Multiple sequence alignment - TraesCS5B01G278300

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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 TraesCS5B01G278300 chr5B 100.000 2089 0 0 587 2675 464170616 464172704 0.000000e+00 3858
1 TraesCS5B01G278300 chr5B 92.913 1030 59 8 612 1636 464194927 464195947 0.000000e+00 1485
2 TraesCS5B01G278300 chr5B 100.000 413 0 0 1 413 464170030 464170442 0.000000e+00 763
3 TraesCS5B01G278300 chr5B 86.626 658 74 9 1001 1657 464144532 464145176 0.000000e+00 715
4 TraesCS5B01G278300 chr7A 99.503 1007 5 0 1669 2675 62277033 62276027 0.000000e+00 1832
5 TraesCS5B01G278300 chr1A 99.208 1010 8 0 1666 2675 417395297 417394288 0.000000e+00 1821
6 TraesCS5B01G278300 chrUn 99.205 1006 8 0 1670 2675 81898360 81897355 0.000000e+00 1814
7 TraesCS5B01G278300 chrUn 97.745 1020 9 4 1670 2675 437180984 437179965 0.000000e+00 1744
8 TraesCS5B01G278300 chr2B 99.106 1007 9 0 1669 2675 26521162 26520156 0.000000e+00 1810
9 TraesCS5B01G278300 chr2B 98.317 1010 13 3 1669 2675 9685125 9686133 0.000000e+00 1768
10 TraesCS5B01G278300 chr2B 98.542 480 7 0 1670 2149 26515467 26514988 0.000000e+00 848
11 TraesCS5B01G278300 chr2B 89.928 417 36 6 1 413 583784243 583783829 1.410000e-147 532
12 TraesCS5B01G278300 chr5A 99.105 1006 9 0 1670 2675 437169896 437168891 0.000000e+00 1808
13 TraesCS5B01G278300 chr5A 98.908 1007 10 1 1670 2675 616550293 616551299 0.000000e+00 1797
14 TraesCS5B01G278300 chr5A 92.218 1028 56 11 611 1636 488050583 488051588 0.000000e+00 1434
15 TraesCS5B01G278300 chr5A 91.486 552 37 9 630 1178 488046410 488046954 0.000000e+00 750
16 TraesCS5B01G278300 chr5A 93.625 502 20 1 1168 1669 488047430 488047919 0.000000e+00 739
17 TraesCS5B01G278300 chr5A 86.316 665 63 19 1001 1657 488038461 488039105 0.000000e+00 699
18 TraesCS5B01G278300 chr4B 98.910 1009 10 1 1668 2675 14045743 14044735 0.000000e+00 1801
19 TraesCS5B01G278300 chr5D 93.230 1034 60 7 612 1636 386589099 386590131 0.000000e+00 1513
20 TraesCS5B01G278300 chr5D 95.686 904 32 1 773 1669 386512674 386513577 0.000000e+00 1447
21 TraesCS5B01G278300 chr5D 86.322 658 76 9 1001 1657 386209788 386210432 0.000000e+00 704
22 TraesCS5B01G278300 chr5D 97.159 176 4 1 612 786 386512481 386512656 2.010000e-76 296
23 TraesCS5B01G278300 chr7D 97.094 413 12 0 1 413 629940455 629940043 0.000000e+00 697
24 TraesCS5B01G278300 chr6D 94.915 413 17 3 1 413 111017523 111017115 0.000000e+00 643
25 TraesCS5B01G278300 chr1D 94.189 413 24 0 1 413 446002088 446002500 4.860000e-177 630
26 TraesCS5B01G278300 chr6B 92.530 415 29 2 1 413 681356342 681355928 6.380000e-166 593


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 TraesCS5B01G278300 chr5B 464170030 464172704 2674 False 2310.500000 3858 100.0000 1 2675 2 chr5B.!!$F3 2674
1 TraesCS5B01G278300 chr5B 464194927 464195947 1020 False 1485.000000 1485 92.9130 612 1636 1 chr5B.!!$F2 1024
2 TraesCS5B01G278300 chr5B 464144532 464145176 644 False 715.000000 715 86.6260 1001 1657 1 chr5B.!!$F1 656
3 TraesCS5B01G278300 chr7A 62276027 62277033 1006 True 1832.000000 1832 99.5030 1669 2675 1 chr7A.!!$R1 1006
4 TraesCS5B01G278300 chr1A 417394288 417395297 1009 True 1821.000000 1821 99.2080 1666 2675 1 chr1A.!!$R1 1009
5 TraesCS5B01G278300 chrUn 81897355 81898360 1005 True 1814.000000 1814 99.2050 1670 2675 1 chrUn.!!$R1 1005
6 TraesCS5B01G278300 chrUn 437179965 437180984 1019 True 1744.000000 1744 97.7450 1670 2675 1 chrUn.!!$R2 1005
7 TraesCS5B01G278300 chr2B 26520156 26521162 1006 True 1810.000000 1810 99.1060 1669 2675 1 chr2B.!!$R2 1006
8 TraesCS5B01G278300 chr2B 9685125 9686133 1008 False 1768.000000 1768 98.3170 1669 2675 1 chr2B.!!$F1 1006
9 TraesCS5B01G278300 chr5A 437168891 437169896 1005 True 1808.000000 1808 99.1050 1670 2675 1 chr5A.!!$R1 1005
10 TraesCS5B01G278300 chr5A 616550293 616551299 1006 False 1797.000000 1797 98.9080 1670 2675 1 chr5A.!!$F2 1005
11 TraesCS5B01G278300 chr5A 488046410 488051588 5178 False 974.333333 1434 92.4430 611 1669 3 chr5A.!!$F3 1058
12 TraesCS5B01G278300 chr5A 488038461 488039105 644 False 699.000000 699 86.3160 1001 1657 1 chr5A.!!$F1 656
13 TraesCS5B01G278300 chr4B 14044735 14045743 1008 True 1801.000000 1801 98.9100 1668 2675 1 chr4B.!!$R1 1007
14 TraesCS5B01G278300 chr5D 386589099 386590131 1032 False 1513.000000 1513 93.2300 612 1636 1 chr5D.!!$F2 1024
15 TraesCS5B01G278300 chr5D 386512481 386513577 1096 False 871.500000 1447 96.4225 612 1669 2 chr5D.!!$F3 1057
16 TraesCS5B01G278300 chr5D 386209788 386210432 644 False 704.000000 704 86.3220 1001 1657 1 chr5D.!!$F1 656

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
62 63 0.035056 ACTTGGTAGTGGCTGCATCC 60.035 55.0 0.0 0.0 31.99 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1935 5546 2.569853 TCCTAACAGCCGATCCTGAAAA 59.43 45.455 6.04 0.0 36.67 2.29 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
28 29 6.500684 TGCTTTGTGGCAAAAATGTAAAAA 57.499 29.167 2.74 0.00 39.43 1.94
29 30 6.549952 TGCTTTGTGGCAAAAATGTAAAAAG 58.450 32.000 2.74 0.00 39.43 2.27
31 32 7.094634 TGCTTTGTGGCAAAAATGTAAAAAGAA 60.095 29.630 2.74 0.00 39.43 2.52
32 33 7.429051 GCTTTGTGGCAAAAATGTAAAAAGAAG 59.571 33.333 2.74 0.00 0.00 2.85
33 34 6.356757 TGTGGCAAAAATGTAAAAAGAAGC 57.643 33.333 0.00 0.00 0.00 3.86
34 35 5.295540 TGTGGCAAAAATGTAAAAAGAAGCC 59.704 36.000 0.00 0.00 38.82 4.35
35 36 5.527214 GTGGCAAAAATGTAAAAAGAAGCCT 59.473 36.000 0.00 0.00 39.10 4.58
36 37 5.526846 TGGCAAAAATGTAAAAAGAAGCCTG 59.473 36.000 0.00 0.00 39.10 4.85
37 38 5.527214 GGCAAAAATGTAAAAAGAAGCCTGT 59.473 36.000 0.00 0.00 35.63 4.00
38 39 6.421405 GCAAAAATGTAAAAAGAAGCCTGTG 58.579 36.000 0.00 0.00 0.00 3.66
39 40 6.421405 CAAAAATGTAAAAAGAAGCCTGTGC 58.579 36.000 0.00 0.00 37.95 4.57
50 51 3.322514 GCCTGTGCTGAACTTGGTA 57.677 52.632 0.00 0.00 33.53 3.25
52 53 1.543429 GCCTGTGCTGAACTTGGTAGT 60.543 52.381 0.00 0.00 32.79 2.73
53 54 2.146342 CCTGTGCTGAACTTGGTAGTG 58.854 52.381 0.00 0.00 34.01 2.74
54 55 2.146342 CTGTGCTGAACTTGGTAGTGG 58.854 52.381 0.00 0.00 34.01 4.00
55 56 0.875059 GTGCTGAACTTGGTAGTGGC 59.125 55.000 0.00 0.00 34.01 5.01
59 60 0.472044 TGAACTTGGTAGTGGCTGCA 59.528 50.000 0.50 0.00 34.01 4.41
61 62 1.740025 GAACTTGGTAGTGGCTGCATC 59.260 52.381 0.50 0.00 34.01 3.91
62 63 0.035056 ACTTGGTAGTGGCTGCATCC 60.035 55.000 0.00 0.00 31.99 3.51
64 65 0.698238 TTGGTAGTGGCTGCATCCTT 59.302 50.000 8.29 0.00 0.00 3.36
65 66 1.578897 TGGTAGTGGCTGCATCCTTA 58.421 50.000 8.29 0.00 0.00 2.69
67 68 2.158769 TGGTAGTGGCTGCATCCTTATG 60.159 50.000 8.29 0.00 36.09 1.90
68 69 2.498167 GTAGTGGCTGCATCCTTATGG 58.502 52.381 8.29 0.00 33.38 2.74
74 75 2.653234 CTGCATCCTTATGGAGCCTT 57.347 50.000 3.46 0.00 46.91 4.35
75 76 2.941480 CTGCATCCTTATGGAGCCTTT 58.059 47.619 3.46 0.00 46.91 3.11
76 77 2.621998 CTGCATCCTTATGGAGCCTTTG 59.378 50.000 3.46 0.00 46.91 2.77
77 78 1.959282 GCATCCTTATGGAGCCTTTGG 59.041 52.381 3.46 0.00 46.91 3.28
78 79 2.423373 GCATCCTTATGGAGCCTTTGGA 60.423 50.000 3.46 0.00 46.91 3.53
79 80 3.902218 CATCCTTATGGAGCCTTTGGAA 58.098 45.455 3.46 0.00 46.91 3.53
80 81 4.280819 CATCCTTATGGAGCCTTTGGAAA 58.719 43.478 3.46 0.00 46.91 3.13
81 82 3.697166 TCCTTATGGAGCCTTTGGAAAC 58.303 45.455 0.00 0.00 37.46 2.78
82 83 3.333680 TCCTTATGGAGCCTTTGGAAACT 59.666 43.478 0.00 0.00 37.46 2.66
84 85 5.014755 TCCTTATGGAGCCTTTGGAAACTAA 59.985 40.000 0.00 0.00 37.46 2.24
85 86 5.358160 CCTTATGGAGCCTTTGGAAACTAAG 59.642 44.000 0.00 0.00 37.97 2.18
86 87 4.657814 ATGGAGCCTTTGGAAACTAAGA 57.342 40.909 0.00 0.00 44.55 2.10
91 92 5.476945 GGAGCCTTTGGAAACTAAGAAATGA 59.523 40.000 0.00 0.00 44.55 2.57
93 94 7.310052 GGAGCCTTTGGAAACTAAGAAATGAAT 60.310 37.037 0.00 0.00 44.55 2.57
106 107 5.656213 AGAAATGAATTCTGCTTTCAGGG 57.344 39.130 20.61 0.00 46.71 4.45
107 108 3.881937 AATGAATTCTGCTTTCAGGGC 57.118 42.857 7.05 0.00 40.69 5.19
108 109 1.549203 TGAATTCTGCTTTCAGGGCC 58.451 50.000 7.05 0.00 40.69 5.80
109 110 0.453390 GAATTCTGCTTTCAGGGCCG 59.547 55.000 0.00 0.00 40.69 6.13
111 112 2.769652 ATTCTGCTTTCAGGGCCGCA 62.770 55.000 0.00 0.00 40.69 5.69
112 113 3.741476 CTGCTTTCAGGGCCGCAC 61.741 66.667 0.00 0.00 36.68 5.34
113 114 4.269523 TGCTTTCAGGGCCGCACT 62.270 61.111 0.00 0.00 0.00 4.40
115 116 2.956987 CTTTCAGGGCCGCACTTG 59.043 61.111 0.00 0.00 0.00 3.16
116 117 2.597217 TTTCAGGGCCGCACTTGG 60.597 61.111 0.00 0.00 0.00 3.61
117 118 3.126703 TTTCAGGGCCGCACTTGGA 62.127 57.895 0.00 0.00 0.00 3.53
118 119 3.551496 TTCAGGGCCGCACTTGGAG 62.551 63.158 0.00 0.00 0.00 3.86
119 120 4.020617 CAGGGCCGCACTTGGAGA 62.021 66.667 0.00 0.00 0.00 3.71
120 121 3.249189 AGGGCCGCACTTGGAGAA 61.249 61.111 0.00 0.00 0.00 2.87
122 123 1.678970 GGGCCGCACTTGGAGAAAT 60.679 57.895 0.00 0.00 0.00 2.17
123 124 1.508088 GGCCGCACTTGGAGAAATG 59.492 57.895 0.00 0.00 0.00 2.32
124 125 1.153958 GCCGCACTTGGAGAAATGC 60.154 57.895 0.00 0.00 34.66 3.56
125 126 1.508088 CCGCACTTGGAGAAATGCC 59.492 57.895 0.00 0.00 34.49 4.40
126 127 1.135315 CGCACTTGGAGAAATGCCG 59.865 57.895 0.00 0.00 34.49 5.69
127 128 1.153958 GCACTTGGAGAAATGCCGC 60.154 57.895 0.00 0.00 31.71 6.53
128 129 1.865788 GCACTTGGAGAAATGCCGCA 61.866 55.000 0.00 0.00 31.71 5.69
131 132 0.813184 CTTGGAGAAATGCCGCATGT 59.187 50.000 6.63 0.00 0.00 3.21
132 133 0.527113 TTGGAGAAATGCCGCATGTG 59.473 50.000 6.63 0.00 0.00 3.21
133 134 0.608856 TGGAGAAATGCCGCATGTGT 60.609 50.000 6.63 0.00 0.00 3.72
136 137 1.470098 GAGAAATGCCGCATGTGTTCT 59.530 47.619 15.54 15.54 0.00 3.01
139 140 0.961019 AATGCCGCATGTGTTCTTGT 59.039 45.000 6.63 0.00 0.00 3.16
140 141 0.241749 ATGCCGCATGTGTTCTTGTG 59.758 50.000 4.68 0.00 0.00 3.33
142 143 0.310543 GCCGCATGTGTTCTTGTGAA 59.689 50.000 5.38 0.00 33.09 3.18
143 144 1.268999 GCCGCATGTGTTCTTGTGAAA 60.269 47.619 5.38 0.00 33.52 2.69
144 145 2.384382 CCGCATGTGTTCTTGTGAAAC 58.616 47.619 5.38 0.00 33.52 2.78
145 146 2.033299 CCGCATGTGTTCTTGTGAAACT 59.967 45.455 5.38 0.00 38.04 2.66
150 151 5.221048 GCATGTGTTCTTGTGAAACTAAGGT 60.221 40.000 0.00 0.00 38.04 3.50
151 152 6.430451 CATGTGTTCTTGTGAAACTAAGGTC 58.570 40.000 0.00 0.00 38.04 3.85
156 157 6.706270 TGTTCTTGTGAAACTAAGGTCTCATC 59.294 38.462 0.00 0.00 38.04 2.92
159 160 8.190326 TCTTGTGAAACTAAGGTCTCATCTAA 57.810 34.615 0.00 0.00 38.04 2.10
160 161 8.647796 TCTTGTGAAACTAAGGTCTCATCTAAA 58.352 33.333 0.00 0.00 38.04 1.85
161 162 9.273016 CTTGTGAAACTAAGGTCTCATCTAAAA 57.727 33.333 0.00 0.00 38.04 1.52
162 163 8.603242 TGTGAAACTAAGGTCTCATCTAAAAC 57.397 34.615 0.00 0.00 38.04 2.43
163 164 8.208224 TGTGAAACTAAGGTCTCATCTAAAACA 58.792 33.333 0.00 0.00 38.04 2.83
164 165 9.052759 GTGAAACTAAGGTCTCATCTAAAACAA 57.947 33.333 0.00 0.00 0.00 2.83
165 166 9.793259 TGAAACTAAGGTCTCATCTAAAACAAT 57.207 29.630 0.00 0.00 0.00 2.71
168 169 7.918076 ACTAAGGTCTCATCTAAAACAATGGA 58.082 34.615 0.00 0.00 0.00 3.41
169 170 8.383175 ACTAAGGTCTCATCTAAAACAATGGAA 58.617 33.333 0.00 0.00 0.00 3.53
171 172 7.693969 AGGTCTCATCTAAAACAATGGAAAG 57.306 36.000 0.00 0.00 0.00 2.62
172 173 7.234355 AGGTCTCATCTAAAACAATGGAAAGT 58.766 34.615 0.00 0.00 0.00 2.66
173 174 7.175641 AGGTCTCATCTAAAACAATGGAAAGTG 59.824 37.037 0.00 0.00 0.00 3.16
174 175 6.803807 GTCTCATCTAAAACAATGGAAAGTGC 59.196 38.462 0.00 0.00 0.00 4.40
175 176 6.716628 TCTCATCTAAAACAATGGAAAGTGCT 59.283 34.615 0.00 0.00 0.00 4.40
176 177 6.913170 TCATCTAAAACAATGGAAAGTGCTC 58.087 36.000 0.00 0.00 0.00 4.26
177 178 6.716628 TCATCTAAAACAATGGAAAGTGCTCT 59.283 34.615 0.00 0.00 0.00 4.09
180 181 0.877071 ACAATGGAAAGTGCTCTGCG 59.123 50.000 0.00 0.00 0.00 5.18
182 183 1.135859 CAATGGAAAGTGCTCTGCGAC 60.136 52.381 0.00 0.00 0.00 5.19
185 186 1.618640 GGAAAGTGCTCTGCGACGAC 61.619 60.000 0.00 0.00 0.00 4.34
187 188 1.215655 AAAGTGCTCTGCGACGACAC 61.216 55.000 0.00 0.00 0.00 3.67
188 189 2.049985 GTGCTCTGCGACGACACT 60.050 61.111 0.00 0.00 0.00 3.55
189 190 2.083522 GTGCTCTGCGACGACACTC 61.084 63.158 0.00 0.00 0.00 3.51
190 191 2.255554 GCTCTGCGACGACACTCA 59.744 61.111 0.00 0.00 0.00 3.41
191 192 1.371758 GCTCTGCGACGACACTCAA 60.372 57.895 0.00 0.00 0.00 3.02
193 194 1.340657 CTCTGCGACGACACTCAAGC 61.341 60.000 0.00 0.00 0.00 4.01
194 195 1.661509 CTGCGACGACACTCAAGCA 60.662 57.895 0.00 0.00 0.00 3.91
195 196 1.612469 CTGCGACGACACTCAAGCAG 61.612 60.000 0.00 0.80 44.51 4.24
196 197 1.661821 GCGACGACACTCAAGCAGT 60.662 57.895 0.00 0.00 34.67 4.40
215 216 5.808042 CAGTGCTGCTACAAAGATGTATT 57.192 39.130 0.00 0.00 41.09 1.89
216 217 5.804173 CAGTGCTGCTACAAAGATGTATTC 58.196 41.667 0.00 0.00 41.09 1.75
217 218 5.583854 CAGTGCTGCTACAAAGATGTATTCT 59.416 40.000 0.00 0.00 41.09 2.40
218 219 6.093219 CAGTGCTGCTACAAAGATGTATTCTT 59.907 38.462 0.00 0.00 46.92 2.52
219 220 6.314896 AGTGCTGCTACAAAGATGTATTCTTC 59.685 38.462 0.00 0.00 44.09 2.87
220 221 6.314896 GTGCTGCTACAAAGATGTATTCTTCT 59.685 38.462 0.00 0.00 44.09 2.85
221 222 6.314648 TGCTGCTACAAAGATGTATTCTTCTG 59.685 38.462 0.00 0.00 44.09 3.02
222 223 6.668541 TGCTACAAAGATGTATTCTTCTGC 57.331 37.500 0.00 0.00 44.09 4.26
223 224 6.409704 TGCTACAAAGATGTATTCTTCTGCT 58.590 36.000 0.00 0.00 44.09 4.24
225 226 6.238320 GCTACAAAGATGTATTCTTCTGCTGG 60.238 42.308 0.00 0.00 44.09 4.85
226 227 5.809001 ACAAAGATGTATTCTTCTGCTGGA 58.191 37.500 0.00 0.00 44.09 3.86
227 228 5.645497 ACAAAGATGTATTCTTCTGCTGGAC 59.355 40.000 0.00 0.00 44.09 4.02
228 229 5.426689 AAGATGTATTCTTCTGCTGGACA 57.573 39.130 0.00 0.00 40.86 4.02
230 231 5.809001 AGATGTATTCTTCTGCTGGACAAA 58.191 37.500 0.00 0.00 0.00 2.83
231 232 6.240894 AGATGTATTCTTCTGCTGGACAAAA 58.759 36.000 0.00 0.00 0.00 2.44
232 233 6.716628 AGATGTATTCTTCTGCTGGACAAAAA 59.283 34.615 0.00 0.00 0.00 1.94
233 234 6.317789 TGTATTCTTCTGCTGGACAAAAAG 57.682 37.500 0.00 0.00 0.00 2.27
234 235 5.827797 TGTATTCTTCTGCTGGACAAAAAGT 59.172 36.000 0.00 0.00 0.00 2.66
235 236 4.637483 TTCTTCTGCTGGACAAAAAGTG 57.363 40.909 0.00 0.00 0.00 3.16
237 238 0.662619 TCTGCTGGACAAAAAGTGCG 59.337 50.000 0.00 0.00 42.22 5.34
238 239 0.318107 CTGCTGGACAAAAAGTGCGG 60.318 55.000 0.00 0.00 46.73 5.69
239 240 0.749818 TGCTGGACAAAAAGTGCGGA 60.750 50.000 0.00 0.00 46.95 5.54
240 241 0.040067 GCTGGACAAAAAGTGCGGAG 60.040 55.000 0.00 0.00 46.95 4.63
242 243 1.532868 CTGGACAAAAAGTGCGGAGAG 59.467 52.381 0.00 0.00 46.95 3.20
253 254 2.185350 CGGAGAGCTGATGCGGTT 59.815 61.111 0.00 0.00 45.42 4.44
254 255 1.448540 CGGAGAGCTGATGCGGTTT 60.449 57.895 0.00 0.00 45.42 3.27
255 256 1.699656 CGGAGAGCTGATGCGGTTTG 61.700 60.000 0.00 0.00 45.42 2.93
266 267 2.032634 GCGGTTTGCGTGGAGATGA 61.033 57.895 0.00 0.00 0.00 2.92
267 268 1.970917 GCGGTTTGCGTGGAGATGAG 61.971 60.000 0.00 0.00 0.00 2.90
273 274 2.491621 CGTGGAGATGAGCGCAGA 59.508 61.111 11.47 0.00 0.00 4.26
275 276 1.875813 GTGGAGATGAGCGCAGACG 60.876 63.158 11.47 0.00 44.07 4.18
277 278 1.153745 GGAGATGAGCGCAGACGTT 60.154 57.895 11.47 0.00 42.83 3.99
283 284 4.175599 AGCGCAGACGTTCAGATG 57.824 55.556 11.47 0.00 42.83 2.90
284 285 1.446792 AGCGCAGACGTTCAGATGG 60.447 57.895 11.47 0.00 42.83 3.51
285 286 3.084579 CGCAGACGTTCAGATGGC 58.915 61.111 0.00 0.00 33.53 4.40
286 287 1.446792 CGCAGACGTTCAGATGGCT 60.447 57.895 0.00 0.00 33.53 4.75
288 289 1.364626 GCAGACGTTCAGATGGCTGG 61.365 60.000 7.88 0.00 46.27 4.85
289 290 0.742281 CAGACGTTCAGATGGCTGGG 60.742 60.000 0.00 0.00 43.10 4.45
291 292 0.179000 GACGTTCAGATGGCTGGGAT 59.821 55.000 0.00 0.00 42.53 3.85
292 293 0.620556 ACGTTCAGATGGCTGGGATT 59.379 50.000 0.00 0.00 42.53 3.01
294 295 2.439507 ACGTTCAGATGGCTGGGATTAT 59.560 45.455 0.00 0.00 42.53 1.28
295 296 2.810274 CGTTCAGATGGCTGGGATTATG 59.190 50.000 0.00 0.00 42.53 1.90
296 297 2.555757 GTTCAGATGGCTGGGATTATGC 59.444 50.000 0.00 0.00 42.53 3.14
297 298 1.074405 TCAGATGGCTGGGATTATGCC 59.926 52.381 0.00 0.00 46.26 4.40
304 305 2.721966 TGGGATTATGCCAGGGTGT 58.278 52.632 0.00 0.00 30.85 4.16
306 307 2.209758 TGGGATTATGCCAGGGTGTTA 58.790 47.619 0.00 0.00 30.85 2.41
307 308 2.174639 TGGGATTATGCCAGGGTGTTAG 59.825 50.000 0.00 0.00 30.85 2.34
308 309 2.174854 GGGATTATGCCAGGGTGTTAGT 59.825 50.000 0.00 0.00 0.00 2.24
309 310 3.372675 GGGATTATGCCAGGGTGTTAGTT 60.373 47.826 0.00 0.00 0.00 2.24
311 312 4.385310 GGATTATGCCAGGGTGTTAGTTCT 60.385 45.833 0.00 0.00 0.00 3.01
312 313 2.789409 ATGCCAGGGTGTTAGTTCTC 57.211 50.000 0.00 0.00 0.00 2.87
313 314 0.690762 TGCCAGGGTGTTAGTTCTCC 59.309 55.000 0.00 0.00 0.00 3.71
314 315 0.391263 GCCAGGGTGTTAGTTCTCCG 60.391 60.000 0.00 0.00 0.00 4.63
316 317 2.173519 CCAGGGTGTTAGTTCTCCGTA 58.826 52.381 0.00 0.00 0.00 4.02
317 318 2.165845 CCAGGGTGTTAGTTCTCCGTAG 59.834 54.545 0.00 0.00 0.00 3.51
318 319 2.824341 CAGGGTGTTAGTTCTCCGTAGT 59.176 50.000 0.00 0.00 0.00 2.73
319 320 3.257624 CAGGGTGTTAGTTCTCCGTAGTT 59.742 47.826 0.00 0.00 0.00 2.24
320 321 3.257624 AGGGTGTTAGTTCTCCGTAGTTG 59.742 47.826 0.00 0.00 0.00 3.16
321 322 3.006217 GGGTGTTAGTTCTCCGTAGTTGT 59.994 47.826 0.00 0.00 0.00 3.32
322 323 4.233005 GGTGTTAGTTCTCCGTAGTTGTC 58.767 47.826 0.00 0.00 0.00 3.18
323 324 4.233005 GTGTTAGTTCTCCGTAGTTGTCC 58.767 47.826 0.00 0.00 0.00 4.02
324 325 3.256631 TGTTAGTTCTCCGTAGTTGTCCC 59.743 47.826 0.00 0.00 0.00 4.46
325 326 2.305858 AGTTCTCCGTAGTTGTCCCT 57.694 50.000 0.00 0.00 0.00 4.20
326 327 2.606378 AGTTCTCCGTAGTTGTCCCTT 58.394 47.619 0.00 0.00 0.00 3.95
328 329 1.553706 TCTCCGTAGTTGTCCCTTCC 58.446 55.000 0.00 0.00 0.00 3.46
329 330 1.203087 TCTCCGTAGTTGTCCCTTCCA 60.203 52.381 0.00 0.00 0.00 3.53
331 332 2.236395 CTCCGTAGTTGTCCCTTCCATT 59.764 50.000 0.00 0.00 0.00 3.16
332 333 2.235402 TCCGTAGTTGTCCCTTCCATTC 59.765 50.000 0.00 0.00 0.00 2.67
334 335 2.629051 GTAGTTGTCCCTTCCATTCCG 58.371 52.381 0.00 0.00 0.00 4.30
335 336 0.328258 AGTTGTCCCTTCCATTCCGG 59.672 55.000 0.00 0.00 0.00 5.14
337 338 1.137594 TTGTCCCTTCCATTCCGGGT 61.138 55.000 0.00 0.00 39.10 5.28
338 339 1.223763 GTCCCTTCCATTCCGGGTC 59.776 63.158 0.00 0.00 39.10 4.46
339 340 1.082206 TCCCTTCCATTCCGGGTCT 59.918 57.895 0.00 0.00 39.10 3.85
342 343 1.200519 CCTTCCATTCCGGGTCTGTA 58.799 55.000 0.00 0.00 34.36 2.74
343 344 1.557832 CCTTCCATTCCGGGTCTGTAA 59.442 52.381 0.00 0.00 34.36 2.41
344 345 2.172717 CCTTCCATTCCGGGTCTGTAAT 59.827 50.000 0.00 0.00 34.36 1.89
345 346 3.206150 CTTCCATTCCGGGTCTGTAATG 58.794 50.000 0.00 2.66 34.36 1.90
346 347 2.473070 TCCATTCCGGGTCTGTAATGA 58.527 47.619 11.73 0.00 32.29 2.57
347 348 3.045634 TCCATTCCGGGTCTGTAATGAT 58.954 45.455 11.73 0.00 32.29 2.45
348 349 3.458118 TCCATTCCGGGTCTGTAATGATT 59.542 43.478 11.73 0.00 32.29 2.57
349 350 4.656575 TCCATTCCGGGTCTGTAATGATTA 59.343 41.667 11.73 0.00 32.29 1.75
350 351 5.131308 TCCATTCCGGGTCTGTAATGATTAA 59.869 40.000 11.73 0.00 32.29 1.40
351 352 5.470098 CCATTCCGGGTCTGTAATGATTAAG 59.530 44.000 11.73 0.00 32.29 1.85
352 353 5.943349 TTCCGGGTCTGTAATGATTAAGA 57.057 39.130 0.00 0.00 0.00 2.10
353 354 5.531122 TCCGGGTCTGTAATGATTAAGAG 57.469 43.478 0.00 0.00 0.00 2.85
354 355 5.205821 TCCGGGTCTGTAATGATTAAGAGA 58.794 41.667 0.00 0.00 0.00 3.10
355 356 5.302059 TCCGGGTCTGTAATGATTAAGAGAG 59.698 44.000 0.00 0.00 0.00 3.20
356 357 5.069251 CCGGGTCTGTAATGATTAAGAGAGT 59.931 44.000 0.00 0.00 0.00 3.24
358 359 6.477033 CGGGTCTGTAATGATTAAGAGAGTTG 59.523 42.308 0.00 0.00 0.00 3.16
359 360 6.763610 GGGTCTGTAATGATTAAGAGAGTTGG 59.236 42.308 0.00 0.00 0.00 3.77
360 361 6.763610 GGTCTGTAATGATTAAGAGAGTTGGG 59.236 42.308 0.00 0.00 0.00 4.12
363 364 6.889198 TGTAATGATTAAGAGAGTTGGGGAG 58.111 40.000 0.00 0.00 0.00 4.30
364 365 6.443849 TGTAATGATTAAGAGAGTTGGGGAGT 59.556 38.462 0.00 0.00 0.00 3.85
365 366 4.826274 TGATTAAGAGAGTTGGGGAGTG 57.174 45.455 0.00 0.00 0.00 3.51
367 368 2.327325 TAAGAGAGTTGGGGAGTGCT 57.673 50.000 0.00 0.00 0.00 4.40
371 372 1.303643 GAGTTGGGGAGTGCTTGGG 60.304 63.158 0.00 0.00 0.00 4.12
373 374 1.303643 GTTGGGGAGTGCTTGGGAG 60.304 63.158 0.00 0.00 0.00 4.30
374 375 1.463214 TTGGGGAGTGCTTGGGAGA 60.463 57.895 0.00 0.00 0.00 3.71
375 376 1.492133 TTGGGGAGTGCTTGGGAGAG 61.492 60.000 0.00 0.00 0.00 3.20
376 377 1.613630 GGGGAGTGCTTGGGAGAGA 60.614 63.158 0.00 0.00 0.00 3.10
377 378 1.201429 GGGGAGTGCTTGGGAGAGAA 61.201 60.000 0.00 0.00 0.00 2.87
378 379 0.035915 GGGAGTGCTTGGGAGAGAAC 60.036 60.000 0.00 0.00 0.00 3.01
379 380 0.035915 GGAGTGCTTGGGAGAGAACC 60.036 60.000 0.00 0.00 0.00 3.62
380 381 0.980423 GAGTGCTTGGGAGAGAACCT 59.020 55.000 0.00 0.00 0.00 3.50
383 384 1.280421 GTGCTTGGGAGAGAACCTGAT 59.720 52.381 0.00 0.00 0.00 2.90
384 385 1.556911 TGCTTGGGAGAGAACCTGATC 59.443 52.381 0.00 0.00 0.00 2.92
385 386 1.836802 GCTTGGGAGAGAACCTGATCT 59.163 52.381 0.00 0.00 0.00 2.75
387 388 3.452627 GCTTGGGAGAGAACCTGATCTTA 59.547 47.826 0.00 0.00 0.00 2.10
388 389 4.102367 GCTTGGGAGAGAACCTGATCTTAT 59.898 45.833 0.00 0.00 0.00 1.73
389 390 5.397334 GCTTGGGAGAGAACCTGATCTTATT 60.397 44.000 0.00 0.00 0.00 1.40
390 391 6.183361 GCTTGGGAGAGAACCTGATCTTATTA 60.183 42.308 0.00 0.00 0.00 0.98
391 392 7.474079 GCTTGGGAGAGAACCTGATCTTATTAT 60.474 40.741 0.00 0.00 0.00 1.28
392 393 7.308450 TGGGAGAGAACCTGATCTTATTATG 57.692 40.000 0.00 0.00 0.00 1.90
393 394 6.846505 TGGGAGAGAACCTGATCTTATTATGT 59.153 38.462 0.00 0.00 0.00 2.29
394 395 7.348274 TGGGAGAGAACCTGATCTTATTATGTT 59.652 37.037 0.00 0.00 0.00 2.71
395 396 8.214364 GGGAGAGAACCTGATCTTATTATGTTT 58.786 37.037 0.00 0.00 0.00 2.83
400 401 9.965902 AGAACCTGATCTTATTATGTTTGAACT 57.034 29.630 0.00 0.00 0.00 3.01
402 403 8.425577 ACCTGATCTTATTATGTTTGAACTCG 57.574 34.615 0.00 0.00 0.00 4.18
405 406 8.196802 TGATCTTATTATGTTTGAACTCGTGG 57.803 34.615 0.00 0.00 0.00 4.94
406 407 7.822334 TGATCTTATTATGTTTGAACTCGTGGT 59.178 33.333 0.00 0.00 0.00 4.16
408 409 7.802738 TCTTATTATGTTTGAACTCGTGGTTG 58.197 34.615 1.79 0.00 38.41 3.77
409 410 7.658167 TCTTATTATGTTTGAACTCGTGGTTGA 59.342 33.333 1.79 0.00 38.41 3.18
410 411 3.963383 ATGTTTGAACTCGTGGTTGAC 57.037 42.857 1.79 0.43 38.41 3.18
411 412 2.980568 TGTTTGAACTCGTGGTTGACT 58.019 42.857 1.79 0.00 38.41 3.41
412 413 2.675844 TGTTTGAACTCGTGGTTGACTG 59.324 45.455 1.79 0.00 38.41 3.51
668 4232 5.513094 GCATATGCTTAGGTTACCATCTCCA 60.513 44.000 20.64 0.00 38.21 3.86
796 4393 2.007608 GGGTTCATGTACTTTCGAGGC 58.992 52.381 2.29 0.00 0.00 4.70
819 4416 4.273480 CCACCTGATGGTTATGAAATCGTC 59.727 45.833 0.00 0.00 46.05 4.20
944 4552 1.739562 GTGTGCGCTTCTCTCCCAG 60.740 63.158 9.73 0.00 0.00 4.45
965 4573 4.154918 CAGGATCAACACAAAACCTCTAGC 59.845 45.833 0.00 0.00 0.00 3.42
971 4581 5.245301 TCAACACAAAACCTCTAGCTAGCTA 59.755 40.000 22.85 22.85 0.00 3.32
1011 4621 1.815003 CGAAGACATGGCATCCGCA 60.815 57.895 0.00 0.00 41.24 5.69
1026 4636 2.739704 CGCAACGACGATGCACCAT 61.740 57.895 26.45 0.00 44.01 3.55
1069 4679 2.284921 CCCTCCTGCTCCTGGTGA 60.285 66.667 0.00 0.00 0.00 4.02
1278 4888 2.704424 GGTGGCCTGGGGGATCAAT 61.704 63.158 3.32 0.00 33.58 2.57
1609 5219 3.555324 TGCTCACTGGTGCCGGAA 61.555 61.111 5.05 0.00 32.64 4.30
1611 5221 2.425592 CTCACTGGTGCCGGAACA 59.574 61.111 16.38 2.94 0.00 3.18
1935 5546 2.270434 TCTGATCCCCTTAAGCACCT 57.730 50.000 0.00 0.00 0.00 4.00
1985 5596 0.039256 TGCTAACCCGTACGTGTGTC 60.039 55.000 15.21 2.72 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 6.372659 TCTTTTTACATTTTTGCCACAAAGCA 59.627 30.769 0.00 0.00 42.17 3.91
6 7 6.780127 TCTTTTTACATTTTTGCCACAAAGC 58.220 32.000 0.00 0.00 0.00 3.51
7 8 7.429051 GCTTCTTTTTACATTTTTGCCACAAAG 59.571 33.333 0.00 0.00 0.00 2.77
9 10 6.183360 GGCTTCTTTTTACATTTTTGCCACAA 60.183 34.615 0.00 0.00 36.91 3.33
10 11 5.295540 GGCTTCTTTTTACATTTTTGCCACA 59.704 36.000 0.00 0.00 36.91 4.17
11 12 5.527214 AGGCTTCTTTTTACATTTTTGCCAC 59.473 36.000 0.00 0.00 39.10 5.01
12 13 5.526846 CAGGCTTCTTTTTACATTTTTGCCA 59.473 36.000 0.00 0.00 39.10 4.92
13 14 5.527214 ACAGGCTTCTTTTTACATTTTTGCC 59.473 36.000 0.00 0.00 37.15 4.52
14 15 6.421405 CACAGGCTTCTTTTTACATTTTTGC 58.579 36.000 0.00 0.00 0.00 3.68
15 16 6.421405 GCACAGGCTTCTTTTTACATTTTTG 58.579 36.000 0.00 0.00 36.96 2.44
16 17 6.603237 GCACAGGCTTCTTTTTACATTTTT 57.397 33.333 0.00 0.00 36.96 1.94
31 32 3.878774 ACTACCAAGTTCAGCACAGGCT 61.879 50.000 0.00 0.00 42.21 4.58
32 33 1.160137 CTACCAAGTTCAGCACAGGC 58.840 55.000 0.00 0.00 41.61 4.85
33 34 2.146342 CACTACCAAGTTCAGCACAGG 58.854 52.381 0.00 0.00 31.97 4.00
34 35 2.146342 CCACTACCAAGTTCAGCACAG 58.854 52.381 0.00 0.00 31.97 3.66
35 36 1.813862 GCCACTACCAAGTTCAGCACA 60.814 52.381 0.00 0.00 31.97 4.57
36 37 0.875059 GCCACTACCAAGTTCAGCAC 59.125 55.000 0.00 0.00 31.97 4.40
37 38 0.764890 AGCCACTACCAAGTTCAGCA 59.235 50.000 0.00 0.00 31.97 4.41
38 39 1.160137 CAGCCACTACCAAGTTCAGC 58.840 55.000 0.00 0.00 31.97 4.26
39 40 1.160137 GCAGCCACTACCAAGTTCAG 58.840 55.000 0.00 0.00 31.97 3.02
41 42 1.740025 GATGCAGCCACTACCAAGTTC 59.260 52.381 0.00 0.00 31.97 3.01
42 43 1.614317 GGATGCAGCCACTACCAAGTT 60.614 52.381 18.08 0.00 31.97 2.66
43 44 0.035056 GGATGCAGCCACTACCAAGT 60.035 55.000 18.08 0.00 35.91 3.16
46 47 1.578897 TAAGGATGCAGCCACTACCA 58.421 50.000 25.38 0.00 0.00 3.25
47 48 2.498167 CATAAGGATGCAGCCACTACC 58.502 52.381 25.38 2.51 0.00 3.18
48 49 2.104792 TCCATAAGGATGCAGCCACTAC 59.895 50.000 25.38 0.00 39.61 2.73
50 51 1.142465 CTCCATAAGGATGCAGCCACT 59.858 52.381 25.38 12.48 44.70 4.00
52 53 0.179009 GCTCCATAAGGATGCAGCCA 60.179 55.000 25.38 2.96 40.50 4.75
53 54 2.638744 GCTCCATAAGGATGCAGCC 58.361 57.895 14.72 14.72 40.50 4.85
54 55 0.110104 AGGCTCCATAAGGATGCAGC 59.890 55.000 0.00 0.00 44.93 5.25
55 56 2.621998 CAAAGGCTCCATAAGGATGCAG 59.378 50.000 9.57 0.00 44.70 4.41
59 60 4.017130 AGTTTCCAAAGGCTCCATAAGGAT 60.017 41.667 0.00 0.00 44.70 3.24
61 62 3.701664 AGTTTCCAAAGGCTCCATAAGG 58.298 45.455 0.00 0.00 0.00 2.69
62 63 6.180472 TCTTAGTTTCCAAAGGCTCCATAAG 58.820 40.000 0.00 0.00 0.00 1.73
64 65 5.772393 TCTTAGTTTCCAAAGGCTCCATA 57.228 39.130 0.00 0.00 0.00 2.74
65 66 4.657814 TCTTAGTTTCCAAAGGCTCCAT 57.342 40.909 0.00 0.00 0.00 3.41
67 68 5.476945 TCATTTCTTAGTTTCCAAAGGCTCC 59.523 40.000 0.00 0.00 0.00 4.70
68 69 6.575162 TCATTTCTTAGTTTCCAAAGGCTC 57.425 37.500 0.00 0.00 0.00 4.70
69 70 6.976934 TTCATTTCTTAGTTTCCAAAGGCT 57.023 33.333 0.00 0.00 0.00 4.58
70 71 8.090831 AGAATTCATTTCTTAGTTTCCAAAGGC 58.909 33.333 8.44 0.00 42.15 4.35
71 72 9.415544 CAGAATTCATTTCTTAGTTTCCAAAGG 57.584 33.333 8.44 0.00 42.15 3.11
73 74 8.641541 AGCAGAATTCATTTCTTAGTTTCCAAA 58.358 29.630 8.44 0.00 42.15 3.28
74 75 8.181904 AGCAGAATTCATTTCTTAGTTTCCAA 57.818 30.769 8.44 0.00 42.15 3.53
75 76 7.765695 AGCAGAATTCATTTCTTAGTTTCCA 57.234 32.000 8.44 0.00 42.15 3.53
76 77 9.133627 GAAAGCAGAATTCATTTCTTAGTTTCC 57.866 33.333 8.44 0.00 42.15 3.13
77 78 9.683069 TGAAAGCAGAATTCATTTCTTAGTTTC 57.317 29.630 21.41 12.13 42.15 2.78
78 79 9.688592 CTGAAAGCAGAATTCATTTCTTAGTTT 57.311 29.630 21.41 5.92 42.15 2.66
79 80 8.302438 CCTGAAAGCAGAATTCATTTCTTAGTT 58.698 33.333 21.41 3.50 42.15 2.24
80 81 7.094032 CCCTGAAAGCAGAATTCATTTCTTAGT 60.094 37.037 21.41 4.00 42.15 2.24
81 82 7.256286 CCCTGAAAGCAGAATTCATTTCTTAG 58.744 38.462 21.41 15.14 42.15 2.18
82 83 6.350445 GCCCTGAAAGCAGAATTCATTTCTTA 60.350 38.462 21.41 9.57 42.15 2.10
84 85 4.081807 GCCCTGAAAGCAGAATTCATTTCT 60.082 41.667 21.41 7.34 45.83 2.52
85 86 4.179298 GCCCTGAAAGCAGAATTCATTTC 58.821 43.478 17.30 17.30 45.17 2.17
86 87 3.055602 GGCCCTGAAAGCAGAATTCATTT 60.056 43.478 8.44 5.68 45.17 2.32
91 92 1.598701 GCGGCCCTGAAAGCAGAATT 61.599 55.000 0.00 0.00 45.17 2.17
93 94 2.672996 GCGGCCCTGAAAGCAGAA 60.673 61.111 0.00 0.00 45.17 3.02
96 97 3.790416 AAGTGCGGCCCTGAAAGCA 62.790 57.895 0.00 0.00 37.26 3.91
97 98 2.985847 AAGTGCGGCCCTGAAAGC 60.986 61.111 0.00 0.00 0.00 3.51
99 100 2.597217 CCAAGTGCGGCCCTGAAA 60.597 61.111 0.00 0.00 0.00 2.69
100 101 3.551496 CTCCAAGTGCGGCCCTGAA 62.551 63.158 0.00 0.00 0.00 3.02
101 102 4.020617 CTCCAAGTGCGGCCCTGA 62.021 66.667 0.00 0.00 0.00 3.86
102 103 3.551496 TTCTCCAAGTGCGGCCCTG 62.551 63.158 0.00 0.00 0.00 4.45
106 107 1.153958 GCATTTCTCCAAGTGCGGC 60.154 57.895 0.00 0.00 35.74 6.53
107 108 1.508088 GGCATTTCTCCAAGTGCGG 59.492 57.895 0.00 0.00 44.27 5.69
108 109 1.135315 CGGCATTTCTCCAAGTGCG 59.865 57.895 0.00 0.00 44.27 5.34
109 110 1.153958 GCGGCATTTCTCCAAGTGC 60.154 57.895 0.00 0.00 42.97 4.40
111 112 0.813184 CATGCGGCATTTCTCCAAGT 59.187 50.000 13.81 0.00 0.00 3.16
112 113 0.813184 ACATGCGGCATTTCTCCAAG 59.187 50.000 13.81 1.80 0.00 3.61
113 114 0.527113 CACATGCGGCATTTCTCCAA 59.473 50.000 13.81 0.00 0.00 3.53
115 116 0.527565 AACACATGCGGCATTTCTCC 59.472 50.000 13.81 0.00 0.00 3.71
116 117 1.470098 AGAACACATGCGGCATTTCTC 59.530 47.619 18.14 11.11 0.00 2.87
117 118 1.538047 AGAACACATGCGGCATTTCT 58.462 45.000 18.14 18.14 0.00 2.52
118 119 1.987770 CAAGAACACATGCGGCATTTC 59.012 47.619 13.81 14.49 0.00 2.17
119 120 1.340889 ACAAGAACACATGCGGCATTT 59.659 42.857 13.81 3.84 0.00 2.32
120 121 0.961019 ACAAGAACACATGCGGCATT 59.039 45.000 13.81 0.00 0.00 3.56
122 123 0.817229 TCACAAGAACACATGCGGCA 60.817 50.000 4.58 4.58 0.00 5.69
123 124 0.310543 TTCACAAGAACACATGCGGC 59.689 50.000 0.00 0.00 0.00 6.53
124 125 2.033299 AGTTTCACAAGAACACATGCGG 59.967 45.455 0.00 0.00 32.39 5.69
125 126 3.338818 AGTTTCACAAGAACACATGCG 57.661 42.857 0.00 0.00 32.39 4.73
126 127 5.215160 CCTTAGTTTCACAAGAACACATGC 58.785 41.667 0.00 0.00 32.39 4.06
127 128 6.260936 AGACCTTAGTTTCACAAGAACACATG 59.739 38.462 0.00 0.00 32.39 3.21
128 129 6.357367 AGACCTTAGTTTCACAAGAACACAT 58.643 36.000 0.00 0.00 32.39 3.21
131 132 5.984725 TGAGACCTTAGTTTCACAAGAACA 58.015 37.500 0.00 0.00 32.48 3.18
132 133 6.931840 AGATGAGACCTTAGTTTCACAAGAAC 59.068 38.462 0.00 0.00 39.69 3.01
133 134 7.067496 AGATGAGACCTTAGTTTCACAAGAA 57.933 36.000 0.00 0.00 39.69 2.52
136 137 9.052759 GTTTTAGATGAGACCTTAGTTTCACAA 57.947 33.333 0.00 0.00 39.69 3.33
139 140 9.793259 ATTGTTTTAGATGAGACCTTAGTTTCA 57.207 29.630 0.00 0.00 41.00 2.69
142 143 8.383175 TCCATTGTTTTAGATGAGACCTTAGTT 58.617 33.333 0.00 0.00 0.00 2.24
143 144 7.918076 TCCATTGTTTTAGATGAGACCTTAGT 58.082 34.615 0.00 0.00 0.00 2.24
144 145 8.792830 TTCCATTGTTTTAGATGAGACCTTAG 57.207 34.615 0.00 0.00 0.00 2.18
145 146 9.231297 CTTTCCATTGTTTTAGATGAGACCTTA 57.769 33.333 0.00 0.00 0.00 2.69
150 151 6.716628 AGCACTTTCCATTGTTTTAGATGAGA 59.283 34.615 0.00 0.00 0.00 3.27
151 152 6.917533 AGCACTTTCCATTGTTTTAGATGAG 58.082 36.000 0.00 0.00 0.00 2.90
156 157 4.919754 GCAGAGCACTTTCCATTGTTTTAG 59.080 41.667 0.00 0.00 0.00 1.85
159 160 2.287788 CGCAGAGCACTTTCCATTGTTT 60.288 45.455 0.00 0.00 0.00 2.83
160 161 1.267806 CGCAGAGCACTTTCCATTGTT 59.732 47.619 0.00 0.00 0.00 2.83
161 162 0.877071 CGCAGAGCACTTTCCATTGT 59.123 50.000 0.00 0.00 0.00 2.71
162 163 1.135859 GTCGCAGAGCACTTTCCATTG 60.136 52.381 0.00 0.00 36.95 2.82
163 164 1.160137 GTCGCAGAGCACTTTCCATT 58.840 50.000 0.00 0.00 36.95 3.16
164 165 1.016130 CGTCGCAGAGCACTTTCCAT 61.016 55.000 0.00 0.00 36.95 3.41
165 166 1.664649 CGTCGCAGAGCACTTTCCA 60.665 57.895 0.00 0.00 36.95 3.53
168 169 1.067416 TGTCGTCGCAGAGCACTTT 59.933 52.632 0.00 0.00 36.95 2.66
169 170 1.661821 GTGTCGTCGCAGAGCACTT 60.662 57.895 0.00 0.00 36.95 3.16
171 172 2.049985 AGTGTCGTCGCAGAGCAC 60.050 61.111 0.00 0.00 36.95 4.40
172 173 2.070654 TTGAGTGTCGTCGCAGAGCA 62.071 55.000 0.00 0.00 36.95 4.26
173 174 1.340657 CTTGAGTGTCGTCGCAGAGC 61.341 60.000 0.00 0.00 36.95 4.09
174 175 1.340657 GCTTGAGTGTCGTCGCAGAG 61.341 60.000 0.00 0.00 36.95 3.35
175 176 1.371758 GCTTGAGTGTCGTCGCAGA 60.372 57.895 0.00 0.00 0.00 4.26
176 177 1.612469 CTGCTTGAGTGTCGTCGCAG 61.612 60.000 0.00 0.00 38.86 5.18
177 178 1.661509 CTGCTTGAGTGTCGTCGCA 60.662 57.895 0.00 0.00 0.00 5.10
193 194 5.583854 AGAATACATCTTTGTAGCAGCACTG 59.416 40.000 0.00 0.00 41.49 3.66
194 195 5.738909 AGAATACATCTTTGTAGCAGCACT 58.261 37.500 0.00 0.00 41.49 4.40
195 196 6.428385 AAGAATACATCTTTGTAGCAGCAC 57.572 37.500 0.00 0.00 46.39 4.40
207 208 5.426689 TTGTCCAGCAGAAGAATACATCT 57.573 39.130 0.00 0.00 41.32 2.90
208 209 6.500684 TTTTGTCCAGCAGAAGAATACATC 57.499 37.500 0.00 0.00 0.00 3.06
209 210 6.491403 ACTTTTTGTCCAGCAGAAGAATACAT 59.509 34.615 0.00 0.00 0.00 2.29
210 211 5.827797 ACTTTTTGTCCAGCAGAAGAATACA 59.172 36.000 0.00 0.00 0.00 2.29
211 212 6.145535 CACTTTTTGTCCAGCAGAAGAATAC 58.854 40.000 0.00 0.00 0.00 1.89
212 213 5.278463 GCACTTTTTGTCCAGCAGAAGAATA 60.278 40.000 0.00 0.00 0.00 1.75
214 215 3.181487 GCACTTTTTGTCCAGCAGAAGAA 60.181 43.478 0.00 0.00 0.00 2.52
215 216 2.358898 GCACTTTTTGTCCAGCAGAAGA 59.641 45.455 0.00 0.00 0.00 2.87
216 217 2.735823 GCACTTTTTGTCCAGCAGAAG 58.264 47.619 0.00 0.00 0.00 2.85
217 218 1.065401 CGCACTTTTTGTCCAGCAGAA 59.935 47.619 0.00 0.00 0.00 3.02
218 219 0.662619 CGCACTTTTTGTCCAGCAGA 59.337 50.000 0.00 0.00 0.00 4.26
219 220 0.318107 CCGCACTTTTTGTCCAGCAG 60.318 55.000 0.00 0.00 0.00 4.24
220 221 0.749818 TCCGCACTTTTTGTCCAGCA 60.750 50.000 0.00 0.00 0.00 4.41
221 222 0.040067 CTCCGCACTTTTTGTCCAGC 60.040 55.000 0.00 0.00 0.00 4.85
222 223 1.532868 CTCTCCGCACTTTTTGTCCAG 59.467 52.381 0.00 0.00 0.00 3.86
223 224 1.593196 CTCTCCGCACTTTTTGTCCA 58.407 50.000 0.00 0.00 0.00 4.02
225 226 1.069636 CAGCTCTCCGCACTTTTTGTC 60.070 52.381 0.00 0.00 42.61 3.18
226 227 0.947244 CAGCTCTCCGCACTTTTTGT 59.053 50.000 0.00 0.00 42.61 2.83
227 228 1.229428 TCAGCTCTCCGCACTTTTTG 58.771 50.000 0.00 0.00 42.61 2.44
228 229 1.808945 CATCAGCTCTCCGCACTTTTT 59.191 47.619 0.00 0.00 42.61 1.94
230 231 1.023513 GCATCAGCTCTCCGCACTTT 61.024 55.000 0.00 0.00 42.61 2.66
231 232 1.449246 GCATCAGCTCTCCGCACTT 60.449 57.895 0.00 0.00 42.61 3.16
232 233 2.186384 GCATCAGCTCTCCGCACT 59.814 61.111 0.00 0.00 42.61 4.40
233 234 3.260483 CGCATCAGCTCTCCGCAC 61.260 66.667 0.00 0.00 42.61 5.34
234 235 4.519437 CCGCATCAGCTCTCCGCA 62.519 66.667 0.00 0.00 42.61 5.69
235 236 4.521062 ACCGCATCAGCTCTCCGC 62.521 66.667 0.00 0.00 39.10 5.54
237 238 1.986575 GCAAACCGCATCAGCTCTCC 61.987 60.000 0.00 0.00 41.79 3.71
238 239 1.427020 GCAAACCGCATCAGCTCTC 59.573 57.895 0.00 0.00 41.79 3.20
239 240 2.393768 CGCAAACCGCATCAGCTCT 61.394 57.895 0.00 0.00 42.60 4.09
240 241 2.099062 CGCAAACCGCATCAGCTC 59.901 61.111 0.00 0.00 42.60 4.09
242 243 2.502510 CACGCAAACCGCATCAGC 60.503 61.111 0.00 0.00 42.60 4.26
244 245 2.281139 TCCACGCAAACCGCATCA 60.281 55.556 0.00 0.00 42.60 3.07
245 246 1.369091 ATCTCCACGCAAACCGCATC 61.369 55.000 0.00 0.00 42.60 3.91
246 247 1.377202 ATCTCCACGCAAACCGCAT 60.377 52.632 0.00 0.00 42.60 4.73
247 248 2.031919 ATCTCCACGCAAACCGCA 59.968 55.556 0.00 0.00 42.60 5.69
248 249 1.970917 CTCATCTCCACGCAAACCGC 61.971 60.000 0.00 0.00 41.76 5.68
250 251 1.796796 GCTCATCTCCACGCAAACC 59.203 57.895 0.00 0.00 0.00 3.27
251 252 1.421485 CGCTCATCTCCACGCAAAC 59.579 57.895 0.00 0.00 0.00 2.93
257 258 1.875813 CGTCTGCGCTCATCTCCAC 60.876 63.158 9.73 0.00 0.00 4.02
258 259 1.877576 AACGTCTGCGCTCATCTCCA 61.878 55.000 9.73 0.00 42.83 3.86
259 260 1.142778 GAACGTCTGCGCTCATCTCC 61.143 60.000 9.73 0.00 42.83 3.71
260 261 0.456824 TGAACGTCTGCGCTCATCTC 60.457 55.000 9.73 0.00 38.15 2.75
261 262 0.457509 CTGAACGTCTGCGCTCATCT 60.458 55.000 9.73 0.00 41.51 2.90
262 263 0.456824 TCTGAACGTCTGCGCTCATC 60.457 55.000 9.73 0.00 41.51 2.92
263 264 0.174389 ATCTGAACGTCTGCGCTCAT 59.826 50.000 9.73 0.00 41.51 2.90
264 265 0.733909 CATCTGAACGTCTGCGCTCA 60.734 55.000 9.73 1.07 40.36 4.26
266 267 1.446792 CCATCTGAACGTCTGCGCT 60.447 57.895 9.73 0.00 42.83 5.92
267 268 3.084579 CCATCTGAACGTCTGCGC 58.915 61.111 0.00 0.00 42.83 6.09
270 271 0.742281 CCCAGCCATCTGAACGTCTG 60.742 60.000 0.00 0.00 42.95 3.51
271 272 0.904865 TCCCAGCCATCTGAACGTCT 60.905 55.000 0.00 0.00 42.95 4.18
272 273 0.179000 ATCCCAGCCATCTGAACGTC 59.821 55.000 0.00 0.00 42.95 4.34
273 274 0.620556 AATCCCAGCCATCTGAACGT 59.379 50.000 0.00 0.00 42.95 3.99
275 276 2.555757 GCATAATCCCAGCCATCTGAAC 59.444 50.000 0.00 0.00 42.95 3.18
277 278 2.574006 GCATAATCCCAGCCATCTGA 57.426 50.000 0.00 0.00 42.95 3.27
283 284 1.228675 CCCTGGCATAATCCCAGCC 60.229 63.158 1.95 0.00 46.77 4.85
284 285 0.825010 CACCCTGGCATAATCCCAGC 60.825 60.000 1.95 0.00 46.77 4.85
286 287 1.006813 AACACCCTGGCATAATCCCA 58.993 50.000 0.00 0.00 0.00 4.37
287 288 2.174854 ACTAACACCCTGGCATAATCCC 59.825 50.000 0.00 0.00 0.00 3.85
288 289 3.577805 ACTAACACCCTGGCATAATCC 57.422 47.619 0.00 0.00 0.00 3.01
289 290 4.781934 AGAACTAACACCCTGGCATAATC 58.218 43.478 0.00 0.00 0.00 1.75
291 292 3.054655 GGAGAACTAACACCCTGGCATAA 60.055 47.826 0.00 0.00 0.00 1.90
292 293 2.504175 GGAGAACTAACACCCTGGCATA 59.496 50.000 0.00 0.00 0.00 3.14
294 295 0.690762 GGAGAACTAACACCCTGGCA 59.309 55.000 0.00 0.00 0.00 4.92
295 296 0.391263 CGGAGAACTAACACCCTGGC 60.391 60.000 0.00 0.00 0.00 4.85
296 297 0.974383 ACGGAGAACTAACACCCTGG 59.026 55.000 0.00 0.00 0.00 4.45
297 298 2.824341 ACTACGGAGAACTAACACCCTG 59.176 50.000 0.00 0.00 0.00 4.45
298 299 3.166560 ACTACGGAGAACTAACACCCT 57.833 47.619 0.00 0.00 0.00 4.34
299 300 3.006217 ACAACTACGGAGAACTAACACCC 59.994 47.826 0.00 0.00 0.00 4.61
301 302 4.233005 GGACAACTACGGAGAACTAACAC 58.767 47.826 0.00 0.00 0.00 3.32
303 304 3.509184 AGGGACAACTACGGAGAACTAAC 59.491 47.826 0.00 0.00 0.00 2.34
304 305 3.771216 AGGGACAACTACGGAGAACTAA 58.229 45.455 0.00 0.00 0.00 2.24
306 307 2.305858 AGGGACAACTACGGAGAACT 57.694 50.000 0.00 0.00 0.00 3.01
307 308 2.353505 GGAAGGGACAACTACGGAGAAC 60.354 54.545 0.00 0.00 0.00 3.01
308 309 1.897802 GGAAGGGACAACTACGGAGAA 59.102 52.381 0.00 0.00 0.00 2.87
309 310 1.203087 TGGAAGGGACAACTACGGAGA 60.203 52.381 0.00 0.00 0.00 3.71
311 312 1.946984 ATGGAAGGGACAACTACGGA 58.053 50.000 0.00 0.00 0.00 4.69
312 313 2.629051 GAATGGAAGGGACAACTACGG 58.371 52.381 0.00 0.00 0.00 4.02
313 314 2.629051 GGAATGGAAGGGACAACTACG 58.371 52.381 0.00 0.00 0.00 3.51
314 315 2.629051 CGGAATGGAAGGGACAACTAC 58.371 52.381 0.00 0.00 0.00 2.73
316 317 0.328258 CCGGAATGGAAGGGACAACT 59.672 55.000 0.00 0.00 42.00 3.16
317 318 2.868253 CCGGAATGGAAGGGACAAC 58.132 57.895 0.00 0.00 42.00 3.32
323 324 1.200519 TACAGACCCGGAATGGAAGG 58.799 55.000 0.73 0.00 42.00 3.46
324 325 3.118408 TCATTACAGACCCGGAATGGAAG 60.118 47.826 0.73 0.00 42.00 3.46
325 326 2.841266 TCATTACAGACCCGGAATGGAA 59.159 45.455 0.73 1.11 42.00 3.53
326 327 2.473070 TCATTACAGACCCGGAATGGA 58.527 47.619 0.73 0.00 42.00 3.41
328 329 6.288294 TCTTAATCATTACAGACCCGGAATG 58.712 40.000 0.73 3.68 0.00 2.67
329 330 6.326583 TCTCTTAATCATTACAGACCCGGAAT 59.673 38.462 0.73 0.00 0.00 3.01
331 332 5.205821 TCTCTTAATCATTACAGACCCGGA 58.794 41.667 0.73 0.00 0.00 5.14
332 333 5.069251 ACTCTCTTAATCATTACAGACCCGG 59.931 44.000 0.00 0.00 0.00 5.73
334 335 6.763610 CCAACTCTCTTAATCATTACAGACCC 59.236 42.308 0.00 0.00 0.00 4.46
335 336 6.763610 CCCAACTCTCTTAATCATTACAGACC 59.236 42.308 0.00 0.00 0.00 3.85
337 338 6.672218 TCCCCAACTCTCTTAATCATTACAGA 59.328 38.462 0.00 0.00 0.00 3.41
338 339 6.889198 TCCCCAACTCTCTTAATCATTACAG 58.111 40.000 0.00 0.00 0.00 2.74
339 340 6.443849 ACTCCCCAACTCTCTTAATCATTACA 59.556 38.462 0.00 0.00 0.00 2.41
342 343 5.749462 CACTCCCCAACTCTCTTAATCATT 58.251 41.667 0.00 0.00 0.00 2.57
343 344 4.384647 GCACTCCCCAACTCTCTTAATCAT 60.385 45.833 0.00 0.00 0.00 2.45
344 345 3.055094 GCACTCCCCAACTCTCTTAATCA 60.055 47.826 0.00 0.00 0.00 2.57
345 346 3.198853 AGCACTCCCCAACTCTCTTAATC 59.801 47.826 0.00 0.00 0.00 1.75
346 347 3.185455 AGCACTCCCCAACTCTCTTAAT 58.815 45.455 0.00 0.00 0.00 1.40
347 348 2.621070 AGCACTCCCCAACTCTCTTAA 58.379 47.619 0.00 0.00 0.00 1.85
348 349 2.303022 CAAGCACTCCCCAACTCTCTTA 59.697 50.000 0.00 0.00 0.00 2.10
349 350 1.072965 CAAGCACTCCCCAACTCTCTT 59.927 52.381 0.00 0.00 0.00 2.85
350 351 0.689623 CAAGCACTCCCCAACTCTCT 59.310 55.000 0.00 0.00 0.00 3.10
351 352 0.322008 CCAAGCACTCCCCAACTCTC 60.322 60.000 0.00 0.00 0.00 3.20
352 353 1.763770 CCAAGCACTCCCCAACTCT 59.236 57.895 0.00 0.00 0.00 3.24
353 354 1.303643 CCCAAGCACTCCCCAACTC 60.304 63.158 0.00 0.00 0.00 3.01
354 355 1.774217 TCCCAAGCACTCCCCAACT 60.774 57.895 0.00 0.00 0.00 3.16
355 356 1.303643 CTCCCAAGCACTCCCCAAC 60.304 63.158 0.00 0.00 0.00 3.77
356 357 1.463214 TCTCCCAAGCACTCCCCAA 60.463 57.895 0.00 0.00 0.00 4.12
358 359 1.201429 TTCTCTCCCAAGCACTCCCC 61.201 60.000 0.00 0.00 0.00 4.81
359 360 0.035915 GTTCTCTCCCAAGCACTCCC 60.036 60.000 0.00 0.00 0.00 4.30
360 361 0.035915 GGTTCTCTCCCAAGCACTCC 60.036 60.000 0.00 0.00 0.00 3.85
363 364 0.687354 TCAGGTTCTCTCCCAAGCAC 59.313 55.000 0.00 0.00 0.00 4.40
364 365 1.556911 GATCAGGTTCTCTCCCAAGCA 59.443 52.381 0.00 0.00 0.00 3.91
365 366 1.836802 AGATCAGGTTCTCTCCCAAGC 59.163 52.381 0.00 0.00 0.00 4.01
367 368 7.348274 ACATAATAAGATCAGGTTCTCTCCCAA 59.652 37.037 0.00 0.00 0.00 4.12
371 372 9.823647 TCAAACATAATAAGATCAGGTTCTCTC 57.176 33.333 0.00 0.00 0.00 3.20
374 375 9.965902 AGTTCAAACATAATAAGATCAGGTTCT 57.034 29.630 0.00 0.00 0.00 3.01
376 377 8.883731 CGAGTTCAAACATAATAAGATCAGGTT 58.116 33.333 0.00 0.00 0.00 3.50
377 378 8.041323 ACGAGTTCAAACATAATAAGATCAGGT 58.959 33.333 0.00 0.00 0.00 4.00
378 379 8.331022 CACGAGTTCAAACATAATAAGATCAGG 58.669 37.037 0.00 0.00 0.00 3.86
379 380 8.331022 CCACGAGTTCAAACATAATAAGATCAG 58.669 37.037 0.00 0.00 0.00 2.90
380 381 7.822334 ACCACGAGTTCAAACATAATAAGATCA 59.178 33.333 0.00 0.00 0.00 2.92
383 384 7.658167 TCAACCACGAGTTCAAACATAATAAGA 59.342 33.333 0.00 0.00 36.18 2.10
384 385 7.744715 GTCAACCACGAGTTCAAACATAATAAG 59.255 37.037 0.00 0.00 36.18 1.73
385 386 7.442969 AGTCAACCACGAGTTCAAACATAATAA 59.557 33.333 0.00 0.00 36.18 1.40
387 388 5.763204 AGTCAACCACGAGTTCAAACATAAT 59.237 36.000 0.00 0.00 36.18 1.28
388 389 5.007234 CAGTCAACCACGAGTTCAAACATAA 59.993 40.000 0.00 0.00 36.18 1.90
389 390 4.509970 CAGTCAACCACGAGTTCAAACATA 59.490 41.667 0.00 0.00 36.18 2.29
390 391 3.312421 CAGTCAACCACGAGTTCAAACAT 59.688 43.478 0.00 0.00 36.18 2.71
391 392 2.675844 CAGTCAACCACGAGTTCAAACA 59.324 45.455 0.00 0.00 36.18 2.83
392 393 3.319238 CAGTCAACCACGAGTTCAAAC 57.681 47.619 0.00 0.00 36.18 2.93
601 602 6.183360 GGGTCAATGATTAATTCTCTCGCAAA 60.183 38.462 0.00 0.00 0.00 3.68
602 603 5.296780 GGGTCAATGATTAATTCTCTCGCAA 59.703 40.000 0.00 0.00 0.00 4.85
603 604 4.816385 GGGTCAATGATTAATTCTCTCGCA 59.184 41.667 0.00 0.00 0.00 5.10
604 605 4.214332 GGGGTCAATGATTAATTCTCTCGC 59.786 45.833 0.00 0.00 0.00 5.03
605 606 5.368145 TGGGGTCAATGATTAATTCTCTCG 58.632 41.667 0.00 0.00 0.00 4.04
606 607 7.609532 CCTATGGGGTCAATGATTAATTCTCTC 59.390 40.741 0.00 0.00 0.00 3.20
607 608 7.465116 CCTATGGGGTCAATGATTAATTCTCT 58.535 38.462 0.00 0.00 0.00 3.10
668 4232 0.034059 GCACGATCGATGGAGGGAAT 59.966 55.000 24.34 0.00 0.00 3.01
819 4416 0.863538 CCTGCGATCTCACGTTCTCG 60.864 60.000 0.00 0.00 43.34 4.04
944 4552 4.327680 AGCTAGAGGTTTTGTGTTGATCC 58.672 43.478 0.00 0.00 0.00 3.36
965 4573 3.546417 CGCGAGGTAAAGACACTAGCTAG 60.546 52.174 19.44 19.44 31.84 3.42
971 4581 1.080025 GGCGCGAGGTAAAGACACT 60.080 57.895 12.10 0.00 0.00 3.55
1587 5197 2.740055 GCACCAGTGAGCACGAGG 60.740 66.667 0.99 11.76 37.39 4.63
1657 5267 6.811253 TTATTGTTAACAACCAGTAGCCTG 57.189 37.500 22.78 0.00 38.86 4.85
1935 5546 2.569853 TCCTAACAGCCGATCCTGAAAA 59.430 45.455 6.04 0.00 36.67 2.29
2285 5910 8.585018 CAACTCCCAAAAGGTATTATGTTTTCT 58.415 33.333 0.00 0.00 36.75 2.52


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

AutoCloner maintained by Alex Coulton.