Multiple sequence alignment - TraesCS2D01G413800

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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 TraesCS2D01G413800 chr2D 100.000 2641 0 0 1 2641 528088142 528090782 0.000000e+00 4878.0
1 TraesCS2D01G413800 chr2D 93.146 890 53 3 1758 2641 25358838 25359725 0.000000e+00 1299.0
2 TraesCS2D01G413800 chr2D 92.729 894 55 6 1755 2641 517180530 517179640 0.000000e+00 1282.0
3 TraesCS2D01G413800 chr2D 92.402 895 56 9 1757 2641 643680148 643681040 0.000000e+00 1266.0
4 TraesCS2D01G413800 chr7D 93.266 891 52 3 1757 2641 115039098 115038210 0.000000e+00 1306.0
5 TraesCS2D01G413800 chr7D 92.945 893 53 5 1757 2641 277548614 277547724 0.000000e+00 1291.0
6 TraesCS2D01G413800 chr7D 92.368 891 62 1 1757 2641 121037104 121036214 0.000000e+00 1264.0
7 TraesCS2D01G413800 chr3D 93.607 876 47 4 1774 2641 486728328 486729202 0.000000e+00 1299.0
8 TraesCS2D01G413800 chr3D 92.120 901 57 6 1755 2641 165464150 165463250 0.000000e+00 1258.0
9 TraesCS2D01G413800 chr1D 92.282 894 53 4 1757 2640 213338281 213337394 0.000000e+00 1254.0
10 TraesCS2D01G413800 chr2A 84.669 1011 87 38 789 1757 672939051 672940035 0.000000e+00 946.0
11 TraesCS2D01G413800 chr2A 84.895 523 45 16 73 580 672935674 672936177 5.080000e-137 497.0
12 TraesCS2D01G413800 chr2B 83.850 452 59 6 1171 1615 626056990 626057434 4.070000e-113 418.0
13 TraesCS2D01G413800 chr2B 86.260 393 25 17 776 1160 626042624 626042995 1.470000e-107 399.0
14 TraesCS2D01G413800 chr2B 95.495 111 4 1 1647 1757 626057433 626057542 2.700000e-40 176.0
15 TraesCS2D01G413800 chr4A 74.074 243 40 18 1169 1398 683930073 683930305 7.840000e-11 78.7
16 TraesCS2D01G413800 chr4A 87.273 55 6 1 142 196 707249765 707249712 7.890000e-06 62.1
17 TraesCS2D01G413800 chr4B 91.837 49 4 0 1170 1218 601775209 601775257 4.720000e-08 69.4
18 TraesCS2D01G413800 chr1B 77.049 122 26 2 1169 1289 637948914 637949034 4.720000e-08 69.4
19 TraesCS2D01G413800 chr1A 97.222 36 1 0 1169 1204 554875467 554875502 7.890000e-06 62.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G413800 chr2D 528088142 528090782 2640 False 4878.0 4878 100.0000 1 2641 1 chr2D.!!$F2 2640
1 TraesCS2D01G413800 chr2D 25358838 25359725 887 False 1299.0 1299 93.1460 1758 2641 1 chr2D.!!$F1 883
2 TraesCS2D01G413800 chr2D 517179640 517180530 890 True 1282.0 1282 92.7290 1755 2641 1 chr2D.!!$R1 886
3 TraesCS2D01G413800 chr2D 643680148 643681040 892 False 1266.0 1266 92.4020 1757 2641 1 chr2D.!!$F3 884
4 TraesCS2D01G413800 chr7D 115038210 115039098 888 True 1306.0 1306 93.2660 1757 2641 1 chr7D.!!$R1 884
5 TraesCS2D01G413800 chr7D 277547724 277548614 890 True 1291.0 1291 92.9450 1757 2641 1 chr7D.!!$R3 884
6 TraesCS2D01G413800 chr7D 121036214 121037104 890 True 1264.0 1264 92.3680 1757 2641 1 chr7D.!!$R2 884
7 TraesCS2D01G413800 chr3D 486728328 486729202 874 False 1299.0 1299 93.6070 1774 2641 1 chr3D.!!$F1 867
8 TraesCS2D01G413800 chr3D 165463250 165464150 900 True 1258.0 1258 92.1200 1755 2641 1 chr3D.!!$R1 886
9 TraesCS2D01G413800 chr1D 213337394 213338281 887 True 1254.0 1254 92.2820 1757 2640 1 chr1D.!!$R1 883
10 TraesCS2D01G413800 chr2A 672935674 672940035 4361 False 721.5 946 84.7820 73 1757 2 chr2A.!!$F1 1684
11 TraesCS2D01G413800 chr2B 626056990 626057542 552 False 297.0 418 89.6725 1171 1757 2 chr2B.!!$F2 586

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
46 47 0.109597 CAATTGCCTGGCGTCAAGAC 60.110 55.0 14.98 0.0 0.00 3.01 F
787 901 0.171231 TTCTCATGTCAGAGTCGCCG 59.829 55.0 0.00 0.0 36.97 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1037 3739 0.106819 ACAGCAATGGGAGATGGAGC 60.107 55.0 0.0 0.0 0.0 4.70 R
1772 4525 0.687354 GAGAAGGTCTGTTGGAGGCA 59.313 55.0 0.0 0.0 0.0 4.75 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
40 41 3.379880 AATGCAATTGCCTGGCGT 58.620 50.000 26.94 1.92 41.18 5.68
41 42 1.216178 AATGCAATTGCCTGGCGTC 59.784 52.632 26.94 1.53 41.18 5.19
42 43 1.534336 AATGCAATTGCCTGGCGTCA 61.534 50.000 26.94 6.63 41.18 4.35
43 44 1.534336 ATGCAATTGCCTGGCGTCAA 61.534 50.000 26.94 5.86 41.18 3.18
44 45 1.444895 GCAATTGCCTGGCGTCAAG 60.445 57.895 20.06 3.94 34.31 3.02
45 46 1.865788 GCAATTGCCTGGCGTCAAGA 61.866 55.000 20.06 0.00 34.31 3.02
46 47 0.109597 CAATTGCCTGGCGTCAAGAC 60.110 55.000 14.98 0.00 0.00 3.01
47 48 0.250901 AATTGCCTGGCGTCAAGACT 60.251 50.000 14.98 0.00 0.00 3.24
48 49 0.250901 ATTGCCTGGCGTCAAGACTT 60.251 50.000 14.98 0.00 0.00 3.01
49 50 0.465460 TTGCCTGGCGTCAAGACTTT 60.465 50.000 14.98 0.00 0.00 2.66
50 51 0.465460 TGCCTGGCGTCAAGACTTTT 60.465 50.000 14.98 0.00 0.00 2.27
51 52 0.668535 GCCTGGCGTCAAGACTTTTT 59.331 50.000 1.35 0.00 0.00 1.94
52 53 1.877443 GCCTGGCGTCAAGACTTTTTA 59.123 47.619 1.35 0.00 0.00 1.52
53 54 2.292292 GCCTGGCGTCAAGACTTTTTAA 59.708 45.455 1.35 0.00 0.00 1.52
54 55 3.243267 GCCTGGCGTCAAGACTTTTTAAA 60.243 43.478 1.35 0.00 0.00 1.52
55 56 4.558697 GCCTGGCGTCAAGACTTTTTAAAT 60.559 41.667 1.35 0.00 0.00 1.40
56 57 5.154222 CCTGGCGTCAAGACTTTTTAAATC 58.846 41.667 0.00 0.00 0.00 2.17
57 58 5.116069 TGGCGTCAAGACTTTTTAAATCC 57.884 39.130 0.00 0.00 0.00 3.01
58 59 4.580995 TGGCGTCAAGACTTTTTAAATCCA 59.419 37.500 0.00 0.00 0.00 3.41
59 60 5.067936 TGGCGTCAAGACTTTTTAAATCCAA 59.932 36.000 0.00 0.00 0.00 3.53
60 61 5.980715 GGCGTCAAGACTTTTTAAATCCAAA 59.019 36.000 0.00 0.00 0.00 3.28
61 62 6.477360 GGCGTCAAGACTTTTTAAATCCAAAA 59.523 34.615 0.00 0.00 0.00 2.44
62 63 7.334749 GCGTCAAGACTTTTTAAATCCAAAAC 58.665 34.615 0.00 0.00 0.00 2.43
63 64 7.516155 GCGTCAAGACTTTTTAAATCCAAAACC 60.516 37.037 0.00 0.00 0.00 3.27
64 65 7.704899 CGTCAAGACTTTTTAAATCCAAAACCT 59.295 33.333 0.00 0.00 0.00 3.50
65 66 9.378551 GTCAAGACTTTTTAAATCCAAAACCTT 57.621 29.630 0.00 0.00 0.00 3.50
66 67 9.377312 TCAAGACTTTTTAAATCCAAAACCTTG 57.623 29.630 0.00 0.00 34.71 3.61
67 68 9.161629 CAAGACTTTTTAAATCCAAAACCTTGT 57.838 29.630 0.00 0.00 32.28 3.16
70 71 9.811995 GACTTTTTAAATCCAAAACCTTGTAGT 57.188 29.630 0.00 0.00 0.00 2.73
71 72 9.594478 ACTTTTTAAATCCAAAACCTTGTAGTG 57.406 29.630 0.00 0.00 0.00 2.74
82 83 7.391620 CAAAACCTTGTAGTGGTAGATTAGGA 58.608 38.462 0.00 0.00 36.69 2.94
89 90 6.679542 TGTAGTGGTAGATTAGGAGATTCCA 58.320 40.000 0.00 0.00 39.61 3.53
90 91 6.550108 TGTAGTGGTAGATTAGGAGATTCCAC 59.450 42.308 0.00 0.00 39.61 4.02
97 98 6.987403 AGATTAGGAGATTCCACCTTCTAC 57.013 41.667 5.53 0.00 39.61 2.59
99 100 3.383698 AGGAGATTCCACCTTCTACGA 57.616 47.619 0.00 0.00 39.61 3.43
103 104 4.261825 GGAGATTCCACCTTCTACGATCTG 60.262 50.000 0.00 0.00 36.28 2.90
122 123 2.471255 CGAAGCAAATCTCCGCCTT 58.529 52.632 0.00 0.00 0.00 4.35
136 137 2.162681 CCGCCTTGGAGAAGAAAATGT 58.837 47.619 0.00 0.00 42.00 2.71
142 143 6.349280 CGCCTTGGAGAAGAAAATGTTGATAA 60.349 38.462 0.00 0.00 0.00 1.75
143 144 7.031975 GCCTTGGAGAAGAAAATGTTGATAAG 58.968 38.462 0.00 0.00 0.00 1.73
144 145 7.094205 GCCTTGGAGAAGAAAATGTTGATAAGA 60.094 37.037 0.00 0.00 0.00 2.10
145 146 8.457261 CCTTGGAGAAGAAAATGTTGATAAGAG 58.543 37.037 0.00 0.00 0.00 2.85
146 147 8.924511 TTGGAGAAGAAAATGTTGATAAGAGT 57.075 30.769 0.00 0.00 0.00 3.24
147 148 8.553459 TGGAGAAGAAAATGTTGATAAGAGTC 57.447 34.615 0.00 0.00 0.00 3.36
148 149 8.378565 TGGAGAAGAAAATGTTGATAAGAGTCT 58.621 33.333 0.00 0.00 0.00 3.24
149 150 8.663911 GGAGAAGAAAATGTTGATAAGAGTCTG 58.336 37.037 0.00 0.00 0.00 3.51
150 151 9.213799 GAGAAGAAAATGTTGATAAGAGTCTGT 57.786 33.333 0.00 0.00 0.00 3.41
175 176 2.639065 ACTTCAAAGACCACGAAAGCA 58.361 42.857 0.00 0.00 0.00 3.91
187 188 2.416547 CACGAAAGCAGGTCGAATTCAT 59.583 45.455 6.22 0.00 41.02 2.57
196 197 3.928992 CAGGTCGAATTCATATGGATCCG 59.071 47.826 7.39 0.00 0.00 4.18
198 199 2.673368 GTCGAATTCATATGGATCCGCC 59.327 50.000 7.39 0.00 37.10 6.13
212 213 0.766131 TCCGCCTGAAACCTAAACCA 59.234 50.000 0.00 0.00 0.00 3.67
222 223 0.622136 ACCTAAACCAACCGGATCCC 59.378 55.000 9.46 0.00 35.59 3.85
223 224 0.916809 CCTAAACCAACCGGATCCCT 59.083 55.000 9.46 0.00 35.59 4.20
254 255 2.743195 GAGACACGACTCCACATGC 58.257 57.895 0.00 0.00 0.00 4.06
256 257 1.741770 GACACGACTCCACATGCCC 60.742 63.158 0.00 0.00 0.00 5.36
260 261 1.296392 CGACTCCACATGCCCTTCA 59.704 57.895 0.00 0.00 0.00 3.02
274 275 1.867233 CCCTTCATCGGCGATAAACAG 59.133 52.381 23.53 14.62 0.00 3.16
289 290 6.128391 GCGATAAACAGAACAATGTAACTGGA 60.128 38.462 18.96 8.79 31.70 3.86
292 293 9.612620 GATAAACAGAACAATGTAACTGGAAAG 57.387 33.333 18.96 1.41 31.70 2.62
293 294 7.639113 AAACAGAACAATGTAACTGGAAAGA 57.361 32.000 18.96 0.00 31.70 2.52
295 296 5.239525 ACAGAACAATGTAACTGGAAAGAGC 59.760 40.000 18.96 0.00 0.00 4.09
296 297 4.452455 AGAACAATGTAACTGGAAAGAGCG 59.548 41.667 0.00 0.00 0.00 5.03
298 299 3.997021 ACAATGTAACTGGAAAGAGCGAG 59.003 43.478 0.00 0.00 0.00 5.03
299 300 4.245660 CAATGTAACTGGAAAGAGCGAGA 58.754 43.478 0.00 0.00 0.00 4.04
302 303 3.572682 TGTAACTGGAAAGAGCGAGAGAA 59.427 43.478 0.00 0.00 0.00 2.87
303 304 2.734276 ACTGGAAAGAGCGAGAGAAC 57.266 50.000 0.00 0.00 0.00 3.01
305 306 2.564947 ACTGGAAAGAGCGAGAGAACAT 59.435 45.455 0.00 0.00 0.00 2.71
306 307 3.007398 ACTGGAAAGAGCGAGAGAACATT 59.993 43.478 0.00 0.00 0.00 2.71
319 330 3.448660 AGAGAACATTATTGGGGCAAAGC 59.551 43.478 0.00 0.00 0.00 3.51
333 344 3.509137 AAAGCCGTCGCCTCGTTGA 62.509 57.895 0.00 0.00 34.57 3.18
362 373 4.069304 CCAAACACGATGACTCCCTAAAA 58.931 43.478 0.00 0.00 0.00 1.52
399 410 0.671163 CACCCATGTTGTTGCATGCC 60.671 55.000 16.68 0.28 43.46 4.40
417 428 1.945387 CCAGGTCCGAGATTGATGTG 58.055 55.000 0.00 0.00 0.00 3.21
424 435 3.806521 GTCCGAGATTGATGTGGAGATTG 59.193 47.826 0.00 0.00 0.00 2.67
430 441 1.451927 GATGTGGAGATTGCCGCCA 60.452 57.895 0.00 0.00 42.69 5.69
431 442 1.442526 GATGTGGAGATTGCCGCCAG 61.443 60.000 0.00 0.00 45.58 4.85
432 443 1.913951 ATGTGGAGATTGCCGCCAGA 61.914 55.000 0.00 0.00 45.58 3.86
456 472 1.444553 CGCCGACGCTCTCTTCTTT 60.445 57.895 0.00 0.00 0.00 2.52
497 513 0.946700 TTTCGTTGAAGATCGCCGCA 60.947 50.000 0.00 0.00 0.00 5.69
503 519 2.806856 GAAGATCGCCGCACTGCAG 61.807 63.158 13.48 13.48 0.00 4.41
510 526 4.332637 CCGCACTGCAGCACCAAC 62.333 66.667 15.27 0.00 0.00 3.77
561 577 0.518636 CAACTTGGCCACACATCTCG 59.481 55.000 3.88 0.00 0.00 4.04
564 580 1.003839 TTGGCCACACATCTCGGTC 60.004 57.895 3.88 0.00 0.00 4.79
652 766 1.159664 ACACCCTGGAGCCTCTCTT 59.840 57.895 0.00 0.00 0.00 2.85
661 775 1.609320 GGAGCCTCTCTTGCGAAAACT 60.609 52.381 0.00 0.00 0.00 2.66
666 780 3.243068 GCCTCTCTTGCGAAAACTTTTCA 60.243 43.478 13.46 0.00 0.00 2.69
668 782 4.972440 CCTCTCTTGCGAAAACTTTTCAAG 59.028 41.667 13.46 10.72 34.89 3.02
674 788 2.346649 GCGAAAACTTTTCAAGCTTGCG 60.347 45.455 21.99 15.86 38.38 4.85
693 807 0.843872 GTTTGTTTCGAGCCGTTTGC 59.156 50.000 0.00 0.00 41.71 3.68
713 827 8.970220 CGTTTGCGAAATTGAGAAATTCTCAGG 61.970 40.741 22.79 13.27 46.46 3.86
740 854 4.501071 TGAGAATTAGTAGTTCCGGCAAC 58.499 43.478 0.00 2.25 34.86 4.17
745 859 6.263617 AGAATTAGTAGTTCCGGCAACAAAAA 59.736 34.615 15.94 7.48 37.48 1.94
784 898 8.417780 AATTAGAAATTCTCATGTCAGAGTCG 57.582 34.615 0.00 0.00 36.97 4.18
785 899 4.180057 AGAAATTCTCATGTCAGAGTCGC 58.820 43.478 0.00 0.00 36.97 5.19
787 901 0.171231 TTCTCATGTCAGAGTCGCCG 59.829 55.000 0.00 0.00 36.97 6.46
865 3560 5.181245 TCATTAGAAGAACCTTTTGGCTTCG 59.819 40.000 0.00 0.00 45.59 3.79
866 3561 1.609072 AGAAGAACCTTTTGGCTTCGC 59.391 47.619 0.00 0.00 45.59 4.70
925 3621 3.893763 CGCCGGCCACACACAAAA 61.894 61.111 23.46 0.00 0.00 2.44
926 3622 2.733945 GCCGGCCACACACAAAAT 59.266 55.556 18.11 0.00 0.00 1.82
927 3623 1.068921 GCCGGCCACACACAAAATT 59.931 52.632 18.11 0.00 0.00 1.82
928 3624 1.220817 GCCGGCCACACACAAAATTG 61.221 55.000 18.11 0.00 0.00 2.32
929 3625 0.387202 CCGGCCACACACAAAATTGA 59.613 50.000 2.24 0.00 0.00 2.57
955 3657 2.059541 GTATGCGTCTCCTTAATCGCC 58.940 52.381 5.98 0.00 46.57 5.54
963 3665 2.237751 CCTTAATCGCCGGACGCTG 61.238 63.158 5.05 0.00 43.23 5.18
994 3696 1.727511 TAAATGCAGCAGCGGCCATC 61.728 55.000 15.45 0.00 46.23 3.51
1022 3724 0.315886 TAAGAACCTCACGAGCGCAA 59.684 50.000 11.47 0.00 0.00 4.85
1023 3725 1.222115 AAGAACCTCACGAGCGCAAC 61.222 55.000 11.47 1.68 0.00 4.17
1024 3726 1.954146 GAACCTCACGAGCGCAACA 60.954 57.895 11.47 0.00 0.00 3.33
1025 3727 2.159272 GAACCTCACGAGCGCAACAC 62.159 60.000 11.47 0.00 0.00 3.32
1026 3728 2.356313 CCTCACGAGCGCAACACT 60.356 61.111 11.47 0.00 0.00 3.55
1027 3729 1.080772 CCTCACGAGCGCAACACTA 60.081 57.895 11.47 0.00 0.00 2.74
1028 3730 1.073216 CCTCACGAGCGCAACACTAG 61.073 60.000 11.47 0.00 0.00 2.57
1029 3731 0.387367 CTCACGAGCGCAACACTAGT 60.387 55.000 11.47 0.00 0.00 2.57
1030 3732 0.386858 TCACGAGCGCAACACTAGTC 60.387 55.000 11.47 0.00 0.00 2.59
1031 3733 1.080705 ACGAGCGCAACACTAGTCC 60.081 57.895 11.47 0.00 0.00 3.85
1032 3734 2.152699 CGAGCGCAACACTAGTCCG 61.153 63.158 11.47 0.00 0.00 4.79
1033 3735 1.805945 GAGCGCAACACTAGTCCGG 60.806 63.158 11.47 0.00 0.00 5.14
1035 3737 3.179265 CGCAACACTAGTCCGGCG 61.179 66.667 14.64 14.64 36.74 6.46
1036 3738 3.488090 GCAACACTAGTCCGGCGC 61.488 66.667 0.00 0.00 0.00 6.53
1037 3739 3.179265 CAACACTAGTCCGGCGCG 61.179 66.667 0.00 0.00 0.00 6.86
1063 3778 2.265367 TCTCCCATTGCTGTAACCTGA 58.735 47.619 0.00 0.00 0.00 3.86
1067 3782 4.973168 TCCCATTGCTGTAACCTGATATC 58.027 43.478 0.00 0.00 0.00 1.63
1069 3784 3.748048 CCATTGCTGTAACCTGATATCCG 59.252 47.826 0.00 0.00 0.00 4.18
1221 3936 0.824109 CCGCATGAAGGGACTCTACA 59.176 55.000 0.00 0.00 38.49 2.74
1223 3938 2.158900 CCGCATGAAGGGACTCTACATT 60.159 50.000 0.00 0.00 38.49 2.71
1235 3950 5.127682 GGGACTCTACATTGGCAAATTCATT 59.872 40.000 3.01 0.00 0.00 2.57
1290 4005 1.382009 TGCCTGCGATACTACCCCA 60.382 57.895 0.00 0.00 0.00 4.96
1297 4012 1.535437 GCGATACTACCCCAACAGTCG 60.535 57.143 0.00 0.00 0.00 4.18
1298 4013 2.019249 CGATACTACCCCAACAGTCGA 58.981 52.381 0.00 0.00 0.00 4.20
1299 4014 2.033049 CGATACTACCCCAACAGTCGAG 59.967 54.545 0.00 0.00 0.00 4.04
1302 4017 1.203025 ACTACCCCAACAGTCGAGACT 60.203 52.381 0.00 0.00 43.61 3.24
1303 4018 1.893801 CTACCCCAACAGTCGAGACTT 59.106 52.381 2.55 0.00 40.20 3.01
1306 4021 0.314302 CCCAACAGTCGAGACTTCGT 59.686 55.000 2.55 0.00 46.72 3.85
1308 4023 2.582687 CCAACAGTCGAGACTTCGTAC 58.417 52.381 2.55 0.00 46.72 3.67
1309 4024 2.231693 CAACAGTCGAGACTTCGTACG 58.768 52.381 9.53 9.53 46.72 3.67
1311 4026 2.344950 ACAGTCGAGACTTCGTACGAT 58.655 47.619 20.27 4.66 46.72 3.73
1312 4027 3.515630 ACAGTCGAGACTTCGTACGATA 58.484 45.455 20.27 9.20 46.72 2.92
1314 4029 2.533535 AGTCGAGACTTCGTACGATACG 59.466 50.000 20.27 18.25 46.72 3.06
1315 4030 5.107269 AGTCGAGACTTCGTACGATACGC 62.107 52.174 20.27 13.37 46.72 4.42
1322 4040 2.354305 GTACGATACGCCGGCTGG 60.354 66.667 26.68 12.89 38.77 4.85
1328 4046 0.525668 GATACGCCGGCTGGATATCG 60.526 60.000 26.68 12.07 37.49 2.92
1357 4075 0.904865 TGTCTTGATCCCAGCGAGGT 60.905 55.000 0.00 0.00 34.66 3.85
1369 4104 1.733399 GCGAGGTCGGTGAAGTCAC 60.733 63.158 2.69 2.69 45.72 3.67
1379 4114 1.699343 GTGAAGTCACGGCAGAGTAC 58.301 55.000 0.00 0.00 37.10 2.73
1380 4115 1.000607 GTGAAGTCACGGCAGAGTACA 60.001 52.381 0.00 0.00 37.10 2.90
1381 4116 1.684450 TGAAGTCACGGCAGAGTACAA 59.316 47.619 0.00 0.00 0.00 2.41
1382 4117 2.288213 TGAAGTCACGGCAGAGTACAAG 60.288 50.000 0.00 0.00 0.00 3.16
1383 4118 1.617322 AGTCACGGCAGAGTACAAGA 58.383 50.000 0.00 0.00 0.00 3.02
1384 4119 2.171840 AGTCACGGCAGAGTACAAGAT 58.828 47.619 0.00 0.00 0.00 2.40
1385 4120 2.164624 AGTCACGGCAGAGTACAAGATC 59.835 50.000 0.00 0.00 0.00 2.75
1386 4121 2.094700 GTCACGGCAGAGTACAAGATCA 60.095 50.000 0.00 0.00 0.00 2.92
1398 4133 1.718396 CAAGATCAGCTTGCTCGACA 58.282 50.000 0.00 0.00 46.67 4.35
1401 4136 2.771089 AGATCAGCTTGCTCGACAAAA 58.229 42.857 0.00 0.00 37.96 2.44
1435 4170 2.048503 ACGCTTCGTCCGGGAAAG 60.049 61.111 0.00 0.60 33.69 2.62
1437 4172 2.358247 GCTTCGTCCGGGAAAGCA 60.358 61.111 22.58 1.58 0.00 3.91
1439 4174 1.512156 GCTTCGTCCGGGAAAGCAAA 61.512 55.000 22.58 3.87 0.00 3.68
1440 4175 0.948678 CTTCGTCCGGGAAAGCAAAA 59.051 50.000 0.00 0.00 0.00 2.44
1444 4183 1.037493 GTCCGGGAAAGCAAAACCTT 58.963 50.000 0.00 0.00 0.00 3.50
1457 4196 2.200373 AAACCTTGACATTCTCCGGG 57.800 50.000 0.00 0.00 0.00 5.73
1460 4199 1.279271 ACCTTGACATTCTCCGGGAAG 59.721 52.381 0.00 0.00 37.36 3.46
1462 4201 0.690192 TTGACATTCTCCGGGAAGCA 59.310 50.000 0.00 2.05 37.36 3.91
1471 4210 2.032528 CGGGAAGCAAGAGCCACA 59.967 61.111 0.00 0.00 43.56 4.17
1472 4211 1.377725 CGGGAAGCAAGAGCCACAT 60.378 57.895 0.00 0.00 43.56 3.21
1473 4212 0.107703 CGGGAAGCAAGAGCCACATA 60.108 55.000 0.00 0.00 43.56 2.29
1474 4213 1.475751 CGGGAAGCAAGAGCCACATAT 60.476 52.381 0.00 0.00 43.56 1.78
1475 4214 2.225467 GGGAAGCAAGAGCCACATATC 58.775 52.381 0.00 0.00 43.56 1.63
1476 4215 2.421952 GGGAAGCAAGAGCCACATATCA 60.422 50.000 0.00 0.00 43.56 2.15
1480 4219 1.473257 GCAAGAGCCACATATCACCGA 60.473 52.381 0.00 0.00 33.58 4.69
1485 4224 2.037772 GAGCCACATATCACCGATTCCT 59.962 50.000 0.00 0.00 0.00 3.36
1487 4226 3.006967 AGCCACATATCACCGATTCCTAC 59.993 47.826 0.00 0.00 0.00 3.18
1489 4228 3.323691 CCACATATCACCGATTCCTACCA 59.676 47.826 0.00 0.00 0.00 3.25
1491 4230 3.323979 ACATATCACCGATTCCTACCACC 59.676 47.826 0.00 0.00 0.00 4.61
1513 4252 2.237143 TCATCACTAAGGCAGAACTGGG 59.763 50.000 3.99 0.00 0.00 4.45
1516 4255 1.065854 CACTAAGGCAGAACTGGGGAG 60.066 57.143 3.99 0.00 0.00 4.30
1518 4257 1.208293 CTAAGGCAGAACTGGGGAGTC 59.792 57.143 3.99 0.00 0.00 3.36
1519 4258 0.474660 AAGGCAGAACTGGGGAGTCT 60.475 55.000 3.99 0.00 0.00 3.24
1522 4261 0.537653 GCAGAACTGGGGAGTCTACC 59.462 60.000 0.00 0.00 0.00 3.18
1629 4375 2.991190 GTCGAGCGTGGTATCAAGAAAA 59.009 45.455 0.00 0.00 0.00 2.29
1639 4385 6.872020 CGTGGTATCAAGAAAAAGACCTTCTA 59.128 38.462 0.00 0.00 32.77 2.10
1784 4537 2.356278 GGCCATGCCTCCAACAGA 59.644 61.111 0.00 0.00 46.69 3.41
2062 4820 4.896829 CTCCCTCCCGCTCGCCTA 62.897 72.222 0.00 0.00 0.00 3.93
2483 5260 2.526046 CCCCAACGTCACCTTCCCT 61.526 63.158 0.00 0.00 0.00 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 1.079681 ACGCCAGGCAATTGCATTG 60.080 52.632 30.32 25.05 44.36 2.82
23 24 1.216178 GACGCCAGGCAATTGCATT 59.784 52.632 30.32 16.00 44.36 3.56
24 25 1.534336 TTGACGCCAGGCAATTGCAT 61.534 50.000 30.32 22.59 41.20 3.96
25 26 2.144833 CTTGACGCCAGGCAATTGCA 62.145 55.000 30.32 5.73 45.71 4.08
26 27 1.444895 CTTGACGCCAGGCAATTGC 60.445 57.895 22.47 22.47 45.71 3.56
27 28 0.109597 GTCTTGACGCCAGGCAATTG 60.110 55.000 13.30 0.00 45.71 2.32
28 29 0.250901 AGTCTTGACGCCAGGCAATT 60.251 50.000 13.30 0.00 45.71 2.32
29 30 0.250901 AAGTCTTGACGCCAGGCAAT 60.251 50.000 13.30 0.00 45.71 3.56
30 31 0.465460 AAAGTCTTGACGCCAGGCAA 60.465 50.000 13.30 0.00 44.48 4.52
31 32 0.465460 AAAAGTCTTGACGCCAGGCA 60.465 50.000 13.30 0.00 0.00 4.75
32 33 0.668535 AAAAAGTCTTGACGCCAGGC 59.331 50.000 0.00 0.00 0.00 4.85
33 34 4.561735 TTTAAAAAGTCTTGACGCCAGG 57.438 40.909 0.00 0.00 0.00 4.45
34 35 5.154222 GGATTTAAAAAGTCTTGACGCCAG 58.846 41.667 0.00 0.00 0.00 4.85
35 36 4.580995 TGGATTTAAAAAGTCTTGACGCCA 59.419 37.500 0.00 0.00 0.00 5.69
36 37 5.116069 TGGATTTAAAAAGTCTTGACGCC 57.884 39.130 0.00 0.00 0.00 5.68
37 38 7.334749 GTTTTGGATTTAAAAAGTCTTGACGC 58.665 34.615 0.00 0.00 31.92 5.19
38 39 7.704899 AGGTTTTGGATTTAAAAAGTCTTGACG 59.295 33.333 0.00 0.00 31.92 4.35
39 40 8.942338 AGGTTTTGGATTTAAAAAGTCTTGAC 57.058 30.769 0.00 0.00 31.92 3.18
40 41 9.377312 CAAGGTTTTGGATTTAAAAAGTCTTGA 57.623 29.630 13.60 0.00 38.96 3.02
41 42 9.161629 ACAAGGTTTTGGATTTAAAAAGTCTTG 57.838 29.630 15.49 15.49 40.38 3.02
44 45 9.811995 ACTACAAGGTTTTGGATTTAAAAAGTC 57.188 29.630 0.00 0.00 38.66 3.01
45 46 9.594478 CACTACAAGGTTTTGGATTTAAAAAGT 57.406 29.630 0.00 0.00 38.66 2.66
46 47 9.040939 CCACTACAAGGTTTTGGATTTAAAAAG 57.959 33.333 0.00 0.00 38.66 2.27
47 48 8.541234 ACCACTACAAGGTTTTGGATTTAAAAA 58.459 29.630 0.00 0.00 38.66 1.94
48 49 8.080363 ACCACTACAAGGTTTTGGATTTAAAA 57.920 30.769 0.00 0.00 38.66 1.52
49 50 7.663043 ACCACTACAAGGTTTTGGATTTAAA 57.337 32.000 0.00 0.00 38.66 1.52
50 51 8.219178 TCTACCACTACAAGGTTTTGGATTTAA 58.781 33.333 0.00 0.00 40.54 1.52
51 52 7.747690 TCTACCACTACAAGGTTTTGGATTTA 58.252 34.615 0.00 0.00 40.54 1.40
52 53 6.607019 TCTACCACTACAAGGTTTTGGATTT 58.393 36.000 0.00 0.00 40.54 2.17
53 54 6.195600 TCTACCACTACAAGGTTTTGGATT 57.804 37.500 0.00 0.00 40.54 3.01
54 55 5.836024 TCTACCACTACAAGGTTTTGGAT 57.164 39.130 0.00 0.00 40.54 3.41
55 56 5.836024 ATCTACCACTACAAGGTTTTGGA 57.164 39.130 0.00 0.00 40.54 3.53
56 57 6.598064 CCTAATCTACCACTACAAGGTTTTGG 59.402 42.308 0.00 0.00 40.54 3.28
57 58 7.391620 TCCTAATCTACCACTACAAGGTTTTG 58.608 38.462 0.00 0.00 40.54 2.44
58 59 7.456902 TCTCCTAATCTACCACTACAAGGTTTT 59.543 37.037 0.00 0.00 40.54 2.43
59 60 6.958192 TCTCCTAATCTACCACTACAAGGTTT 59.042 38.462 0.00 0.00 40.54 3.27
60 61 6.500336 TCTCCTAATCTACCACTACAAGGTT 58.500 40.000 0.00 0.00 40.54 3.50
61 62 6.088541 TCTCCTAATCTACCACTACAAGGT 57.911 41.667 0.00 0.00 43.14 3.50
62 63 7.256012 GGAATCTCCTAATCTACCACTACAAGG 60.256 44.444 0.00 0.00 32.53 3.61
63 64 7.287927 TGGAATCTCCTAATCTACCACTACAAG 59.712 40.741 0.00 0.00 37.46 3.16
64 65 7.069578 GTGGAATCTCCTAATCTACCACTACAA 59.930 40.741 0.00 0.00 41.89 2.41
65 66 6.550108 GTGGAATCTCCTAATCTACCACTACA 59.450 42.308 0.00 0.00 41.89 2.74
66 67 6.015265 GGTGGAATCTCCTAATCTACCACTAC 60.015 46.154 0.00 0.00 42.42 2.73
67 68 6.075984 GGTGGAATCTCCTAATCTACCACTA 58.924 44.000 0.00 0.00 42.42 2.74
68 69 4.902448 GGTGGAATCTCCTAATCTACCACT 59.098 45.833 0.00 0.00 42.42 4.00
69 70 4.902448 AGGTGGAATCTCCTAATCTACCAC 59.098 45.833 9.69 0.00 44.52 4.16
70 71 5.157770 AGGTGGAATCTCCTAATCTACCA 57.842 43.478 9.69 0.00 44.52 3.25
71 72 5.841783 AGAAGGTGGAATCTCCTAATCTACC 59.158 44.000 0.00 0.00 42.99 3.18
82 83 3.068873 GCAGATCGTAGAAGGTGGAATCT 59.931 47.826 0.00 0.00 43.58 2.40
89 90 1.202313 GCTTCGCAGATCGTAGAAGGT 60.202 52.381 20.46 0.00 43.58 3.50
90 91 1.202302 TGCTTCGCAGATCGTAGAAGG 60.202 52.381 20.46 9.11 40.11 3.46
99 100 1.293924 CGGAGATTTGCTTCGCAGAT 58.706 50.000 0.00 0.00 39.08 2.90
122 123 8.378565 AGACTCTTATCAACATTTTCTTCTCCA 58.621 33.333 0.00 0.00 0.00 3.86
142 143 6.098409 TGGTCTTTGAAGTTTCTACAGACTCT 59.902 38.462 13.44 0.00 0.00 3.24
143 144 6.201234 GTGGTCTTTGAAGTTTCTACAGACTC 59.799 42.308 13.44 8.12 0.00 3.36
144 145 6.049790 GTGGTCTTTGAAGTTTCTACAGACT 58.950 40.000 13.44 0.00 0.00 3.24
145 146 5.050972 CGTGGTCTTTGAAGTTTCTACAGAC 60.051 44.000 8.76 8.76 0.00 3.51
146 147 5.047847 CGTGGTCTTTGAAGTTTCTACAGA 58.952 41.667 0.00 0.00 0.00 3.41
147 148 5.047847 TCGTGGTCTTTGAAGTTTCTACAG 58.952 41.667 0.00 0.00 0.00 2.74
148 149 5.013568 TCGTGGTCTTTGAAGTTTCTACA 57.986 39.130 0.00 0.00 0.00 2.74
149 150 5.978934 TTCGTGGTCTTTGAAGTTTCTAC 57.021 39.130 0.00 0.00 0.00 2.59
150 151 5.007332 GCTTTCGTGGTCTTTGAAGTTTCTA 59.993 40.000 0.00 0.00 0.00 2.10
151 152 4.201920 GCTTTCGTGGTCTTTGAAGTTTCT 60.202 41.667 0.00 0.00 0.00 2.52
152 153 4.035684 GCTTTCGTGGTCTTTGAAGTTTC 58.964 43.478 0.00 0.00 0.00 2.78
153 154 3.442273 TGCTTTCGTGGTCTTTGAAGTTT 59.558 39.130 0.00 0.00 0.00 2.66
154 155 3.013921 TGCTTTCGTGGTCTTTGAAGTT 58.986 40.909 0.00 0.00 0.00 2.66
155 156 2.614057 CTGCTTTCGTGGTCTTTGAAGT 59.386 45.455 0.00 0.00 0.00 3.01
156 157 2.031682 CCTGCTTTCGTGGTCTTTGAAG 60.032 50.000 0.00 0.00 0.00 3.02
157 158 1.946768 CCTGCTTTCGTGGTCTTTGAA 59.053 47.619 0.00 0.00 0.00 2.69
158 159 1.134220 ACCTGCTTTCGTGGTCTTTGA 60.134 47.619 0.00 0.00 0.00 2.69
175 176 3.617531 GCGGATCCATATGAATTCGACCT 60.618 47.826 6.83 0.00 0.00 3.85
187 188 1.507140 AGGTTTCAGGCGGATCCATA 58.493 50.000 13.41 0.00 37.29 2.74
196 197 1.268625 CGGTTGGTTTAGGTTTCAGGC 59.731 52.381 0.00 0.00 0.00 4.85
198 199 2.853705 TCCGGTTGGTTTAGGTTTCAG 58.146 47.619 0.00 0.00 36.30 3.02
212 213 1.689582 GGTCCTCAGGGATCCGGTT 60.690 63.158 5.45 0.00 44.33 4.44
254 255 1.867233 CTGTTTATCGCCGATGAAGGG 59.133 52.381 10.41 0.00 0.00 3.95
256 257 3.616821 TGTTCTGTTTATCGCCGATGAAG 59.383 43.478 10.41 2.11 0.00 3.02
260 261 3.938963 ACATTGTTCTGTTTATCGCCGAT 59.061 39.130 4.45 4.45 0.00 4.18
266 267 9.612620 CTTTCCAGTTACATTGTTCTGTTTATC 57.387 33.333 15.45 0.00 0.00 1.75
274 275 4.451096 TCGCTCTTTCCAGTTACATTGTTC 59.549 41.667 0.00 0.00 0.00 3.18
289 290 4.878397 CCCAATAATGTTCTCTCGCTCTTT 59.122 41.667 0.00 0.00 0.00 2.52
292 293 3.134458 CCCCAATAATGTTCTCTCGCTC 58.866 50.000 0.00 0.00 0.00 5.03
293 294 2.746472 GCCCCAATAATGTTCTCTCGCT 60.746 50.000 0.00 0.00 0.00 4.93
295 296 2.917933 TGCCCCAATAATGTTCTCTCG 58.082 47.619 0.00 0.00 0.00 4.04
296 297 4.440663 GCTTTGCCCCAATAATGTTCTCTC 60.441 45.833 0.00 0.00 0.00 3.20
298 299 3.430790 GGCTTTGCCCCAATAATGTTCTC 60.431 47.826 0.00 0.00 44.06 2.87
299 300 2.501316 GGCTTTGCCCCAATAATGTTCT 59.499 45.455 0.00 0.00 44.06 3.01
330 341 1.835494 TCGTGTTTGGTTTGGGTCAA 58.165 45.000 0.00 0.00 0.00 3.18
333 344 1.679153 GTCATCGTGTTTGGTTTGGGT 59.321 47.619 0.00 0.00 0.00 4.51
371 382 4.815846 GCAACAACATGGGTGATTCTTTTT 59.184 37.500 5.73 0.00 0.00 1.94
375 386 2.596346 TGCAACAACATGGGTGATTCT 58.404 42.857 5.73 0.00 0.00 2.40
376 387 3.255725 CATGCAACAACATGGGTGATTC 58.744 45.455 5.73 0.00 43.05 2.52
379 390 0.317799 GCATGCAACAACATGGGTGA 59.682 50.000 14.21 0.00 46.14 4.02
399 410 1.482182 TCCACATCAATCTCGGACCTG 59.518 52.381 0.00 0.00 0.00 4.00
417 428 0.250640 ATGATCTGGCGGCAATCTCC 60.251 55.000 23.86 10.80 0.00 3.71
472 488 2.478894 GCGATCTTCAACGAAAACCTGA 59.521 45.455 0.00 0.00 0.00 3.86
478 494 0.946700 TGCGGCGATCTTCAACGAAA 60.947 50.000 12.98 0.00 0.00 3.46
497 513 2.967076 CGACGTTGGTGCTGCAGT 60.967 61.111 16.64 0.00 0.00 4.40
517 533 0.237235 TTCGGCAAGCAATGTTCGAC 59.763 50.000 0.00 0.00 36.87 4.20
518 534 0.516877 CTTCGGCAAGCAATGTTCGA 59.483 50.000 0.00 0.00 35.93 3.71
522 538 1.577328 CGGTCTTCGGCAAGCAATGT 61.577 55.000 0.00 0.00 34.75 2.71
564 580 2.590007 GCCTGCTATGGGTCAGCG 60.590 66.667 0.00 0.00 42.13 5.18
631 675 4.767255 GAGGCTCCAGGGTGTGCG 62.767 72.222 2.15 0.00 0.00 5.34
632 676 3.322318 GAGAGGCTCCAGGGTGTGC 62.322 68.421 11.71 0.00 0.00 4.57
634 678 1.159664 AAGAGAGGCTCCAGGGTGT 59.840 57.895 11.71 0.00 0.00 4.16
635 679 1.601171 CAAGAGAGGCTCCAGGGTG 59.399 63.158 11.71 0.00 0.00 4.61
636 680 2.297129 GCAAGAGAGGCTCCAGGGT 61.297 63.158 11.71 0.00 0.00 4.34
638 682 2.186384 CGCAAGAGAGGCTCCAGG 59.814 66.667 11.71 0.00 43.02 4.45
639 683 3.292656 TCGCAAGAGAGGCTCCAG 58.707 61.111 11.71 0.00 45.01 3.86
652 766 2.602660 GCAAGCTTGAAAAGTTTTCGCA 59.397 40.909 30.39 12.84 45.44 5.10
661 775 3.060098 CGAAACAAACGCAAGCTTGAAAA 59.940 39.130 30.39 0.00 45.96 2.29
666 780 1.859998 GCTCGAAACAAACGCAAGCTT 60.860 47.619 0.00 0.00 45.62 3.74
668 782 1.268778 GGCTCGAAACAAACGCAAGC 61.269 55.000 0.00 0.00 45.62 4.01
674 788 0.843872 GCAAACGGCTCGAAACAAAC 59.156 50.000 1.50 0.00 40.25 2.93
713 827 5.341617 CCGGAACTACTAATTCTCAGTCAC 58.658 45.833 0.00 0.00 0.00 3.67
715 829 4.142227 TGCCGGAACTACTAATTCTCAGTC 60.142 45.833 5.05 0.00 0.00 3.51
718 832 4.020928 TGTTGCCGGAACTACTAATTCTCA 60.021 41.667 5.05 0.00 35.37 3.27
758 872 9.521503 CGACTCTGACATGAGAATTTCTAATTA 57.478 33.333 0.00 0.00 37.50 1.40
944 3646 2.105528 GCGTCCGGCGATTAAGGA 59.894 61.111 20.06 0.00 44.77 3.36
963 3665 1.258982 CTGCATTTACTCGATCGCACC 59.741 52.381 11.09 0.00 0.00 5.01
1033 3735 4.615815 ATGGGAGATGGAGCGCGC 62.616 66.667 26.66 26.66 0.00 6.86
1035 3737 2.550101 GCAATGGGAGATGGAGCGC 61.550 63.158 0.00 0.00 0.00 5.92
1036 3738 1.147824 AGCAATGGGAGATGGAGCG 59.852 57.895 0.00 0.00 0.00 5.03
1037 3739 0.106819 ACAGCAATGGGAGATGGAGC 60.107 55.000 0.00 0.00 0.00 4.70
1038 3740 3.209410 GTTACAGCAATGGGAGATGGAG 58.791 50.000 0.00 0.00 0.00 3.86
1039 3741 2.092429 GGTTACAGCAATGGGAGATGGA 60.092 50.000 0.00 0.00 0.00 3.41
1040 3742 2.092212 AGGTTACAGCAATGGGAGATGG 60.092 50.000 0.00 0.00 0.00 3.51
1042 3744 2.846206 TCAGGTTACAGCAATGGGAGAT 59.154 45.455 0.00 0.00 0.00 2.75
1047 3762 3.748048 CGGATATCAGGTTACAGCAATGG 59.252 47.826 4.83 0.00 0.00 3.16
1063 3778 2.037772 GAGTTGGACATGGAGCGGATAT 59.962 50.000 0.00 0.00 0.00 1.63
1067 3782 1.811266 CGAGTTGGACATGGAGCGG 60.811 63.158 0.00 0.00 0.00 5.52
1069 3784 2.456119 CGCGAGTTGGACATGGAGC 61.456 63.158 0.00 0.00 0.00 4.70
1207 3922 2.265367 TGCCAATGTAGAGTCCCTTCA 58.735 47.619 0.00 0.00 0.00 3.02
1218 3933 5.351740 TCGACGTAATGAATTTGCCAATGTA 59.648 36.000 0.00 0.00 0.00 2.29
1219 3934 4.155099 TCGACGTAATGAATTTGCCAATGT 59.845 37.500 0.00 0.00 0.00 2.71
1221 3936 4.201910 CCTCGACGTAATGAATTTGCCAAT 60.202 41.667 0.00 0.00 0.00 3.16
1223 3938 2.675844 CCTCGACGTAATGAATTTGCCA 59.324 45.455 0.00 0.00 0.00 4.92
1235 3950 0.518636 CTTGGAACGACCTCGACGTA 59.481 55.000 0.78 0.00 43.16 3.57
1305 4020 2.138656 ATCCAGCCGGCGTATCGTAC 62.139 60.000 23.20 0.00 0.00 3.67
1306 4021 0.606130 TATCCAGCCGGCGTATCGTA 60.606 55.000 23.20 7.98 0.00 3.43
1308 4023 0.525668 GATATCCAGCCGGCGTATCG 60.526 60.000 23.20 8.35 0.00 2.92
1309 4024 0.525668 CGATATCCAGCCGGCGTATC 60.526 60.000 23.20 22.98 0.00 2.24
1311 4026 0.963856 ATCGATATCCAGCCGGCGTA 60.964 55.000 23.20 13.31 0.00 4.42
1312 4027 2.214181 GATCGATATCCAGCCGGCGT 62.214 60.000 23.20 11.36 0.00 5.68
1314 4029 1.517257 CGATCGATATCCAGCCGGC 60.517 63.158 21.89 21.89 0.00 6.13
1315 4030 1.092348 TACGATCGATATCCAGCCGG 58.908 55.000 24.34 0.00 0.00 6.13
1316 4031 1.738350 AGTACGATCGATATCCAGCCG 59.262 52.381 24.34 0.00 0.00 5.52
1318 4033 3.437395 ACAGAGTACGATCGATATCCAGC 59.563 47.826 24.34 2.54 0.00 4.85
1322 4040 6.469139 TCAAGACAGAGTACGATCGATATC 57.531 41.667 24.34 15.18 0.00 1.63
1328 4046 3.632604 TGGGATCAAGACAGAGTACGATC 59.367 47.826 0.00 0.00 0.00 3.69
1357 4075 2.142357 CTCTGCCGTGACTTCACCGA 62.142 60.000 3.77 0.00 43.66 4.69
1361 4079 1.324383 TGTACTCTGCCGTGACTTCA 58.676 50.000 0.00 0.00 0.00 3.02
1369 4104 1.135915 AGCTGATCTTGTACTCTGCCG 59.864 52.381 7.73 0.00 37.13 5.69
1370 4105 2.935201 CAAGCTGATCTTGTACTCTGCC 59.065 50.000 7.73 0.00 45.48 4.85
1380 4115 2.462456 TTGTCGAGCAAGCTGATCTT 57.538 45.000 0.00 0.00 29.10 2.40
1381 4116 2.462456 TTTGTCGAGCAAGCTGATCT 57.538 45.000 0.00 0.00 38.47 2.75
1382 4117 3.542712 TTTTTGTCGAGCAAGCTGATC 57.457 42.857 0.00 0.00 38.47 2.92
1418 4153 2.048503 CTTTCCCGGACGAAGCGT 60.049 61.111 0.73 0.00 45.10 5.07
1423 4158 1.167781 GGTTTTGCTTTCCCGGACGA 61.168 55.000 0.73 0.00 0.00 4.20
1435 4170 2.351738 CCGGAGAATGTCAAGGTTTTGC 60.352 50.000 0.00 0.00 34.21 3.68
1437 4172 2.107552 TCCCGGAGAATGTCAAGGTTTT 59.892 45.455 0.73 0.00 0.00 2.43
1439 4174 1.358152 TCCCGGAGAATGTCAAGGTT 58.642 50.000 0.73 0.00 0.00 3.50
1440 4175 1.279271 CTTCCCGGAGAATGTCAAGGT 59.721 52.381 0.73 0.00 32.82 3.50
1444 4183 0.690192 TTGCTTCCCGGAGAATGTCA 59.310 50.000 0.73 1.16 32.82 3.58
1457 4196 2.615912 GGTGATATGTGGCTCTTGCTTC 59.384 50.000 0.00 0.00 39.59 3.86
1460 4199 0.940126 CGGTGATATGTGGCTCTTGC 59.060 55.000 0.00 0.00 38.76 4.01
1462 4201 3.495100 GGAATCGGTGATATGTGGCTCTT 60.495 47.826 0.00 0.00 0.00 2.85
1471 4210 3.833070 GAGGTGGTAGGAATCGGTGATAT 59.167 47.826 0.00 0.00 0.00 1.63
1472 4211 3.228453 GAGGTGGTAGGAATCGGTGATA 58.772 50.000 0.00 0.00 0.00 2.15
1473 4212 2.040178 GAGGTGGTAGGAATCGGTGAT 58.960 52.381 0.00 0.00 0.00 3.06
1474 4213 1.272816 TGAGGTGGTAGGAATCGGTGA 60.273 52.381 0.00 0.00 0.00 4.02
1475 4214 1.191535 TGAGGTGGTAGGAATCGGTG 58.808 55.000 0.00 0.00 0.00 4.94
1476 4215 2.040178 GATGAGGTGGTAGGAATCGGT 58.960 52.381 0.00 0.00 0.00 4.69
1480 4219 4.656112 CCTTAGTGATGAGGTGGTAGGAAT 59.344 45.833 0.00 0.00 0.00 3.01
1485 4224 2.766263 CTGCCTTAGTGATGAGGTGGTA 59.234 50.000 0.00 0.00 35.42 3.25
1487 4226 1.833630 TCTGCCTTAGTGATGAGGTGG 59.166 52.381 0.00 0.00 35.42 4.61
1489 4228 3.055530 CAGTTCTGCCTTAGTGATGAGGT 60.056 47.826 0.00 0.00 35.42 3.85
1491 4230 3.529533 CCAGTTCTGCCTTAGTGATGAG 58.470 50.000 0.00 0.00 0.00 2.90
1519 4258 8.950859 TGAAAGCATCATCCTTCAGGTAAGGTA 61.951 40.741 3.83 0.00 43.54 3.08
1522 4261 5.188434 TGAAAGCATCATCCTTCAGGTAAG 58.812 41.667 0.00 0.00 32.53 2.34
1629 4375 3.798202 CAGGCGCTTATTAGAAGGTCTT 58.202 45.455 7.64 0.00 0.00 3.01
1771 4524 1.280421 GAGAAGGTCTGTTGGAGGCAT 59.720 52.381 0.00 0.00 0.00 4.40
1772 4525 0.687354 GAGAAGGTCTGTTGGAGGCA 59.313 55.000 0.00 0.00 0.00 4.75
1776 4529 1.971357 GTCTGGAGAAGGTCTGTTGGA 59.029 52.381 0.00 0.00 0.00 3.53
1784 4537 1.947456 GCAAAAACGTCTGGAGAAGGT 59.053 47.619 0.00 0.00 0.00 3.50
1957 4713 3.125573 CTCGACTCGCCGACAGGA 61.126 66.667 0.00 0.00 41.02 3.86
2015 4773 1.653918 AGGAAGGGAGAGAATGGGAGA 59.346 52.381 0.00 0.00 0.00 3.71
2181 4949 1.301716 AGTCGGCGTTTGACATGCT 60.302 52.632 6.85 0.00 38.83 3.79
2601 5379 2.048127 GTGCGAGAAGGGAAGCGT 60.048 61.111 0.00 0.00 0.00 5.07


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

AutoCloner maintained by Alex Coulton.