Multiple sequence alignment - TraesCS6B01G103000

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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 TraesCS6B01G103000 chr6B 100.000 2336 0 0 1 2336 80968915 80971250 0.000000e+00 4314.0
1 TraesCS6B01G103000 chr6B 79.892 925 67 39 527 1382 80960891 80961765 3.370000e-158 568.0
2 TraesCS6B01G103000 chr6B 93.694 111 7 0 1 111 123608362 123608252 1.440000e-37 167.0
3 TraesCS6B01G103000 chr7A 98.858 963 9 2 1375 2336 646948033 646948994 0.000000e+00 1716.0
4 TraesCS6B01G103000 chr3A 98.953 955 8 2 1383 2336 225890965 225890012 0.000000e+00 1707.0
5 TraesCS6B01G103000 chr2B 98.851 957 10 1 1381 2336 123120430 123119474 0.000000e+00 1705.0
6 TraesCS6B01G103000 chr5B 98.849 956 10 1 1382 2336 257010883 257009928 0.000000e+00 1703.0
7 TraesCS6B01G103000 chr1A 98.848 955 10 1 1383 2336 559618901 559617947 0.000000e+00 1701.0
8 TraesCS6B01G103000 chr1A 98.546 963 13 1 1375 2336 548576824 548577786 0.000000e+00 1700.0
9 TraesCS6B01G103000 chr1A 81.564 358 57 5 992 1347 32454460 32454810 1.060000e-73 287.0
10 TraesCS6B01G103000 chr1A 80.217 369 54 14 992 1347 32302214 32302576 2.300000e-65 259.0
11 TraesCS6B01G103000 chr1A 79.726 365 50 18 992 1336 32451397 32451757 2.320000e-60 243.0
12 TraesCS6B01G103000 chr1A 86.139 202 26 2 1143 1343 32291625 32291825 1.410000e-52 217.0
13 TraesCS6B01G103000 chr1A 88.679 53 6 0 867 919 32302084 32302136 5.390000e-07 65.8
14 TraesCS6B01G103000 chr5A 98.646 960 12 1 1378 2336 454682425 454683384 0.000000e+00 1700.0
15 TraesCS6B01G103000 chr5A 98.546 963 12 2 1375 2336 676378563 676379524 0.000000e+00 1700.0
16 TraesCS6B01G103000 chr3B 98.347 968 13 3 1371 2336 302354182 302353216 0.000000e+00 1696.0
17 TraesCS6B01G103000 chr3B 94.444 108 6 0 1 108 357006334 357006441 1.440000e-37 167.0
18 TraesCS6B01G103000 chr3B 94.444 108 6 0 1 108 370410174 370410281 1.440000e-37 167.0
19 TraesCS6B01G103000 chr3B 92.241 116 8 1 1 115 3614220 3614105 1.860000e-36 163.0
20 TraesCS6B01G103000 chrUn 84.056 715 45 28 696 1382 27022206 27022879 1.970000e-175 625.0
21 TraesCS6B01G103000 chrUn 84.056 715 45 28 696 1382 27158039 27157366 1.970000e-175 625.0
22 TraesCS6B01G103000 chrUn 90.385 312 17 5 366 677 27021833 27022131 4.680000e-107 398.0
23 TraesCS6B01G103000 chrUn 90.385 312 17 5 366 677 27158412 27158114 4.680000e-107 398.0
24 TraesCS6B01G103000 chrUn 93.694 111 6 1 1 110 20512682 20512792 5.160000e-37 165.0
25 TraesCS6B01G103000 chr6A 86.949 567 29 17 807 1347 46973332 46972785 1.550000e-166 595.0
26 TraesCS6B01G103000 chr6A 88.000 200 22 2 107 306 46980049 46979852 3.880000e-58 235.0
27 TraesCS6B01G103000 chr6A 94.488 127 5 2 387 513 46974317 46974193 6.590000e-46 195.0
28 TraesCS6B01G103000 chr6A 95.283 106 5 0 1 106 75388102 75388207 3.990000e-38 169.0
29 TraesCS6B01G103000 chr6A 92.208 77 6 0 510 586 46973928 46973852 2.450000e-20 110.0
30 TraesCS6B01G103000 chr1B 82.527 372 46 13 988 1347 51590104 51590468 2.250000e-80 309.0
31 TraesCS6B01G103000 chr1D 81.794 379 39 21 992 1347 33712296 33712667 8.170000e-75 291.0
32 TraesCS6B01G103000 chr5D 95.283 106 5 0 1 106 99799593 99799488 3.990000e-38 169.0
33 TraesCS6B01G103000 chr6D 94.393 107 6 0 1 107 93819871 93819977 5.160000e-37 165.0
34 TraesCS6B01G103000 chr4B 93.636 110 7 0 1 110 643923338 643923229 5.160000e-37 165.0


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 TraesCS6B01G103000 chr6B 80968915 80971250 2335 False 4314.0 4314 100.0000 1 2336 1 chr6B.!!$F2 2335
1 TraesCS6B01G103000 chr6B 80960891 80961765 874 False 568.0 568 79.8920 527 1382 1 chr6B.!!$F1 855
2 TraesCS6B01G103000 chr7A 646948033 646948994 961 False 1716.0 1716 98.8580 1375 2336 1 chr7A.!!$F1 961
3 TraesCS6B01G103000 chr3A 225890012 225890965 953 True 1707.0 1707 98.9530 1383 2336 1 chr3A.!!$R1 953
4 TraesCS6B01G103000 chr2B 123119474 123120430 956 True 1705.0 1705 98.8510 1381 2336 1 chr2B.!!$R1 955
5 TraesCS6B01G103000 chr5B 257009928 257010883 955 True 1703.0 1703 98.8490 1382 2336 1 chr5B.!!$R1 954
6 TraesCS6B01G103000 chr1A 559617947 559618901 954 True 1701.0 1701 98.8480 1383 2336 1 chr1A.!!$R1 953
7 TraesCS6B01G103000 chr1A 548576824 548577786 962 False 1700.0 1700 98.5460 1375 2336 1 chr1A.!!$F2 961
8 TraesCS6B01G103000 chr1A 32451397 32454810 3413 False 265.0 287 80.6450 992 1347 2 chr1A.!!$F4 355
9 TraesCS6B01G103000 chr5A 454682425 454683384 959 False 1700.0 1700 98.6460 1378 2336 1 chr5A.!!$F1 958
10 TraesCS6B01G103000 chr5A 676378563 676379524 961 False 1700.0 1700 98.5460 1375 2336 1 chr5A.!!$F2 961
11 TraesCS6B01G103000 chr3B 302353216 302354182 966 True 1696.0 1696 98.3470 1371 2336 1 chr3B.!!$R2 965
12 TraesCS6B01G103000 chrUn 27021833 27022879 1046 False 511.5 625 87.2205 366 1382 2 chrUn.!!$F2 1016
13 TraesCS6B01G103000 chrUn 27157366 27158412 1046 True 511.5 625 87.2205 366 1382 2 chrUn.!!$R1 1016
14 TraesCS6B01G103000 chr6A 46972785 46974317 1532 True 300.0 595 91.2150 387 1347 3 chr6A.!!$R2 960

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
84 85 0.029567 CGTGCCTAAGCGTCTCCTAG 59.970 60.0 0.0 0.0 44.31 3.02 F
102 103 0.034059 AGACACTGCCTTCTCCAACG 59.966 55.0 0.0 0.0 0.00 4.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1082 1805 0.494551 TGAGGGGAAGAGTGGGGTTA 59.505 55.0 0.00 0.0 0.00 2.85 R
1646 2423 0.869880 TGTGCGTGAACGTGTCTCTG 60.870 55.0 4.59 0.0 42.22 3.35 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
17 18 3.732938 CTTGCCCTGCCTAGACCT 58.267 61.111 0.00 0.00 0.00 3.85
18 19 1.994463 CTTGCCCTGCCTAGACCTT 59.006 57.895 0.00 0.00 0.00 3.50
19 20 0.107459 CTTGCCCTGCCTAGACCTTC 60.107 60.000 0.00 0.00 0.00 3.46
20 21 0.840288 TTGCCCTGCCTAGACCTTCA 60.840 55.000 0.00 0.00 0.00 3.02
21 22 0.621571 TGCCCTGCCTAGACCTTCAT 60.622 55.000 0.00 0.00 0.00 2.57
22 23 0.548510 GCCCTGCCTAGACCTTCATT 59.451 55.000 0.00 0.00 0.00 2.57
23 24 1.064389 GCCCTGCCTAGACCTTCATTT 60.064 52.381 0.00 0.00 0.00 2.32
24 25 2.172717 GCCCTGCCTAGACCTTCATTTA 59.827 50.000 0.00 0.00 0.00 1.40
25 26 3.181439 GCCCTGCCTAGACCTTCATTTAT 60.181 47.826 0.00 0.00 0.00 1.40
26 27 4.392940 CCCTGCCTAGACCTTCATTTATG 58.607 47.826 0.00 0.00 0.00 1.90
27 28 4.141390 CCCTGCCTAGACCTTCATTTATGT 60.141 45.833 0.00 0.00 0.00 2.29
28 29 5.059833 CCTGCCTAGACCTTCATTTATGTC 58.940 45.833 0.00 0.00 0.00 3.06
29 30 5.036117 TGCCTAGACCTTCATTTATGTCC 57.964 43.478 0.00 0.00 0.00 4.02
30 31 4.721776 TGCCTAGACCTTCATTTATGTCCT 59.278 41.667 0.00 0.00 0.00 3.85
31 32 5.903010 TGCCTAGACCTTCATTTATGTCCTA 59.097 40.000 0.00 0.00 0.00 2.94
32 33 6.042093 TGCCTAGACCTTCATTTATGTCCTAG 59.958 42.308 0.00 0.00 0.00 3.02
33 34 6.519213 GCCTAGACCTTCATTTATGTCCTAGG 60.519 46.154 0.82 0.82 34.84 3.02
34 35 5.297569 AGACCTTCATTTATGTCCTAGGC 57.702 43.478 2.96 0.00 0.00 3.93
35 36 4.058817 GACCTTCATTTATGTCCTAGGCG 58.941 47.826 2.96 0.00 0.00 5.52
36 37 3.709653 ACCTTCATTTATGTCCTAGGCGA 59.290 43.478 2.96 0.00 0.00 5.54
37 38 4.202264 ACCTTCATTTATGTCCTAGGCGAG 60.202 45.833 2.96 0.00 0.00 5.03
39 40 2.037251 TCATTTATGTCCTAGGCGAGGC 59.963 50.000 9.03 5.05 46.25 4.70
40 41 0.387929 TTTATGTCCTAGGCGAGGCG 59.612 55.000 9.03 0.00 46.25 5.52
41 42 0.754217 TTATGTCCTAGGCGAGGCGT 60.754 55.000 9.03 8.18 46.25 5.68
42 43 0.754217 TATGTCCTAGGCGAGGCGTT 60.754 55.000 9.03 0.00 46.25 4.84
43 44 1.614241 ATGTCCTAGGCGAGGCGTTT 61.614 55.000 9.03 0.00 46.25 3.60
44 45 1.810030 GTCCTAGGCGAGGCGTTTG 60.810 63.158 9.03 0.00 46.25 2.93
45 46 2.511600 CCTAGGCGAGGCGTTTGG 60.512 66.667 0.00 0.00 38.96 3.28
46 47 3.195698 CTAGGCGAGGCGTTTGGC 61.196 66.667 0.00 0.00 42.51 4.52
62 63 2.111043 GCCATTGCCTAGCGCCTA 59.889 61.111 2.29 0.00 36.24 3.93
63 64 1.963338 GCCATTGCCTAGCGCCTAG 60.963 63.158 2.29 5.30 36.24 3.02
75 76 2.589159 GCCTAGGCGTGCCTAAGC 60.589 66.667 21.97 21.97 46.84 3.09
76 77 2.279517 CCTAGGCGTGCCTAAGCG 60.280 66.667 20.38 9.85 46.84 4.68
77 78 2.494918 CTAGGCGTGCCTAAGCGT 59.505 61.111 20.38 0.00 46.84 5.07
78 79 1.589196 CTAGGCGTGCCTAAGCGTC 60.589 63.158 20.38 0.00 46.84 5.19
79 80 2.005960 CTAGGCGTGCCTAAGCGTCT 62.006 60.000 20.38 0.00 46.84 4.18
80 81 2.001361 TAGGCGTGCCTAAGCGTCTC 62.001 60.000 18.00 0.00 46.14 3.36
81 82 2.886124 GCGTGCCTAAGCGTCTCC 60.886 66.667 0.00 0.00 44.31 3.71
82 83 2.885861 CGTGCCTAAGCGTCTCCT 59.114 61.111 0.00 0.00 44.31 3.69
83 84 2.001361 GCGTGCCTAAGCGTCTCCTA 62.001 60.000 0.00 0.00 44.31 2.94
84 85 0.029567 CGTGCCTAAGCGTCTCCTAG 59.970 60.000 0.00 0.00 44.31 3.02
85 86 1.390565 GTGCCTAAGCGTCTCCTAGA 58.609 55.000 0.00 0.00 44.31 2.43
86 87 1.065851 GTGCCTAAGCGTCTCCTAGAC 59.934 57.143 0.00 0.00 44.31 2.59
87 88 1.340697 TGCCTAAGCGTCTCCTAGACA 60.341 52.381 7.75 0.00 45.30 3.41
88 89 1.065851 GCCTAAGCGTCTCCTAGACAC 59.934 57.143 7.75 0.00 45.30 3.67
89 90 2.645802 CCTAAGCGTCTCCTAGACACT 58.354 52.381 7.75 0.16 45.30 3.55
90 91 2.356382 CCTAAGCGTCTCCTAGACACTG 59.644 54.545 7.75 0.00 45.30 3.66
91 92 0.528470 AAGCGTCTCCTAGACACTGC 59.472 55.000 7.75 3.21 45.30 4.40
92 93 1.139947 GCGTCTCCTAGACACTGCC 59.860 63.158 7.75 0.00 45.30 4.85
93 94 1.316706 GCGTCTCCTAGACACTGCCT 61.317 60.000 7.75 0.00 45.30 4.75
94 95 1.178276 CGTCTCCTAGACACTGCCTT 58.822 55.000 7.75 0.00 45.30 4.35
95 96 1.133407 CGTCTCCTAGACACTGCCTTC 59.867 57.143 7.75 0.00 45.30 3.46
96 97 2.452505 GTCTCCTAGACACTGCCTTCT 58.547 52.381 2.22 0.00 44.45 2.85
97 98 2.425668 GTCTCCTAGACACTGCCTTCTC 59.574 54.545 2.22 0.00 44.45 2.87
98 99 1.754226 CTCCTAGACACTGCCTTCTCC 59.246 57.143 0.00 0.00 0.00 3.71
99 100 1.077169 TCCTAGACACTGCCTTCTCCA 59.923 52.381 0.00 0.00 0.00 3.86
100 101 1.902508 CCTAGACACTGCCTTCTCCAA 59.097 52.381 0.00 0.00 0.00 3.53
101 102 2.354203 CCTAGACACTGCCTTCTCCAAC 60.354 54.545 0.00 0.00 0.00 3.77
102 103 0.034059 AGACACTGCCTTCTCCAACG 59.966 55.000 0.00 0.00 0.00 4.10
103 104 0.951040 GACACTGCCTTCTCCAACGG 60.951 60.000 0.00 0.00 0.00 4.44
104 105 1.371183 CACTGCCTTCTCCAACGGA 59.629 57.895 0.00 0.00 0.00 4.69
117 118 4.929819 TCCAACGGAGATAATCATCGAA 57.070 40.909 0.00 0.00 36.20 3.71
118 119 5.468540 TCCAACGGAGATAATCATCGAAT 57.531 39.130 0.00 0.00 36.20 3.34
119 120 6.584185 TCCAACGGAGATAATCATCGAATA 57.416 37.500 0.00 0.00 36.20 1.75
120 121 6.387465 TCCAACGGAGATAATCATCGAATAC 58.613 40.000 0.00 0.00 36.20 1.89
121 122 6.015772 TCCAACGGAGATAATCATCGAATACA 60.016 38.462 0.00 0.00 36.20 2.29
122 123 6.645003 CCAACGGAGATAATCATCGAATACAA 59.355 38.462 0.00 0.00 36.20 2.41
123 124 7.331934 CCAACGGAGATAATCATCGAATACAAT 59.668 37.037 0.00 0.00 36.20 2.71
124 125 9.353999 CAACGGAGATAATCATCGAATACAATA 57.646 33.333 0.00 0.00 36.20 1.90
125 126 8.912787 ACGGAGATAATCATCGAATACAATAC 57.087 34.615 0.00 0.00 36.20 1.89
126 127 8.520351 ACGGAGATAATCATCGAATACAATACA 58.480 33.333 0.00 0.00 36.20 2.29
127 128 8.799091 CGGAGATAATCATCGAATACAATACAC 58.201 37.037 0.00 0.00 36.20 2.90
128 129 9.862371 GGAGATAATCATCGAATACAATACACT 57.138 33.333 0.00 0.00 36.20 3.55
134 135 9.764363 AATCATCGAATACAATACACTGTATGT 57.236 29.630 2.31 6.12 40.79 2.29
149 150 8.268850 ACACTGTATGTATTTTGTCTCCATTC 57.731 34.615 0.00 0.00 40.88 2.67
150 151 8.103305 ACACTGTATGTATTTTGTCTCCATTCT 58.897 33.333 0.00 0.00 40.88 2.40
151 152 8.607459 CACTGTATGTATTTTGTCTCCATTCTC 58.393 37.037 0.00 0.00 0.00 2.87
152 153 8.321353 ACTGTATGTATTTTGTCTCCATTCTCA 58.679 33.333 0.00 0.00 0.00 3.27
153 154 9.334947 CTGTATGTATTTTGTCTCCATTCTCAT 57.665 33.333 0.00 0.00 0.00 2.90
154 155 9.330063 TGTATGTATTTTGTCTCCATTCTCATC 57.670 33.333 0.00 0.00 0.00 2.92
155 156 7.814264 ATGTATTTTGTCTCCATTCTCATCC 57.186 36.000 0.00 0.00 0.00 3.51
156 157 6.962182 TGTATTTTGTCTCCATTCTCATCCT 58.038 36.000 0.00 0.00 0.00 3.24
157 158 7.050377 TGTATTTTGTCTCCATTCTCATCCTC 58.950 38.462 0.00 0.00 0.00 3.71
158 159 3.808466 TTGTCTCCATTCTCATCCTCG 57.192 47.619 0.00 0.00 0.00 4.63
159 160 3.018423 TGTCTCCATTCTCATCCTCGA 57.982 47.619 0.00 0.00 0.00 4.04
160 161 3.365472 TGTCTCCATTCTCATCCTCGAA 58.635 45.455 0.00 0.00 0.00 3.71
161 162 3.963374 TGTCTCCATTCTCATCCTCGAAT 59.037 43.478 0.00 0.00 0.00 3.34
162 163 4.406972 TGTCTCCATTCTCATCCTCGAATT 59.593 41.667 0.00 0.00 0.00 2.17
163 164 5.104776 TGTCTCCATTCTCATCCTCGAATTT 60.105 40.000 0.00 0.00 0.00 1.82
164 165 5.465056 GTCTCCATTCTCATCCTCGAATTTC 59.535 44.000 0.00 0.00 0.00 2.17
165 166 5.129320 TCTCCATTCTCATCCTCGAATTTCA 59.871 40.000 0.00 0.00 0.00 2.69
166 167 5.118990 TCCATTCTCATCCTCGAATTTCAC 58.881 41.667 0.00 0.00 0.00 3.18
167 168 4.877823 CCATTCTCATCCTCGAATTTCACA 59.122 41.667 0.00 0.00 0.00 3.58
168 169 5.220739 CCATTCTCATCCTCGAATTTCACAC 60.221 44.000 0.00 0.00 0.00 3.82
169 170 4.535526 TCTCATCCTCGAATTTCACACA 57.464 40.909 0.00 0.00 0.00 3.72
170 171 4.893608 TCTCATCCTCGAATTTCACACAA 58.106 39.130 0.00 0.00 0.00 3.33
171 172 5.491070 TCTCATCCTCGAATTTCACACAAT 58.509 37.500 0.00 0.00 0.00 2.71
172 173 5.582269 TCTCATCCTCGAATTTCACACAATC 59.418 40.000 0.00 0.00 0.00 2.67
173 174 5.244755 TCATCCTCGAATTTCACACAATCA 58.755 37.500 0.00 0.00 0.00 2.57
174 175 5.704978 TCATCCTCGAATTTCACACAATCAA 59.295 36.000 0.00 0.00 0.00 2.57
175 176 6.206438 TCATCCTCGAATTTCACACAATCAAA 59.794 34.615 0.00 0.00 0.00 2.69
176 177 6.573664 TCCTCGAATTTCACACAATCAAAT 57.426 33.333 0.00 0.00 0.00 2.32
177 178 6.611381 TCCTCGAATTTCACACAATCAAATC 58.389 36.000 0.00 0.00 0.00 2.17
178 179 6.430925 TCCTCGAATTTCACACAATCAAATCT 59.569 34.615 0.00 0.00 0.00 2.40
179 180 7.040478 TCCTCGAATTTCACACAATCAAATCTT 60.040 33.333 0.00 0.00 0.00 2.40
180 181 8.236586 CCTCGAATTTCACACAATCAAATCTTA 58.763 33.333 0.00 0.00 0.00 2.10
181 182 8.948853 TCGAATTTCACACAATCAAATCTTAC 57.051 30.769 0.00 0.00 0.00 2.34
182 183 8.563732 TCGAATTTCACACAATCAAATCTTACA 58.436 29.630 0.00 0.00 0.00 2.41
183 184 9.179552 CGAATTTCACACAATCAAATCTTACAA 57.820 29.630 0.00 0.00 0.00 2.41
213 214 8.483307 AATAGATTGCAATCAATTTCCACAAC 57.517 30.769 34.59 9.59 42.60 3.32
214 215 5.856156 AGATTGCAATCAATTTCCACAACA 58.144 33.333 34.59 0.00 42.60 3.33
215 216 6.289834 AGATTGCAATCAATTTCCACAACAA 58.710 32.000 34.59 0.00 42.60 2.83
216 217 5.731599 TTGCAATCAATTTCCACAACAAC 57.268 34.783 0.00 0.00 0.00 3.32
217 218 4.763073 TGCAATCAATTTCCACAACAACA 58.237 34.783 0.00 0.00 0.00 3.33
218 219 5.366460 TGCAATCAATTTCCACAACAACAT 58.634 33.333 0.00 0.00 0.00 2.71
219 220 5.236695 TGCAATCAATTTCCACAACAACATG 59.763 36.000 0.00 0.00 0.00 3.21
220 221 5.236911 GCAATCAATTTCCACAACAACATGT 59.763 36.000 0.00 0.00 0.00 3.21
238 239 9.836864 ACAACATGTGAGATATTATTTAGCTCA 57.163 29.630 0.00 0.00 33.58 4.26
253 254 9.547753 TTATTTAGCTCATGTAGTTCTCCAATC 57.452 33.333 0.00 0.00 0.00 2.67
254 255 4.414337 AGCTCATGTAGTTCTCCAATCC 57.586 45.455 0.00 0.00 0.00 3.01
255 256 4.036518 AGCTCATGTAGTTCTCCAATCCT 58.963 43.478 0.00 0.00 0.00 3.24
256 257 5.211973 AGCTCATGTAGTTCTCCAATCCTA 58.788 41.667 0.00 0.00 0.00 2.94
257 258 5.843421 AGCTCATGTAGTTCTCCAATCCTAT 59.157 40.000 0.00 0.00 0.00 2.57
258 259 5.931146 GCTCATGTAGTTCTCCAATCCTATG 59.069 44.000 0.00 0.00 0.00 2.23
259 260 6.239430 GCTCATGTAGTTCTCCAATCCTATGA 60.239 42.308 0.00 0.00 0.00 2.15
260 261 7.526860 GCTCATGTAGTTCTCCAATCCTATGAT 60.527 40.741 0.00 0.00 0.00 2.45
261 262 7.901029 TCATGTAGTTCTCCAATCCTATGATC 58.099 38.462 0.00 0.00 0.00 2.92
262 263 6.332735 TGTAGTTCTCCAATCCTATGATCG 57.667 41.667 0.00 0.00 0.00 3.69
263 264 6.068670 TGTAGTTCTCCAATCCTATGATCGA 58.931 40.000 0.00 0.00 0.00 3.59
264 265 6.549736 TGTAGTTCTCCAATCCTATGATCGAA 59.450 38.462 0.00 0.00 0.00 3.71
265 266 6.095432 AGTTCTCCAATCCTATGATCGAAG 57.905 41.667 0.00 0.00 0.00 3.79
266 267 5.835819 AGTTCTCCAATCCTATGATCGAAGA 59.164 40.000 0.00 0.00 45.75 2.87
267 268 5.973899 TCTCCAATCCTATGATCGAAGAG 57.026 43.478 0.00 0.00 43.63 2.85
268 269 4.769488 TCTCCAATCCTATGATCGAAGAGG 59.231 45.833 0.00 0.00 43.63 3.69
269 270 3.259374 TCCAATCCTATGATCGAAGAGGC 59.741 47.826 0.00 0.00 43.63 4.70
270 271 3.594134 CAATCCTATGATCGAAGAGGCC 58.406 50.000 0.00 0.00 43.63 5.19
271 272 1.633774 TCCTATGATCGAAGAGGCCC 58.366 55.000 0.00 0.00 43.63 5.80
272 273 1.148027 TCCTATGATCGAAGAGGCCCT 59.852 52.381 0.00 0.00 43.63 5.19
273 274 1.974236 CCTATGATCGAAGAGGCCCTT 59.026 52.381 0.00 1.90 43.63 3.95
274 275 3.165875 CCTATGATCGAAGAGGCCCTTA 58.834 50.000 0.00 0.00 43.63 2.69
275 276 3.194542 CCTATGATCGAAGAGGCCCTTAG 59.805 52.174 0.00 3.32 43.63 2.18
276 277 2.454336 TGATCGAAGAGGCCCTTAGA 57.546 50.000 15.45 15.45 43.63 2.10
277 278 2.311463 TGATCGAAGAGGCCCTTAGAG 58.689 52.381 17.20 8.89 43.63 2.43
278 279 2.312390 GATCGAAGAGGCCCTTAGAGT 58.688 52.381 17.20 9.24 43.63 3.24
279 280 1.475403 TCGAAGAGGCCCTTAGAGTG 58.525 55.000 0.00 0.00 34.68 3.51
280 281 0.461961 CGAAGAGGCCCTTAGAGTGG 59.538 60.000 0.00 0.00 34.68 4.00
286 287 4.913126 CCCTTAGAGTGGCACGTC 57.087 61.111 12.71 10.20 0.00 4.34
287 288 1.218316 CCCTTAGAGTGGCACGTCC 59.782 63.158 12.71 5.81 0.00 4.79
288 289 1.258445 CCCTTAGAGTGGCACGTCCT 61.258 60.000 12.71 12.93 35.26 3.85
289 290 0.173708 CCTTAGAGTGGCACGTCCTC 59.826 60.000 12.71 4.12 35.26 3.71
290 291 1.178276 CTTAGAGTGGCACGTCCTCT 58.822 55.000 12.71 11.88 41.14 3.69
291 292 1.546476 CTTAGAGTGGCACGTCCTCTT 59.454 52.381 12.71 0.00 38.71 2.85
292 293 0.888619 TAGAGTGGCACGTCCTCTTG 59.111 55.000 12.71 0.00 38.71 3.02
293 294 0.827925 AGAGTGGCACGTCCTCTTGA 60.828 55.000 12.71 0.00 38.71 3.02
294 295 0.247736 GAGTGGCACGTCCTCTTGAT 59.752 55.000 12.71 0.00 38.71 2.57
295 296 0.036952 AGTGGCACGTCCTCTTGATG 60.037 55.000 12.71 0.00 35.22 3.07
296 297 1.021390 GTGGCACGTCCTCTTGATGG 61.021 60.000 0.00 0.00 34.03 3.51
297 298 1.191489 TGGCACGTCCTCTTGATGGA 61.191 55.000 5.77 0.00 34.03 3.41
298 299 0.036388 GGCACGTCCTCTTGATGGAA 60.036 55.000 0.00 0.00 35.10 3.53
299 300 1.407437 GGCACGTCCTCTTGATGGAAT 60.407 52.381 0.00 0.00 35.10 3.01
300 301 1.667724 GCACGTCCTCTTGATGGAATG 59.332 52.381 0.00 0.00 35.10 2.67
301 302 2.936993 GCACGTCCTCTTGATGGAATGT 60.937 50.000 0.00 0.00 35.10 2.71
302 303 2.932614 CACGTCCTCTTGATGGAATGTC 59.067 50.000 0.00 0.00 35.10 3.06
303 304 2.567169 ACGTCCTCTTGATGGAATGTCA 59.433 45.455 0.00 0.00 35.10 3.58
304 305 3.198635 ACGTCCTCTTGATGGAATGTCAT 59.801 43.478 0.00 0.00 35.10 3.06
305 306 3.558829 CGTCCTCTTGATGGAATGTCATG 59.441 47.826 0.00 0.00 35.10 3.07
306 307 4.521146 GTCCTCTTGATGGAATGTCATGT 58.479 43.478 0.00 0.00 35.10 3.21
307 308 5.674525 GTCCTCTTGATGGAATGTCATGTA 58.325 41.667 0.00 0.00 35.10 2.29
308 309 5.525378 GTCCTCTTGATGGAATGTCATGTAC 59.475 44.000 0.00 0.00 35.10 2.90
309 310 5.426509 TCCTCTTGATGGAATGTCATGTACT 59.573 40.000 0.00 0.00 0.00 2.73
310 311 5.757320 CCTCTTGATGGAATGTCATGTACTC 59.243 44.000 0.00 0.00 0.00 2.59
311 312 5.674525 TCTTGATGGAATGTCATGTACTCC 58.325 41.667 0.00 0.00 0.00 3.85
312 313 4.422073 TGATGGAATGTCATGTACTCCC 57.578 45.455 0.00 0.00 0.00 4.30
313 314 4.040047 TGATGGAATGTCATGTACTCCCT 58.960 43.478 0.00 0.00 0.00 4.20
314 315 4.474651 TGATGGAATGTCATGTACTCCCTT 59.525 41.667 0.00 0.00 0.00 3.95
315 316 4.927267 TGGAATGTCATGTACTCCCTTT 57.073 40.909 0.00 0.00 0.00 3.11
316 317 4.588899 TGGAATGTCATGTACTCCCTTTG 58.411 43.478 0.00 0.00 0.00 2.77
317 318 4.042809 TGGAATGTCATGTACTCCCTTTGT 59.957 41.667 0.00 0.00 0.00 2.83
318 319 5.010282 GGAATGTCATGTACTCCCTTTGTT 58.990 41.667 0.00 0.00 0.00 2.83
319 320 5.476945 GGAATGTCATGTACTCCCTTTGTTT 59.523 40.000 0.00 0.00 0.00 2.83
320 321 6.349363 GGAATGTCATGTACTCCCTTTGTTTC 60.349 42.308 0.00 0.00 0.00 2.78
321 322 5.042463 TGTCATGTACTCCCTTTGTTTCA 57.958 39.130 0.00 0.00 0.00 2.69
322 323 5.630121 TGTCATGTACTCCCTTTGTTTCAT 58.370 37.500 0.00 0.00 0.00 2.57
323 324 6.774673 TGTCATGTACTCCCTTTGTTTCATA 58.225 36.000 0.00 0.00 0.00 2.15
324 325 7.227873 TGTCATGTACTCCCTTTGTTTCATAA 58.772 34.615 0.00 0.00 0.00 1.90
325 326 7.174253 TGTCATGTACTCCCTTTGTTTCATAAC 59.826 37.037 0.00 0.00 34.75 1.89
326 327 6.370442 TCATGTACTCCCTTTGTTTCATAACG 59.630 38.462 0.00 0.00 37.06 3.18
327 328 5.613329 TGTACTCCCTTTGTTTCATAACGT 58.387 37.500 0.00 0.00 37.06 3.99
328 329 6.757237 TGTACTCCCTTTGTTTCATAACGTA 58.243 36.000 0.00 0.00 37.06 3.57
329 330 7.215789 TGTACTCCCTTTGTTTCATAACGTAA 58.784 34.615 0.00 0.00 37.06 3.18
331 332 6.527423 ACTCCCTTTGTTTCATAACGTAAGA 58.473 36.000 0.00 0.00 43.62 2.10
332 333 6.426025 ACTCCCTTTGTTTCATAACGTAAGAC 59.574 38.462 0.00 0.00 43.62 3.01
333 334 6.289834 TCCCTTTGTTTCATAACGTAAGACA 58.710 36.000 0.00 0.00 43.62 3.41
334 335 6.938030 TCCCTTTGTTTCATAACGTAAGACAT 59.062 34.615 0.00 0.00 43.62 3.06
335 336 7.446013 TCCCTTTGTTTCATAACGTAAGACATT 59.554 33.333 0.00 0.00 43.62 2.71
336 337 8.079809 CCCTTTGTTTCATAACGTAAGACATTT 58.920 33.333 0.00 0.00 43.62 2.32
337 338 9.458374 CCTTTGTTTCATAACGTAAGACATTTT 57.542 29.630 0.00 0.00 43.62 1.82
353 354 3.322514 TTTTTGACAGAGCGGAGGG 57.677 52.632 0.00 0.00 0.00 4.30
354 355 0.762418 TTTTTGACAGAGCGGAGGGA 59.238 50.000 0.00 0.00 0.00 4.20
355 356 0.321671 TTTTGACAGAGCGGAGGGAG 59.678 55.000 0.00 0.00 0.00 4.30
356 357 0.832135 TTTGACAGAGCGGAGGGAGT 60.832 55.000 0.00 0.00 0.00 3.85
357 358 0.039180 TTGACAGAGCGGAGGGAGTA 59.961 55.000 0.00 0.00 0.00 2.59
358 359 0.394488 TGACAGAGCGGAGGGAGTAG 60.394 60.000 0.00 0.00 0.00 2.57
359 360 0.394625 GACAGAGCGGAGGGAGTAGT 60.395 60.000 0.00 0.00 0.00 2.73
360 361 0.039911 ACAGAGCGGAGGGAGTAGTT 59.960 55.000 0.00 0.00 0.00 2.24
361 362 1.284198 ACAGAGCGGAGGGAGTAGTTA 59.716 52.381 0.00 0.00 0.00 2.24
362 363 2.091775 ACAGAGCGGAGGGAGTAGTTAT 60.092 50.000 0.00 0.00 0.00 1.89
363 364 2.959707 CAGAGCGGAGGGAGTAGTTATT 59.040 50.000 0.00 0.00 0.00 1.40
364 365 4.142790 CAGAGCGGAGGGAGTAGTTATTA 58.857 47.826 0.00 0.00 0.00 0.98
388 389 9.563898 TTATATGTGTTTACGTACAGTCTTGAG 57.436 33.333 0.00 0.00 31.44 3.02
389 390 5.252969 TGTGTTTACGTACAGTCTTGAGT 57.747 39.130 0.00 0.00 0.00 3.41
390 391 6.375945 TGTGTTTACGTACAGTCTTGAGTA 57.624 37.500 0.00 0.00 0.00 2.59
391 392 6.432936 TGTGTTTACGTACAGTCTTGAGTAG 58.567 40.000 0.00 0.00 0.00 2.57
416 417 9.872721 AGTATATTGCATCTCATGATAAGACTG 57.127 33.333 0.00 0.00 0.00 3.51
424 425 8.283992 GCATCTCATGATAAGACTGAAAATGAG 58.716 37.037 0.00 8.10 40.44 2.90
469 470 1.606668 TGTGCGAAACTTGATTGTCCC 59.393 47.619 0.00 0.00 0.00 4.46
671 940 3.056821 CCAATCATTCCAGCATATGCCAG 60.057 47.826 23.96 16.37 43.38 4.85
681 974 0.179076 CATATGCCAGGCTCGTGACA 60.179 55.000 14.15 0.00 0.00 3.58
755 1080 1.303155 GCATGCTCTGATAGGCCCC 60.303 63.158 11.37 0.00 0.00 5.80
802 1128 1.153489 CGATGTGGCCACTCCTCTG 60.153 63.158 34.75 19.22 35.26 3.35
911 1623 1.595466 CAGCCCATTCTCTGCATCTC 58.405 55.000 0.00 0.00 0.00 2.75
912 1624 1.141254 CAGCCCATTCTCTGCATCTCT 59.859 52.381 0.00 0.00 0.00 3.10
913 1625 1.417145 AGCCCATTCTCTGCATCTCTC 59.583 52.381 0.00 0.00 0.00 3.20
1110 1875 0.537188 TCTTCCCCTCAACGATGCTC 59.463 55.000 0.00 0.00 0.00 4.26
1116 1881 2.358957 CCCTCAACGATGCTCAATTGA 58.641 47.619 8.12 8.12 0.00 2.57
1126 1891 4.604976 GATGCTCAATTGATTACTGTGGC 58.395 43.478 8.96 6.84 0.00 5.01
1169 1938 3.912907 GATGGGGACGCCGACGAT 61.913 66.667 0.00 0.00 43.93 3.73
1175 1944 3.255379 GACGCCGACGATGAAGGC 61.255 66.667 0.00 0.00 46.88 4.35
1222 1991 4.181051 GCCACAAGTTCAAGGGCT 57.819 55.556 0.00 0.00 41.39 5.19
1224 1993 0.823356 GCCACAAGTTCAAGGGCTCA 60.823 55.000 0.00 0.00 41.39 4.26
1347 2122 3.333219 TGCTAGCTGGCCCTGCTT 61.333 61.111 20.85 5.22 39.30 3.91
1376 2152 2.277692 CGCCGCGACGTCTTATGA 60.278 61.111 14.70 0.00 0.00 2.15
1585 2361 0.760189 ACTGTGGCAAAGGCAATGGT 60.760 50.000 9.97 0.00 43.71 3.55
1646 2423 8.485976 AATAACTTGATCTGTAGTTGCTTCTC 57.514 34.615 14.60 0.00 36.16 2.87
1699 2476 2.940410 ACTTCAATGTGTTTCGTTCGGT 59.060 40.909 0.00 0.00 0.00 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.548510 AATGAAGGTCTAGGCAGGGC 59.451 55.000 0.00 0.00 0.00 5.19
4 5 4.141390 ACATAAATGAAGGTCTAGGCAGGG 60.141 45.833 0.00 0.00 0.00 4.45
5 6 5.041191 ACATAAATGAAGGTCTAGGCAGG 57.959 43.478 0.00 0.00 0.00 4.85
6 7 5.059833 GGACATAAATGAAGGTCTAGGCAG 58.940 45.833 0.00 0.00 0.00 4.85
7 8 4.721776 AGGACATAAATGAAGGTCTAGGCA 59.278 41.667 0.00 0.00 0.00 4.75
9 10 6.519213 GCCTAGGACATAAATGAAGGTCTAGG 60.519 46.154 14.75 0.00 35.98 3.02
10 11 6.459923 GCCTAGGACATAAATGAAGGTCTAG 58.540 44.000 14.75 0.00 0.00 2.43
11 12 5.010719 CGCCTAGGACATAAATGAAGGTCTA 59.989 44.000 14.75 0.00 0.00 2.59
12 13 4.202264 CGCCTAGGACATAAATGAAGGTCT 60.202 45.833 14.75 0.00 0.00 3.85
13 14 4.058817 CGCCTAGGACATAAATGAAGGTC 58.941 47.826 14.75 0.00 0.00 3.85
14 15 3.709653 TCGCCTAGGACATAAATGAAGGT 59.290 43.478 14.75 0.00 0.00 3.50
15 16 4.310769 CTCGCCTAGGACATAAATGAAGG 58.689 47.826 14.75 0.15 0.00 3.46
29 30 3.195698 GCCAAACGCCTCGCCTAG 61.196 66.667 0.00 0.00 0.00 3.02
45 46 1.963338 CTAGGCGCTAGGCAATGGC 60.963 63.158 7.64 0.00 46.16 4.40
46 47 1.302033 CCTAGGCGCTAGGCAATGG 60.302 63.158 16.56 2.27 45.64 3.16
47 48 4.368391 CCTAGGCGCTAGGCAATG 57.632 61.111 16.56 0.00 45.64 2.82
61 62 2.001361 GAGACGCTTAGGCACGCCTA 62.001 60.000 13.86 13.86 46.14 3.93
63 64 2.886124 GAGACGCTTAGGCACGCC 60.886 66.667 0.00 0.00 38.60 5.68
64 65 2.001361 TAGGAGACGCTTAGGCACGC 62.001 60.000 0.00 0.00 38.60 5.34
65 66 0.029567 CTAGGAGACGCTTAGGCACG 59.970 60.000 0.00 0.00 38.60 5.34
66 67 1.065851 GTCTAGGAGACGCTTAGGCAC 59.934 57.143 0.00 0.00 35.28 5.01
67 68 1.390565 GTCTAGGAGACGCTTAGGCA 58.609 55.000 0.00 0.00 35.28 4.75
76 77 2.425668 GAGAAGGCAGTGTCTAGGAGAC 59.574 54.545 0.00 0.00 45.26 3.36
77 78 2.621929 GGAGAAGGCAGTGTCTAGGAGA 60.622 54.545 0.00 0.00 0.00 3.71
78 79 1.754226 GGAGAAGGCAGTGTCTAGGAG 59.246 57.143 0.00 0.00 0.00 3.69
79 80 1.077169 TGGAGAAGGCAGTGTCTAGGA 59.923 52.381 0.00 0.00 0.00 2.94
80 81 1.561643 TGGAGAAGGCAGTGTCTAGG 58.438 55.000 0.00 0.00 0.00 3.02
81 82 2.672478 CGTTGGAGAAGGCAGTGTCTAG 60.672 54.545 0.00 0.00 0.00 2.43
82 83 1.272490 CGTTGGAGAAGGCAGTGTCTA 59.728 52.381 0.00 0.00 0.00 2.59
83 84 0.034059 CGTTGGAGAAGGCAGTGTCT 59.966 55.000 0.00 0.00 0.00 3.41
84 85 0.951040 CCGTTGGAGAAGGCAGTGTC 60.951 60.000 0.00 0.00 0.00 3.67
85 86 1.071471 CCGTTGGAGAAGGCAGTGT 59.929 57.895 0.00 0.00 0.00 3.55
86 87 1.371183 TCCGTTGGAGAAGGCAGTG 59.629 57.895 0.00 0.00 0.00 3.66
87 88 3.885814 TCCGTTGGAGAAGGCAGT 58.114 55.556 0.00 0.00 0.00 4.40
96 97 4.929819 TTCGATGATTATCTCCGTTGGA 57.070 40.909 0.00 0.00 0.00 3.53
97 98 6.156519 TGTATTCGATGATTATCTCCGTTGG 58.843 40.000 0.00 0.00 0.00 3.77
98 99 7.637709 TTGTATTCGATGATTATCTCCGTTG 57.362 36.000 0.00 0.00 0.00 4.10
99 100 9.355215 GTATTGTATTCGATGATTATCTCCGTT 57.645 33.333 0.00 0.00 0.00 4.44
100 101 8.520351 TGTATTGTATTCGATGATTATCTCCGT 58.480 33.333 0.00 0.00 0.00 4.69
101 102 8.799091 GTGTATTGTATTCGATGATTATCTCCG 58.201 37.037 0.00 0.00 0.00 4.63
102 103 9.862371 AGTGTATTGTATTCGATGATTATCTCC 57.138 33.333 0.00 0.00 0.00 3.71
108 109 9.764363 ACATACAGTGTATTGTATTCGATGATT 57.236 29.630 13.25 0.00 41.17 2.57
140 141 4.599047 ATTCGAGGATGAGAATGGAGAC 57.401 45.455 0.00 0.00 35.93 3.36
141 142 5.129320 TGAAATTCGAGGATGAGAATGGAGA 59.871 40.000 0.00 0.00 37.19 3.71
142 143 5.236047 GTGAAATTCGAGGATGAGAATGGAG 59.764 44.000 0.00 0.00 37.19 3.86
143 144 5.118990 GTGAAATTCGAGGATGAGAATGGA 58.881 41.667 0.00 0.00 37.19 3.41
144 145 4.877823 TGTGAAATTCGAGGATGAGAATGG 59.122 41.667 0.00 0.00 37.19 3.16
145 146 5.352293 TGTGTGAAATTCGAGGATGAGAATG 59.648 40.000 0.00 0.00 37.19 2.67
146 147 5.491070 TGTGTGAAATTCGAGGATGAGAAT 58.509 37.500 0.00 0.00 38.58 2.40
147 148 4.893608 TGTGTGAAATTCGAGGATGAGAA 58.106 39.130 0.00 0.00 0.00 2.87
148 149 4.535526 TGTGTGAAATTCGAGGATGAGA 57.464 40.909 0.00 0.00 0.00 3.27
149 150 5.352293 TGATTGTGTGAAATTCGAGGATGAG 59.648 40.000 0.00 0.00 0.00 2.90
150 151 5.244755 TGATTGTGTGAAATTCGAGGATGA 58.755 37.500 0.00 0.00 0.00 2.92
151 152 5.550232 TGATTGTGTGAAATTCGAGGATG 57.450 39.130 0.00 0.00 0.00 3.51
152 153 6.573664 TTTGATTGTGTGAAATTCGAGGAT 57.426 33.333 0.00 0.00 0.00 3.24
153 154 6.430925 AGATTTGATTGTGTGAAATTCGAGGA 59.569 34.615 0.00 0.00 0.00 3.71
154 155 6.615088 AGATTTGATTGTGTGAAATTCGAGG 58.385 36.000 0.00 0.00 0.00 4.63
155 156 9.055248 GTAAGATTTGATTGTGTGAAATTCGAG 57.945 33.333 0.00 0.00 0.00 4.04
156 157 8.563732 TGTAAGATTTGATTGTGTGAAATTCGA 58.436 29.630 0.00 0.00 0.00 3.71
157 158 8.726650 TGTAAGATTTGATTGTGTGAAATTCG 57.273 30.769 0.00 0.00 0.00 3.34
187 188 9.585099 GTTGTGGAAATTGATTGCAATCTATTA 57.415 29.630 34.00 22.91 43.71 0.98
188 189 8.095792 TGTTGTGGAAATTGATTGCAATCTATT 58.904 29.630 30.84 30.84 43.71 1.73
189 190 7.613585 TGTTGTGGAAATTGATTGCAATCTAT 58.386 30.769 33.23 28.94 43.71 1.98
190 191 6.990798 TGTTGTGGAAATTGATTGCAATCTA 58.009 32.000 33.23 28.15 43.71 1.98
191 192 5.856156 TGTTGTGGAAATTGATTGCAATCT 58.144 33.333 33.23 17.94 43.71 2.40
192 193 6.018098 TGTTGTTGTGGAAATTGATTGCAATC 60.018 34.615 28.83 28.83 43.71 2.67
193 194 5.821470 TGTTGTTGTGGAAATTGATTGCAAT 59.179 32.000 12.83 12.83 46.35 3.56
194 195 5.181009 TGTTGTTGTGGAAATTGATTGCAA 58.819 33.333 0.00 0.00 41.36 4.08
195 196 4.763073 TGTTGTTGTGGAAATTGATTGCA 58.237 34.783 0.00 0.00 36.98 4.08
196 197 5.236911 ACATGTTGTTGTGGAAATTGATTGC 59.763 36.000 0.00 0.00 0.00 3.56
197 198 6.479331 TCACATGTTGTTGTGGAAATTGATTG 59.521 34.615 0.00 0.00 45.63 2.67
198 199 6.580788 TCACATGTTGTTGTGGAAATTGATT 58.419 32.000 0.00 0.00 45.63 2.57
199 200 6.040729 TCTCACATGTTGTTGTGGAAATTGAT 59.959 34.615 0.00 0.00 45.63 2.57
200 201 5.359292 TCTCACATGTTGTTGTGGAAATTGA 59.641 36.000 0.00 0.00 45.63 2.57
201 202 5.590145 TCTCACATGTTGTTGTGGAAATTG 58.410 37.500 0.00 0.00 45.63 2.32
202 203 5.850557 TCTCACATGTTGTTGTGGAAATT 57.149 34.783 0.00 0.00 45.63 1.82
203 204 7.707624 ATATCTCACATGTTGTTGTGGAAAT 57.292 32.000 0.00 0.44 45.63 2.17
204 205 7.523293 AATATCTCACATGTTGTTGTGGAAA 57.477 32.000 0.00 0.00 45.63 3.13
205 206 8.806429 ATAATATCTCACATGTTGTTGTGGAA 57.194 30.769 0.00 0.00 45.63 3.53
206 207 8.806429 AATAATATCTCACATGTTGTTGTGGA 57.194 30.769 0.00 2.45 45.63 4.02
212 213 9.836864 TGAGCTAAATAATATCTCACATGTTGT 57.163 29.630 0.00 0.00 0.00 3.32
227 228 9.547753 GATTGGAGAACTACATGAGCTAAATAA 57.452 33.333 0.00 0.00 0.00 1.40
228 229 8.150945 GGATTGGAGAACTACATGAGCTAAATA 58.849 37.037 0.00 0.00 0.00 1.40
229 230 6.995091 GGATTGGAGAACTACATGAGCTAAAT 59.005 38.462 0.00 0.00 0.00 1.40
230 231 6.156949 AGGATTGGAGAACTACATGAGCTAAA 59.843 38.462 0.00 0.00 0.00 1.85
231 232 5.663106 AGGATTGGAGAACTACATGAGCTAA 59.337 40.000 0.00 0.00 0.00 3.09
232 233 5.211973 AGGATTGGAGAACTACATGAGCTA 58.788 41.667 0.00 0.00 0.00 3.32
233 234 4.036518 AGGATTGGAGAACTACATGAGCT 58.963 43.478 0.00 0.00 0.00 4.09
234 235 4.414337 AGGATTGGAGAACTACATGAGC 57.586 45.455 0.00 0.00 0.00 4.26
235 236 7.295322 TCATAGGATTGGAGAACTACATGAG 57.705 40.000 0.00 0.00 0.00 2.90
236 237 7.309438 CGATCATAGGATTGGAGAACTACATGA 60.309 40.741 0.00 0.00 32.67 3.07
237 238 6.810676 CGATCATAGGATTGGAGAACTACATG 59.189 42.308 0.00 0.00 32.67 3.21
238 239 6.721668 TCGATCATAGGATTGGAGAACTACAT 59.278 38.462 4.82 0.00 35.87 2.29
239 240 6.068670 TCGATCATAGGATTGGAGAACTACA 58.931 40.000 4.82 0.00 35.87 2.74
240 241 6.576662 TCGATCATAGGATTGGAGAACTAC 57.423 41.667 4.82 0.00 35.87 2.73
241 242 7.004691 TCTTCGATCATAGGATTGGAGAACTA 58.995 38.462 12.41 0.00 43.70 2.24
242 243 5.835819 TCTTCGATCATAGGATTGGAGAACT 59.164 40.000 12.41 0.00 43.70 3.01
243 244 6.090483 TCTTCGATCATAGGATTGGAGAAC 57.910 41.667 12.41 0.00 43.70 3.01
244 245 5.244851 CCTCTTCGATCATAGGATTGGAGAA 59.755 44.000 15.06 7.42 45.22 2.87
245 246 4.769488 CCTCTTCGATCATAGGATTGGAGA 59.231 45.833 13.80 13.80 44.22 3.71
246 247 4.620332 GCCTCTTCGATCATAGGATTGGAG 60.620 50.000 6.58 6.58 40.65 3.86
247 248 3.259374 GCCTCTTCGATCATAGGATTGGA 59.741 47.826 4.82 0.00 35.87 3.53
248 249 3.594134 GCCTCTTCGATCATAGGATTGG 58.406 50.000 4.82 0.00 35.87 3.16
249 250 3.594134 GGCCTCTTCGATCATAGGATTG 58.406 50.000 0.00 0.00 36.41 2.67
250 251 2.569404 GGGCCTCTTCGATCATAGGATT 59.431 50.000 0.84 0.00 32.67 3.01
251 252 2.183679 GGGCCTCTTCGATCATAGGAT 58.816 52.381 0.84 0.00 36.13 3.24
252 253 1.148027 AGGGCCTCTTCGATCATAGGA 59.852 52.381 0.00 0.00 0.00 2.94
253 254 1.638529 AGGGCCTCTTCGATCATAGG 58.361 55.000 0.00 0.00 0.00 2.57
254 255 4.082845 TCTAAGGGCCTCTTCGATCATAG 58.917 47.826 6.46 1.11 36.93 2.23
255 256 4.082845 CTCTAAGGGCCTCTTCGATCATA 58.917 47.826 6.46 0.00 36.93 2.15
256 257 2.896685 CTCTAAGGGCCTCTTCGATCAT 59.103 50.000 6.46 0.00 36.93 2.45
257 258 2.311463 CTCTAAGGGCCTCTTCGATCA 58.689 52.381 6.46 0.00 36.93 2.92
258 259 2.035321 CACTCTAAGGGCCTCTTCGATC 59.965 54.545 6.46 0.00 36.93 3.69
259 260 2.035632 CACTCTAAGGGCCTCTTCGAT 58.964 52.381 6.46 0.00 36.93 3.59
260 261 1.475403 CACTCTAAGGGCCTCTTCGA 58.525 55.000 6.46 5.42 36.93 3.71
261 262 0.461961 CCACTCTAAGGGCCTCTTCG 59.538 60.000 6.46 0.75 36.93 3.79
262 263 0.179234 GCCACTCTAAGGGCCTCTTC 59.821 60.000 6.46 0.00 44.53 2.87
263 264 2.302019 GCCACTCTAAGGGCCTCTT 58.698 57.895 6.46 7.24 44.53 2.85
264 265 4.058434 GCCACTCTAAGGGCCTCT 57.942 61.111 6.46 0.00 44.53 3.69
269 270 1.218316 GGACGTGCCACTCTAAGGG 59.782 63.158 0.00 0.00 36.34 3.95
270 271 0.173708 GAGGACGTGCCACTCTAAGG 59.826 60.000 2.38 0.00 40.02 2.69
271 272 1.178276 AGAGGACGTGCCACTCTAAG 58.822 55.000 2.38 0.00 39.65 2.18
272 273 1.272490 CAAGAGGACGTGCCACTCTAA 59.728 52.381 2.38 0.00 40.49 2.10
273 274 0.888619 CAAGAGGACGTGCCACTCTA 59.111 55.000 2.38 0.00 40.49 2.43
274 275 0.827925 TCAAGAGGACGTGCCACTCT 60.828 55.000 2.38 3.15 43.03 3.24
275 276 0.247736 ATCAAGAGGACGTGCCACTC 59.752 55.000 2.38 0.62 36.48 3.51
276 277 0.036952 CATCAAGAGGACGTGCCACT 60.037 55.000 2.38 0.43 39.48 4.00
277 278 1.021390 CCATCAAGAGGACGTGCCAC 61.021 60.000 2.38 0.00 40.02 5.01
278 279 1.191489 TCCATCAAGAGGACGTGCCA 61.191 55.000 2.38 0.00 40.02 4.92
279 280 0.036388 TTCCATCAAGAGGACGTGCC 60.036 55.000 2.38 0.00 34.19 5.01
280 281 1.667724 CATTCCATCAAGAGGACGTGC 59.332 52.381 0.00 0.00 34.19 5.34
281 282 2.932614 GACATTCCATCAAGAGGACGTG 59.067 50.000 0.00 0.00 34.19 4.49
282 283 2.567169 TGACATTCCATCAAGAGGACGT 59.433 45.455 0.00 0.00 34.19 4.34
283 284 3.251479 TGACATTCCATCAAGAGGACG 57.749 47.619 0.00 0.00 34.19 4.79
284 285 4.521146 ACATGACATTCCATCAAGAGGAC 58.479 43.478 0.00 0.00 34.19 3.85
285 286 4.849813 ACATGACATTCCATCAAGAGGA 57.150 40.909 0.00 0.00 0.00 3.71
286 287 5.678583 AGTACATGACATTCCATCAAGAGG 58.321 41.667 0.00 0.00 0.00 3.69
287 288 5.757320 GGAGTACATGACATTCCATCAAGAG 59.243 44.000 0.00 0.00 0.00 2.85
288 289 5.396772 GGGAGTACATGACATTCCATCAAGA 60.397 44.000 0.00 0.00 0.00 3.02
289 290 4.818546 GGGAGTACATGACATTCCATCAAG 59.181 45.833 0.00 0.00 0.00 3.02
290 291 4.474651 AGGGAGTACATGACATTCCATCAA 59.525 41.667 0.00 0.00 0.00 2.57
291 292 4.040047 AGGGAGTACATGACATTCCATCA 58.960 43.478 0.00 0.00 0.00 3.07
292 293 4.696479 AGGGAGTACATGACATTCCATC 57.304 45.455 0.00 0.00 0.00 3.51
293 294 5.195940 CAAAGGGAGTACATGACATTCCAT 58.804 41.667 0.00 0.00 0.00 3.41
294 295 4.042809 ACAAAGGGAGTACATGACATTCCA 59.957 41.667 0.00 0.00 0.00 3.53
295 296 4.589908 ACAAAGGGAGTACATGACATTCC 58.410 43.478 0.00 2.34 0.00 3.01
296 297 6.206634 TGAAACAAAGGGAGTACATGACATTC 59.793 38.462 0.00 0.00 0.00 2.67
297 298 6.068010 TGAAACAAAGGGAGTACATGACATT 58.932 36.000 0.00 0.00 0.00 2.71
298 299 5.630121 TGAAACAAAGGGAGTACATGACAT 58.370 37.500 0.00 0.00 0.00 3.06
299 300 5.042463 TGAAACAAAGGGAGTACATGACA 57.958 39.130 0.00 0.00 0.00 3.58
300 301 7.527457 GTTATGAAACAAAGGGAGTACATGAC 58.473 38.462 0.00 0.00 35.56 3.06
301 302 6.370442 CGTTATGAAACAAAGGGAGTACATGA 59.630 38.462 0.00 0.00 35.16 3.07
302 303 6.148811 ACGTTATGAAACAAAGGGAGTACATG 59.851 38.462 0.00 0.00 35.16 3.21
303 304 6.235664 ACGTTATGAAACAAAGGGAGTACAT 58.764 36.000 0.00 0.00 35.16 2.29
304 305 5.613329 ACGTTATGAAACAAAGGGAGTACA 58.387 37.500 0.00 0.00 35.16 2.90
305 306 7.599998 TCTTACGTTATGAAACAAAGGGAGTAC 59.400 37.037 0.00 0.00 35.16 2.73
306 307 7.599998 GTCTTACGTTATGAAACAAAGGGAGTA 59.400 37.037 0.00 0.00 35.16 2.59
307 308 6.426025 GTCTTACGTTATGAAACAAAGGGAGT 59.574 38.462 0.00 0.00 35.16 3.85
308 309 6.425721 TGTCTTACGTTATGAAACAAAGGGAG 59.574 38.462 0.00 0.00 35.16 4.30
309 310 6.289834 TGTCTTACGTTATGAAACAAAGGGA 58.710 36.000 0.00 0.00 35.16 4.20
310 311 6.548441 TGTCTTACGTTATGAAACAAAGGG 57.452 37.500 0.00 0.00 35.16 3.95
311 312 9.458374 AAAATGTCTTACGTTATGAAACAAAGG 57.542 29.630 0.00 0.00 35.16 3.11
335 336 0.762418 TCCCTCCGCTCTGTCAAAAA 59.238 50.000 0.00 0.00 0.00 1.94
336 337 0.321671 CTCCCTCCGCTCTGTCAAAA 59.678 55.000 0.00 0.00 0.00 2.44
337 338 0.832135 ACTCCCTCCGCTCTGTCAAA 60.832 55.000 0.00 0.00 0.00 2.69
338 339 0.039180 TACTCCCTCCGCTCTGTCAA 59.961 55.000 0.00 0.00 0.00 3.18
339 340 0.394488 CTACTCCCTCCGCTCTGTCA 60.394 60.000 0.00 0.00 0.00 3.58
340 341 0.394625 ACTACTCCCTCCGCTCTGTC 60.395 60.000 0.00 0.00 0.00 3.51
341 342 0.039911 AACTACTCCCTCCGCTCTGT 59.960 55.000 0.00 0.00 0.00 3.41
342 343 2.054232 TAACTACTCCCTCCGCTCTG 57.946 55.000 0.00 0.00 0.00 3.35
343 344 3.315880 AATAACTACTCCCTCCGCTCT 57.684 47.619 0.00 0.00 0.00 4.09
344 345 6.377712 ACATATAATAACTACTCCCTCCGCTC 59.622 42.308 0.00 0.00 0.00 5.03
345 346 6.153000 CACATATAATAACTACTCCCTCCGCT 59.847 42.308 0.00 0.00 0.00 5.52
346 347 6.071503 ACACATATAATAACTACTCCCTCCGC 60.072 42.308 0.00 0.00 0.00 5.54
347 348 7.463961 ACACATATAATAACTACTCCCTCCG 57.536 40.000 0.00 0.00 0.00 4.63
351 352 9.971922 ACGTAAACACATATAATAACTACTCCC 57.028 33.333 0.00 0.00 0.00 4.30
362 363 9.563898 CTCAAGACTGTACGTAAACACATATAA 57.436 33.333 0.00 0.00 0.00 0.98
363 364 8.733458 ACTCAAGACTGTACGTAAACACATATA 58.267 33.333 0.00 0.00 0.00 0.86
364 365 7.600065 ACTCAAGACTGTACGTAAACACATAT 58.400 34.615 0.00 0.00 0.00 1.78
375 376 7.415229 TGCAATATACTACTCAAGACTGTACG 58.585 38.462 0.00 0.00 0.00 3.67
390 391 9.872721 CAGTCTTATCATGAGATGCAATATACT 57.127 33.333 0.09 0.00 35.67 2.12
391 392 9.866798 TCAGTCTTATCATGAGATGCAATATAC 57.133 33.333 0.09 0.00 35.67 1.47
424 425 1.791103 TAAGCCAACCAAGCACACGC 61.791 55.000 0.00 0.00 38.99 5.34
469 470 1.533625 TCAACCTTCTGGCCAAATCG 58.466 50.000 7.01 0.00 36.63 3.34
637 906 3.359950 GAATGATTGGCTTCTCCCAACT 58.640 45.455 0.00 0.00 46.85 3.16
648 917 2.353406 GGCATATGCTGGAATGATTGGC 60.353 50.000 26.12 1.98 41.70 4.52
671 940 1.718757 GGCCATCAATGTCACGAGCC 61.719 60.000 0.00 0.00 0.00 4.70
802 1128 0.959372 ATTCACAGCAGCAGAGCACC 60.959 55.000 0.00 0.00 36.85 5.01
911 1623 4.034048 GGACACACACAACACAAGTAAGAG 59.966 45.833 0.00 0.00 0.00 2.85
912 1624 3.936453 GGACACACACAACACAAGTAAGA 59.064 43.478 0.00 0.00 0.00 2.10
913 1625 3.687212 TGGACACACACAACACAAGTAAG 59.313 43.478 0.00 0.00 0.00 2.34
1039 1761 2.418910 CGACGAGGAGGACCAGCAT 61.419 63.158 0.00 0.00 38.94 3.79
1082 1805 0.494551 TGAGGGGAAGAGTGGGGTTA 59.505 55.000 0.00 0.00 0.00 2.85
1110 1875 6.623486 TGAATGAAGCCACAGTAATCAATTG 58.377 36.000 0.00 0.00 0.00 2.32
1116 1881 4.142315 GCACATGAATGAAGCCACAGTAAT 60.142 41.667 0.00 0.00 0.00 1.89
1126 1891 3.179048 CATGCAGTGCACATGAATGAAG 58.821 45.455 22.44 5.52 46.33 3.02
1371 2147 8.651389 AGCCTATTGTCTTACAAGCTATCATAA 58.349 33.333 3.92 0.00 41.94 1.90
1372 2148 8.195165 AGCCTATTGTCTTACAAGCTATCATA 57.805 34.615 3.92 0.00 41.94 2.15
1376 2152 6.543831 CCAAAGCCTATTGTCTTACAAGCTAT 59.456 38.462 5.72 0.00 41.94 2.97
1452 2228 9.533253 GTATATTGTAACGTTGTATACCACCTT 57.467 33.333 11.99 0.00 0.00 3.50
1490 2266 3.839323 TTGAGGGAGGGTGTTAGACTA 57.161 47.619 0.00 0.00 0.00 2.59
1585 2361 3.554934 ACTTGCTGACATCTTCACCAAA 58.445 40.909 0.00 0.00 30.82 3.28
1646 2423 0.869880 TGTGCGTGAACGTGTCTCTG 60.870 55.000 4.59 0.00 42.22 3.35
1699 2476 3.118075 TCTGCAAATCCGGTATTCCATGA 60.118 43.478 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.