Multiple sequence alignment - TraesCS6A01G158400

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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 TraesCS6A01G158400 chr6A 100.000 4730 0 0 1 4730 149953216 149948487 0.000000e+00 8735.0
1 TraesCS6A01G158400 chr6A 90.451 1309 98 17 2285 3589 184387345 184386060 0.000000e+00 1700.0
2 TraesCS6A01G158400 chr6A 94.234 1110 59 3 3621 4729 184384445 184383340 0.000000e+00 1690.0
3 TraesCS6A01G158400 chr6A 85.519 511 50 12 963 1465 184394357 184393863 3.260000e-141 512.0
4 TraesCS6A01G158400 chr6A 85.481 489 53 9 1551 2028 184388137 184387656 1.180000e-135 494.0
5 TraesCS6A01G158400 chr6A 77.059 680 107 28 2845 3516 31889816 31889178 3.500000e-91 346.0
6 TraesCS6A01G158400 chr6A 92.166 217 11 1 2033 2243 184387558 184387342 7.690000e-78 302.0
7 TraesCS6A01G158400 chr6A 78.049 287 49 12 24 302 149953080 149952800 8.140000e-38 169.0
8 TraesCS6A01G158400 chr6A 96.970 33 1 0 575 607 414256996 414256964 6.610000e-04 56.5
9 TraesCS6A01G158400 chr6D 97.753 3338 49 9 1398 4730 128879441 128882757 0.000000e+00 5725.0
10 TraesCS6A01G158400 chr6D 88.288 444 14 10 861 1300 128878884 128879293 9.140000e-137 497.0
11 TraesCS6A01G158400 chr6D 78.922 612 81 30 178 782 128878069 128878639 5.780000e-99 372.0
12 TraesCS6A01G158400 chr6D 77.025 679 109 26 2845 3516 42510777 42511415 3.500000e-91 346.0
13 TraesCS6A01G158400 chr6D 76.662 677 108 32 2849 3516 233683730 233683095 3.530000e-86 329.0
14 TraesCS6A01G158400 chr6D 76.583 679 111 28 2845 3516 344164055 344164692 3.530000e-86 329.0
15 TraesCS6A01G158400 chr6D 98.148 54 1 0 1299 1352 128879386 128879439 1.400000e-15 95.3
16 TraesCS6A01G158400 chr7B 77.320 679 106 24 2845 3516 708719816 708719179 1.620000e-94 357.0
17 TraesCS6A01G158400 chr3B 77.586 638 102 24 2845 3477 169683975 169683374 9.740000e-92 348.0
18 TraesCS6A01G158400 chr3B 79.556 225 38 7 2293 2513 370723023 370722803 2.280000e-33 154.0
19 TraesCS6A01G158400 chr3D 76.618 680 110 28 2845 3516 33366684 33367322 3.530000e-86 329.0
20 TraesCS6A01G158400 chr3D 94.444 36 1 1 569 604 469166230 469166196 2.000000e-03 54.7
21 TraesCS6A01G158400 chr2B 94.444 36 1 1 577 612 563685970 563685936 2.000000e-03 54.7


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 TraesCS6A01G158400 chr6A 149948487 149953216 4729 True 4452.000 8735 89.02450 1 4730 2 chr6A.!!$R4 4729
1 TraesCS6A01G158400 chr6A 184383340 184388137 4797 True 1046.500 1700 90.58300 1551 4729 4 chr6A.!!$R5 3178
2 TraesCS6A01G158400 chr6A 31889178 31889816 638 True 346.000 346 77.05900 2845 3516 1 chr6A.!!$R1 671
3 TraesCS6A01G158400 chr6D 128878069 128882757 4688 False 1672.325 5725 90.77775 178 4730 4 chr6D.!!$F3 4552
4 TraesCS6A01G158400 chr6D 42510777 42511415 638 False 346.000 346 77.02500 2845 3516 1 chr6D.!!$F1 671
5 TraesCS6A01G158400 chr6D 233683095 233683730 635 True 329.000 329 76.66200 2849 3516 1 chr6D.!!$R1 667
6 TraesCS6A01G158400 chr6D 344164055 344164692 637 False 329.000 329 76.58300 2845 3516 1 chr6D.!!$F2 671
7 TraesCS6A01G158400 chr7B 708719179 708719816 637 True 357.000 357 77.32000 2845 3516 1 chr7B.!!$R1 671
8 TraesCS6A01G158400 chr3B 169683374 169683975 601 True 348.000 348 77.58600 2845 3477 1 chr3B.!!$R1 632
9 TraesCS6A01G158400 chr3D 33366684 33367322 638 False 329.000 329 76.61800 2845 3516 1 chr3D.!!$F1 671

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
821 1011 0.178068 AATGGCCGGCCTATATAGCG 59.822 55.0 43.34 3.76 36.94 4.26 F
1618 1906 0.179234 TTTGACGGCACACCTTCAGA 59.821 50.0 0.00 0.00 44.35 3.27 F
3181 3581 1.808411 AACGAGTATGGTGCTTGTGG 58.192 50.0 0.00 0.00 31.46 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2069 2460 2.038952 CACTCCAATCACTGTTCTGGGA 59.961 50.000 1.04 0.0 0.00 4.37 R
3372 3777 0.671251 GTCAACACCAATTTCCGCCA 59.329 50.000 0.00 0.0 0.00 5.69 R
4129 6122 3.324846 TCTTCATGTAGAGGCACAACAGT 59.675 43.478 0.00 0.0 30.84 3.55 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
79 80 8.961294 TGTTCATGAATTTGAAAAATGTTCCT 57.039 26.923 12.12 0.00 37.36 3.36
80 81 8.828644 TGTTCATGAATTTGAAAAATGTTCCTG 58.171 29.630 12.12 0.00 37.36 3.86
81 82 9.044150 GTTCATGAATTTGAAAAATGTTCCTGA 57.956 29.630 12.12 0.00 37.36 3.86
82 83 9.610705 TTCATGAATTTGAAAAATGTTCCTGAA 57.389 25.926 3.38 5.95 33.86 3.02
83 84 9.781633 TCATGAATTTGAAAAATGTTCCTGAAT 57.218 25.926 0.00 0.00 0.00 2.57
117 118 9.657419 AATATTCATGAATTGGAAAGTGTTTCC 57.343 29.630 25.26 10.92 43.84 3.13
154 155 7.769272 TTTTCGTGAATTTGAAAAATGCTCT 57.231 28.000 10.10 0.00 40.15 4.09
155 156 6.752335 TTCGTGAATTTGAAAAATGCTCTG 57.248 33.333 0.00 0.00 0.00 3.35
156 157 6.070897 TCGTGAATTTGAAAAATGCTCTGA 57.929 33.333 0.00 0.00 0.00 3.27
157 158 6.680810 TCGTGAATTTGAAAAATGCTCTGAT 58.319 32.000 0.00 0.00 0.00 2.90
158 159 7.147312 TCGTGAATTTGAAAAATGCTCTGATT 58.853 30.769 0.00 0.00 0.00 2.57
159 160 7.652909 TCGTGAATTTGAAAAATGCTCTGATTT 59.347 29.630 0.00 0.00 0.00 2.17
160 161 8.277713 CGTGAATTTGAAAAATGCTCTGATTTT 58.722 29.630 0.00 0.00 37.16 1.82
161 162 9.590088 GTGAATTTGAAAAATGCTCTGATTTTC 57.410 29.630 7.08 7.08 41.28 2.29
162 163 9.327628 TGAATTTGAAAAATGCTCTGATTTTCA 57.672 25.926 11.03 11.03 45.93 2.69
167 168 8.945481 TGAAAAATGCTCTGATTTTCAAAAGA 57.055 26.923 12.16 0.00 45.14 2.52
168 169 9.550406 TGAAAAATGCTCTGATTTTCAAAAGAT 57.450 25.926 12.16 0.00 45.14 2.40
175 176 9.797556 TGCTCTGATTTTCAAAAGATATCAATG 57.202 29.630 5.32 1.01 0.00 2.82
176 177 9.798994 GCTCTGATTTTCAAAAGATATCAATGT 57.201 29.630 5.32 0.00 0.00 2.71
270 271 6.819284 TGTTCCTGAATTTGAAAAATGCTCT 58.181 32.000 0.00 0.00 0.00 4.09
271 272 6.702723 TGTTCCTGAATTTGAAAAATGCTCTG 59.297 34.615 0.00 0.00 0.00 3.35
277 278 9.807386 CTGAATTTGAAAAATGCTCTGATTTTC 57.193 29.630 7.08 7.08 41.28 2.29
283 284 8.945481 TGAAAAATGCTCTGATTTTCAAAAGA 57.055 26.923 12.16 0.00 45.14 2.52
284 285 9.550406 TGAAAAATGCTCTGATTTTCAAAAGAT 57.450 25.926 12.16 0.00 45.14 2.40
291 292 9.797556 TGCTCTGATTTTCAAAAGATATTCATG 57.202 29.630 0.00 0.00 0.00 3.07
311 312 9.695526 ATTCATGATTTTGAAAAATGTTCTCGA 57.304 25.926 5.76 0.00 38.98 4.04
312 313 9.526713 TTCATGATTTTGAAAAATGTTCTCGAA 57.473 25.926 5.76 0.00 38.64 3.71
313 314 9.695526 TCATGATTTTGAAAAATGTTCTCGAAT 57.304 25.926 5.76 0.00 38.64 3.34
413 414 8.885494 AATTCGAAAAATGTTCAGGAATTTCA 57.115 26.923 0.00 0.00 30.83 2.69
414 415 8.885494 ATTCGAAAAATGTTCAGGAATTTCAA 57.115 26.923 0.00 2.49 0.00 2.69
415 416 8.709386 TTCGAAAAATGTTCAGGAATTTCAAA 57.291 26.923 0.00 0.00 0.00 2.69
447 448 8.729805 TTCCAAATTAACAAAAAGCTGTTCAT 57.270 26.923 0.00 0.00 40.08 2.57
448 449 8.140677 TCCAAATTAACAAAAAGCTGTTCATG 57.859 30.769 0.00 0.00 40.08 3.07
459 460 9.002080 CAAAAAGCTGTTCATGAATTTCAAAAC 57.998 29.630 12.12 15.71 31.06 2.43
460 461 7.846644 AAAGCTGTTCATGAATTTCAAAACA 57.153 28.000 20.50 20.50 35.29 2.83
464 465 8.728833 AGCTGTTCATGAATTTCAAAACAAAAA 58.271 25.926 21.37 8.00 36.41 1.94
465 466 9.505995 GCTGTTCATGAATTTCAAAACAAAAAT 57.494 25.926 21.37 0.00 36.41 1.82
468 469 9.157259 GTTCATGAATTTCAAAACAAAAATCCG 57.843 29.630 12.12 0.00 30.89 4.18
469 470 7.351223 TCATGAATTTCAAAACAAAAATCCGC 58.649 30.769 2.68 0.00 0.00 5.54
470 471 6.917217 TGAATTTCAAAACAAAAATCCGCT 57.083 29.167 0.00 0.00 0.00 5.52
471 472 6.713520 TGAATTTCAAAACAAAAATCCGCTG 58.286 32.000 0.00 0.00 0.00 5.18
474 475 6.487689 TTTCAAAACAAAAATCCGCTGTTT 57.512 29.167 0.00 0.00 43.33 2.83
475 476 5.462034 TCAAAACAAAAATCCGCTGTTTG 57.538 34.783 0.57 0.00 41.25 2.93
478 479 6.314896 TCAAAACAAAAATCCGCTGTTTGATT 59.685 30.769 6.02 0.00 41.25 2.57
479 480 6.676237 AAACAAAAATCCGCTGTTTGATTT 57.324 29.167 6.02 0.00 40.74 2.17
620 623 7.748691 AAATGTTCCCAAAATTCAGGAATTG 57.251 32.000 7.94 0.00 41.53 2.32
647 650 9.861138 TTCATGAATTTAAAAATTGTTCTTGCG 57.139 25.926 3.38 0.00 38.64 4.85
648 651 9.039870 TCATGAATTTAAAAATTGTTCTTGCGT 57.960 25.926 5.44 0.00 38.64 5.24
651 654 9.695884 TGAATTTAAAAATTGTTCTTGCGTTTC 57.304 25.926 5.44 0.00 38.64 2.78
652 655 9.914923 GAATTTAAAAATTGTTCTTGCGTTTCT 57.085 25.926 5.44 0.00 38.64 2.52
667 670 7.747357 TCTTGCGTTTCTTTTATTACCGATTTC 59.253 33.333 0.00 0.00 0.00 2.17
670 673 8.719648 TGCGTTTCTTTTATTACCGATTTCTTA 58.280 29.630 0.00 0.00 0.00 2.10
788 977 1.483004 AGGGAAAAACCAAAACCGGTG 59.517 47.619 8.52 0.00 39.95 4.94
807 996 0.817654 GCTGGTAAACCCTGAATGGC 59.182 55.000 0.00 0.00 34.15 4.40
811 1001 1.379309 TAAACCCTGAATGGCCGGC 60.379 57.895 21.18 21.18 0.00 6.13
821 1011 0.178068 AATGGCCGGCCTATATAGCG 59.822 55.000 43.34 3.76 36.94 4.26
828 1018 0.744771 GGCCTATATAGCGCAAGGGC 60.745 60.000 11.47 16.05 45.93 5.19
847 1037 2.743195 GCTCACGCGTTTCATCTCT 58.257 52.632 10.22 0.00 0.00 3.10
848 1038 0.642800 GCTCACGCGTTTCATCTCTC 59.357 55.000 10.22 0.00 0.00 3.20
849 1039 1.734047 GCTCACGCGTTTCATCTCTCT 60.734 52.381 10.22 0.00 0.00 3.10
850 1040 2.600731 CTCACGCGTTTCATCTCTCTT 58.399 47.619 10.22 0.00 0.00 2.85
851 1041 2.596419 CTCACGCGTTTCATCTCTCTTC 59.404 50.000 10.22 0.00 0.00 2.87
852 1042 1.656095 CACGCGTTTCATCTCTCTTCC 59.344 52.381 10.22 0.00 0.00 3.46
853 1043 1.281899 CGCGTTTCATCTCTCTTCCC 58.718 55.000 0.00 0.00 0.00 3.97
854 1044 1.281899 GCGTTTCATCTCTCTTCCCG 58.718 55.000 0.00 0.00 0.00 5.14
855 1045 1.927895 CGTTTCATCTCTCTTCCCGG 58.072 55.000 0.00 0.00 0.00 5.73
856 1046 1.476891 CGTTTCATCTCTCTTCCCGGA 59.523 52.381 0.73 0.00 0.00 5.14
857 1047 2.094182 CGTTTCATCTCTCTTCCCGGAA 60.094 50.000 0.73 0.00 0.00 4.30
858 1048 3.526534 GTTTCATCTCTCTTCCCGGAAG 58.473 50.000 19.80 19.80 40.65 3.46
874 1064 1.544759 GGAAGGCCGGAACTCTCAAAA 60.545 52.381 5.05 0.00 0.00 2.44
1066 1259 0.743345 CGATTCGGACCCTCCAAACC 60.743 60.000 0.00 0.00 35.91 3.27
1067 1260 0.618981 GATTCGGACCCTCCAAACCT 59.381 55.000 0.00 0.00 35.91 3.50
1115 1308 1.871080 CTTCTGTTTCGGTGACAGCT 58.129 50.000 2.72 0.00 43.23 4.24
1116 1309 2.866460 GCTTCTGTTTCGGTGACAGCTA 60.866 50.000 2.72 0.00 43.23 3.32
1117 1310 3.390135 CTTCTGTTTCGGTGACAGCTAA 58.610 45.455 2.72 0.00 43.23 3.09
1118 1311 3.462483 TCTGTTTCGGTGACAGCTAAA 57.538 42.857 2.72 1.59 43.23 1.85
1119 1312 3.390135 TCTGTTTCGGTGACAGCTAAAG 58.610 45.455 4.73 0.00 43.23 1.85
1120 1313 3.069016 TCTGTTTCGGTGACAGCTAAAGA 59.931 43.478 4.73 3.43 43.23 2.52
1121 1314 3.997021 CTGTTTCGGTGACAGCTAAAGAT 59.003 43.478 4.73 0.00 38.20 2.40
1122 1315 5.047590 TCTGTTTCGGTGACAGCTAAAGATA 60.048 40.000 4.73 0.00 43.23 1.98
1123 1316 4.927425 TGTTTCGGTGACAGCTAAAGATAC 59.073 41.667 4.73 0.64 0.00 2.24
1124 1317 4.794278 TTCGGTGACAGCTAAAGATACA 57.206 40.909 2.72 0.00 0.00 2.29
1125 1318 4.371855 TCGGTGACAGCTAAAGATACAG 57.628 45.455 2.72 0.00 0.00 2.74
1126 1319 4.014406 TCGGTGACAGCTAAAGATACAGA 58.986 43.478 2.72 0.00 0.00 3.41
1127 1320 4.461431 TCGGTGACAGCTAAAGATACAGAA 59.539 41.667 2.72 0.00 0.00 3.02
1128 1321 4.563184 CGGTGACAGCTAAAGATACAGAAC 59.437 45.833 2.72 0.00 0.00 3.01
1129 1322 5.622460 CGGTGACAGCTAAAGATACAGAACT 60.622 44.000 2.72 0.00 0.00 3.01
1130 1323 5.808030 GGTGACAGCTAAAGATACAGAACTC 59.192 44.000 0.00 0.00 0.00 3.01
1131 1324 6.350612 GGTGACAGCTAAAGATACAGAACTCT 60.351 42.308 0.00 0.00 0.00 3.24
1132 1325 7.148052 GGTGACAGCTAAAGATACAGAACTCTA 60.148 40.741 0.00 0.00 0.00 2.43
1133 1326 8.244802 GTGACAGCTAAAGATACAGAACTCTAA 58.755 37.037 0.00 0.00 0.00 2.10
1134 1327 8.462811 TGACAGCTAAAGATACAGAACTCTAAG 58.537 37.037 0.00 0.00 0.00 2.18
1135 1328 7.262048 ACAGCTAAAGATACAGAACTCTAAGC 58.738 38.462 0.00 0.00 33.80 3.09
1146 1339 5.709164 ACAGAACTCTAAGCCTAAACGAGTA 59.291 40.000 0.00 0.00 34.13 2.59
1159 1352 2.280457 GAGTATCCAGGCCGCAGC 60.280 66.667 0.00 0.00 38.76 5.25
1161 1354 2.190578 GTATCCAGGCCGCAGCTT 59.809 61.111 0.00 0.00 39.73 3.74
1211 1404 2.459934 CAAACTCGTGCCCAGTTTTTC 58.540 47.619 2.81 0.00 41.25 2.29
1239 1433 4.632538 TGCAGCATGAATTGAATCTCAG 57.367 40.909 0.00 0.00 39.69 3.35
1257 1451 0.751643 AGGTGTCCGCAGCAGTTTTT 60.752 50.000 0.00 0.00 44.89 1.94
1281 1475 2.033448 TGAACCGATGGTGTGGCC 59.967 61.111 0.00 0.00 35.34 5.36
1329 1617 2.766313 TCCAAGACGTCACAATTGGAG 58.234 47.619 25.12 8.41 44.75 3.86
1352 1640 4.095410 TCTGAACATGCTAATTTTGGCG 57.905 40.909 0.00 0.00 37.49 5.69
1353 1641 3.119531 TCTGAACATGCTAATTTTGGCGG 60.120 43.478 0.00 0.00 37.49 6.13
1354 1642 1.926510 GAACATGCTAATTTTGGCGGC 59.073 47.619 0.00 0.00 37.49 6.53
1355 1643 0.894141 ACATGCTAATTTTGGCGGCA 59.106 45.000 7.97 7.97 37.49 5.69
1356 1644 1.481772 ACATGCTAATTTTGGCGGCAT 59.518 42.857 14.32 0.00 43.19 4.40
1357 1645 2.093553 ACATGCTAATTTTGGCGGCATT 60.094 40.909 14.32 7.06 40.93 3.56
1358 1646 3.131933 ACATGCTAATTTTGGCGGCATTA 59.868 39.130 14.32 7.96 40.93 1.90
1359 1647 3.157932 TGCTAATTTTGGCGGCATTAC 57.842 42.857 14.32 4.76 37.49 1.89
1360 1648 2.493675 TGCTAATTTTGGCGGCATTACA 59.506 40.909 14.32 7.16 37.49 2.41
1361 1649 3.115554 GCTAATTTTGGCGGCATTACAG 58.884 45.455 14.32 8.06 0.00 2.74
1362 1650 2.671130 AATTTTGGCGGCATTACAGG 57.329 45.000 14.32 0.00 0.00 4.00
1363 1651 1.846007 ATTTTGGCGGCATTACAGGA 58.154 45.000 14.32 0.00 0.00 3.86
1364 1652 1.846007 TTTTGGCGGCATTACAGGAT 58.154 45.000 14.32 0.00 0.00 3.24
1365 1653 1.102154 TTTGGCGGCATTACAGGATG 58.898 50.000 14.32 0.00 46.00 3.51
1366 1654 0.751277 TTGGCGGCATTACAGGATGG 60.751 55.000 14.32 0.00 43.62 3.51
1367 1655 1.148273 GGCGGCATTACAGGATGGA 59.852 57.895 3.07 0.00 43.62 3.41
1369 1657 0.663153 GCGGCATTACAGGATGGAAC 59.337 55.000 0.00 0.00 45.30 3.62
1370 1658 2.016604 GCGGCATTACAGGATGGAACA 61.017 52.381 0.00 0.00 45.30 3.18
1371 1659 2.364632 CGGCATTACAGGATGGAACAA 58.635 47.619 0.00 0.00 45.30 2.83
1372 1660 2.752354 CGGCATTACAGGATGGAACAAA 59.248 45.455 0.00 0.00 45.30 2.83
1373 1661 3.427503 CGGCATTACAGGATGGAACAAAC 60.428 47.826 0.00 0.00 45.30 2.93
1374 1662 3.509575 GGCATTACAGGATGGAACAAACA 59.490 43.478 0.00 0.00 45.30 2.83
1375 1663 4.380867 GGCATTACAGGATGGAACAAACAG 60.381 45.833 0.00 0.00 45.30 3.16
1376 1664 4.458989 GCATTACAGGATGGAACAAACAGA 59.541 41.667 0.00 0.00 45.30 3.41
1377 1665 5.392380 GCATTACAGGATGGAACAAACAGAG 60.392 44.000 0.00 0.00 45.30 3.35
1378 1666 4.702131 ATTACAGGATGGAACAAACAGAGC 59.298 41.667 0.00 0.00 45.30 4.09
1379 1667 5.748734 ATTACAGGATGGAACAAACAGAGCA 60.749 40.000 0.00 0.00 45.30 4.26
1380 1668 7.196532 ATTACAGGATGGAACAAACAGAGCAA 61.197 38.462 0.00 0.00 45.30 3.91
1381 1669 9.130505 ATTACAGGATGGAACAAACAGAGCAAC 62.131 40.741 0.00 0.00 45.30 4.17
1386 1674 5.906113 TGGAACAAACAGAGCAACTTTAA 57.094 34.783 0.00 0.00 31.92 1.52
1387 1675 6.463995 TGGAACAAACAGAGCAACTTTAAT 57.536 33.333 0.00 0.00 31.92 1.40
1388 1676 6.503524 TGGAACAAACAGAGCAACTTTAATC 58.496 36.000 0.00 0.00 31.92 1.75
1389 1677 5.920840 GGAACAAACAGAGCAACTTTAATCC 59.079 40.000 0.00 0.00 0.00 3.01
1390 1678 5.108385 ACAAACAGAGCAACTTTAATCCG 57.892 39.130 0.00 0.00 0.00 4.18
1391 1679 4.578928 ACAAACAGAGCAACTTTAATCCGT 59.421 37.500 0.00 0.00 0.00 4.69
1392 1680 5.067283 ACAAACAGAGCAACTTTAATCCGTT 59.933 36.000 0.00 0.00 0.00 4.44
1393 1681 5.358298 AACAGAGCAACTTTAATCCGTTC 57.642 39.130 0.00 0.00 0.00 3.95
1394 1682 4.385825 ACAGAGCAACTTTAATCCGTTCA 58.614 39.130 0.00 0.00 0.00 3.18
1395 1683 4.213482 ACAGAGCAACTTTAATCCGTTCAC 59.787 41.667 0.00 0.00 0.00 3.18
1396 1684 3.432252 AGAGCAACTTTAATCCGTTCACG 59.568 43.478 0.00 0.00 39.44 4.35
1402 1690 3.739300 ACTTTAATCCGTTCACGACACTG 59.261 43.478 0.00 0.00 43.02 3.66
1404 1692 0.249699 AATCCGTTCACGACACTGCA 60.250 50.000 0.00 0.00 43.02 4.41
1417 1705 5.343058 CACGACACTGCAATTGGAATTTTAG 59.657 40.000 7.72 0.00 0.00 1.85
1426 1714 7.609960 TGCAATTGGAATTTTAGACAATGCTA 58.390 30.769 7.72 0.00 34.12 3.49
1432 1720 8.402798 TGGAATTTTAGACAATGCTAGTTTCA 57.597 30.769 0.00 0.00 0.00 2.69
1475 1763 3.188159 AGAGGTCTCTACTCTAGCACG 57.812 52.381 0.00 0.00 43.18 5.34
1483 1771 4.094590 TCTCTACTCTAGCACGCTTTGTAC 59.905 45.833 0.00 0.00 0.00 2.90
1484 1772 4.008330 TCTACTCTAGCACGCTTTGTACT 58.992 43.478 0.00 0.00 0.00 2.73
1485 1773 5.181009 TCTACTCTAGCACGCTTTGTACTA 58.819 41.667 0.00 0.00 0.00 1.82
1589 1877 5.221204 GGACCTAGTAAATTCTGTACCGAGG 60.221 48.000 0.00 0.00 33.89 4.63
1604 1892 0.721718 CGAGGACTCGCCAATTTGAC 59.278 55.000 8.93 0.00 46.50 3.18
1618 1906 0.179234 TTTGACGGCACACCTTCAGA 59.821 50.000 0.00 0.00 44.35 3.27
1619 1907 0.179234 TTGACGGCACACCTTCAGAA 59.821 50.000 0.00 0.00 44.35 3.02
1666 1954 4.978580 GTGCTTTCTTCAAATTCTGTCACC 59.021 41.667 0.00 0.00 0.00 4.02
1973 2271 3.565482 CAGGAGTGAAAAACTTAGCAGCA 59.435 43.478 0.00 0.00 40.07 4.41
2069 2460 6.120905 AGAAGCAGCATGTCAGATAAAAGAT 58.879 36.000 0.00 0.00 39.31 2.40
2158 2555 5.627499 TTATGATGTGTCCTGCTTTGTTC 57.373 39.130 0.00 0.00 0.00 3.18
2440 2837 5.221185 GCAACGTCTTGTCTAGGGTATGATA 60.221 44.000 0.00 0.00 0.00 2.15
2453 2850 6.959606 AGGGTATGATATGCTTCCACTAAT 57.040 37.500 0.00 0.00 0.00 1.73
2817 3215 3.618690 ACTGGAGTATTGACAGAAGGC 57.381 47.619 0.00 0.00 36.17 4.35
3181 3581 1.808411 AACGAGTATGGTGCTTGTGG 58.192 50.000 0.00 0.00 31.46 4.17
3372 3777 6.880484 TCCGTTGTATACATGTACTTTGGAT 58.120 36.000 7.96 0.00 0.00 3.41
3492 3900 5.509840 GGCTGTATACTATTGACAGTGAGGG 60.510 48.000 4.17 0.00 42.14 4.30
3495 3903 7.290110 TGTATACTATTGACAGTGAGGGATG 57.710 40.000 4.17 0.00 0.00 3.51
3729 5721 7.689299 ACTGCTTATATCATTGCCATAGGTAA 58.311 34.615 0.00 0.00 0.00 2.85
3948 5940 3.658725 AGAGCCCATACTATTGGAGTGT 58.341 45.455 0.00 0.00 39.39 3.55
4435 6430 2.936202 TCAAGGCTCTTCACTTTTGCT 58.064 42.857 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 9.563748 AGGAACATTTTTCAAATTCATGAACAT 57.436 25.926 11.07 0.00 38.95 2.71
54 55 8.828644 CAGGAACATTTTTCAAATTCATGAACA 58.171 29.630 11.07 0.00 38.95 3.18
55 56 9.044150 TCAGGAACATTTTTCAAATTCATGAAC 57.956 29.630 11.07 0.00 37.21 3.18
56 57 9.610705 TTCAGGAACATTTTTCAAATTCATGAA 57.389 25.926 11.26 11.26 43.68 2.57
57 58 9.781633 ATTCAGGAACATTTTTCAAATTCATGA 57.218 25.926 0.00 0.00 38.06 3.07
130 131 7.490725 TCAGAGCATTTTTCAAATTCACGAAAA 59.509 29.630 0.00 6.38 38.88 2.29
131 132 6.977502 TCAGAGCATTTTTCAAATTCACGAAA 59.022 30.769 0.00 0.00 0.00 3.46
132 133 6.502652 TCAGAGCATTTTTCAAATTCACGAA 58.497 32.000 0.00 0.00 0.00 3.85
133 134 6.070897 TCAGAGCATTTTTCAAATTCACGA 57.929 33.333 0.00 0.00 0.00 4.35
134 135 6.939551 ATCAGAGCATTTTTCAAATTCACG 57.060 33.333 0.00 0.00 0.00 4.35
135 136 9.590088 GAAAATCAGAGCATTTTTCAAATTCAC 57.410 29.630 3.13 0.00 38.57 3.18
136 137 9.327628 TGAAAATCAGAGCATTTTTCAAATTCA 57.672 25.926 7.05 0.00 42.94 2.57
142 143 8.945481 TCTTTTGAAAATCAGAGCATTTTTCA 57.055 26.923 5.80 5.80 43.71 2.69
149 150 9.797556 CATTGATATCTTTTGAAAATCAGAGCA 57.202 29.630 3.98 0.00 36.73 4.26
150 151 9.798994 ACATTGATATCTTTTGAAAATCAGAGC 57.201 29.630 3.98 0.00 36.73 4.09
251 252 9.807386 GAAAATCAGAGCATTTTTCAAATTCAG 57.193 29.630 3.13 0.00 38.57 3.02
285 286 9.695526 TCGAGAACATTTTTCAAAATCATGAAT 57.304 25.926 0.00 0.00 38.98 2.57
286 287 9.526713 TTCGAGAACATTTTTCAAAATCATGAA 57.473 25.926 0.00 0.00 36.52 2.57
287 288 9.695526 ATTCGAGAACATTTTTCAAAATCATGA 57.304 25.926 0.00 0.00 36.52 3.07
334 335 7.966246 TTTTGGATTCATGAACATTTTCCTG 57.034 32.000 20.45 0.00 0.00 3.86
379 380 9.919348 CTGAACATTTTTCGAATTTTCAACATT 57.081 25.926 0.00 0.00 29.30 2.71
420 421 8.447053 TGAACAGCTTTTTGTTAATTTGGAAAC 58.553 29.630 0.00 0.00 41.15 2.78
422 423 8.610896 CATGAACAGCTTTTTGTTAATTTGGAA 58.389 29.630 0.00 0.00 41.15 3.53
423 424 7.984050 TCATGAACAGCTTTTTGTTAATTTGGA 59.016 29.630 0.00 0.00 41.15 3.53
433 434 9.002080 GTTTTGAAATTCATGAACAGCTTTTTG 57.998 29.630 11.07 0.00 0.00 2.44
434 435 8.728833 TGTTTTGAAATTCATGAACAGCTTTTT 58.271 25.926 11.07 6.23 31.98 1.94
435 436 8.266392 TGTTTTGAAATTCATGAACAGCTTTT 57.734 26.923 11.07 6.98 31.98 2.27
436 437 7.846644 TGTTTTGAAATTCATGAACAGCTTT 57.153 28.000 11.07 7.38 31.98 3.51
439 440 8.892887 TTTTTGTTTTGAAATTCATGAACAGC 57.107 26.923 11.07 3.38 35.62 4.40
447 448 6.314896 ACAGCGGATTTTTGTTTTGAAATTCA 59.685 30.769 0.00 0.00 0.00 2.57
448 449 6.714492 ACAGCGGATTTTTGTTTTGAAATTC 58.286 32.000 0.00 0.00 0.00 2.17
454 455 5.462034 TCAAACAGCGGATTTTTGTTTTG 57.538 34.783 4.98 0.00 41.60 2.44
593 596 9.859152 AATTCCTGAATTTTGGGAACATTTTTA 57.141 25.926 9.01 0.00 41.18 1.52
598 601 6.438186 ACAATTCCTGAATTTTGGGAACAT 57.562 33.333 2.42 1.76 41.18 2.71
604 607 7.966246 TTCATGAACAATTCCTGAATTTTGG 57.034 32.000 3.38 0.00 38.71 3.28
639 642 6.365050 TCGGTAATAAAAGAAACGCAAGAAC 58.635 36.000 0.00 0.00 43.62 3.01
640 643 6.542574 TCGGTAATAAAAGAAACGCAAGAA 57.457 33.333 0.00 0.00 43.62 2.52
643 646 7.586747 AGAAATCGGTAATAAAAGAAACGCAA 58.413 30.769 0.00 0.00 0.00 4.85
645 648 9.545611 TTAAGAAATCGGTAATAAAAGAAACGC 57.454 29.630 0.00 0.00 0.00 4.84
759 762 7.119407 CGGTTTTGGTTTTTCCCTTTCTTTTTA 59.881 33.333 0.00 0.00 34.77 1.52
788 977 0.817654 GCCATTCAGGGTTTACCAGC 59.182 55.000 0.69 0.00 43.89 4.85
807 996 0.460284 CCTTGCGCTATATAGGCCGG 60.460 60.000 9.73 0.00 0.00 6.13
830 1020 2.270275 AGAGAGATGAAACGCGTGAG 57.730 50.000 14.98 0.00 0.00 3.51
831 1021 2.596452 GAAGAGAGATGAAACGCGTGA 58.404 47.619 14.98 0.00 0.00 4.35
832 1022 1.656095 GGAAGAGAGATGAAACGCGTG 59.344 52.381 14.98 0.00 0.00 5.34
833 1023 1.404315 GGGAAGAGAGATGAAACGCGT 60.404 52.381 5.58 5.58 0.00 6.01
834 1024 1.281899 GGGAAGAGAGATGAAACGCG 58.718 55.000 3.53 3.53 0.00 6.01
835 1025 1.281899 CGGGAAGAGAGATGAAACGC 58.718 55.000 0.00 0.00 0.00 4.84
836 1026 1.476891 TCCGGGAAGAGAGATGAAACG 59.523 52.381 0.00 0.00 0.00 3.60
837 1027 3.526534 CTTCCGGGAAGAGAGATGAAAC 58.473 50.000 28.97 0.00 41.71 2.78
838 1028 2.501723 CCTTCCGGGAAGAGAGATGAAA 59.498 50.000 33.18 0.00 41.71 2.69
839 1029 2.111384 CCTTCCGGGAAGAGAGATGAA 58.889 52.381 33.18 0.00 41.71 2.57
840 1030 1.781786 CCTTCCGGGAAGAGAGATGA 58.218 55.000 33.18 0.00 41.71 2.92
841 1031 0.105778 GCCTTCCGGGAAGAGAGATG 59.894 60.000 33.18 18.45 41.71 2.90
842 1032 1.051556 GGCCTTCCGGGAAGAGAGAT 61.052 60.000 33.18 0.00 41.71 2.75
843 1033 1.686110 GGCCTTCCGGGAAGAGAGA 60.686 63.158 33.18 0.75 41.71 3.10
844 1034 2.904131 GGCCTTCCGGGAAGAGAG 59.096 66.667 33.18 19.74 41.71 3.20
854 1044 0.036306 TTTGAGAGTTCCGGCCTTCC 59.964 55.000 0.00 0.00 0.00 3.46
855 1045 1.807142 CTTTTGAGAGTTCCGGCCTTC 59.193 52.381 0.00 0.00 0.00 3.46
856 1046 1.420138 TCTTTTGAGAGTTCCGGCCTT 59.580 47.619 0.00 0.00 0.00 4.35
857 1047 1.056660 TCTTTTGAGAGTTCCGGCCT 58.943 50.000 0.00 0.00 0.00 5.19
858 1048 1.892209 TTCTTTTGAGAGTTCCGGCC 58.108 50.000 0.00 0.00 0.00 6.13
859 1049 3.982576 TTTTCTTTTGAGAGTTCCGGC 57.017 42.857 0.00 0.00 0.00 6.13
885 1075 1.304547 CCGCCGGGGATAGAGATCT 60.305 63.158 21.95 0.00 38.47 2.75
886 1076 0.323178 TACCGCCGGGGATAGAGATC 60.323 60.000 21.95 0.00 39.97 2.75
887 1077 0.611340 GTACCGCCGGGGATAGAGAT 60.611 60.000 21.95 0.00 39.97 2.75
888 1078 1.228367 GTACCGCCGGGGATAGAGA 60.228 63.158 21.95 0.00 39.97 3.10
889 1079 2.623915 CGTACCGCCGGGGATAGAG 61.624 68.421 21.95 5.01 39.97 2.43
890 1080 2.595463 CGTACCGCCGGGGATAGA 60.595 66.667 21.95 0.00 39.97 1.98
939 1132 3.535962 GCGGGCTCAGGAGAGGAG 61.536 72.222 0.00 0.00 42.33 3.69
993 1186 4.835927 GACGCGTCCATGGAGATT 57.164 55.556 28.61 0.00 0.00 2.40
1066 1259 4.715527 GTACAAGTAGTACCTGTCCCAG 57.284 50.000 7.83 0.00 45.94 4.45
1076 1269 3.170717 AGCAAGGCCAGTACAAGTAGTA 58.829 45.455 5.01 0.00 0.00 1.82
1077 1270 1.978580 AGCAAGGCCAGTACAAGTAGT 59.021 47.619 5.01 0.00 0.00 2.73
1078 1271 2.770164 AGCAAGGCCAGTACAAGTAG 57.230 50.000 5.01 0.00 0.00 2.57
1116 1309 7.760340 CGTTTAGGCTTAGAGTTCTGTATCTTT 59.240 37.037 0.00 0.00 0.00 2.52
1117 1310 7.122353 TCGTTTAGGCTTAGAGTTCTGTATCTT 59.878 37.037 0.00 0.00 0.00 2.40
1118 1311 6.602406 TCGTTTAGGCTTAGAGTTCTGTATCT 59.398 38.462 0.00 0.00 0.00 1.98
1119 1312 6.793349 TCGTTTAGGCTTAGAGTTCTGTATC 58.207 40.000 0.00 0.00 0.00 2.24
1120 1313 6.377712 ACTCGTTTAGGCTTAGAGTTCTGTAT 59.622 38.462 0.00 0.00 38.86 2.29
1121 1314 5.709164 ACTCGTTTAGGCTTAGAGTTCTGTA 59.291 40.000 0.00 0.00 38.86 2.74
1122 1315 4.523558 ACTCGTTTAGGCTTAGAGTTCTGT 59.476 41.667 0.00 0.00 38.86 3.41
1123 1316 5.061920 ACTCGTTTAGGCTTAGAGTTCTG 57.938 43.478 0.00 0.00 38.86 3.02
1124 1317 6.039605 GGATACTCGTTTAGGCTTAGAGTTCT 59.960 42.308 15.32 7.20 41.68 3.01
1125 1318 6.183360 TGGATACTCGTTTAGGCTTAGAGTTC 60.183 42.308 15.32 12.68 41.68 3.01
1126 1319 5.655532 TGGATACTCGTTTAGGCTTAGAGTT 59.344 40.000 15.32 7.16 41.68 3.01
1127 1320 5.198965 TGGATACTCGTTTAGGCTTAGAGT 58.801 41.667 14.77 14.77 43.58 3.24
1128 1321 5.278561 CCTGGATACTCGTTTAGGCTTAGAG 60.279 48.000 0.00 0.00 37.61 2.43
1129 1322 4.583489 CCTGGATACTCGTTTAGGCTTAGA 59.417 45.833 0.00 0.00 37.61 2.10
1130 1323 4.796618 GCCTGGATACTCGTTTAGGCTTAG 60.797 50.000 0.00 0.00 45.44 2.18
1131 1324 3.069158 GCCTGGATACTCGTTTAGGCTTA 59.931 47.826 0.00 0.00 45.44 3.09
1132 1325 2.158943 GCCTGGATACTCGTTTAGGCTT 60.159 50.000 0.00 0.00 45.44 4.35
1133 1326 1.413077 GCCTGGATACTCGTTTAGGCT 59.587 52.381 0.00 0.00 45.44 4.58
1134 1327 1.867166 GCCTGGATACTCGTTTAGGC 58.133 55.000 0.00 0.00 43.20 3.93
1135 1328 1.269621 CGGCCTGGATACTCGTTTAGG 60.270 57.143 0.00 0.00 37.61 2.69
1146 1339 1.072159 GATAAGCTGCGGCCTGGAT 59.928 57.895 15.55 1.99 39.73 3.41
1159 1352 3.241678 GCGTAGACAAAGCACGTGATAAG 60.242 47.826 22.23 11.92 37.95 1.73
1161 1354 2.256174 GCGTAGACAAAGCACGTGATA 58.744 47.619 22.23 0.00 37.95 2.15
1211 1404 2.159352 TCAATTCATGCTGCATTGGACG 60.159 45.455 13.38 1.18 32.99 4.79
1230 1424 0.247460 CTGCGGACACCTGAGATTCA 59.753 55.000 0.00 0.00 0.00 2.57
1231 1425 1.086634 GCTGCGGACACCTGAGATTC 61.087 60.000 0.00 0.00 0.00 2.52
1232 1426 1.078848 GCTGCGGACACCTGAGATT 60.079 57.895 0.00 0.00 0.00 2.40
1233 1427 2.236223 CTGCTGCGGACACCTGAGAT 62.236 60.000 1.17 0.00 0.00 2.75
1234 1428 2.917227 TGCTGCGGACACCTGAGA 60.917 61.111 0.00 0.00 0.00 3.27
1239 1433 0.948678 TAAAAACTGCTGCGGACACC 59.051 50.000 16.72 0.00 0.00 4.16
1281 1475 6.641176 TTTGCTATATTAGTGACACGTGTG 57.359 37.500 28.82 8.51 0.00 3.82
1329 1617 4.324402 CGCCAAAATTAGCATGTTCAGAAC 59.676 41.667 6.32 6.32 0.00 3.01
1352 1640 3.509575 TGTTTGTTCCATCCTGTAATGCC 59.490 43.478 0.00 0.00 0.00 4.40
1353 1641 4.458989 TCTGTTTGTTCCATCCTGTAATGC 59.541 41.667 0.00 0.00 0.00 3.56
1354 1642 5.392380 GCTCTGTTTGTTCCATCCTGTAATG 60.392 44.000 0.00 0.00 0.00 1.90
1355 1643 4.702131 GCTCTGTTTGTTCCATCCTGTAAT 59.298 41.667 0.00 0.00 0.00 1.89
1356 1644 4.072131 GCTCTGTTTGTTCCATCCTGTAA 58.928 43.478 0.00 0.00 0.00 2.41
1357 1645 3.072330 TGCTCTGTTTGTTCCATCCTGTA 59.928 43.478 0.00 0.00 0.00 2.74
1358 1646 2.158623 TGCTCTGTTTGTTCCATCCTGT 60.159 45.455 0.00 0.00 0.00 4.00
1359 1647 2.507484 TGCTCTGTTTGTTCCATCCTG 58.493 47.619 0.00 0.00 0.00 3.86
1360 1648 2.887152 GTTGCTCTGTTTGTTCCATCCT 59.113 45.455 0.00 0.00 0.00 3.24
1361 1649 2.887152 AGTTGCTCTGTTTGTTCCATCC 59.113 45.455 0.00 0.00 0.00 3.51
1362 1650 4.574599 AAGTTGCTCTGTTTGTTCCATC 57.425 40.909 0.00 0.00 0.00 3.51
1363 1651 6.463995 TTAAAGTTGCTCTGTTTGTTCCAT 57.536 33.333 0.00 0.00 0.00 3.41
1364 1652 5.906113 TTAAAGTTGCTCTGTTTGTTCCA 57.094 34.783 0.00 0.00 0.00 3.53
1365 1653 5.920840 GGATTAAAGTTGCTCTGTTTGTTCC 59.079 40.000 0.00 0.00 0.00 3.62
1366 1654 5.625311 CGGATTAAAGTTGCTCTGTTTGTTC 59.375 40.000 0.00 0.00 0.00 3.18
1367 1655 5.067283 ACGGATTAAAGTTGCTCTGTTTGTT 59.933 36.000 0.00 0.00 0.00 2.83
1368 1656 4.578928 ACGGATTAAAGTTGCTCTGTTTGT 59.421 37.500 0.00 0.00 0.00 2.83
1369 1657 5.108385 ACGGATTAAAGTTGCTCTGTTTG 57.892 39.130 0.00 0.00 0.00 2.93
1370 1658 5.298276 TGAACGGATTAAAGTTGCTCTGTTT 59.702 36.000 7.73 0.00 37.35 2.83
1371 1659 4.819630 TGAACGGATTAAAGTTGCTCTGTT 59.180 37.500 6.53 6.53 39.33 3.16
1372 1660 4.213482 GTGAACGGATTAAAGTTGCTCTGT 59.787 41.667 0.00 0.00 0.00 3.41
1373 1661 4.666655 CGTGAACGGATTAAAGTTGCTCTG 60.667 45.833 0.00 0.00 35.37 3.35
1374 1662 3.432252 CGTGAACGGATTAAAGTTGCTCT 59.568 43.478 0.00 0.00 35.37 4.09
1375 1663 3.430895 TCGTGAACGGATTAAAGTTGCTC 59.569 43.478 2.59 0.00 40.29 4.26
1376 1664 3.185797 GTCGTGAACGGATTAAAGTTGCT 59.814 43.478 2.59 0.00 40.29 3.91
1377 1665 3.059461 TGTCGTGAACGGATTAAAGTTGC 60.059 43.478 2.59 0.00 40.29 4.17
1378 1666 4.210537 AGTGTCGTGAACGGATTAAAGTTG 59.789 41.667 2.59 0.00 40.29 3.16
1379 1667 4.210537 CAGTGTCGTGAACGGATTAAAGTT 59.789 41.667 2.59 0.00 40.29 2.66
1380 1668 3.739300 CAGTGTCGTGAACGGATTAAAGT 59.261 43.478 2.59 0.00 40.29 2.66
1381 1669 3.423123 GCAGTGTCGTGAACGGATTAAAG 60.423 47.826 2.59 0.00 40.29 1.85
1382 1670 2.477375 GCAGTGTCGTGAACGGATTAAA 59.523 45.455 2.59 0.00 40.29 1.52
1383 1671 2.063266 GCAGTGTCGTGAACGGATTAA 58.937 47.619 2.59 0.00 40.29 1.40
1384 1672 1.000052 TGCAGTGTCGTGAACGGATTA 60.000 47.619 2.59 0.00 40.29 1.75
1385 1673 0.249699 TGCAGTGTCGTGAACGGATT 60.250 50.000 2.59 0.00 40.29 3.01
1386 1674 0.249699 TTGCAGTGTCGTGAACGGAT 60.250 50.000 2.59 0.00 40.29 4.18
1387 1675 0.249699 ATTGCAGTGTCGTGAACGGA 60.250 50.000 2.59 0.00 40.29 4.69
1388 1676 0.586319 AATTGCAGTGTCGTGAACGG 59.414 50.000 2.59 0.00 40.29 4.44
1389 1677 1.660052 CCAATTGCAGTGTCGTGAACG 60.660 52.381 0.00 0.00 41.45 3.95
1390 1678 1.601903 TCCAATTGCAGTGTCGTGAAC 59.398 47.619 0.00 0.00 0.00 3.18
1391 1679 1.960417 TCCAATTGCAGTGTCGTGAA 58.040 45.000 0.00 0.00 0.00 3.18
1392 1680 1.960417 TTCCAATTGCAGTGTCGTGA 58.040 45.000 0.00 0.00 0.00 4.35
1393 1681 2.995466 ATTCCAATTGCAGTGTCGTG 57.005 45.000 0.00 0.00 0.00 4.35
1394 1682 4.320608 AAAATTCCAATTGCAGTGTCGT 57.679 36.364 0.00 0.00 0.00 4.34
1395 1683 5.569059 GTCTAAAATTCCAATTGCAGTGTCG 59.431 40.000 0.00 0.00 0.00 4.35
1396 1684 6.446318 TGTCTAAAATTCCAATTGCAGTGTC 58.554 36.000 0.00 0.00 0.00 3.67
1402 1690 6.973229 AGCATTGTCTAAAATTCCAATTGC 57.027 33.333 0.00 0.00 0.00 3.56
1426 1714 8.408601 GTTCCATCATATAATGTTGCTGAAACT 58.591 33.333 0.00 0.00 39.70 2.66
1432 1720 6.992123 TCTTCGTTCCATCATATAATGTTGCT 59.008 34.615 0.00 0.00 0.00 3.91
1441 1729 5.144100 AGAGACCTCTTCGTTCCATCATAT 58.856 41.667 0.00 0.00 36.31 1.78
1444 1732 2.808919 AGAGACCTCTTCGTTCCATCA 58.191 47.619 0.00 0.00 36.31 3.07
1475 1763 7.917505 TCCGCTTAATAACTAGTAGTACAAAGC 59.082 37.037 19.61 19.61 31.87 3.51
1485 1773 9.880157 TTCAACTAAATCCGCTTAATAACTAGT 57.120 29.630 0.00 0.00 0.00 2.57
1526 1814 3.128764 GGCCAAAGCTAGCGAATTAAAGT 59.871 43.478 9.55 0.00 39.73 2.66
1604 1892 1.069022 CACATTTCTGAAGGTGTGCCG 60.069 52.381 18.53 3.63 41.35 5.69
1973 2271 9.429359 CTGTAACATCAACTTTAGAAGATCAGT 57.571 33.333 0.00 0.00 0.00 3.41
2069 2460 2.038952 CACTCCAATCACTGTTCTGGGA 59.961 50.000 1.04 0.00 0.00 4.37
2158 2555 8.578308 ACAATTGTCACACATTTAAATGTCTG 57.422 30.769 27.12 24.98 46.10 3.51
2217 2614 8.961634 TGTATATTATAGTCAGAGTGCATCTCC 58.038 37.037 11.24 0.00 43.71 3.71
2340 2737 5.772825 TTCCTTGGTGAGAAGAAATTGTG 57.227 39.130 0.00 0.00 0.00 3.33
3048 3448 4.743151 AGACATGGTACGCACATATTTACG 59.257 41.667 0.00 0.00 0.00 3.18
3181 3581 4.154918 CCAAAAGAGCTATGGAGAACACAC 59.845 45.833 2.02 0.00 36.27 3.82
3372 3777 0.671251 GTCAACACCAATTTCCGCCA 59.329 50.000 0.00 0.00 0.00 5.69
3492 3900 3.190874 GTCTCATTCTCACGGAACCATC 58.809 50.000 0.00 0.00 36.70 3.51
3495 3903 2.743636 TGTCTCATTCTCACGGAACC 57.256 50.000 0.00 0.00 36.70 3.62
3632 5624 3.879892 GCCACTCAAGAAAACTCTCACTT 59.120 43.478 0.00 0.00 0.00 3.16
3698 5690 7.263100 TGGCAATGATATAAGCAGTAAACAG 57.737 36.000 0.00 0.00 0.00 3.16
3729 5721 8.927675 TGGTTGTACACAGACCTATAAAATTT 57.072 30.769 14.73 0.00 34.52 1.82
3948 5940 5.363868 CCAAGTACCATGAAGTCTATCCTCA 59.636 44.000 0.00 0.00 0.00 3.86
4129 6122 3.324846 TCTTCATGTAGAGGCACAACAGT 59.675 43.478 0.00 0.00 30.84 3.55
4435 6430 4.582869 ACTGCAAGCTGAATCAGATAACA 58.417 39.130 15.38 8.69 37.60 2.41


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

AutoCloner maintained by Alex Coulton.