Multiple sequence alignment - TraesCS6D01G118700

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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 TraesCS6D01G118700 chr6D 100.000 2666 0 0 1 2666 84205765 84208430 0.000000e+00 4924.0
1 TraesCS6D01G118700 chr6A 91.307 1691 97 26 426 2085 101428124 101429795 0.000000e+00 2263.0
2 TraesCS6D01G118700 chr6A 86.387 382 36 5 2287 2656 101429874 101430251 1.150000e-108 403.0
3 TraesCS6D01G118700 chr6A 86.124 209 25 2 2324 2532 100646424 100646220 3.450000e-54 222.0
4 TraesCS6D01G118700 chr6A 87.310 197 20 3 2334 2529 100664470 100664662 1.240000e-53 220.0
5 TraesCS6D01G118700 chr6A 86.275 204 25 1 2329 2532 100649769 100649569 4.470000e-53 219.0
6 TraesCS6D01G118700 chr6A 83.886 211 25 4 224 428 101427598 101427805 2.710000e-45 193.0
7 TraesCS6D01G118700 chr6B 90.824 1493 92 25 627 2085 159951508 159952989 0.000000e+00 1956.0
8 TraesCS6D01G118700 chr6B 84.221 507 50 17 2172 2662 159953014 159953506 1.450000e-127 466.0
9 TraesCS6D01G118700 chr6B 88.421 190 18 2 2340 2529 159141382 159141567 2.670000e-55 226.0
10 TraesCS6D01G118700 chr6B 86.275 204 25 1 2329 2532 231353911 231353711 4.470000e-53 219.0
11 TraesCS6D01G118700 chr6B 75.444 338 40 20 260 594 159951206 159951503 1.000000e-24 124.0
12 TraesCS6D01G118700 chr2D 95.302 149 7 0 10 158 370634791 370634939 1.230000e-58 237.0
13 TraesCS6D01G118700 chr2D 93.289 149 10 0 10 158 590329554 590329702 1.240000e-53 220.0
14 TraesCS6D01G118700 chr2D 86.667 75 5 2 2078 2151 11793789 11793859 7.910000e-11 78.7
15 TraesCS6D01G118700 chr2A 94.631 149 8 0 10 158 712068638 712068786 5.740000e-57 231.0
16 TraesCS6D01G118700 chr2A 93.289 149 10 0 10 158 768446461 768446609 1.240000e-53 220.0
17 TraesCS6D01G118700 chr2A 90.385 156 14 1 4 158 528136954 528136799 1.250000e-48 204.0
18 TraesCS6D01G118700 chr3D 93.960 149 9 0 10 158 446355574 446355426 2.670000e-55 226.0
19 TraesCS6D01G118700 chr3D 91.139 158 13 1 1 157 66732851 66732694 2.080000e-51 213.0
20 TraesCS6D01G118700 chr3D 92.568 148 11 0 10 157 90820629 90820482 2.080000e-51 213.0
21 TraesCS6D01G118700 chr7A 87.958 191 19 3 2339 2529 86111900 86112086 3.450000e-54 222.0
22 TraesCS6D01G118700 chr5B 86.935 199 22 3 2334 2532 587765346 587765152 1.240000e-53 220.0
23 TraesCS6D01G118700 chr5B 87.324 71 7 2 2082 2150 693990402 693990332 2.200000e-11 80.5
24 TraesCS6D01G118700 chr5B 93.182 44 3 0 1298 1341 511852770 511852813 6.160000e-07 65.8
25 TraesCS6D01G118700 chr4A 92.617 149 11 0 10 158 693330336 693330188 5.780000e-52 215.0
26 TraesCS6D01G118700 chr4A 87.671 73 5 2 2082 2153 604845636 604845705 6.120000e-12 82.4
27 TraesCS6D01G118700 chr4B 72.101 552 97 43 1139 1654 474378695 474379225 2.170000e-21 113.0
28 TraesCS6D01G118700 chrUn 88.462 78 6 3 2077 2151 134257855 134257778 1.020000e-14 91.6
29 TraesCS6D01G118700 chr1B 91.045 67 6 0 2084 2150 642043871 642043805 1.020000e-14 91.6
30 TraesCS6D01G118700 chr5A 88.158 76 8 1 2078 2153 11519842 11519768 3.660000e-14 89.8
31 TraesCS6D01G118700 chr5A 100.000 31 0 0 1298 1328 537616173 537616203 1.030000e-04 58.4
32 TraesCS6D01G118700 chr7D 89.855 69 2 2 2085 2152 560284957 560285021 1.700000e-12 84.2
33 TraesCS6D01G118700 chr2B 88.571 70 5 3 2084 2150 619681481 619681412 6.120000e-12 82.4
34 TraesCS6D01G118700 chr1D 87.671 73 5 3 2082 2150 492364780 492364852 6.120000e-12 82.4
35 TraesCS6D01G118700 chr5D 93.182 44 3 0 1298 1341 423973553 423973596 6.160000e-07 65.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G118700 chr6D 84205765 84208430 2665 False 4924.000000 4924 100.000000 1 2666 1 chr6D.!!$F1 2665
1 TraesCS6D01G118700 chr6A 101427598 101430251 2653 False 953.000000 2263 87.193333 224 2656 3 chr6A.!!$F2 2432
2 TraesCS6D01G118700 chr6A 100646220 100649769 3549 True 220.500000 222 86.199500 2324 2532 2 chr6A.!!$R1 208
3 TraesCS6D01G118700 chr6B 159951206 159953506 2300 False 848.666667 1956 83.496333 260 2662 3 chr6B.!!$F2 2402

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
105 106 0.039437 CCGCGCGGTGAACTAGATAT 60.039 55.0 39.71 0.0 0.0 1.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1854 2232 0.463654 AGTGCCACAAAGCTGACGAA 60.464 50.0 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
17 18 4.857251 GGATGGGGTAGTTGCGAG 57.143 61.111 0.00 0.00 0.00 5.03
18 19 1.523938 GGATGGGGTAGTTGCGAGC 60.524 63.158 0.00 0.00 0.00 5.03
20 21 2.292794 GATGGGGTAGTTGCGAGCGA 62.293 60.000 0.00 0.00 0.00 4.93
21 22 2.202756 GGGGTAGTTGCGAGCGAG 60.203 66.667 0.00 0.00 0.00 5.03
22 23 2.886124 GGGTAGTTGCGAGCGAGC 60.886 66.667 0.00 0.00 37.71 5.03
23 24 2.126071 GGTAGTTGCGAGCGAGCA 60.126 61.111 5.05 5.05 46.54 4.26
37 38 1.138671 GAGCACTCGAGAGTCCAGC 59.861 63.158 21.68 12.26 40.20 4.85
39 40 2.202544 CACTCGAGAGTCCAGCGC 60.203 66.667 21.68 0.00 40.20 5.92
40 41 3.805307 ACTCGAGAGTCCAGCGCG 61.805 66.667 21.68 0.00 36.92 6.86
102 103 4.124351 CCCGCGCGGTGAACTAGA 62.124 66.667 43.12 0.00 0.00 2.43
103 104 2.104331 CCGCGCGGTGAACTAGAT 59.896 61.111 39.71 0.00 0.00 1.98
104 105 1.357690 CCGCGCGGTGAACTAGATA 59.642 57.895 39.71 0.00 0.00 1.98
105 106 0.039437 CCGCGCGGTGAACTAGATAT 60.039 55.000 39.71 0.00 0.00 1.63
106 107 1.053048 CGCGCGGTGAACTAGATATG 58.947 55.000 24.84 0.00 0.00 1.78
107 108 0.784778 GCGCGGTGAACTAGATATGC 59.215 55.000 8.83 0.00 0.00 3.14
108 109 1.419374 CGCGGTGAACTAGATATGCC 58.581 55.000 0.00 0.00 0.00 4.40
109 110 1.419374 GCGGTGAACTAGATATGCCG 58.581 55.000 0.00 5.02 40.52 5.69
110 111 1.419374 CGGTGAACTAGATATGCCGC 58.581 55.000 0.00 0.00 0.00 6.53
111 112 1.797025 GGTGAACTAGATATGCCGCC 58.203 55.000 0.00 0.00 0.00 6.13
112 113 1.608283 GGTGAACTAGATATGCCGCCC 60.608 57.143 0.00 0.00 0.00 6.13
114 115 1.004918 AACTAGATATGCCGCCCGC 60.005 57.895 0.00 0.00 38.31 6.13
115 116 2.507102 CTAGATATGCCGCCCGCG 60.507 66.667 0.00 0.00 42.08 6.46
116 117 4.735132 TAGATATGCCGCCCGCGC 62.735 66.667 0.00 0.00 42.08 6.86
127 128 3.714963 CCCGCGCGGTTTTTACGT 61.715 61.111 43.12 0.00 0.00 3.57
128 129 2.202083 CCGCGCGGTTTTTACGTC 60.202 61.111 39.71 0.00 0.00 4.34
129 130 2.660612 CCGCGCGGTTTTTACGTCT 61.661 57.895 39.71 0.00 0.00 4.18
130 131 1.225289 CGCGCGGTTTTTACGTCTC 60.225 57.895 24.84 0.00 0.00 3.36
131 132 1.131218 GCGCGGTTTTTACGTCTCC 59.869 57.895 8.83 0.00 0.00 3.71
132 133 1.413368 CGCGGTTTTTACGTCTCCG 59.587 57.895 0.00 1.60 43.37 4.63
134 135 2.818350 CGGTTTTTACGTCTCCGCT 58.182 52.632 0.00 0.00 37.70 5.52
135 136 0.437295 CGGTTTTTACGTCTCCGCTG 59.563 55.000 0.00 0.00 37.70 5.18
136 137 1.787012 GGTTTTTACGTCTCCGCTGA 58.213 50.000 0.00 0.00 37.70 4.26
137 138 2.137523 GGTTTTTACGTCTCCGCTGAA 58.862 47.619 0.00 0.00 37.70 3.02
172 173 4.521062 GCGGCTGTCGGAGATGCT 62.521 66.667 3.02 0.00 40.67 3.79
173 174 2.279120 CGGCTGTCGGAGATGCTC 60.279 66.667 0.00 0.00 40.67 4.26
174 175 2.780094 CGGCTGTCGGAGATGCTCT 61.780 63.158 0.00 0.00 40.67 4.09
175 176 1.448119 CGGCTGTCGGAGATGCTCTA 61.448 60.000 0.00 0.00 40.67 2.43
176 177 0.747255 GGCTGTCGGAGATGCTCTAA 59.253 55.000 0.00 0.00 40.67 2.10
177 178 1.269517 GGCTGTCGGAGATGCTCTAAG 60.270 57.143 0.00 0.00 40.67 2.18
190 191 3.982127 GCTCTAAGCACTCTCGTTTTC 57.018 47.619 0.00 0.00 41.89 2.29
191 192 3.318017 GCTCTAAGCACTCTCGTTTTCA 58.682 45.455 0.00 0.00 41.89 2.69
192 193 3.366422 GCTCTAAGCACTCTCGTTTTCAG 59.634 47.826 0.00 0.00 41.89 3.02
193 194 4.551388 CTCTAAGCACTCTCGTTTTCAGT 58.449 43.478 0.00 0.00 0.00 3.41
194 195 4.547532 TCTAAGCACTCTCGTTTTCAGTC 58.452 43.478 0.00 0.00 0.00 3.51
195 196 2.156343 AGCACTCTCGTTTTCAGTCC 57.844 50.000 0.00 0.00 0.00 3.85
196 197 1.149148 GCACTCTCGTTTTCAGTCCC 58.851 55.000 0.00 0.00 0.00 4.46
197 198 1.540363 GCACTCTCGTTTTCAGTCCCA 60.540 52.381 0.00 0.00 0.00 4.37
199 200 3.202906 CACTCTCGTTTTCAGTCCCAAA 58.797 45.455 0.00 0.00 0.00 3.28
201 202 3.202906 CTCTCGTTTTCAGTCCCAAACA 58.797 45.455 0.00 0.00 33.23 2.83
203 204 3.375922 TCTCGTTTTCAGTCCCAAACAAC 59.624 43.478 0.00 0.00 33.23 3.32
204 205 2.096174 TCGTTTTCAGTCCCAAACAACG 59.904 45.455 0.00 0.00 33.23 4.10
205 206 2.190161 GTTTTCAGTCCCAAACAACGC 58.810 47.619 0.00 0.00 33.75 4.84
206 207 0.741915 TTTCAGTCCCAAACAACGCC 59.258 50.000 0.00 0.00 0.00 5.68
207 208 0.394488 TTCAGTCCCAAACAACGCCA 60.394 50.000 0.00 0.00 0.00 5.69
208 209 0.394488 TCAGTCCCAAACAACGCCAA 60.394 50.000 0.00 0.00 0.00 4.52
209 210 0.457851 CAGTCCCAAACAACGCCAAA 59.542 50.000 0.00 0.00 0.00 3.28
210 211 0.458260 AGTCCCAAACAACGCCAAAC 59.542 50.000 0.00 0.00 0.00 2.93
211 212 0.173708 GTCCCAAACAACGCCAAACA 59.826 50.000 0.00 0.00 0.00 2.83
212 213 0.895530 TCCCAAACAACGCCAAACAA 59.104 45.000 0.00 0.00 0.00 2.83
213 214 1.134965 TCCCAAACAACGCCAAACAAG 60.135 47.619 0.00 0.00 0.00 3.16
214 215 0.649993 CCAAACAACGCCAAACAAGC 59.350 50.000 0.00 0.00 0.00 4.01
215 216 0.649993 CAAACAACGCCAAACAAGCC 59.350 50.000 0.00 0.00 0.00 4.35
216 217 0.247736 AAACAACGCCAAACAAGCCA 59.752 45.000 0.00 0.00 0.00 4.75
218 219 1.319614 ACAACGCCAAACAAGCCAGT 61.320 50.000 0.00 0.00 0.00 4.00
219 220 0.594796 CAACGCCAAACAAGCCAGTC 60.595 55.000 0.00 0.00 0.00 3.51
220 221 1.734388 AACGCCAAACAAGCCAGTCC 61.734 55.000 0.00 0.00 0.00 3.85
223 224 1.228124 CCAAACAAGCCAGTCCCGA 60.228 57.895 0.00 0.00 0.00 5.14
224 225 1.515521 CCAAACAAGCCAGTCCCGAC 61.516 60.000 0.00 0.00 0.00 4.79
225 226 0.535102 CAAACAAGCCAGTCCCGACT 60.535 55.000 0.00 0.00 43.61 4.18
226 227 0.250338 AAACAAGCCAGTCCCGACTC 60.250 55.000 0.00 0.00 40.20 3.36
227 228 1.407656 AACAAGCCAGTCCCGACTCA 61.408 55.000 0.00 0.00 40.20 3.41
228 229 1.194781 ACAAGCCAGTCCCGACTCAT 61.195 55.000 0.00 0.00 40.20 2.90
232 233 1.073923 AGCCAGTCCCGACTCATTTTT 59.926 47.619 0.00 0.00 40.20 1.94
284 285 2.980233 GCAGCTTTGGACAGGCGT 60.980 61.111 0.00 0.00 0.00 5.68
339 340 1.064825 TTGAGAGTCCAGGTTTCCCC 58.935 55.000 0.00 0.00 0.00 4.81
385 392 2.161211 GCAGCAACAAGAATCTGAGGAC 59.839 50.000 0.00 0.00 0.00 3.85
397 404 1.364626 CTGAGGACGGAATGCACAGC 61.365 60.000 0.00 0.00 31.09 4.40
434 762 2.027745 CAGCAGAGCAGGTAAAGGAGAA 60.028 50.000 0.00 0.00 0.00 2.87
458 786 6.183347 ACAAGGAATCGAAGAAAGGAATGAT 58.817 36.000 0.00 0.00 43.58 2.45
460 788 5.994250 AGGAATCGAAGAAAGGAATGATGA 58.006 37.500 0.00 0.00 43.58 2.92
471 799 2.512896 AGGAATGATGAACCCTGCTCAT 59.487 45.455 0.00 0.00 36.21 2.90
476 809 2.840038 TGATGAACCCTGCTCATACAGT 59.160 45.455 0.00 0.00 35.83 3.55
478 811 2.256306 TGAACCCTGCTCATACAGTGA 58.744 47.619 0.00 0.00 35.83 3.41
491 824 6.017934 GCTCATACAGTGACACTTTTCTCAAA 60.018 38.462 5.04 0.00 32.22 2.69
493 826 4.965119 ACAGTGACACTTTTCTCAAACC 57.035 40.909 5.04 0.00 0.00 3.27
779 1123 1.072391 CATATTTATACCCGCGCGCA 58.928 50.000 32.61 12.33 0.00 6.09
780 1124 1.060553 CATATTTATACCCGCGCGCAG 59.939 52.381 32.61 23.79 0.00 5.18
799 1143 1.214325 GCAAAACGGCCATACCCAC 59.786 57.895 2.24 0.00 33.26 4.61
914 1272 2.002586 CCTGTCAGGTACGCATTTCAG 58.997 52.381 11.09 0.00 0.00 3.02
924 1282 3.626028 ACGCATTTCAGTTTCAGTTCC 57.374 42.857 0.00 0.00 0.00 3.62
925 1283 2.948979 ACGCATTTCAGTTTCAGTTCCA 59.051 40.909 0.00 0.00 0.00 3.53
926 1284 3.569701 ACGCATTTCAGTTTCAGTTCCAT 59.430 39.130 0.00 0.00 0.00 3.41
927 1285 3.916172 CGCATTTCAGTTTCAGTTCCATG 59.084 43.478 0.00 0.00 0.00 3.66
929 1287 5.620654 CGCATTTCAGTTTCAGTTCCATGAT 60.621 40.000 0.00 0.00 0.00 2.45
932 1290 6.957920 TTTCAGTTTCAGTTCCATGATTGA 57.042 33.333 0.00 0.00 0.00 2.57
935 1293 5.352293 TCAGTTTCAGTTCCATGATTGATCG 59.648 40.000 0.00 0.00 0.00 3.69
936 1294 4.637534 AGTTTCAGTTCCATGATTGATCGG 59.362 41.667 0.00 0.00 0.00 4.18
951 1321 2.842394 ATCGGCACTGTCGAGCTTGG 62.842 60.000 11.97 0.00 44.58 3.61
956 1326 1.006102 ACTGTCGAGCTTGGTTCCG 60.006 57.895 0.00 0.00 0.00 4.30
1442 1819 4.101448 CTCCGTGAAGGGCCCCAG 62.101 72.222 21.43 5.28 41.52 4.45
1668 2045 3.240606 CTGCGCAAACAGGTGACGG 62.241 63.158 13.05 0.00 33.85 4.79
1670 2047 4.025401 CGCAAACAGGTGACGGCC 62.025 66.667 0.00 0.00 0.00 6.13
1671 2048 3.670377 GCAAACAGGTGACGGCCC 61.670 66.667 0.00 0.00 0.00 5.80
1673 2050 1.966451 CAAACAGGTGACGGCCCTC 60.966 63.158 0.00 0.00 0.00 4.30
1683 2061 1.296727 GACGGCCCTCTAAAATTCCG 58.703 55.000 0.00 0.00 42.24 4.30
1692 2070 4.816925 CCCTCTAAAATTCCGGTGATCTTC 59.183 45.833 0.00 0.00 0.00 2.87
1745 2123 4.610945 GGTACCAATGCATACATTCTTGC 58.389 43.478 7.15 0.00 44.83 4.01
1753 2131 6.624352 ATGCATACATTCTTGCGTTTCTAT 57.376 33.333 0.00 0.00 41.80 1.98
1854 2232 1.001269 ATGATGCTGCTGGTGCTGT 60.001 52.632 0.00 0.00 39.81 4.40
1883 2261 0.395586 TTGTGGCACTGCAGTTTCCT 60.396 50.000 26.45 2.51 0.00 3.36
1896 2274 3.629398 GCAGTTTCCTATGTGATTCAGGG 59.371 47.826 0.00 0.00 0.00 4.45
1907 2285 4.630111 TGTGATTCAGGGCAACAAAATTC 58.370 39.130 0.00 0.00 39.74 2.17
1911 2289 4.751767 TTCAGGGCAACAAAATTCAAGT 57.248 36.364 0.00 0.00 39.74 3.16
1925 2306 7.827236 ACAAAATTCAAGTTGGATCTCGGTATA 59.173 33.333 2.34 0.00 0.00 1.47
1926 2307 7.787725 AAATTCAAGTTGGATCTCGGTATAC 57.212 36.000 2.34 0.00 0.00 1.47
1961 2343 4.201990 GGAGAGGAAACGTTAGCGATCTTA 60.202 45.833 5.81 0.00 42.00 2.10
2011 2393 1.003839 TGGTGTGAATGGAGGCGTC 60.004 57.895 0.00 0.00 0.00 5.19
2033 2415 1.814394 CCACAGCATGCAGTACACAAT 59.186 47.619 21.98 0.00 42.53 2.71
2034 2416 2.414957 CCACAGCATGCAGTACACAATG 60.415 50.000 21.98 8.37 42.53 2.82
2035 2417 1.200716 ACAGCATGCAGTACACAATGC 59.799 47.619 21.98 15.11 42.53 3.56
2036 2418 0.813184 AGCATGCAGTACACAATGCC 59.187 50.000 21.98 5.88 41.85 4.40
2085 2470 4.944930 ACGCCTTGCCAAATGTAAATAGTA 59.055 37.500 0.00 0.00 0.00 1.82
2086 2471 5.592688 ACGCCTTGCCAAATGTAAATAGTAT 59.407 36.000 0.00 0.00 0.00 2.12
2087 2472 6.096282 ACGCCTTGCCAAATGTAAATAGTATT 59.904 34.615 0.00 0.00 0.00 1.89
2088 2473 6.636850 CGCCTTGCCAAATGTAAATAGTATTC 59.363 38.462 0.00 0.00 0.00 1.75
2089 2474 6.923508 GCCTTGCCAAATGTAAATAGTATTCC 59.076 38.462 0.00 0.00 0.00 3.01
2090 2475 7.433680 CCTTGCCAAATGTAAATAGTATTCCC 58.566 38.462 0.00 0.00 0.00 3.97
2091 2476 7.287696 CCTTGCCAAATGTAAATAGTATTCCCT 59.712 37.037 0.00 0.00 0.00 4.20
2092 2477 7.817418 TGCCAAATGTAAATAGTATTCCCTC 57.183 36.000 0.00 0.00 0.00 4.30
2093 2478 7.582719 TGCCAAATGTAAATAGTATTCCCTCT 58.417 34.615 0.00 0.00 0.00 3.69
2094 2479 7.502226 TGCCAAATGTAAATAGTATTCCCTCTG 59.498 37.037 0.00 0.00 0.00 3.35
2095 2480 7.502561 GCCAAATGTAAATAGTATTCCCTCTGT 59.497 37.037 0.00 0.00 0.00 3.41
2141 2526 9.455847 ACTAAACGCTCTTATATTAGTTTACGG 57.544 33.333 0.00 0.00 34.13 4.02
2142 2527 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
2143 2528 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
2144 2529 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
2145 2530 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
2146 2531 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
2147 2532 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
2148 2533 7.039853 GCTCTTATATTAGTTTACGGAGGGAGT 60.040 40.741 0.00 0.00 0.00 3.85
2149 2534 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
2150 2535 9.289782 TCTTATATTAGTTTACGGAGGGAGTAC 57.710 37.037 0.00 0.00 0.00 2.73
2151 2536 9.294614 CTTATATTAGTTTACGGAGGGAGTACT 57.705 37.037 0.00 0.00 0.00 2.73
2170 2555 3.399330 ACTACGCAAATGTAAGTGTGCT 58.601 40.909 0.00 0.00 34.79 4.40
2174 2567 3.228749 CGCAAATGTAAGTGTGCTTCAG 58.771 45.455 0.00 0.00 36.22 3.02
2177 2570 5.280945 GCAAATGTAAGTGTGCTTCAGAAA 58.719 37.500 0.00 0.00 36.22 2.52
2188 2581 4.889409 TGTGCTTCAGAAAGTTCTTCCATT 59.111 37.500 0.00 0.00 34.74 3.16
2210 2603 9.655769 CCATTGAAATAATAGAGTTTGATCACG 57.344 33.333 0.00 0.00 0.00 4.35
2213 2606 8.648557 TGAAATAATAGAGTTTGATCACGAGG 57.351 34.615 0.00 0.00 0.00 4.63
2214 2607 7.224753 TGAAATAATAGAGTTTGATCACGAGGC 59.775 37.037 0.00 0.00 0.00 4.70
2216 2609 0.108615 AGAGTTTGATCACGAGGCGG 60.109 55.000 0.00 0.00 0.00 6.13
2217 2610 1.696832 GAGTTTGATCACGAGGCGGC 61.697 60.000 0.00 0.00 0.00 6.53
2218 2611 2.032634 GTTTGATCACGAGGCGGCA 61.033 57.895 13.08 0.00 0.00 5.69
2231 2625 0.527565 GGCGGCACATGAGAAACATT 59.472 50.000 3.07 0.00 37.07 2.71
2232 2626 1.468054 GGCGGCACATGAGAAACATTC 60.468 52.381 3.07 0.00 37.07 2.67
2238 2632 3.427233 GCACATGAGAAACATTCTGAGGC 60.427 47.826 0.00 0.00 40.87 4.70
2246 2640 1.927487 ACATTCTGAGGCCATTGCAA 58.073 45.000 5.01 0.00 40.13 4.08
2252 2646 4.174704 TCTGAGGCCATTGCAATTATCT 57.825 40.909 9.83 7.03 40.13 1.98
2262 2656 3.650281 TGCAATTATCTCCAGCCTGAA 57.350 42.857 0.00 0.00 0.00 3.02
2268 2662 4.478206 TTATCTCCAGCCTGAACTTCAG 57.522 45.455 11.37 11.37 43.91 3.02
2283 2677 7.807977 TGAACTTCAGAAAAGCTAAGACATT 57.192 32.000 0.00 0.00 0.00 2.71
2332 2726 9.710900 ATTTGGCTTAGTAAGAAAATTCTTTGG 57.289 29.630 14.27 2.61 44.70 3.28
2427 2821 6.078664 AGCAAGCTACTACTATAATGGACCT 58.921 40.000 0.00 0.00 0.00 3.85
2469 2863 7.575414 ATTTAATATCATTGTGGGCGTGTAA 57.425 32.000 0.00 0.00 0.00 2.41
2557 2961 1.134220 TGAAACGTTGCCCTGAGTCTT 60.134 47.619 0.00 0.00 0.00 3.01
2573 2977 6.128063 CCTGAGTCTTCTTTTATTGCTTCCTG 60.128 42.308 0.00 0.00 0.00 3.86
2589 2993 1.330655 CCTGGACCGACTATGCCACT 61.331 60.000 0.00 0.00 0.00 4.00
2663 3068 2.466523 CTTGAGCAGCCTGCCTCTGT 62.467 60.000 14.25 0.00 46.52 3.41
2664 3069 2.125188 GAGCAGCCTGCCTCTGTC 60.125 66.667 14.25 0.00 46.52 3.51
2665 3070 3.678951 GAGCAGCCTGCCTCTGTCC 62.679 68.421 14.25 0.00 46.52 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.523938 GCTCGCAACTACCCCATCC 60.524 63.158 0.00 0.00 0.00 3.51
1 2 1.883084 CGCTCGCAACTACCCCATC 60.883 63.158 0.00 0.00 0.00 3.51
2 3 2.186903 CGCTCGCAACTACCCCAT 59.813 61.111 0.00 0.00 0.00 4.00
3 4 2.992689 TCGCTCGCAACTACCCCA 60.993 61.111 0.00 0.00 0.00 4.96
4 5 2.202756 CTCGCTCGCAACTACCCC 60.203 66.667 0.00 0.00 0.00 4.95
6 7 2.126071 TGCTCGCTCGCAACTACC 60.126 61.111 0.00 0.00 36.89 3.18
7 8 1.406970 GAGTGCTCGCTCGCAACTAC 61.407 60.000 0.00 0.00 42.32 2.73
8 9 1.154016 GAGTGCTCGCTCGCAACTA 60.154 57.895 0.00 0.00 42.32 2.24
9 10 2.431601 GAGTGCTCGCTCGCAACT 60.432 61.111 0.00 0.00 42.32 3.16
22 23 2.202544 GCGCTGGACTCTCGAGTG 60.203 66.667 13.13 12.94 42.66 3.51
23 24 3.805307 CGCGCTGGACTCTCGAGT 61.805 66.667 13.13 0.00 45.84 4.18
44 45 2.652893 CTTATTTGCTGCGCCCGCTC 62.653 60.000 17.83 6.41 42.51 5.03
46 47 2.278142 CTTATTTGCTGCGCCCGC 60.278 61.111 4.18 8.60 42.35 6.13
52 53 1.869132 CGTGCCGCTTATTTGCTGC 60.869 57.895 0.00 0.00 42.22 5.25
53 54 4.365287 CGTGCCGCTTATTTGCTG 57.635 55.556 0.00 0.00 0.00 4.41
86 87 0.039437 ATATCTAGTTCACCGCGCGG 60.039 55.000 44.88 44.88 42.03 6.46
87 88 1.053048 CATATCTAGTTCACCGCGCG 58.947 55.000 25.67 25.67 0.00 6.86
89 90 1.419374 GGCATATCTAGTTCACCGCG 58.581 55.000 0.00 0.00 0.00 6.46
90 91 1.419374 CGGCATATCTAGTTCACCGC 58.581 55.000 0.00 0.00 31.85 5.68
91 92 1.419374 GCGGCATATCTAGTTCACCG 58.581 55.000 0.00 8.79 41.97 4.94
93 94 1.797025 GGGCGGCATATCTAGTTCAC 58.203 55.000 12.47 0.00 0.00 3.18
94 95 0.317160 CGGGCGGCATATCTAGTTCA 59.683 55.000 12.47 0.00 0.00 3.18
95 96 1.014564 GCGGGCGGCATATCTAGTTC 61.015 60.000 12.47 0.00 42.87 3.01
96 97 1.004918 GCGGGCGGCATATCTAGTT 60.005 57.895 12.47 0.00 42.87 2.24
97 98 2.657237 GCGGGCGGCATATCTAGT 59.343 61.111 12.47 0.00 42.87 2.57
99 100 4.735132 GCGCGGGCGGCATATCTA 62.735 66.667 17.50 0.00 43.84 1.98
111 112 2.202083 GACGTAAAAACCGCGCGG 60.202 61.111 44.88 44.88 42.03 6.46
112 113 1.225289 GAGACGTAAAAACCGCGCG 60.225 57.895 25.67 25.67 0.00 6.86
155 156 4.521062 AGCATCTCCGACAGCCGC 62.521 66.667 0.00 0.00 36.84 6.53
156 157 2.279120 GAGCATCTCCGACAGCCG 60.279 66.667 0.00 0.00 38.18 5.52
182 183 3.691498 GTTGTTTGGGACTGAAAACGAG 58.309 45.455 0.00 0.00 38.78 4.18
183 184 2.096174 CGTTGTTTGGGACTGAAAACGA 59.904 45.455 0.00 0.00 40.86 3.85
184 185 2.446282 CGTTGTTTGGGACTGAAAACG 58.554 47.619 0.00 0.00 38.78 3.60
185 186 2.190161 GCGTTGTTTGGGACTGAAAAC 58.810 47.619 0.00 0.00 36.92 2.43
186 187 1.135333 GGCGTTGTTTGGGACTGAAAA 59.865 47.619 0.00 0.00 0.00 2.29
189 190 0.394488 TTGGCGTTGTTTGGGACTGA 60.394 50.000 0.00 0.00 0.00 3.41
190 191 0.457851 TTTGGCGTTGTTTGGGACTG 59.542 50.000 0.00 0.00 0.00 3.51
191 192 0.458260 GTTTGGCGTTGTTTGGGACT 59.542 50.000 0.00 0.00 0.00 3.85
192 193 0.173708 TGTTTGGCGTTGTTTGGGAC 59.826 50.000 0.00 0.00 0.00 4.46
193 194 0.895530 TTGTTTGGCGTTGTTTGGGA 59.104 45.000 0.00 0.00 0.00 4.37
194 195 1.285578 CTTGTTTGGCGTTGTTTGGG 58.714 50.000 0.00 0.00 0.00 4.12
195 196 0.649993 GCTTGTTTGGCGTTGTTTGG 59.350 50.000 0.00 0.00 0.00 3.28
196 197 0.649993 GGCTTGTTTGGCGTTGTTTG 59.350 50.000 0.00 0.00 0.00 2.93
197 198 0.247736 TGGCTTGTTTGGCGTTGTTT 59.752 45.000 0.00 0.00 35.06 2.83
199 200 1.319614 ACTGGCTTGTTTGGCGTTGT 61.320 50.000 0.00 0.00 35.06 3.32
201 202 1.733526 GACTGGCTTGTTTGGCGTT 59.266 52.632 0.00 0.00 35.06 4.84
203 204 2.644992 GGACTGGCTTGTTTGGCG 59.355 61.111 0.00 0.00 35.06 5.69
204 205 2.919494 CGGGACTGGCTTGTTTGGC 61.919 63.158 0.00 0.00 0.00 4.52
205 206 1.228124 TCGGGACTGGCTTGTTTGG 60.228 57.895 0.00 0.00 0.00 3.28
206 207 0.535102 AGTCGGGACTGGCTTGTTTG 60.535 55.000 0.00 0.00 40.75 2.93
207 208 0.250338 GAGTCGGGACTGGCTTGTTT 60.250 55.000 5.98 0.00 42.66 2.83
208 209 1.371558 GAGTCGGGACTGGCTTGTT 59.628 57.895 5.98 0.00 42.66 2.83
209 210 1.194781 ATGAGTCGGGACTGGCTTGT 61.195 55.000 5.98 0.00 42.66 3.16
210 211 0.036010 AATGAGTCGGGACTGGCTTG 60.036 55.000 5.98 0.00 42.66 4.01
211 212 0.693049 AAATGAGTCGGGACTGGCTT 59.307 50.000 5.98 0.00 42.66 4.35
212 213 0.693049 AAAATGAGTCGGGACTGGCT 59.307 50.000 5.98 0.00 42.66 4.75
213 214 1.468914 GAAAAATGAGTCGGGACTGGC 59.531 52.381 5.98 0.00 42.66 4.85
214 215 2.778299 TGAAAAATGAGTCGGGACTGG 58.222 47.619 5.98 0.00 42.66 4.00
215 216 5.376854 AAATGAAAAATGAGTCGGGACTG 57.623 39.130 5.98 0.00 42.66 3.51
216 217 5.278957 CCAAAATGAAAAATGAGTCGGGACT 60.279 40.000 0.00 0.00 45.84 3.85
218 219 4.830046 TCCAAAATGAAAAATGAGTCGGGA 59.170 37.500 0.00 0.00 0.00 5.14
219 220 5.132897 TCCAAAATGAAAAATGAGTCGGG 57.867 39.130 0.00 0.00 0.00 5.14
220 221 6.529125 CAGATCCAAAATGAAAAATGAGTCGG 59.471 38.462 0.00 0.00 0.00 4.79
232 233 7.177216 ACAGCTTGAATTACAGATCCAAAATGA 59.823 33.333 0.00 0.00 0.00 2.57
309 310 0.736053 GACTCTCAACTCGGCGATCT 59.264 55.000 11.27 0.00 0.00 2.75
339 340 2.167219 CATGCAGTACGTCCCAGCG 61.167 63.158 0.00 0.00 37.94 5.18
346 347 1.076533 GCTACACGCATGCAGTACGT 61.077 55.000 19.57 13.16 41.45 3.57
348 349 2.749541 TGCTACACGCATGCAGTAC 58.250 52.632 19.57 13.51 45.47 2.73
373 380 1.833630 TGCATTCCGTCCTCAGATTCT 59.166 47.619 0.00 0.00 0.00 2.40
385 392 2.177531 GCTGTGCTGTGCATTCCG 59.822 61.111 0.00 0.00 41.91 4.30
417 424 3.008485 CCTTGTTCTCCTTTACCTGCTCT 59.992 47.826 0.00 0.00 0.00 4.09
421 428 4.631813 CGATTCCTTGTTCTCCTTTACCTG 59.368 45.833 0.00 0.00 0.00 4.00
434 762 5.560724 TCATTCCTTTCTTCGATTCCTTGT 58.439 37.500 0.00 0.00 0.00 3.16
458 786 2.028112 GTCACTGTATGAGCAGGGTTCA 60.028 50.000 0.00 0.00 40.58 3.18
460 788 1.977854 TGTCACTGTATGAGCAGGGTT 59.022 47.619 0.00 0.00 40.58 4.11
471 799 5.492895 TGGTTTGAGAAAAGTGTCACTGTA 58.507 37.500 6.18 0.00 0.00 2.74
476 809 6.339587 ACTTTTGGTTTGAGAAAAGTGTCA 57.660 33.333 8.63 0.00 45.99 3.58
478 811 7.384932 CAGAAACTTTTGGTTTGAGAAAAGTGT 59.615 33.333 9.87 5.42 46.68 3.55
491 824 7.125053 TGGGTAAAATCTTCAGAAACTTTTGGT 59.875 33.333 10.56 0.00 0.00 3.67
493 826 8.940768 TTGGGTAAAATCTTCAGAAACTTTTG 57.059 30.769 10.56 0.00 0.00 2.44
623 967 1.045911 AGGAAGATCGAGGTGGAGGC 61.046 60.000 0.00 0.00 0.00 4.70
626 970 0.397254 GGGAGGAAGATCGAGGTGGA 60.397 60.000 0.00 0.00 0.00 4.02
715 1059 1.153107 CTCCAGCGATGCCCATCAA 60.153 57.895 8.79 0.00 37.69 2.57
740 1084 2.666526 GGGAAGCATCGATCGGCC 60.667 66.667 16.41 7.30 0.00 6.13
799 1143 0.523966 AGAGGACTTCGAAGCTCGTG 59.476 55.000 24.86 1.38 41.35 4.35
914 1272 4.731773 GCCGATCAATCATGGAACTGAAAC 60.732 45.833 0.00 0.00 0.00 2.78
924 1282 1.259770 CGACAGTGCCGATCAATCATG 59.740 52.381 0.00 0.00 0.00 3.07
925 1283 1.136891 TCGACAGTGCCGATCAATCAT 59.863 47.619 0.00 0.00 0.00 2.45
926 1284 0.530288 TCGACAGTGCCGATCAATCA 59.470 50.000 0.00 0.00 0.00 2.57
927 1285 1.203928 CTCGACAGTGCCGATCAATC 58.796 55.000 0.85 0.00 35.35 2.67
929 1287 1.446099 GCTCGACAGTGCCGATCAA 60.446 57.895 0.85 0.00 35.35 2.57
932 1290 1.446792 CAAGCTCGACAGTGCCGAT 60.447 57.895 0.85 0.00 37.57 4.18
935 1293 1.569479 GAACCAAGCTCGACAGTGCC 61.569 60.000 0.00 0.00 37.57 5.01
936 1294 1.569479 GGAACCAAGCTCGACAGTGC 61.569 60.000 0.00 0.00 37.15 4.40
951 1321 3.606153 CGTGTCAAAATTCTGACCGGAAC 60.606 47.826 9.46 1.77 44.30 3.62
956 1326 6.915843 ACAAATTACGTGTCAAAATTCTGACC 59.084 34.615 9.39 0.63 44.30 4.02
1545 1922 4.505039 GCCTCCTTGAACTTCTTGGAGTAA 60.505 45.833 19.80 0.00 41.83 2.24
1668 2045 2.413310 TCACCGGAATTTTAGAGGGC 57.587 50.000 9.46 0.00 0.00 5.19
1670 2047 5.294552 GTGAAGATCACCGGAATTTTAGAGG 59.705 44.000 9.46 0.00 41.37 3.69
1671 2048 5.005779 CGTGAAGATCACCGGAATTTTAGAG 59.994 44.000 9.46 0.00 44.20 2.43
1673 2050 4.494199 GCGTGAAGATCACCGGAATTTTAG 60.494 45.833 9.46 0.22 44.20 1.85
1683 2061 3.784701 TCTAGAAGCGTGAAGATCACC 57.215 47.619 5.00 0.00 44.20 4.02
1695 2073 1.864082 GGAAGCTCGCAATCTAGAAGC 59.136 52.381 9.78 9.78 0.00 3.86
1699 2077 4.889832 AAAATGGAAGCTCGCAATCTAG 57.110 40.909 0.00 0.00 0.00 2.43
1701 2079 3.367703 CCAAAAATGGAAGCTCGCAATCT 60.368 43.478 0.00 0.00 0.00 2.40
1745 2123 2.854777 CGACTGCTTCCTGATAGAAACG 59.145 50.000 0.00 0.00 0.00 3.60
1753 2131 1.367471 CACACCGACTGCTTCCTGA 59.633 57.895 0.00 0.00 0.00 3.86
1854 2232 0.463654 AGTGCCACAAAGCTGACGAA 60.464 50.000 0.00 0.00 0.00 3.85
1883 2261 5.999205 ATTTTGTTGCCCTGAATCACATA 57.001 34.783 0.00 0.00 0.00 2.29
1896 2274 5.117592 CGAGATCCAACTTGAATTTTGTTGC 59.882 40.000 11.28 0.00 39.53 4.17
1907 2285 4.939052 AGGTATACCGAGATCCAACTTG 57.061 45.455 16.31 0.00 42.08 3.16
1911 2289 4.291792 TCCAAAGGTATACCGAGATCCAA 58.708 43.478 16.31 0.00 42.08 3.53
1925 2306 2.418669 TCCTCTCCAAACTCCAAAGGT 58.581 47.619 0.00 0.00 0.00 3.50
1926 2307 3.508845 TTCCTCTCCAAACTCCAAAGG 57.491 47.619 0.00 0.00 0.00 3.11
2011 2393 2.034317 TGTACTGCATGCTGTGGCG 61.034 57.895 32.92 11.93 42.25 5.69
2033 2415 4.134623 GTTCACACGAACCAGGCA 57.865 55.556 0.00 0.00 44.92 4.75
2064 2446 6.923508 GGAATACTATTTACATTTGGCAAGGC 59.076 38.462 0.00 0.00 0.00 4.35
2065 2447 7.287696 AGGGAATACTATTTACATTTGGCAAGG 59.712 37.037 0.00 0.00 0.00 3.61
2115 2500 9.455847 CCGTAAACTAATATAAGAGCGTTTAGT 57.544 33.333 0.00 0.00 35.26 2.24
2116 2501 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
2117 2502 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
2118 2503 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
2119 2504 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
2120 2505 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
2121 2506 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
2122 2507 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
2123 2508 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
2124 2509 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
2125 2510 9.294614 AGTACTCCCTCCGTAAACTAATATAAG 57.705 37.037 0.00 0.00 0.00 1.73
2127 2512 9.726438 GTAGTACTCCCTCCGTAAACTAATATA 57.274 37.037 0.00 0.00 0.00 0.86
2128 2513 7.389053 CGTAGTACTCCCTCCGTAAACTAATAT 59.611 40.741 0.00 0.00 0.00 1.28
2129 2514 6.706270 CGTAGTACTCCCTCCGTAAACTAATA 59.294 42.308 0.00 0.00 0.00 0.98
2130 2515 5.529060 CGTAGTACTCCCTCCGTAAACTAAT 59.471 44.000 0.00 0.00 0.00 1.73
2131 2516 4.876107 CGTAGTACTCCCTCCGTAAACTAA 59.124 45.833 0.00 0.00 0.00 2.24
2132 2517 4.442706 CGTAGTACTCCCTCCGTAAACTA 58.557 47.826 0.00 0.00 0.00 2.24
2133 2518 3.274288 CGTAGTACTCCCTCCGTAAACT 58.726 50.000 0.00 0.00 0.00 2.66
2134 2519 2.223363 GCGTAGTACTCCCTCCGTAAAC 60.223 54.545 0.00 0.00 0.00 2.01
2135 2520 2.017049 GCGTAGTACTCCCTCCGTAAA 58.983 52.381 0.00 0.00 0.00 2.01
2136 2521 1.065491 TGCGTAGTACTCCCTCCGTAA 60.065 52.381 0.00 0.00 0.00 3.18
2137 2522 0.541392 TGCGTAGTACTCCCTCCGTA 59.459 55.000 0.00 0.00 0.00 4.02
2138 2523 0.322816 TTGCGTAGTACTCCCTCCGT 60.323 55.000 0.00 0.00 0.00 4.69
2139 2524 0.813184 TTTGCGTAGTACTCCCTCCG 59.187 55.000 0.00 0.00 0.00 4.63
2140 2525 2.167900 ACATTTGCGTAGTACTCCCTCC 59.832 50.000 0.00 0.00 0.00 4.30
2141 2526 3.521947 ACATTTGCGTAGTACTCCCTC 57.478 47.619 0.00 0.00 0.00 4.30
2142 2527 4.465305 ACTTACATTTGCGTAGTACTCCCT 59.535 41.667 0.00 0.00 0.00 4.20
2143 2528 4.565564 CACTTACATTTGCGTAGTACTCCC 59.434 45.833 0.00 0.00 0.00 4.30
2144 2529 5.061808 CACACTTACATTTGCGTAGTACTCC 59.938 44.000 0.00 0.00 0.00 3.85
2145 2530 5.444218 GCACACTTACATTTGCGTAGTACTC 60.444 44.000 0.00 0.00 0.00 2.59
2146 2531 4.387862 GCACACTTACATTTGCGTAGTACT 59.612 41.667 0.00 0.00 0.00 2.73
2147 2532 4.387862 AGCACACTTACATTTGCGTAGTAC 59.612 41.667 0.00 0.00 40.04 2.73
2148 2533 4.562082 AGCACACTTACATTTGCGTAGTA 58.438 39.130 0.00 0.00 40.04 1.82
2149 2534 3.399330 AGCACACTTACATTTGCGTAGT 58.601 40.909 0.00 0.00 40.04 2.73
2150 2535 4.084066 TGAAGCACACTTACATTTGCGTAG 60.084 41.667 0.00 0.00 40.04 3.51
2151 2536 3.810386 TGAAGCACACTTACATTTGCGTA 59.190 39.130 0.00 0.00 40.04 4.42
2152 2537 2.616376 TGAAGCACACTTACATTTGCGT 59.384 40.909 0.00 0.00 40.04 5.24
2188 2581 7.224753 GCCTCGTGATCAAACTCTATTATTTCA 59.775 37.037 0.00 0.00 0.00 2.69
2196 2589 1.134367 CCGCCTCGTGATCAAACTCTA 59.866 52.381 0.00 0.00 0.00 2.43
2197 2590 0.108615 CCGCCTCGTGATCAAACTCT 60.109 55.000 0.00 0.00 0.00 3.24
2198 2591 1.696832 GCCGCCTCGTGATCAAACTC 61.697 60.000 0.00 0.00 0.00 3.01
2210 2603 0.955428 TGTTTCTCATGTGCCGCCTC 60.955 55.000 0.00 0.00 0.00 4.70
2211 2604 0.322816 ATGTTTCTCATGTGCCGCCT 60.323 50.000 0.00 0.00 35.19 5.52
2212 2605 0.527565 AATGTTTCTCATGTGCCGCC 59.472 50.000 0.00 0.00 36.81 6.13
2213 2606 1.470098 AGAATGTTTCTCATGTGCCGC 59.530 47.619 0.00 0.00 34.07 6.53
2214 2607 2.743664 TCAGAATGTTTCTCATGTGCCG 59.256 45.455 0.00 0.00 38.11 5.69
2216 2609 3.427233 GCCTCAGAATGTTTCTCATGTGC 60.427 47.826 0.00 0.00 38.11 4.57
2217 2610 3.128242 GGCCTCAGAATGTTTCTCATGTG 59.872 47.826 0.00 0.00 38.11 3.21
2218 2611 3.245016 TGGCCTCAGAATGTTTCTCATGT 60.245 43.478 3.32 0.00 38.11 3.21
2231 2625 4.139786 GAGATAATTGCAATGGCCTCAGA 58.860 43.478 13.82 0.00 40.13 3.27
2232 2626 3.255149 GGAGATAATTGCAATGGCCTCAG 59.745 47.826 24.24 0.00 40.13 3.35
2238 2632 3.005472 CAGGCTGGAGATAATTGCAATGG 59.995 47.826 13.82 0.00 0.00 3.16
2246 2640 4.718774 TCTGAAGTTCAGGCTGGAGATAAT 59.281 41.667 28.33 0.00 44.39 1.28
2252 2646 3.480470 CTTTTCTGAAGTTCAGGCTGGA 58.520 45.455 28.33 1.78 44.39 3.86
2262 2656 9.507329 TCAATAATGTCTTAGCTTTTCTGAAGT 57.493 29.630 0.00 0.00 0.00 3.01
2332 2726 1.139853 TGCACCCCAACCAAATCAAAC 59.860 47.619 0.00 0.00 0.00 2.93
2375 2769 4.228567 TCACGTGTCGCTTGGGCA 62.229 61.111 16.51 0.00 38.60 5.36
2376 2770 3.414700 CTCACGTGTCGCTTGGGC 61.415 66.667 16.51 0.00 0.00 5.36
2557 2961 3.008594 TCGGTCCAGGAAGCAATAAAAGA 59.991 43.478 0.00 0.00 0.00 2.52
2573 2977 1.338769 ACAAAGTGGCATAGTCGGTCC 60.339 52.381 0.00 0.00 0.00 4.46
2589 2993 1.122632 TCCCACCTCGCCTGTACAAA 61.123 55.000 0.00 0.00 0.00 2.83
2647 3052 2.125188 GACAGAGGCAGGCTGCTC 60.125 66.667 35.73 28.50 44.28 4.26


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

AutoCloner maintained by Alex Coulton.