Multiple sequence alignment - TraesCS7A01G161400

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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 TraesCS7A01G161400 chr7A 100.000 4043 0 0 1 4043 118103621 118107663 0.000000e+00 7467.0
1 TraesCS7A01G161400 chr7A 92.929 99 7 0 1 99 534324367 534324269 1.170000e-30 145.0
2 TraesCS7A01G161400 chr7D 95.850 2747 90 12 517 3256 112758304 112761033 0.000000e+00 4420.0
3 TraesCS7A01G161400 chr7D 93.548 93 5 1 406 498 112758224 112758315 1.960000e-28 137.0
4 TraesCS7A01G161400 chr7D 95.082 61 3 0 125 185 112757947 112758007 3.330000e-16 97.1
5 TraesCS7A01G161400 chr7B 95.459 2224 87 6 761 2980 72278282 72280495 0.000000e+00 3535.0
6 TraesCS7A01G161400 chr7B 93.023 129 8 1 232 359 481828526 481828398 1.920000e-43 187.0
7 TraesCS7A01G161400 chr5D 91.667 792 62 3 3255 4043 98732607 98733397 0.000000e+00 1094.0
8 TraesCS7A01G161400 chr5D 91.540 792 64 2 3255 4043 563678109 563678900 0.000000e+00 1088.0
9 TraesCS7A01G161400 chr5D 93.985 133 5 2 232 361 410082226 410082358 8.860000e-47 198.0
10 TraesCS7A01G161400 chr5D 98.837 86 1 0 1 86 141452774 141452859 1.950000e-33 154.0
11 TraesCS7A01G161400 chr4B 89.404 755 72 7 3255 4005 648069496 648068746 0.000000e+00 944.0
12 TraesCS7A01G161400 chr4B 96.471 85 3 0 1 85 428054491 428054575 1.510000e-29 141.0
13 TraesCS7A01G161400 chr6B 89.243 753 71 8 3257 4005 668536102 668535356 0.000000e+00 933.0
14 TraesCS7A01G161400 chr6B 92.308 130 7 3 232 361 276227290 276227164 8.930000e-42 182.0
15 TraesCS7A01G161400 chr6B 90.435 115 7 3 1551 1663 184761413 184761301 9.050000e-32 148.0
16 TraesCS7A01G161400 chr5B 88.431 752 82 4 3256 4005 423215934 423215186 0.000000e+00 902.0
17 TraesCS7A01G161400 chr5B 93.077 130 9 0 232 361 491882370 491882499 1.480000e-44 191.0
18 TraesCS7A01G161400 chr5B 92.969 128 9 0 232 359 565895841 565895968 1.920000e-43 187.0
19 TraesCS7A01G161400 chr5B 93.220 59 4 0 517 575 491882595 491882653 2.000000e-13 87.9
20 TraesCS7A01G161400 chr2B 87.811 763 76 10 3256 4005 799597358 799596600 0.000000e+00 878.0
21 TraesCS7A01G161400 chr2B 87.680 763 77 10 3256 4005 799599233 799598475 0.000000e+00 872.0
22 TraesCS7A01G161400 chr2B 93.750 128 8 0 232 359 73623936 73624063 4.120000e-45 193.0
23 TraesCS7A01G161400 chr2B 91.339 127 11 0 232 358 798313749 798313875 1.490000e-39 174.0
24 TraesCS7A01G161400 chr2B 96.703 91 3 0 1 91 627391402 627391492 7.000000e-33 152.0
25 TraesCS7A01G161400 chr3B 87.936 746 78 7 3254 3996 804324396 804325132 0.000000e+00 869.0
26 TraesCS7A01G161400 chr3B 100.000 28 0 0 1021 1048 597450485 597450512 7.000000e-03 52.8
27 TraesCS7A01G161400 chr1B 89.443 682 64 6 3257 3936 470304036 470303361 0.000000e+00 854.0
28 TraesCS7A01G161400 chr1B 93.750 128 8 0 232 359 669657322 669657449 4.120000e-45 193.0
29 TraesCS7A01G161400 chr1B 94.595 37 2 0 2497 2533 329296099 329296063 1.570000e-04 58.4
30 TraesCS7A01G161400 chr3D 93.023 129 8 1 232 359 116026918 116026790 1.920000e-43 187.0
31 TraesCS7A01G161400 chr6A 96.774 93 3 0 1 93 316927965 316927873 5.410000e-34 156.0
32 TraesCS7A01G161400 chr4A 97.753 89 2 0 1 89 596895894 596895982 1.950000e-33 154.0
33 TraesCS7A01G161400 chr4A 96.703 91 3 0 1 91 653374322 653374412 7.000000e-33 152.0
34 TraesCS7A01G161400 chr4A 95.000 60 2 1 598 657 24558197 24558139 4.300000e-15 93.5
35 TraesCS7A01G161400 chr3A 96.703 91 1 1 1 91 725924908 725924820 2.520000e-32 150.0
36 TraesCS7A01G161400 chr2A 86.331 139 15 4 360 498 1555126 1555260 9.050000e-32 148.0
37 TraesCS7A01G161400 chr2A 85.088 114 16 1 565 678 687155293 687155181 9.180000e-22 115.0
38 TraesCS7A01G161400 chr1A 94.792 96 3 2 3 96 300005170 300005265 9.050000e-32 148.0
39 TraesCS7A01G161400 chr1A 85.938 128 18 0 1368 1495 66328936 66328809 1.960000e-28 137.0
40 TraesCS7A01G161400 chr1A 94.595 37 2 0 2497 2533 298153089 298153053 1.570000e-04 58.4
41 TraesCS7A01G161400 chr1A 100.000 28 0 0 1016 1043 458400792 458400819 7.000000e-03 52.8
42 TraesCS7A01G161400 chr1D 100.000 31 0 0 2497 2527 249320875 249320905 1.570000e-04 58.4
43 TraesCS7A01G161400 chr1D 100.000 28 0 0 1016 1043 357313905 357313932 7.000000e-03 52.8


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 TraesCS7A01G161400 chr7A 118103621 118107663 4042 False 7467.000000 7467 100.000000 1 4043 1 chr7A.!!$F1 4042
1 TraesCS7A01G161400 chr7D 112757947 112761033 3086 False 1551.366667 4420 94.826667 125 3256 3 chr7D.!!$F1 3131
2 TraesCS7A01G161400 chr7B 72278282 72280495 2213 False 3535.000000 3535 95.459000 761 2980 1 chr7B.!!$F1 2219
3 TraesCS7A01G161400 chr5D 98732607 98733397 790 False 1094.000000 1094 91.667000 3255 4043 1 chr5D.!!$F1 788
4 TraesCS7A01G161400 chr5D 563678109 563678900 791 False 1088.000000 1088 91.540000 3255 4043 1 chr5D.!!$F4 788
5 TraesCS7A01G161400 chr4B 648068746 648069496 750 True 944.000000 944 89.404000 3255 4005 1 chr4B.!!$R1 750
6 TraesCS7A01G161400 chr6B 668535356 668536102 746 True 933.000000 933 89.243000 3257 4005 1 chr6B.!!$R3 748
7 TraesCS7A01G161400 chr5B 423215186 423215934 748 True 902.000000 902 88.431000 3256 4005 1 chr5B.!!$R1 749
8 TraesCS7A01G161400 chr2B 799596600 799599233 2633 True 875.000000 878 87.745500 3256 4005 2 chr2B.!!$R1 749
9 TraesCS7A01G161400 chr3B 804324396 804325132 736 False 869.000000 869 87.936000 3254 3996 1 chr3B.!!$F2 742
10 TraesCS7A01G161400 chr1B 470303361 470304036 675 True 854.000000 854 89.443000 3257 3936 1 chr1B.!!$R2 679

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
737 802 0.680061 AGAAGGTCTGTCCACCGTTC 59.32 55.0 0.00 0.0 41.9 3.95 F
2340 2411 0.679505 AGAAGCTGCTGGTGTACGAA 59.32 50.0 1.35 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2357 2428 0.96637 GTGGAGCACGTAGAGGAGGT 60.966 60.0 0.0 0.0 0.0 3.85 R
3277 3352 0.02877 CTTTTCGCGCCAAGTTGTGA 59.971 50.0 0.0 0.0 0.0 3.58 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
20 21 2.372264 TCAGTTTATCGGCTACTCGGT 58.628 47.619 0.00 0.00 0.00 4.69
21 22 2.098607 TCAGTTTATCGGCTACTCGGTG 59.901 50.000 0.00 0.00 0.00 4.94
22 23 2.098607 CAGTTTATCGGCTACTCGGTGA 59.901 50.000 0.00 0.00 0.00 4.02
23 24 2.098770 AGTTTATCGGCTACTCGGTGAC 59.901 50.000 0.00 0.00 0.00 3.67
24 25 1.027357 TTATCGGCTACTCGGTGACC 58.973 55.000 0.00 0.00 0.00 4.02
25 26 0.820891 TATCGGCTACTCGGTGACCC 60.821 60.000 0.00 0.00 0.00 4.46
26 27 2.569218 ATCGGCTACTCGGTGACCCT 62.569 60.000 0.00 0.00 0.00 4.34
27 28 1.452651 CGGCTACTCGGTGACCCTA 60.453 63.158 0.00 0.00 0.00 3.53
28 29 1.722636 CGGCTACTCGGTGACCCTAC 61.723 65.000 0.00 0.00 0.00 3.18
29 30 1.722636 GGCTACTCGGTGACCCTACG 61.723 65.000 0.00 0.00 0.00 3.51
30 31 0.745845 GCTACTCGGTGACCCTACGA 60.746 60.000 0.00 0.00 35.14 3.43
32 33 4.315588 CTCGGTGACCCTACGAGT 57.684 61.111 0.00 0.00 46.43 4.18
33 34 3.465990 CTCGGTGACCCTACGAGTA 57.534 57.895 0.00 0.00 46.43 2.59
34 35 1.297664 CTCGGTGACCCTACGAGTAG 58.702 60.000 0.00 3.39 46.43 2.57
48 49 3.380479 CGAGTAGGGATTAATCGGCAA 57.620 47.619 9.32 0.00 43.89 4.52
49 50 3.318017 CGAGTAGGGATTAATCGGCAAG 58.682 50.000 9.32 0.00 43.89 4.01
50 51 3.243771 CGAGTAGGGATTAATCGGCAAGT 60.244 47.826 9.32 0.00 43.89 3.16
51 52 4.704965 GAGTAGGGATTAATCGGCAAGTT 58.295 43.478 9.32 0.00 0.00 2.66
52 53 5.508489 CGAGTAGGGATTAATCGGCAAGTTA 60.508 44.000 9.32 0.00 43.89 2.24
53 54 6.243216 AGTAGGGATTAATCGGCAAGTTAA 57.757 37.500 9.32 0.00 0.00 2.01
54 55 6.053650 AGTAGGGATTAATCGGCAAGTTAAC 58.946 40.000 9.32 0.00 0.00 2.01
55 56 5.112129 AGGGATTAATCGGCAAGTTAACT 57.888 39.130 9.32 1.12 0.00 2.24
56 57 4.881850 AGGGATTAATCGGCAAGTTAACTG 59.118 41.667 9.34 4.88 0.00 3.16
57 58 4.036380 GGGATTAATCGGCAAGTTAACTGG 59.964 45.833 9.34 7.35 0.00 4.00
58 59 4.638865 GGATTAATCGGCAAGTTAACTGGT 59.361 41.667 9.34 0.00 0.00 4.00
59 60 5.124936 GGATTAATCGGCAAGTTAACTGGTT 59.875 40.000 9.34 1.66 0.00 3.67
60 61 6.316890 GGATTAATCGGCAAGTTAACTGGTTA 59.683 38.462 9.34 0.65 0.00 2.85
61 62 7.148205 GGATTAATCGGCAAGTTAACTGGTTAA 60.148 37.037 9.34 9.79 33.48 2.01
62 63 7.690952 TTAATCGGCAAGTTAACTGGTTAAT 57.309 32.000 9.34 0.00 37.37 1.40
63 64 5.813080 ATCGGCAAGTTAACTGGTTAATC 57.187 39.130 9.34 0.00 37.37 1.75
64 65 3.680937 TCGGCAAGTTAACTGGTTAATCG 59.319 43.478 9.34 7.09 37.37 3.34
65 66 3.181514 CGGCAAGTTAACTGGTTAATCGG 60.182 47.826 9.34 0.00 37.37 4.18
66 67 4.004982 GGCAAGTTAACTGGTTAATCGGA 58.995 43.478 9.34 0.00 37.37 4.55
67 68 4.638865 GGCAAGTTAACTGGTTAATCGGAT 59.361 41.667 9.34 0.00 37.37 4.18
68 69 5.448632 GGCAAGTTAACTGGTTAATCGGATG 60.449 44.000 9.34 0.03 37.37 3.51
69 70 5.353123 GCAAGTTAACTGGTTAATCGGATGA 59.647 40.000 9.34 0.00 37.37 2.92
70 71 6.128117 GCAAGTTAACTGGTTAATCGGATGAA 60.128 38.462 9.34 0.00 37.37 2.57
71 72 7.415206 GCAAGTTAACTGGTTAATCGGATGAAT 60.415 37.037 9.34 0.00 37.37 2.57
72 73 8.458843 CAAGTTAACTGGTTAATCGGATGAATT 58.541 33.333 9.34 0.00 37.37 2.17
73 74 8.209917 AGTTAACTGGTTAATCGGATGAATTC 57.790 34.615 7.48 0.00 37.37 2.17
74 75 8.047310 AGTTAACTGGTTAATCGGATGAATTCT 58.953 33.333 7.48 0.00 37.37 2.40
75 76 6.683974 AACTGGTTAATCGGATGAATTCTG 57.316 37.500 7.05 0.00 0.00 3.02
76 77 5.126067 ACTGGTTAATCGGATGAATTCTGG 58.874 41.667 7.05 0.00 0.00 3.86
77 78 5.104527 ACTGGTTAATCGGATGAATTCTGGA 60.105 40.000 7.05 0.00 0.00 3.86
78 79 5.750524 TGGTTAATCGGATGAATTCTGGAA 58.249 37.500 7.05 0.00 0.00 3.53
79 80 5.588648 TGGTTAATCGGATGAATTCTGGAAC 59.411 40.000 7.05 0.68 0.00 3.62
80 81 5.588648 GGTTAATCGGATGAATTCTGGAACA 59.411 40.000 7.05 0.00 0.00 3.18
98 99 6.731467 TGGAACAGGGCTAGAAATTAAATCT 58.269 36.000 0.00 0.51 0.00 2.40
99 100 6.828785 TGGAACAGGGCTAGAAATTAAATCTC 59.171 38.462 0.00 0.00 0.00 2.75
100 101 6.017852 GGAACAGGGCTAGAAATTAAATCTCG 60.018 42.308 0.00 0.00 0.00 4.04
101 102 4.816925 ACAGGGCTAGAAATTAAATCTCGC 59.183 41.667 0.00 8.70 35.51 5.03
102 103 4.816385 CAGGGCTAGAAATTAAATCTCGCA 59.184 41.667 15.44 0.00 37.35 5.10
103 104 4.816925 AGGGCTAGAAATTAAATCTCGCAC 59.183 41.667 15.44 13.14 38.81 5.34
104 105 4.574828 GGGCTAGAAATTAAATCTCGCACA 59.425 41.667 15.44 0.00 38.50 4.57
105 106 5.239525 GGGCTAGAAATTAAATCTCGCACAT 59.760 40.000 15.44 0.00 38.50 3.21
106 107 6.426937 GGGCTAGAAATTAAATCTCGCACATA 59.573 38.462 15.44 0.00 38.50 2.29
107 108 7.119846 GGGCTAGAAATTAAATCTCGCACATAT 59.880 37.037 15.44 0.00 38.50 1.78
108 109 8.507249 GGCTAGAAATTAAATCTCGCACATATT 58.493 33.333 15.44 0.00 37.35 1.28
109 110 9.884465 GCTAGAAATTAAATCTCGCACATATTT 57.116 29.630 11.11 0.00 36.09 1.40
122 123 9.210329 TCTCGCACATATTTTAAAACTAGTTCA 57.790 29.630 8.95 0.00 0.00 3.18
123 124 9.478019 CTCGCACATATTTTAAAACTAGTTCAG 57.522 33.333 8.95 0.00 0.00 3.02
199 200 9.678260 AATGAGTGAAATTACTGAAAGATAGCT 57.322 29.630 0.00 0.00 37.43 3.32
205 206 9.817809 TGAAATTACTGAAAGATAGCTAATCGT 57.182 29.630 0.00 0.97 39.79 3.73
208 209 5.975410 ACTGAAAGATAGCTAATCGTTGC 57.025 39.130 0.00 0.00 36.57 4.17
209 210 5.419542 ACTGAAAGATAGCTAATCGTTGCA 58.580 37.500 0.00 0.00 36.57 4.08
212 213 6.718388 TGAAAGATAGCTAATCGTTGCAATG 58.282 36.000 12.66 12.66 36.57 2.82
214 215 5.914085 AGATAGCTAATCGTTGCAATGTC 57.086 39.130 17.94 6.10 39.79 3.06
219 220 5.097529 AGCTAATCGTTGCAATGTCAAATG 58.902 37.500 17.94 6.65 0.00 2.32
221 222 5.003778 GCTAATCGTTGCAATGTCAAATGAC 59.996 40.000 17.94 6.60 44.97 3.06
225 226 4.216042 TCGTTGCAATGTCAAATGACTGAT 59.784 37.500 17.94 0.00 44.99 2.90
227 228 5.735892 CGTTGCAATGTCAAATGACTGATAG 59.264 40.000 10.65 2.46 44.99 2.08
229 230 4.945543 TGCAATGTCAAATGACTGATAGCT 59.054 37.500 14.15 0.00 44.99 3.32
233 234 8.133627 GCAATGTCAAATGACTGATAGCTATTT 58.866 33.333 7.87 0.00 44.99 1.40
296 361 9.525409 CCAAAATTGATCTTGTTCTGAATATCC 57.475 33.333 0.00 0.00 0.00 2.59
300 365 9.558396 AATTGATCTTGTTCTGAATATCCTCTC 57.442 33.333 0.00 0.00 0.00 3.20
302 367 4.938080 TCTTGTTCTGAATATCCTCTCGC 58.062 43.478 0.00 0.00 0.00 5.03
437 502 5.990120 AAATGGAAGTCTTTTGATGAGGG 57.010 39.130 0.00 0.00 0.00 4.30
485 550 0.980423 GCCAGTCTTCTCTCCAACCT 59.020 55.000 0.00 0.00 0.00 3.50
486 551 1.349357 GCCAGTCTTCTCTCCAACCTT 59.651 52.381 0.00 0.00 0.00 3.50
487 552 2.224646 GCCAGTCTTCTCTCCAACCTTT 60.225 50.000 0.00 0.00 0.00 3.11
488 553 3.748989 GCCAGTCTTCTCTCCAACCTTTT 60.749 47.826 0.00 0.00 0.00 2.27
489 554 4.068599 CCAGTCTTCTCTCCAACCTTTTC 58.931 47.826 0.00 0.00 0.00 2.29
490 555 4.202409 CCAGTCTTCTCTCCAACCTTTTCT 60.202 45.833 0.00 0.00 0.00 2.52
491 556 4.994217 CAGTCTTCTCTCCAACCTTTTCTC 59.006 45.833 0.00 0.00 0.00 2.87
492 557 4.904853 AGTCTTCTCTCCAACCTTTTCTCT 59.095 41.667 0.00 0.00 0.00 3.10
493 558 5.011635 AGTCTTCTCTCCAACCTTTTCTCTC 59.988 44.000 0.00 0.00 0.00 3.20
494 559 5.011635 GTCTTCTCTCCAACCTTTTCTCTCT 59.988 44.000 0.00 0.00 0.00 3.10
495 560 5.245075 TCTTCTCTCCAACCTTTTCTCTCTC 59.755 44.000 0.00 0.00 0.00 3.20
496 561 3.835395 TCTCTCCAACCTTTTCTCTCTCC 59.165 47.826 0.00 0.00 0.00 3.71
497 562 3.837731 CTCTCCAACCTTTTCTCTCTCCT 59.162 47.826 0.00 0.00 0.00 3.69
498 563 4.235372 TCTCCAACCTTTTCTCTCTCCTT 58.765 43.478 0.00 0.00 0.00 3.36
499 564 4.660771 TCTCCAACCTTTTCTCTCTCCTTT 59.339 41.667 0.00 0.00 0.00 3.11
500 565 5.132816 TCTCCAACCTTTTCTCTCTCCTTTT 59.867 40.000 0.00 0.00 0.00 2.27
501 566 5.766590 TCCAACCTTTTCTCTCTCCTTTTT 58.233 37.500 0.00 0.00 0.00 1.94
539 604 5.590530 TTCTCTCTCCTGACATAAAGCTC 57.409 43.478 0.00 0.00 0.00 4.09
580 645 6.716628 AGGCCCACATGTATTTCTATGTATTG 59.283 38.462 0.00 0.00 35.86 1.90
659 724 2.109181 GATGCTCCACCGGTAGCC 59.891 66.667 23.40 8.13 37.97 3.93
724 789 2.975489 TCAGCTGGAAGAAGAAGAAGGT 59.025 45.455 15.13 0.00 34.07 3.50
737 802 0.680061 AGAAGGTCTGTCCACCGTTC 59.320 55.000 0.00 0.00 41.90 3.95
791 856 3.317993 CGACCCAAATTTGAAACTCAGGT 59.682 43.478 19.86 15.08 0.00 4.00
814 879 3.305720 ACTTACATCTAGCCATTCCCGA 58.694 45.455 0.00 0.00 0.00 5.14
841 906 0.842030 AACTGGTGAGATCCCTGCCA 60.842 55.000 0.00 0.00 0.00 4.92
901 969 2.815308 CTCTGCTATTCCGGGCGT 59.185 61.111 0.00 0.00 0.00 5.68
929 997 1.760029 GAGCCCCAAGAAACCAAAACA 59.240 47.619 0.00 0.00 0.00 2.83
1034 1105 2.203998 CCACCACCACCTCCTCCT 60.204 66.667 0.00 0.00 0.00 3.69
1131 1202 2.027745 GCTGATCCACCTGAAGAAGTCA 60.028 50.000 0.00 0.00 34.17 3.41
1227 1298 4.367023 GAGTGGCACGGCGTGGTA 62.367 66.667 37.33 12.02 33.64 3.25
1617 1688 1.767388 GCTCAAGTCGTTCGACGTG 59.233 57.895 25.99 25.99 43.14 4.49
1929 2000 1.134699 GTGAAGCAGGGATCATCGACA 60.135 52.381 0.00 0.00 0.00 4.35
2334 2405 1.739562 GGACGAGAAGCTGCTGGTG 60.740 63.158 15.04 0.00 0.00 4.17
2340 2411 0.679505 AGAAGCTGCTGGTGTACGAA 59.320 50.000 1.35 0.00 0.00 3.85
2357 2428 1.409521 CGAATACATCCCCAAGGGCAA 60.410 52.381 0.00 0.00 43.94 4.52
2718 2789 2.359975 CTCACCGGCAAGTTCCCC 60.360 66.667 0.00 0.00 0.00 4.81
2724 2795 2.282180 GGCAAGTTCCCCTCGCAA 60.282 61.111 0.00 0.00 0.00 4.85
2828 2899 3.842126 CATCGTGACGGCGTGCAG 61.842 66.667 21.19 8.20 0.00 4.41
2940 3011 2.053277 GTCGAGGGTGGAGGAGACC 61.053 68.421 0.00 0.00 0.00 3.85
3078 3150 4.704103 AGGCTGGCCGGAGTCAGA 62.704 66.667 18.31 0.00 41.95 3.27
3080 3152 2.202987 GCTGGCCGGAGTCAGATG 60.203 66.667 18.31 0.30 33.11 2.90
3113 3185 2.291865 TGTATGCCATTGGTGCCCTTTA 60.292 45.455 4.26 0.00 0.00 1.85
3114 3186 1.194218 ATGCCATTGGTGCCCTTTAC 58.806 50.000 4.26 0.00 0.00 2.01
3116 3188 0.614697 GCCATTGGTGCCCTTTACCT 60.615 55.000 4.26 0.00 39.01 3.08
3117 3189 1.341581 GCCATTGGTGCCCTTTACCTA 60.342 52.381 4.26 0.00 39.01 3.08
3118 3190 2.654863 CCATTGGTGCCCTTTACCTAG 58.345 52.381 0.00 0.00 39.01 3.02
3133 3207 6.499350 CCTTTACCTAGCCCCTTGTATGTATA 59.501 42.308 0.00 0.00 0.00 1.47
3135 3209 8.514533 TTTACCTAGCCCCTTGTATGTATATT 57.485 34.615 0.00 0.00 0.00 1.28
3136 3210 8.514533 TTACCTAGCCCCTTGTATGTATATTT 57.485 34.615 0.00 0.00 0.00 1.40
3137 3211 7.017319 ACCTAGCCCCTTGTATGTATATTTC 57.983 40.000 0.00 0.00 0.00 2.17
3138 3212 6.561070 ACCTAGCCCCTTGTATGTATATTTCA 59.439 38.462 0.00 0.00 0.00 2.69
3139 3213 7.106239 CCTAGCCCCTTGTATGTATATTTCAG 58.894 42.308 0.00 0.00 0.00 3.02
3140 3214 6.515512 AGCCCCTTGTATGTATATTTCAGT 57.484 37.500 0.00 0.00 0.00 3.41
3141 3215 7.626999 AGCCCCTTGTATGTATATTTCAGTA 57.373 36.000 0.00 0.00 0.00 2.74
3142 3216 7.680730 AGCCCCTTGTATGTATATTTCAGTAG 58.319 38.462 0.00 0.00 0.00 2.57
3143 3217 6.371825 GCCCCTTGTATGTATATTTCAGTAGC 59.628 42.308 0.00 0.00 0.00 3.58
3144 3218 6.879458 CCCCTTGTATGTATATTTCAGTAGCC 59.121 42.308 0.00 0.00 0.00 3.93
3202 3276 7.755591 TGAGCAATCAGATATTTCACAGTTTC 58.244 34.615 0.00 0.00 0.00 2.78
3249 3323 7.494298 ACATATACACATCGATACACAAAGCAA 59.506 33.333 0.00 0.00 0.00 3.91
3273 3348 5.153950 AGGAAGAGTCAATTACACCACTC 57.846 43.478 0.00 0.00 36.32 3.51
3307 3383 3.747010 TGGCGCGAAAAGTCAGTTTAATA 59.253 39.130 12.10 0.00 0.00 0.98
3377 5330 3.900116 CGCATATACAGTGCAAATTACGC 59.100 43.478 0.00 0.00 42.62 4.42
3389 5342 6.311935 AGTGCAAATTACGCTTCTATACGAAA 59.688 34.615 0.00 0.00 0.00 3.46
3395 5348 4.989279 ACGCTTCTATACGAAAAGGGTA 57.011 40.909 2.68 0.00 42.28 3.69
3408 5361 3.290948 AAAGGGTATTGATTAGGCGCA 57.709 42.857 10.83 0.00 0.00 6.09
3420 5379 2.255252 GGCGCACCAATGTGACAC 59.745 61.111 10.83 0.00 44.49 3.67
3440 5399 4.704833 GGCCCGCTGTCAGCAAGA 62.705 66.667 24.13 0.00 42.58 3.02
3456 5415 2.821546 CAAGACAAAGAGGACGTGTGA 58.178 47.619 0.00 0.00 0.00 3.58
3492 5459 7.259882 TGCACAAAAATAGCCTCAGAAATATG 58.740 34.615 0.00 0.00 0.00 1.78
3516 5483 3.194968 CCTCATGAAAAAGCTCTTGCCAT 59.805 43.478 0.00 0.00 40.80 4.40
3517 5484 4.400251 CCTCATGAAAAAGCTCTTGCCATA 59.600 41.667 0.00 0.00 40.80 2.74
4028 6001 3.375922 CCCCGTTTCAAAATATAGTGCGT 59.624 43.478 0.00 0.00 0.00 5.24
4029 6002 4.571580 CCCCGTTTCAAAATATAGTGCGTA 59.428 41.667 0.00 0.00 0.00 4.42
4032 6005 5.220265 CCGTTTCAAAATATAGTGCGTACGT 60.220 40.000 17.90 0.00 0.00 3.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.098607 CACCGAGTAGCCGATAAACTGA 59.901 50.000 0.00 0.00 0.00 3.41
1 2 2.098607 TCACCGAGTAGCCGATAAACTG 59.901 50.000 0.00 0.00 0.00 3.16
2 3 2.098770 GTCACCGAGTAGCCGATAAACT 59.901 50.000 0.00 0.00 0.00 2.66
3 4 2.457970 GTCACCGAGTAGCCGATAAAC 58.542 52.381 0.00 0.00 0.00 2.01
4 5 1.406539 GGTCACCGAGTAGCCGATAAA 59.593 52.381 0.00 0.00 0.00 1.40
5 6 1.027357 GGTCACCGAGTAGCCGATAA 58.973 55.000 0.00 0.00 0.00 1.75
6 7 0.820891 GGGTCACCGAGTAGCCGATA 60.821 60.000 0.00 0.00 0.00 2.92
7 8 2.125961 GGGTCACCGAGTAGCCGAT 61.126 63.158 0.00 0.00 0.00 4.18
8 9 1.913951 TAGGGTCACCGAGTAGCCGA 61.914 60.000 0.00 0.00 43.47 5.54
9 10 1.452651 TAGGGTCACCGAGTAGCCG 60.453 63.158 0.00 0.00 43.47 5.52
10 11 1.722636 CGTAGGGTCACCGAGTAGCC 61.723 65.000 0.00 0.00 43.47 3.93
11 12 0.745845 TCGTAGGGTCACCGAGTAGC 60.746 60.000 0.00 0.00 43.47 3.58
12 13 1.297664 CTCGTAGGGTCACCGAGTAG 58.702 60.000 0.00 0.00 42.26 2.57
13 14 3.465990 CTCGTAGGGTCACCGAGTA 57.534 57.895 0.00 0.00 42.26 2.59
14 15 4.315588 CTCGTAGGGTCACCGAGT 57.684 61.111 0.00 0.00 42.26 4.18
16 17 0.107508 CCTACTCGTAGGGTCACCGA 60.108 60.000 14.08 0.00 46.96 4.69
17 18 2.401967 CCTACTCGTAGGGTCACCG 58.598 63.158 14.08 0.00 46.96 4.94
25 26 3.504906 TGCCGATTAATCCCTACTCGTAG 59.495 47.826 9.87 0.00 32.34 3.51
26 27 3.489355 TGCCGATTAATCCCTACTCGTA 58.511 45.455 9.87 0.00 32.34 3.43
27 28 2.313317 TGCCGATTAATCCCTACTCGT 58.687 47.619 9.87 0.00 32.34 4.18
28 29 3.243771 ACTTGCCGATTAATCCCTACTCG 60.244 47.826 9.87 0.00 33.64 4.18
29 30 4.338379 ACTTGCCGATTAATCCCTACTC 57.662 45.455 9.87 0.00 0.00 2.59
30 31 4.772886 AACTTGCCGATTAATCCCTACT 57.227 40.909 9.87 0.00 0.00 2.57
31 32 6.018180 CAGTTAACTTGCCGATTAATCCCTAC 60.018 42.308 5.07 0.00 0.00 3.18
32 33 6.053005 CAGTTAACTTGCCGATTAATCCCTA 58.947 40.000 5.07 0.00 0.00 3.53
33 34 4.881850 CAGTTAACTTGCCGATTAATCCCT 59.118 41.667 5.07 0.00 0.00 4.20
34 35 4.036380 CCAGTTAACTTGCCGATTAATCCC 59.964 45.833 5.07 2.26 0.00 3.85
35 36 4.638865 ACCAGTTAACTTGCCGATTAATCC 59.361 41.667 5.07 0.00 0.00 3.01
36 37 5.813080 ACCAGTTAACTTGCCGATTAATC 57.187 39.130 5.07 5.30 0.00 1.75
37 38 7.690952 TTAACCAGTTAACTTGCCGATTAAT 57.309 32.000 5.07 0.00 30.78 1.40
38 39 7.413219 CGATTAACCAGTTAACTTGCCGATTAA 60.413 37.037 5.07 4.36 37.80 1.40
39 40 6.036300 CGATTAACCAGTTAACTTGCCGATTA 59.964 38.462 5.07 0.00 37.80 1.75
40 41 5.163794 CGATTAACCAGTTAACTTGCCGATT 60.164 40.000 5.07 0.00 37.80 3.34
41 42 4.331717 CGATTAACCAGTTAACTTGCCGAT 59.668 41.667 5.07 0.00 37.80 4.18
42 43 3.680937 CGATTAACCAGTTAACTTGCCGA 59.319 43.478 5.07 0.00 37.80 5.54
43 44 3.181514 CCGATTAACCAGTTAACTTGCCG 60.182 47.826 5.07 3.31 37.80 5.69
44 45 4.004982 TCCGATTAACCAGTTAACTTGCC 58.995 43.478 5.07 0.00 37.80 4.52
45 46 5.353123 TCATCCGATTAACCAGTTAACTTGC 59.647 40.000 5.07 0.00 37.80 4.01
46 47 6.978343 TCATCCGATTAACCAGTTAACTTG 57.022 37.500 5.07 5.14 37.80 3.16
47 48 8.575649 AATTCATCCGATTAACCAGTTAACTT 57.424 30.769 5.07 0.00 37.80 2.66
48 49 8.047310 AGAATTCATCCGATTAACCAGTTAACT 58.953 33.333 8.44 1.12 37.80 2.24
49 50 8.122952 CAGAATTCATCCGATTAACCAGTTAAC 58.877 37.037 8.44 0.00 37.80 2.01
50 51 7.282224 CCAGAATTCATCCGATTAACCAGTTAA 59.718 37.037 8.44 5.51 39.12 2.01
51 52 6.765989 CCAGAATTCATCCGATTAACCAGTTA 59.234 38.462 8.44 0.00 0.00 2.24
52 53 5.590259 CCAGAATTCATCCGATTAACCAGTT 59.410 40.000 8.44 0.00 0.00 3.16
53 54 5.104527 TCCAGAATTCATCCGATTAACCAGT 60.105 40.000 8.44 0.00 0.00 4.00
54 55 5.368145 TCCAGAATTCATCCGATTAACCAG 58.632 41.667 8.44 0.00 0.00 4.00
55 56 5.366482 TCCAGAATTCATCCGATTAACCA 57.634 39.130 8.44 0.00 0.00 3.67
56 57 5.588648 TGTTCCAGAATTCATCCGATTAACC 59.411 40.000 8.44 0.00 0.00 2.85
57 58 6.238484 CCTGTTCCAGAATTCATCCGATTAAC 60.238 42.308 8.44 1.74 32.44 2.01
58 59 5.822519 CCTGTTCCAGAATTCATCCGATTAA 59.177 40.000 8.44 0.00 32.44 1.40
59 60 5.368145 CCTGTTCCAGAATTCATCCGATTA 58.632 41.667 8.44 0.00 32.44 1.75
60 61 4.202441 CCTGTTCCAGAATTCATCCGATT 58.798 43.478 8.44 0.00 32.44 3.34
61 62 3.434167 CCCTGTTCCAGAATTCATCCGAT 60.434 47.826 8.44 0.00 32.44 4.18
62 63 2.092968 CCCTGTTCCAGAATTCATCCGA 60.093 50.000 8.44 0.00 32.44 4.55
63 64 2.292267 CCCTGTTCCAGAATTCATCCG 58.708 52.381 8.44 0.00 32.44 4.18
64 65 2.027385 GCCCTGTTCCAGAATTCATCC 58.973 52.381 8.44 0.00 32.44 3.51
65 66 3.010200 AGCCCTGTTCCAGAATTCATC 57.990 47.619 8.44 0.00 32.44 2.92
66 67 3.782523 TCTAGCCCTGTTCCAGAATTCAT 59.217 43.478 8.44 0.00 32.44 2.57
67 68 3.181329 TCTAGCCCTGTTCCAGAATTCA 58.819 45.455 8.44 0.00 32.44 2.57
68 69 3.914426 TCTAGCCCTGTTCCAGAATTC 57.086 47.619 0.00 0.00 32.44 2.17
69 70 4.657814 TTTCTAGCCCTGTTCCAGAATT 57.342 40.909 0.00 0.00 32.44 2.17
70 71 4.870021 ATTTCTAGCCCTGTTCCAGAAT 57.130 40.909 0.00 0.00 32.44 2.40
71 72 4.657814 AATTTCTAGCCCTGTTCCAGAA 57.342 40.909 0.00 0.00 32.44 3.02
72 73 5.772393 TTAATTTCTAGCCCTGTTCCAGA 57.228 39.130 0.00 0.00 32.44 3.86
73 74 6.830838 AGATTTAATTTCTAGCCCTGTTCCAG 59.169 38.462 0.00 0.00 0.00 3.86
74 75 6.731467 AGATTTAATTTCTAGCCCTGTTCCA 58.269 36.000 0.00 0.00 0.00 3.53
75 76 6.017852 CGAGATTTAATTTCTAGCCCTGTTCC 60.018 42.308 0.00 0.00 0.00 3.62
76 77 6.511929 GCGAGATTTAATTTCTAGCCCTGTTC 60.512 42.308 8.81 0.00 36.28 3.18
77 78 5.297029 GCGAGATTTAATTTCTAGCCCTGTT 59.703 40.000 8.81 0.00 36.28 3.16
78 79 4.816925 GCGAGATTTAATTTCTAGCCCTGT 59.183 41.667 8.81 0.00 36.28 4.00
79 80 4.816385 TGCGAGATTTAATTTCTAGCCCTG 59.184 41.667 14.30 0.00 40.02 4.45
80 81 4.816925 GTGCGAGATTTAATTTCTAGCCCT 59.183 41.667 14.30 0.00 40.02 5.19
81 82 4.574828 TGTGCGAGATTTAATTTCTAGCCC 59.425 41.667 14.30 7.25 40.02 5.19
82 83 5.734855 TGTGCGAGATTTAATTTCTAGCC 57.265 39.130 14.30 8.99 40.02 3.93
83 84 9.884465 AAATATGTGCGAGATTTAATTTCTAGC 57.116 29.630 11.62 11.62 40.81 3.42
96 97 9.210329 TGAACTAGTTTTAAAATATGTGCGAGA 57.790 29.630 10.02 0.00 0.00 4.04
97 98 9.478019 CTGAACTAGTTTTAAAATATGTGCGAG 57.522 33.333 10.02 0.00 0.00 5.03
98 99 8.447833 CCTGAACTAGTTTTAAAATATGTGCGA 58.552 33.333 10.02 0.00 0.00 5.10
99 100 8.447833 TCCTGAACTAGTTTTAAAATATGTGCG 58.552 33.333 10.02 0.51 0.00 5.34
114 115 9.649316 ACTATTAGCTATCTTTCCTGAACTAGT 57.351 33.333 0.00 0.00 0.00 2.57
117 118 8.982723 TCAACTATTAGCTATCTTTCCTGAACT 58.017 33.333 0.00 0.00 0.00 3.01
118 119 9.601217 TTCAACTATTAGCTATCTTTCCTGAAC 57.399 33.333 0.00 0.00 0.00 3.18
138 139 9.236006 AGCTATCAGTCATTTTACATTTCAACT 57.764 29.630 0.00 0.00 0.00 3.16
185 186 6.569780 TGCAACGATTAGCTATCTTTCAGTA 58.430 36.000 0.00 0.00 0.00 2.74
186 187 5.419542 TGCAACGATTAGCTATCTTTCAGT 58.580 37.500 0.00 0.00 0.00 3.41
187 188 5.973651 TGCAACGATTAGCTATCTTTCAG 57.026 39.130 0.00 0.00 0.00 3.02
188 189 6.316140 ACATTGCAACGATTAGCTATCTTTCA 59.684 34.615 0.00 0.00 0.00 2.69
189 190 6.719365 ACATTGCAACGATTAGCTATCTTTC 58.281 36.000 0.00 0.00 0.00 2.62
190 191 6.316140 TGACATTGCAACGATTAGCTATCTTT 59.684 34.615 0.00 0.00 0.00 2.52
191 192 5.817296 TGACATTGCAACGATTAGCTATCTT 59.183 36.000 0.00 0.00 0.00 2.40
192 193 5.359756 TGACATTGCAACGATTAGCTATCT 58.640 37.500 0.00 0.00 0.00 1.98
193 194 5.657470 TGACATTGCAACGATTAGCTATC 57.343 39.130 0.00 0.00 0.00 2.08
194 195 6.435430 TTTGACATTGCAACGATTAGCTAT 57.565 33.333 0.00 0.00 0.00 2.97
195 196 5.871465 TTTGACATTGCAACGATTAGCTA 57.129 34.783 0.00 0.00 0.00 3.32
196 197 4.764679 TTTGACATTGCAACGATTAGCT 57.235 36.364 0.00 0.00 0.00 3.32
197 198 5.003778 GTCATTTGACATTGCAACGATTAGC 59.996 40.000 0.00 0.00 44.18 3.09
198 199 6.544620 GTCATTTGACATTGCAACGATTAG 57.455 37.500 0.00 0.00 44.18 1.73
287 352 7.318893 TGAATTCATAGCGAGAGGATATTCAG 58.681 38.462 3.38 0.00 0.00 3.02
434 499 8.046107 GCATATGCTAAAATAATCTCTCTCCCT 58.954 37.037 20.64 0.00 38.21 4.20
467 532 3.778954 AAAGGTTGGAGAGAAGACTGG 57.221 47.619 0.00 0.00 0.00 4.00
469 534 4.904853 AGAGAAAAGGTTGGAGAGAAGACT 59.095 41.667 0.00 0.00 0.00 3.24
501 566 5.388654 AGAGAGAAAAGGGATGCTCAAAAA 58.611 37.500 0.00 0.00 0.00 1.94
502 567 4.990526 AGAGAGAAAAGGGATGCTCAAAA 58.009 39.130 0.00 0.00 0.00 2.44
503 568 4.566488 GGAGAGAGAAAAGGGATGCTCAAA 60.566 45.833 0.00 0.00 0.00 2.69
504 569 3.054802 GGAGAGAGAAAAGGGATGCTCAA 60.055 47.826 0.00 0.00 0.00 3.02
505 570 2.503356 GGAGAGAGAAAAGGGATGCTCA 59.497 50.000 0.00 0.00 0.00 4.26
506 571 2.771372 AGGAGAGAGAAAAGGGATGCTC 59.229 50.000 0.00 0.00 0.00 4.26
507 572 2.504996 CAGGAGAGAGAAAAGGGATGCT 59.495 50.000 0.00 0.00 0.00 3.79
508 573 2.503356 TCAGGAGAGAGAAAAGGGATGC 59.497 50.000 0.00 0.00 0.00 3.91
509 574 3.517100 TGTCAGGAGAGAGAAAAGGGATG 59.483 47.826 0.00 0.00 0.00 3.51
510 575 3.796111 TGTCAGGAGAGAGAAAAGGGAT 58.204 45.455 0.00 0.00 0.00 3.85
511 576 3.260269 TGTCAGGAGAGAGAAAAGGGA 57.740 47.619 0.00 0.00 0.00 4.20
512 577 5.683876 TTATGTCAGGAGAGAGAAAAGGG 57.316 43.478 0.00 0.00 0.00 3.95
513 578 5.584251 GCTTTATGTCAGGAGAGAGAAAAGG 59.416 44.000 0.00 0.00 29.41 3.11
514 579 6.405538 AGCTTTATGTCAGGAGAGAGAAAAG 58.594 40.000 0.00 0.00 29.41 2.27
515 580 6.014242 TGAGCTTTATGTCAGGAGAGAGAAAA 60.014 38.462 0.00 0.00 29.41 2.29
539 604 1.093159 GCCTTCTCCATGCTCTTGTG 58.907 55.000 0.00 0.00 0.00 3.33
687 752 0.965439 CTGATCTCCTTCCCTAGCGG 59.035 60.000 0.00 0.00 0.00 5.52
694 759 2.114616 TCTTCCAGCTGATCTCCTTCC 58.885 52.381 17.39 0.00 0.00 3.46
724 789 0.526211 CAGATCGAACGGTGGACAGA 59.474 55.000 0.00 0.00 0.00 3.41
737 802 1.493950 GAGCCGTTGGATGCAGATCG 61.494 60.000 0.00 0.00 0.00 3.69
791 856 4.897076 TCGGGAATGGCTAGATGTAAGTTA 59.103 41.667 0.00 0.00 0.00 2.24
814 879 6.125029 CAGGGATCTCACCAGTTCAAATTAT 58.875 40.000 0.00 0.00 0.00 1.28
885 953 2.499205 CACGCCCGGAATAGCAGA 59.501 61.111 0.73 0.00 0.00 4.26
901 969 1.426251 TTCTTGGGGCTCTGCTTCCA 61.426 55.000 0.00 0.00 32.48 3.53
929 997 2.306384 GGAGGATGGTTCCCGGGTT 61.306 63.158 22.86 0.91 43.76 4.11
986 1054 4.828296 CCATGGTGGCTGGGAGGC 62.828 72.222 2.57 0.00 41.77 4.70
1131 1202 1.273324 ACCGAGGAGGAGTTGGAGAAT 60.273 52.381 0.00 0.00 45.00 2.40
1594 1665 2.094659 CGAACGACTTGAGCGCCAT 61.095 57.895 2.29 0.00 0.00 4.40
1595 1666 2.733218 CGAACGACTTGAGCGCCA 60.733 61.111 2.29 0.00 0.00 5.69
1606 1677 2.045991 TTGTCGGACACGTCGAACGA 62.046 55.000 10.97 0.09 46.05 3.85
1617 1688 1.441682 GTCGAGGTCGTTGTCGGAC 60.442 63.158 0.00 0.00 40.80 4.79
2357 2428 0.966370 GTGGAGCACGTAGAGGAGGT 60.966 60.000 0.00 0.00 0.00 3.85
2379 2450 3.755628 TAGTCCACGCTGCGGTCC 61.756 66.667 26.95 10.76 0.00 4.46
2556 2627 1.062206 GGAGTAGCCGAAGTCGACG 59.938 63.158 10.46 0.00 43.02 5.12
2733 2804 4.778143 AGGTCCGTGCCGCCATTC 62.778 66.667 0.00 0.00 0.00 2.67
2996 3067 0.102120 CTGCATGGACTCGTCTCTCC 59.898 60.000 0.00 0.00 0.00 3.71
3078 3150 6.982160 ATGGCATACATGGATTTACAACAT 57.018 33.333 0.00 0.00 38.70 2.71
3080 3152 5.984926 CCAATGGCATACATGGATTTACAAC 59.015 40.000 10.57 0.00 40.44 3.32
3113 3185 6.561070 TGAAATATACATACAAGGGGCTAGGT 59.439 38.462 0.00 0.00 0.00 3.08
3114 3186 7.016153 TGAAATATACATACAAGGGGCTAGG 57.984 40.000 0.00 0.00 0.00 3.02
3116 3188 7.626999 ACTGAAATATACATACAAGGGGCTA 57.373 36.000 0.00 0.00 0.00 3.93
3117 3189 6.515512 ACTGAAATATACATACAAGGGGCT 57.484 37.500 0.00 0.00 0.00 5.19
3118 3190 6.371825 GCTACTGAAATATACATACAAGGGGC 59.628 42.308 0.00 0.00 0.00 5.80
3133 3207 5.865085 TGTACAAGAGTTGGCTACTGAAAT 58.135 37.500 6.27 0.00 37.17 2.17
3135 3209 4.948341 TGTACAAGAGTTGGCTACTGAA 57.052 40.909 6.27 0.00 37.17 3.02
3136 3210 4.283467 ACATGTACAAGAGTTGGCTACTGA 59.717 41.667 6.27 0.00 37.17 3.41
3137 3211 4.569943 ACATGTACAAGAGTTGGCTACTG 58.430 43.478 6.27 0.00 37.17 2.74
3138 3212 4.891992 ACATGTACAAGAGTTGGCTACT 57.108 40.909 4.87 0.00 40.71 2.57
3139 3213 7.119262 ACATTTACATGTACAAGAGTTGGCTAC 59.881 37.037 4.68 0.00 42.24 3.58
3140 3214 7.165485 ACATTTACATGTACAAGAGTTGGCTA 58.835 34.615 4.68 0.00 42.24 3.93
3141 3215 6.003950 ACATTTACATGTACAAGAGTTGGCT 58.996 36.000 4.68 0.00 42.24 4.75
3142 3216 6.254281 ACATTTACATGTACAAGAGTTGGC 57.746 37.500 4.68 0.00 42.24 4.52
3143 3217 7.334421 AGCTACATTTACATGTACAAGAGTTGG 59.666 37.037 4.68 0.00 42.24 3.77
3144 3218 8.256611 AGCTACATTTACATGTACAAGAGTTG 57.743 34.615 4.68 0.00 42.24 3.16
3189 3263 3.913799 TCCCTGGAGGAAACTGTGAAATA 59.086 43.478 0.00 0.00 43.78 1.40
3202 3276 4.010349 GTGTGTTCTATTTTCCCTGGAGG 58.990 47.826 0.00 0.00 0.00 4.30
3249 3323 5.941788 AGTGGTGTAATTGACTCTTCCTTT 58.058 37.500 0.00 0.00 0.00 3.11
3273 3348 2.052237 GCGCCAAGTTGTGACACG 60.052 61.111 0.00 0.00 0.00 4.49
3277 3352 0.028770 CTTTTCGCGCCAAGTTGTGA 59.971 50.000 0.00 0.00 0.00 3.58
3321 3397 9.161629 CAAGTTGTGACACCAGTTCAATATATA 57.838 33.333 2.45 0.00 0.00 0.86
3325 3401 4.578516 CCAAGTTGTGACACCAGTTCAATA 59.421 41.667 2.45 0.00 0.00 1.90
3338 3414 1.732917 CGCCAAAGCCAAGTTGTGA 59.267 52.632 1.45 0.00 34.57 3.58
3389 5342 2.572290 GTGCGCCTAATCAATACCCTT 58.428 47.619 4.18 0.00 0.00 3.95
3395 5348 2.099592 CACATTGGTGCGCCTAATCAAT 59.900 45.455 18.96 5.38 38.37 2.57
3408 5361 2.282180 GCCCCGTGTCACATTGGT 60.282 61.111 3.42 0.00 0.00 3.67
3440 5399 1.120530 AGGTCACACGTCCTCTTTGT 58.879 50.000 0.00 0.00 0.00 2.83
3456 5415 5.639082 GCTATTTTTGTGCAAAATAGCAGGT 59.361 36.000 31.21 5.41 46.69 4.00
3477 5444 5.840693 TCATGAGGACATATTTCTGAGGCTA 59.159 40.000 0.00 0.00 35.09 3.93
3492 5459 3.366781 GGCAAGAGCTTTTTCATGAGGAC 60.367 47.826 0.00 0.00 41.70 3.85
3516 5483 0.679640 CAAATGGACCCTTGCGGCTA 60.680 55.000 0.00 0.00 33.26 3.93
3517 5484 1.978617 CAAATGGACCCTTGCGGCT 60.979 57.895 0.00 0.00 33.26 5.52
3532 5499 7.421599 TCAATTATTTTTGAGACGCTGACAAA 58.578 30.769 0.00 0.00 32.07 2.83
4013 5986 4.426416 AGCACGTACGCACTATATTTTGA 58.574 39.130 16.72 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.