Multiple sequence alignment - TraesCS5B01G216700

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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 TraesCS5B01G216700 chr5B 100.000 1417 0 0 857 2273 390738344 390736928 0.000000e+00 2617.0
1 TraesCS5B01G216700 chr5B 100.000 446 0 0 1 446 390739200 390738755 0.000000e+00 824.0
2 TraesCS5B01G216700 chr5B 90.231 389 29 9 4 386 609957451 609957066 1.210000e-137 499.0
3 TraesCS5B01G216700 chr5B 91.713 362 20 7 22 381 143690100 143689747 5.640000e-136 494.0
4 TraesCS5B01G216700 chr5B 91.713 362 20 7 22 381 143696536 143696183 5.640000e-136 494.0
5 TraesCS5B01G216700 chr5B 84.795 171 26 0 2103 2273 136426050 136426220 3.000000e-39 172.0
6 TraesCS5B01G216700 chr2B 93.530 1422 87 3 857 2273 356442943 356441522 0.000000e+00 2111.0
7 TraesCS5B01G216700 chr2B 90.551 381 31 5 2 381 414729925 414729549 1.210000e-137 499.0
8 TraesCS5B01G216700 chr2B 85.294 170 25 0 2103 2272 5133726 5133557 2.320000e-40 176.0
9 TraesCS5B01G216700 chr2B 89.796 49 5 0 1112 1160 790653749 790653701 1.880000e-06 63.9
10 TraesCS5B01G216700 chr2B 89.796 49 5 0 1112 1160 790664250 790664202 1.880000e-06 63.9
11 TraesCS5B01G216700 chr3B 92.053 1422 108 2 857 2273 820098101 820096680 0.000000e+00 1995.0
12 TraesCS5B01G216700 chr3B 90.674 386 24 8 1 381 757694135 757693757 9.370000e-139 503.0
13 TraesCS5B01G216700 chr3B 89.362 47 4 1 400 446 820106760 820106715 8.770000e-05 58.4
14 TraesCS5B01G216700 chr6D 90.162 1423 133 5 857 2273 458979069 458980490 0.000000e+00 1845.0
15 TraesCS5B01G216700 chr6D 91.837 49 3 1 398 446 458979002 458979049 1.460000e-07 67.6
16 TraesCS5B01G216700 chr3D 89.311 1422 147 5 857 2273 121538751 121540172 0.000000e+00 1779.0
17 TraesCS5B01G216700 chr3D 93.023 43 3 0 398 440 121538684 121538726 1.880000e-06 63.9
18 TraesCS5B01G216700 chr6B 91.906 383 25 6 2 381 504753477 504753098 4.300000e-147 531.0
19 TraesCS5B01G216700 chr2D 91.005 378 26 7 14 386 412565355 412565729 9.370000e-139 503.0
20 TraesCS5B01G216700 chr2D 83.420 193 27 5 2083 2273 95291443 95291254 8.350000e-40 174.0
21 TraesCS5B01G216700 chr2D 83.333 192 28 4 2084 2273 650874847 650875036 8.350000e-40 174.0
22 TraesCS5B01G216700 chr2D 76.216 185 40 4 1115 1297 88387886 88387704 6.680000e-16 95.3
23 TraesCS5B01G216700 chr7B 90.576 382 31 5 2 381 381686705 381686327 3.370000e-138 501.0
24 TraesCS5B01G216700 chr3A 91.553 367 20 7 22 381 25241003 25241365 1.570000e-136 496.0
25 TraesCS5B01G216700 chr2A 74.074 621 151 9 1115 1729 28667385 28668001 1.740000e-61 246.0
26 TraesCS5B01G216700 chr2A 89.583 48 5 0 1113 1160 770256714 770256761 6.780000e-06 62.1
27 TraesCS5B01G216700 chr1A 84.574 188 26 2 2089 2273 550226891 550226704 1.390000e-42 183.0


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 TraesCS5B01G216700 chr5B 390736928 390739200 2272 True 1720.50 2617 100.0000 1 2273 2 chr5B.!!$R4 2272
1 TraesCS5B01G216700 chr2B 356441522 356442943 1421 True 2111.00 2111 93.5300 857 2273 1 chr2B.!!$R2 1416
2 TraesCS5B01G216700 chr3B 820096680 820098101 1421 True 1995.00 1995 92.0530 857 2273 1 chr3B.!!$R2 1416
3 TraesCS5B01G216700 chr6D 458979002 458980490 1488 False 956.30 1845 90.9995 398 2273 2 chr6D.!!$F1 1875
4 TraesCS5B01G216700 chr3D 121538684 121540172 1488 False 921.45 1779 91.1670 398 2273 2 chr3D.!!$F1 1875
5 TraesCS5B01G216700 chr2A 28667385 28668001 616 False 246.00 246 74.0740 1115 1729 1 chr2A.!!$F1 614

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
148 149 0.110486 GCCAACTCTTTCTGACCCCA 59.890 55.0 0.0 0.0 0.0 4.96 F
390 391 0.178891 TCTCCCCCTCATCCTATGCC 60.179 60.0 0.0 0.0 0.0 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1270 1274 0.179048 CCATCTTGCATCACCCGCTA 60.179 55.0 0.0 0.0 0.0 4.26 R
1346 1352 0.908198 GTGAGATCAAGCAGGGAGGT 59.092 55.0 0.0 0.0 0.0 3.85 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
36 37 8.073467 TCCCCTAATAATTTTCATGTTGAACC 57.927 34.615 0.00 0.00 35.89 3.62
37 38 7.676043 TCCCCTAATAATTTTCATGTTGAACCA 59.324 33.333 0.00 0.00 35.89 3.67
38 39 8.317679 CCCCTAATAATTTTCATGTTGAACCAA 58.682 33.333 0.00 0.00 35.89 3.67
39 40 9.150348 CCCTAATAATTTTCATGTTGAACCAAC 57.850 33.333 3.10 3.10 43.78 3.77
40 41 9.150348 CCTAATAATTTTCATGTTGAACCAACC 57.850 33.333 7.29 0.00 42.96 3.77
41 42 9.927668 CTAATAATTTTCATGTTGAACCAACCT 57.072 29.630 7.29 0.00 42.96 3.50
42 43 8.831715 AATAATTTTCATGTTGAACCAACCTC 57.168 30.769 7.29 0.00 42.96 3.85
43 44 5.867903 ATTTTCATGTTGAACCAACCTCA 57.132 34.783 7.29 0.00 42.96 3.86
44 45 5.867903 TTTTCATGTTGAACCAACCTCAT 57.132 34.783 7.29 0.00 42.96 2.90
45 46 5.867903 TTTCATGTTGAACCAACCTCATT 57.132 34.783 7.29 0.00 42.96 2.57
46 47 5.867903 TTCATGTTGAACCAACCTCATTT 57.132 34.783 7.29 0.00 42.96 2.32
47 48 5.199024 TCATGTTGAACCAACCTCATTTG 57.801 39.130 7.29 0.00 42.96 2.32
48 49 4.892345 TCATGTTGAACCAACCTCATTTGA 59.108 37.500 7.29 0.21 42.96 2.69
49 50 4.916983 TGTTGAACCAACCTCATTTGAG 57.083 40.909 7.29 0.39 42.96 3.02
50 51 4.277476 TGTTGAACCAACCTCATTTGAGT 58.723 39.130 6.81 0.00 42.96 3.41
51 52 4.709397 TGTTGAACCAACCTCATTTGAGTT 59.291 37.500 6.81 0.00 42.96 3.01
52 53 5.163561 TGTTGAACCAACCTCATTTGAGTTC 60.164 40.000 6.81 5.12 42.96 3.01
53 54 3.888930 TGAACCAACCTCATTTGAGTTCC 59.111 43.478 6.81 0.00 40.48 3.62
54 55 2.876581 ACCAACCTCATTTGAGTTCCC 58.123 47.619 6.81 0.00 40.48 3.97
55 56 2.176798 ACCAACCTCATTTGAGTTCCCA 59.823 45.455 6.81 0.00 40.48 4.37
56 57 3.230134 CCAACCTCATTTGAGTTCCCAA 58.770 45.455 6.81 0.00 40.48 4.12
57 58 3.640967 CCAACCTCATTTGAGTTCCCAAA 59.359 43.478 6.81 0.00 40.48 3.28
58 59 4.100808 CCAACCTCATTTGAGTTCCCAAAA 59.899 41.667 6.81 0.00 40.48 2.44
59 60 5.221702 CCAACCTCATTTGAGTTCCCAAAAT 60.222 40.000 6.81 0.00 40.48 1.82
60 61 5.473066 ACCTCATTTGAGTTCCCAAAATG 57.527 39.130 6.81 0.00 40.48 2.32
61 62 4.248058 CCTCATTTGAGTTCCCAAAATGC 58.752 43.478 6.81 0.00 40.48 3.56
62 63 4.248058 CTCATTTGAGTTCCCAAAATGCC 58.752 43.478 0.00 0.00 39.20 4.40
63 64 3.007831 TCATTTGAGTTCCCAAAATGCCC 59.992 43.478 0.00 0.00 39.20 5.36
64 65 1.347062 TTGAGTTCCCAAAATGCCCC 58.653 50.000 0.00 0.00 0.00 5.80
65 66 0.486879 TGAGTTCCCAAAATGCCCCT 59.513 50.000 0.00 0.00 0.00 4.79
66 67 0.897621 GAGTTCCCAAAATGCCCCTG 59.102 55.000 0.00 0.00 0.00 4.45
67 68 1.194121 AGTTCCCAAAATGCCCCTGC 61.194 55.000 0.00 0.00 38.26 4.85
68 69 2.282039 TTCCCAAAATGCCCCTGCG 61.282 57.895 0.00 0.00 41.78 5.18
69 70 2.679642 CCCAAAATGCCCCTGCGA 60.680 61.111 0.00 0.00 41.78 5.10
70 71 2.059786 CCCAAAATGCCCCTGCGAT 61.060 57.895 0.00 0.00 41.78 4.58
71 72 1.616091 CCCAAAATGCCCCTGCGATT 61.616 55.000 0.00 0.00 41.78 3.34
72 73 0.249955 CCAAAATGCCCCTGCGATTT 59.750 50.000 0.00 0.00 41.78 2.17
73 74 1.338960 CCAAAATGCCCCTGCGATTTT 60.339 47.619 0.00 0.00 41.78 1.82
74 75 2.425539 CAAAATGCCCCTGCGATTTTT 58.574 42.857 0.00 0.00 41.78 1.94
75 76 3.594134 CAAAATGCCCCTGCGATTTTTA 58.406 40.909 0.00 0.00 41.78 1.52
76 77 4.190772 CAAAATGCCCCTGCGATTTTTAT 58.809 39.130 0.00 0.00 41.78 1.40
77 78 3.733443 AATGCCCCTGCGATTTTTATC 57.267 42.857 0.00 0.00 41.78 1.75
78 79 2.435372 TGCCCCTGCGATTTTTATCT 57.565 45.000 0.00 0.00 41.78 1.98
79 80 2.733956 TGCCCCTGCGATTTTTATCTT 58.266 42.857 0.00 0.00 41.78 2.40
80 81 2.426738 TGCCCCTGCGATTTTTATCTTG 59.573 45.455 0.00 0.00 41.78 3.02
81 82 2.427095 GCCCCTGCGATTTTTATCTTGT 59.573 45.455 0.00 0.00 0.00 3.16
82 83 3.734902 GCCCCTGCGATTTTTATCTTGTG 60.735 47.826 0.00 0.00 0.00 3.33
83 84 3.181487 CCCCTGCGATTTTTATCTTGTGG 60.181 47.826 0.00 0.00 0.00 4.17
84 85 3.443681 CCCTGCGATTTTTATCTTGTGGT 59.556 43.478 0.00 0.00 0.00 4.16
85 86 4.438744 CCCTGCGATTTTTATCTTGTGGTC 60.439 45.833 0.00 0.00 0.00 4.02
86 87 4.438744 CCTGCGATTTTTATCTTGTGGTCC 60.439 45.833 0.00 0.00 0.00 4.46
87 88 4.075682 TGCGATTTTTATCTTGTGGTCCA 58.924 39.130 0.00 0.00 0.00 4.02
88 89 4.520874 TGCGATTTTTATCTTGTGGTCCAA 59.479 37.500 0.00 0.00 0.00 3.53
89 90 4.857037 GCGATTTTTATCTTGTGGTCCAAC 59.143 41.667 0.00 0.00 0.00 3.77
90 91 5.563867 GCGATTTTTATCTTGTGGTCCAACA 60.564 40.000 0.00 0.00 0.00 3.33
91 92 6.442952 CGATTTTTATCTTGTGGTCCAACAA 58.557 36.000 0.00 0.00 37.71 2.83
92 93 7.090173 CGATTTTTATCTTGTGGTCCAACAAT 58.910 34.615 0.00 0.00 39.25 2.71
93 94 8.240682 CGATTTTTATCTTGTGGTCCAACAATA 58.759 33.333 0.00 0.00 39.25 1.90
94 95 9.921637 GATTTTTATCTTGTGGTCCAACAATAA 57.078 29.630 0.00 0.00 39.25 1.40
102 103 9.703892 TCTTGTGGTCCAACAATAATTAAATTG 57.296 29.630 0.00 0.30 39.25 2.32
103 104 8.839310 TTGTGGTCCAACAATAATTAAATTGG 57.161 30.769 15.00 15.00 40.48 3.16
104 105 6.876257 TGTGGTCCAACAATAATTAAATTGGC 59.124 34.615 15.82 12.29 40.48 4.52
105 106 6.315144 GTGGTCCAACAATAATTAAATTGGCC 59.685 38.462 15.82 17.72 40.48 5.36
106 107 6.214412 TGGTCCAACAATAATTAAATTGGCCT 59.786 34.615 22.32 0.00 40.48 5.19
107 108 7.109501 GGTCCAACAATAATTAAATTGGCCTT 58.890 34.615 3.32 0.00 40.48 4.35
108 109 7.609918 GGTCCAACAATAATTAAATTGGCCTTT 59.390 33.333 3.32 0.00 40.48 3.11
109 110 8.664798 GTCCAACAATAATTAAATTGGCCTTTC 58.335 33.333 3.32 5.62 40.48 2.62
110 111 7.826744 TCCAACAATAATTAAATTGGCCTTTCC 59.173 33.333 3.32 0.00 40.48 3.13
111 112 7.609532 CCAACAATAATTAAATTGGCCTTTCCA 59.390 33.333 3.32 0.00 44.85 3.53
125 126 6.237154 TGGCCTTTCCAATTTCTAAAAATGG 58.763 36.000 3.32 0.91 43.21 3.16
126 127 6.183361 TGGCCTTTCCAATTTCTAAAAATGGT 60.183 34.615 3.32 0.00 43.21 3.55
127 128 6.714810 GGCCTTTCCAATTTCTAAAAATGGTT 59.285 34.615 0.00 0.00 35.27 3.67
128 129 7.880713 GGCCTTTCCAATTTCTAAAAATGGTTA 59.119 33.333 0.00 0.00 35.27 2.85
129 130 8.935844 GCCTTTCCAATTTCTAAAAATGGTTAG 58.064 33.333 6.45 5.53 35.27 2.34
130 131 8.935844 CCTTTCCAATTTCTAAAAATGGTTAGC 58.064 33.333 6.45 0.00 35.27 3.09
131 132 8.840833 TTTCCAATTTCTAAAAATGGTTAGCC 57.159 30.769 6.45 0.00 35.27 3.93
144 145 3.740115 TGGTTAGCCAACTCTTTCTGAC 58.260 45.455 0.00 0.00 42.83 3.51
145 146 3.075148 GGTTAGCCAACTCTTTCTGACC 58.925 50.000 0.00 0.00 34.88 4.02
146 147 3.075148 GTTAGCCAACTCTTTCTGACCC 58.925 50.000 0.00 0.00 0.00 4.46
147 148 0.402121 AGCCAACTCTTTCTGACCCC 59.598 55.000 0.00 0.00 0.00 4.95
148 149 0.110486 GCCAACTCTTTCTGACCCCA 59.890 55.000 0.00 0.00 0.00 4.96
149 150 1.478654 GCCAACTCTTTCTGACCCCAA 60.479 52.381 0.00 0.00 0.00 4.12
150 151 2.944129 CCAACTCTTTCTGACCCCAAA 58.056 47.619 0.00 0.00 0.00 3.28
151 152 2.623416 CCAACTCTTTCTGACCCCAAAC 59.377 50.000 0.00 0.00 0.00 2.93
152 153 3.555966 CAACTCTTTCTGACCCCAAACT 58.444 45.455 0.00 0.00 0.00 2.66
153 154 3.953542 ACTCTTTCTGACCCCAAACTT 57.046 42.857 0.00 0.00 0.00 2.66
154 155 4.251103 ACTCTTTCTGACCCCAAACTTT 57.749 40.909 0.00 0.00 0.00 2.66
155 156 4.610333 ACTCTTTCTGACCCCAAACTTTT 58.390 39.130 0.00 0.00 0.00 2.27
156 157 5.023452 ACTCTTTCTGACCCCAAACTTTTT 58.977 37.500 0.00 0.00 0.00 1.94
157 158 6.192044 ACTCTTTCTGACCCCAAACTTTTTA 58.808 36.000 0.00 0.00 0.00 1.52
158 159 6.839134 ACTCTTTCTGACCCCAAACTTTTTAT 59.161 34.615 0.00 0.00 0.00 1.40
159 160 7.049799 TCTTTCTGACCCCAAACTTTTTATG 57.950 36.000 0.00 0.00 0.00 1.90
160 161 4.864704 TCTGACCCCAAACTTTTTATGC 57.135 40.909 0.00 0.00 0.00 3.14
161 162 4.219115 TCTGACCCCAAACTTTTTATGCA 58.781 39.130 0.00 0.00 0.00 3.96
162 163 4.651503 TCTGACCCCAAACTTTTTATGCAA 59.348 37.500 0.00 0.00 0.00 4.08
163 164 4.698575 TGACCCCAAACTTTTTATGCAAC 58.301 39.130 0.00 0.00 0.00 4.17
164 165 4.407296 TGACCCCAAACTTTTTATGCAACT 59.593 37.500 0.00 0.00 0.00 3.16
165 166 5.104735 TGACCCCAAACTTTTTATGCAACTT 60.105 36.000 0.00 0.00 0.00 2.66
166 167 5.364778 ACCCCAAACTTTTTATGCAACTTC 58.635 37.500 0.00 0.00 0.00 3.01
167 168 5.104735 ACCCCAAACTTTTTATGCAACTTCA 60.105 36.000 0.00 0.00 0.00 3.02
168 169 5.236263 CCCCAAACTTTTTATGCAACTTCAC 59.764 40.000 0.00 0.00 0.00 3.18
169 170 6.048509 CCCAAACTTTTTATGCAACTTCACT 58.951 36.000 0.00 0.00 0.00 3.41
170 171 6.538381 CCCAAACTTTTTATGCAACTTCACTT 59.462 34.615 0.00 0.00 0.00 3.16
171 172 7.065683 CCCAAACTTTTTATGCAACTTCACTTT 59.934 33.333 0.00 0.00 0.00 2.66
172 173 8.450180 CCAAACTTTTTATGCAACTTCACTTTT 58.550 29.630 0.00 0.00 0.00 2.27
173 174 9.824534 CAAACTTTTTATGCAACTTCACTTTTT 57.175 25.926 0.00 0.00 0.00 1.94
209 210 5.476752 TTTTGCAAAGTGCCACAATTAAC 57.523 34.783 12.41 0.00 44.23 2.01
210 211 3.808466 TGCAAAGTGCCACAATTAACA 57.192 38.095 0.00 0.00 44.23 2.41
211 212 4.128925 TGCAAAGTGCCACAATTAACAA 57.871 36.364 0.00 0.00 44.23 2.83
212 213 4.507710 TGCAAAGTGCCACAATTAACAAA 58.492 34.783 0.00 0.00 44.23 2.83
213 214 4.331168 TGCAAAGTGCCACAATTAACAAAC 59.669 37.500 0.00 0.00 44.23 2.93
214 215 4.331168 GCAAAGTGCCACAATTAACAAACA 59.669 37.500 0.00 0.00 37.42 2.83
215 216 5.007528 GCAAAGTGCCACAATTAACAAACAT 59.992 36.000 0.00 0.00 37.42 2.71
216 217 6.201806 GCAAAGTGCCACAATTAACAAACATA 59.798 34.615 0.00 0.00 37.42 2.29
217 218 7.254590 GCAAAGTGCCACAATTAACAAACATAA 60.255 33.333 0.00 0.00 37.42 1.90
218 219 8.772705 CAAAGTGCCACAATTAACAAACATAAT 58.227 29.630 0.00 0.00 0.00 1.28
219 220 8.900983 AAGTGCCACAATTAACAAACATAATT 57.099 26.923 0.00 0.00 34.20 1.40
220 221 8.532977 AGTGCCACAATTAACAAACATAATTC 57.467 30.769 0.00 0.00 32.15 2.17
221 222 8.147058 AGTGCCACAATTAACAAACATAATTCA 58.853 29.630 0.00 0.00 32.15 2.57
222 223 8.434661 GTGCCACAATTAACAAACATAATTCAG 58.565 33.333 0.00 0.00 32.15 3.02
223 224 8.147058 TGCCACAATTAACAAACATAATTCAGT 58.853 29.630 0.00 0.00 32.15 3.41
224 225 9.632807 GCCACAATTAACAAACATAATTCAGTA 57.367 29.630 0.00 0.00 32.15 2.74
250 251 8.613482 AGCTCTTTTAAATACGAAAATAGAGGC 58.387 33.333 8.90 3.59 0.00 4.70
251 252 8.395633 GCTCTTTTAAATACGAAAATAGAGGCA 58.604 33.333 8.90 0.00 0.00 4.75
279 280 3.838244 AAAGAAAAGAAAAGGCCACCC 57.162 42.857 5.01 0.00 0.00 4.61
280 281 1.717032 AGAAAAGAAAAGGCCACCCC 58.283 50.000 5.01 0.00 0.00 4.95
281 282 0.685097 GAAAAGAAAAGGCCACCCCC 59.315 55.000 5.01 0.00 0.00 5.40
319 320 2.757099 CCCAGTTGGCCATCCAGC 60.757 66.667 6.09 0.00 44.53 4.85
323 324 2.036256 GTTGGCCATCCAGCTGGT 59.964 61.111 31.58 16.68 44.53 4.00
324 325 2.048603 GTTGGCCATCCAGCTGGTC 61.049 63.158 31.58 18.22 44.53 4.02
325 326 3.626996 TTGGCCATCCAGCTGGTCG 62.627 63.158 31.58 22.38 44.17 4.79
326 327 4.864334 GGCCATCCAGCTGGTCGG 62.864 72.222 31.58 29.84 38.63 4.79
328 329 4.864334 CCATCCAGCTGGTCGGCC 62.864 72.222 31.58 0.00 36.34 6.13
329 330 4.100084 CATCCAGCTGGTCGGCCA 62.100 66.667 31.58 9.26 43.73 5.36
345 346 4.463879 CAGGCTGGCCCACTCGAG 62.464 72.222 11.84 11.84 36.58 4.04
353 354 4.394712 CCCACTCGAGCCACCCAC 62.395 72.222 13.61 0.00 0.00 4.61
354 355 4.742201 CCACTCGAGCCACCCACG 62.742 72.222 13.61 0.00 0.00 4.94
371 372 3.547513 GCCGCCGAGGGGATAAGT 61.548 66.667 7.83 0.00 41.48 2.24
372 373 2.735237 CCGCCGAGGGGATAAGTC 59.265 66.667 7.83 0.00 37.91 3.01
373 374 1.833049 CCGCCGAGGGGATAAGTCT 60.833 63.158 7.83 0.00 37.91 3.24
374 375 1.660917 CGCCGAGGGGATAAGTCTC 59.339 63.158 0.00 0.00 34.06 3.36
375 376 1.807495 CGCCGAGGGGATAAGTCTCC 61.807 65.000 0.00 0.00 46.19 3.71
384 385 2.261729 GGATAAGTCTCCCCCTCATCC 58.738 57.143 0.00 0.00 0.00 3.51
385 386 2.158081 GGATAAGTCTCCCCCTCATCCT 60.158 54.545 0.00 0.00 0.00 3.24
386 387 3.077695 GGATAAGTCTCCCCCTCATCCTA 59.922 52.174 0.00 0.00 0.00 2.94
387 388 4.265078 GGATAAGTCTCCCCCTCATCCTAT 60.265 50.000 0.00 0.00 0.00 2.57
388 389 2.711895 AGTCTCCCCCTCATCCTATG 57.288 55.000 0.00 0.00 0.00 2.23
389 390 0.980423 GTCTCCCCCTCATCCTATGC 59.020 60.000 0.00 0.00 0.00 3.14
390 391 0.178891 TCTCCCCCTCATCCTATGCC 60.179 60.000 0.00 0.00 0.00 4.40
391 392 1.151810 TCCCCCTCATCCTATGCCC 60.152 63.158 0.00 0.00 0.00 5.36
392 393 1.464001 CCCCCTCATCCTATGCCCA 60.464 63.158 0.00 0.00 0.00 5.36
393 394 1.067762 CCCCCTCATCCTATGCCCAA 61.068 60.000 0.00 0.00 0.00 4.12
394 395 0.403271 CCCCTCATCCTATGCCCAAG 59.597 60.000 0.00 0.00 0.00 3.61
395 396 1.143813 CCCTCATCCTATGCCCAAGT 58.856 55.000 0.00 0.00 0.00 3.16
396 397 2.338809 CCCTCATCCTATGCCCAAGTA 58.661 52.381 0.00 0.00 0.00 2.24
427 428 3.751518 GTTAGGGTTTTGCTTCCTCTCA 58.248 45.455 0.00 0.00 32.46 3.27
428 429 2.278332 AGGGTTTTGCTTCCTCTCAC 57.722 50.000 0.00 0.00 0.00 3.51
430 431 1.478654 GGGTTTTGCTTCCTCTCACCA 60.479 52.381 0.00 0.00 0.00 4.17
925 926 3.833645 CCTCGACGATGGCGGGAA 61.834 66.667 0.00 0.00 43.17 3.97
971 972 1.318576 CCTGCGGAACCAGTTTCTTT 58.681 50.000 0.00 0.00 34.26 2.52
1037 1041 3.470709 CTGATTTGGTAGCGATGATGGT 58.529 45.455 0.00 0.00 0.00 3.55
1243 1247 2.231478 CTGGAGGACAATCTGTACACGT 59.769 50.000 0.00 0.00 32.29 4.49
1270 1274 0.392998 CTTGTGCCTAGGCGATTGGT 60.393 55.000 28.28 0.00 45.51 3.67
1278 1282 2.023414 TAGGCGATTGGTAGCGGGTG 62.023 60.000 0.00 0.00 32.86 4.61
1342 1348 3.933861 ACTCCCTATGATGGTTTCACC 57.066 47.619 0.00 0.00 37.11 4.02
1355 1361 0.110486 TTTCACCAAGACCTCCCTGC 59.890 55.000 0.00 0.00 0.00 4.85
1399 1405 3.949586 TGGATGCAAATCCATGACCTA 57.050 42.857 4.87 0.00 45.19 3.08
1410 1416 1.105457 CATGACCTACCCGACGGTTA 58.895 55.000 13.94 1.23 40.58 2.85
1429 1435 7.107542 ACGGTTACTATCCAAAGATTAAAGCA 58.892 34.615 0.00 0.00 33.67 3.91
1436 1442 8.103305 ACTATCCAAAGATTAAAGCACTCTCAA 58.897 33.333 0.00 0.00 33.67 3.02
1615 1621 3.244387 GGGTTAAATTTGAAAGGCTGCCA 60.244 43.478 22.65 0.00 0.00 4.92
1628 1634 1.673477 CTGCCAGACTGGTGTGCTA 59.327 57.895 22.58 2.58 40.46 3.49
1737 1743 1.381463 GGTTTAAAGGACCGGGGCT 59.619 57.895 6.32 0.00 0.00 5.19
1765 1771 5.621193 CCTTGTGAAACTAGAGGGAAAAGA 58.379 41.667 0.00 0.00 42.45 2.52
1865 1871 4.533707 AGAACATGGAAGAAGAGGATCACA 59.466 41.667 0.00 0.00 37.82 3.58
1948 1954 1.490490 AGTCTCAAACCACAGCTTCCA 59.510 47.619 0.00 0.00 0.00 3.53
2046 2052 1.133363 TCGAAGAGGACCAAACCCAA 58.867 50.000 0.00 0.00 0.00 4.12
2082 2088 0.899019 ACGGCCACACCAAAAAGTTT 59.101 45.000 2.24 0.00 39.03 2.66
2107 2113 1.540267 CTACCAAAAACCCCGATGCA 58.460 50.000 0.00 0.00 0.00 3.96
2108 2114 2.099405 CTACCAAAAACCCCGATGCAT 58.901 47.619 0.00 0.00 0.00 3.96
2117 2123 2.405805 CCCGATGCATGTTTGGCGA 61.406 57.895 2.46 0.00 0.00 5.54
2127 2133 3.407967 TTTGGCGAGCCCCCTAGG 61.408 66.667 12.05 0.06 39.47 3.02
2248 2254 2.642807 GCCCCCTCCATAGCTTGTATTA 59.357 50.000 0.00 0.00 0.00 0.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 8.536175 GGTTCAACATGAAAATTATTAGGGGAA 58.464 33.333 0.00 0.00 38.22 3.97
11 12 7.676043 TGGTTCAACATGAAAATTATTAGGGGA 59.324 33.333 0.00 0.00 38.22 4.81
12 13 7.846066 TGGTTCAACATGAAAATTATTAGGGG 58.154 34.615 0.00 0.00 38.22 4.79
13 14 9.150348 GTTGGTTCAACATGAAAATTATTAGGG 57.850 33.333 0.00 0.00 43.09 3.53
14 15 9.150348 GGTTGGTTCAACATGAAAATTATTAGG 57.850 33.333 12.06 0.00 45.11 2.69
15 16 9.927668 AGGTTGGTTCAACATGAAAATTATTAG 57.072 29.630 12.06 0.00 45.11 1.73
16 17 9.921637 GAGGTTGGTTCAACATGAAAATTATTA 57.078 29.630 12.06 0.00 45.11 0.98
17 18 8.428063 TGAGGTTGGTTCAACATGAAAATTATT 58.572 29.630 12.06 0.00 45.11 1.40
18 19 7.961351 TGAGGTTGGTTCAACATGAAAATTAT 58.039 30.769 12.06 0.00 45.11 1.28
19 20 7.353414 TGAGGTTGGTTCAACATGAAAATTA 57.647 32.000 12.06 0.00 45.11 1.40
20 21 6.232581 TGAGGTTGGTTCAACATGAAAATT 57.767 33.333 12.06 0.00 45.11 1.82
21 22 5.867903 TGAGGTTGGTTCAACATGAAAAT 57.132 34.783 12.06 0.00 45.11 1.82
22 23 5.867903 ATGAGGTTGGTTCAACATGAAAA 57.132 34.783 12.06 0.00 45.11 2.29
23 24 5.867903 AATGAGGTTGGTTCAACATGAAA 57.132 34.783 12.06 0.00 45.11 2.69
24 25 5.362143 TCAAATGAGGTTGGTTCAACATGAA 59.638 36.000 12.06 0.00 45.11 2.57
25 26 4.892345 TCAAATGAGGTTGGTTCAACATGA 59.108 37.500 12.06 0.54 45.11 3.07
26 27 5.199024 TCAAATGAGGTTGGTTCAACATG 57.801 39.130 12.06 0.00 45.11 3.21
27 28 4.895297 ACTCAAATGAGGTTGGTTCAACAT 59.105 37.500 14.50 5.47 45.11 2.71
28 29 4.277476 ACTCAAATGAGGTTGGTTCAACA 58.723 39.130 14.50 0.00 45.11 3.33
29 30 4.918810 ACTCAAATGAGGTTGGTTCAAC 57.081 40.909 14.50 2.46 46.13 3.18
30 31 4.340950 GGAACTCAAATGAGGTTGGTTCAA 59.659 41.667 14.50 0.00 43.22 2.69
31 32 3.888930 GGAACTCAAATGAGGTTGGTTCA 59.111 43.478 14.50 0.00 43.22 3.18
32 33 3.255888 GGGAACTCAAATGAGGTTGGTTC 59.744 47.826 14.50 9.04 43.22 3.62
33 34 3.230976 GGGAACTCAAATGAGGTTGGTT 58.769 45.455 14.50 0.57 43.22 3.67
34 35 2.176798 TGGGAACTCAAATGAGGTTGGT 59.823 45.455 14.50 0.00 43.22 3.67
35 36 2.875296 TGGGAACTCAAATGAGGTTGG 58.125 47.619 14.50 0.00 43.22 3.77
36 37 4.935352 TTTGGGAACTCAAATGAGGTTG 57.065 40.909 14.50 0.00 43.22 3.77
37 38 5.742838 GCATTTTGGGAACTCAAATGAGGTT 60.743 40.000 14.50 6.65 43.22 3.50
38 39 4.262592 GCATTTTGGGAACTCAAATGAGGT 60.263 41.667 14.50 8.07 46.43 3.85
39 40 4.248058 GCATTTTGGGAACTCAAATGAGG 58.752 43.478 14.50 0.00 46.13 3.86
41 42 3.007831 GGGCATTTTGGGAACTCAAATGA 59.992 43.478 7.81 0.00 40.91 2.57
42 43 3.337358 GGGCATTTTGGGAACTCAAATG 58.663 45.455 0.61 0.00 41.15 2.32
43 44 2.305635 GGGGCATTTTGGGAACTCAAAT 59.694 45.455 0.61 0.00 36.63 2.32
44 45 1.696884 GGGGCATTTTGGGAACTCAAA 59.303 47.619 0.00 0.00 35.15 2.69
45 46 1.132881 AGGGGCATTTTGGGAACTCAA 60.133 47.619 0.00 0.00 0.00 3.02
46 47 0.486879 AGGGGCATTTTGGGAACTCA 59.513 50.000 0.00 0.00 0.00 3.41
47 48 0.897621 CAGGGGCATTTTGGGAACTC 59.102 55.000 0.00 0.00 0.00 3.01
48 49 1.194121 GCAGGGGCATTTTGGGAACT 61.194 55.000 0.00 0.00 40.72 3.01
49 50 1.296392 GCAGGGGCATTTTGGGAAC 59.704 57.895 0.00 0.00 40.72 3.62
50 51 2.282039 CGCAGGGGCATTTTGGGAA 61.282 57.895 0.00 0.00 41.24 3.97
51 52 2.512986 ATCGCAGGGGCATTTTGGGA 62.513 55.000 0.00 0.00 41.24 4.37
52 53 1.616091 AATCGCAGGGGCATTTTGGG 61.616 55.000 0.00 0.00 41.24 4.12
53 54 0.249955 AAATCGCAGGGGCATTTTGG 59.750 50.000 0.00 0.00 41.24 3.28
54 55 2.097680 AAAATCGCAGGGGCATTTTG 57.902 45.000 0.00 0.00 38.30 2.44
55 56 2.857186 AAAAATCGCAGGGGCATTTT 57.143 40.000 0.00 0.00 39.82 1.82
56 57 3.706086 AGATAAAAATCGCAGGGGCATTT 59.294 39.130 0.00 0.00 41.24 2.32
57 58 3.299503 AGATAAAAATCGCAGGGGCATT 58.700 40.909 0.00 0.00 41.24 3.56
58 59 2.949447 AGATAAAAATCGCAGGGGCAT 58.051 42.857 0.00 0.00 41.24 4.40
59 60 2.426738 CAAGATAAAAATCGCAGGGGCA 59.573 45.455 0.00 0.00 41.24 5.36
60 61 2.427095 ACAAGATAAAAATCGCAGGGGC 59.573 45.455 0.00 0.00 0.00 5.80
61 62 3.181487 CCACAAGATAAAAATCGCAGGGG 60.181 47.826 0.00 0.00 0.00 4.79
62 63 3.443681 ACCACAAGATAAAAATCGCAGGG 59.556 43.478 0.00 0.00 0.00 4.45
63 64 4.438744 GGACCACAAGATAAAAATCGCAGG 60.439 45.833 0.00 0.00 0.00 4.85
64 65 4.155826 TGGACCACAAGATAAAAATCGCAG 59.844 41.667 0.00 0.00 0.00 5.18
65 66 4.075682 TGGACCACAAGATAAAAATCGCA 58.924 39.130 0.00 0.00 0.00 5.10
66 67 4.695217 TGGACCACAAGATAAAAATCGC 57.305 40.909 0.00 0.00 0.00 4.58
67 68 6.007936 TGTTGGACCACAAGATAAAAATCG 57.992 37.500 0.00 0.00 40.38 3.34
68 69 9.921637 TTATTGTTGGACCACAAGATAAAAATC 57.078 29.630 12.84 0.00 40.01 2.17
76 77 9.703892 CAATTTAATTATTGTTGGACCACAAGA 57.296 29.630 12.84 7.50 40.01 3.02
77 78 8.934825 CCAATTTAATTATTGTTGGACCACAAG 58.065 33.333 14.31 0.11 41.36 3.16
78 79 7.389053 GCCAATTTAATTATTGTTGGACCACAA 59.611 33.333 19.93 10.61 41.36 3.33
79 80 6.876257 GCCAATTTAATTATTGTTGGACCACA 59.124 34.615 19.93 0.00 41.36 4.17
80 81 6.315144 GGCCAATTTAATTATTGTTGGACCAC 59.685 38.462 19.93 8.39 41.17 4.16
81 82 6.214412 AGGCCAATTTAATTATTGTTGGACCA 59.786 34.615 18.85 0.00 46.80 4.02
82 83 6.649155 AGGCCAATTTAATTATTGTTGGACC 58.351 36.000 18.85 18.22 46.80 4.46
83 84 8.560355 AAAGGCCAATTTAATTATTGTTGGAC 57.440 30.769 19.93 18.23 46.13 4.02
84 85 7.826744 GGAAAGGCCAATTTAATTATTGTTGGA 59.173 33.333 19.93 0.00 41.36 3.53
85 86 7.609532 TGGAAAGGCCAATTTAATTATTGTTGG 59.390 33.333 5.01 14.83 45.87 3.77
86 87 8.558973 TGGAAAGGCCAATTTAATTATTGTTG 57.441 30.769 5.01 0.88 45.87 3.33
102 103 6.237901 ACCATTTTTAGAAATTGGAAAGGCC 58.762 36.000 16.77 0.00 33.25 5.19
103 104 7.744087 AACCATTTTTAGAAATTGGAAAGGC 57.256 32.000 16.77 0.00 33.25 4.35
104 105 8.935844 GCTAACCATTTTTAGAAATTGGAAAGG 58.064 33.333 16.77 3.00 33.25 3.11
105 106 8.935844 GGCTAACCATTTTTAGAAATTGGAAAG 58.064 33.333 16.77 13.86 33.25 2.62
106 107 8.432805 TGGCTAACCATTTTTAGAAATTGGAAA 58.567 29.630 16.77 7.03 42.67 3.13
107 108 7.967908 TGGCTAACCATTTTTAGAAATTGGAA 58.032 30.769 16.77 7.28 42.67 3.53
108 109 7.546250 TGGCTAACCATTTTTAGAAATTGGA 57.454 32.000 16.77 0.78 42.67 3.53
124 125 3.075148 GGTCAGAAAGAGTTGGCTAACC 58.925 50.000 9.60 1.42 37.52 2.85
125 126 3.075148 GGGTCAGAAAGAGTTGGCTAAC 58.925 50.000 4.51 4.51 37.06 2.34
126 127 2.039879 GGGGTCAGAAAGAGTTGGCTAA 59.960 50.000 0.00 0.00 0.00 3.09
127 128 1.628846 GGGGTCAGAAAGAGTTGGCTA 59.371 52.381 0.00 0.00 0.00 3.93
128 129 0.402121 GGGGTCAGAAAGAGTTGGCT 59.598 55.000 0.00 0.00 0.00 4.75
129 130 0.110486 TGGGGTCAGAAAGAGTTGGC 59.890 55.000 0.00 0.00 0.00 4.52
130 131 2.623416 GTTTGGGGTCAGAAAGAGTTGG 59.377 50.000 0.00 0.00 0.00 3.77
131 132 3.555966 AGTTTGGGGTCAGAAAGAGTTG 58.444 45.455 0.00 0.00 0.00 3.16
132 133 3.953542 AGTTTGGGGTCAGAAAGAGTT 57.046 42.857 0.00 0.00 0.00 3.01
133 134 3.953542 AAGTTTGGGGTCAGAAAGAGT 57.046 42.857 0.00 0.00 0.00 3.24
134 135 5.598416 AAAAAGTTTGGGGTCAGAAAGAG 57.402 39.130 0.00 0.00 0.00 2.85
135 136 6.462347 GCATAAAAAGTTTGGGGTCAGAAAGA 60.462 38.462 0.00 0.00 0.00 2.52
136 137 5.696270 GCATAAAAAGTTTGGGGTCAGAAAG 59.304 40.000 0.00 0.00 0.00 2.62
137 138 5.129485 TGCATAAAAAGTTTGGGGTCAGAAA 59.871 36.000 0.00 0.00 0.00 2.52
138 139 4.651503 TGCATAAAAAGTTTGGGGTCAGAA 59.348 37.500 0.00 0.00 0.00 3.02
139 140 4.219115 TGCATAAAAAGTTTGGGGTCAGA 58.781 39.130 0.00 0.00 0.00 3.27
140 141 4.599047 TGCATAAAAAGTTTGGGGTCAG 57.401 40.909 0.00 0.00 0.00 3.51
141 142 4.407296 AGTTGCATAAAAAGTTTGGGGTCA 59.593 37.500 0.00 0.00 0.00 4.02
142 143 4.956085 AGTTGCATAAAAAGTTTGGGGTC 58.044 39.130 0.00 0.00 0.00 4.46
143 144 5.104735 TGAAGTTGCATAAAAAGTTTGGGGT 60.105 36.000 0.00 0.00 0.00 4.95
144 145 5.236263 GTGAAGTTGCATAAAAAGTTTGGGG 59.764 40.000 0.00 0.00 0.00 4.96
145 146 6.048509 AGTGAAGTTGCATAAAAAGTTTGGG 58.951 36.000 0.00 0.00 0.00 4.12
146 147 7.538303 AAGTGAAGTTGCATAAAAAGTTTGG 57.462 32.000 0.00 0.00 0.00 3.28
147 148 9.824534 AAAAAGTGAAGTTGCATAAAAAGTTTG 57.175 25.926 0.00 0.00 0.00 2.93
191 192 4.331168 TGTTTGTTAATTGTGGCACTTTGC 59.669 37.500 19.83 10.19 44.08 3.68
192 193 6.601741 ATGTTTGTTAATTGTGGCACTTTG 57.398 33.333 19.83 0.00 0.00 2.77
193 194 8.900983 ATTATGTTTGTTAATTGTGGCACTTT 57.099 26.923 19.83 14.38 0.00 2.66
194 195 8.900983 AATTATGTTTGTTAATTGTGGCACTT 57.099 26.923 19.83 8.28 30.16 3.16
195 196 8.147058 TGAATTATGTTTGTTAATTGTGGCACT 58.853 29.630 19.83 0.54 31.19 4.40
196 197 8.304202 TGAATTATGTTTGTTAATTGTGGCAC 57.696 30.769 11.55 11.55 31.19 5.01
197 198 8.147058 ACTGAATTATGTTTGTTAATTGTGGCA 58.853 29.630 0.00 0.00 31.19 4.92
198 199 8.532977 ACTGAATTATGTTTGTTAATTGTGGC 57.467 30.769 0.00 0.00 31.19 5.01
224 225 8.613482 GCCTCTATTTTCGTATTTAAAAGAGCT 58.387 33.333 0.00 0.00 35.90 4.09
225 226 8.395633 TGCCTCTATTTTCGTATTTAAAAGAGC 58.604 33.333 0.00 0.00 35.90 4.09
257 258 4.523083 GGGTGGCCTTTTCTTTTCTTTTT 58.477 39.130 3.32 0.00 0.00 1.94
258 259 3.118038 GGGGTGGCCTTTTCTTTTCTTTT 60.118 43.478 3.32 0.00 0.00 2.27
259 260 2.438021 GGGGTGGCCTTTTCTTTTCTTT 59.562 45.455 3.32 0.00 0.00 2.52
260 261 2.047061 GGGGTGGCCTTTTCTTTTCTT 58.953 47.619 3.32 0.00 0.00 2.52
261 262 1.717032 GGGGTGGCCTTTTCTTTTCT 58.283 50.000 3.32 0.00 0.00 2.52
262 263 0.685097 GGGGGTGGCCTTTTCTTTTC 59.315 55.000 3.32 0.00 0.00 2.29
263 264 2.848608 GGGGGTGGCCTTTTCTTTT 58.151 52.632 3.32 0.00 0.00 2.27
264 265 4.639726 GGGGGTGGCCTTTTCTTT 57.360 55.556 3.32 0.00 0.00 2.52
302 303 2.757099 GCTGGATGGCCAACTGGG 60.757 66.667 10.96 2.71 45.41 4.45
303 304 2.357836 AGCTGGATGGCCAACTGG 59.642 61.111 10.96 5.43 45.41 4.00
305 306 2.357836 CCAGCTGGATGGCCAACT 59.642 61.111 29.88 0.00 45.41 3.16
306 307 2.036256 ACCAGCTGGATGGCCAAC 59.964 61.111 39.19 7.12 45.41 3.77
307 308 2.356278 GACCAGCTGGATGGCCAA 59.644 61.111 39.19 0.00 45.41 4.52
308 309 4.100084 CGACCAGCTGGATGGCCA 62.100 66.667 39.19 8.56 44.80 5.36
309 310 4.864334 CCGACCAGCTGGATGGCC 62.864 72.222 39.19 19.12 44.80 5.36
311 312 4.864334 GGCCGACCAGCTGGATGG 62.864 72.222 39.19 34.46 46.47 3.51
312 313 4.100084 TGGCCGACCAGCTGGATG 62.100 66.667 39.19 27.41 42.67 3.51
328 329 4.463879 CTCGAGTGGGCCAGCCTG 62.464 72.222 6.40 0.00 36.10 4.85
336 337 4.394712 GTGGGTGGCTCGAGTGGG 62.395 72.222 15.13 0.00 0.00 4.61
337 338 4.742201 CGTGGGTGGCTCGAGTGG 62.742 72.222 15.13 0.00 0.00 4.00
353 354 4.664677 CTTATCCCCTCGGCGGCG 62.665 72.222 27.15 27.15 0.00 6.46
354 355 3.516866 GACTTATCCCCTCGGCGGC 62.517 68.421 7.21 0.00 0.00 6.53
355 356 1.807495 GAGACTTATCCCCTCGGCGG 61.807 65.000 7.21 0.00 0.00 6.13
356 357 1.660917 GAGACTTATCCCCTCGGCG 59.339 63.158 0.00 0.00 0.00 6.46
357 358 2.051105 GGAGACTTATCCCCTCGGC 58.949 63.158 0.00 0.00 32.79 5.54
364 365 2.158081 AGGATGAGGGGGAGACTTATCC 60.158 54.545 7.85 7.85 46.13 2.59
365 366 3.268034 AGGATGAGGGGGAGACTTATC 57.732 52.381 0.00 0.00 32.10 1.75
366 367 4.693420 CATAGGATGAGGGGGAGACTTAT 58.307 47.826 0.00 0.00 0.00 1.73
367 368 3.758787 GCATAGGATGAGGGGGAGACTTA 60.759 52.174 0.00 0.00 0.00 2.24
368 369 2.983296 CATAGGATGAGGGGGAGACTT 58.017 52.381 0.00 0.00 0.00 3.01
369 370 1.484065 GCATAGGATGAGGGGGAGACT 60.484 57.143 0.00 0.00 0.00 3.24
370 371 0.980423 GCATAGGATGAGGGGGAGAC 59.020 60.000 0.00 0.00 0.00 3.36
371 372 0.178891 GGCATAGGATGAGGGGGAGA 60.179 60.000 0.00 0.00 0.00 3.71
372 373 1.204113 GGGCATAGGATGAGGGGGAG 61.204 65.000 0.00 0.00 0.00 4.30
373 374 1.151810 GGGCATAGGATGAGGGGGA 60.152 63.158 0.00 0.00 0.00 4.81
374 375 1.067762 TTGGGCATAGGATGAGGGGG 61.068 60.000 0.00 0.00 0.00 5.40
375 376 0.403271 CTTGGGCATAGGATGAGGGG 59.597 60.000 0.00 0.00 0.00 4.79
376 377 1.143813 ACTTGGGCATAGGATGAGGG 58.856 55.000 0.00 0.00 0.00 4.30
377 378 3.054802 GGATACTTGGGCATAGGATGAGG 60.055 52.174 0.00 0.00 0.00 3.86
378 379 3.054802 GGGATACTTGGGCATAGGATGAG 60.055 52.174 0.00 0.00 0.00 2.90
379 380 2.912956 GGGATACTTGGGCATAGGATGA 59.087 50.000 0.00 0.00 0.00 2.92
380 381 2.025887 GGGGATACTTGGGCATAGGATG 60.026 54.545 0.00 0.00 0.00 3.51
381 382 2.157786 AGGGGATACTTGGGCATAGGAT 60.158 50.000 0.00 0.00 0.00 3.24
382 383 1.225694 AGGGGATACTTGGGCATAGGA 59.774 52.381 0.00 0.00 0.00 2.94
383 384 1.630878 GAGGGGATACTTGGGCATAGG 59.369 57.143 0.00 0.00 0.00 2.57
384 385 2.569404 GAGAGGGGATACTTGGGCATAG 59.431 54.545 0.00 0.00 0.00 2.23
385 386 2.621070 GAGAGGGGATACTTGGGCATA 58.379 52.381 0.00 0.00 0.00 3.14
386 387 1.439543 GAGAGGGGATACTTGGGCAT 58.560 55.000 0.00 0.00 0.00 4.40
387 388 1.048724 CGAGAGGGGATACTTGGGCA 61.049 60.000 0.00 0.00 0.00 5.36
388 389 1.049289 ACGAGAGGGGATACTTGGGC 61.049 60.000 0.00 0.00 0.00 5.36
389 390 1.497161 AACGAGAGGGGATACTTGGG 58.503 55.000 0.00 0.00 0.00 4.12
390 391 2.628657 CCTAACGAGAGGGGATACTTGG 59.371 54.545 0.00 0.00 32.39 3.61
925 926 1.923395 TCCCCATTGCTCCCTTCGT 60.923 57.895 0.00 0.00 0.00 3.85
928 929 0.712380 ATTGTCCCCATTGCTCCCTT 59.288 50.000 0.00 0.00 0.00 3.95
932 933 1.308998 CGGTATTGTCCCCATTGCTC 58.691 55.000 0.00 0.00 0.00 4.26
936 937 0.106719 CAGGCGGTATTGTCCCCATT 60.107 55.000 0.00 0.00 0.00 3.16
971 972 4.475345 GTCCTCCTTAGATCTCTTGCCTA 58.525 47.826 0.00 0.00 0.00 3.93
1037 1041 2.695666 CCTTCCTTCAATCCGAGCTCTA 59.304 50.000 12.85 0.00 0.00 2.43
1243 1247 4.025692 CGCCTAGGCACAAGAATTGCAA 62.026 50.000 32.47 0.00 42.12 4.08
1270 1274 0.179048 CCATCTTGCATCACCCGCTA 60.179 55.000 0.00 0.00 0.00 4.26
1278 1282 1.831286 CCAGGGGCCATCTTGCATC 60.831 63.158 4.39 0.00 0.00 3.91
1342 1348 1.558756 AGATCAAGCAGGGAGGTCTTG 59.441 52.381 0.00 0.00 38.73 3.02
1346 1352 0.908198 GTGAGATCAAGCAGGGAGGT 59.092 55.000 0.00 0.00 0.00 3.85
1410 1416 7.624549 TGAGAGTGCTTTAATCTTTGGATAGT 58.375 34.615 0.00 0.00 33.08 2.12
1429 1435 1.458777 TCCCACCGTGGTTGAGAGT 60.459 57.895 16.55 0.00 35.17 3.24
1436 1442 0.991920 ATGAATTCTCCCACCGTGGT 59.008 50.000 16.55 0.00 35.17 4.16
1615 1621 2.158900 GCCACATATAGCACACCAGTCT 60.159 50.000 0.00 0.00 0.00 3.24
1628 1634 6.515512 AAGGTGACCTAAATAGCCACATAT 57.484 37.500 3.68 0.00 31.13 1.78
1737 1743 2.838202 CCTCTAGTTTCACAAGGGCCTA 59.162 50.000 6.41 0.00 0.00 3.93
1745 1751 6.055588 CACTTCTTTTCCCTCTAGTTTCACA 58.944 40.000 0.00 0.00 0.00 3.58
1765 1771 1.152096 ACCTCGACCCCTTCCACTT 60.152 57.895 0.00 0.00 0.00 3.16
1865 1871 6.017605 GCATCTTCCATCATAACATCTCGTTT 60.018 38.462 0.00 0.00 39.14 3.60
1914 1920 0.969894 GAGACTAGCCGGCACCATAT 59.030 55.000 31.54 9.39 0.00 1.78
2046 2052 1.068472 CCGTCTCGTTAGCACTTGAGT 60.068 52.381 0.00 0.00 0.00 3.41
2082 2088 1.279846 CGGGGTTTTTGGTAGGAGCTA 59.720 52.381 0.00 0.00 0.00 3.32
2107 2113 2.270874 CTAGGGGGCTCGCCAAACAT 62.271 60.000 10.51 0.00 39.05 2.71
2108 2114 2.931105 TAGGGGGCTCGCCAAACA 60.931 61.111 10.51 0.00 39.05 2.83
2149 2155 1.884235 CAGTTCCAACACAGGAGACC 58.116 55.000 0.00 0.00 39.25 3.85
2248 2254 1.963515 GCCCTCCAACTGTGTTTCAAT 59.036 47.619 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.