Multiple sequence alignment - TraesCS3B01G235300

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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 TraesCS3B01G235300 chr3B 100.000 2651 0 0 1 2651 368115298 368112648 0.000000e+00 4896
1 TraesCS3B01G235300 chr3B 95.023 1708 61 10 612 2301 548843629 548845330 0.000000e+00 2662
2 TraesCS3B01G235300 chr3B 95.706 163 7 0 212 374 368107151 368106989 2.020000e-66 263
3 TraesCS3B01G235300 chr3D 95.261 2068 65 11 612 2651 247888871 247886809 0.000000e+00 3245
4 TraesCS3B01G235300 chr3D 94.686 2070 75 11 613 2651 152827664 152829729 0.000000e+00 3181
5 TraesCS3B01G235300 chr3D 95.906 171 6 1 1 170 281903786 281903616 2.600000e-70 276
6 TraesCS3B01G235300 chr3D 85.641 195 17 8 212 399 272091167 272090977 7.490000e-46 195
7 TraesCS3B01G235300 chr3D 86.188 181 16 6 212 385 272086371 272086193 1.250000e-43 187
8 TraesCS3B01G235300 chr3D 93.333 75 4 1 152 226 247889343 247889270 2.790000e-20 110
9 TraesCS3B01G235300 chr3D 98.361 61 1 0 166 226 152827198 152827258 1.000000e-19 108
10 TraesCS3B01G235300 chr3D 98.333 60 1 0 167 226 241405854 241405913 3.610000e-19 106
11 TraesCS3B01G235300 chr7A 90.467 2486 155 48 212 2651 217767318 217764869 0.000000e+00 3203
12 TraesCS3B01G235300 chr7A 94.683 2069 75 14 612 2651 1410707 1412769 0.000000e+00 3179
13 TraesCS3B01G235300 chr7A 96.527 1699 46 3 965 2651 176257299 176258996 0.000000e+00 2798
14 TraesCS3B01G235300 chr5B 94.732 2069 74 14 612 2651 325080381 325078319 0.000000e+00 3184
15 TraesCS3B01G235300 chr5B 94.361 2057 86 11 621 2651 146820472 146818420 0.000000e+00 3129
16 TraesCS3B01G235300 chr5B 96.115 1699 53 3 965 2651 161075583 161077280 0.000000e+00 2760
17 TraesCS3B01G235300 chr5B 95.565 1691 54 7 612 2287 208429683 208431367 0.000000e+00 2687
18 TraesCS3B01G235300 chr5B 96.581 351 11 1 2302 2651 208431575 208431925 4.920000e-162 580
19 TraesCS3B01G235300 chr5B 84.804 204 18 9 212 406 208429412 208429611 2.690000e-45 193
20 TraesCS3B01G235300 chr5B 82.547 212 24 12 212 413 325080833 325080625 9.750000e-40 174
21 TraesCS3B01G235300 chr5B 98.387 62 1 0 165 226 208429394 208429455 2.790000e-20 110
22 TraesCS3B01G235300 chr2A 94.492 2088 76 17 596 2651 672096148 672094068 0.000000e+00 3182
23 TraesCS3B01G235300 chr2A 100.000 59 0 0 170 228 672091162 672091104 2.790000e-20 110
24 TraesCS3B01G235300 chr2A 100.000 58 0 0 169 226 233461328 233461385 1.000000e-19 108
25 TraesCS3B01G235300 chr6B 94.635 2069 76 14 612 2651 415879809 415881871 0.000000e+00 3173
26 TraesCS3B01G235300 chr6B 82.407 216 29 8 212 419 458495698 458495912 2.100000e-41 180
27 TraesCS3B01G235300 chr6B 82.547 212 24 12 212 413 415879357 415879565 9.750000e-40 174
28 TraesCS3B01G235300 chr6B 98.361 61 1 0 166 226 458495681 458495741 1.000000e-19 108
29 TraesCS3B01G235300 chr4B 94.538 2069 77 15 612 2651 165291851 165293912 0.000000e+00 3162
30 TraesCS3B01G235300 chr4B 96.292 1699 50 3 965 2651 439196259 439197956 0.000000e+00 2776
31 TraesCS3B01G235300 chr4B 82.547 212 24 12 212 413 165291399 165291607 9.750000e-40 174
32 TraesCS3B01G235300 chr4B 98.361 61 1 0 166 226 439195473 439195533 1.000000e-19 108
33 TraesCS3B01G235300 chr1A 96.351 1699 49 3 965 2651 80308142 80306445 0.000000e+00 2782
34 TraesCS3B01G235300 chr1A 100.000 58 0 0 169 226 551164376 551164433 1.000000e-19 108
35 TraesCS3B01G235300 chr4A 96.292 1699 50 3 965 2651 548525467 548523770 0.000000e+00 2776
36 TraesCS3B01G235300 chr2D 90.029 341 24 7 301 638 331757896 331758229 1.460000e-117 433
37 TraesCS3B01G235300 chr3A 96.689 151 2 2 1 148 368521777 368521627 5.670000e-62 248
38 TraesCS3B01G235300 chr5D 88.235 119 13 1 494 612 541690342 541690225 9.890000e-30 141


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 TraesCS3B01G235300 chr3B 368112648 368115298 2650 True 4896.0 4896 100.00000 1 2651 1 chr3B.!!$R2 2650
1 TraesCS3B01G235300 chr3B 548843629 548845330 1701 False 2662.0 2662 95.02300 612 2301 1 chr3B.!!$F1 1689
2 TraesCS3B01G235300 chr3D 247886809 247889343 2534 True 1677.5 3245 94.29700 152 2651 2 chr3D.!!$R4 2499
3 TraesCS3B01G235300 chr3D 152827198 152829729 2531 False 1644.5 3181 96.52350 166 2651 2 chr3D.!!$F2 2485
4 TraesCS3B01G235300 chr7A 217764869 217767318 2449 True 3203.0 3203 90.46700 212 2651 1 chr7A.!!$R1 2439
5 TraesCS3B01G235300 chr7A 1410707 1412769 2062 False 3179.0 3179 94.68300 612 2651 1 chr7A.!!$F1 2039
6 TraesCS3B01G235300 chr7A 176257299 176258996 1697 False 2798.0 2798 96.52700 965 2651 1 chr7A.!!$F2 1686
7 TraesCS3B01G235300 chr5B 146818420 146820472 2052 True 3129.0 3129 94.36100 621 2651 1 chr5B.!!$R1 2030
8 TraesCS3B01G235300 chr5B 161075583 161077280 1697 False 2760.0 2760 96.11500 965 2651 1 chr5B.!!$F1 1686
9 TraesCS3B01G235300 chr5B 325078319 325080833 2514 True 1679.0 3184 88.63950 212 2651 2 chr5B.!!$R2 2439
10 TraesCS3B01G235300 chr5B 208429394 208431925 2531 False 892.5 2687 93.83425 165 2651 4 chr5B.!!$F2 2486
11 TraesCS3B01G235300 chr2A 672091104 672096148 5044 True 1646.0 3182 97.24600 170 2651 2 chr2A.!!$R1 2481
12 TraesCS3B01G235300 chr6B 415879357 415881871 2514 False 1673.5 3173 88.59100 212 2651 2 chr6B.!!$F1 2439
13 TraesCS3B01G235300 chr4B 165291399 165293912 2513 False 1668.0 3162 88.54250 212 2651 2 chr4B.!!$F1 2439
14 TraesCS3B01G235300 chr4B 439195473 439197956 2483 False 1442.0 2776 97.32650 166 2651 2 chr4B.!!$F2 2485
15 TraesCS3B01G235300 chr1A 80306445 80308142 1697 True 2782.0 2782 96.35100 965 2651 1 chr1A.!!$R1 1686
16 TraesCS3B01G235300 chr4A 548523770 548525467 1697 True 2776.0 2776 96.29200 965 2651 1 chr4A.!!$R1 1686

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
42 43 0.037303 TTCAGCCTTCAAGCCTCTGG 59.963 55.0 0.00 0.00 0.0 3.86 F
98 99 0.099968 CCCGTTGAGCATGCATTGAG 59.900 55.0 21.98 7.96 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1600 2215 0.106015 AAGCAACCTTTGAGGCCAGT 60.106 50.0 5.01 0.0 39.63 4.00 R
1877 2492 0.107945 GCACTTCTACCTCTGCCTGG 60.108 60.0 0.00 0.0 0.00 4.45 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
26 27 6.928348 TTTGGTATCTAAGACTCACCTTCA 57.072 37.500 0.00 0.00 0.00 3.02
27 28 6.531503 TTGGTATCTAAGACTCACCTTCAG 57.468 41.667 0.00 0.00 0.00 3.02
28 29 4.402793 TGGTATCTAAGACTCACCTTCAGC 59.597 45.833 0.00 0.00 0.00 4.26
29 30 4.202172 GGTATCTAAGACTCACCTTCAGCC 60.202 50.000 0.00 0.00 0.00 4.85
30 31 3.176924 TCTAAGACTCACCTTCAGCCT 57.823 47.619 0.00 0.00 0.00 4.58
31 32 3.511477 TCTAAGACTCACCTTCAGCCTT 58.489 45.455 0.00 0.00 0.00 4.35
32 33 2.849294 AAGACTCACCTTCAGCCTTC 57.151 50.000 0.00 0.00 0.00 3.46
33 34 1.722034 AGACTCACCTTCAGCCTTCA 58.278 50.000 0.00 0.00 0.00 3.02
34 35 2.050144 AGACTCACCTTCAGCCTTCAA 58.950 47.619 0.00 0.00 0.00 2.69
35 36 2.038295 AGACTCACCTTCAGCCTTCAAG 59.962 50.000 0.00 0.00 0.00 3.02
36 37 1.163554 CTCACCTTCAGCCTTCAAGC 58.836 55.000 0.00 0.00 0.00 4.01
37 38 0.250901 TCACCTTCAGCCTTCAAGCC 60.251 55.000 0.00 0.00 0.00 4.35
38 39 0.251077 CACCTTCAGCCTTCAAGCCT 60.251 55.000 0.00 0.00 0.00 4.58
39 40 0.037447 ACCTTCAGCCTTCAAGCCTC 59.963 55.000 0.00 0.00 0.00 4.70
40 41 0.327591 CCTTCAGCCTTCAAGCCTCT 59.672 55.000 0.00 0.00 0.00 3.69
41 42 1.451067 CTTCAGCCTTCAAGCCTCTG 58.549 55.000 0.00 0.00 0.00 3.35
42 43 0.037303 TTCAGCCTTCAAGCCTCTGG 59.963 55.000 0.00 0.00 0.00 3.86
43 44 0.837691 TCAGCCTTCAAGCCTCTGGA 60.838 55.000 0.00 0.00 0.00 3.86
44 45 0.255318 CAGCCTTCAAGCCTCTGGAT 59.745 55.000 0.00 0.00 0.00 3.41
45 46 0.998145 AGCCTTCAAGCCTCTGGATT 59.002 50.000 0.00 0.00 0.00 3.01
46 47 1.357079 AGCCTTCAAGCCTCTGGATTT 59.643 47.619 0.00 0.00 0.00 2.17
47 48 2.174360 GCCTTCAAGCCTCTGGATTTT 58.826 47.619 0.00 0.00 0.00 1.82
48 49 2.094338 GCCTTCAAGCCTCTGGATTTTG 60.094 50.000 0.00 0.00 0.00 2.44
49 50 3.160269 CCTTCAAGCCTCTGGATTTTGT 58.840 45.455 0.00 0.00 0.00 2.83
50 51 3.575687 CCTTCAAGCCTCTGGATTTTGTT 59.424 43.478 0.00 0.00 0.00 2.83
51 52 4.553323 CTTCAAGCCTCTGGATTTTGTTG 58.447 43.478 0.00 0.00 0.00 3.33
52 53 2.297033 TCAAGCCTCTGGATTTTGTTGC 59.703 45.455 0.00 0.00 0.00 4.17
53 54 1.999648 AGCCTCTGGATTTTGTTGCA 58.000 45.000 0.00 0.00 0.00 4.08
54 55 2.318908 AGCCTCTGGATTTTGTTGCAA 58.681 42.857 0.00 0.00 0.00 4.08
55 56 2.901839 AGCCTCTGGATTTTGTTGCAAT 59.098 40.909 0.59 0.00 0.00 3.56
56 57 4.088634 AGCCTCTGGATTTTGTTGCAATA 58.911 39.130 0.59 0.00 0.00 1.90
57 58 4.527816 AGCCTCTGGATTTTGTTGCAATAA 59.472 37.500 0.59 2.68 0.00 1.40
58 59 5.188359 AGCCTCTGGATTTTGTTGCAATAAT 59.812 36.000 9.58 6.76 0.00 1.28
59 60 5.521372 GCCTCTGGATTTTGTTGCAATAATC 59.479 40.000 9.58 14.25 0.00 1.75
60 61 6.632909 CCTCTGGATTTTGTTGCAATAATCA 58.367 36.000 22.40 13.49 0.00 2.57
61 62 7.098477 CCTCTGGATTTTGTTGCAATAATCAA 58.902 34.615 22.40 15.70 0.00 2.57
62 63 7.063780 CCTCTGGATTTTGTTGCAATAATCAAC 59.936 37.037 22.40 11.51 42.91 3.18
63 64 6.585702 TCTGGATTTTGTTGCAATAATCAACG 59.414 34.615 22.40 14.55 44.88 4.10
64 65 6.219473 TGGATTTTGTTGCAATAATCAACGT 58.781 32.000 22.40 8.12 44.88 3.99
65 66 6.703607 TGGATTTTGTTGCAATAATCAACGTT 59.296 30.769 22.40 0.00 44.88 3.99
66 67 7.225538 TGGATTTTGTTGCAATAATCAACGTTT 59.774 29.630 22.40 0.00 44.88 3.60
67 68 8.704234 GGATTTTGTTGCAATAATCAACGTTTA 58.296 29.630 22.40 0.00 44.88 2.01
71 72 9.900710 TTTGTTGCAATAATCAACGTTTATAGT 57.099 25.926 9.58 0.00 44.88 2.12
73 74 9.976255 TGTTGCAATAATCAACGTTTATAGTAC 57.024 29.630 0.59 0.00 44.88 2.73
74 75 9.139726 GTTGCAATAATCAACGTTTATAGTACG 57.860 33.333 0.59 7.64 44.20 3.67
75 76 8.631676 TGCAATAATCAACGTTTATAGTACGA 57.368 30.769 14.13 0.00 41.33 3.43
76 77 9.251792 TGCAATAATCAACGTTTATAGTACGAT 57.748 29.630 14.13 0.00 41.33 3.73
77 78 9.512287 GCAATAATCAACGTTTATAGTACGATG 57.488 33.333 14.13 12.53 41.36 3.84
81 82 5.581605 TCAACGTTTATAGTACGATGACCC 58.418 41.667 14.21 0.00 42.98 4.46
82 83 4.214980 ACGTTTATAGTACGATGACCCG 57.785 45.455 14.13 0.00 41.33 5.28
83 84 3.627577 ACGTTTATAGTACGATGACCCGT 59.372 43.478 14.13 0.00 45.54 5.28
84 85 4.096382 ACGTTTATAGTACGATGACCCGTT 59.904 41.667 14.13 0.00 43.20 4.44
85 86 4.438797 CGTTTATAGTACGATGACCCGTTG 59.561 45.833 0.00 0.00 43.20 4.10
86 87 5.581605 GTTTATAGTACGATGACCCGTTGA 58.418 41.667 0.00 0.00 43.20 3.18
87 88 3.984508 ATAGTACGATGACCCGTTGAG 57.015 47.619 0.00 0.00 43.20 3.02
88 89 0.172803 AGTACGATGACCCGTTGAGC 59.827 55.000 0.00 0.00 43.20 4.26
89 90 0.108992 GTACGATGACCCGTTGAGCA 60.109 55.000 0.00 0.00 43.20 4.26
90 91 0.821517 TACGATGACCCGTTGAGCAT 59.178 50.000 0.00 0.00 43.20 3.79
91 92 0.740868 ACGATGACCCGTTGAGCATG 60.741 55.000 0.00 0.00 40.17 4.06
92 93 1.723870 GATGACCCGTTGAGCATGC 59.276 57.895 10.51 10.51 0.00 4.06
93 94 1.002257 ATGACCCGTTGAGCATGCA 60.002 52.632 21.98 0.00 0.00 3.96
94 95 0.394762 ATGACCCGTTGAGCATGCAT 60.395 50.000 21.98 4.75 0.00 3.96
95 96 0.608856 TGACCCGTTGAGCATGCATT 60.609 50.000 21.98 0.00 0.00 3.56
96 97 0.179156 GACCCGTTGAGCATGCATTG 60.179 55.000 21.98 4.46 0.00 2.82
97 98 0.608856 ACCCGTTGAGCATGCATTGA 60.609 50.000 21.98 0.00 0.00 2.57
98 99 0.099968 CCCGTTGAGCATGCATTGAG 59.900 55.000 21.98 7.96 0.00 3.02
99 100 0.524816 CCGTTGAGCATGCATTGAGC 60.525 55.000 21.98 0.00 45.96 4.26
100 101 0.450583 CGTTGAGCATGCATTGAGCT 59.549 50.000 21.98 9.59 45.94 4.09
103 104 3.097461 GAGCATGCATTGAGCTCCT 57.903 52.632 21.98 0.00 46.82 3.69
104 105 1.390565 GAGCATGCATTGAGCTCCTT 58.609 50.000 21.98 0.00 46.82 3.36
105 106 1.749634 GAGCATGCATTGAGCTCCTTT 59.250 47.619 21.98 0.00 46.82 3.11
106 107 2.165845 GAGCATGCATTGAGCTCCTTTT 59.834 45.455 21.98 0.00 46.82 2.27
107 108 3.359033 AGCATGCATTGAGCTCCTTTTA 58.641 40.909 21.98 0.00 45.94 1.52
108 109 3.129988 AGCATGCATTGAGCTCCTTTTAC 59.870 43.478 21.98 0.00 45.94 2.01
109 110 3.736126 GCATGCATTGAGCTCCTTTTACC 60.736 47.826 14.21 0.00 45.94 2.85
110 111 3.439857 TGCATTGAGCTCCTTTTACCT 57.560 42.857 12.15 0.00 45.94 3.08
111 112 3.766545 TGCATTGAGCTCCTTTTACCTT 58.233 40.909 12.15 0.00 45.94 3.50
112 113 3.507233 TGCATTGAGCTCCTTTTACCTTG 59.493 43.478 12.15 0.00 45.94 3.61
113 114 3.507622 GCATTGAGCTCCTTTTACCTTGT 59.492 43.478 12.15 0.00 41.15 3.16
114 115 4.616835 GCATTGAGCTCCTTTTACCTTGTG 60.617 45.833 12.15 0.00 41.15 3.33
115 116 3.857157 TGAGCTCCTTTTACCTTGTGT 57.143 42.857 12.15 0.00 0.00 3.72
116 117 4.967084 TGAGCTCCTTTTACCTTGTGTA 57.033 40.909 12.15 0.00 0.00 2.90
117 118 4.638304 TGAGCTCCTTTTACCTTGTGTAC 58.362 43.478 12.15 0.00 0.00 2.90
118 119 4.101898 TGAGCTCCTTTTACCTTGTGTACA 59.898 41.667 12.15 0.00 0.00 2.90
119 120 5.043737 AGCTCCTTTTACCTTGTGTACAA 57.956 39.130 0.00 0.00 0.00 2.41
120 121 5.442391 AGCTCCTTTTACCTTGTGTACAAA 58.558 37.500 0.00 0.00 35.15 2.83
121 122 5.531287 AGCTCCTTTTACCTTGTGTACAAAG 59.469 40.000 0.00 4.09 35.15 2.77
122 123 5.298527 GCTCCTTTTACCTTGTGTACAAAGT 59.701 40.000 0.00 4.60 35.15 2.66
123 124 6.183360 GCTCCTTTTACCTTGTGTACAAAGTT 60.183 38.462 0.00 0.00 35.15 2.66
124 125 7.324354 TCCTTTTACCTTGTGTACAAAGTTC 57.676 36.000 0.00 0.00 35.15 3.01
125 126 6.885376 TCCTTTTACCTTGTGTACAAAGTTCA 59.115 34.615 0.00 0.00 35.15 3.18
126 127 7.558444 TCCTTTTACCTTGTGTACAAAGTTCAT 59.442 33.333 0.00 0.00 35.15 2.57
127 128 8.194769 CCTTTTACCTTGTGTACAAAGTTCATT 58.805 33.333 0.00 0.00 35.15 2.57
132 133 7.190871 ACCTTGTGTACAAAGTTCATTAAACG 58.809 34.615 0.00 0.00 43.02 3.60
133 134 7.148205 ACCTTGTGTACAAAGTTCATTAAACGT 60.148 33.333 0.00 0.00 43.02 3.99
134 135 7.165154 CCTTGTGTACAAAGTTCATTAAACGTG 59.835 37.037 0.00 0.00 43.02 4.49
135 136 5.966503 TGTGTACAAAGTTCATTAAACGTGC 59.033 36.000 0.00 0.00 43.02 5.34
136 137 5.966503 GTGTACAAAGTTCATTAAACGTGCA 59.033 36.000 0.00 0.00 43.02 4.57
137 138 6.140108 GTGTACAAAGTTCATTAAACGTGCAG 59.860 38.462 0.00 0.00 43.02 4.41
138 139 4.041723 ACAAAGTTCATTAAACGTGCAGC 58.958 39.130 0.00 0.00 43.02 5.25
139 140 4.202010 ACAAAGTTCATTAAACGTGCAGCT 60.202 37.500 0.00 0.00 43.02 4.24
140 141 3.813529 AGTTCATTAAACGTGCAGCTC 57.186 42.857 0.00 0.00 43.02 4.09
141 142 3.138304 AGTTCATTAAACGTGCAGCTCA 58.862 40.909 0.00 0.00 43.02 4.26
142 143 3.753272 AGTTCATTAAACGTGCAGCTCAT 59.247 39.130 0.00 0.00 43.02 2.90
143 144 3.745332 TCATTAAACGTGCAGCTCATG 57.255 42.857 0.00 0.00 37.70 3.07
144 145 2.419673 TCATTAAACGTGCAGCTCATGG 59.580 45.455 0.00 0.00 36.01 3.66
145 146 2.177394 TTAAACGTGCAGCTCATGGA 57.823 45.000 0.00 0.00 36.01 3.41
146 147 2.401583 TAAACGTGCAGCTCATGGAT 57.598 45.000 0.00 2.31 36.01 3.41
147 148 2.401583 AAACGTGCAGCTCATGGATA 57.598 45.000 0.00 0.00 36.01 2.59
148 149 2.401583 AACGTGCAGCTCATGGATAA 57.598 45.000 0.00 0.00 36.01 1.75
149 150 2.401583 ACGTGCAGCTCATGGATAAA 57.598 45.000 9.30 0.00 36.01 1.40
150 151 2.710377 ACGTGCAGCTCATGGATAAAA 58.290 42.857 9.30 0.00 36.01 1.52
210 211 2.761809 AGCCCATCAAGATCTGTCTCT 58.238 47.619 0.00 0.00 32.15 3.10
218 219 0.252881 AGATCTGTCTCTTGGGCCCA 60.253 55.000 24.45 24.45 0.00 5.36
302 304 4.410400 CTTCCCCCTGTCCCGTGC 62.410 72.222 0.00 0.00 0.00 5.34
318 320 4.030452 GCAAGCCGCCACAGACAC 62.030 66.667 0.00 0.00 32.94 3.67
319 321 3.357079 CAAGCCGCCACAGACACC 61.357 66.667 0.00 0.00 0.00 4.16
321 323 3.414136 AAGCCGCCACAGACACCAA 62.414 57.895 0.00 0.00 0.00 3.67
324 326 2.551912 CCGCCACAGACACCAAACC 61.552 63.158 0.00 0.00 0.00 3.27
328 330 1.444119 CCACAGACACCAAACCCACG 61.444 60.000 0.00 0.00 0.00 4.94
347 353 2.677979 CGAGCGACCAGACACGAGA 61.678 63.158 0.00 0.00 0.00 4.04
361 367 2.581216 ACGAGAGTGAACCCTGTCTA 57.419 50.000 0.00 0.00 46.97 2.59
401 410 1.131638 ACATGGTATCAGATGCCGGT 58.868 50.000 12.51 10.26 37.93 5.28
429 438 3.003173 CCTGAGGGCTGACGGGAA 61.003 66.667 0.00 0.00 34.76 3.97
430 439 2.581354 CTGAGGGCTGACGGGAAG 59.419 66.667 0.00 0.00 0.00 3.46
431 440 3.003173 TGAGGGCTGACGGGAAGG 61.003 66.667 0.00 0.00 0.00 3.46
437 446 4.101448 CTGACGGGAAGGGGGCAG 62.101 72.222 0.00 0.00 0.00 4.85
464 654 4.074526 GCAGAGGTGCGCTGGAGA 62.075 66.667 9.73 0.00 40.71 3.71
467 657 3.071206 GAGGTGCGCTGGAGAGGA 61.071 66.667 9.73 0.00 0.00 3.71
520 756 1.079819 CGCTGCCTTCTTTCGAGGA 60.080 57.895 0.00 0.00 36.33 3.71
523 759 1.738700 GCTGCCTTCTTTCGAGGAGAG 60.739 57.143 0.00 0.00 36.33 3.20
529 765 2.680352 TTTCGAGGAGAGGCGGCT 60.680 61.111 13.09 13.09 0.00 5.52
531 767 4.742649 TCGAGGAGAGGCGGCTGT 62.743 66.667 19.63 14.17 0.00 4.40
533 769 4.828925 GAGGAGAGGCGGCTGTGC 62.829 72.222 19.63 19.56 0.00 4.57
577 915 2.045242 CATGTCAGGGCTGCTGCT 60.045 61.111 15.64 0.00 39.59 4.24
579 917 2.599757 ATGTCAGGGCTGCTGCTGA 61.600 57.895 15.64 9.32 39.59 4.26
581 919 4.383861 TCAGGGCTGCTGCTGACG 62.384 66.667 15.64 2.43 39.59 4.35
593 931 4.641645 CTGACGGTGCAGGGCCAA 62.642 66.667 6.18 0.00 32.26 4.52
594 932 3.925630 CTGACGGTGCAGGGCCAAT 62.926 63.158 6.18 0.00 32.26 3.16
595 933 3.443045 GACGGTGCAGGGCCAATG 61.443 66.667 6.18 3.48 0.00 2.82
607 945 4.431131 CCAATGGCTGGCGGAGGT 62.431 66.667 0.00 0.00 38.76 3.85
608 946 3.136123 CAATGGCTGGCGGAGGTG 61.136 66.667 0.00 0.00 0.00 4.00
609 947 3.650950 AATGGCTGGCGGAGGTGT 61.651 61.111 0.00 0.00 0.00 4.16
610 948 3.210012 AATGGCTGGCGGAGGTGTT 62.210 57.895 0.00 0.00 0.00 3.32
639 1039 2.385417 AGAAGAGGAGGAGGAAGAAGGT 59.615 50.000 0.00 0.00 0.00 3.50
669 1138 4.329545 GGGCTGGGTGCGAGTCAA 62.330 66.667 0.00 0.00 44.05 3.18
749 1351 0.764890 TGCTGTACCTGGAAGCTTGT 59.235 50.000 2.10 0.00 37.82 3.16
771 1373 2.974148 CTGCTGGTGCTTGTGCGA 60.974 61.111 0.00 0.00 43.34 5.10
791 1393 2.980233 GCTTCTTGGTGCTGCGGT 60.980 61.111 0.00 0.00 0.00 5.68
874 1476 1.332375 GACCGCTTGTGTGCTTTACAA 59.668 47.619 0.00 0.00 41.89 2.41
941 1548 2.594592 GTGGTGGTGGTGGTGCTC 60.595 66.667 0.00 0.00 0.00 4.26
978 1586 3.134623 TCTCTGAGGCTGAGTTTTGTTGA 59.865 43.478 4.59 0.00 32.50 3.18
1062 1670 1.309950 CTAAGATCCTCGCGGAGTCA 58.690 55.000 6.13 0.00 44.06 3.41
1101 1709 0.389166 CTCGACAGGAAGTGGCTCAC 60.389 60.000 0.00 0.00 34.10 3.51
1324 1932 2.438434 CCGTGGTGCCCTCCATTC 60.438 66.667 0.00 0.00 39.81 2.67
1339 1947 0.109086 CATTCGACGCTCTGTGGAGT 60.109 55.000 0.00 0.00 41.38 3.85
1518 2127 0.464554 GGGCTGACCAGGATAACTGC 60.465 60.000 0.00 0.00 46.14 4.40
1551 2166 3.813443 ACTCTATGATGCGGCTTCAATT 58.187 40.909 20.44 9.40 0.00 2.32
1593 2208 3.177600 CGCAGGCGTGTGCTAAAT 58.822 55.556 7.06 0.00 41.62 1.40
1628 2243 2.137523 CAAAGGTTGCTTTGATGGCAC 58.862 47.619 0.00 0.00 44.54 5.01
1639 2254 1.377202 GATGGCACGAAGGCTTCCA 60.377 57.895 20.97 14.18 44.55 3.53
1648 2263 1.251251 GAAGGCTTCCATGTTGCACT 58.749 50.000 16.50 0.00 0.00 4.40
1669 2284 5.597182 CACTAACCTAGTCTGCCTACCATTA 59.403 44.000 0.00 0.00 36.76 1.90
1685 2300 4.848357 ACCATTACTGAAGCTATTGCAGT 58.152 39.130 13.60 13.60 44.38 4.40
1727 2342 2.658285 CCTATCCCTTTGAGCATGCAA 58.342 47.619 21.98 4.48 0.00 4.08
1743 2358 1.479730 TGCAAACATGAAGGTTGTGCA 59.520 42.857 0.00 11.07 46.85 4.57
1877 2492 2.157989 AGGGGATATAACAGAGGGGGAC 60.158 54.545 0.00 0.00 0.00 4.46
1929 2544 4.417183 AGGTGGATACTCAGAGACCTCATA 59.583 45.833 3.79 0.00 37.61 2.15
2234 2849 3.006940 CACATGGGCACTATACAAACGT 58.993 45.455 0.00 0.00 0.00 3.99
2304 3101 3.071602 ACTCCGACCATTTCCCTATCATG 59.928 47.826 0.00 0.00 0.00 3.07
2307 3104 2.549754 CGACCATTTCCCTATCATGTGC 59.450 50.000 0.00 0.00 0.00 4.57
2308 3105 2.887152 GACCATTTCCCTATCATGTGCC 59.113 50.000 0.00 0.00 0.00 5.01
2309 3106 2.244510 ACCATTTCCCTATCATGTGCCA 59.755 45.455 0.00 0.00 0.00 4.92
2318 3127 3.136443 CCTATCATGTGCCACCTTTCCTA 59.864 47.826 0.00 0.00 0.00 2.94
2342 3151 4.828939 TCAATTTGGTCTCTTTCAGTGCAT 59.171 37.500 0.00 0.00 0.00 3.96
2375 3184 2.521126 TGGACTGTCGTGTGATCCTTA 58.479 47.619 1.07 0.00 0.00 2.69
2385 3194 3.985279 CGTGTGATCCTTAACAAGTTCGA 59.015 43.478 0.00 0.00 0.00 3.71
2395 3204 6.876789 TCCTTAACAAGTTCGATTGCTTGATA 59.123 34.615 22.88 16.02 43.29 2.15
2402 3211 3.610040 TCGATTGCTTGATACAGGTGT 57.390 42.857 0.00 0.00 0.00 4.16
2553 3362 3.056080 ACTGTAGGATGGGGCATGTATT 58.944 45.455 0.00 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 7.741785 TGAAGGTGAGTCTTAGATACCAAAAA 58.258 34.615 13.10 0.00 33.88 1.94
2 3 7.311092 TGAAGGTGAGTCTTAGATACCAAAA 57.689 36.000 13.10 0.00 33.88 2.44
4 5 5.105310 GCTGAAGGTGAGTCTTAGATACCAA 60.105 44.000 13.10 1.93 33.88 3.67
5 6 4.402793 GCTGAAGGTGAGTCTTAGATACCA 59.597 45.833 13.10 0.00 33.88 3.25
6 7 4.202172 GGCTGAAGGTGAGTCTTAGATACC 60.202 50.000 5.51 5.51 0.00 2.73
7 8 4.647399 AGGCTGAAGGTGAGTCTTAGATAC 59.353 45.833 0.00 0.00 0.00 2.24
8 9 4.873010 AGGCTGAAGGTGAGTCTTAGATA 58.127 43.478 0.00 0.00 0.00 1.98
9 10 3.718723 AGGCTGAAGGTGAGTCTTAGAT 58.281 45.455 0.00 0.00 0.00 1.98
10 11 3.176924 AGGCTGAAGGTGAGTCTTAGA 57.823 47.619 0.00 0.00 0.00 2.10
11 12 3.259374 TGAAGGCTGAAGGTGAGTCTTAG 59.741 47.826 0.00 0.00 35.50 2.18
12 13 3.239449 TGAAGGCTGAAGGTGAGTCTTA 58.761 45.455 0.00 0.00 35.50 2.10
13 14 2.050144 TGAAGGCTGAAGGTGAGTCTT 58.950 47.619 0.00 0.00 38.10 3.01
14 15 1.722034 TGAAGGCTGAAGGTGAGTCT 58.278 50.000 0.00 0.00 0.00 3.24
15 16 2.421619 CTTGAAGGCTGAAGGTGAGTC 58.578 52.381 0.00 0.00 0.00 3.36
16 17 1.544314 GCTTGAAGGCTGAAGGTGAGT 60.544 52.381 8.24 0.00 0.00 3.41
17 18 1.163554 GCTTGAAGGCTGAAGGTGAG 58.836 55.000 8.24 0.00 0.00 3.51
18 19 0.250901 GGCTTGAAGGCTGAAGGTGA 60.251 55.000 11.88 0.00 37.85 4.02
19 20 2.261215 GGCTTGAAGGCTGAAGGTG 58.739 57.895 11.88 0.00 37.85 4.00
20 21 4.830573 GGCTTGAAGGCTGAAGGT 57.169 55.556 11.88 0.00 37.85 3.50
27 28 1.844687 AAATCCAGAGGCTTGAAGGC 58.155 50.000 11.17 11.17 41.73 4.35
28 29 3.160269 ACAAAATCCAGAGGCTTGAAGG 58.840 45.455 0.00 0.00 0.00 3.46
29 30 4.553323 CAACAAAATCCAGAGGCTTGAAG 58.447 43.478 0.00 0.00 0.00 3.02
30 31 3.243839 GCAACAAAATCCAGAGGCTTGAA 60.244 43.478 0.00 0.00 0.00 2.69
31 32 2.297033 GCAACAAAATCCAGAGGCTTGA 59.703 45.455 0.00 0.00 0.00 3.02
32 33 2.036217 TGCAACAAAATCCAGAGGCTTG 59.964 45.455 0.00 0.00 0.00 4.01
33 34 2.318908 TGCAACAAAATCCAGAGGCTT 58.681 42.857 0.00 0.00 0.00 4.35
34 35 1.999648 TGCAACAAAATCCAGAGGCT 58.000 45.000 0.00 0.00 0.00 4.58
35 36 2.818130 TTGCAACAAAATCCAGAGGC 57.182 45.000 0.00 0.00 0.00 4.70
36 37 6.632909 TGATTATTGCAACAAAATCCAGAGG 58.367 36.000 20.09 0.00 0.00 3.69
37 38 7.201376 CGTTGATTATTGCAACAAAATCCAGAG 60.201 37.037 20.09 10.65 44.37 3.35
38 39 6.585702 CGTTGATTATTGCAACAAAATCCAGA 59.414 34.615 20.09 9.67 44.37 3.86
39 40 6.365789 ACGTTGATTATTGCAACAAAATCCAG 59.634 34.615 20.09 15.43 44.37 3.86
40 41 6.219473 ACGTTGATTATTGCAACAAAATCCA 58.781 32.000 20.09 11.85 44.37 3.41
41 42 6.704512 ACGTTGATTATTGCAACAAAATCC 57.295 33.333 20.09 10.45 44.37 3.01
45 46 9.900710 ACTATAAACGTTGATTATTGCAACAAA 57.099 25.926 2.78 0.00 44.37 2.83
47 48 9.976255 GTACTATAAACGTTGATTATTGCAACA 57.024 29.630 2.78 0.00 44.37 3.33
48 49 9.139726 CGTACTATAAACGTTGATTATTGCAAC 57.860 33.333 2.78 0.00 41.57 4.17
49 50 9.085250 TCGTACTATAAACGTTGATTATTGCAA 57.915 29.630 2.78 0.00 41.08 4.08
50 51 8.631676 TCGTACTATAAACGTTGATTATTGCA 57.368 30.769 2.78 0.00 41.08 4.08
51 52 9.512287 CATCGTACTATAAACGTTGATTATTGC 57.488 33.333 2.78 0.00 40.67 3.56
54 55 9.403110 GGTCATCGTACTATAAACGTTGATTAT 57.597 33.333 17.32 0.00 45.43 1.28
55 56 7.862372 GGGTCATCGTACTATAAACGTTGATTA 59.138 37.037 17.32 0.00 45.43 1.75
56 57 6.698766 GGGTCATCGTACTATAAACGTTGATT 59.301 38.462 17.32 0.00 45.43 2.57
57 58 6.211515 GGGTCATCGTACTATAAACGTTGAT 58.788 40.000 17.32 1.39 45.43 2.57
58 59 5.581605 GGGTCATCGTACTATAAACGTTGA 58.418 41.667 0.00 13.18 43.16 3.18
59 60 4.438797 CGGGTCATCGTACTATAAACGTTG 59.561 45.833 0.00 10.14 41.08 4.10
60 61 4.096382 ACGGGTCATCGTACTATAAACGTT 59.904 41.667 0.00 0.00 41.98 3.99
61 62 3.627577 ACGGGTCATCGTACTATAAACGT 59.372 43.478 7.06 0.00 41.98 3.99
62 63 4.214980 ACGGGTCATCGTACTATAAACG 57.785 45.455 1.75 1.75 41.98 3.60
63 64 5.581605 TCAACGGGTCATCGTACTATAAAC 58.418 41.667 0.00 0.00 43.07 2.01
64 65 5.734220 GCTCAACGGGTCATCGTACTATAAA 60.734 44.000 0.00 0.00 43.07 1.40
65 66 4.261322 GCTCAACGGGTCATCGTACTATAA 60.261 45.833 0.00 0.00 43.07 0.98
66 67 3.251729 GCTCAACGGGTCATCGTACTATA 59.748 47.826 0.00 0.00 43.07 1.31
67 68 2.034305 GCTCAACGGGTCATCGTACTAT 59.966 50.000 0.00 0.00 43.07 2.12
68 69 1.402968 GCTCAACGGGTCATCGTACTA 59.597 52.381 0.00 0.00 43.07 1.82
69 70 0.172803 GCTCAACGGGTCATCGTACT 59.827 55.000 0.00 0.00 43.07 2.73
70 71 0.108992 TGCTCAACGGGTCATCGTAC 60.109 55.000 0.00 0.00 43.07 3.67
71 72 0.821517 ATGCTCAACGGGTCATCGTA 59.178 50.000 0.00 0.00 43.07 3.43
72 73 0.740868 CATGCTCAACGGGTCATCGT 60.741 55.000 0.00 0.00 46.08 3.73
73 74 2.009108 CATGCTCAACGGGTCATCG 58.991 57.895 0.00 0.00 0.00 3.84
74 75 1.026182 TGCATGCTCAACGGGTCATC 61.026 55.000 20.33 0.00 0.00 2.92
75 76 0.394762 ATGCATGCTCAACGGGTCAT 60.395 50.000 20.33 0.00 0.00 3.06
76 77 0.608856 AATGCATGCTCAACGGGTCA 60.609 50.000 20.33 0.00 0.00 4.02
77 78 0.179156 CAATGCATGCTCAACGGGTC 60.179 55.000 20.33 0.00 0.00 4.46
78 79 0.608856 TCAATGCATGCTCAACGGGT 60.609 50.000 20.33 0.00 0.00 5.28
79 80 0.099968 CTCAATGCATGCTCAACGGG 59.900 55.000 20.33 0.00 0.00 5.28
80 81 0.524816 GCTCAATGCATGCTCAACGG 60.525 55.000 20.33 6.06 42.31 4.44
81 82 0.450583 AGCTCAATGCATGCTCAACG 59.549 50.000 20.33 5.91 45.94 4.10
86 87 1.848652 AAAGGAGCTCAATGCATGCT 58.151 45.000 20.33 9.59 45.94 3.79
87 88 2.667473 AAAAGGAGCTCAATGCATGC 57.333 45.000 17.19 11.82 45.94 4.06
88 89 3.698040 AGGTAAAAGGAGCTCAATGCATG 59.302 43.478 17.19 0.00 45.94 4.06
89 90 3.973425 AGGTAAAAGGAGCTCAATGCAT 58.027 40.909 17.19 0.00 45.94 3.96
90 91 3.439857 AGGTAAAAGGAGCTCAATGCA 57.560 42.857 17.19 0.00 45.94 3.96
91 92 3.507622 ACAAGGTAAAAGGAGCTCAATGC 59.492 43.478 17.19 0.00 43.29 3.56
92 93 4.520492 ACACAAGGTAAAAGGAGCTCAATG 59.480 41.667 17.19 3.13 0.00 2.82
93 94 4.729868 ACACAAGGTAAAAGGAGCTCAAT 58.270 39.130 17.19 0.00 0.00 2.57
94 95 4.164843 ACACAAGGTAAAAGGAGCTCAA 57.835 40.909 17.19 0.00 0.00 3.02
95 96 3.857157 ACACAAGGTAAAAGGAGCTCA 57.143 42.857 17.19 0.00 0.00 4.26
96 97 4.638304 TGTACACAAGGTAAAAGGAGCTC 58.362 43.478 4.71 4.71 32.72 4.09
97 98 4.699925 TGTACACAAGGTAAAAGGAGCT 57.300 40.909 0.00 0.00 32.72 4.09
98 99 5.298527 ACTTTGTACACAAGGTAAAAGGAGC 59.701 40.000 7.97 0.00 43.09 4.70
99 100 6.937436 ACTTTGTACACAAGGTAAAAGGAG 57.063 37.500 7.97 0.00 43.09 3.69
100 101 6.885376 TGAACTTTGTACACAAGGTAAAAGGA 59.115 34.615 9.89 0.00 43.93 3.36
101 102 7.090953 TGAACTTTGTACACAAGGTAAAAGG 57.909 36.000 9.89 0.00 43.93 3.11
106 107 8.336806 CGTTTAATGAACTTTGTACACAAGGTA 58.663 33.333 9.89 0.00 43.93 3.08
107 108 7.148205 ACGTTTAATGAACTTTGTACACAAGGT 60.148 33.333 16.79 12.71 46.17 3.50
108 109 7.165154 CACGTTTAATGAACTTTGTACACAAGG 59.835 37.037 16.79 2.95 38.67 3.61
109 110 7.305190 GCACGTTTAATGAACTTTGTACACAAG 60.305 37.037 13.08 13.08 36.06 3.16
110 111 6.469595 GCACGTTTAATGAACTTTGTACACAA 59.530 34.615 0.00 0.00 36.06 3.33
111 112 5.966503 GCACGTTTAATGAACTTTGTACACA 59.033 36.000 0.00 0.00 36.06 3.72
112 113 5.966503 TGCACGTTTAATGAACTTTGTACAC 59.033 36.000 0.00 0.00 36.06 2.90
113 114 6.120378 TGCACGTTTAATGAACTTTGTACA 57.880 33.333 0.00 0.00 36.06 2.90
114 115 5.115021 GCTGCACGTTTAATGAACTTTGTAC 59.885 40.000 0.00 0.00 36.06 2.90
115 116 5.008217 AGCTGCACGTTTAATGAACTTTGTA 59.992 36.000 1.02 0.00 36.06 2.41
116 117 4.041723 GCTGCACGTTTAATGAACTTTGT 58.958 39.130 0.00 0.00 36.06 2.83
117 118 4.290155 AGCTGCACGTTTAATGAACTTTG 58.710 39.130 1.02 0.00 36.06 2.77
118 119 4.036262 TGAGCTGCACGTTTAATGAACTTT 59.964 37.500 1.02 0.00 36.06 2.66
119 120 3.563808 TGAGCTGCACGTTTAATGAACTT 59.436 39.130 1.02 0.00 36.06 2.66
120 121 3.138304 TGAGCTGCACGTTTAATGAACT 58.862 40.909 1.02 0.00 36.06 3.01
121 122 3.536158 TGAGCTGCACGTTTAATGAAC 57.464 42.857 1.02 0.00 34.82 3.18
122 123 3.119884 CCATGAGCTGCACGTTTAATGAA 60.120 43.478 1.02 0.00 0.00 2.57
123 124 2.419673 CCATGAGCTGCACGTTTAATGA 59.580 45.455 1.02 0.00 0.00 2.57
124 125 2.419673 TCCATGAGCTGCACGTTTAATG 59.580 45.455 1.02 0.00 0.00 1.90
125 126 2.710377 TCCATGAGCTGCACGTTTAAT 58.290 42.857 1.02 0.00 0.00 1.40
126 127 2.177394 TCCATGAGCTGCACGTTTAA 57.823 45.000 1.02 0.00 0.00 1.52
127 128 2.401583 ATCCATGAGCTGCACGTTTA 57.598 45.000 1.02 0.00 0.00 2.01
128 129 2.401583 TATCCATGAGCTGCACGTTT 57.598 45.000 1.02 0.00 0.00 3.60
129 130 2.401583 TTATCCATGAGCTGCACGTT 57.598 45.000 1.02 0.00 0.00 3.99
130 131 2.401583 TTTATCCATGAGCTGCACGT 57.598 45.000 1.02 0.00 0.00 4.49
131 132 3.763097 TTTTTATCCATGAGCTGCACG 57.237 42.857 1.02 0.00 0.00 5.34
218 219 3.113824 AGAGACAGATCTTGATGGGCTT 58.886 45.455 0.00 0.00 34.34 4.35
302 304 3.357079 GGTGTCTGTGGCGGCTTG 61.357 66.667 11.43 0.00 0.00 4.01
303 305 2.902423 TTTGGTGTCTGTGGCGGCTT 62.902 55.000 11.43 0.00 0.00 4.35
314 316 2.589442 TCGCGTGGGTTTGGTGTC 60.589 61.111 5.77 0.00 0.00 3.67
319 321 4.072088 GTCGCTCGCGTGGGTTTG 62.072 66.667 22.00 0.73 40.74 2.93
328 330 4.400109 TCGTGTCTGGTCGCTCGC 62.400 66.667 0.00 0.00 0.00 5.03
334 340 1.336056 GGTTCACTCTCGTGTCTGGTC 60.336 57.143 0.00 0.00 41.89 4.02
347 353 3.581770 GGTACCTTTAGACAGGGTTCACT 59.418 47.826 4.06 0.00 38.42 3.41
374 381 5.475909 GGCATCTGATACCATGTTGAATCAT 59.524 40.000 1.90 0.00 0.00 2.45
375 382 4.823442 GGCATCTGATACCATGTTGAATCA 59.177 41.667 1.90 0.00 0.00 2.57
415 424 3.787001 CCCTTCCCGTCAGCCCTC 61.787 72.222 0.00 0.00 0.00 4.30
420 429 4.101448 CTGCCCCCTTCCCGTCAG 62.101 72.222 0.00 0.00 0.00 3.51
449 458 3.073735 CCTCTCCAGCGCACCTCT 61.074 66.667 11.47 0.00 0.00 3.69
453 643 3.655810 CTGGTCCTCTCCAGCGCAC 62.656 68.421 11.47 0.00 46.53 5.34
454 644 3.385384 CTGGTCCTCTCCAGCGCA 61.385 66.667 11.47 0.00 46.53 6.09
504 733 1.134848 CCTCTCCTCGAAAGAAGGCAG 60.135 57.143 0.00 0.00 41.32 4.85
505 734 0.898320 CCTCTCCTCGAAAGAAGGCA 59.102 55.000 0.00 0.00 41.32 4.75
509 738 1.890894 CCGCCTCTCCTCGAAAGAA 59.109 57.895 0.00 0.00 41.32 2.52
510 739 2.711922 GCCGCCTCTCCTCGAAAGA 61.712 63.158 0.00 0.00 39.12 2.52
512 741 2.680352 AGCCGCCTCTCCTCGAAA 60.680 61.111 0.00 0.00 0.00 3.46
513 742 3.452786 CAGCCGCCTCTCCTCGAA 61.453 66.667 0.00 0.00 0.00 3.71
514 743 4.742649 ACAGCCGCCTCTCCTCGA 62.743 66.667 0.00 0.00 0.00 4.04
516 745 4.828925 GCACAGCCGCCTCTCCTC 62.829 72.222 0.00 0.00 0.00 3.71
549 785 3.372676 CTGACATGCCTTGCGTCGC 62.373 63.158 11.10 11.10 32.17 5.19
550 786 2.743752 CCTGACATGCCTTGCGTCG 61.744 63.158 0.00 0.00 32.17 5.12
552 788 2.360350 CCCTGACATGCCTTGCGT 60.360 61.111 0.00 0.00 0.00 5.24
554 790 2.362120 AGCCCTGACATGCCTTGC 60.362 61.111 0.00 0.00 0.00 4.01
555 791 2.707849 GCAGCCCTGACATGCCTTG 61.708 63.158 0.00 0.00 33.81 3.61
556 792 2.362120 GCAGCCCTGACATGCCTT 60.362 61.111 0.00 0.00 33.81 4.35
557 793 3.336568 AGCAGCCCTGACATGCCT 61.337 61.111 0.00 0.00 40.89 4.75
558 794 3.138798 CAGCAGCCCTGACATGCC 61.139 66.667 0.00 0.00 44.64 4.40
559 795 3.823330 GCAGCAGCCCTGACATGC 61.823 66.667 6.19 2.60 44.64 4.06
561 797 2.045242 CAGCAGCAGCCCTGACAT 60.045 61.111 6.19 0.00 44.64 3.06
562 798 3.243816 TCAGCAGCAGCCCTGACA 61.244 61.111 8.85 0.00 44.64 3.58
577 915 3.965258 ATTGGCCCTGCACCGTCA 61.965 61.111 0.00 0.00 0.00 4.35
591 929 3.136123 CACCTCCGCCAGCCATTG 61.136 66.667 0.00 0.00 0.00 2.82
592 930 3.210012 AACACCTCCGCCAGCCATT 62.210 57.895 0.00 0.00 0.00 3.16
593 931 3.650950 AACACCTCCGCCAGCCAT 61.651 61.111 0.00 0.00 0.00 4.40
594 932 4.641645 CAACACCTCCGCCAGCCA 62.642 66.667 0.00 0.00 0.00 4.75
601 939 4.323477 TTCCCGCCAACACCTCCG 62.323 66.667 0.00 0.00 0.00 4.63
602 940 2.359975 CTTCCCGCCAACACCTCC 60.360 66.667 0.00 0.00 0.00 4.30
603 941 0.955919 CTTCTTCCCGCCAACACCTC 60.956 60.000 0.00 0.00 0.00 3.85
604 942 1.073199 CTTCTTCCCGCCAACACCT 59.927 57.895 0.00 0.00 0.00 4.00
605 943 0.955919 CTCTTCTTCCCGCCAACACC 60.956 60.000 0.00 0.00 0.00 4.16
606 944 0.955919 CCTCTTCTTCCCGCCAACAC 60.956 60.000 0.00 0.00 0.00 3.32
607 945 1.125093 TCCTCTTCTTCCCGCCAACA 61.125 55.000 0.00 0.00 0.00 3.33
608 946 0.391793 CTCCTCTTCTTCCCGCCAAC 60.392 60.000 0.00 0.00 0.00 3.77
609 947 1.553690 CCTCCTCTTCTTCCCGCCAA 61.554 60.000 0.00 0.00 0.00 4.52
610 948 1.990060 CCTCCTCTTCTTCCCGCCA 60.990 63.158 0.00 0.00 0.00 5.69
658 1127 1.739562 CCTCAGCTTGACTCGCACC 60.740 63.158 0.00 0.00 0.00 5.01
715 1310 3.292936 GCACAAGGCAGCAGCAGT 61.293 61.111 2.65 0.00 44.61 4.40
749 1351 1.152902 ACAAGCACCAGCAGCTCAA 60.153 52.632 0.00 0.00 42.53 3.02
771 1373 2.256591 CGCAGCACCAAGAAGCAGT 61.257 57.895 0.00 0.00 0.00 4.40
791 1393 2.572104 GCAACCCCTCTTTCTTCCTCTA 59.428 50.000 0.00 0.00 0.00 2.43
941 1548 4.322650 CCTCAGAGAGTCTTCTTTCCAAGG 60.323 50.000 0.00 0.00 32.53 3.61
978 1586 0.395586 TTTGGCGGGATAAGCAGCAT 60.396 50.000 0.00 0.00 36.08 3.79
1062 1670 0.322546 GAACGATGGCCCCAGAGTTT 60.323 55.000 0.00 0.00 32.52 2.66
1101 1709 0.109132 GGGGCGACATTTCAAGCTTG 60.109 55.000 20.81 20.81 0.00 4.01
1224 1832 2.299297 ACTCTTGTCCCTTGGTTCTACG 59.701 50.000 0.00 0.00 0.00 3.51
1324 1932 2.126307 CCACTCCACAGAGCGTCG 60.126 66.667 0.00 0.00 44.65 5.12
1339 1947 0.325577 TCAGCAGGTGAGGATAGCCA 60.326 55.000 0.00 0.00 36.29 4.75
1483 2091 1.228367 CCCACAGAGCCTGCAGTTT 60.228 57.895 13.81 0.00 34.37 2.66
1518 2127 2.598565 TCATAGAGTTCCAGGGGATCG 58.401 52.381 0.00 0.00 0.00 3.69
1551 2166 1.951209 TCCACTTATGCCCTGACTCA 58.049 50.000 0.00 0.00 0.00 3.41
1600 2215 0.106015 AAGCAACCTTTGAGGCCAGT 60.106 50.000 5.01 0.00 39.63 4.00
1628 2243 0.109597 GTGCAACATGGAAGCCTTCG 60.110 55.000 0.00 0.00 36.32 3.79
1639 2254 3.600388 GCAGACTAGGTTAGTGCAACAT 58.400 45.455 0.00 0.00 41.43 2.71
1648 2263 5.597182 CAGTAATGGTAGGCAGACTAGGTTA 59.403 44.000 0.00 0.00 30.77 2.85
1669 2284 3.937706 GTCATCACTGCAATAGCTTCAGT 59.062 43.478 0.00 0.00 41.29 3.41
1685 2300 2.564504 CACACCTCCTCTTGAGTCATCA 59.435 50.000 0.00 0.00 39.65 3.07
1727 2342 2.034124 AGCTTGCACAACCTTCATGTT 58.966 42.857 0.00 0.00 0.00 2.71
1743 2358 2.031682 GTGACTGCAAATGTCGAAGCTT 60.032 45.455 0.00 0.00 37.26 3.74
1877 2492 0.107945 GCACTTCTACCTCTGCCTGG 60.108 60.000 0.00 0.00 0.00 4.45
1929 2544 1.383803 CCTCTAGAAGCCTGGCCCT 60.384 63.158 16.57 15.26 0.00 5.19
2065 2680 0.329261 CTTCATCAGTGGAGGCCCAA 59.671 55.000 0.00 0.00 45.59 4.12
2234 2849 2.361757 CTGGTTGTTTTGTGCCATCAGA 59.638 45.455 0.00 0.00 0.00 3.27
2304 3101 4.381932 CCAAATTGATAGGAAAGGTGGCAC 60.382 45.833 9.70 9.70 0.00 5.01
2307 3104 5.264395 AGACCAAATTGATAGGAAAGGTGG 58.736 41.667 0.00 0.00 0.00 4.61
2308 3105 6.183347 AGAGACCAAATTGATAGGAAAGGTG 58.817 40.000 0.00 0.00 0.00 4.00
2309 3106 6.394345 AGAGACCAAATTGATAGGAAAGGT 57.606 37.500 0.00 0.00 0.00 3.50
2318 3127 4.828939 TGCACTGAAAGAGACCAAATTGAT 59.171 37.500 0.00 0.00 37.43 2.57
2342 3151 5.003160 ACGACAGTCCATTTGATCAATGAA 58.997 37.500 9.40 0.00 44.78 2.57
2375 3184 5.106555 CCTGTATCAAGCAATCGAACTTGTT 60.107 40.000 19.48 15.59 43.05 2.83
2385 3194 4.005650 CTGTCACACCTGTATCAAGCAAT 58.994 43.478 0.00 0.00 0.00 3.56
2395 3204 1.364171 GCTCGTCTGTCACACCTGT 59.636 57.895 0.00 0.00 0.00 4.00
2402 3211 2.626780 CCGTCTGGCTCGTCTGTCA 61.627 63.158 0.00 0.00 0.00 3.58
2438 3247 0.341961 ATGTACCAGAGCCCCCTACA 59.658 55.000 0.00 0.00 0.00 2.74
2474 3283 1.523711 CAGCACACACCAAGTCCGT 60.524 57.895 0.00 0.00 0.00 4.69


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

AutoCloner maintained by Alex Coulton.