Multiple sequence alignment - TraesCS6A01G265600

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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 TraesCS6A01G265600 chr6A 100.000 3451 0 0 1 3451 490493065 490489615 0.000000e+00 6373
1 TraesCS6A01G265600 chr6D 93.734 2745 100 24 755 3451 352358705 352361425 0.000000e+00 4050
2 TraesCS6A01G265600 chr6D 95.062 324 16 0 1323 1646 448792798 448792475 8.540000e-141 510
3 TraesCS6A01G265600 chr6D 89.250 400 24 6 294 681 352358297 352358689 1.860000e-132 483
4 TraesCS6A01G265600 chr6B 93.586 2058 78 14 755 2771 526717416 526715372 0.000000e+00 3020
5 TraesCS6A01G265600 chr6B 89.600 625 24 19 2848 3451 526715361 526714757 0.000000e+00 756
6 TraesCS6A01G265600 chr6B 84.615 676 55 18 17 680 526718071 526717433 8.130000e-176 627


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 TraesCS6A01G265600 chr6A 490489615 490493065 3450 True 6373.000000 6373 100.000 1 3451 1 chr6A.!!$R1 3450
1 TraesCS6A01G265600 chr6D 352358297 352361425 3128 False 2266.500000 4050 91.492 294 3451 2 chr6D.!!$F1 3157
2 TraesCS6A01G265600 chr6B 526714757 526718071 3314 True 1467.666667 3020 89.267 17 3451 3 chr6B.!!$R1 3434

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
739 752 0.040958 CTGCTGCGTGTTGGAGAAAC 60.041 55.0 0.0 0.0 38.54 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2738 2792 0.164647 CACACTTCAACTAGCAGCGC 59.835 55.0 0.0 0.0 0.0 5.92 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 2.358898 GCCAGCGGATCAATGTGTATTT 59.641 45.455 0.00 0.00 0.00 1.40
42 43 3.548818 GCCAGCGGATCAATGTGTATTTC 60.549 47.826 0.00 0.00 0.00 2.17
53 54 6.781138 TCAATGTGTATTTCTGCCGATAAAC 58.219 36.000 0.00 0.00 0.00 2.01
64 65 1.334059 GCCGATAAACATGATGCACCG 60.334 52.381 0.00 0.00 0.00 4.94
73 74 1.028330 ATGATGCACCGTGGCTTGAG 61.028 55.000 0.00 0.00 34.04 3.02
79 80 2.265739 CCGTGGCTTGAGCTGCTA 59.734 61.111 0.15 0.00 41.70 3.49
85 86 2.097142 GTGGCTTGAGCTGCTAAGAATG 59.903 50.000 17.33 3.94 41.70 2.67
90 91 4.033817 GCTTGAGCTGCTAAGAATGTGTAG 59.966 45.833 17.33 0.00 38.21 2.74
94 95 5.409520 TGAGCTGCTAAGAATGTGTAGTTTG 59.590 40.000 0.15 0.00 0.00 2.93
97 98 6.934645 AGCTGCTAAGAATGTGTAGTTTGTTA 59.065 34.615 0.00 0.00 0.00 2.41
98 99 7.607991 AGCTGCTAAGAATGTGTAGTTTGTTAT 59.392 33.333 0.00 0.00 0.00 1.89
112 113 6.759497 AGTTTGTTATATGTTCTTCTGGGC 57.241 37.500 0.00 0.00 0.00 5.36
114 115 6.948309 AGTTTGTTATATGTTCTTCTGGGCTT 59.052 34.615 0.00 0.00 0.00 4.35
119 120 1.250328 TGTTCTTCTGGGCTTGCATG 58.750 50.000 0.00 0.00 0.00 4.06
124 125 1.588824 TTCTGGGCTTGCATGCTTCG 61.589 55.000 22.27 8.11 0.00 3.79
138 139 4.572389 GCATGCTTCGAAGAGGAAGAATTA 59.428 41.667 28.95 1.68 44.93 1.40
155 156 7.642586 GGAAGAATTATTCCGGTTTACATTTCG 59.357 37.037 15.72 0.00 39.47 3.46
166 167 8.298140 TCCGGTTTACATTTCGTTAATTTTGAT 58.702 29.630 0.00 0.00 0.00 2.57
179 180 6.018832 CGTTAATTTTGATCCATTTGGGCATC 60.019 38.462 0.00 0.00 36.21 3.91
180 181 3.523606 TTTTGATCCATTTGGGCATCG 57.476 42.857 0.00 0.00 36.21 3.84
181 182 2.433662 TTGATCCATTTGGGCATCGA 57.566 45.000 0.00 0.00 36.21 3.59
182 183 1.679139 TGATCCATTTGGGCATCGAC 58.321 50.000 0.00 0.00 36.21 4.20
183 184 1.212688 TGATCCATTTGGGCATCGACT 59.787 47.619 0.00 0.00 36.21 4.18
224 225 5.077134 AGTTCTTTATTCTGGCAAATGGC 57.923 39.130 0.00 0.00 43.74 4.40
240 241 6.324042 GCAAATGGCCTTTGGAATTATTTTG 58.676 36.000 21.58 8.27 43.73 2.44
244 245 6.043854 TGGCCTTTGGAATTATTTTGGTAC 57.956 37.500 3.32 0.00 0.00 3.34
245 246 5.782845 TGGCCTTTGGAATTATTTTGGTACT 59.217 36.000 3.32 0.00 0.00 2.73
246 247 6.954684 TGGCCTTTGGAATTATTTTGGTACTA 59.045 34.615 3.32 0.00 0.00 1.82
247 248 7.093684 TGGCCTTTGGAATTATTTTGGTACTAC 60.094 37.037 3.32 0.00 0.00 2.73
264 265 5.221661 GGTACTACATGGATCCGGATCTTTT 60.222 44.000 36.72 23.12 37.92 2.27
265 266 4.708177 ACTACATGGATCCGGATCTTTTG 58.292 43.478 36.72 30.67 37.92 2.44
266 267 2.301346 ACATGGATCCGGATCTTTTGC 58.699 47.619 36.72 23.34 37.92 3.68
267 268 2.300433 CATGGATCCGGATCTTTTGCA 58.700 47.619 36.72 27.45 37.92 4.08
268 269 2.734755 TGGATCCGGATCTTTTGCAT 57.265 45.000 36.72 6.24 37.92 3.96
269 270 3.017048 TGGATCCGGATCTTTTGCATT 57.983 42.857 36.72 5.42 37.92 3.56
270 271 2.689471 TGGATCCGGATCTTTTGCATTG 59.311 45.455 36.72 0.00 37.92 2.82
271 272 2.035066 GGATCCGGATCTTTTGCATTGG 59.965 50.000 36.72 0.00 37.92 3.16
272 273 2.214376 TCCGGATCTTTTGCATTGGT 57.786 45.000 0.00 0.00 0.00 3.67
273 274 1.818060 TCCGGATCTTTTGCATTGGTG 59.182 47.619 0.00 0.00 0.00 4.17
274 275 1.818060 CCGGATCTTTTGCATTGGTGA 59.182 47.619 0.00 0.00 0.00 4.02
275 276 2.428171 CCGGATCTTTTGCATTGGTGAT 59.572 45.455 0.00 0.00 0.00 3.06
276 277 3.489738 CCGGATCTTTTGCATTGGTGATC 60.490 47.826 0.00 0.00 0.00 2.92
277 278 3.699067 GGATCTTTTGCATTGGTGATCG 58.301 45.455 0.00 0.00 33.30 3.69
278 279 3.378112 GGATCTTTTGCATTGGTGATCGA 59.622 43.478 0.00 0.00 33.30 3.59
279 280 4.142403 GGATCTTTTGCATTGGTGATCGAA 60.142 41.667 0.00 0.00 33.30 3.71
280 281 4.159377 TCTTTTGCATTGGTGATCGAAC 57.841 40.909 0.00 0.00 0.00 3.95
281 282 3.057596 TCTTTTGCATTGGTGATCGAACC 60.058 43.478 0.00 0.00 40.94 3.62
288 289 2.869101 TGGTGATCGAACCATGGAAA 57.131 45.000 21.47 0.20 45.43 3.13
289 290 3.364460 TGGTGATCGAACCATGGAAAT 57.636 42.857 21.47 3.64 45.43 2.17
290 291 4.495690 TGGTGATCGAACCATGGAAATA 57.504 40.909 21.47 0.97 45.43 1.40
291 292 4.450976 TGGTGATCGAACCATGGAAATAG 58.549 43.478 21.47 4.77 45.43 1.73
292 293 4.080582 TGGTGATCGAACCATGGAAATAGT 60.081 41.667 21.47 0.00 45.43 2.12
355 356 6.677781 TGACCTACTTCAAACTTCAAAGTG 57.322 37.500 0.00 0.00 39.66 3.16
416 421 7.754924 ACCATTAGAAAATCGTGCAATTTGTAG 59.245 33.333 0.00 0.00 0.00 2.74
421 426 8.231304 AGAAAATCGTGCAATTTGTAGAATTG 57.769 30.769 7.03 7.03 39.84 2.32
468 473 4.202233 TGTTTCATGCTTCCATTTTGCTCA 60.202 37.500 0.00 0.00 0.00 4.26
469 474 3.861276 TCATGCTTCCATTTTGCTCAG 57.139 42.857 0.00 0.00 0.00 3.35
485 490 7.496529 TTTGCTCAGATATATGCCTGTTTAC 57.503 36.000 0.00 0.00 0.00 2.01
511 516 7.550712 TCCATACTATCATATGCTCACATGAC 58.449 38.462 0.00 0.00 37.04 3.06
514 519 5.545588 ACTATCATATGCTCACATGACCAC 58.454 41.667 0.00 0.00 37.04 4.16
538 551 9.301153 CACTAAACAGAGTGCATTTTAAAACTT 57.699 29.630 1.97 0.00 40.42 2.66
541 554 8.642908 AAACAGAGTGCATTTTAAAACTTACC 57.357 30.769 1.97 0.00 0.00 2.85
544 557 7.722285 ACAGAGTGCATTTTAAAACTTACCCTA 59.278 33.333 1.97 0.00 0.00 3.53
545 558 8.021396 CAGAGTGCATTTTAAAACTTACCCTAC 58.979 37.037 1.97 0.00 0.00 3.18
546 559 7.176165 AGAGTGCATTTTAAAACTTACCCTACC 59.824 37.037 1.97 0.00 0.00 3.18
547 560 6.209986 AGTGCATTTTAAAACTTACCCTACCC 59.790 38.462 1.97 0.00 0.00 3.69
548 561 5.481122 TGCATTTTAAAACTTACCCTACCCC 59.519 40.000 1.97 0.00 0.00 4.95
577 590 1.537202 GACTTTGGCTAGCTTGGTGTG 59.463 52.381 15.72 1.76 0.00 3.82
605 618 6.515272 TTCAGTTTCTCTGTTTTGAGCTTT 57.485 33.333 0.00 0.00 43.97 3.51
617 630 8.303876 TCTGTTTTGAGCTTTAGTTTCAGTTTT 58.696 29.630 0.00 0.00 0.00 2.43
640 653 3.119459 GCCTTTTCCTTTGGCTAGCTTAC 60.119 47.826 15.72 0.00 43.05 2.34
641 654 4.079253 CCTTTTCCTTTGGCTAGCTTACA 58.921 43.478 15.72 0.73 0.00 2.41
657 670 6.294361 AGCTTACAACCCTTTGTTTCTTTT 57.706 33.333 0.00 0.00 43.89 2.27
658 671 7.412853 AGCTTACAACCCTTTGTTTCTTTTA 57.587 32.000 0.00 0.00 43.89 1.52
700 713 6.769134 TTTTGCATCAGATCATCTTGATGT 57.231 33.333 18.62 0.00 37.20 3.06
701 714 5.751243 TTGCATCAGATCATCTTGATGTG 57.249 39.130 18.62 8.00 46.05 3.21
702 715 4.777463 TGCATCAGATCATCTTGATGTGT 58.223 39.130 18.62 1.73 45.23 3.72
703 716 4.814771 TGCATCAGATCATCTTGATGTGTC 59.185 41.667 18.62 9.52 45.23 3.67
704 717 5.057819 GCATCAGATCATCTTGATGTGTCT 58.942 41.667 18.62 11.21 45.23 3.41
705 718 5.527951 GCATCAGATCATCTTGATGTGTCTT 59.472 40.000 18.62 0.39 45.23 3.01
706 719 6.038382 GCATCAGATCATCTTGATGTGTCTTT 59.962 38.462 18.62 4.04 45.23 2.52
707 720 7.415318 GCATCAGATCATCTTGATGTGTCTTTT 60.415 37.037 18.62 3.78 45.23 2.27
708 721 9.106070 CATCAGATCATCTTGATGTGTCTTTTA 57.894 33.333 12.36 4.94 45.23 1.52
709 722 9.676861 ATCAGATCATCTTGATGTGTCTTTTAA 57.323 29.630 12.60 0.00 45.23 1.52
710 723 9.676861 TCAGATCATCTTGATGTGTCTTTTAAT 57.323 29.630 12.60 0.00 45.23 1.40
723 736 8.795786 TGTGTCTTTTAATACAAAATGACTGC 57.204 30.769 13.23 8.76 41.01 4.40
724 737 8.629158 TGTGTCTTTTAATACAAAATGACTGCT 58.371 29.630 13.23 0.00 41.01 4.24
725 738 8.905702 GTGTCTTTTAATACAAAATGACTGCTG 58.094 33.333 13.23 0.00 41.01 4.41
726 739 7.594758 TGTCTTTTAATACAAAATGACTGCTGC 59.405 33.333 13.23 0.00 41.01 5.25
727 740 6.801377 TCTTTTAATACAAAATGACTGCTGCG 59.199 34.615 0.00 0.00 0.00 5.18
728 741 5.621197 TTAATACAAAATGACTGCTGCGT 57.379 34.783 0.00 0.00 0.00 5.24
729 742 2.967459 TACAAAATGACTGCTGCGTG 57.033 45.000 2.10 0.00 0.00 5.34
730 743 1.024271 ACAAAATGACTGCTGCGTGT 58.976 45.000 2.10 0.00 0.00 4.49
731 744 1.405105 ACAAAATGACTGCTGCGTGTT 59.595 42.857 2.10 0.00 0.00 3.32
732 745 1.782569 CAAAATGACTGCTGCGTGTTG 59.217 47.619 2.10 0.00 0.00 3.33
733 746 0.311790 AAATGACTGCTGCGTGTTGG 59.688 50.000 2.10 0.00 0.00 3.77
734 747 0.534877 AATGACTGCTGCGTGTTGGA 60.535 50.000 2.10 0.00 0.00 3.53
735 748 0.952497 ATGACTGCTGCGTGTTGGAG 60.952 55.000 2.10 0.00 39.42 3.86
736 749 1.300931 GACTGCTGCGTGTTGGAGA 60.301 57.895 2.10 0.00 38.54 3.71
737 750 0.880278 GACTGCTGCGTGTTGGAGAA 60.880 55.000 2.10 0.00 38.54 2.87
738 751 0.463654 ACTGCTGCGTGTTGGAGAAA 60.464 50.000 0.00 0.00 38.54 2.52
739 752 0.040958 CTGCTGCGTGTTGGAGAAAC 60.041 55.000 0.00 0.00 38.54 2.78
740 753 0.746204 TGCTGCGTGTTGGAGAAACA 60.746 50.000 0.00 0.00 46.66 2.83
751 764 5.115480 TGTTGGAGAAACAAAAGAATTGGC 58.885 37.500 0.00 0.00 45.85 4.52
752 765 5.104982 TGTTGGAGAAACAAAAGAATTGGCT 60.105 36.000 0.00 0.00 45.85 4.75
753 766 4.947645 TGGAGAAACAAAAGAATTGGCTG 58.052 39.130 0.00 0.00 0.00 4.85
763 776 4.326504 AAGAATTGGCTGTGTCTTTTGG 57.673 40.909 0.00 0.00 0.00 3.28
793 813 6.125327 TGCTTGTTTCTCGTACAAAATTGA 57.875 33.333 0.00 0.00 35.28 2.57
805 825 5.569059 CGTACAAAATTGAATGAGGTCTTGC 59.431 40.000 0.00 0.00 0.00 4.01
832 852 8.706492 ACACATGGTTATTTAAAATGCATCTG 57.294 30.769 0.00 0.00 0.00 2.90
881 926 9.445973 ACTCCTAGATAATTTCTTCTTCTGGAT 57.554 33.333 0.00 0.00 35.79 3.41
931 976 7.681939 TCTCGCTATTTGTTCTTTATTTGGT 57.318 32.000 0.00 0.00 0.00 3.67
933 978 7.389330 TCTCGCTATTTGTTCTTTATTTGGTCA 59.611 33.333 0.00 0.00 0.00 4.02
934 979 7.302524 TCGCTATTTGTTCTTTATTTGGTCAC 58.697 34.615 0.00 0.00 0.00 3.67
935 980 7.174253 TCGCTATTTGTTCTTTATTTGGTCACT 59.826 33.333 0.00 0.00 0.00 3.41
936 981 7.271223 CGCTATTTGTTCTTTATTTGGTCACTG 59.729 37.037 0.00 0.00 0.00 3.66
937 982 8.296713 GCTATTTGTTCTTTATTTGGTCACTGA 58.703 33.333 0.00 0.00 0.00 3.41
946 991 9.184523 TCTTTATTTGGTCACTGAAGAAAGAAA 57.815 29.630 9.54 0.00 37.54 2.52
981 1026 8.674607 ACACCTTTTTGTTTTACTAGTGAAGAG 58.325 33.333 5.39 0.00 0.00 2.85
1043 1088 6.882656 TGGTCATTCCATTTTTCAAGACAAA 58.117 32.000 0.00 0.00 41.93 2.83
1247 1292 1.015109 GATGCTCTGCAGTGGTGATG 58.985 55.000 14.67 0.00 43.65 3.07
1248 1293 0.393944 ATGCTCTGCAGTGGTGATGG 60.394 55.000 14.67 0.00 43.65 3.51
1290 1335 2.235650 TCACCTTCAGAGATGAGCAAGG 59.764 50.000 0.00 0.00 39.73 3.61
1322 1367 3.482786 GCAATGCTTTTGACAGTACGAG 58.517 45.455 0.00 0.00 0.00 4.18
1340 1385 7.066043 CAGTACGAGTTCTCTACCTCTTAACAT 59.934 40.741 0.00 0.00 0.00 2.71
1371 1416 3.338249 AGCTATTTGTTCGCTGTGTGAT 58.662 40.909 0.00 0.00 31.82 3.06
1414 1460 3.193479 TGCGACTATAGTGGATATGGCTG 59.807 47.826 18.07 0.00 0.00 4.85
1463 1509 0.955428 CTGCCAGCAGCCGTTTTAGA 60.955 55.000 6.72 0.00 42.71 2.10
1480 1526 8.368668 CCGTTTTAGATGATTTAGAGGTAGGAT 58.631 37.037 0.00 0.00 0.00 3.24
1539 1585 9.267084 GATTTCTCAACTTCTTTCAGTAGTCTT 57.733 33.333 0.00 0.00 0.00 3.01
1890 1937 3.118038 TGTTTCTACTGCTGGTTCCAAGT 60.118 43.478 0.00 2.42 0.00 3.16
1907 1954 5.724328 TCCAAGTTCATGAGACACAGATAC 58.276 41.667 0.00 0.00 0.00 2.24
2017 2064 1.895798 TGAGCAGGAAGATGAACTCGT 59.104 47.619 0.00 0.00 0.00 4.18
2061 2108 3.065655 CAAGAGAGCAAGTGTCAGGAAG 58.934 50.000 0.00 0.00 0.00 3.46
2079 2126 1.958288 AGGTGATCCAGCTAAGGTGT 58.042 50.000 0.00 0.00 40.59 4.16
2164 2211 6.039382 ACCAACAAACCAGAAGATACTGAAAC 59.961 38.462 0.00 0.00 39.94 2.78
2171 2218 5.012354 ACCAGAAGATACTGAAACGGGTAAA 59.988 40.000 0.00 0.00 39.94 2.01
2173 2220 6.395629 CAGAAGATACTGAAACGGGTAAAGA 58.604 40.000 0.00 0.00 39.94 2.52
2174 2221 6.310711 CAGAAGATACTGAAACGGGTAAAGAC 59.689 42.308 0.00 0.00 39.94 3.01
2184 2231 3.999046 ACGGGTAAAGACGAACAGAAAT 58.001 40.909 0.00 0.00 0.00 2.17
2185 2232 3.992427 ACGGGTAAAGACGAACAGAAATC 59.008 43.478 0.00 0.00 0.00 2.17
2194 2241 5.174395 AGACGAACAGAAATCTCAAGATGG 58.826 41.667 0.00 0.00 34.49 3.51
2198 2245 5.583854 CGAACAGAAATCTCAAGATGGTGAT 59.416 40.000 0.00 0.00 34.49 3.06
2225 2272 4.707105 CAAAGGCCCAAACTCAAGAAAAT 58.293 39.130 0.00 0.00 0.00 1.82
2230 2277 4.522789 GGCCCAAACTCAAGAAAATACTGA 59.477 41.667 0.00 0.00 0.00 3.41
2240 2287 7.390718 ACTCAAGAAAATACTGAAATAACGGCT 59.609 33.333 0.00 0.00 0.00 5.52
2257 2304 2.251409 GCTGAGGAGCATAAGCATCA 57.749 50.000 0.00 0.00 45.46 3.07
2295 2342 1.518903 GGCCAGCACACCTGAAAGTC 61.519 60.000 0.00 0.00 44.64 3.01
2297 2344 1.233019 CCAGCACACCTGAAAGTCTG 58.767 55.000 0.00 0.00 44.64 3.51
2304 2351 2.082231 CACCTGAAAGTCTGCTGATGG 58.918 52.381 0.00 0.00 0.00 3.51
2414 2461 1.630223 TGGCCACTGATGATGCAAAA 58.370 45.000 0.00 0.00 0.00 2.44
2508 2555 7.601073 TGCAACTGAGTTATATTGTCTTCTG 57.399 36.000 0.00 0.00 0.00 3.02
2600 2647 2.884639 ACAAAGTAACCATGGTGTCTGC 59.115 45.455 20.60 6.59 0.00 4.26
2617 2670 6.018669 GGTGTCTGCTTATTTTCTAGATTCCG 60.019 42.308 0.00 0.00 0.00 4.30
2623 2676 5.050023 GCTTATTTTCTAGATTCCGACTGCC 60.050 44.000 0.00 0.00 0.00 4.85
2643 2696 4.202264 TGCCCGGTGTATTTTCATTTGTTT 60.202 37.500 0.00 0.00 0.00 2.83
2646 2699 6.424207 GCCCGGTGTATTTTCATTTGTTTTTA 59.576 34.615 0.00 0.00 0.00 1.52
2648 2701 9.640963 CCCGGTGTATTTTCATTTGTTTTTATA 57.359 29.630 0.00 0.00 0.00 0.98
2820 2874 2.734755 TGCATCTATTCCACCTTGGG 57.265 50.000 0.00 0.00 38.32 4.12
2821 2875 1.322442 GCATCTATTCCACCTTGGGC 58.678 55.000 0.00 0.00 38.32 5.36
2836 2890 2.498644 TGGGCCACGTCAAATTATCA 57.501 45.000 0.00 0.00 0.00 2.15
2846 2900 6.963242 CCACGTCAAATTATCAAGACATTCTG 59.037 38.462 0.00 0.00 0.00 3.02
2877 2931 9.421806 CAGATGTCCTACTATCATCTCAATTTC 57.578 37.037 4.27 0.00 43.98 2.17
3041 3121 3.068873 AGCCGCAAAAATTTAAGGTGTGA 59.931 39.130 0.00 0.00 0.00 3.58
3103 3183 4.697756 TTGCCAGCCTTCCGTCCG 62.698 66.667 0.00 0.00 0.00 4.79
3149 3229 1.197036 CGCCGAAGCTCGACATATCTA 59.803 52.381 7.07 0.00 43.74 1.98
3150 3230 2.350484 CGCCGAAGCTCGACATATCTAA 60.350 50.000 7.07 0.00 43.74 2.10
3151 3231 3.238441 GCCGAAGCTCGACATATCTAAG 58.762 50.000 7.07 0.00 43.74 2.18
3152 3232 3.058155 GCCGAAGCTCGACATATCTAAGA 60.058 47.826 7.07 0.00 43.74 2.10
3250 3330 1.152819 CTGGATCTGTGGCCATGGG 60.153 63.158 9.72 1.97 32.89 4.00
3325 3405 0.835543 AGCAGAGGAAGGTGAGCAGT 60.836 55.000 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.813754 GGCAAAGCAAAGGGAAATTTCC 59.186 45.455 26.41 26.41 46.82 3.13
2 3 3.475575 TGGCAAAGCAAAGGGAAATTTC 58.524 40.909 9.83 9.83 0.00 2.17
3 4 3.479489 CTGGCAAAGCAAAGGGAAATTT 58.521 40.909 0.00 0.00 0.00 1.82
4 5 3.130280 CTGGCAAAGCAAAGGGAAATT 57.870 42.857 0.00 0.00 0.00 1.82
5 6 2.845363 CTGGCAAAGCAAAGGGAAAT 57.155 45.000 0.00 0.00 0.00 2.17
25 26 3.303329 CGGCAGAAATACACATTGATCCG 60.303 47.826 0.00 0.00 0.00 4.18
41 42 2.613595 GTGCATCATGTTTATCGGCAGA 59.386 45.455 0.00 0.00 0.00 4.26
42 43 2.287188 GGTGCATCATGTTTATCGGCAG 60.287 50.000 0.00 0.00 0.00 4.85
53 54 1.138036 CAAGCCACGGTGCATCATG 59.862 57.895 1.68 0.00 0.00 3.07
64 65 1.813513 TTCTTAGCAGCTCAAGCCAC 58.186 50.000 0.00 0.00 43.38 5.01
73 74 5.613358 ACAAACTACACATTCTTAGCAGC 57.387 39.130 0.00 0.00 0.00 5.25
85 86 8.665685 CCCAGAAGAACATATAACAAACTACAC 58.334 37.037 0.00 0.00 0.00 2.90
90 91 6.759497 AGCCCAGAAGAACATATAACAAAC 57.241 37.500 0.00 0.00 0.00 2.93
94 95 4.640201 TGCAAGCCCAGAAGAACATATAAC 59.360 41.667 0.00 0.00 0.00 1.89
97 98 3.370840 TGCAAGCCCAGAAGAACATAT 57.629 42.857 0.00 0.00 0.00 1.78
98 99 2.877097 TGCAAGCCCAGAAGAACATA 57.123 45.000 0.00 0.00 0.00 2.29
100 101 1.250328 CATGCAAGCCCAGAAGAACA 58.750 50.000 0.00 0.00 0.00 3.18
104 105 0.172803 GAAGCATGCAAGCCCAGAAG 59.827 55.000 21.98 0.00 34.23 2.85
105 106 1.588824 CGAAGCATGCAAGCCCAGAA 61.589 55.000 21.98 0.00 34.23 3.02
112 113 1.730501 TCCTCTTCGAAGCATGCAAG 58.269 50.000 21.98 14.49 0.00 4.01
114 115 1.276138 TCTTCCTCTTCGAAGCATGCA 59.724 47.619 21.98 1.65 39.33 3.96
119 120 5.050702 CGGAATAATTCTTCCTCTTCGAAGC 60.051 44.000 20.56 0.90 42.19 3.86
124 125 7.551617 TGTAAACCGGAATAATTCTTCCTCTTC 59.448 37.037 9.46 6.70 42.19 2.87
138 139 8.917655 CAAAATTAACGAAATGTAAACCGGAAT 58.082 29.630 9.46 0.00 0.00 3.01
155 156 6.018832 CGATGCCCAAATGGATCAAAATTAAC 60.019 38.462 0.00 0.00 37.39 2.01
166 167 0.327924 ACAGTCGATGCCCAAATGGA 59.672 50.000 0.00 0.00 37.39 3.41
180 181 7.870588 ACTTTCATTAGACTACGAAACAGTC 57.129 36.000 0.00 0.00 42.30 3.51
181 182 8.142551 AGAACTTTCATTAGACTACGAAACAGT 58.857 33.333 0.00 0.00 0.00 3.55
182 183 8.522178 AGAACTTTCATTAGACTACGAAACAG 57.478 34.615 0.00 0.00 0.00 3.16
183 184 8.882415 AAGAACTTTCATTAGACTACGAAACA 57.118 30.769 0.00 0.00 0.00 2.83
224 225 9.801873 CATGTAGTACCAAAATAATTCCAAAGG 57.198 33.333 0.00 0.00 0.00 3.11
226 227 9.535170 TCCATGTAGTACCAAAATAATTCCAAA 57.465 29.630 0.00 0.00 0.00 3.28
234 235 5.603395 TCCGGATCCATGTAGTACCAAAATA 59.397 40.000 13.41 0.00 0.00 1.40
240 241 3.432378 AGATCCGGATCCATGTAGTACC 58.568 50.000 35.53 11.59 38.58 3.34
244 245 3.499918 GCAAAAGATCCGGATCCATGTAG 59.500 47.826 35.53 22.72 38.58 2.74
245 246 3.118075 TGCAAAAGATCCGGATCCATGTA 60.118 43.478 35.53 27.19 38.58 2.29
246 247 2.301346 GCAAAAGATCCGGATCCATGT 58.699 47.619 35.53 20.41 38.58 3.21
247 248 2.300433 TGCAAAAGATCCGGATCCATG 58.700 47.619 35.53 30.02 38.58 3.66
264 265 3.641017 TGGTTCGATCACCAATGCA 57.359 47.368 6.50 0.00 44.30 3.96
270 271 4.451900 ACTATTTCCATGGTTCGATCACC 58.548 43.478 12.58 0.00 37.34 4.02
271 272 6.281405 AGTACTATTTCCATGGTTCGATCAC 58.719 40.000 12.58 4.29 0.00 3.06
272 273 6.479972 AGTACTATTTCCATGGTTCGATCA 57.520 37.500 12.58 0.00 0.00 2.92
273 274 9.141400 GATAAGTACTATTTCCATGGTTCGATC 57.859 37.037 12.58 0.00 0.00 3.69
274 275 8.647796 TGATAAGTACTATTTCCATGGTTCGAT 58.352 33.333 12.58 4.57 0.00 3.59
275 276 8.014070 TGATAAGTACTATTTCCATGGTTCGA 57.986 34.615 12.58 0.00 0.00 3.71
276 277 7.385205 CCTGATAAGTACTATTTCCATGGTTCG 59.615 40.741 12.58 0.00 0.00 3.95
277 278 8.429641 TCCTGATAAGTACTATTTCCATGGTTC 58.570 37.037 12.58 0.00 0.00 3.62
278 279 8.331931 TCCTGATAAGTACTATTTCCATGGTT 57.668 34.615 12.58 0.58 0.00 3.67
279 280 7.931015 TCCTGATAAGTACTATTTCCATGGT 57.069 36.000 12.58 0.00 0.00 3.55
355 356 6.981379 GCATATGCTTGAATGTTACACATC 57.019 37.500 20.64 0.00 36.51 3.06
416 421 7.273381 ACGTGATGCTTTTTATGCTTACAATTC 59.727 33.333 0.00 0.00 0.00 2.17
419 424 5.855925 CACGTGATGCTTTTTATGCTTACAA 59.144 36.000 10.90 0.00 0.00 2.41
421 426 5.627172 TCACGTGATGCTTTTTATGCTTAC 58.373 37.500 15.76 0.00 0.00 2.34
468 473 8.671987 AGTATGGAGTAAACAGGCATATATCT 57.328 34.615 0.00 0.00 0.00 1.98
485 490 7.705752 GTCATGTGAGCATATGATAGTATGGAG 59.294 40.741 6.97 0.00 40.27 3.86
511 516 7.920682 AGTTTTAAAATGCACTCTGTTTAGTGG 59.079 33.333 3.52 0.00 45.75 4.00
544 557 0.693049 CAAAGTCTACAGCCTGGGGT 59.307 55.000 0.00 0.00 0.00 4.95
545 558 0.035056 CCAAAGTCTACAGCCTGGGG 60.035 60.000 0.00 0.00 0.00 4.96
546 559 0.678048 GCCAAAGTCTACAGCCTGGG 60.678 60.000 0.00 0.00 0.00 4.45
547 560 0.326264 AGCCAAAGTCTACAGCCTGG 59.674 55.000 0.00 0.00 0.00 4.45
548 561 2.898705 CTAGCCAAAGTCTACAGCCTG 58.101 52.381 0.00 0.00 0.00 4.85
605 618 6.538945 AAGGAAAAGGCAAAACTGAAACTA 57.461 33.333 0.00 0.00 0.00 2.24
681 694 5.057819 AGACACATCAAGATGATCTGATGC 58.942 41.667 22.91 13.62 41.20 3.91
682 695 7.555306 AAAGACACATCAAGATGATCTGATG 57.445 36.000 22.07 22.07 41.20 3.07
683 696 9.676861 TTAAAAGACACATCAAGATGATCTGAT 57.323 29.630 16.39 11.95 41.20 2.90
697 710 9.410556 GCAGTCATTTTGTATTAAAAGACACAT 57.589 29.630 0.00 0.00 37.88 3.21
698 711 8.629158 AGCAGTCATTTTGTATTAAAAGACACA 58.371 29.630 0.00 0.00 37.88 3.72
699 712 8.905702 CAGCAGTCATTTTGTATTAAAAGACAC 58.094 33.333 0.00 0.00 37.88 3.67
700 713 7.594758 GCAGCAGTCATTTTGTATTAAAAGACA 59.405 33.333 0.00 0.00 37.88 3.41
701 714 7.201266 CGCAGCAGTCATTTTGTATTAAAAGAC 60.201 37.037 0.00 0.00 36.49 3.01
702 715 6.801377 CGCAGCAGTCATTTTGTATTAAAAGA 59.199 34.615 0.00 0.00 0.00 2.52
703 716 6.582295 ACGCAGCAGTCATTTTGTATTAAAAG 59.418 34.615 0.00 0.00 0.00 2.27
704 717 6.362016 CACGCAGCAGTCATTTTGTATTAAAA 59.638 34.615 0.00 0.00 0.00 1.52
705 718 5.855925 CACGCAGCAGTCATTTTGTATTAAA 59.144 36.000 0.00 0.00 0.00 1.52
706 719 5.049060 ACACGCAGCAGTCATTTTGTATTAA 60.049 36.000 0.00 0.00 0.00 1.40
707 720 4.454161 ACACGCAGCAGTCATTTTGTATTA 59.546 37.500 0.00 0.00 0.00 0.98
708 721 3.253188 ACACGCAGCAGTCATTTTGTATT 59.747 39.130 0.00 0.00 0.00 1.89
709 722 2.813754 ACACGCAGCAGTCATTTTGTAT 59.186 40.909 0.00 0.00 0.00 2.29
710 723 2.217750 ACACGCAGCAGTCATTTTGTA 58.782 42.857 0.00 0.00 0.00 2.41
711 724 1.024271 ACACGCAGCAGTCATTTTGT 58.976 45.000 0.00 0.00 0.00 2.83
712 725 1.782569 CAACACGCAGCAGTCATTTTG 59.217 47.619 0.00 0.00 0.00 2.44
713 726 1.269206 CCAACACGCAGCAGTCATTTT 60.269 47.619 0.00 0.00 0.00 1.82
714 727 0.311790 CCAACACGCAGCAGTCATTT 59.688 50.000 0.00 0.00 0.00 2.32
715 728 0.534877 TCCAACACGCAGCAGTCATT 60.535 50.000 0.00 0.00 0.00 2.57
716 729 0.952497 CTCCAACACGCAGCAGTCAT 60.952 55.000 0.00 0.00 0.00 3.06
717 730 1.595109 CTCCAACACGCAGCAGTCA 60.595 57.895 0.00 0.00 0.00 3.41
718 731 0.880278 TTCTCCAACACGCAGCAGTC 60.880 55.000 0.00 0.00 0.00 3.51
719 732 0.463654 TTTCTCCAACACGCAGCAGT 60.464 50.000 0.00 0.00 0.00 4.40
720 733 0.040958 GTTTCTCCAACACGCAGCAG 60.041 55.000 0.00 0.00 35.18 4.24
721 734 0.746204 TGTTTCTCCAACACGCAGCA 60.746 50.000 0.00 0.00 40.71 4.41
722 735 0.380378 TTGTTTCTCCAACACGCAGC 59.620 50.000 0.00 0.00 45.54 5.25
723 736 2.842208 TTTGTTTCTCCAACACGCAG 57.158 45.000 0.00 0.00 45.54 5.18
724 737 2.750166 TCTTTTGTTTCTCCAACACGCA 59.250 40.909 0.00 0.00 45.54 5.24
725 738 3.414549 TCTTTTGTTTCTCCAACACGC 57.585 42.857 0.00 0.00 45.54 5.34
726 739 5.231991 CCAATTCTTTTGTTTCTCCAACACG 59.768 40.000 0.00 0.00 45.54 4.49
727 740 5.006649 GCCAATTCTTTTGTTTCTCCAACAC 59.993 40.000 0.00 0.00 45.54 3.32
728 741 5.104982 AGCCAATTCTTTTGTTTCTCCAACA 60.105 36.000 0.00 0.00 44.11 3.33
729 742 5.234972 CAGCCAATTCTTTTGTTTCTCCAAC 59.765 40.000 0.00 0.00 35.71 3.77
730 743 5.104982 ACAGCCAATTCTTTTGTTTCTCCAA 60.105 36.000 0.00 0.00 0.00 3.53
731 744 4.405358 ACAGCCAATTCTTTTGTTTCTCCA 59.595 37.500 0.00 0.00 0.00 3.86
732 745 4.746611 CACAGCCAATTCTTTTGTTTCTCC 59.253 41.667 0.00 0.00 0.00 3.71
733 746 5.351458 ACACAGCCAATTCTTTTGTTTCTC 58.649 37.500 0.00 0.00 0.00 2.87
734 747 5.127682 AGACACAGCCAATTCTTTTGTTTCT 59.872 36.000 0.00 0.00 0.00 2.52
735 748 5.351458 AGACACAGCCAATTCTTTTGTTTC 58.649 37.500 0.00 0.00 0.00 2.78
736 749 5.343307 AGACACAGCCAATTCTTTTGTTT 57.657 34.783 0.00 0.00 0.00 2.83
737 750 5.343307 AAGACACAGCCAATTCTTTTGTT 57.657 34.783 0.00 0.00 0.00 2.83
738 751 5.343307 AAAGACACAGCCAATTCTTTTGT 57.657 34.783 0.00 0.00 35.26 2.83
740 753 5.118286 CCAAAAGACACAGCCAATTCTTTT 58.882 37.500 7.54 7.54 45.05 2.27
741 754 4.696455 CCAAAAGACACAGCCAATTCTTT 58.304 39.130 0.00 0.00 39.46 2.52
742 755 3.493176 GCCAAAAGACACAGCCAATTCTT 60.493 43.478 0.00 0.00 0.00 2.52
743 756 2.036346 GCCAAAAGACACAGCCAATTCT 59.964 45.455 0.00 0.00 0.00 2.40
744 757 2.036346 AGCCAAAAGACACAGCCAATTC 59.964 45.455 0.00 0.00 0.00 2.17
745 758 2.041701 AGCCAAAAGACACAGCCAATT 58.958 42.857 0.00 0.00 0.00 2.32
746 759 1.342174 CAGCCAAAAGACACAGCCAAT 59.658 47.619 0.00 0.00 0.00 3.16
747 760 0.746063 CAGCCAAAAGACACAGCCAA 59.254 50.000 0.00 0.00 0.00 4.52
748 761 0.395586 ACAGCCAAAAGACACAGCCA 60.396 50.000 0.00 0.00 0.00 4.75
749 762 0.746659 AACAGCCAAAAGACACAGCC 59.253 50.000 0.00 0.00 0.00 4.85
750 763 3.568538 CATAACAGCCAAAAGACACAGC 58.431 45.455 0.00 0.00 0.00 4.40
751 764 3.254166 AGCATAACAGCCAAAAGACACAG 59.746 43.478 0.00 0.00 34.23 3.66
752 765 3.221771 AGCATAACAGCCAAAAGACACA 58.778 40.909 0.00 0.00 34.23 3.72
753 766 3.923017 AGCATAACAGCCAAAAGACAC 57.077 42.857 0.00 0.00 34.23 3.67
763 776 3.813529 ACGAGAAACAAGCATAACAGC 57.186 42.857 0.00 0.00 0.00 4.40
793 813 2.559668 CCATGTGTTGCAAGACCTCATT 59.440 45.455 22.58 1.49 0.00 2.57
805 825 9.153721 AGATGCATTTTAAATAACCATGTGTTG 57.846 29.630 0.00 0.00 37.83 3.33
866 886 9.799106 TTCTAAACAGAATCCAGAAGAAGAAAT 57.201 29.630 0.00 0.00 0.00 2.17
869 889 9.057089 GTTTTCTAAACAGAATCCAGAAGAAGA 57.943 33.333 0.00 0.00 0.00 2.87
870 890 8.293157 GGTTTTCTAAACAGAATCCAGAAGAAG 58.707 37.037 4.85 0.00 0.00 2.85
872 892 6.715264 GGGTTTTCTAAACAGAATCCAGAAGA 59.285 38.462 4.85 0.00 0.00 2.87
881 926 3.117963 TGTCCGGGGTTTTCTAAACAGAA 60.118 43.478 0.00 0.00 0.00 3.02
884 929 3.294038 TTGTCCGGGGTTTTCTAAACA 57.706 42.857 0.00 0.00 0.00 2.83
931 976 9.869757 TGTCGAATATATTTCTTTCTTCAGTGA 57.130 29.630 0.00 0.00 0.00 3.41
933 978 9.099454 GGTGTCGAATATATTTCTTTCTTCAGT 57.901 33.333 0.00 0.00 0.00 3.41
934 979 9.319143 AGGTGTCGAATATATTTCTTTCTTCAG 57.681 33.333 0.00 0.00 0.00 3.02
935 980 9.667107 AAGGTGTCGAATATATTTCTTTCTTCA 57.333 29.630 0.00 0.00 0.00 3.02
973 1018 8.854614 ATATTTCAGCTTTAACACTCTTCACT 57.145 30.769 0.00 0.00 0.00 3.41
1021 1066 7.769272 TGTTTGTCTTGAAAAATGGAATGAC 57.231 32.000 0.00 0.00 0.00 3.06
1043 1088 4.760204 GGACCTTTACTGTGCTAAACATGT 59.240 41.667 0.00 0.00 38.39 3.21
1290 1335 2.883267 AAGCATTGCCCTCTCCGCTC 62.883 60.000 4.70 0.00 0.00 5.03
1340 1385 7.279981 ACAGCGAACAAATAGCTACAATGATTA 59.720 33.333 0.00 0.00 39.48 1.75
1358 1403 3.559238 AATGGAAATCACACAGCGAAC 57.441 42.857 0.00 0.00 0.00 3.95
1392 1438 3.193479 CAGCCATATCCACTATAGTCGCA 59.807 47.826 1.26 0.00 0.00 5.10
1414 1460 0.749454 GTGGCTGGGGTGATGATGAC 60.749 60.000 0.00 0.00 0.00 3.06
1463 1509 7.177041 GGTCGTAGAATCCTACCTCTAAATCAT 59.823 40.741 0.00 0.00 41.68 2.45
1480 1526 6.459670 TGTAGAATTAGCATGGTCGTAGAA 57.540 37.500 0.00 0.00 39.69 2.10
1539 1585 3.641436 TGCAAAGAGTGTCAGGAGTTCTA 59.359 43.478 0.00 0.00 0.00 2.10
1540 1586 2.435805 TGCAAAGAGTGTCAGGAGTTCT 59.564 45.455 0.00 0.00 0.00 3.01
1868 1915 3.118038 ACTTGGAACCAGCAGTAGAAACA 60.118 43.478 0.00 0.00 0.00 2.83
1890 1937 6.550938 AAGGATGTATCTGTGTCTCATGAA 57.449 37.500 0.00 0.00 0.00 2.57
1907 1954 3.272334 GCTGCGCCGGTAAGGATG 61.272 66.667 4.18 0.00 45.00 3.51
2017 2064 2.301296 CCTGCCTCTTCAGAACTCTTCA 59.699 50.000 0.00 0.00 36.19 3.02
2061 2108 1.834263 AGACACCTTAGCTGGATCACC 59.166 52.381 0.00 0.00 0.00 4.02
2114 2161 0.755686 GACATTCGCCCTCCTGATCT 59.244 55.000 0.00 0.00 0.00 2.75
2164 2211 4.243270 AGATTTCTGTTCGTCTTTACCCG 58.757 43.478 0.00 0.00 0.00 5.28
2171 2218 5.174395 CCATCTTGAGATTTCTGTTCGTCT 58.826 41.667 0.00 0.00 31.21 4.18
2173 2220 4.692625 CACCATCTTGAGATTTCTGTTCGT 59.307 41.667 0.00 0.00 31.21 3.85
2174 2221 4.931601 TCACCATCTTGAGATTTCTGTTCG 59.068 41.667 0.00 0.00 31.21 3.95
2184 2231 4.670896 TTGCGATATCACCATCTTGAGA 57.329 40.909 3.12 0.00 0.00 3.27
2185 2232 4.212847 CCTTTGCGATATCACCATCTTGAG 59.787 45.833 3.12 0.00 0.00 3.02
2194 2241 1.388547 TTGGGCCTTTGCGATATCAC 58.611 50.000 4.53 0.00 38.85 3.06
2198 2245 1.271652 TGAGTTTGGGCCTTTGCGATA 60.272 47.619 4.53 0.00 38.85 2.92
2225 2272 3.430374 GCTCCTCAGCCGTTATTTCAGTA 60.430 47.826 0.00 0.00 40.14 2.74
2230 2277 2.717639 ATGCTCCTCAGCCGTTATTT 57.282 45.000 0.00 0.00 46.26 1.40
2237 2284 1.202734 TGATGCTTATGCTCCTCAGCC 60.203 52.381 1.96 0.00 46.26 4.85
2240 2287 2.367894 CTCCTGATGCTTATGCTCCTCA 59.632 50.000 1.96 2.44 40.48 3.86
2257 2304 1.187087 CTTCGGTAACTCAGCCTCCT 58.813 55.000 0.00 0.00 0.00 3.69
2295 2342 0.170561 GTTTGCTCAGCCATCAGCAG 59.829 55.000 0.00 0.00 46.18 4.24
2297 2344 0.170561 CAGTTTGCTCAGCCATCAGC 59.829 55.000 0.00 0.00 44.25 4.26
2304 2351 0.604780 TCCTGCTCAGTTTGCTCAGC 60.605 55.000 0.00 0.00 0.00 4.26
2358 2405 2.834638 ACAGGGCTGCTTGGAATATT 57.165 45.000 0.00 0.00 0.00 1.28
2414 2461 3.956848 GCTTCTTTGGGGAATTGCTAGAT 59.043 43.478 0.00 0.00 0.00 1.98
2508 2555 6.025280 ACAACACATCGACAAAACAAACTAC 58.975 36.000 0.00 0.00 0.00 2.73
2600 2647 5.467063 GGGCAGTCGGAATCTAGAAAATAAG 59.533 44.000 0.00 0.00 0.00 1.73
2617 2670 1.816074 TGAAAATACACCGGGCAGTC 58.184 50.000 6.32 0.00 0.00 3.51
2651 2704 3.026694 AGAATCCCATTGTAGCAAAGGC 58.973 45.455 0.00 0.00 41.61 4.35
2652 2705 3.181483 GCAGAATCCCATTGTAGCAAAGG 60.181 47.826 0.00 0.00 0.00 3.11
2654 2707 3.429492 TGCAGAATCCCATTGTAGCAAA 58.571 40.909 0.00 0.00 0.00 3.68
2737 2791 0.249868 ACACTTCAACTAGCAGCGCA 60.250 50.000 11.47 0.00 0.00 6.09
2738 2792 0.164647 CACACTTCAACTAGCAGCGC 59.835 55.000 0.00 0.00 0.00 5.92
2739 2793 0.792640 CCACACTTCAACTAGCAGCG 59.207 55.000 0.00 0.00 0.00 5.18
2740 2794 2.169832 TCCACACTTCAACTAGCAGC 57.830 50.000 0.00 0.00 0.00 5.25
2741 2795 3.930336 TGATCCACACTTCAACTAGCAG 58.070 45.455 0.00 0.00 0.00 4.24
2742 2796 3.578282 TCTGATCCACACTTCAACTAGCA 59.422 43.478 0.00 0.00 0.00 3.49
2811 2865 3.783362 TTGACGTGGCCCAAGGTGG 62.783 63.158 0.00 0.00 37.25 4.61
2820 2874 4.678509 TGTCTTGATAATTTGACGTGGC 57.321 40.909 0.00 0.00 32.64 5.01
2821 2875 6.963242 CAGAATGTCTTGATAATTTGACGTGG 59.037 38.462 0.00 0.00 32.64 4.94
2846 2900 7.175816 TGAGATGATAGTAGGACATCTGCTTAC 59.824 40.741 16.57 7.30 46.75 2.34
2856 2910 7.921214 TCAACGAAATTGAGATGATAGTAGGAC 59.079 37.037 0.00 0.00 42.62 3.85
2892 2946 3.053831 TCCAGGATTCTTGGTCGTTTC 57.946 47.619 13.93 0.00 0.00 2.78
2960 3019 8.054152 TGTAATCGTATACTGTACTTGTGGAA 57.946 34.615 0.56 0.00 0.00 3.53
2962 3021 8.503486 GATGTAATCGTATACTGTACTTGTGG 57.497 38.462 0.56 0.00 31.13 4.17
2990 3070 4.478206 TTGCCAGTTTCAATCCAACAAA 57.522 36.364 0.00 0.00 0.00 2.83
2991 3071 4.440880 CTTTGCCAGTTTCAATCCAACAA 58.559 39.130 0.00 0.00 0.00 2.83
3041 3121 7.931578 AAGCTTCTCGTATCAGCTAGTATAT 57.068 36.000 0.00 0.00 43.28 0.86
3055 3135 5.459536 TGATGATGCTATAAGCTTCTCGT 57.540 39.130 0.00 4.48 43.42 4.18
3149 3229 6.322491 CGTTTTGACTTGGTCTTTCTTTCTT 58.678 36.000 0.00 0.00 33.15 2.52
3150 3230 5.676331 GCGTTTTGACTTGGTCTTTCTTTCT 60.676 40.000 0.00 0.00 33.15 2.52
3151 3231 4.499399 GCGTTTTGACTTGGTCTTTCTTTC 59.501 41.667 0.00 0.00 33.15 2.62
3152 3232 4.421058 GCGTTTTGACTTGGTCTTTCTTT 58.579 39.130 0.00 0.00 33.15 2.52
3250 3330 0.946221 CCTCCGGTAAGCATCATCGC 60.946 60.000 0.00 0.00 0.00 4.58
3325 3405 0.988145 GGTCCATCCACCTCATCCCA 60.988 60.000 0.00 0.00 35.97 4.37


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

AutoCloner maintained by Alex Coulton.