Multiple sequence alignment - TraesCS1A01G102700

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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 TraesCS1A01G102700 chr1A 100.000 2746 0 0 1 2746 99017629 99020374 0.000000e+00 5072
1 TraesCS1A01G102700 chr1A 86.801 841 90 15 980 1805 99048754 99049588 0.000000e+00 918
2 TraesCS1A01G102700 chr1A 83.574 761 108 15 1001 1747 99234403 99235160 0.000000e+00 697
3 TraesCS1A01G102700 chr1A 85.124 484 66 4 1270 1750 99071402 99071882 8.840000e-135 490
4 TraesCS1A01G102700 chr1A 88.050 318 26 8 920 1231 99071033 99071344 1.550000e-97 366
5 TraesCS1A01G102700 chr1B 90.650 2107 113 34 1 2061 132937270 132939338 0.000000e+00 2723
6 TraesCS1A01G102700 chr1B 89.076 833 82 6 980 1805 133032471 133033301 0.000000e+00 1026
7 TraesCS1A01G102700 chr1B 84.131 794 99 18 980 1750 133075657 133076446 0.000000e+00 743
8 TraesCS1A01G102700 chr1B 79.933 593 91 12 2179 2744 54018575 54017984 7.080000e-111 411
9 TraesCS1A01G102700 chr1B 78.992 595 95 13 2178 2744 582858603 582859195 2.000000e-101 379
10 TraesCS1A01G102700 chr1D 90.384 2059 119 24 1 2039 80447343 80449342 0.000000e+00 2632
11 TraesCS1A01G102700 chr1D 83.977 855 103 25 919 1750 80540916 80541759 0.000000e+00 789
12 TraesCS1A01G102700 chr1D 83.508 764 104 16 1001 1747 80817019 80817777 0.000000e+00 693
13 TraesCS1A01G102700 chr1D 87.770 556 66 2 1250 1805 80537383 80537936 0.000000e+00 649
14 TraesCS1A01G102700 chr1D 80.438 593 88 14 2179 2744 345111856 345112447 7.030000e-116 427
15 TraesCS1A01G102700 chr1D 94.378 249 11 3 980 1225 80537068 80537316 2.000000e-101 379
16 TraesCS1A01G102700 chr1D 85.526 152 22 0 2593 2744 80534731 80534882 2.830000e-35 159
17 TraesCS1A01G102700 chr4A 80.607 593 87 10 2179 2744 710617564 710618155 1.510000e-117 433
18 TraesCS1A01G102700 chr5B 80.066 602 92 12 2169 2744 31067698 31067099 3.270000e-114 422
19 TraesCS1A01G102700 chr2D 80.068 592 90 12 2180 2744 374500308 374499718 5.470000e-112 414
20 TraesCS1A01G102700 chr3B 79.461 594 91 14 2179 2744 140977756 140977166 2.560000e-105 392
21 TraesCS1A01G102700 chr6A 79.427 593 91 15 2180 2744 363472004 363471415 9.220000e-105 390
22 TraesCS1A01G102700 chr3A 79.167 600 96 10 2173 2744 354069932 354070530 3.320000e-104 388
23 TraesCS1A01G102700 chr7B 81.560 423 68 8 2179 2593 220406649 220406229 9.420000e-90 340
24 TraesCS1A01G102700 chr7B 87.119 295 25 10 913 1205 95337193 95337476 3.410000e-84 322


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 TraesCS1A01G102700 chr1A 99017629 99020374 2745 False 5072 5072 100.00000 1 2746 1 chr1A.!!$F1 2745
1 TraesCS1A01G102700 chr1A 99048754 99049588 834 False 918 918 86.80100 980 1805 1 chr1A.!!$F2 825
2 TraesCS1A01G102700 chr1A 99234403 99235160 757 False 697 697 83.57400 1001 1747 1 chr1A.!!$F3 746
3 TraesCS1A01G102700 chr1A 99071033 99071882 849 False 428 490 86.58700 920 1750 2 chr1A.!!$F4 830
4 TraesCS1A01G102700 chr1B 132937270 132939338 2068 False 2723 2723 90.65000 1 2061 1 chr1B.!!$F1 2060
5 TraesCS1A01G102700 chr1B 133032471 133033301 830 False 1026 1026 89.07600 980 1805 1 chr1B.!!$F2 825
6 TraesCS1A01G102700 chr1B 133075657 133076446 789 False 743 743 84.13100 980 1750 1 chr1B.!!$F3 770
7 TraesCS1A01G102700 chr1B 54017984 54018575 591 True 411 411 79.93300 2179 2744 1 chr1B.!!$R1 565
8 TraesCS1A01G102700 chr1B 582858603 582859195 592 False 379 379 78.99200 2178 2744 1 chr1B.!!$F4 566
9 TraesCS1A01G102700 chr1D 80447343 80449342 1999 False 2632 2632 90.38400 1 2039 1 chr1D.!!$F1 2038
10 TraesCS1A01G102700 chr1D 80817019 80817777 758 False 693 693 83.50800 1001 1747 1 chr1D.!!$F2 746
11 TraesCS1A01G102700 chr1D 80534731 80541759 7028 False 494 789 87.91275 919 2744 4 chr1D.!!$F4 1825
12 TraesCS1A01G102700 chr1D 345111856 345112447 591 False 427 427 80.43800 2179 2744 1 chr1D.!!$F3 565
13 TraesCS1A01G102700 chr4A 710617564 710618155 591 False 433 433 80.60700 2179 2744 1 chr4A.!!$F1 565
14 TraesCS1A01G102700 chr5B 31067099 31067698 599 True 422 422 80.06600 2169 2744 1 chr5B.!!$R1 575
15 TraesCS1A01G102700 chr2D 374499718 374500308 590 True 414 414 80.06800 2180 2744 1 chr2D.!!$R1 564
16 TraesCS1A01G102700 chr3B 140977166 140977756 590 True 392 392 79.46100 2179 2744 1 chr3B.!!$R1 565
17 TraesCS1A01G102700 chr6A 363471415 363472004 589 True 390 390 79.42700 2180 2744 1 chr6A.!!$R1 564
18 TraesCS1A01G102700 chr3A 354069932 354070530 598 False 388 388 79.16700 2173 2744 1 chr3A.!!$F1 571

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
165 167 1.04535 CGGATCTTCCTCTGGAGCCA 61.045 60.0 0.0 0.0 37.83 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2134 4246 0.036858 TGATTCGTGTTCGGATGGCA 60.037 50.0 0.0 0.0 35.18 4.92 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
70 72 9.817809 TGTAATTGTAAGAGCTCTACATAAAGG 57.182 33.333 18.59 0.00 0.00 3.11
113 115 5.344743 TCTTTATGACCTGTGAGATGACC 57.655 43.478 0.00 0.00 0.00 4.02
165 167 1.045350 CGGATCTTCCTCTGGAGCCA 61.045 60.000 0.00 0.00 37.83 4.75
225 227 4.077184 CACAGCGGGTTCGGCCTA 62.077 66.667 0.00 0.00 37.43 3.93
331 333 1.830279 TCTTTGAAGGGCTGCAGATG 58.170 50.000 20.43 0.00 0.00 2.90
504 507 9.989869 GTATCAGGCTTGTTTTAAGATTAGAAC 57.010 33.333 0.00 0.36 0.00 3.01
505 508 7.129109 TCAGGCTTGTTTTAAGATTAGAACG 57.871 36.000 0.00 0.00 32.26 3.95
540 543 5.964958 TGGTCCTTAGCATCTTCTTTTTG 57.035 39.130 0.00 0.00 0.00 2.44
541 544 5.385198 TGGTCCTTAGCATCTTCTTTTTGT 58.615 37.500 0.00 0.00 0.00 2.83
544 549 7.504238 TGGTCCTTAGCATCTTCTTTTTGTAAA 59.496 33.333 0.00 0.00 0.00 2.01
589 595 3.849911 TCCTATGTCTGCAAACTTCGAG 58.150 45.455 0.00 0.00 0.00 4.04
604 610 4.130118 ACTTCGAGCTGTTTTGAAGATGT 58.870 39.130 14.28 0.00 39.82 3.06
608 614 4.212004 TCGAGCTGTTTTGAAGATGTCTTG 59.788 41.667 0.00 0.00 36.11 3.02
613 619 6.016777 AGCTGTTTTGAAGATGTCTTGGTTAG 60.017 38.462 0.00 0.00 36.11 2.34
618 624 5.102953 TGAAGATGTCTTGGTTAGATGGG 57.897 43.478 0.00 0.00 36.11 4.00
621 630 2.352561 TGTCTTGGTTAGATGGGGGA 57.647 50.000 0.00 0.00 34.79 4.81
622 631 2.638325 TGTCTTGGTTAGATGGGGGAA 58.362 47.619 0.00 0.00 34.79 3.97
623 632 2.990284 TGTCTTGGTTAGATGGGGGAAA 59.010 45.455 0.00 0.00 34.79 3.13
624 633 3.399644 TGTCTTGGTTAGATGGGGGAAAA 59.600 43.478 0.00 0.00 34.79 2.29
634 643 8.325787 GGTTAGATGGGGGAAAAATGTTAAATT 58.674 33.333 0.00 0.00 0.00 1.82
646 655 7.784633 AAAATGTTAAATTGGTGTCACCTTG 57.215 32.000 22.56 0.00 39.58 3.61
647 656 6.723298 AATGTTAAATTGGTGTCACCTTGA 57.277 33.333 22.56 9.34 39.58 3.02
670 679 4.264172 ACCCACAATAGCCCAAAGTTCATA 60.264 41.667 0.00 0.00 0.00 2.15
679 688 3.089284 CCCAAAGTTCATACCCCAGTTC 58.911 50.000 0.00 0.00 0.00 3.01
695 704 5.775195 CCCCAGTTCCTTTCTTAAAGTCATT 59.225 40.000 0.00 0.00 36.77 2.57
696 705 6.946009 CCCCAGTTCCTTTCTTAAAGTCATTA 59.054 38.462 0.00 0.00 36.77 1.90
717 726 9.619316 TCATTATAAGAAAACATGTTCCAAACG 57.381 29.630 12.39 0.00 0.00 3.60
718 727 9.619316 CATTATAAGAAAACATGTTCCAAACGA 57.381 29.630 12.39 0.00 0.00 3.85
720 729 9.619316 TTATAAGAAAACATGTTCCAAACGATG 57.381 29.630 12.39 0.00 0.00 3.84
721 730 5.514274 AGAAAACATGTTCCAAACGATGT 57.486 34.783 12.39 0.00 35.87 3.06
722 731 6.627395 AGAAAACATGTTCCAAACGATGTA 57.373 33.333 12.39 0.00 34.42 2.29
723 732 7.033530 AGAAAACATGTTCCAAACGATGTAA 57.966 32.000 12.39 0.00 34.42 2.41
724 733 7.484975 AGAAAACATGTTCCAAACGATGTAAA 58.515 30.769 12.39 0.00 34.42 2.01
725 734 7.647715 AGAAAACATGTTCCAAACGATGTAAAG 59.352 33.333 12.39 0.00 34.42 1.85
726 735 5.371115 ACATGTTCCAAACGATGTAAAGG 57.629 39.130 0.00 0.00 34.05 3.11
727 736 4.825085 ACATGTTCCAAACGATGTAAAGGT 59.175 37.500 0.00 0.00 34.05 3.50
728 737 5.300792 ACATGTTCCAAACGATGTAAAGGTT 59.699 36.000 0.00 0.00 34.05 3.50
729 738 5.838531 TGTTCCAAACGATGTAAAGGTTT 57.161 34.783 0.00 0.00 34.42 3.27
730 739 6.939132 TGTTCCAAACGATGTAAAGGTTTA 57.061 33.333 0.00 0.00 32.96 2.01
731 740 7.330900 TGTTCCAAACGATGTAAAGGTTTAA 57.669 32.000 0.00 0.00 32.96 1.52
732 741 7.942990 TGTTCCAAACGATGTAAAGGTTTAAT 58.057 30.769 0.00 0.00 32.96 1.40
733 742 8.414778 TGTTCCAAACGATGTAAAGGTTTAATT 58.585 29.630 0.00 0.00 32.96 1.40
843 852 1.067582 GACGATGTGGATCCGGACC 59.932 63.158 6.12 11.46 0.00 4.46
882 891 3.349006 CGCAAGCAGTGACGCCTT 61.349 61.111 0.00 0.00 0.00 4.35
895 904 2.513895 GCCTTGGCCCGCCTATTA 59.486 61.111 7.35 0.00 36.94 0.98
1226 3124 2.038952 CGCCCATTTCCATCATCCTCTA 59.961 50.000 0.00 0.00 0.00 2.43
1268 3240 7.063074 ACGAGTTATTAACAGTCTGAAATTCCG 59.937 37.037 6.91 9.32 0.00 4.30
1400 3375 2.359478 GCCCACCAGTACAACCCG 60.359 66.667 0.00 0.00 0.00 5.28
1421 3396 2.183300 GTCAGCGCCATCGTGGTA 59.817 61.111 2.29 0.00 40.46 3.25
1511 3486 0.687354 TCAAGAAGGTGCTGGAGGTC 59.313 55.000 0.00 0.00 0.00 3.85
1601 3576 2.100631 CCCCTTCACGCGCTACTTG 61.101 63.158 5.73 0.00 0.00 3.16
1750 3725 1.830477 GAAGGCAGAGGAGTGATGACT 59.170 52.381 0.00 0.00 32.23 3.41
1756 3731 0.177604 GAGGAGTGATGACTGCCTGG 59.822 60.000 0.00 0.00 41.38 4.45
1764 3739 2.290832 TGATGACTGCCTGGCAATTACA 60.291 45.455 23.51 18.48 38.41 2.41
1811 3786 0.040336 TCGAGCAAGTCACTGTCGAC 60.040 55.000 9.11 9.11 34.86 4.20
1813 3788 1.413382 GAGCAAGTCACTGTCGACTG 58.587 55.000 19.56 19.56 45.56 3.51
1814 3789 0.747255 AGCAAGTCACTGTCGACTGT 59.253 50.000 20.91 20.91 45.56 3.55
1815 3790 1.132588 GCAAGTCACTGTCGACTGTC 58.867 55.000 23.34 14.23 45.56 3.51
1816 3791 1.399572 CAAGTCACTGTCGACTGTCG 58.600 55.000 23.34 23.33 45.56 4.35
1817 3792 1.002792 CAAGTCACTGTCGACTGTCGA 60.003 52.381 27.26 27.26 45.56 4.20
1825 3800 2.842320 TCGACTGTCGAGTCTCCTG 58.158 57.895 27.26 0.00 44.82 3.86
1849 3837 0.659123 GTTTTGCGTTGTACCGGCAG 60.659 55.000 0.00 0.00 38.04 4.85
2022 4134 6.803320 ACATCAAACTTGCTCATTACGAAATG 59.197 34.615 0.00 0.00 43.32 2.32
2062 4174 7.595311 TTGATATAATGACACAGACACACAC 57.405 36.000 0.00 0.00 0.00 3.82
2063 4175 6.106003 TGATATAATGACACAGACACACACC 58.894 40.000 0.00 0.00 0.00 4.16
2064 4176 2.708216 AATGACACAGACACACACCA 57.292 45.000 0.00 0.00 0.00 4.17
2066 4178 0.901827 TGACACAGACACACACCAGT 59.098 50.000 0.00 0.00 0.00 4.00
2068 4180 2.290008 TGACACAGACACACACCAGTTT 60.290 45.455 0.00 0.00 0.00 2.66
2069 4181 2.351726 GACACAGACACACACCAGTTTC 59.648 50.000 0.00 0.00 0.00 2.78
2070 4182 2.290008 ACACAGACACACACCAGTTTCA 60.290 45.455 0.00 0.00 0.00 2.69
2072 4184 3.190327 CACAGACACACACCAGTTTCAAA 59.810 43.478 0.00 0.00 0.00 2.69
2073 4185 3.823873 ACAGACACACACCAGTTTCAAAA 59.176 39.130 0.00 0.00 0.00 2.44
2074 4186 4.279671 ACAGACACACACCAGTTTCAAAAA 59.720 37.500 0.00 0.00 0.00 1.94
2096 4208 3.627395 AAAAGACAGACACACACCTGA 57.373 42.857 0.00 0.00 34.65 3.86
2097 4209 2.604046 AAGACAGACACACACCTGAC 57.396 50.000 0.00 0.00 34.65 3.51
2098 4210 0.385751 AGACAGACACACACCTGACG 59.614 55.000 0.00 0.00 34.65 4.35
2099 4211 0.102481 GACAGACACACACCTGACGT 59.898 55.000 0.00 0.00 34.65 4.34
2100 4212 0.535335 ACAGACACACACCTGACGTT 59.465 50.000 0.00 0.00 34.65 3.99
2101 4213 1.066430 ACAGACACACACCTGACGTTT 60.066 47.619 0.00 0.00 34.65 3.60
2102 4214 1.593006 CAGACACACACCTGACGTTTC 59.407 52.381 0.00 0.00 32.37 2.78
2103 4215 1.480954 AGACACACACCTGACGTTTCT 59.519 47.619 0.00 0.00 0.00 2.52
2104 4216 2.093658 AGACACACACCTGACGTTTCTT 60.094 45.455 0.00 0.00 0.00 2.52
2105 4217 3.131577 AGACACACACCTGACGTTTCTTA 59.868 43.478 0.00 0.00 0.00 2.10
2106 4218 3.192466 ACACACACCTGACGTTTCTTAC 58.808 45.455 0.00 0.00 0.00 2.34
2107 4219 2.542595 CACACACCTGACGTTTCTTACC 59.457 50.000 0.00 0.00 0.00 2.85
2108 4220 2.433239 ACACACCTGACGTTTCTTACCT 59.567 45.455 0.00 0.00 0.00 3.08
2109 4221 3.638160 ACACACCTGACGTTTCTTACCTA 59.362 43.478 0.00 0.00 0.00 3.08
2110 4222 3.985925 CACACCTGACGTTTCTTACCTAC 59.014 47.826 0.00 0.00 0.00 3.18
2111 4223 3.006217 ACACCTGACGTTTCTTACCTACC 59.994 47.826 0.00 0.00 0.00 3.18
2112 4224 2.229784 ACCTGACGTTTCTTACCTACCG 59.770 50.000 0.00 0.00 0.00 4.02
2113 4225 2.489329 CCTGACGTTTCTTACCTACCGA 59.511 50.000 0.00 0.00 0.00 4.69
2114 4226 3.129988 CCTGACGTTTCTTACCTACCGAT 59.870 47.826 0.00 0.00 0.00 4.18
2115 4227 4.381292 CCTGACGTTTCTTACCTACCGATT 60.381 45.833 0.00 0.00 0.00 3.34
2116 4228 5.138125 TGACGTTTCTTACCTACCGATTT 57.862 39.130 0.00 0.00 0.00 2.17
2117 4229 5.163513 TGACGTTTCTTACCTACCGATTTC 58.836 41.667 0.00 0.00 0.00 2.17
2118 4230 5.138125 ACGTTTCTTACCTACCGATTTCA 57.862 39.130 0.00 0.00 0.00 2.69
2119 4231 4.925646 ACGTTTCTTACCTACCGATTTCAC 59.074 41.667 0.00 0.00 0.00 3.18
2120 4232 4.030977 CGTTTCTTACCTACCGATTTCACG 59.969 45.833 0.00 0.00 0.00 4.35
2121 4233 3.155093 TCTTACCTACCGATTTCACGC 57.845 47.619 0.00 0.00 0.00 5.34
2122 4234 1.850441 CTTACCTACCGATTTCACGCG 59.150 52.381 3.53 3.53 0.00 6.01
2123 4235 1.093972 TACCTACCGATTTCACGCGA 58.906 50.000 15.93 0.00 0.00 5.87
2124 4236 0.244450 ACCTACCGATTTCACGCGAA 59.756 50.000 15.93 0.00 0.00 4.70
2125 4237 0.643820 CCTACCGATTTCACGCGAAC 59.356 55.000 15.93 0.00 0.00 3.95
2127 4239 0.109827 TACCGATTTCACGCGAACGA 60.110 50.000 15.93 2.78 43.93 3.85
2128 4240 0.734942 ACCGATTTCACGCGAACGAT 60.735 50.000 15.93 0.59 43.93 3.73
2129 4241 0.044161 CCGATTTCACGCGAACGATC 60.044 55.000 15.93 10.00 43.93 3.69
2130 4242 0.914551 CGATTTCACGCGAACGATCT 59.085 50.000 15.93 0.00 43.93 2.75
2131 4243 1.320555 CGATTTCACGCGAACGATCTT 59.679 47.619 15.93 0.00 43.93 2.40
2132 4244 2.222508 CGATTTCACGCGAACGATCTTT 60.223 45.455 15.93 0.00 43.93 2.52
2133 4245 2.570468 TTTCACGCGAACGATCTTTG 57.430 45.000 15.93 0.00 43.93 2.77
2134 4246 1.493772 TTCACGCGAACGATCTTTGT 58.506 45.000 15.93 0.00 43.93 2.83
2135 4247 0.781787 TCACGCGAACGATCTTTGTG 59.218 50.000 15.93 0.00 43.93 3.33
2136 4248 0.785708 CACGCGAACGATCTTTGTGC 60.786 55.000 15.93 0.00 43.93 4.57
2137 4249 1.225745 CGCGAACGATCTTTGTGCC 60.226 57.895 0.00 0.00 43.93 5.01
2138 4250 1.866237 GCGAACGATCTTTGTGCCA 59.134 52.632 0.00 0.00 0.00 4.92
2139 4251 0.447801 GCGAACGATCTTTGTGCCAT 59.552 50.000 0.00 0.00 0.00 4.40
2140 4252 1.529826 GCGAACGATCTTTGTGCCATC 60.530 52.381 0.00 0.00 0.00 3.51
2141 4253 1.062587 CGAACGATCTTTGTGCCATCC 59.937 52.381 0.00 0.00 0.00 3.51
2142 4254 1.062587 GAACGATCTTTGTGCCATCCG 59.937 52.381 0.00 0.00 0.00 4.18
2143 4255 0.249120 ACGATCTTTGTGCCATCCGA 59.751 50.000 0.00 0.00 0.00 4.55
2144 4256 1.338674 ACGATCTTTGTGCCATCCGAA 60.339 47.619 0.00 0.00 0.00 4.30
2147 4259 1.234821 TCTTTGTGCCATCCGAACAC 58.765 50.000 0.00 0.00 34.86 3.32
2159 4271 0.163788 CCGAACACGAATCACAGTGC 59.836 55.000 0.00 0.00 41.72 4.40
2160 4272 0.858583 CGAACACGAATCACAGTGCA 59.141 50.000 0.00 0.00 41.72 4.57
2163 4275 0.603707 ACACGAATCACAGTGCAGGG 60.604 55.000 0.00 0.00 41.72 4.45
2166 4278 1.672356 GAATCACAGTGCAGGGCGT 60.672 57.895 0.00 0.00 0.00 5.68
2188 4300 2.874701 GTCACCACATCATGATAGGTGC 59.125 50.000 33.87 27.95 41.80 5.01
2194 4426 3.695556 CACATCATGATAGGTGCAAACCA 59.304 43.478 8.15 0.00 0.00 3.67
2210 4443 4.792704 GCAAACCATTGAATGAGTTCACGT 60.793 41.667 6.76 0.00 43.72 4.49
2212 4445 2.736721 ACCATTGAATGAGTTCACGTCG 59.263 45.455 6.76 0.00 43.72 5.12
2254 4487 3.247886 CGTCGTAGGATCGAATCAGAAGA 59.752 47.826 0.00 0.00 41.47 2.87
2264 4497 8.160765 AGGATCGAATCAGAAGAGATAACTAGA 58.839 37.037 0.00 0.00 0.00 2.43
2274 4507 5.867903 AGAGATAACTAGATGCAAGCAGT 57.132 39.130 0.00 0.00 0.00 4.40
2278 4511 1.186200 ACTAGATGCAAGCAGTCGGA 58.814 50.000 0.00 0.00 0.00 4.55
2286 4519 3.932822 TGCAAGCAGTCGGAATAACTAA 58.067 40.909 0.00 0.00 0.00 2.24
2296 4529 6.312180 CAGTCGGAATAACTAACTTTGTACCC 59.688 42.308 0.00 0.00 0.00 3.69
2298 4531 5.047377 TCGGAATAACTAACTTTGTACCCGT 60.047 40.000 0.00 0.00 34.36 5.28
2314 4547 1.176527 CCGTCAAGGTTGGATGCAAT 58.823 50.000 1.94 0.00 34.51 3.56
2334 4567 1.202842 TCCGTACATCGAGGATGGCTA 60.203 52.381 3.06 0.00 43.60 3.93
2339 4572 0.319900 CATCGAGGATGGCTAACCGG 60.320 60.000 0.00 0.00 39.70 5.28
2348 4581 1.298667 GGCTAACCGGAGCTCCAAA 59.701 57.895 31.67 12.73 42.43 3.28
2353 4586 2.067365 AACCGGAGCTCCAAAAACTT 57.933 45.000 31.67 10.17 35.14 2.66
2363 4596 2.882137 CTCCAAAAACTTCAACCCGCTA 59.118 45.455 0.00 0.00 0.00 4.26
2376 4609 1.480954 ACCCGCTATCTGAACAATCGT 59.519 47.619 0.00 0.00 0.00 3.73
2378 4611 3.131577 ACCCGCTATCTGAACAATCGTAA 59.868 43.478 0.00 0.00 0.00 3.18
2384 4617 7.307396 CCGCTATCTGAACAATCGTAAAATCAT 60.307 37.037 0.00 0.00 0.00 2.45
2391 4624 9.914923 CTGAACAATCGTAAAATCATAAATCGA 57.085 29.630 0.00 0.00 0.00 3.59
2441 4728 1.807814 AGAGCACGAATTAGGGGGAT 58.192 50.000 0.00 0.00 0.00 3.85
2443 4730 0.393077 AGCACGAATTAGGGGGATCG 59.607 55.000 0.00 0.00 40.90 3.69
2449 4736 1.903183 GAATTAGGGGGATCGAGAGGG 59.097 57.143 0.00 0.00 0.00 4.30
2457 4748 1.036707 GGATCGAGAGGGTCCTTCTG 58.963 60.000 8.52 1.49 34.72 3.02
2483 4855 3.969287 TCCAGATGAACTCACAAGAGG 57.031 47.619 0.00 0.00 46.44 3.69
2496 4868 5.839606 ACTCACAAGAGGAAAGGTAGTAAGT 59.160 40.000 0.00 0.00 46.44 2.24
2516 4890 6.701145 AAGTATCTCTCGAATCTACAGCAA 57.299 37.500 0.00 0.00 0.00 3.91
2538 5117 2.009774 CTTGCCGCATAAGCTTGTAGT 58.990 47.619 9.86 0.00 39.10 2.73
2543 5124 5.361427 TGCCGCATAAGCTTGTAGTAAATA 58.639 37.500 9.86 0.00 39.10 1.40
2547 5128 7.345192 CCGCATAAGCTTGTAGTAAATAGTTG 58.655 38.462 9.86 0.00 39.10 3.16
2589 5525 6.374417 TGAGGGATATGAGGTTTTATAGCC 57.626 41.667 0.00 0.00 35.20 3.93
2606 5561 8.410673 TTTATAGCCAGGTGTGAAAATGTTTA 57.589 30.769 0.00 0.00 0.00 2.01
2607 5562 4.853924 AGCCAGGTGTGAAAATGTTTAG 57.146 40.909 0.00 0.00 0.00 1.85
2619 5574 9.255304 TGTGAAAATGTTTAGAAAATTACCAGC 57.745 29.630 0.00 0.00 0.00 4.85
2658 5765 3.444034 GGGGGAATAAGCTGTCAACTTTC 59.556 47.826 0.00 0.00 0.00 2.62
2659 5766 4.079253 GGGGAATAAGCTGTCAACTTTCA 58.921 43.478 0.00 0.00 0.00 2.69
2660 5767 4.522789 GGGGAATAAGCTGTCAACTTTCAA 59.477 41.667 0.00 0.00 0.00 2.69
2734 5933 5.064962 ACCTTCTACGAGAATGACTAGAACG 59.935 44.000 0.00 0.00 33.13 3.95
2744 5943 4.521130 ATGACTAGAACGCTTGACTCAA 57.479 40.909 0.00 0.00 0.00 3.02
2745 5944 4.316205 TGACTAGAACGCTTGACTCAAA 57.684 40.909 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
113 115 5.516996 TCCTATAGAACAAGATGTTACGCG 58.483 41.667 3.53 3.53 41.28 6.01
147 149 1.433121 ATGGCTCCAGAGGAAGATCC 58.567 55.000 0.00 0.00 36.58 3.36
165 167 3.577919 GAGGTCCAGGTACCACTCATAT 58.422 50.000 15.94 0.00 42.40 1.78
225 227 1.219213 AGGATCATCCTCTCGAACCCT 59.781 52.381 0.00 0.00 45.66 4.34
331 333 5.593010 ACGTTCTTATATCTCAAGGCAGAC 58.407 41.667 0.00 0.00 0.00 3.51
504 507 6.537301 TGCTAAGGACCAATAATACTTCAACG 59.463 38.462 0.00 0.00 0.00 4.10
505 508 7.859325 TGCTAAGGACCAATAATACTTCAAC 57.141 36.000 0.00 0.00 0.00 3.18
570 575 3.061831 CAGCTCGAAGTTTGCAGACATAG 59.938 47.826 10.36 0.00 0.00 2.23
575 580 1.953559 AACAGCTCGAAGTTTGCAGA 58.046 45.000 0.00 0.00 0.00 4.26
577 582 2.421775 TCAAAACAGCTCGAAGTTTGCA 59.578 40.909 10.02 0.00 37.94 4.08
589 595 4.574599 ACCAAGACATCTTCAAAACAGC 57.425 40.909 0.00 0.00 33.11 4.40
604 610 4.750833 TTTTTCCCCCATCTAACCAAGA 57.249 40.909 0.00 0.00 39.02 3.02
608 614 6.860790 TTAACATTTTTCCCCCATCTAACC 57.139 37.500 0.00 0.00 0.00 2.85
613 619 6.374053 CACCAATTTAACATTTTTCCCCCATC 59.626 38.462 0.00 0.00 0.00 3.51
618 624 6.203915 GGTGACACCAATTTAACATTTTTCCC 59.796 38.462 20.14 0.00 38.42 3.97
621 630 8.043710 TCAAGGTGACACCAATTTAACATTTTT 58.956 29.630 26.30 4.34 41.95 1.94
622 631 7.494298 GTCAAGGTGACACCAATTTAACATTTT 59.506 33.333 26.30 4.55 46.22 1.82
623 632 6.983890 GTCAAGGTGACACCAATTTAACATTT 59.016 34.615 26.30 5.06 46.22 2.32
624 633 6.512297 GTCAAGGTGACACCAATTTAACATT 58.488 36.000 26.30 5.80 46.22 2.71
646 655 2.215942 ACTTTGGGCTATTGTGGGTC 57.784 50.000 0.00 0.00 0.00 4.46
647 656 2.158385 TGAACTTTGGGCTATTGTGGGT 60.158 45.455 0.00 0.00 0.00 4.51
670 679 4.167307 TGACTTTAAGAAAGGAACTGGGGT 59.833 41.667 0.00 0.00 42.82 4.95
695 704 8.788806 ACATCGTTTGGAACATGTTTTCTTATA 58.211 29.630 13.36 0.00 39.30 0.98
696 705 7.657336 ACATCGTTTGGAACATGTTTTCTTAT 58.343 30.769 13.36 0.00 39.30 1.73
724 733 9.089601 CGTTTTTCCAGTAAACAAATTAAACCT 57.910 29.630 0.00 0.00 35.69 3.50
725 734 9.085250 TCGTTTTTCCAGTAAACAAATTAAACC 57.915 29.630 0.00 0.00 35.69 3.27
730 739 8.934507 TTCATCGTTTTTCCAGTAAACAAATT 57.065 26.923 0.00 0.00 35.69 1.82
731 740 8.934507 TTTCATCGTTTTTCCAGTAAACAAAT 57.065 26.923 0.00 0.00 35.69 2.32
732 741 8.758633 TTTTCATCGTTTTTCCAGTAAACAAA 57.241 26.923 0.00 0.00 35.69 2.83
733 742 8.758633 TTTTTCATCGTTTTTCCAGTAAACAA 57.241 26.923 0.00 0.00 35.69 2.83
749 758 1.606606 GCCGAGCAACTTTTTCATCG 58.393 50.000 0.00 0.00 0.00 3.84
843 852 2.951745 GAGCTGACCGACGATGCG 60.952 66.667 0.00 0.00 0.00 4.73
882 891 0.331954 TTGGTTTAATAGGCGGGCCA 59.668 50.000 12.97 0.00 38.92 5.36
887 896 1.329599 GCGGAGTTGGTTTAATAGGCG 59.670 52.381 0.00 0.00 0.00 5.52
895 904 2.561478 ACACATAGCGGAGTTGGTTT 57.439 45.000 0.00 0.00 0.00 3.27
1226 3124 3.970842 ACTCGTTCCTACTCCTGAGAAT 58.029 45.455 0.22 0.00 0.00 2.40
1550 3525 2.951745 GCGAGGCTGATGTCGTCG 60.952 66.667 0.00 0.00 42.54 5.12
1601 3576 1.009900 CGCGTACTCCGTCTCCATC 60.010 63.158 0.00 0.00 39.32 3.51
1750 3725 1.677300 CCGGTGTAATTGCCAGGCA 60.677 57.895 11.22 11.22 36.47 4.75
1756 3731 1.800681 GGCAGTCCGGTGTAATTGC 59.199 57.895 0.00 0.00 0.00 3.56
1811 3786 1.649390 CCGGACAGGAGACTCGACAG 61.649 65.000 0.00 0.00 45.00 3.51
1813 3788 1.242665 AACCGGACAGGAGACTCGAC 61.243 60.000 9.46 0.00 45.00 4.20
1814 3789 0.538977 AAACCGGACAGGAGACTCGA 60.539 55.000 9.46 0.00 45.00 4.04
1815 3790 0.317479 AAAACCGGACAGGAGACTCG 59.683 55.000 9.46 0.00 45.00 4.18
1816 3791 1.797025 CAAAACCGGACAGGAGACTC 58.203 55.000 9.46 0.00 45.00 3.36
1817 3792 0.250338 GCAAAACCGGACAGGAGACT 60.250 55.000 9.46 0.00 45.00 3.24
1818 3793 1.566018 CGCAAAACCGGACAGGAGAC 61.566 60.000 9.46 0.00 45.00 3.36
1819 3794 1.301401 CGCAAAACCGGACAGGAGA 60.301 57.895 9.46 0.00 45.00 3.71
1820 3795 1.164041 AACGCAAAACCGGACAGGAG 61.164 55.000 9.46 0.00 45.00 3.69
1821 3796 1.153127 AACGCAAAACCGGACAGGA 60.153 52.632 9.46 0.00 45.00 3.86
1823 3798 0.938713 TACAACGCAAAACCGGACAG 59.061 50.000 9.46 0.00 0.00 3.51
1824 3799 0.656785 GTACAACGCAAAACCGGACA 59.343 50.000 9.46 0.00 0.00 4.02
1825 3800 0.041047 GGTACAACGCAAAACCGGAC 60.041 55.000 9.46 0.00 0.00 4.79
2044 4156 3.133901 ACTGGTGTGTGTCTGTGTCATTA 59.866 43.478 0.00 0.00 0.00 1.90
2045 4157 2.092968 ACTGGTGTGTGTCTGTGTCATT 60.093 45.455 0.00 0.00 0.00 2.57
2046 4158 1.486310 ACTGGTGTGTGTCTGTGTCAT 59.514 47.619 0.00 0.00 0.00 3.06
2047 4159 0.901827 ACTGGTGTGTGTCTGTGTCA 59.098 50.000 0.00 0.00 0.00 3.58
2048 4160 2.024176 AACTGGTGTGTGTCTGTGTC 57.976 50.000 0.00 0.00 0.00 3.67
2075 4187 3.689649 GTCAGGTGTGTGTCTGTCTTTTT 59.310 43.478 0.00 0.00 33.13 1.94
2076 4188 3.270877 GTCAGGTGTGTGTCTGTCTTTT 58.729 45.455 0.00 0.00 33.13 2.27
2077 4189 2.738643 CGTCAGGTGTGTGTCTGTCTTT 60.739 50.000 0.00 0.00 33.13 2.52
2078 4190 1.202417 CGTCAGGTGTGTGTCTGTCTT 60.202 52.381 0.00 0.00 33.13 3.01
2079 4191 0.385751 CGTCAGGTGTGTGTCTGTCT 59.614 55.000 0.00 0.00 33.13 3.41
2080 4192 0.102481 ACGTCAGGTGTGTGTCTGTC 59.898 55.000 0.00 0.00 33.13 3.51
2081 4193 0.535335 AACGTCAGGTGTGTGTCTGT 59.465 50.000 0.00 0.00 33.13 3.41
2082 4194 1.593006 GAAACGTCAGGTGTGTGTCTG 59.407 52.381 0.00 0.00 0.00 3.51
2083 4195 1.480954 AGAAACGTCAGGTGTGTGTCT 59.519 47.619 0.00 0.00 0.00 3.41
2084 4196 1.935933 AGAAACGTCAGGTGTGTGTC 58.064 50.000 0.00 0.00 0.00 3.67
2085 4197 2.396590 AAGAAACGTCAGGTGTGTGT 57.603 45.000 0.00 0.00 0.00 3.72
2086 4198 2.542595 GGTAAGAAACGTCAGGTGTGTG 59.457 50.000 0.00 0.00 0.00 3.82
2087 4199 2.433239 AGGTAAGAAACGTCAGGTGTGT 59.567 45.455 0.00 0.00 0.00 3.72
2088 4200 3.107642 AGGTAAGAAACGTCAGGTGTG 57.892 47.619 0.00 0.00 0.00 3.82
2089 4201 3.006217 GGTAGGTAAGAAACGTCAGGTGT 59.994 47.826 0.00 0.00 0.00 4.16
2090 4202 3.582780 GGTAGGTAAGAAACGTCAGGTG 58.417 50.000 0.00 0.00 0.00 4.00
2091 4203 2.229784 CGGTAGGTAAGAAACGTCAGGT 59.770 50.000 0.00 0.00 0.00 4.00
2092 4204 2.489329 TCGGTAGGTAAGAAACGTCAGG 59.511 50.000 0.00 0.00 0.00 3.86
2093 4205 3.837213 TCGGTAGGTAAGAAACGTCAG 57.163 47.619 0.00 0.00 0.00 3.51
2094 4206 4.789012 AATCGGTAGGTAAGAAACGTCA 57.211 40.909 0.00 0.00 0.00 4.35
2095 4207 5.061435 GTGAAATCGGTAGGTAAGAAACGTC 59.939 44.000 0.00 0.00 0.00 4.34
2096 4208 4.925646 GTGAAATCGGTAGGTAAGAAACGT 59.074 41.667 0.00 0.00 0.00 3.99
2097 4209 4.030977 CGTGAAATCGGTAGGTAAGAAACG 59.969 45.833 0.00 0.00 0.00 3.60
2098 4210 4.201656 GCGTGAAATCGGTAGGTAAGAAAC 60.202 45.833 0.00 0.00 0.00 2.78
2099 4211 3.928375 GCGTGAAATCGGTAGGTAAGAAA 59.072 43.478 0.00 0.00 0.00 2.52
2100 4212 3.514645 GCGTGAAATCGGTAGGTAAGAA 58.485 45.455 0.00 0.00 0.00 2.52
2101 4213 2.478370 CGCGTGAAATCGGTAGGTAAGA 60.478 50.000 0.00 0.00 0.00 2.10
2102 4214 1.850441 CGCGTGAAATCGGTAGGTAAG 59.150 52.381 0.00 0.00 0.00 2.34
2103 4215 1.472082 TCGCGTGAAATCGGTAGGTAA 59.528 47.619 5.77 0.00 0.00 2.85
2104 4216 1.093972 TCGCGTGAAATCGGTAGGTA 58.906 50.000 5.77 0.00 0.00 3.08
2105 4217 0.244450 TTCGCGTGAAATCGGTAGGT 59.756 50.000 9.37 0.00 0.00 3.08
2106 4218 0.643820 GTTCGCGTGAAATCGGTAGG 59.356 55.000 13.92 0.00 35.46 3.18
2107 4219 0.293723 CGTTCGCGTGAAATCGGTAG 59.706 55.000 13.92 0.00 35.46 3.18
2108 4220 0.109827 TCGTTCGCGTGAAATCGGTA 60.110 50.000 13.92 0.00 42.11 4.02
2109 4221 0.734942 ATCGTTCGCGTGAAATCGGT 60.735 50.000 13.92 7.34 42.11 4.69
2110 4222 0.044161 GATCGTTCGCGTGAAATCGG 60.044 55.000 13.92 3.65 42.11 4.18
2111 4223 0.914551 AGATCGTTCGCGTGAAATCG 59.085 50.000 13.92 13.76 42.11 3.34
2112 4224 3.084278 CAAAGATCGTTCGCGTGAAATC 58.916 45.455 13.92 13.48 42.11 2.17
2113 4225 2.478894 ACAAAGATCGTTCGCGTGAAAT 59.521 40.909 13.92 4.12 42.11 2.17
2114 4226 1.862201 ACAAAGATCGTTCGCGTGAAA 59.138 42.857 13.92 0.00 42.11 2.69
2115 4227 1.191425 CACAAAGATCGTTCGCGTGAA 59.809 47.619 7.45 7.45 42.11 3.18
2116 4228 0.781787 CACAAAGATCGTTCGCGTGA 59.218 50.000 5.77 3.15 42.11 4.35
2117 4229 0.785708 GCACAAAGATCGTTCGCGTG 60.786 55.000 5.77 6.13 42.11 5.34
2118 4230 1.491563 GCACAAAGATCGTTCGCGT 59.508 52.632 5.77 0.00 42.11 6.01
2119 4231 1.225745 GGCACAAAGATCGTTCGCG 60.226 57.895 0.00 0.00 42.98 5.87
2120 4232 1.866237 TGGCACAAAGATCGTTCGC 59.134 52.632 4.35 4.35 31.92 4.70
2127 4239 5.977888 TCGTGTTCGGATGGCACAAAGAT 62.978 47.826 0.00 0.00 38.97 2.40
2128 4240 4.746496 TCGTGTTCGGATGGCACAAAGA 62.746 50.000 0.00 0.00 38.97 2.52
2129 4241 2.470509 TCGTGTTCGGATGGCACAAAG 61.471 52.381 0.00 0.00 38.97 2.77
2130 4242 0.533085 TCGTGTTCGGATGGCACAAA 60.533 50.000 0.00 0.00 38.97 2.83
2131 4243 0.533085 TTCGTGTTCGGATGGCACAA 60.533 50.000 0.00 0.00 38.97 3.33
2132 4244 0.321210 ATTCGTGTTCGGATGGCACA 60.321 50.000 0.00 0.00 39.60 4.57
2133 4245 0.373716 GATTCGTGTTCGGATGGCAC 59.626 55.000 0.00 0.00 35.18 5.01
2134 4246 0.036858 TGATTCGTGTTCGGATGGCA 60.037 50.000 0.00 0.00 35.18 4.92
2135 4247 0.373716 GTGATTCGTGTTCGGATGGC 59.626 55.000 0.00 0.00 35.18 4.40
2136 4248 1.660607 CTGTGATTCGTGTTCGGATGG 59.339 52.381 0.00 0.00 35.18 3.51
2137 4249 2.092681 CACTGTGATTCGTGTTCGGATG 59.907 50.000 0.32 0.00 35.18 3.51
2138 4250 2.337583 CACTGTGATTCGTGTTCGGAT 58.662 47.619 0.32 0.00 38.07 4.18
2139 4251 1.778334 CACTGTGATTCGTGTTCGGA 58.222 50.000 0.32 0.00 37.69 4.55
2140 4252 0.163788 GCACTGTGATTCGTGTTCGG 59.836 55.000 12.86 0.00 37.69 4.30
2141 4253 0.858583 TGCACTGTGATTCGTGTTCG 59.141 50.000 12.86 0.00 38.55 3.95
2142 4254 1.195448 CCTGCACTGTGATTCGTGTTC 59.805 52.381 12.86 0.00 33.78 3.18
2143 4255 1.229428 CCTGCACTGTGATTCGTGTT 58.771 50.000 12.86 0.00 33.78 3.32
2144 4256 0.603707 CCCTGCACTGTGATTCGTGT 60.604 55.000 12.86 0.00 33.78 4.49
2147 4259 2.743752 CGCCCTGCACTGTGATTCG 61.744 63.158 12.86 3.25 0.00 3.34
2166 4278 3.682436 GCACCTATCATGATGTGGTGACA 60.682 47.826 38.51 15.27 43.20 3.58
2188 4300 4.858935 ACGTGAACTCATTCAATGGTTTG 58.141 39.130 0.00 0.00 46.40 2.93
2194 4426 3.254060 CTCCGACGTGAACTCATTCAAT 58.746 45.455 0.00 0.00 46.40 2.57
2210 4443 2.764128 GATCAGGCCACCCTCCGA 60.764 66.667 5.01 0.00 40.33 4.55
2212 4445 1.274703 TGAAGATCAGGCCACCCTCC 61.275 60.000 5.01 0.00 40.33 4.30
2254 4487 4.500545 CCGACTGCTTGCATCTAGTTATCT 60.501 45.833 0.00 0.00 0.00 1.98
2264 4497 2.991250 AGTTATTCCGACTGCTTGCAT 58.009 42.857 0.00 0.00 0.00 3.96
2274 4507 5.047377 ACGGGTACAAAGTTAGTTATTCCGA 60.047 40.000 0.00 0.00 36.80 4.55
2278 4511 6.652062 CCTTGACGGGTACAAAGTTAGTTATT 59.348 38.462 0.00 0.00 0.00 1.40
2286 4519 2.567985 CAACCTTGACGGGTACAAAGT 58.432 47.619 0.00 0.00 38.87 2.66
2296 4529 2.549633 GATTGCATCCAACCTTGACG 57.450 50.000 0.00 0.00 32.95 4.35
2314 4547 0.467474 AGCCATCCTCGATGTACGGA 60.467 55.000 1.26 0.00 38.28 4.69
2323 4556 1.364171 CTCCGGTTAGCCATCCTCG 59.636 63.158 0.00 0.00 34.09 4.63
2325 4558 1.383248 AGCTCCGGTTAGCCATCCT 60.383 57.895 11.34 0.00 43.86 3.24
2334 4567 1.954382 GAAGTTTTTGGAGCTCCGGTT 59.046 47.619 27.43 13.52 39.43 4.44
2339 4572 2.287608 CGGGTTGAAGTTTTTGGAGCTC 60.288 50.000 4.71 4.71 0.00 4.09
2348 4581 3.695830 TCAGATAGCGGGTTGAAGTTT 57.304 42.857 0.00 0.00 0.00 2.66
2353 4586 3.531538 GATTGTTCAGATAGCGGGTTGA 58.468 45.455 0.00 0.00 0.00 3.18
2378 4611 8.343168 TGTGGGTTAGTTTCGATTTATGATTT 57.657 30.769 0.00 0.00 0.00 2.17
2384 4617 9.064706 TGTTTTATGTGGGTTAGTTTCGATTTA 57.935 29.630 0.00 0.00 0.00 1.40
2388 4621 6.238703 GGTTGTTTTATGTGGGTTAGTTTCGA 60.239 38.462 0.00 0.00 0.00 3.71
2391 4624 6.608002 TCTGGTTGTTTTATGTGGGTTAGTTT 59.392 34.615 0.00 0.00 0.00 2.66
2392 4625 6.130569 TCTGGTTGTTTTATGTGGGTTAGTT 58.869 36.000 0.00 0.00 0.00 2.24
2441 4728 0.612174 CACCAGAAGGACCCTCTCGA 60.612 60.000 0.00 0.00 38.69 4.04
2443 4730 1.645710 TTCACCAGAAGGACCCTCTC 58.354 55.000 0.00 0.00 38.69 3.20
2457 4748 3.942829 TGTGAGTTCATCTGGATTCACC 58.057 45.455 10.56 0.00 38.62 4.02
2467 4758 4.646572 ACCTTTCCTCTTGTGAGTTCATC 58.353 43.478 0.00 0.00 38.61 2.92
2483 4855 9.059260 AGATTCGAGAGATACTTACTACCTTTC 57.941 37.037 0.00 0.00 41.60 2.62
2496 4868 7.366513 CAAGATTGCTGTAGATTCGAGAGATA 58.633 38.462 0.00 0.00 41.60 1.98
2516 4890 1.755179 ACAAGCTTATGCGGCAAGAT 58.245 45.000 6.82 0.00 45.42 2.40
2523 4897 7.223971 TCCAACTATTTACTACAAGCTTATGCG 59.776 37.037 0.00 0.00 45.42 4.73
2543 5124 9.401058 CTCATCCTTTAAGAAATATGTCCAACT 57.599 33.333 0.00 0.00 0.00 3.16
2547 5128 7.518188 TCCCTCATCCTTTAAGAAATATGTCC 58.482 38.462 0.00 0.00 0.00 4.02
2558 5232 7.465900 AAACCTCATATCCCTCATCCTTTAA 57.534 36.000 0.00 0.00 0.00 1.52
2561 5235 7.654287 ATAAAACCTCATATCCCTCATCCTT 57.346 36.000 0.00 0.00 0.00 3.36
2568 5242 5.251700 CCTGGCTATAAAACCTCATATCCCT 59.748 44.000 0.00 0.00 0.00 4.20
2606 5561 4.098501 GCCATGCTAAGCTGGTAATTTTCT 59.901 41.667 0.00 0.00 34.86 2.52
2607 5562 4.098501 AGCCATGCTAAGCTGGTAATTTTC 59.901 41.667 0.00 0.00 36.99 2.29
2615 5570 0.106819 AGGAAGCCATGCTAAGCTGG 60.107 55.000 0.00 0.00 38.25 4.85
2618 5573 0.743097 CCAAGGAAGCCATGCTAAGC 59.257 55.000 0.00 0.00 38.25 3.09
2619 5574 1.396653 CCCAAGGAAGCCATGCTAAG 58.603 55.000 0.00 0.00 38.25 2.18
2658 5765 3.548818 CGAGGAGCTTTCCAACAACTTTG 60.549 47.826 0.00 0.00 0.00 2.77
2659 5766 2.618709 CGAGGAGCTTTCCAACAACTTT 59.381 45.455 0.00 0.00 0.00 2.66
2660 5767 2.158813 TCGAGGAGCTTTCCAACAACTT 60.159 45.455 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.