Multiple sequence alignment - TraesCS7B01G326300

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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 TraesCS7B01G326300 chr7B 100.000 2890 0 0 1 2890 579824401 579827290 0.000000e+00 5337.0
1 TraesCS7B01G326300 chr7A 88.299 2128 140 50 6 2086 616554259 616552194 0.000000e+00 2449.0
2 TraesCS7B01G326300 chr7A 89.802 657 56 9 2239 2890 700123117 700122467 0.000000e+00 832.0
3 TraesCS7B01G326300 chr7A 88.732 639 57 10 2240 2873 105225414 105224786 0.000000e+00 767.0
4 TraesCS7B01G326300 chr7A 87.651 664 63 14 2221 2872 8798512 8799168 0.000000e+00 754.0
5 TraesCS7B01G326300 chr7D 88.209 1552 88 41 626 2107 536514259 536515785 0.000000e+00 1764.0
6 TraesCS7B01G326300 chr7D 88.066 662 65 10 2236 2890 501439889 501440543 0.000000e+00 773.0
7 TraesCS7B01G326300 chr7D 80.800 125 8 8 79 194 536513711 536513828 1.850000e-12 84.2
8 TraesCS7B01G326300 chr5D 88.092 655 65 10 2241 2890 559100917 559101563 0.000000e+00 765.0
9 TraesCS7B01G326300 chr5D 83.929 112 17 1 1668 1778 344399997 344400108 3.940000e-19 106.0
10 TraesCS7B01G326300 chr6D 88.037 652 66 9 2245 2890 461853013 461852368 0.000000e+00 761.0
11 TraesCS7B01G326300 chr2A 87.595 661 62 13 2239 2890 12320338 12319689 0.000000e+00 749.0
12 TraesCS7B01G326300 chr4B 87.179 663 65 14 2221 2873 532717827 532718479 0.000000e+00 736.0
13 TraesCS7B01G326300 chr4B 84.762 105 16 0 1668 1772 491465485 491465589 3.940000e-19 106.0
14 TraesCS7B01G326300 chr2D 87.043 656 67 14 2241 2890 573905673 573906316 0.000000e+00 725.0
15 TraesCS7B01G326300 chr2D 89.412 85 9 0 1668 1752 527547520 527547604 1.100000e-19 108.0
16 TraesCS7B01G326300 chr5B 84.404 109 17 0 1668 1776 407817230 407817122 1.100000e-19 108.0
17 TraesCS7B01G326300 chr5A 83.929 112 17 1 1668 1778 448091107 448091218 3.940000e-19 106.0
18 TraesCS7B01G326300 chr4D 84.762 105 16 0 1668 1772 398670324 398670428 3.940000e-19 106.0
19 TraesCS7B01G326300 chr4A 84.762 105 16 0 1668 1772 56145034 56145138 3.940000e-19 106.0


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 TraesCS7B01G326300 chr7B 579824401 579827290 2889 False 5337.0 5337 100.0000 1 2890 1 chr7B.!!$F1 2889
1 TraesCS7B01G326300 chr7A 616552194 616554259 2065 True 2449.0 2449 88.2990 6 2086 1 chr7A.!!$R2 2080
2 TraesCS7B01G326300 chr7A 700122467 700123117 650 True 832.0 832 89.8020 2239 2890 1 chr7A.!!$R3 651
3 TraesCS7B01G326300 chr7A 105224786 105225414 628 True 767.0 767 88.7320 2240 2873 1 chr7A.!!$R1 633
4 TraesCS7B01G326300 chr7A 8798512 8799168 656 False 754.0 754 87.6510 2221 2872 1 chr7A.!!$F1 651
5 TraesCS7B01G326300 chr7D 536513711 536515785 2074 False 924.1 1764 84.5045 79 2107 2 chr7D.!!$F2 2028
6 TraesCS7B01G326300 chr7D 501439889 501440543 654 False 773.0 773 88.0660 2236 2890 1 chr7D.!!$F1 654
7 TraesCS7B01G326300 chr5D 559100917 559101563 646 False 765.0 765 88.0920 2241 2890 1 chr5D.!!$F2 649
8 TraesCS7B01G326300 chr6D 461852368 461853013 645 True 761.0 761 88.0370 2245 2890 1 chr6D.!!$R1 645
9 TraesCS7B01G326300 chr2A 12319689 12320338 649 True 749.0 749 87.5950 2239 2890 1 chr2A.!!$R1 651
10 TraesCS7B01G326300 chr4B 532717827 532718479 652 False 736.0 736 87.1790 2221 2873 1 chr4B.!!$F2 652
11 TraesCS7B01G326300 chr2D 573905673 573906316 643 False 725.0 725 87.0430 2241 2890 1 chr2D.!!$F2 649

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
199 219 0.041135 GACGTCGATCGATCCACTCC 60.041 60.0 22.50 5.29 42.86 3.85 F
388 527 0.107459 GATCTGGACCAGGCAGAACC 60.107 60.0 21.56 0.11 39.61 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1155 1384 0.252479 TCTCTCCCGTACTTCTCGCT 59.748 55.0 0.0 0.00 0.00 4.93 R
2268 2525 0.110238 CGCCAGATCAAACGGTTGTG 60.110 55.0 13.9 4.08 36.07 3.33 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
35 40 4.832590 ATTAAGTAGGTCCACGATCGAG 57.167 45.455 24.34 14.64 0.00 4.04
42 47 1.202154 GGTCCACGATCGAGTGTGTAG 60.202 57.143 24.34 0.00 40.33 2.74
46 51 0.170561 ACGATCGAGTGTGTAGGTGC 59.829 55.000 24.34 0.00 0.00 5.01
48 53 1.402325 CGATCGAGTGTGTAGGTGCAA 60.402 52.381 10.26 0.00 0.00 4.08
133 150 0.179158 GACGAGACGGCTTCTTCCTC 60.179 60.000 0.00 0.00 33.22 3.71
148 168 3.385384 CTCAGAGCTCCGGCACCA 61.385 66.667 10.93 0.00 41.70 4.17
150 170 2.249413 CTCAGAGCTCCGGCACCAAT 62.249 60.000 10.93 0.00 41.70 3.16
153 173 0.107456 AGAGCTCCGGCACCAATATG 59.893 55.000 10.93 0.00 41.70 1.78
166 186 6.579865 GGCACCAATATGTAGTTAGTACTGT 58.420 40.000 5.39 0.00 35.78 3.55
172 192 7.709613 CCAATATGTAGTTAGTACTGTTCCACC 59.290 40.741 5.39 0.00 35.78 4.61
199 219 0.041135 GACGTCGATCGATCCACTCC 60.041 60.000 22.50 5.29 42.86 3.85
296 316 5.692115 TCCTAGGAACATTAGTCATGCAA 57.308 39.130 9.71 0.00 36.14 4.08
300 320 4.012374 AGGAACATTAGTCATGCAAGTGG 58.988 43.478 0.00 0.00 36.14 4.00
301 321 3.758554 GGAACATTAGTCATGCAAGTGGT 59.241 43.478 0.00 0.00 36.14 4.16
302 322 4.142600 GGAACATTAGTCATGCAAGTGGTC 60.143 45.833 0.00 0.00 36.14 4.02
347 378 1.798223 CTGCTTACTGCTTTGCGTACA 59.202 47.619 0.00 0.00 43.37 2.90
388 527 0.107459 GATCTGGACCAGGCAGAACC 60.107 60.000 21.56 0.11 39.61 3.62
390 529 3.612247 CTGGACCAGGCAGAACCGG 62.612 68.421 14.26 0.00 46.52 5.28
422 573 5.678955 AAGTCCAAGAACATAGTAGGGAC 57.321 43.478 0.00 0.00 42.75 4.46
554 708 3.490348 CACTTGAACAAATCCACCTCCT 58.510 45.455 0.00 0.00 0.00 3.69
555 709 3.503748 CACTTGAACAAATCCACCTCCTC 59.496 47.826 0.00 0.00 0.00 3.71
631 785 5.252969 TGGAAACTTAAGATGCATGATGC 57.747 39.130 11.12 11.12 45.29 3.91
650 804 1.278637 CGTCGGTTTCACAAGCACC 59.721 57.895 0.00 0.00 0.00 5.01
669 831 3.699538 CACCCTAATAGCCCTTTCAAACC 59.300 47.826 0.00 0.00 0.00 3.27
672 834 4.775253 CCCTAATAGCCCTTTCAAACCAAA 59.225 41.667 0.00 0.00 0.00 3.28
673 835 5.247337 CCCTAATAGCCCTTTCAAACCAAAA 59.753 40.000 0.00 0.00 0.00 2.44
674 836 6.239743 CCCTAATAGCCCTTTCAAACCAAAAA 60.240 38.462 0.00 0.00 0.00 1.94
755 943 7.932335 AGTGTCGATCAACTACTCCTTATTAG 58.068 38.462 0.00 0.00 0.00 1.73
777 981 1.400142 CAAGCAAGACAAACGTCCACA 59.600 47.619 0.00 0.00 33.60 4.17
840 1044 2.224066 ACGAAACTGACCTTGTCCAGAG 60.224 50.000 0.00 0.00 0.00 3.35
915 1123 3.653352 AGGCTTGGTCCTTCTTAAGTTCT 59.347 43.478 1.63 0.00 30.82 3.01
931 1139 2.359531 AGTTCTTAGCCAGCTAGCTACG 59.640 50.000 18.86 12.10 44.86 3.51
932 1140 1.319541 TCTTAGCCAGCTAGCTACGG 58.680 55.000 18.86 16.77 44.86 4.02
933 1141 1.033574 CTTAGCCAGCTAGCTACGGT 58.966 55.000 18.86 17.72 44.86 4.83
934 1142 2.158711 TCTTAGCCAGCTAGCTACGGTA 60.159 50.000 18.86 16.69 44.86 4.02
1142 1371 0.371645 GGCAAAGAAGAGCGTGATCG 59.628 55.000 0.00 0.00 40.37 3.69
1145 1374 1.071605 AAAGAAGAGCGTGATCGTGC 58.928 50.000 0.96 0.96 39.49 5.34
1146 1375 0.244994 AAGAAGAGCGTGATCGTGCT 59.755 50.000 10.92 10.92 45.90 4.40
1155 1384 2.324860 CGTGATCGTGCTGAACAAGTA 58.675 47.619 0.00 0.00 30.44 2.24
1163 1392 2.410053 GTGCTGAACAAGTAGCGAGAAG 59.590 50.000 0.00 0.00 42.74 2.85
1172 1401 1.209019 AGTAGCGAGAAGTACGGGAGA 59.791 52.381 0.00 0.00 0.00 3.71
1232 1461 4.570663 GGGCCGATCGTCCTCGTG 62.571 72.222 15.73 0.00 36.93 4.35
1305 1534 0.912486 GGGGCAGGAAGAAGAAGCTA 59.088 55.000 0.00 0.00 0.00 3.32
1408 1642 1.048601 TTGGAACCGCTTCTGAGTCT 58.951 50.000 0.00 0.00 0.00 3.24
1506 1758 2.042831 GGCACGGCAGCTGAATCTT 61.043 57.895 20.43 0.00 34.17 2.40
1565 1817 0.667453 GCCAGGTACCTACTACGCTC 59.333 60.000 15.80 0.00 0.00 5.03
1569 1821 3.401182 CAGGTACCTACTACGCTCCTAG 58.599 54.545 15.80 0.00 0.00 3.02
1651 1903 5.009010 AGTGTGTGATGTTGTCCTGAAATTC 59.991 40.000 0.00 0.00 0.00 2.17
1653 1905 5.593909 TGTGTGATGTTGTCCTGAAATTCTT 59.406 36.000 0.00 0.00 0.00 2.52
1670 1922 3.797451 TCTTTGTGCATGCAAAACAGA 57.203 38.095 23.01 22.13 37.82 3.41
1754 2006 1.667830 CGAGAACCAGCGGCTGAAA 60.668 57.895 30.52 0.00 32.44 2.69
1891 2143 2.102588 AGGTCGCCGTGAATAATTAGCT 59.897 45.455 0.00 0.00 0.00 3.32
1899 2151 4.130118 CGTGAATAATTAGCTTGCCTCCT 58.870 43.478 0.00 0.00 0.00 3.69
1902 2154 5.008118 GTGAATAATTAGCTTGCCTCCTCAC 59.992 44.000 0.00 0.00 0.00 3.51
1916 2168 5.132648 TGCCTCCTCACATATAGTTTTGGAT 59.867 40.000 0.00 0.00 0.00 3.41
1918 2170 6.000219 CCTCCTCACATATAGTTTTGGATGG 59.000 44.000 0.00 0.00 0.00 3.51
1926 2178 7.970061 CACATATAGTTTTGGATGGTTCAGTTG 59.030 37.037 0.00 0.00 0.00 3.16
1931 2184 5.011023 AGTTTTGGATGGTTCAGTTGATTCC 59.989 40.000 0.00 0.00 0.00 3.01
1976 2229 7.759886 TCTGATAACTTTTAGTCCTTGACGATG 59.240 37.037 0.00 0.00 37.67 3.84
1977 2230 6.312918 TGATAACTTTTAGTCCTTGACGATGC 59.687 38.462 0.00 0.00 37.67 3.91
2029 2282 3.711190 TGCAGCCTCAGTCATCCTATTTA 59.289 43.478 0.00 0.00 0.00 1.40
2036 2289 7.836183 AGCCTCAGTCATCCTATTTATTTGTTT 59.164 33.333 0.00 0.00 0.00 2.83
2077 2330 7.723616 ACGAAATAATTGTTCATGGATGGGATA 59.276 33.333 0.00 0.00 0.00 2.59
2086 2339 7.353525 TGTTCATGGATGGGATACAAAACTAT 58.646 34.615 0.00 0.00 39.74 2.12
2088 2341 9.003658 GTTCATGGATGGGATACAAAACTATAG 57.996 37.037 0.00 0.00 39.74 1.31
2089 2342 8.504811 TCATGGATGGGATACAAAACTATAGA 57.495 34.615 6.78 0.00 39.74 1.98
2098 2351 9.628500 GGGATACAAAACTATAGAAGGAAATGT 57.372 33.333 6.78 4.44 39.74 2.71
2121 2374 9.754382 ATGTAATTTGTTGGATTGATCTTATGC 57.246 29.630 0.00 0.00 0.00 3.14
2122 2375 8.196771 TGTAATTTGTTGGATTGATCTTATGCC 58.803 33.333 0.00 0.00 0.00 4.40
2123 2376 7.427989 AATTTGTTGGATTGATCTTATGCCT 57.572 32.000 0.00 0.00 0.00 4.75
2124 2377 6.455360 TTTGTTGGATTGATCTTATGCCTC 57.545 37.500 0.00 0.00 0.00 4.70
2125 2378 4.464008 TGTTGGATTGATCTTATGCCTCC 58.536 43.478 0.00 0.00 0.00 4.30
2126 2379 4.166725 TGTTGGATTGATCTTATGCCTCCT 59.833 41.667 0.00 0.00 0.00 3.69
2127 2380 5.136105 GTTGGATTGATCTTATGCCTCCTT 58.864 41.667 0.00 0.00 0.00 3.36
2128 2381 4.978099 TGGATTGATCTTATGCCTCCTTC 58.022 43.478 0.00 0.00 0.00 3.46
2129 2382 4.662179 TGGATTGATCTTATGCCTCCTTCT 59.338 41.667 0.00 0.00 0.00 2.85
2130 2383 5.846164 TGGATTGATCTTATGCCTCCTTCTA 59.154 40.000 0.00 0.00 0.00 2.10
2131 2384 6.169800 GGATTGATCTTATGCCTCCTTCTAC 58.830 44.000 0.00 0.00 0.00 2.59
2132 2385 6.013812 GGATTGATCTTATGCCTCCTTCTACT 60.014 42.308 0.00 0.00 0.00 2.57
2133 2386 6.412362 TTGATCTTATGCCTCCTTCTACTC 57.588 41.667 0.00 0.00 0.00 2.59
2134 2387 5.710646 TGATCTTATGCCTCCTTCTACTCT 58.289 41.667 0.00 0.00 0.00 3.24
2135 2388 5.772672 TGATCTTATGCCTCCTTCTACTCTC 59.227 44.000 0.00 0.00 0.00 3.20
2136 2389 5.396057 TCTTATGCCTCCTTCTACTCTCT 57.604 43.478 0.00 0.00 0.00 3.10
2137 2390 5.772004 TCTTATGCCTCCTTCTACTCTCTT 58.228 41.667 0.00 0.00 0.00 2.85
2138 2391 6.198639 TCTTATGCCTCCTTCTACTCTCTTT 58.801 40.000 0.00 0.00 0.00 2.52
2139 2392 6.670027 TCTTATGCCTCCTTCTACTCTCTTTT 59.330 38.462 0.00 0.00 0.00 2.27
2140 2393 4.810191 TGCCTCCTTCTACTCTCTTTTC 57.190 45.455 0.00 0.00 0.00 2.29
2141 2394 3.515901 TGCCTCCTTCTACTCTCTTTTCC 59.484 47.826 0.00 0.00 0.00 3.13
2142 2395 3.772572 GCCTCCTTCTACTCTCTTTTCCT 59.227 47.826 0.00 0.00 0.00 3.36
2143 2396 4.142026 GCCTCCTTCTACTCTCTTTTCCTC 60.142 50.000 0.00 0.00 0.00 3.71
2144 2397 5.269189 CCTCCTTCTACTCTCTTTTCCTCT 58.731 45.833 0.00 0.00 0.00 3.69
2145 2398 5.719563 CCTCCTTCTACTCTCTTTTCCTCTT 59.280 44.000 0.00 0.00 0.00 2.85
2146 2399 6.212589 CCTCCTTCTACTCTCTTTTCCTCTTT 59.787 42.308 0.00 0.00 0.00 2.52
2147 2400 7.234661 TCCTTCTACTCTCTTTTCCTCTTTC 57.765 40.000 0.00 0.00 0.00 2.62
2148 2401 6.782988 TCCTTCTACTCTCTTTTCCTCTTTCA 59.217 38.462 0.00 0.00 0.00 2.69
2149 2402 7.039363 TCCTTCTACTCTCTTTTCCTCTTTCAG 60.039 40.741 0.00 0.00 0.00 3.02
2150 2403 6.597832 TCTACTCTCTTTTCCTCTTTCAGG 57.402 41.667 0.00 0.00 45.15 3.86
2151 2404 4.014569 ACTCTCTTTTCCTCTTTCAGGC 57.985 45.455 0.00 0.00 43.08 4.85
2152 2405 3.392616 ACTCTCTTTTCCTCTTTCAGGCA 59.607 43.478 0.00 0.00 43.08 4.75
2153 2406 4.042684 ACTCTCTTTTCCTCTTTCAGGCAT 59.957 41.667 0.00 0.00 43.08 4.40
2154 2407 4.583871 TCTCTTTTCCTCTTTCAGGCATC 58.416 43.478 0.00 0.00 43.08 3.91
2155 2408 4.288105 TCTCTTTTCCTCTTTCAGGCATCT 59.712 41.667 0.00 0.00 43.08 2.90
2156 2409 5.485353 TCTCTTTTCCTCTTTCAGGCATCTA 59.515 40.000 0.00 0.00 43.08 1.98
2157 2410 5.738909 TCTTTTCCTCTTTCAGGCATCTAG 58.261 41.667 0.00 0.00 43.08 2.43
2158 2411 3.550437 TTCCTCTTTCAGGCATCTAGC 57.450 47.619 0.00 0.00 43.08 3.42
2159 2412 2.756907 TCCTCTTTCAGGCATCTAGCT 58.243 47.619 0.00 0.00 43.08 3.32
2160 2413 3.110705 TCCTCTTTCAGGCATCTAGCTT 58.889 45.455 0.00 0.00 43.08 3.74
2161 2414 3.133721 TCCTCTTTCAGGCATCTAGCTTC 59.866 47.826 0.00 0.00 43.08 3.86
2162 2415 3.465871 CTCTTTCAGGCATCTAGCTTCC 58.534 50.000 0.00 0.00 44.79 3.46
2163 2416 3.110705 TCTTTCAGGCATCTAGCTTCCT 58.889 45.455 0.00 0.00 44.79 3.36
2164 2417 3.521126 TCTTTCAGGCATCTAGCTTCCTT 59.479 43.478 0.00 0.00 44.79 3.36
2165 2418 4.018960 TCTTTCAGGCATCTAGCTTCCTTT 60.019 41.667 0.00 0.00 44.79 3.11
2166 2419 3.272574 TCAGGCATCTAGCTTCCTTTG 57.727 47.619 0.00 0.00 44.79 2.77
2167 2420 1.674962 CAGGCATCTAGCTTCCTTTGC 59.325 52.381 0.00 0.00 44.79 3.68
2168 2421 1.563410 AGGCATCTAGCTTCCTTTGCT 59.437 47.619 0.00 0.00 44.79 3.91
2169 2422 2.025510 AGGCATCTAGCTTCCTTTGCTT 60.026 45.455 0.00 0.00 44.79 3.91
2170 2423 3.200825 AGGCATCTAGCTTCCTTTGCTTA 59.799 43.478 0.00 0.00 44.79 3.09
2171 2424 3.947834 GGCATCTAGCTTCCTTTGCTTAA 59.052 43.478 0.00 0.00 44.79 1.85
2172 2425 4.399303 GGCATCTAGCTTCCTTTGCTTAAA 59.601 41.667 0.00 0.00 44.79 1.52
2173 2426 5.449725 GGCATCTAGCTTCCTTTGCTTAAAG 60.450 44.000 0.00 0.00 44.79 1.85
2174 2427 5.124617 GCATCTAGCTTCCTTTGCTTAAAGT 59.875 40.000 0.00 0.00 41.46 2.66
2175 2428 6.549952 CATCTAGCTTCCTTTGCTTAAAGTG 58.450 40.000 0.00 0.00 41.46 3.16
2176 2429 5.621193 TCTAGCTTCCTTTGCTTAAAGTGT 58.379 37.500 0.00 0.00 41.46 3.55
2177 2430 6.062095 TCTAGCTTCCTTTGCTTAAAGTGTT 58.938 36.000 0.00 0.00 41.46 3.32
2178 2431 5.598416 AGCTTCCTTTGCTTAAAGTGTTT 57.402 34.783 0.00 0.00 37.52 2.83
2179 2432 5.592054 AGCTTCCTTTGCTTAAAGTGTTTC 58.408 37.500 0.00 0.00 37.52 2.78
2180 2433 5.360999 AGCTTCCTTTGCTTAAAGTGTTTCT 59.639 36.000 0.00 0.00 37.52 2.52
2181 2434 6.042777 GCTTCCTTTGCTTAAAGTGTTTCTT 58.957 36.000 0.00 0.00 38.10 2.52
2182 2435 6.019559 GCTTCCTTTGCTTAAAGTGTTTCTTG 60.020 38.462 0.00 0.00 36.40 3.02
2183 2436 6.524101 TCCTTTGCTTAAAGTGTTTCTTGT 57.476 33.333 0.00 0.00 36.40 3.16
2184 2437 6.930731 TCCTTTGCTTAAAGTGTTTCTTGTT 58.069 32.000 0.00 0.00 36.40 2.83
2185 2438 8.057536 TCCTTTGCTTAAAGTGTTTCTTGTTA 57.942 30.769 0.00 0.00 36.40 2.41
2186 2439 8.524487 TCCTTTGCTTAAAGTGTTTCTTGTTAA 58.476 29.630 0.00 0.00 36.40 2.01
2187 2440 8.807581 CCTTTGCTTAAAGTGTTTCTTGTTAAG 58.192 33.333 0.00 0.00 36.40 1.85
2188 2441 9.567848 CTTTGCTTAAAGTGTTTCTTGTTAAGA 57.432 29.630 5.82 0.00 36.40 2.10
2189 2442 9.915629 TTTGCTTAAAGTGTTTCTTGTTAAGAA 57.084 25.926 5.82 0.14 45.30 2.52
2191 2444 9.730420 TGCTTAAAGTGTTTCTTGTTAAGAATC 57.270 29.630 4.98 5.41 46.15 2.52
2192 2445 9.952188 GCTTAAAGTGTTTCTTGTTAAGAATCT 57.048 29.630 4.98 2.84 46.15 2.40
2196 2449 9.931210 AAAGTGTTTCTTGTTAAGAATCTTACG 57.069 29.630 1.61 0.00 46.15 3.18
2197 2450 8.084590 AGTGTTTCTTGTTAAGAATCTTACGG 57.915 34.615 1.61 0.00 46.15 4.02
2198 2451 7.172703 AGTGTTTCTTGTTAAGAATCTTACGGG 59.827 37.037 1.61 0.00 46.15 5.28
2199 2452 6.428771 TGTTTCTTGTTAAGAATCTTACGGGG 59.571 38.462 1.61 0.00 46.15 5.73
2200 2453 4.510571 TCTTGTTAAGAATCTTACGGGGC 58.489 43.478 1.61 0.00 33.83 5.80
2201 2454 3.985019 TGTTAAGAATCTTACGGGGCA 57.015 42.857 1.61 0.00 0.00 5.36
2202 2455 4.497291 TGTTAAGAATCTTACGGGGCAT 57.503 40.909 1.61 0.00 0.00 4.40
2203 2456 4.196193 TGTTAAGAATCTTACGGGGCATG 58.804 43.478 1.61 0.00 0.00 4.06
2204 2457 4.196971 GTTAAGAATCTTACGGGGCATGT 58.803 43.478 1.61 0.00 0.00 3.21
2205 2458 5.104859 TGTTAAGAATCTTACGGGGCATGTA 60.105 40.000 1.61 0.00 0.00 2.29
2206 2459 3.470645 AGAATCTTACGGGGCATGTAC 57.529 47.619 0.00 0.00 0.00 2.90
2207 2460 2.104281 AGAATCTTACGGGGCATGTACC 59.896 50.000 0.00 0.00 0.00 3.34
2268 2525 7.910683 GGATTATTTTCAAAGATCCGACACTTC 59.089 37.037 0.00 0.00 30.17 3.01
2269 2526 7.737972 TTATTTTCAAAGATCCGACACTTCA 57.262 32.000 0.00 0.00 0.00 3.02
2270 2527 5.418310 TTTTCAAAGATCCGACACTTCAC 57.582 39.130 0.00 0.00 0.00 3.18
2271 2528 3.744238 TCAAAGATCCGACACTTCACA 57.256 42.857 0.00 0.00 0.00 3.58
2273 2530 3.807622 TCAAAGATCCGACACTTCACAAC 59.192 43.478 0.00 0.00 0.00 3.32
2295 2554 2.478370 CGTTTGATCTGGCGCATTCATT 60.478 45.455 10.83 0.00 0.00 2.57
2310 2569 1.678635 CATTGGCCCGGCTCTTTCA 60.679 57.895 9.86 0.00 0.00 2.69
2349 2608 1.298788 GTGTTGCCGAACCGTTTGG 60.299 57.895 12.73 12.73 42.84 3.28
2398 2657 7.750229 TTGCAAGAGAGATTTTGTTGTAGAT 57.250 32.000 0.00 0.00 0.00 1.98
2474 2736 2.984471 CAACACAGATGATTGTTGCAGC 59.016 45.455 1.80 0.00 44.42 5.25
2475 2737 2.232399 ACACAGATGATTGTTGCAGCA 58.768 42.857 0.00 0.00 0.00 4.41
2602 2868 2.656069 TAGGTCTTGGGCGGCTGAC 61.656 63.158 9.56 14.34 0.00 3.51
2620 2886 3.295273 AGAGGCTGCGTGTCGTCA 61.295 61.111 0.00 0.00 0.00 4.35
2758 3025 7.346751 TCTCTAATTTTCTGCAACAAAACCT 57.653 32.000 5.56 0.75 0.00 3.50
2760 3027 7.920682 TCTCTAATTTTCTGCAACAAAACCTTC 59.079 33.333 5.56 0.00 0.00 3.46
2761 3028 6.983890 TCTAATTTTCTGCAACAAAACCTTCC 59.016 34.615 5.56 0.00 0.00 3.46
2765 3032 2.430332 TCTGCAACAAAACCTTCCTTGG 59.570 45.455 0.00 0.00 0.00 3.61
2786 3053 9.852091 CCTTGGAAAATCTTTTCTTCTCTAATG 57.148 33.333 13.46 0.00 44.49 1.90
2802 3069 0.111061 AATGTCCTGCAGCAAGACCA 59.889 50.000 19.53 9.53 0.00 4.02
2803 3070 0.607489 ATGTCCTGCAGCAAGACCAC 60.607 55.000 19.53 0.00 0.00 4.16
2804 3071 1.227943 GTCCTGCAGCAAGACCACA 60.228 57.895 12.58 0.00 0.00 4.17
2805 3072 0.607489 GTCCTGCAGCAAGACCACAT 60.607 55.000 12.58 0.00 0.00 3.21
2806 3073 0.321919 TCCTGCAGCAAGACCACATC 60.322 55.000 8.66 0.00 0.00 3.06
2843 3115 9.479549 TTCTTCCCTATTTTTCTGCAATAAGAT 57.520 29.630 0.00 0.00 0.00 2.40
2875 3147 4.582701 AAAATTGCAACAACATCTCGGA 57.417 36.364 0.00 0.00 0.00 4.55
2876 3148 3.837213 AATTGCAACAACATCTCGGAG 57.163 42.857 0.00 0.00 0.00 4.63
2879 3151 1.970917 GCAACAACATCTCGGAGGCG 61.971 60.000 4.96 0.00 0.00 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.995487 CCTACTTAATTTCCACGGCTATCC 59.005 45.833 0.00 0.00 0.00 2.59
1 2 5.608449 ACCTACTTAATTTCCACGGCTATC 58.392 41.667 0.00 0.00 0.00 2.08
2 3 5.454329 GGACCTACTTAATTTCCACGGCTAT 60.454 44.000 0.00 0.00 0.00 2.97
3 4 4.141869 GGACCTACTTAATTTCCACGGCTA 60.142 45.833 0.00 0.00 0.00 3.93
4 5 3.370209 GGACCTACTTAATTTCCACGGCT 60.370 47.826 0.00 0.00 0.00 5.52
14 15 4.036498 CACTCGATCGTGGACCTACTTAAT 59.964 45.833 20.14 0.00 0.00 1.40
35 40 2.231478 TCTCTAGCTTGCACCTACACAC 59.769 50.000 0.00 0.00 0.00 3.82
42 47 2.744741 GTTTCCTTCTCTAGCTTGCACC 59.255 50.000 0.00 0.00 0.00 5.01
46 51 4.249661 GTCCAGTTTCCTTCTCTAGCTTG 58.750 47.826 0.00 0.00 0.00 4.01
48 53 2.494073 CGTCCAGTTTCCTTCTCTAGCT 59.506 50.000 0.00 0.00 0.00 3.32
133 150 0.107456 ATATTGGTGCCGGAGCTCTG 59.893 55.000 16.14 16.14 40.80 3.35
148 168 8.370266 TGGTGGAACAGTACTAACTACATATT 57.630 34.615 0.00 0.00 41.80 1.28
150 170 7.400599 CTGGTGGAACAGTACTAACTACATA 57.599 40.000 0.00 0.00 41.80 2.29
166 186 1.870055 GACGTCGCCTACTGGTGGAA 61.870 60.000 0.00 0.00 43.72 3.53
172 192 1.367782 CGATCGACGTCGCCTACTG 60.368 63.158 32.19 14.37 39.60 2.74
199 219 5.359756 TGATGATAATCGGGACAAGTCAAG 58.640 41.667 2.29 0.00 0.00 3.02
255 275 9.892444 TCCTAGGAAATGATACTCCTATTTGTA 57.108 33.333 9.71 0.00 42.22 2.41
257 277 9.495572 GTTCCTAGGAAATGATACTCCTATTTG 57.504 37.037 25.89 0.00 42.22 2.32
258 278 9.225682 TGTTCCTAGGAAATGATACTCCTATTT 57.774 33.333 25.89 0.00 42.22 1.40
259 279 8.798975 TGTTCCTAGGAAATGATACTCCTATT 57.201 34.615 25.89 0.00 42.22 1.73
260 280 8.980832 ATGTTCCTAGGAAATGATACTCCTAT 57.019 34.615 25.89 0.25 42.22 2.57
261 281 8.798975 AATGTTCCTAGGAAATGATACTCCTA 57.201 34.615 25.89 0.00 42.29 2.94
262 282 7.698163 AATGTTCCTAGGAAATGATACTCCT 57.302 36.000 25.89 1.39 44.49 3.69
263 283 8.652290 ACTAATGTTCCTAGGAAATGATACTCC 58.348 37.037 25.89 10.54 35.75 3.85
264 284 9.699703 GACTAATGTTCCTAGGAAATGATACTC 57.300 37.037 25.89 11.24 35.75 2.59
265 285 9.213777 TGACTAATGTTCCTAGGAAATGATACT 57.786 33.333 25.89 8.85 35.75 2.12
296 316 1.859427 CTGCATGCGCTTTGACCACT 61.859 55.000 14.09 0.00 39.64 4.00
300 320 2.505557 GCCTGCATGCGCTTTGAC 60.506 61.111 14.09 3.94 39.64 3.18
347 378 1.265454 GGGAGACTCACCCCGAACAT 61.265 60.000 4.53 0.00 41.38 2.71
388 527 2.094700 TCTTGGACTTTCGAGATCACCG 60.095 50.000 0.00 0.00 0.00 4.94
390 529 4.307432 TGTTCTTGGACTTTCGAGATCAC 58.693 43.478 0.00 0.00 0.00 3.06
422 573 9.378551 TGTGGAAATGTATTGTTTAGCTAGTAG 57.621 33.333 0.00 0.00 0.00 2.57
467 618 2.494471 AGCATGCACTTAGGTACACGTA 59.506 45.455 21.98 0.00 0.00 3.57
468 619 1.275291 AGCATGCACTTAGGTACACGT 59.725 47.619 21.98 0.00 0.00 4.49
469 620 2.010145 AGCATGCACTTAGGTACACG 57.990 50.000 21.98 0.00 0.00 4.49
470 621 2.420022 CCAAGCATGCACTTAGGTACAC 59.580 50.000 21.98 0.00 0.00 2.90
471 622 2.039746 ACCAAGCATGCACTTAGGTACA 59.960 45.455 21.98 0.00 32.69 2.90
472 623 2.678336 GACCAAGCATGCACTTAGGTAC 59.322 50.000 21.98 9.69 33.81 3.34
554 708 1.411246 GCATACTCATACGGTGGGTGA 59.589 52.381 5.91 0.00 42.93 4.02
555 709 1.138069 TGCATACTCATACGGTGGGTG 59.862 52.381 5.91 0.00 42.93 4.61
631 785 1.278637 GTGCTTGTGAAACCGACGG 59.721 57.895 13.61 13.61 34.36 4.79
650 804 5.993748 TTTGGTTTGAAAGGGCTATTAGG 57.006 39.130 0.00 0.00 0.00 2.69
755 943 1.668751 TGGACGTTTGTCTTGCTTGTC 59.331 47.619 0.00 0.00 44.83 3.18
777 981 6.925165 CGACAATAACACGGGTAATTATAGGT 59.075 38.462 0.00 0.00 0.00 3.08
915 1123 2.228059 CTACCGTAGCTAGCTGGCTAA 58.772 52.381 30.59 15.90 44.89 3.09
931 1139 4.254492 GTTGTGATGGAGAAGAACCTACC 58.746 47.826 0.00 0.00 0.00 3.18
932 1140 4.894784 TGTTGTGATGGAGAAGAACCTAC 58.105 43.478 0.00 0.00 0.00 3.18
933 1141 5.560722 TTGTTGTGATGGAGAAGAACCTA 57.439 39.130 0.00 0.00 0.00 3.08
934 1142 4.437682 TTGTTGTGATGGAGAAGAACCT 57.562 40.909 0.00 0.00 0.00 3.50
977 1185 2.023318 CCAGCTCTCGTACGTAGGG 58.977 63.158 16.05 12.15 0.00 3.53
1142 1371 2.065993 TCTCGCTACTTGTTCAGCAC 57.934 50.000 0.00 0.00 37.66 4.40
1145 1374 3.846896 CGTACTTCTCGCTACTTGTTCAG 59.153 47.826 0.00 0.00 0.00 3.02
1146 1375 3.365666 CCGTACTTCTCGCTACTTGTTCA 60.366 47.826 0.00 0.00 0.00 3.18
1155 1384 0.252479 TCTCTCCCGTACTTCTCGCT 59.748 55.000 0.00 0.00 0.00 4.93
1163 1392 0.606604 TGCACCTTTCTCTCCCGTAC 59.393 55.000 0.00 0.00 0.00 3.67
1172 1401 0.890996 CTTCCGCCTTGCACCTTTCT 60.891 55.000 0.00 0.00 0.00 2.52
1232 1461 1.080705 CTCAGACACGGACCGTTCC 60.081 63.158 19.02 12.04 38.32 3.62
1408 1642 5.295292 GCAGAACAGAAGCTTGAGCATATAA 59.705 40.000 2.10 0.00 45.16 0.98
1506 1758 1.229496 TTCCACCTGCCTGGAGCTA 60.229 57.895 0.00 0.00 41.53 3.32
1512 1764 1.601759 CCACACTTCCACCTGCCTG 60.602 63.158 0.00 0.00 0.00 4.85
1565 1817 3.492337 CTTGGTAGAGCTAGGACCTAGG 58.508 54.545 26.58 7.41 34.88 3.02
1569 1821 1.410882 CTGCTTGGTAGAGCTAGGACC 59.589 57.143 4.54 4.54 43.11 4.46
1651 1903 3.617706 TGTTCTGTTTTGCATGCACAAAG 59.382 39.130 22.58 18.36 40.43 2.77
1653 1905 3.242549 TGTTCTGTTTTGCATGCACAA 57.757 38.095 22.58 18.48 0.00 3.33
1670 1922 0.947244 CCGTCTGCTTCAGCTTTGTT 59.053 50.000 0.00 0.00 42.66 2.83
1734 1986 2.765250 TTCAGCCGCTGGTTCTCGTC 62.765 60.000 20.23 0.00 31.51 4.20
1806 2058 1.968540 GCTGGGCAAAGAGCTTCGT 60.969 57.895 0.00 0.00 44.79 3.85
1839 2091 1.681780 CGGGCATAAGTTCACCATGGT 60.682 52.381 13.00 13.00 0.00 3.55
1845 2097 1.369625 CAGGACGGGCATAAGTTCAC 58.630 55.000 0.00 0.00 0.00 3.18
1891 2143 5.045213 TCCAAAACTATATGTGAGGAGGCAA 60.045 40.000 0.00 0.00 0.00 4.52
1899 2151 7.402054 ACTGAACCATCCAAAACTATATGTGA 58.598 34.615 0.00 0.00 0.00 3.58
1902 2154 8.279970 TCAACTGAACCATCCAAAACTATATG 57.720 34.615 0.00 0.00 0.00 1.78
1916 2168 2.901192 TCTACGGGAATCAACTGAACCA 59.099 45.455 8.04 0.00 0.00 3.67
1918 2170 4.189639 AGTCTACGGGAATCAACTGAAC 57.810 45.455 0.00 0.00 0.00 3.18
1948 2201 6.531948 CGTCAAGGACTAAAAGTTATCAGAGG 59.468 42.308 0.00 0.00 0.00 3.69
2001 2254 3.696051 GGATGACTGAGGCTGCATTTAAA 59.304 43.478 0.50 0.00 0.00 1.52
2004 2257 1.284198 AGGATGACTGAGGCTGCATTT 59.716 47.619 0.50 0.00 0.00 2.32
2005 2258 0.917533 AGGATGACTGAGGCTGCATT 59.082 50.000 0.50 0.00 0.00 3.56
2088 2341 9.657419 ATCAATCCAACAAATTACATTTCCTTC 57.343 29.630 0.00 0.00 0.00 3.46
2089 2342 9.657419 GATCAATCCAACAAATTACATTTCCTT 57.343 29.630 0.00 0.00 0.00 3.36
2098 2351 8.537728 AGGCATAAGATCAATCCAACAAATTA 57.462 30.769 0.00 0.00 0.00 1.40
2107 2360 5.240013 AGAAGGAGGCATAAGATCAATCC 57.760 43.478 0.00 0.00 0.00 3.01
2108 2361 7.003402 AGTAGAAGGAGGCATAAGATCAATC 57.997 40.000 0.00 0.00 0.00 2.67
2109 2362 6.786959 AGAGTAGAAGGAGGCATAAGATCAAT 59.213 38.462 0.00 0.00 0.00 2.57
2110 2363 6.139671 AGAGTAGAAGGAGGCATAAGATCAA 58.860 40.000 0.00 0.00 0.00 2.57
2111 2364 5.710646 AGAGTAGAAGGAGGCATAAGATCA 58.289 41.667 0.00 0.00 0.00 2.92
2112 2365 6.010219 AGAGAGTAGAAGGAGGCATAAGATC 58.990 44.000 0.00 0.00 0.00 2.75
2113 2366 5.964288 AGAGAGTAGAAGGAGGCATAAGAT 58.036 41.667 0.00 0.00 0.00 2.40
2114 2367 5.396057 AGAGAGTAGAAGGAGGCATAAGA 57.604 43.478 0.00 0.00 0.00 2.10
2115 2368 6.478512 AAAGAGAGTAGAAGGAGGCATAAG 57.521 41.667 0.00 0.00 0.00 1.73
2116 2369 6.127026 GGAAAAGAGAGTAGAAGGAGGCATAA 60.127 42.308 0.00 0.00 0.00 1.90
2117 2370 5.364157 GGAAAAGAGAGTAGAAGGAGGCATA 59.636 44.000 0.00 0.00 0.00 3.14
2118 2371 4.163268 GGAAAAGAGAGTAGAAGGAGGCAT 59.837 45.833 0.00 0.00 0.00 4.40
2119 2372 3.515901 GGAAAAGAGAGTAGAAGGAGGCA 59.484 47.826 0.00 0.00 0.00 4.75
2120 2373 3.772572 AGGAAAAGAGAGTAGAAGGAGGC 59.227 47.826 0.00 0.00 0.00 4.70
2121 2374 5.269189 AGAGGAAAAGAGAGTAGAAGGAGG 58.731 45.833 0.00 0.00 0.00 4.30
2122 2375 6.850752 AAGAGGAAAAGAGAGTAGAAGGAG 57.149 41.667 0.00 0.00 0.00 3.69
2123 2376 6.782988 TGAAAGAGGAAAAGAGAGTAGAAGGA 59.217 38.462 0.00 0.00 0.00 3.36
2124 2377 6.998802 TGAAAGAGGAAAAGAGAGTAGAAGG 58.001 40.000 0.00 0.00 0.00 3.46
2125 2378 7.096551 CCTGAAAGAGGAAAAGAGAGTAGAAG 58.903 42.308 0.00 0.00 46.33 2.85
2126 2379 6.519213 GCCTGAAAGAGGAAAAGAGAGTAGAA 60.519 42.308 0.00 0.00 46.33 2.10
2127 2380 5.046950 GCCTGAAAGAGGAAAAGAGAGTAGA 60.047 44.000 0.00 0.00 46.33 2.59
2128 2381 5.175127 GCCTGAAAGAGGAAAAGAGAGTAG 58.825 45.833 0.00 0.00 46.33 2.57
2129 2382 4.593206 TGCCTGAAAGAGGAAAAGAGAGTA 59.407 41.667 0.00 0.00 46.33 2.59
2130 2383 3.392616 TGCCTGAAAGAGGAAAAGAGAGT 59.607 43.478 0.00 0.00 46.33 3.24
2131 2384 4.013267 TGCCTGAAAGAGGAAAAGAGAG 57.987 45.455 0.00 0.00 46.33 3.20
2132 2385 4.288105 AGATGCCTGAAAGAGGAAAAGAGA 59.712 41.667 0.00 0.00 46.33 3.10
2133 2386 4.587891 AGATGCCTGAAAGAGGAAAAGAG 58.412 43.478 0.00 0.00 46.33 2.85
2134 2387 4.647564 AGATGCCTGAAAGAGGAAAAGA 57.352 40.909 0.00 0.00 46.33 2.52
2135 2388 4.335037 GCTAGATGCCTGAAAGAGGAAAAG 59.665 45.833 0.00 0.00 46.33 2.27
2136 2389 4.018960 AGCTAGATGCCTGAAAGAGGAAAA 60.019 41.667 0.00 0.00 46.33 2.29
2137 2390 3.521126 AGCTAGATGCCTGAAAGAGGAAA 59.479 43.478 0.00 0.00 46.33 3.13
2138 2391 3.110705 AGCTAGATGCCTGAAAGAGGAA 58.889 45.455 0.00 0.00 46.33 3.36
2139 2392 2.756907 AGCTAGATGCCTGAAAGAGGA 58.243 47.619 0.00 0.00 46.33 3.71
2140 2393 3.465871 GAAGCTAGATGCCTGAAAGAGG 58.534 50.000 0.00 0.00 46.13 3.69
2141 2394 3.134442 AGGAAGCTAGATGCCTGAAAGAG 59.866 47.826 6.76 0.00 44.23 2.85
2142 2395 3.110705 AGGAAGCTAGATGCCTGAAAGA 58.889 45.455 6.76 0.00 44.23 2.52
2143 2396 3.557228 AGGAAGCTAGATGCCTGAAAG 57.443 47.619 6.76 0.00 44.23 2.62
2144 2397 4.012374 CAAAGGAAGCTAGATGCCTGAAA 58.988 43.478 8.75 0.00 44.23 2.69
2145 2398 3.614092 CAAAGGAAGCTAGATGCCTGAA 58.386 45.455 8.75 0.00 44.23 3.02
2146 2399 2.681976 GCAAAGGAAGCTAGATGCCTGA 60.682 50.000 8.75 0.00 44.23 3.86
2147 2400 1.674962 GCAAAGGAAGCTAGATGCCTG 59.325 52.381 8.75 0.00 44.23 4.85
2148 2401 1.563410 AGCAAAGGAAGCTAGATGCCT 59.437 47.619 0.00 0.00 41.32 4.75
2149 2402 2.049888 AGCAAAGGAAGCTAGATGCC 57.950 50.000 0.00 0.00 41.32 4.40
2150 2403 5.124617 ACTTTAAGCAAAGGAAGCTAGATGC 59.875 40.000 0.00 0.00 44.63 3.91
2151 2404 6.150140 ACACTTTAAGCAAAGGAAGCTAGATG 59.850 38.462 0.00 0.00 44.63 2.90
2152 2405 6.241645 ACACTTTAAGCAAAGGAAGCTAGAT 58.758 36.000 0.00 0.00 44.63 1.98
2153 2406 5.621193 ACACTTTAAGCAAAGGAAGCTAGA 58.379 37.500 0.00 0.00 44.63 2.43
2154 2407 5.948992 ACACTTTAAGCAAAGGAAGCTAG 57.051 39.130 2.03 0.00 44.63 3.42
2155 2408 6.546034 AGAAACACTTTAAGCAAAGGAAGCTA 59.454 34.615 2.03 0.00 44.63 3.32
2156 2409 5.360999 AGAAACACTTTAAGCAAAGGAAGCT 59.639 36.000 2.03 0.00 44.63 3.74
2157 2410 5.592054 AGAAACACTTTAAGCAAAGGAAGC 58.408 37.500 2.03 0.00 44.63 3.86
2158 2411 7.035612 ACAAGAAACACTTTAAGCAAAGGAAG 58.964 34.615 2.03 0.00 44.63 3.46
2159 2412 6.930731 ACAAGAAACACTTTAAGCAAAGGAA 58.069 32.000 2.03 0.00 44.63 3.36
2160 2413 6.524101 ACAAGAAACACTTTAAGCAAAGGA 57.476 33.333 2.03 0.00 44.63 3.36
2161 2414 8.696410 TTAACAAGAAACACTTTAAGCAAAGG 57.304 30.769 2.03 0.00 44.63 3.11
2162 2415 9.567848 TCTTAACAAGAAACACTTTAAGCAAAG 57.432 29.630 0.00 0.00 39.83 2.77
2163 2416 9.915629 TTCTTAACAAGAAACACTTTAAGCAAA 57.084 25.926 0.00 0.00 44.10 3.68
2178 2431 4.020039 TGCCCCGTAAGATTCTTAACAAGA 60.020 41.667 7.70 0.00 43.02 3.02
2179 2432 4.258543 TGCCCCGTAAGATTCTTAACAAG 58.741 43.478 7.70 0.27 43.02 3.16
2180 2433 4.289238 TGCCCCGTAAGATTCTTAACAA 57.711 40.909 7.70 0.00 43.02 2.83
2181 2434 3.985019 TGCCCCGTAAGATTCTTAACA 57.015 42.857 7.70 0.34 43.02 2.41
2182 2435 4.196971 ACATGCCCCGTAAGATTCTTAAC 58.803 43.478 7.70 2.69 43.02 2.01
2183 2436 4.497291 ACATGCCCCGTAAGATTCTTAA 57.503 40.909 7.70 0.00 43.02 1.85
2184 2437 4.202284 GGTACATGCCCCGTAAGATTCTTA 60.202 45.833 1.90 1.90 43.02 2.10
2185 2438 3.433173 GGTACATGCCCCGTAAGATTCTT 60.433 47.826 4.03 4.03 43.02 2.52
2186 2439 2.104281 GGTACATGCCCCGTAAGATTCT 59.896 50.000 0.00 0.00 43.02 2.40
2187 2440 2.490991 GGTACATGCCCCGTAAGATTC 58.509 52.381 0.00 0.00 43.02 2.52
2188 2441 1.142262 GGGTACATGCCCCGTAAGATT 59.858 52.381 5.34 0.00 42.89 2.40
2189 2442 0.763035 GGGTACATGCCCCGTAAGAT 59.237 55.000 5.34 0.00 42.89 2.40
2190 2443 2.214235 GGGTACATGCCCCGTAAGA 58.786 57.895 5.34 0.00 42.89 2.10
2191 2444 4.870190 GGGTACATGCCCCGTAAG 57.130 61.111 5.34 0.00 42.89 2.34
2192 2445 5.471065 AATGTTGGGTACATGCCCCGTAA 62.471 47.826 14.60 3.77 46.75 3.18
2193 2446 4.020573 AATGTTGGGTACATGCCCCGTA 62.021 50.000 14.60 4.56 46.75 4.02
2194 2447 3.359091 AATGTTGGGTACATGCCCCGT 62.359 52.381 14.60 0.89 46.75 5.28
2195 2448 0.682855 AATGTTGGGTACATGCCCCG 60.683 55.000 14.60 0.00 46.75 5.73
2196 2449 2.445682 TAATGTTGGGTACATGCCCC 57.554 50.000 13.08 13.08 46.75 5.80
2197 2450 5.351948 AATTTAATGTTGGGTACATGCCC 57.648 39.130 1.53 1.53 46.75 5.36
2198 2451 6.983890 CCTTAATTTAATGTTGGGTACATGCC 59.016 38.462 0.00 0.00 46.75 4.40
2199 2452 6.983890 CCCTTAATTTAATGTTGGGTACATGC 59.016 38.462 0.00 0.00 46.75 4.06
2200 2453 6.983890 GCCCTTAATTTAATGTTGGGTACATG 59.016 38.462 11.04 0.00 46.75 3.21
2202 2455 5.125739 CGCCCTTAATTTAATGTTGGGTACA 59.874 40.000 11.04 0.00 41.97 2.90
2203 2456 5.357596 TCGCCCTTAATTTAATGTTGGGTAC 59.642 40.000 11.04 0.00 35.79 3.34
2204 2457 5.357596 GTCGCCCTTAATTTAATGTTGGGTA 59.642 40.000 11.04 1.18 35.79 3.69
2205 2458 4.158949 GTCGCCCTTAATTTAATGTTGGGT 59.841 41.667 11.04 0.00 35.79 4.51
2206 2459 4.440940 GGTCGCCCTTAATTTAATGTTGGG 60.441 45.833 6.78 6.78 36.41 4.12
2207 2460 4.440940 GGGTCGCCCTTAATTTAATGTTGG 60.441 45.833 7.58 0.00 41.34 3.77
2208 2461 4.678622 GGGTCGCCCTTAATTTAATGTTG 58.321 43.478 7.58 0.00 41.34 3.33
2209 2462 4.994907 GGGTCGCCCTTAATTTAATGTT 57.005 40.909 7.58 0.00 41.34 2.71
2237 2494 4.274950 GGATCTTTGAAAATAATCCGCCGA 59.725 41.667 0.00 0.00 0.00 5.54
2262 2519 3.312421 CAGATCAAACGGTTGTGAAGTGT 59.688 43.478 13.90 0.00 36.07 3.55
2268 2525 0.110238 CGCCAGATCAAACGGTTGTG 60.110 55.000 13.90 4.08 36.07 3.33
2269 2526 1.852067 GCGCCAGATCAAACGGTTGT 61.852 55.000 13.90 0.00 36.07 3.32
2270 2527 1.154225 GCGCCAGATCAAACGGTTG 60.154 57.895 6.93 6.93 35.95 3.77
2271 2528 0.960364 ATGCGCCAGATCAAACGGTT 60.960 50.000 4.18 0.00 0.00 4.44
2273 2530 0.248215 GAATGCGCCAGATCAAACGG 60.248 55.000 4.18 0.00 0.00 4.44
2295 2554 2.272146 GATGAAAGAGCCGGGCCA 59.728 61.111 17.02 6.37 0.00 5.36
2310 2569 3.181463 ACTGCCTTTGTTGCAATTGTGAT 60.181 39.130 0.59 0.00 38.46 3.06
2338 2597 3.782046 AGAGATATGTCCAAACGGTTCG 58.218 45.455 0.00 0.00 0.00 3.95
2349 2608 6.734104 AGTTTCTGCAACAAGAGATATGTC 57.266 37.500 0.00 0.00 37.93 3.06
2602 2868 2.807045 GACGACACGCAGCCTCTG 60.807 66.667 0.00 0.00 34.12 3.35
2612 2878 7.541091 TCAGATACAAGTTTAATCTGACGACAC 59.459 37.037 17.33 0.00 46.59 3.67
2620 2886 5.812642 CAGCCGTCAGATACAAGTTTAATCT 59.187 40.000 0.00 0.00 0.00 2.40
2651 2918 3.003378 TGATCACGACTATAGTTCCGCAG 59.997 47.826 6.88 4.13 0.00 5.18
2652 2919 2.946990 TGATCACGACTATAGTTCCGCA 59.053 45.455 6.88 0.00 0.00 5.69
2656 2923 5.234757 ACTCGACTGATCACGACTATAGTTC 59.765 44.000 6.88 0.64 34.82 3.01
2758 3025 9.640952 TTAGAGAAGAAAAGATTTTCCAAGGAA 57.359 29.630 13.12 0.00 45.84 3.36
2760 3027 9.852091 CATTAGAGAAGAAAAGATTTTCCAAGG 57.148 33.333 13.12 0.00 45.84 3.61
2786 3053 0.607489 ATGTGGTCTTGCTGCAGGAC 60.607 55.000 30.00 30.00 39.30 3.85
2802 3069 2.417719 GAAGAAGAGGTTGTGCGATGT 58.582 47.619 0.00 0.00 0.00 3.06
2803 3070 1.734465 GGAAGAAGAGGTTGTGCGATG 59.266 52.381 0.00 0.00 0.00 3.84
2804 3071 1.339151 GGGAAGAAGAGGTTGTGCGAT 60.339 52.381 0.00 0.00 0.00 4.58
2805 3072 0.034896 GGGAAGAAGAGGTTGTGCGA 59.965 55.000 0.00 0.00 0.00 5.10
2806 3073 0.035458 AGGGAAGAAGAGGTTGTGCG 59.965 55.000 0.00 0.00 0.00 5.34


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

AutoCloner maintained by Alex Coulton.