Multiple sequence alignment - TraesCS4B01G030200

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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 TraesCS4B01G030200 chr4B 100.000 2360 0 0 1 2360 22530935 22528576 0.000000e+00 4359.0
1 TraesCS4B01G030200 chr4B 86.181 673 64 16 958 1617 22270776 22271432 0.000000e+00 701.0
2 TraesCS4B01G030200 chr4B 92.239 451 29 4 958 1403 22285899 22286348 3.310000e-178 634.0
3 TraesCS4B01G030200 chr4B 83.108 296 33 10 2074 2360 22272532 22272819 1.080000e-63 254.0
4 TraesCS4B01G030200 chr4B 90.909 44 4 0 1486 1529 22278814 22278771 2.530000e-05 60.2
5 TraesCS4B01G030200 chr4D 88.651 1357 97 30 958 2291 12370096 12371418 0.000000e+00 1600.0
6 TraesCS4B01G030200 chr4D 88.372 430 46 2 958 1383 12413839 12413410 4.500000e-142 514.0
7 TraesCS4B01G030200 chr4D 77.672 421 48 27 1388 1800 12413223 12412841 5.110000e-52 215.0
8 TraesCS4B01G030200 chr4D 87.500 176 20 2 1802 1977 477040204 477040377 3.980000e-48 202.0
9 TraesCS4B01G030200 chr4D 92.199 141 8 3 2221 2360 12412212 12412074 1.850000e-46 196.0
10 TraesCS4B01G030200 chr4D 78.704 324 31 18 2030 2324 12407292 12407606 5.180000e-42 182.0
11 TraesCS4B01G030200 chr4D 90.244 41 4 0 1486 1526 12407232 12407272 1.000000e-03 54.7
12 TraesCS4B01G030200 chr2A 82.432 814 136 7 46 855 767391322 767390512 0.000000e+00 704.0
13 TraesCS4B01G030200 chr4A 87.442 430 40 4 958 1383 590275188 590275607 1.270000e-132 483.0
14 TraesCS4B01G030200 chr4A 88.506 87 8 2 1388 1473 590275786 590275871 1.150000e-18 104.0
15 TraesCS4B01G030200 chr4A 73.077 234 38 19 1299 1529 590282029 590281818 2.530000e-05 60.2
16 TraesCS4B01G030200 chr7A 75.162 773 155 24 88 840 460305968 460306723 1.750000e-86 329.0
17 TraesCS4B01G030200 chr3A 82.734 278 46 2 26 302 704039159 704039435 1.810000e-61 246.0
18 TraesCS4B01G030200 chr3A 75.732 478 90 22 345 811 704039806 704040268 1.420000e-52 217.0
19 TraesCS4B01G030200 chr5A 88.889 180 18 2 1799 1977 573964678 573964500 1.100000e-53 220.0
20 TraesCS4B01G030200 chr2D 87.778 180 20 2 1799 1977 420566018 420566196 2.380000e-50 209.0
21 TraesCS4B01G030200 chr2D 87.571 177 21 1 1801 1977 518034859 518035034 1.110000e-48 204.0
22 TraesCS4B01G030200 chr5B 88.068 176 20 1 1802 1977 547331019 547331193 8.550000e-50 207.0
23 TraesCS4B01G030200 chr5B 87.356 174 20 2 1805 1977 395705865 395706037 5.140000e-47 198.0
24 TraesCS4B01G030200 chr2B 88.068 176 20 1 1802 1977 779148472 779148298 8.550000e-50 207.0
25 TraesCS4B01G030200 chr2B 87.500 176 21 1 1802 1977 335806313 335806487 3.980000e-48 202.0
26 TraesCS4B01G030200 chr1A 88.068 176 20 1 1802 1977 262015746 262015920 8.550000e-50 207.0
27 TraesCS4B01G030200 chrUn 100.000 52 0 0 897 948 19490970 19490919 1.930000e-16 97.1


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 TraesCS4B01G030200 chr4B 22528576 22530935 2359 True 4359.000000 4359 100.0000 1 2360 1 chr4B.!!$R2 2359
1 TraesCS4B01G030200 chr4B 22270776 22272819 2043 False 477.500000 701 84.6445 958 2360 2 chr4B.!!$F2 1402
2 TraesCS4B01G030200 chr4D 12370096 12371418 1322 False 1600.000000 1600 88.6510 958 2291 1 chr4D.!!$F1 1333
3 TraesCS4B01G030200 chr4D 12412074 12413839 1765 True 308.333333 514 86.0810 958 2360 3 chr4D.!!$R1 1402
4 TraesCS4B01G030200 chr2A 767390512 767391322 810 True 704.000000 704 82.4320 46 855 1 chr2A.!!$R1 809
5 TraesCS4B01G030200 chr4A 590275188 590275871 683 False 293.500000 483 87.9740 958 1473 2 chr4A.!!$F1 515
6 TraesCS4B01G030200 chr7A 460305968 460306723 755 False 329.000000 329 75.1620 88 840 1 chr7A.!!$F1 752
7 TraesCS4B01G030200 chr3A 704039159 704040268 1109 False 231.500000 246 79.2330 26 811 2 chr3A.!!$F1 785

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
866 1213 0.034477 GGTCCATCCCCGAATGTTGT 60.034 55.0 0.0 0.0 0.0 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2291 4258 0.893727 GCAACAAAGGACGGGGACAT 60.894 55.0 0.0 0.0 0.0 3.06 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
44 45 2.592993 CCCACGACCACCACCATCT 61.593 63.158 0.00 0.00 0.00 2.90
50 51 2.268920 CCACCACCATCTCCACGG 59.731 66.667 0.00 0.00 0.00 4.94
51 52 2.592993 CCACCACCATCTCCACGGT 61.593 63.158 0.00 0.00 35.27 4.83
126 127 3.201708 ACCAAATCCTTCCTCTCTCATGG 59.798 47.826 0.00 0.00 0.00 3.66
135 136 1.489481 CTCTCTCATGGTAGGTGGCA 58.511 55.000 0.00 0.00 0.00 4.92
141 142 4.966274 TGGTAGGTGGCACGGGGT 62.966 66.667 12.17 0.00 0.00 4.95
142 143 4.091939 GGTAGGTGGCACGGGGTC 62.092 72.222 12.17 0.00 0.00 4.46
151 152 1.122019 GGCACGGGGTCTGGATCTAT 61.122 60.000 0.00 0.00 0.00 1.98
152 153 1.629043 GCACGGGGTCTGGATCTATA 58.371 55.000 0.00 0.00 0.00 1.31
158 159 3.511477 GGGGTCTGGATCTATAGCAGAA 58.489 50.000 9.35 0.00 36.67 3.02
173 174 1.407989 GCAGAATTGGTGGGAGGAGAG 60.408 57.143 0.00 0.00 0.00 3.20
176 177 1.488393 GAATTGGTGGGAGGAGAGGAG 59.512 57.143 0.00 0.00 0.00 3.69
185 186 2.252714 GGAGGAGAGGAGACAACTTGT 58.747 52.381 0.00 0.00 0.00 3.16
227 228 3.068873 CACGGATTTTTCCTTTCCACCAA 59.931 43.478 0.00 0.00 0.00 3.67
262 263 2.668144 ACCCTAGATTCCTCTCTCGG 57.332 55.000 0.00 0.00 32.66 4.63
302 303 0.463474 GCAAGCACTCCTCCAGATCC 60.463 60.000 0.00 0.00 0.00 3.36
339 668 2.524394 GGCGAGGGGGATCAGCTA 60.524 66.667 0.00 0.00 0.00 3.32
352 681 5.278364 GGGGATCAGCTACCGAATATATACG 60.278 48.000 0.00 0.00 0.00 3.06
402 731 4.368391 GCCCATAGCGGTCAGATG 57.632 61.111 0.00 0.00 0.00 2.90
403 732 1.963338 GCCCATAGCGGTCAGATGC 60.963 63.158 0.00 0.00 0.00 3.91
404 733 1.302033 CCCATAGCGGTCAGATGCC 60.302 63.158 0.00 0.00 0.00 4.40
458 791 4.084888 CGGTTTTCTGCCGGTCGC 62.085 66.667 1.90 0.00 44.98 5.19
470 803 3.378602 GGTCGCCGCCCCAAAATT 61.379 61.111 0.00 0.00 0.00 1.82
488 821 3.702048 CCCGGTTCAGCGGAAGGA 61.702 66.667 18.89 0.00 32.62 3.36
490 823 1.078426 CCGGTTCAGCGGAAGGAAT 60.078 57.895 12.13 0.00 32.62 3.01
497 830 2.718563 TCAGCGGAAGGAATAAAACCC 58.281 47.619 0.00 0.00 0.00 4.11
499 832 1.003928 AGCGGAAGGAATAAAACCCGT 59.996 47.619 0.00 0.00 39.18 5.28
500 833 2.236893 AGCGGAAGGAATAAAACCCGTA 59.763 45.455 0.00 0.00 39.18 4.02
531 864 1.367471 GCTGCCCCAAAAACCTGAC 59.633 57.895 0.00 0.00 0.00 3.51
546 879 2.093658 ACCTGACACGGCTTAATCGAAT 60.094 45.455 0.00 0.00 0.00 3.34
548 881 3.448686 CTGACACGGCTTAATCGAATCT 58.551 45.455 0.00 0.00 0.00 2.40
549 882 3.186909 TGACACGGCTTAATCGAATCTG 58.813 45.455 0.00 0.00 0.00 2.90
550 883 2.540101 GACACGGCTTAATCGAATCTGG 59.460 50.000 0.00 0.00 0.00 3.86
552 885 3.194861 CACGGCTTAATCGAATCTGGAA 58.805 45.455 0.00 0.00 0.00 3.53
554 887 3.118738 ACGGCTTAATCGAATCTGGAACT 60.119 43.478 0.00 0.00 0.00 3.01
558 891 4.094887 GCTTAATCGAATCTGGAACTTGCA 59.905 41.667 0.00 0.00 0.00 4.08
560 893 1.428448 TCGAATCTGGAACTTGCACG 58.572 50.000 0.00 0.00 0.00 5.34
561 894 0.179215 CGAATCTGGAACTTGCACGC 60.179 55.000 0.00 0.00 0.00 5.34
564 897 0.322816 ATCTGGAACTTGCACGCCAT 60.323 50.000 0.00 0.00 0.00 4.40
570 903 0.322816 AACTTGCACGCCATCTCCAT 60.323 50.000 0.00 0.00 0.00 3.41
571 904 0.541392 ACTTGCACGCCATCTCCATA 59.459 50.000 0.00 0.00 0.00 2.74
621 954 4.778143 GCGCCCCAGGACGAACAT 62.778 66.667 0.00 0.00 0.00 2.71
623 956 2.351276 GCCCCAGGACGAACATGT 59.649 61.111 0.00 0.00 0.00 3.21
665 998 0.036388 TAGCGAAGTGGCAAGGGAAG 60.036 55.000 0.00 0.00 34.64 3.46
703 1036 2.662596 GACCACCTCATCCACGCA 59.337 61.111 0.00 0.00 0.00 5.24
707 1040 1.742880 CACCTCATCCACGCACAGG 60.743 63.158 0.00 0.00 0.00 4.00
733 1080 3.735029 GTCGACCGTGACGCCTCT 61.735 66.667 3.51 0.00 0.00 3.69
742 1089 2.792599 GACGCCTCTGTCGTCGAT 59.207 61.111 0.00 0.00 45.19 3.59
790 1137 2.342648 GAGGAGTTCGCCGGTGTT 59.657 61.111 16.01 1.75 0.00 3.32
826 1173 3.550431 CGCCATGAGATCCGGGGT 61.550 66.667 0.00 0.00 0.00 4.95
836 1183 2.162338 GATCCGGGGTGAACGTGACA 62.162 60.000 0.00 0.00 0.00 3.58
865 1212 2.793831 GGTCCATCCCCGAATGTTG 58.206 57.895 0.00 0.00 0.00 3.33
866 1213 0.034477 GGTCCATCCCCGAATGTTGT 60.034 55.000 0.00 0.00 0.00 3.32
867 1214 1.210967 GGTCCATCCCCGAATGTTGTA 59.789 52.381 0.00 0.00 0.00 2.41
868 1215 2.158667 GGTCCATCCCCGAATGTTGTAT 60.159 50.000 0.00 0.00 0.00 2.29
869 1216 3.071892 GGTCCATCCCCGAATGTTGTATA 59.928 47.826 0.00 0.00 0.00 1.47
870 1217 4.263331 GGTCCATCCCCGAATGTTGTATAT 60.263 45.833 0.00 0.00 0.00 0.86
871 1218 5.046159 GGTCCATCCCCGAATGTTGTATATA 60.046 44.000 0.00 0.00 0.00 0.86
872 1219 6.469410 GTCCATCCCCGAATGTTGTATATAA 58.531 40.000 0.00 0.00 0.00 0.98
873 1220 6.594159 GTCCATCCCCGAATGTTGTATATAAG 59.406 42.308 0.00 0.00 0.00 1.73
874 1221 6.499000 TCCATCCCCGAATGTTGTATATAAGA 59.501 38.462 0.00 0.00 0.00 2.10
875 1222 7.016760 TCCATCCCCGAATGTTGTATATAAGAA 59.983 37.037 0.00 0.00 0.00 2.52
876 1223 7.334421 CCATCCCCGAATGTTGTATATAAGAAG 59.666 40.741 0.00 0.00 0.00 2.85
877 1224 6.228258 TCCCCGAATGTTGTATATAAGAAGC 58.772 40.000 0.00 0.00 0.00 3.86
878 1225 6.042781 TCCCCGAATGTTGTATATAAGAAGCT 59.957 38.462 0.00 0.00 0.00 3.74
879 1226 6.147821 CCCCGAATGTTGTATATAAGAAGCTG 59.852 42.308 0.00 0.00 0.00 4.24
880 1227 6.929049 CCCGAATGTTGTATATAAGAAGCTGA 59.071 38.462 0.00 0.00 0.00 4.26
881 1228 7.095607 CCCGAATGTTGTATATAAGAAGCTGAC 60.096 40.741 0.00 0.00 0.00 3.51
882 1229 7.095607 CCGAATGTTGTATATAAGAAGCTGACC 60.096 40.741 0.00 0.00 0.00 4.02
883 1230 7.438160 CGAATGTTGTATATAAGAAGCTGACCA 59.562 37.037 0.00 0.00 0.00 4.02
884 1231 8.668510 AATGTTGTATATAAGAAGCTGACCAG 57.331 34.615 0.00 0.00 0.00 4.00
885 1232 7.418337 TGTTGTATATAAGAAGCTGACCAGA 57.582 36.000 0.47 0.00 0.00 3.86
886 1233 7.265673 TGTTGTATATAAGAAGCTGACCAGAC 58.734 38.462 0.47 0.00 0.00 3.51
887 1234 7.093509 TGTTGTATATAAGAAGCTGACCAGACA 60.094 37.037 0.47 0.00 0.00 3.41
888 1235 7.418337 TGTATATAAGAAGCTGACCAGACAA 57.582 36.000 0.47 0.00 0.00 3.18
889 1236 8.023021 TGTATATAAGAAGCTGACCAGACAAT 57.977 34.615 0.47 0.00 0.00 2.71
890 1237 8.144478 TGTATATAAGAAGCTGACCAGACAATC 58.856 37.037 0.47 0.00 0.00 2.67
891 1238 2.777832 AGAAGCTGACCAGACAATCC 57.222 50.000 0.47 0.00 0.00 3.01
892 1239 1.280421 AGAAGCTGACCAGACAATCCC 59.720 52.381 0.47 0.00 0.00 3.85
893 1240 1.280421 GAAGCTGACCAGACAATCCCT 59.720 52.381 0.47 0.00 0.00 4.20
894 1241 0.617413 AGCTGACCAGACAATCCCTG 59.383 55.000 0.47 0.00 0.00 4.45
898 1245 3.089838 CCAGACAATCCCTGGCCA 58.910 61.111 4.71 4.71 43.93 5.36
899 1246 1.383799 CCAGACAATCCCTGGCCAA 59.616 57.895 7.01 0.00 43.93 4.52
900 1247 0.967380 CCAGACAATCCCTGGCCAAC 60.967 60.000 7.01 0.00 43.93 3.77
901 1248 0.251297 CAGACAATCCCTGGCCAACA 60.251 55.000 7.01 0.00 30.58 3.33
902 1249 0.251341 AGACAATCCCTGGCCAACAC 60.251 55.000 7.01 0.00 30.58 3.32
903 1250 1.586154 GACAATCCCTGGCCAACACG 61.586 60.000 7.01 0.00 0.00 4.49
904 1251 1.303236 CAATCCCTGGCCAACACGA 60.303 57.895 7.01 0.00 0.00 4.35
905 1252 1.002134 AATCCCTGGCCAACACGAG 60.002 57.895 7.01 0.00 0.00 4.18
906 1253 3.628646 ATCCCTGGCCAACACGAGC 62.629 63.158 7.01 0.00 0.00 5.03
914 1261 4.081030 CAACACGAGCGCTGCCAG 62.081 66.667 18.48 5.87 0.00 4.85
918 1265 4.314440 ACGAGCGCTGCCAGGAAA 62.314 61.111 18.48 0.00 0.00 3.13
919 1266 3.793144 CGAGCGCTGCCAGGAAAC 61.793 66.667 18.48 0.00 0.00 2.78
920 1267 2.359230 GAGCGCTGCCAGGAAACT 60.359 61.111 18.48 0.00 46.44 2.66
931 1278 2.381445 AGGAAACTGCCTGGAGAGG 58.619 57.895 0.00 0.00 41.13 3.69
932 1279 0.178891 AGGAAACTGCCTGGAGAGGA 60.179 55.000 0.00 0.00 40.14 3.71
933 1280 0.035915 GGAAACTGCCTGGAGAGGAC 60.036 60.000 0.00 0.00 42.93 3.85
934 1281 0.980423 GAAACTGCCTGGAGAGGACT 59.020 55.000 0.00 0.00 42.93 3.85
935 1282 0.980423 AAACTGCCTGGAGAGGACTC 59.020 55.000 0.00 0.00 42.93 3.36
950 1297 4.762289 AGGACTCCAATACAATCCTCAC 57.238 45.455 0.00 0.00 34.61 3.51
951 1298 3.456277 AGGACTCCAATACAATCCTCACC 59.544 47.826 0.00 0.00 34.61 4.02
952 1299 3.199946 GGACTCCAATACAATCCTCACCA 59.800 47.826 0.00 0.00 0.00 4.17
953 1300 4.192317 GACTCCAATACAATCCTCACCAC 58.808 47.826 0.00 0.00 0.00 4.16
954 1301 3.054361 ACTCCAATACAATCCTCACCACC 60.054 47.826 0.00 0.00 0.00 4.61
955 1302 3.189606 TCCAATACAATCCTCACCACCT 58.810 45.455 0.00 0.00 0.00 4.00
956 1303 4.367166 TCCAATACAATCCTCACCACCTA 58.633 43.478 0.00 0.00 0.00 3.08
992 1339 6.587273 TGGTTAAGGAATTTGAAACCAAAGG 58.413 36.000 11.14 0.00 44.87 3.11
1094 1441 0.176680 ATCGCGCAGATGGAAGAGTT 59.823 50.000 8.75 0.00 38.36 3.01
1139 1492 1.687146 AGGAGAAGGAGGCGATGCA 60.687 57.895 0.00 0.00 0.00 3.96
1242 1596 1.377725 CACCATCTTCGCCCTGCTT 60.378 57.895 0.00 0.00 0.00 3.91
1344 1698 0.727398 GTTCTATGCGAGGTGTTGGC 59.273 55.000 0.00 0.00 0.00 4.52
1351 1705 2.110213 GAGGTGTTGGCCGTCACA 59.890 61.111 24.51 13.72 36.43 3.58
1357 1711 1.004918 GTTGGCCGTCACAGTAGCT 60.005 57.895 0.00 0.00 0.00 3.32
1375 1729 1.004185 GCTGATAACGTAGAGTCGCGA 60.004 52.381 3.71 3.71 0.00 5.87
1426 1965 1.624336 ACGTGTGGTCTACTTGCCTA 58.376 50.000 0.00 0.00 0.00 3.93
1466 2005 5.431765 GAAGATTCTGCTGGTAGGATTTGA 58.568 41.667 0.00 0.00 0.00 2.69
1477 2016 4.962362 TGGTAGGATTTGATCAGACAGCTA 59.038 41.667 0.00 0.00 0.00 3.32
1482 2021 5.663106 AGGATTTGATCAGACAGCTAACCTA 59.337 40.000 0.00 0.00 0.00 3.08
1484 2023 6.258947 GGATTTGATCAGACAGCTAACCTAAC 59.741 42.308 0.00 0.00 0.00 2.34
1525 2067 3.020984 TGGTTTCTTGTGTTCCCAGAAC 58.979 45.455 0.47 0.47 0.00 3.01
1540 2082 0.398318 AGAACACTTGTCCAGCTCCC 59.602 55.000 0.00 0.00 0.00 4.30
1668 2227 1.081242 CGTTGGATGTGTTGGCAGC 60.081 57.895 0.00 0.00 0.00 5.25
1669 2228 1.518056 CGTTGGATGTGTTGGCAGCT 61.518 55.000 2.28 0.00 0.00 4.24
1670 2229 0.675633 GTTGGATGTGTTGGCAGCTT 59.324 50.000 2.28 0.00 0.00 3.74
1671 2230 0.961019 TTGGATGTGTTGGCAGCTTC 59.039 50.000 2.28 0.00 0.00 3.86
1672 2231 0.178995 TGGATGTGTTGGCAGCTTCA 60.179 50.000 2.28 2.77 0.00 3.02
1673 2232 0.524862 GGATGTGTTGGCAGCTTCAG 59.475 55.000 2.28 0.00 0.00 3.02
1674 2233 1.242076 GATGTGTTGGCAGCTTCAGT 58.758 50.000 2.28 0.00 0.00 3.41
1675 2234 1.610522 GATGTGTTGGCAGCTTCAGTT 59.389 47.619 2.28 0.00 0.00 3.16
1676 2235 1.473258 TGTGTTGGCAGCTTCAGTTT 58.527 45.000 2.28 0.00 0.00 2.66
1677 2236 1.824230 TGTGTTGGCAGCTTCAGTTTT 59.176 42.857 2.28 0.00 0.00 2.43
1678 2237 3.020274 TGTGTTGGCAGCTTCAGTTTTA 58.980 40.909 2.28 0.00 0.00 1.52
1679 2238 3.066621 TGTGTTGGCAGCTTCAGTTTTAG 59.933 43.478 2.28 0.00 0.00 1.85
1680 2239 3.066760 GTGTTGGCAGCTTCAGTTTTAGT 59.933 43.478 2.28 0.00 0.00 2.24
1681 2240 3.066621 TGTTGGCAGCTTCAGTTTTAGTG 59.933 43.478 2.28 0.00 0.00 2.74
1690 2249 6.369890 CAGCTTCAGTTTTAGTGATCTGCTTA 59.630 38.462 0.00 0.00 31.54 3.09
1691 2250 7.065563 CAGCTTCAGTTTTAGTGATCTGCTTAT 59.934 37.037 0.00 0.00 31.54 1.73
1696 2255 5.874810 AGTTTTAGTGATCTGCTTATTCGCA 59.125 36.000 0.00 0.00 38.40 5.10
1738 2301 6.159988 TCCCTTGTTTGTTTGTTTAGTGTTG 58.840 36.000 0.00 0.00 0.00 3.33
1781 2348 7.044798 GGACTTTGTTAGATAGCTGACTTGAT 58.955 38.462 4.45 0.00 32.27 2.57
1791 2358 7.108194 AGATAGCTGACTTGATGAACAATTCA 58.892 34.615 0.00 0.00 42.80 2.57
1800 2367 8.463930 ACTTGATGAACAATTCAGGTTTCTTA 57.536 30.769 0.00 0.00 43.98 2.10
1859 2426 6.114767 CCAATACTTGGCAAGCCATTAATTT 58.885 36.000 26.45 6.79 46.64 1.82
1867 2434 5.759273 TGGCAAGCCATTAATTTGCAATATC 59.241 36.000 19.74 7.32 46.74 1.63
1908 2475 6.951256 TGATAACTTCTTGTGAGATTGACG 57.049 37.500 0.00 0.00 0.00 4.35
1923 2490 7.277981 GTGAGATTGACGAGTAAACATGGTAAT 59.722 37.037 0.00 0.00 0.00 1.89
1945 2512 9.614792 GTAATCAACCAAGGACTAGTCAATATT 57.385 33.333 23.91 10.07 0.00 1.28
1947 2514 8.738645 ATCAACCAAGGACTAGTCAATATTTC 57.261 34.615 23.91 5.15 0.00 2.17
1948 2515 6.816640 TCAACCAAGGACTAGTCAATATTTCG 59.183 38.462 23.91 6.43 0.00 3.46
1949 2516 5.116882 ACCAAGGACTAGTCAATATTTCGC 58.883 41.667 23.91 3.72 0.00 4.70
1950 2517 5.116180 CCAAGGACTAGTCAATATTTCGCA 58.884 41.667 23.91 0.00 0.00 5.10
1951 2518 5.760253 CCAAGGACTAGTCAATATTTCGCAT 59.240 40.000 23.91 0.00 0.00 4.73
1952 2519 6.260936 CCAAGGACTAGTCAATATTTCGCATT 59.739 38.462 23.91 0.00 0.00 3.56
1953 2520 7.201732 CCAAGGACTAGTCAATATTTCGCATTT 60.202 37.037 23.91 0.00 0.00 2.32
1971 2538 5.783100 CATTTGTCAAATGTTGGTATGGC 57.217 39.130 24.37 0.00 42.53 4.40
1977 2544 5.931146 TGTCAAATGTTGGTATGGCAATTTC 59.069 36.000 0.00 0.00 0.00 2.17
1978 2545 5.931146 GTCAAATGTTGGTATGGCAATTTCA 59.069 36.000 0.00 0.00 0.00 2.69
1979 2546 6.594937 GTCAAATGTTGGTATGGCAATTTCAT 59.405 34.615 0.00 0.00 0.00 2.57
1980 2547 6.594547 TCAAATGTTGGTATGGCAATTTCATG 59.405 34.615 0.00 0.00 0.00 3.07
1981 2548 5.680594 ATGTTGGTATGGCAATTTCATGT 57.319 34.783 0.00 0.00 0.00 3.21
2006 3539 1.964223 TGTGTCCTCAGAACTCTCCAC 59.036 52.381 0.00 0.00 0.00 4.02
2008 3541 3.181433 TGTGTCCTCAGAACTCTCCACTA 60.181 47.826 0.00 0.00 0.00 2.74
2020 3553 3.542676 CCACTACCGCGCCCCATA 61.543 66.667 0.00 0.00 0.00 2.74
2067 3600 5.055265 TGGTAGGGTGTGAGAATTTGAAA 57.945 39.130 0.00 0.00 0.00 2.69
2131 3686 5.668135 TGGAATGTATCAAGGGGAATCAT 57.332 39.130 0.00 0.00 0.00 2.45
2138 3693 4.819702 ATCAAGGGGAATCATTGGATGA 57.180 40.909 0.00 0.00 44.55 2.92
2158 3713 1.135527 ACTGGATGCATCATTTTGCCG 59.864 47.619 27.25 8.39 42.06 5.69
2190 3747 3.866910 GTGCCATGCCTTAATCATGTTTG 59.133 43.478 13.49 4.01 39.60 2.93
2192 3749 3.460103 CCATGCCTTAATCATGTTTGGC 58.540 45.455 9.78 9.78 39.60 4.52
2194 3751 2.533916 TGCCTTAATCATGTTTGGCCA 58.466 42.857 0.00 0.00 39.60 5.36
2195 3752 2.233431 TGCCTTAATCATGTTTGGCCAC 59.767 45.455 3.88 0.00 39.60 5.01
2200 3760 5.512921 CCTTAATCATGTTTGGCCACCTTTT 60.513 40.000 3.88 0.00 0.00 2.27
2291 4258 5.745227 CAAAAGCCCTCTCCTTTAGATGTA 58.255 41.667 0.00 0.00 32.56 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 1.535444 TGGAGATGGTGGTGGTCGT 60.535 57.895 0.00 0.00 0.00 4.34
38 39 4.129737 CGCGACCGTGGAGATGGT 62.130 66.667 0.00 0.00 44.92 3.55
110 111 2.587777 ACCTACCATGAGAGAGGAAGGA 59.412 50.000 0.00 0.00 33.04 3.36
126 127 3.001406 AGACCCCGTGCCACCTAC 61.001 66.667 0.00 0.00 0.00 3.18
135 136 1.147191 TGCTATAGATCCAGACCCCGT 59.853 52.381 3.21 0.00 0.00 5.28
141 142 5.012458 CCACCAATTCTGCTATAGATCCAGA 59.988 44.000 3.21 4.23 34.80 3.86
142 143 5.243981 CCACCAATTCTGCTATAGATCCAG 58.756 45.833 3.21 1.70 34.80 3.86
151 152 1.839994 CTCCTCCCACCAATTCTGCTA 59.160 52.381 0.00 0.00 0.00 3.49
152 153 0.622665 CTCCTCCCACCAATTCTGCT 59.377 55.000 0.00 0.00 0.00 4.24
158 159 0.719015 TCTCCTCTCCTCCCACCAAT 59.281 55.000 0.00 0.00 0.00 3.16
173 174 3.502191 TTGTTTGCACAAGTTGTCTCC 57.498 42.857 5.27 0.00 38.03 3.71
176 177 3.798337 CCAGATTGTTTGCACAAGTTGTC 59.202 43.478 5.27 2.17 46.25 3.18
185 186 3.229293 TGGTGATTCCAGATTGTTTGCA 58.771 40.909 0.00 0.00 41.93 4.08
227 228 2.979058 GGTTCGTCCCTCCTTCTCT 58.021 57.895 0.00 0.00 0.00 3.10
262 263 1.971695 CACTTTTGGGGGTCGCCTC 60.972 63.158 5.82 0.00 0.00 4.70
290 291 1.698532 CCCATTCTGGATCTGGAGGAG 59.301 57.143 0.00 0.00 40.96 3.69
328 334 5.278364 CGTATATATTCGGTAGCTGATCCCC 60.278 48.000 0.00 0.00 0.00 4.81
333 339 3.949754 CCCCGTATATATTCGGTAGCTGA 59.050 47.826 23.98 0.00 44.51 4.26
335 341 4.205587 CTCCCCGTATATATTCGGTAGCT 58.794 47.826 23.98 0.00 44.51 3.32
338 667 3.290710 GCCTCCCCGTATATATTCGGTA 58.709 50.000 23.98 13.77 44.51 4.02
339 668 2.105766 GCCTCCCCGTATATATTCGGT 58.894 52.381 23.98 0.00 44.51 4.69
366 695 2.183555 GGCCGTGACTAGGGTTCG 59.816 66.667 0.00 0.00 34.32 3.95
367 696 2.582978 GGGCCGTGACTAGGGTTC 59.417 66.667 0.00 0.00 34.32 3.62
391 720 3.474570 GGGAGGCATCTGACCGCT 61.475 66.667 0.00 0.00 0.00 5.52
458 791 3.457263 CCGGGAATTTTGGGGCGG 61.457 66.667 0.00 0.00 0.00 6.13
466 799 3.996614 CCGCTGAACCGGGAATTT 58.003 55.556 6.32 0.00 44.46 1.82
488 821 1.407299 GGGGAGCGTACGGGTTTTATT 60.407 52.381 18.39 0.00 0.00 1.40
490 823 1.596408 GGGGAGCGTACGGGTTTTA 59.404 57.895 18.39 0.00 0.00 1.52
512 845 1.836604 TCAGGTTTTTGGGGCAGCC 60.837 57.895 1.26 1.26 0.00 4.85
513 846 1.367471 GTCAGGTTTTTGGGGCAGC 59.633 57.895 0.00 0.00 0.00 5.25
515 848 1.388065 CGTGTCAGGTTTTTGGGGCA 61.388 55.000 0.00 0.00 0.00 5.36
521 854 3.058501 CGATTAAGCCGTGTCAGGTTTTT 60.059 43.478 0.00 0.00 36.17 1.94
531 864 2.821546 TCCAGATTCGATTAAGCCGTG 58.178 47.619 0.00 0.00 0.00 4.94
546 879 0.955428 GATGGCGTGCAAGTTCCAGA 60.955 55.000 0.59 0.00 31.36 3.86
548 881 0.955428 GAGATGGCGTGCAAGTTCCA 60.955 55.000 0.59 1.29 0.00 3.53
549 882 1.648467 GGAGATGGCGTGCAAGTTCC 61.648 60.000 0.59 0.00 0.00 3.62
550 883 0.955428 TGGAGATGGCGTGCAAGTTC 60.955 55.000 0.59 0.00 0.00 3.01
552 885 0.541392 TATGGAGATGGCGTGCAAGT 59.459 50.000 0.59 0.00 0.00 3.16
554 887 0.809636 CGTATGGAGATGGCGTGCAA 60.810 55.000 0.00 0.00 0.00 4.08
558 891 1.359117 CGTCGTATGGAGATGGCGT 59.641 57.895 0.00 0.00 0.00 5.68
560 893 4.655527 CCGTCGTATGGAGATGGC 57.344 61.111 0.00 0.00 37.89 4.40
561 894 0.039074 GAGCCGTCGTATGGAGATGG 60.039 60.000 0.39 0.39 45.25 3.51
564 897 3.417601 CGAGCCGTCGTATGGAGA 58.582 61.111 0.00 0.00 41.57 3.71
613 946 2.345641 CGTCTTCCATCACATGTTCGTC 59.654 50.000 0.00 0.00 0.00 4.20
615 948 2.606108 TCGTCTTCCATCACATGTTCG 58.394 47.619 0.00 0.00 0.00 3.95
616 949 3.557595 GGATCGTCTTCCATCACATGTTC 59.442 47.826 0.00 0.00 35.72 3.18
618 951 2.158900 GGGATCGTCTTCCATCACATGT 60.159 50.000 0.00 0.00 37.53 3.21
621 954 1.567357 TGGGATCGTCTTCCATCACA 58.433 50.000 4.64 0.00 37.53 3.58
623 956 2.355716 GGTTTGGGATCGTCTTCCATCA 60.356 50.000 4.64 0.00 37.53 3.07
665 998 2.674177 CGATAGCGGGTACATCATTCCC 60.674 54.545 0.00 0.00 37.98 3.97
681 1014 1.001268 CGTGGATGAGGTGGTCGATAG 60.001 57.143 0.00 0.00 0.00 2.08
726 1073 1.983196 CTGATCGACGACAGAGGCGT 61.983 60.000 17.22 0.00 45.79 5.68
731 1078 1.134694 CGTGCTGATCGACGACAGA 59.865 57.895 22.95 11.01 37.81 3.41
733 1080 0.523335 CATCGTGCTGATCGACGACA 60.523 55.000 14.41 0.00 46.60 4.35
742 1089 3.776849 CGTTGCGCATCGTGCTGA 61.777 61.111 27.97 0.99 42.25 4.26
761 1108 2.829458 CTCCTCCTCCGTCGGGAC 60.829 72.222 12.29 0.00 37.43 4.46
765 1112 2.792599 CGAACTCCTCCTCCGTCG 59.207 66.667 0.00 0.00 0.00 5.12
767 1114 3.069318 GGCGAACTCCTCCTCCGT 61.069 66.667 0.00 0.00 0.00 4.69
790 1137 0.179111 GGCGAGATCCATCACGTTCA 60.179 55.000 7.98 0.00 41.77 3.18
826 1173 2.586635 GGTGGCGTGTCACGTTCA 60.587 61.111 25.18 19.98 44.73 3.18
855 1202 6.929049 TCAGCTTCTTATATACAACATTCGGG 59.071 38.462 0.00 0.00 0.00 5.14
856 1203 7.095607 GGTCAGCTTCTTATATACAACATTCGG 60.096 40.741 0.00 0.00 0.00 4.30
857 1204 7.438160 TGGTCAGCTTCTTATATACAACATTCG 59.562 37.037 0.00 0.00 0.00 3.34
858 1205 8.662781 TGGTCAGCTTCTTATATACAACATTC 57.337 34.615 0.00 0.00 0.00 2.67
859 1206 8.486210 TCTGGTCAGCTTCTTATATACAACATT 58.514 33.333 0.00 0.00 0.00 2.71
860 1207 7.928706 GTCTGGTCAGCTTCTTATATACAACAT 59.071 37.037 0.00 0.00 0.00 2.71
861 1208 7.093509 TGTCTGGTCAGCTTCTTATATACAACA 60.094 37.037 0.00 0.00 0.00 3.33
862 1209 7.265673 TGTCTGGTCAGCTTCTTATATACAAC 58.734 38.462 0.00 0.00 0.00 3.32
863 1210 7.418337 TGTCTGGTCAGCTTCTTATATACAA 57.582 36.000 0.00 0.00 0.00 2.41
864 1211 7.418337 TTGTCTGGTCAGCTTCTTATATACA 57.582 36.000 0.00 0.00 0.00 2.29
865 1212 7.600752 GGATTGTCTGGTCAGCTTCTTATATAC 59.399 40.741 0.00 0.00 0.00 1.47
866 1213 7.256332 GGGATTGTCTGGTCAGCTTCTTATATA 60.256 40.741 0.00 0.00 0.00 0.86
867 1214 6.465035 GGGATTGTCTGGTCAGCTTCTTATAT 60.465 42.308 0.00 0.00 0.00 0.86
868 1215 5.163301 GGGATTGTCTGGTCAGCTTCTTATA 60.163 44.000 0.00 0.00 0.00 0.98
869 1216 4.384647 GGGATTGTCTGGTCAGCTTCTTAT 60.385 45.833 0.00 0.00 0.00 1.73
870 1217 3.055094 GGGATTGTCTGGTCAGCTTCTTA 60.055 47.826 0.00 0.00 0.00 2.10
871 1218 2.290577 GGGATTGTCTGGTCAGCTTCTT 60.291 50.000 0.00 0.00 0.00 2.52
872 1219 1.280421 GGGATTGTCTGGTCAGCTTCT 59.720 52.381 0.00 0.00 0.00 2.85
873 1220 1.280421 AGGGATTGTCTGGTCAGCTTC 59.720 52.381 0.00 0.00 0.00 3.86
874 1221 1.004044 CAGGGATTGTCTGGTCAGCTT 59.996 52.381 0.00 0.00 0.00 3.74
875 1222 0.617413 CAGGGATTGTCTGGTCAGCT 59.383 55.000 0.00 0.00 0.00 4.24
876 1223 0.393537 CCAGGGATTGTCTGGTCAGC 60.394 60.000 2.21 0.00 44.97 4.26
877 1224 3.869623 CCAGGGATTGTCTGGTCAG 57.130 57.895 2.21 0.00 44.97 3.51
882 1229 0.251297 TGTTGGCCAGGGATTGTCTG 60.251 55.000 5.11 0.00 0.00 3.51
883 1230 0.251341 GTGTTGGCCAGGGATTGTCT 60.251 55.000 5.11 0.00 0.00 3.41
884 1231 1.586154 CGTGTTGGCCAGGGATTGTC 61.586 60.000 5.11 0.00 0.00 3.18
885 1232 1.603455 CGTGTTGGCCAGGGATTGT 60.603 57.895 5.11 0.00 0.00 2.71
886 1233 1.303236 TCGTGTTGGCCAGGGATTG 60.303 57.895 5.11 0.00 0.00 2.67
887 1234 1.002134 CTCGTGTTGGCCAGGGATT 60.002 57.895 5.11 0.00 0.00 3.01
888 1235 2.671070 CTCGTGTTGGCCAGGGAT 59.329 61.111 5.11 0.00 0.00 3.85
889 1236 4.329545 GCTCGTGTTGGCCAGGGA 62.330 66.667 5.11 0.99 0.00 4.20
897 1244 4.081030 CTGGCAGCGCTCGTGTTG 62.081 66.667 7.13 0.00 0.00 3.33
901 1248 4.314440 TTTCCTGGCAGCGCTCGT 62.314 61.111 7.13 0.00 0.00 4.18
902 1249 3.793144 GTTTCCTGGCAGCGCTCG 61.793 66.667 7.13 4.46 0.00 5.03
903 1250 2.359230 AGTTTCCTGGCAGCGCTC 60.359 61.111 7.13 2.01 0.00 5.03
904 1251 2.670934 CAGTTTCCTGGCAGCGCT 60.671 61.111 2.64 2.64 34.90 5.92
905 1252 4.410743 GCAGTTTCCTGGCAGCGC 62.411 66.667 9.56 0.00 39.22 5.92
913 1260 0.178891 TCCTCTCCAGGCAGTTTCCT 60.179 55.000 0.00 0.00 40.12 3.36
914 1261 0.035915 GTCCTCTCCAGGCAGTTTCC 60.036 60.000 0.00 0.00 40.12 3.13
915 1262 0.980423 AGTCCTCTCCAGGCAGTTTC 59.020 55.000 0.00 0.00 40.12 2.78
916 1263 0.980423 GAGTCCTCTCCAGGCAGTTT 59.020 55.000 0.00 0.00 40.12 2.66
917 1264 2.677508 GAGTCCTCTCCAGGCAGTT 58.322 57.895 0.00 0.00 40.12 3.16
918 1265 4.451544 GAGTCCTCTCCAGGCAGT 57.548 61.111 0.00 0.00 40.12 4.40
929 1276 3.456277 GGTGAGGATTGTATTGGAGTCCT 59.544 47.826 11.33 0.00 41.81 3.85
930 1277 3.199946 TGGTGAGGATTGTATTGGAGTCC 59.800 47.826 0.73 0.73 0.00 3.85
931 1278 4.192317 GTGGTGAGGATTGTATTGGAGTC 58.808 47.826 0.00 0.00 0.00 3.36
932 1279 3.054361 GGTGGTGAGGATTGTATTGGAGT 60.054 47.826 0.00 0.00 0.00 3.85
933 1280 3.200825 AGGTGGTGAGGATTGTATTGGAG 59.799 47.826 0.00 0.00 0.00 3.86
934 1281 3.189606 AGGTGGTGAGGATTGTATTGGA 58.810 45.455 0.00 0.00 0.00 3.53
935 1282 3.652057 AGGTGGTGAGGATTGTATTGG 57.348 47.619 0.00 0.00 0.00 3.16
936 1283 7.483307 CAAAATAGGTGGTGAGGATTGTATTG 58.517 38.462 0.00 0.00 0.00 1.90
937 1284 6.096846 GCAAAATAGGTGGTGAGGATTGTATT 59.903 38.462 0.00 0.00 0.00 1.89
938 1285 5.594317 GCAAAATAGGTGGTGAGGATTGTAT 59.406 40.000 0.00 0.00 0.00 2.29
939 1286 4.947388 GCAAAATAGGTGGTGAGGATTGTA 59.053 41.667 0.00 0.00 0.00 2.41
940 1287 3.763897 GCAAAATAGGTGGTGAGGATTGT 59.236 43.478 0.00 0.00 0.00 2.71
941 1288 3.763360 TGCAAAATAGGTGGTGAGGATTG 59.237 43.478 0.00 0.00 0.00 2.67
942 1289 4.019174 CTGCAAAATAGGTGGTGAGGATT 58.981 43.478 0.00 0.00 0.00 3.01
943 1290 3.266772 TCTGCAAAATAGGTGGTGAGGAT 59.733 43.478 0.00 0.00 0.00 3.24
944 1291 2.642311 TCTGCAAAATAGGTGGTGAGGA 59.358 45.455 0.00 0.00 0.00 3.71
945 1292 3.012518 CTCTGCAAAATAGGTGGTGAGG 58.987 50.000 0.00 0.00 0.00 3.86
946 1293 3.679389 ACTCTGCAAAATAGGTGGTGAG 58.321 45.455 0.00 0.00 0.00 3.51
947 1294 3.788227 ACTCTGCAAAATAGGTGGTGA 57.212 42.857 0.00 0.00 0.00 4.02
948 1295 3.057315 CCAACTCTGCAAAATAGGTGGTG 60.057 47.826 11.95 0.00 42.18 4.17
949 1296 3.157087 CCAACTCTGCAAAATAGGTGGT 58.843 45.455 11.95 0.00 42.18 4.16
950 1297 3.855689 CCAACTCTGCAAAATAGGTGG 57.144 47.619 7.48 7.48 41.48 4.61
951 1298 4.853924 AACCAACTCTGCAAAATAGGTG 57.146 40.909 1.14 0.00 0.00 4.00
952 1299 5.476945 CCTTAACCAACTCTGCAAAATAGGT 59.523 40.000 0.00 0.00 0.00 3.08
953 1300 5.710099 TCCTTAACCAACTCTGCAAAATAGG 59.290 40.000 0.00 0.00 0.00 2.57
954 1301 6.817765 TCCTTAACCAACTCTGCAAAATAG 57.182 37.500 0.00 0.00 0.00 1.73
955 1302 7.775053 ATTCCTTAACCAACTCTGCAAAATA 57.225 32.000 0.00 0.00 0.00 1.40
956 1303 6.670695 ATTCCTTAACCAACTCTGCAAAAT 57.329 33.333 0.00 0.00 0.00 1.82
992 1339 4.402474 CCTCCTTGGTTTCCATTATTGTCC 59.598 45.833 0.00 0.00 31.53 4.02
1139 1492 2.948720 GCGAGGACAGGCTTGGAGT 61.949 63.158 0.00 0.00 0.00 3.85
1232 1585 4.388499 GAACCGGAAGCAGGGCGA 62.388 66.667 9.46 0.00 0.00 5.54
1242 1596 0.256752 TAGATGGACGAGGAACCGGA 59.743 55.000 9.46 0.00 0.00 5.14
1278 1632 6.830912 AGACATAATGGAAATAGTGCAGCTA 58.169 36.000 0.00 0.00 0.00 3.32
1344 1698 2.159421 ACGTTATCAGCTACTGTGACGG 60.159 50.000 17.24 0.00 36.90 4.79
1351 1705 3.248125 GCGACTCTACGTTATCAGCTACT 59.752 47.826 0.00 0.00 35.59 2.57
1357 1711 2.274437 AGTCGCGACTCTACGTTATCA 58.726 47.619 34.98 0.00 36.92 2.15
1406 1945 0.756903 AGGCAAGTAGACCACACGTT 59.243 50.000 0.00 0.00 0.00 3.99
1410 1949 3.389983 ACAAACTAGGCAAGTAGACCACA 59.610 43.478 0.00 0.00 37.50 4.17
1426 1965 3.888583 TCTTCCCAACGGTAAACAAACT 58.111 40.909 0.00 0.00 0.00 2.66
1466 2005 4.160626 GTCAGGTTAGGTTAGCTGTCTGAT 59.839 45.833 13.01 0.00 42.68 2.90
1477 2016 6.681729 TTGTTCTCTATGTCAGGTTAGGTT 57.318 37.500 0.00 0.00 0.00 3.50
1482 2021 6.176183 CCAGAATTGTTCTCTATGTCAGGTT 58.824 40.000 0.00 0.00 38.11 3.50
1484 2023 5.738909 ACCAGAATTGTTCTCTATGTCAGG 58.261 41.667 0.00 0.00 38.11 3.86
1525 2067 0.038744 ATTGGGGAGCTGGACAAGTG 59.961 55.000 0.00 0.00 0.00 3.16
1540 2082 5.990120 AAATCAAAACAGAGGAGGATTGG 57.010 39.130 0.00 0.00 0.00 3.16
1668 2227 8.113062 CGAATAAGCAGATCACTAAAACTGAAG 58.887 37.037 0.00 0.00 32.90 3.02
1669 2228 7.413000 GCGAATAAGCAGATCACTAAAACTGAA 60.413 37.037 0.00 0.00 37.05 3.02
1670 2229 6.036083 GCGAATAAGCAGATCACTAAAACTGA 59.964 38.462 0.00 0.00 37.05 3.41
1671 2230 6.183360 TGCGAATAAGCAGATCACTAAAACTG 60.183 38.462 0.00 0.00 42.92 3.16
1672 2231 5.874810 TGCGAATAAGCAGATCACTAAAACT 59.125 36.000 0.00 0.00 42.92 2.66
1673 2232 6.106877 TGCGAATAAGCAGATCACTAAAAC 57.893 37.500 0.00 0.00 42.92 2.43
1690 2249 5.587388 ACATGAAGAAATGGAATGCGAAT 57.413 34.783 0.00 0.00 31.46 3.34
1691 2250 5.389859 AACATGAAGAAATGGAATGCGAA 57.610 34.783 0.00 0.00 31.46 4.70
1696 2255 6.270695 ACAAGGGAAACATGAAGAAATGGAAT 59.729 34.615 0.00 0.00 31.46 3.01
1738 2301 4.034410 AGTCCTACCAGAATCTTCTTCCC 58.966 47.826 0.00 0.00 34.74 3.97
1781 2348 9.581289 TTATCCTTAAGAAACCTGAATTGTTCA 57.419 29.630 3.36 0.00 38.17 3.18
1791 2358 8.950007 TCAAACCAATTATCCTTAAGAAACCT 57.050 30.769 3.36 0.00 0.00 3.50
1837 2404 5.585844 GCAAATTAATGGCTTGCCAAGTATT 59.414 36.000 18.76 13.72 39.62 1.89
1838 2405 5.118286 GCAAATTAATGGCTTGCCAAGTAT 58.882 37.500 18.76 8.82 39.62 2.12
1887 2454 6.692486 ACTCGTCAATCTCACAAGAAGTTAT 58.308 36.000 0.00 0.00 34.49 1.89
1888 2455 6.085555 ACTCGTCAATCTCACAAGAAGTTA 57.914 37.500 0.00 0.00 34.49 2.24
1894 2461 6.401474 CCATGTTTACTCGTCAATCTCACAAG 60.401 42.308 0.00 0.00 0.00 3.16
1923 2490 6.816640 CGAAATATTGACTAGTCCTTGGTTGA 59.183 38.462 20.11 0.00 0.00 3.18
1932 2499 7.684670 TGACAAATGCGAAATATTGACTAGTC 58.315 34.615 16.32 16.32 0.00 2.59
1950 2517 5.480642 TGCCATACCAACATTTGACAAAT 57.519 34.783 7.62 7.62 0.00 2.32
1951 2518 4.944619 TGCCATACCAACATTTGACAAA 57.055 36.364 2.48 2.48 0.00 2.83
1952 2519 4.944619 TTGCCATACCAACATTTGACAA 57.055 36.364 0.00 0.00 0.00 3.18
1953 2520 5.480642 AATTGCCATACCAACATTTGACA 57.519 34.783 0.00 0.00 0.00 3.58
1971 2538 5.009911 TGAGGACACAAGGAACATGAAATTG 59.990 40.000 0.00 1.50 0.00 2.32
1977 2544 3.407424 TCTGAGGACACAAGGAACATG 57.593 47.619 0.00 0.00 0.00 3.21
1978 2545 3.392616 AGTTCTGAGGACACAAGGAACAT 59.607 43.478 0.00 0.00 36.52 2.71
1979 2546 2.771943 AGTTCTGAGGACACAAGGAACA 59.228 45.455 0.00 0.00 36.52 3.18
1980 2547 3.070302 AGAGTTCTGAGGACACAAGGAAC 59.930 47.826 0.00 0.00 34.95 3.62
1981 2548 3.309296 AGAGTTCTGAGGACACAAGGAA 58.691 45.455 0.00 0.00 0.00 3.36
2006 3539 2.029073 CACTATGGGGCGCGGTAG 59.971 66.667 8.83 10.77 0.00 3.18
2008 3541 4.157120 GACACTATGGGGCGCGGT 62.157 66.667 8.83 0.00 0.00 5.68
2131 3686 3.588210 ATGATGCATCCAGTCATCCAA 57.412 42.857 23.67 1.25 38.57 3.53
2169 3724 3.118702 CCAAACATGATTAAGGCATGGCA 60.119 43.478 22.64 0.31 45.62 4.92
2190 3747 1.119684 AACAACCAGAAAAGGTGGCC 58.880 50.000 0.00 0.00 42.25 5.36
2192 3749 6.578023 TCAATTAAACAACCAGAAAAGGTGG 58.422 36.000 0.00 0.00 42.25 4.61
2291 4258 0.893727 GCAACAAAGGACGGGGACAT 60.894 55.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.