGGGAGGGAAAGAACCGGT 60.152 57.895 0.00 0.00 0.00 5.28
982 1187 1.299976 CAGGGAGGGAAAGAACCGG 59.700 63.158 0.00 0.00 0.00 5.28
983 1188 1.198759 TCCAGGGAGGGAAAGAACCG 61.199 60.000 0.00 0.00 38.24 4.44
984 1189 1.299939 ATCCAGGGAGGGAAAGAACC 58.700 55.000 0.00 0.00 41.12 3.62
985 1190 4.586306 TTAATCCAGGGAGGGAAAGAAC 57.414 45.455 0.00 0.00 41.12 3.01
986 1191 4.631169 GCATTAATCCAGGGAGGGAAAGAA 60.631 45.833 0.00 0.00 41.12 2.52
987 1192 3.117512 GCATTAATCCAGGGAGGGAAAGA 60.118 47.826 0.00 0.00 41.12 2.52
988 1193 3.117360 AGCATTAATCCAGGGAGGGAAAG 60.117 47.826 0.00 0.00 41.12 2.62
989 1194 2.858768 AGCATTAATCCAGGGAGGGAAA 59.141 45.455 0.00 0.00 41.12 3.13
990 1195 2.443255 GAGCATTAATCCAGGGAGGGAA 59.557 50.000 0.00 0.00 41.12 3.97
991 1196 2.057922 GAGCATTAATCCAGGGAGGGA 58.942 52.381 0.00 0.00 42.21 4.20
992 1197 1.271054 CGAGCATTAATCCAGGGAGGG 60.271 57.143 0.00 0.00 38.24 4.30
993 1198 1.879796 GCGAGCATTAATCCAGGGAGG 60.880 57.143 0.00 0.00 39.47 4.30
994 1199 1.071385 AGCGAGCATTAATCCAGGGAG 59.929 52.381 0.00 0.00 0.00 4.30
995 1200 1.070758 GAGCGAGCATTAATCCAGGGA 59.929 52.381 0.00 0.00 0.00 4.20
996 1201 1.517242 GAGCGAGCATTAATCCAGGG 58.483 55.000 0.00 0.00 0.00 4.45
997 1202 1.202687 TGGAGCGAGCATTAATCCAGG 60.203 52.381 0.00 0.00 35.16 4.45
998 1203 2.245159 TGGAGCGAGCATTAATCCAG 57.755 50.000 0.00 0.00 35.16 3.86
999 1204 2.771089 GATGGAGCGAGCATTAATCCA 58.229 47.619 5.64 5.64 43.82 3.41
1000 1205 1.728971 CGATGGAGCGAGCATTAATCC 59.271 52.381 0.00 0.00 0.00 3.01
1001 1206 2.677199 TCGATGGAGCGAGCATTAATC 58.323 47.619 0.00 0.00 35.01 1.75
1002 1207 2.820059 TCGATGGAGCGAGCATTAAT 57.180 45.000 0.00 0.00 35.01 1.40
1003 1208 2.677199 GATCGATGGAGCGAGCATTAA 58.323 47.619 0.54 0.00 45.17 1.40
1004 1209 2.354109 GATCGATGGAGCGAGCATTA 57.646 50.000 0.54 0.00 45.17 1.90
1005 1210 3.207677 GATCGATGGAGCGAGCATT 57.792 52.632 0.54 0.00 45.17 3.56
1006 1211 4.983628 GATCGATGGAGCGAGCAT 57.016 55.556 0.54 0.00 45.17 3.79
1019 1224 6.566438 GTTGATGCCAAGAACGATCGATCG 62.566 50.000 38.53 38.53 43.39 3.69
1020 1225 2.473816 TGATGCCAAGAACGATCGATC 58.526 47.619 24.34 20.21 0.00 3.69
1021 1226 2.602257 TGATGCCAAGAACGATCGAT 57.398 45.000 24.34 10.66 0.00 3.59
1022 1227 1.999735 GTTGATGCCAAGAACGATCGA 59.000 47.619 24.34 0.00 32.06 3.59
1023 1228 1.062587 GGTTGATGCCAAGAACGATCG 59.937 52.381 14.88 14.88 32.06 3.69
1024 1229 2.083774 TGGTTGATGCCAAGAACGATC 58.916 47.619 0.00 0.00 35.25 3.69
1042 1247 1.528586 GATCGATCGATGTTGGCTTGG 59.471 52.381 33.86 0.00 34.60 3.61
1043 1248 2.204237 TGATCGATCGATGTTGGCTTG 58.796 47.619 33.86 0.00 34.60 4.01
1052 1257 7.565323 TCTCTATTGATGATGATCGATCGAT 57.435 36.000 29.76 29.76 34.84 3.59
1053 1258 6.992063 TCTCTATTGATGATGATCGATCGA 57.008 37.500 21.86 21.86 34.84 3.59
1054 1259 6.857451 GGATCTCTATTGATGATGATCGATCG 59.143 42.308 20.03 9.36 34.84 3.69
1055 1260 7.714703 TGGATCTCTATTGATGATGATCGATC 58.285 38.462 18.72 18.72 34.84 3.69
1056 1261 7.657023 TGGATCTCTATTGATGATGATCGAT 57.343 36.000 0.00 0.00 36.72 3.59
1057 1262 7.417570 CCATGGATCTCTATTGATGATGATCGA 60.418 40.741 5.56 0.00 33.30 3.59
1058 1263 6.702282 CCATGGATCTCTATTGATGATGATCG 59.298 42.308 5.56 0.00 33.30 3.69
1149 1355 1.339727 GCAGAATTGGTAGAACCCGGT 60.340 52.381 0.00 0.00 37.50 5.28
1155 1361 5.336690 GGAAAAGCATGCAGAATTGGTAGAA 60.337 40.000 21.98 0.00 0.00 2.10
1156 1362 4.158394 GGAAAAGCATGCAGAATTGGTAGA 59.842 41.667 21.98 0.00 0.00 2.59
1158 1364 4.088634 AGGAAAAGCATGCAGAATTGGTA 58.911 39.130 21.98 0.00 0.00 3.25
1159 1365 2.901839 AGGAAAAGCATGCAGAATTGGT 59.098 40.909 21.98 0.00 0.00 3.67
1292 1498 2.414806 GGGAGGAAGTCGTTGTTCTTC 58.585 52.381 0.00 0.00 39.21 2.87
1293 1499 1.270147 CGGGAGGAAGTCGTTGTTCTT 60.270 52.381 0.00 0.00 0.00 2.52
1344 1550 2.047274 CACGCCGTCCAGTTCCAT 60.047 61.111 0.00 0.00 0.00 3.41
1379 1585 1.282930 GGACGCAGAACTTGTCGACC 61.283 60.000 14.12 0.00 35.54 4.79
1380 1586 1.282930 GGGACGCAGAACTTGTCGAC 61.283 60.000 9.11 9.11 33.45 4.20
1381 1587 1.006571 GGGACGCAGAACTTGTCGA 60.007 57.895 0.00 0.00 33.45 4.20
1651 1860 7.327032 AGTGGTCGTTAATCGTTTAGAAGTTAC 59.673 37.037 0.00 0.00 40.80 2.50
1666 1875 2.165030 GCTAGTGCCTAGTGGTCGTTAA 59.835 50.000 9.93 0.00 36.53 2.01
1668 1877 0.531200 GCTAGTGCCTAGTGGTCGTT 59.469 55.000 9.93 0.00 36.53 3.85
1669 1878 0.611062 TGCTAGTGCCTAGTGGTCGT 60.611 55.000 9.93 0.00 36.53 4.34
1670 1879 0.101399 CTGCTAGTGCCTAGTGGTCG 59.899 60.000 9.93 0.00 36.53 4.79
1671 1880 1.135333 GTCTGCTAGTGCCTAGTGGTC 59.865 57.143 9.93 0.00 36.53 4.02
1672 1881 1.187087 GTCTGCTAGTGCCTAGTGGT 58.813 55.000 9.93 0.00 36.53 4.16
1673 1882 1.479709 AGTCTGCTAGTGCCTAGTGG 58.520 55.000 9.93 4.96 36.53 4.00
1674 1883 2.034053 GCTAGTCTGCTAGTGCCTAGTG 59.966 54.545 9.93 5.22 44.93 2.74
1675 1884 2.092103 AGCTAGTCTGCTAGTGCCTAGT 60.092 50.000 9.93 0.00 44.93 2.57
1676 1885 2.582052 AGCTAGTCTGCTAGTGCCTAG 58.418 52.381 5.20 5.20 44.93 3.02
1733 1942 4.096382 ACAACCTTACACTGCAAAGTTCAG 59.904 41.667 0.00 0.00 37.56 3.02
1735 1944 4.142469 ACACAACCTTACACTGCAAAGTTC 60.142 41.667 0.00 0.00 0.00 3.01
1812 2021 9.710900 CACCTAATGTTGCATCAAGACTATATA 57.289 33.333 0.75 0.00 0.00 0.86
1813 2022 8.213679 ACACCTAATGTTGCATCAAGACTATAT 58.786 33.333 0.75 0.00 38.98 0.86
1814 2023 7.564793 ACACCTAATGTTGCATCAAGACTATA 58.435 34.615 0.75 0.00 38.98 1.31
1815 2024 6.418101 ACACCTAATGTTGCATCAAGACTAT 58.582 36.000 0.75 0.00 38.98 2.12
1816 2025 5.804639 ACACCTAATGTTGCATCAAGACTA 58.195 37.500 0.75 0.00 38.98 2.59
1848 2057 2.682352 GCAAGAATCTGAGAAAGGGAGC 59.318 50.000 0.00 0.00 0.00 4.70
1881 2090 1.288633 AGACATCATGGGCATTGGGAA 59.711 47.619 0.00 0.00 0.00 3.97
1897 2106 4.215109 TGGATGATTCTACATCGGAGACA 58.785 43.478 0.00 0.00 45.07 3.41
1898 2107 4.855715 TGGATGATTCTACATCGGAGAC 57.144 45.455 0.00 0.00 45.07 3.36
1899 2108 4.221482 CCATGGATGATTCTACATCGGAGA 59.779 45.833 5.56 0.00 45.07 3.71
1900 2109 4.502016 CCATGGATGATTCTACATCGGAG 58.498 47.826 5.56 0.00 45.07 4.63
1901 2110 3.261643 CCCATGGATGATTCTACATCGGA 59.738 47.826 15.22 0.00 45.07 4.55
1902 2111 3.008375 ACCCATGGATGATTCTACATCGG 59.992 47.826 15.22 0.00 45.07 4.18
1903 2112 3.999001 CACCCATGGATGATTCTACATCG 59.001 47.826 15.22 0.00 45.07 3.84
1904 2113 3.755378 GCACCCATGGATGATTCTACATC 59.245 47.826 11.51 0.00 43.88 3.06
1905 2114 3.138839 TGCACCCATGGATGATTCTACAT 59.861 43.478 11.51 0.00 0.00 2.29
1946 2155 7.208080 ACAGTTGACTAGTGAAGAAACGTAAT 58.792 34.615 0.00 0.00 33.38 1.89
1962 2171 2.224621 CCCCACAGATCAACAGTTGACT 60.225 50.000 18.49 13.90 43.48 3.41
1985 2194 2.662535 TGCCCCATGGATATGTGAAG 57.337 50.000 15.22 0.00 32.21 3.02
2041 2250 2.502130 TGCTCCATGGTCCGTATAAACA 59.498 45.455 12.58 0.00 0.00 2.83
2049 2258 4.578516 TGTTTATATTTGCTCCATGGTCCG 59.421 41.667 12.58 2.84 0.00 4.79
2073 2282 3.773860 TGATGTCGCTTTTGTTTGTGT 57.226 38.095 0.00 0.00 0.00 3.72
2117 2326 6.549364 TGTTGTGTGGGACTTCTAATGATTTT 59.451 34.615 0.00 0.00 0.00 1.82
2246 2455 6.426937 TCACTTGGTAGTTAAATGTCAAGCTC 59.573 38.462 15.19 0.00 36.15 4.09
2342 2551 5.633830 ATGAGCAAAACACTATGTTGGAG 57.366 39.130 0.00 0.00 40.14 3.86
2345 2554 7.272084 GCTTTCTATGAGCAAAACACTATGTTG 59.728 37.037 0.00 0.00 39.09 3.33
2401 2613 6.543831 GCAATGTACATCTTAGGAATGAAGGT 59.456 38.462 9.23 0.00 0.00 3.50
2403 2615 6.293081 CGGCAATGTACATCTTAGGAATGAAG 60.293 42.308 9.23 0.00 0.00 3.02
2423 2635 4.223477 ACTTCTTACTATAACCACCGGCAA 59.777 41.667 0.00 0.00 0.00 4.52
2426 2638 6.949352 TCTACTTCTTACTATAACCACCGG 57.051 41.667 0.00 0.00 0.00 5.28
2494 2706 4.284234 TCTGTCTCACTTTGTCATGGATGA 59.716 41.667 0.00 0.00 0.00 2.92
2512 2724 2.421424 CCTGCTAGGCATTTTGTCTGTC 59.579 50.000 0.00 0.00 38.13 3.51
2513 2725 2.040278 TCCTGCTAGGCATTTTGTCTGT 59.960 45.455 0.00 0.00 38.13 3.41
2514 2726 2.715046 TCCTGCTAGGCATTTTGTCTG 58.285 47.619 0.00 0.00 38.13 3.51
2515 2727 3.285484 CATCCTGCTAGGCATTTTGTCT 58.715 45.455 0.00 0.00 38.13 3.41
2516 2728 2.223665 GCATCCTGCTAGGCATTTTGTC 60.224 50.000 0.00 0.00 40.96 3.18
2578 2790 4.342378 TGCTTTTTAGGGCAATTGTGTGTA 59.658 37.500 7.40 0.00 35.40 2.90
2673 2885 6.179504 GCAATCAGCATGGATTCACTATAG 57.820 41.667 0.00 0.00 44.79 1.31
2692 3198 1.518572 GGATCGTCGTCACGGCAAT 60.519 57.895 1.17 0.00 46.70 3.56
2698 3204 2.161012 TCAACACTAGGATCGTCGTCAC 59.839 50.000 0.00 0.00 0.00 3.67
2740 3246 0.318784 AACACTCTTGCGTCTCGGTC 60.319 55.000 0.00 0.00 0.00 4.79
2756 3262 4.106013 CCGATTCTAGCCGGTGGTAACA 62.106 54.545 1.90 0.00 40.12 2.41
2757 3263 1.537562 CCGATTCTAGCCGGTGGTAAC 60.538 57.143 1.90 0.00 40.78 2.50
2758 3264 0.748450 CCGATTCTAGCCGGTGGTAA 59.252 55.000 1.90 0.00 40.78 2.85
2759 3265 1.741327 GCCGATTCTAGCCGGTGGTA 61.741 60.000 1.90 0.00 46.84 3.25
2760 3266 3.090219 GCCGATTCTAGCCGGTGGT 62.090 63.158 1.90 0.00 46.84 4.16
2761 3267 2.280186 GCCGATTCTAGCCGGTGG 60.280 66.667 1.90 0.00 46.84 4.61
2762 3268 2.280186 GGCCGATTCTAGCCGGTG 60.280 66.667 1.90 0.00 46.84 4.94
2767 3273 1.604278 GTGGAAATGGCCGATTCTAGC 59.396 52.381 17.04 4.76 0.00 3.42
2780 3286 4.321675 GCAATTAACGTGGAAGGTGGAAAT 60.322 41.667 0.00 0.00 33.73 2.17


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

AutoCloner maintained by Alex Coulton.