Multiple sequence alignment - TraesCS7A01G546800

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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 TraesCS7A01G546800 chr7A 100.000 2840 0 0 1 2840 722210990 722213829 0.000000e+00 5245.0
1 TraesCS7A01G546800 chr7B 92.649 1850 105 15 189 2024 726863216 726865048 0.000000e+00 2634.0
2 TraesCS7A01G546800 chr7B 88.462 78 7 1 13 90 726863140 726863215 3.010000e-15 93.5
3 TraesCS7A01G546800 chr7D 90.578 1921 99 38 163 2047 626535710 626533836 0.000000e+00 2470.0
4 TraesCS7A01G546800 chr7D 91.252 503 30 5 2113 2605 626533646 626533148 0.000000e+00 673.0
5 TraesCS7A01G546800 chr7D 85.027 374 37 14 2263 2625 181006899 181006534 2.080000e-96 363.0
6 TraesCS7A01G546800 chr7D 89.313 131 7 3 6 132 626535836 626535709 1.050000e-34 158.0
7 TraesCS7A01G546800 chr2D 84.492 374 39 14 2263 2625 58999883 58999518 4.500000e-93 351.0
8 TraesCS7A01G546800 chr5A 78.571 196 42 0 1379 1574 559411902 559411707 2.300000e-26 130.0
9 TraesCS7A01G546800 chr1A 95.775 71 2 1 2770 2840 29878332 29878401 2.310000e-21 113.0
10 TraesCS7A01G546800 chr1A 100.000 58 0 0 2783 2840 350014213 350014156 1.080000e-19 108.0
11 TraesCS7A01G546800 chr1B 94.444 72 2 2 2769 2840 295125522 295125453 2.990000e-20 110.0
12 TraesCS7A01G546800 chrUn 95.652 69 0 3 2773 2840 58550566 58550500 1.080000e-19 108.0
13 TraesCS7A01G546800 chrUn 100.000 58 0 0 2783 2840 352719238 352719295 1.080000e-19 108.0
14 TraesCS7A01G546800 chr6B 95.588 68 2 1 2773 2840 62380930 62380996 1.080000e-19 108.0
15 TraesCS7A01G546800 chr4B 95.652 69 0 3 2773 2840 373546950 373546884 1.080000e-19 108.0
16 TraesCS7A01G546800 chr4A 98.361 61 1 0 2780 2840 605123577 605123517 1.080000e-19 108.0
17 TraesCS7A01G546800 chr6A 90.667 75 2 5 2770 2840 447897222 447897149 8.380000e-16 95.3


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 TraesCS7A01G546800 chr7A 722210990 722213829 2839 False 5245.000000 5245 100.0000 1 2840 1 chr7A.!!$F1 2839
1 TraesCS7A01G546800 chr7B 726863140 726865048 1908 False 1363.750000 2634 90.5555 13 2024 2 chr7B.!!$F1 2011
2 TraesCS7A01G546800 chr7D 626533148 626535836 2688 True 1100.333333 2470 90.3810 6 2605 3 chr7D.!!$R2 2599

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
153 158 0.107456 GCATGATGGACGTGGGAGAT 59.893 55.0 0.0 0.0 36.16 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2017 2083 2.026978 GCGAGCGAGATATACGATTTGC 59.973 50.0 6.06 4.83 0.0 3.68 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
53 54 0.809636 TCACTGTGTTCAGGTGTGCG 60.810 55.000 7.79 0.00 45.14 5.34
59 60 1.300931 GTTCAGGTGTGCGCAGAGA 60.301 57.895 12.22 0.00 0.00 3.10
60 61 1.005748 TTCAGGTGTGCGCAGAGAG 60.006 57.895 12.22 1.81 0.00 3.20
61 62 1.463553 TTCAGGTGTGCGCAGAGAGA 61.464 55.000 12.22 4.67 0.00 3.10
106 111 1.078143 GATGCACGGCTCCTTTCCT 60.078 57.895 0.00 0.00 0.00 3.36
128 133 2.761559 TCCTTTGTGAAGCGATCGAAA 58.238 42.857 21.57 8.24 0.00 3.46
130 135 3.059188 TCCTTTGTGAAGCGATCGAAAAC 60.059 43.478 21.57 11.19 0.00 2.43
131 136 2.570468 TTGTGAAGCGATCGAAAACG 57.430 45.000 21.57 0.00 0.00 3.60
132 137 0.787787 TGTGAAGCGATCGAAAACGG 59.212 50.000 21.57 0.00 0.00 4.44
133 138 0.788391 GTGAAGCGATCGAAAACGGT 59.212 50.000 21.57 8.42 41.82 4.83
134 139 0.787787 TGAAGCGATCGAAAACGGTG 59.212 50.000 21.57 0.00 40.01 4.94
135 140 0.518559 GAAGCGATCGAAAACGGTGC 60.519 55.000 21.57 9.21 40.01 5.01
136 141 1.225376 AAGCGATCGAAAACGGTGCA 61.225 50.000 21.57 0.00 40.01 4.57
137 142 1.019278 AGCGATCGAAAACGGTGCAT 61.019 50.000 21.57 0.00 38.73 3.96
138 143 0.857311 GCGATCGAAAACGGTGCATG 60.857 55.000 21.57 0.00 0.00 4.06
139 144 0.718904 CGATCGAAAACGGTGCATGA 59.281 50.000 10.26 0.00 0.00 3.07
140 145 1.327460 CGATCGAAAACGGTGCATGAT 59.673 47.619 10.26 0.00 0.00 2.45
141 146 2.708514 GATCGAAAACGGTGCATGATG 58.291 47.619 0.00 0.00 0.00 3.07
142 147 0.801872 TCGAAAACGGTGCATGATGG 59.198 50.000 0.00 0.00 0.00 3.51
143 148 0.801872 CGAAAACGGTGCATGATGGA 59.198 50.000 0.00 0.00 0.00 3.41
144 149 1.465689 CGAAAACGGTGCATGATGGAC 60.466 52.381 8.69 8.69 38.03 4.02
145 150 0.521291 AAAACGGTGCATGATGGACG 59.479 50.000 10.94 8.82 39.79 4.79
146 151 0.605319 AAACGGTGCATGATGGACGT 60.605 50.000 10.94 9.41 39.79 4.34
147 152 1.298157 AACGGTGCATGATGGACGTG 61.298 55.000 10.94 8.47 39.79 4.49
148 153 2.463620 CGGTGCATGATGGACGTGG 61.464 63.158 10.94 0.00 39.79 4.94
149 154 2.114670 GGTGCATGATGGACGTGGG 61.115 63.158 10.94 0.00 39.79 4.61
150 155 1.078497 GTGCATGATGGACGTGGGA 60.078 57.895 0.25 0.00 36.16 4.37
151 156 1.091771 GTGCATGATGGACGTGGGAG 61.092 60.000 0.25 0.00 36.16 4.30
152 157 1.264045 TGCATGATGGACGTGGGAGA 61.264 55.000 0.00 0.00 36.16 3.71
153 158 0.107456 GCATGATGGACGTGGGAGAT 59.893 55.000 0.00 0.00 36.16 2.75
154 159 1.475751 GCATGATGGACGTGGGAGATT 60.476 52.381 0.00 0.00 36.16 2.40
155 160 2.224281 GCATGATGGACGTGGGAGATTA 60.224 50.000 0.00 0.00 36.16 1.75
156 161 3.744214 GCATGATGGACGTGGGAGATTAA 60.744 47.826 0.00 0.00 36.16 1.40
157 162 4.645535 CATGATGGACGTGGGAGATTAAT 58.354 43.478 0.00 0.00 32.38 1.40
158 163 4.771114 TGATGGACGTGGGAGATTAATT 57.229 40.909 0.00 0.00 0.00 1.40
159 164 4.703897 TGATGGACGTGGGAGATTAATTC 58.296 43.478 0.00 0.00 0.00 2.17
160 165 3.173668 TGGACGTGGGAGATTAATTCG 57.826 47.619 0.00 0.00 0.00 3.34
161 166 2.498481 TGGACGTGGGAGATTAATTCGT 59.502 45.455 0.00 0.00 0.00 3.85
174 179 4.896562 TTAATTCGTCGTACAAGCACAG 57.103 40.909 0.00 0.00 0.00 3.66
178 183 0.435008 CGTCGTACAAGCACAGAAGC 59.565 55.000 0.00 0.00 0.00 3.86
246 252 2.270352 TGGGTGGTGAGATTGACAAC 57.730 50.000 0.00 0.00 0.00 3.32
264 270 3.496131 GCATGGCGTGTACACCGG 61.496 66.667 20.11 0.00 0.00 5.28
351 360 3.000819 TCGTGGGGTGGCCACTAG 61.001 66.667 33.91 19.98 36.18 2.57
659 684 2.821366 CCGCATGTGAGGTGAGGC 60.821 66.667 8.11 0.00 29.89 4.70
662 687 2.103042 GCATGTGAGGTGAGGCGAC 61.103 63.158 0.00 0.00 0.00 5.19
705 742 2.021068 GCTGCAGGTGGATCGAGCTA 62.021 60.000 17.12 0.00 0.00 3.32
751 804 3.551407 GCGGATCCTGTCCCCCTC 61.551 72.222 10.75 0.00 44.77 4.30
753 806 2.448736 GGATCCTGTCCCCCTCCC 60.449 72.222 3.84 0.00 41.50 4.30
754 807 2.844839 GATCCTGTCCCCCTCCCG 60.845 72.222 0.00 0.00 0.00 5.14
848 901 4.324991 GTCCCCACCCACCGTGTC 62.325 72.222 0.00 0.00 41.26 3.67
891 949 2.416972 GCTCTCCCGCTTTATATACCCG 60.417 54.545 0.00 0.00 0.00 5.28
892 950 3.087031 CTCTCCCGCTTTATATACCCGA 58.913 50.000 0.00 0.00 0.00 5.14
900 958 1.702182 TTATATACCCGACGCCACCA 58.298 50.000 0.00 0.00 0.00 4.17
902 960 2.079020 ATATACCCGACGCCACCACG 62.079 60.000 0.00 0.00 39.50 4.94
1414 1476 2.661866 GCGACGACAACAGGCTGT 60.662 61.111 15.88 15.88 0.00 4.40
1416 1478 1.299850 CGACGACAACAGGCTGTCA 60.300 57.895 22.31 0.00 45.03 3.58
1422 1484 1.672030 CAACAGGCTGTCATCCGCA 60.672 57.895 22.31 0.00 0.00 5.69
1507 1569 4.974438 AGTTCCCCACGCCCTCCA 62.974 66.667 0.00 0.00 0.00 3.86
1597 1659 4.379243 CTGCCGCCGTGTTCTCCT 62.379 66.667 0.00 0.00 0.00 3.69
1782 1844 2.030562 AGCGACAAGGTGTTCCGG 59.969 61.111 0.00 0.00 39.05 5.14
1832 1894 2.187958 CAACATCCAGACCCAGACCTA 58.812 52.381 0.00 0.00 0.00 3.08
1845 1907 2.419297 CCAGACCTACTGCTGATCCAAC 60.419 54.545 0.00 0.00 44.52 3.77
1846 1908 2.499289 CAGACCTACTGCTGATCCAACT 59.501 50.000 0.00 0.00 39.86 3.16
1848 1910 2.497675 GACCTACTGCTGATCCAACTCA 59.502 50.000 0.00 0.00 0.00 3.41
1863 1925 3.201290 CAACTCAATGCCCTAGCTAGTG 58.799 50.000 19.31 9.52 40.80 2.74
1864 1926 2.472029 ACTCAATGCCCTAGCTAGTGT 58.528 47.619 19.31 0.00 40.80 3.55
1865 1927 3.643237 ACTCAATGCCCTAGCTAGTGTA 58.357 45.455 19.31 8.28 40.80 2.90
1953 2015 5.123227 ACACCAATCGATCAACGGATTAAT 58.877 37.500 0.00 0.00 42.82 1.40
1964 2026 4.922692 TCAACGGATTAATGCAAAGCAAAG 59.077 37.500 7.78 0.00 43.62 2.77
1965 2027 3.253230 ACGGATTAATGCAAAGCAAAGC 58.747 40.909 7.78 0.00 43.62 3.51
1966 2028 3.252400 CGGATTAATGCAAAGCAAAGCA 58.748 40.909 7.78 0.00 43.62 3.91
1967 2029 3.679025 CGGATTAATGCAAAGCAAAGCAA 59.321 39.130 7.78 0.00 43.62 3.91
1968 2030 4.152045 CGGATTAATGCAAAGCAAAGCAAA 59.848 37.500 7.78 0.00 43.62 3.68
1969 2031 5.624292 GGATTAATGCAAAGCAAAGCAAAG 58.376 37.500 1.54 0.00 43.62 2.77
1970 2032 5.391203 GGATTAATGCAAAGCAAAGCAAAGG 60.391 40.000 1.54 0.00 43.62 3.11
1971 2033 1.232119 ATGCAAAGCAAAGCAAAGGC 58.768 45.000 0.00 0.00 43.62 4.35
1972 2034 0.178533 TGCAAAGCAAAGCAAAGGCT 59.821 45.000 0.00 0.00 43.33 4.58
2017 2083 2.229062 TGCTGGTGTCTCTTTACTCTCG 59.771 50.000 0.00 0.00 0.00 4.04
2030 2096 8.016229 TCTCTTTACTCTCGCAAATCGTATATC 58.984 37.037 0.00 0.00 39.67 1.63
2042 2108 0.521450 CGTATATCTCGCTCGCGCAT 60.521 55.000 8.75 3.85 39.59 4.73
2043 2109 0.910513 GTATATCTCGCTCGCGCATG 59.089 55.000 8.75 0.00 39.59 4.06
2044 2110 0.179163 TATATCTCGCTCGCGCATGG 60.179 55.000 8.75 0.00 39.59 3.66
2045 2111 1.866853 ATATCTCGCTCGCGCATGGA 61.867 55.000 8.75 0.00 39.59 3.41
2046 2112 2.070654 TATCTCGCTCGCGCATGGAA 62.071 55.000 8.75 0.00 39.59 3.53
2047 2113 3.624300 CTCGCTCGCGCATGGAAG 61.624 66.667 8.75 0.00 39.59 3.46
2048 2114 4.128388 TCGCTCGCGCATGGAAGA 62.128 61.111 8.75 0.00 39.59 2.87
2073 2139 4.271533 GGAACACAAACACACGATGAACTA 59.728 41.667 0.00 0.00 0.00 2.24
2087 2189 8.248253 ACACGATGAACTATCATACAAGTGTAA 58.752 33.333 14.38 0.00 46.30 2.41
2110 2212 9.616634 GTAAATCGTAATCGTATCAGGTGATTA 57.383 33.333 0.00 0.00 38.33 1.75
2111 2213 8.516811 AAATCGTAATCGTATCAGGTGATTAC 57.483 34.615 12.14 12.14 45.49 1.89
2128 2325 4.279922 TGATTACCACTGTCGTCTCTTCAA 59.720 41.667 0.00 0.00 0.00 2.69
2142 2339 4.394300 GTCTCTTCAATCTTCACCCACATG 59.606 45.833 0.00 0.00 0.00 3.21
2176 2373 3.568430 ACGGAAAGTGAAAATCAACTCCC 59.432 43.478 0.00 0.00 0.00 4.30
2195 2392 1.067985 CCAAGTGTGTGTGTGTTTGCA 60.068 47.619 0.00 0.00 0.00 4.08
2285 2500 1.808945 CTCCTCAAAACTGCTTGCGAT 59.191 47.619 0.00 0.00 0.00 4.58
2286 2501 1.806542 TCCTCAAAACTGCTTGCGATC 59.193 47.619 0.00 0.00 0.00 3.69
2287 2502 1.536766 CCTCAAAACTGCTTGCGATCA 59.463 47.619 0.00 0.00 0.00 2.92
2288 2503 2.413765 CCTCAAAACTGCTTGCGATCAG 60.414 50.000 3.16 3.16 36.45 2.90
2289 2504 2.481568 CTCAAAACTGCTTGCGATCAGA 59.518 45.455 11.78 0.00 34.57 3.27
2290 2505 3.076621 TCAAAACTGCTTGCGATCAGAT 58.923 40.909 11.78 0.00 34.57 2.90
2291 2506 3.503363 TCAAAACTGCTTGCGATCAGATT 59.497 39.130 11.78 3.22 34.57 2.40
2292 2507 4.022935 TCAAAACTGCTTGCGATCAGATTT 60.023 37.500 11.78 9.21 36.27 2.17
2293 2508 3.482722 AACTGCTTGCGATCAGATTTG 57.517 42.857 11.78 0.00 34.57 2.32
2294 2509 2.703416 ACTGCTTGCGATCAGATTTGA 58.297 42.857 11.78 0.00 37.81 2.69
2295 2510 3.276857 ACTGCTTGCGATCAGATTTGAT 58.723 40.909 11.78 0.00 46.61 2.57
2296 2511 3.064958 ACTGCTTGCGATCAGATTTGATG 59.935 43.478 11.78 0.00 44.01 3.07
2297 2512 2.356695 TGCTTGCGATCAGATTTGATGG 59.643 45.455 2.98 3.62 44.01 3.51
2316 2531 2.203337 GACCCAGGTGCTGCAACA 60.203 61.111 21.23 0.00 0.00 3.33
2383 2598 5.047235 GTGAACACTATCCAGTAACCTGTCT 60.047 44.000 0.00 0.00 36.95 3.41
2384 2599 5.542635 TGAACACTATCCAGTAACCTGTCTT 59.457 40.000 0.00 0.00 36.95 3.01
2385 2600 6.042781 TGAACACTATCCAGTAACCTGTCTTT 59.957 38.462 0.00 0.00 36.95 2.52
2416 2631 7.103641 TCTTTTCTTGCGTGGAGTAATCTATT 58.896 34.615 0.00 0.00 0.00 1.73
2450 2665 9.226606 CTGTATAATAATCTCTCTCCGTTCTCT 57.773 37.037 0.00 0.00 0.00 3.10
2451 2666 9.221933 TGTATAATAATCTCTCTCCGTTCTCTC 57.778 37.037 0.00 0.00 0.00 3.20
2452 2667 9.221933 GTATAATAATCTCTCTCCGTTCTCTCA 57.778 37.037 0.00 0.00 0.00 3.27
2468 2690 8.664798 CCGTTCTCTCATGTCAAATTTATACAA 58.335 33.333 8.99 0.00 0.00 2.41
2546 2768 6.146184 ACGAGACACTGTAAACATCAATTCAG 59.854 38.462 0.00 0.00 0.00 3.02
2575 2797 2.471815 TCCTTGGACGTCCCATCTAT 57.528 50.000 31.19 0.00 46.10 1.98
2605 2827 3.128764 GTGGCAGTCTTTTTAGGGCATAC 59.871 47.826 0.00 0.00 36.41 2.39
2606 2828 3.245087 TGGCAGTCTTTTTAGGGCATACA 60.245 43.478 0.00 0.00 0.00 2.29
2607 2829 3.954258 GGCAGTCTTTTTAGGGCATACAT 59.046 43.478 0.00 0.00 0.00 2.29
2608 2830 5.130350 GGCAGTCTTTTTAGGGCATACATA 58.870 41.667 0.00 0.00 0.00 2.29
2609 2831 5.592688 GGCAGTCTTTTTAGGGCATACATAA 59.407 40.000 0.00 0.00 0.00 1.90
2610 2832 6.096282 GGCAGTCTTTTTAGGGCATACATAAA 59.904 38.462 0.00 0.00 33.89 1.40
2611 2833 7.201911 GGCAGTCTTTTTAGGGCATACATAAAT 60.202 37.037 0.00 0.00 35.51 1.40
2612 2834 8.197439 GCAGTCTTTTTAGGGCATACATAAATT 58.803 33.333 0.00 0.00 35.51 1.82
2637 2859 8.974408 TTTATTGACTATGTCGATAAATCGGTG 58.026 33.333 20.48 2.19 45.85 4.94
2647 2869 5.067021 CGATAAATCGGTGCTTGTAGTTC 57.933 43.478 4.43 0.00 45.93 3.01
2648 2870 4.317139 CGATAAATCGGTGCTTGTAGTTCG 60.317 45.833 4.43 0.00 45.93 3.95
2649 2871 1.076332 AATCGGTGCTTGTAGTTCGC 58.924 50.000 0.00 0.00 0.00 4.70
2650 2872 0.246635 ATCGGTGCTTGTAGTTCGCT 59.753 50.000 0.00 0.00 0.00 4.93
2651 2873 0.032952 TCGGTGCTTGTAGTTCGCTT 59.967 50.000 0.00 0.00 0.00 4.68
2652 2874 0.865769 CGGTGCTTGTAGTTCGCTTT 59.134 50.000 0.00 0.00 0.00 3.51
2653 2875 1.263217 CGGTGCTTGTAGTTCGCTTTT 59.737 47.619 0.00 0.00 0.00 2.27
2654 2876 2.650608 GGTGCTTGTAGTTCGCTTTTG 58.349 47.619 0.00 0.00 0.00 2.44
2655 2877 2.604614 GGTGCTTGTAGTTCGCTTTTGG 60.605 50.000 0.00 0.00 0.00 3.28
2656 2878 2.032924 GTGCTTGTAGTTCGCTTTTGGT 59.967 45.455 0.00 0.00 0.00 3.67
2657 2879 2.685897 TGCTTGTAGTTCGCTTTTGGTT 59.314 40.909 0.00 0.00 0.00 3.67
2658 2880 3.129638 TGCTTGTAGTTCGCTTTTGGTTT 59.870 39.130 0.00 0.00 0.00 3.27
2659 2881 4.109766 GCTTGTAGTTCGCTTTTGGTTTT 58.890 39.130 0.00 0.00 0.00 2.43
2660 2882 4.206404 GCTTGTAGTTCGCTTTTGGTTTTC 59.794 41.667 0.00 0.00 0.00 2.29
2661 2883 4.295857 TGTAGTTCGCTTTTGGTTTTCC 57.704 40.909 0.00 0.00 41.14 3.13
2662 2884 3.949113 TGTAGTTCGCTTTTGGTTTTCCT 59.051 39.130 0.00 0.00 41.38 3.36
2663 2885 4.399934 TGTAGTTCGCTTTTGGTTTTCCTT 59.600 37.500 0.00 0.00 41.38 3.36
2664 2886 5.589452 TGTAGTTCGCTTTTGGTTTTCCTTA 59.411 36.000 0.00 0.00 41.38 2.69
2665 2887 5.585820 AGTTCGCTTTTGGTTTTCCTTAA 57.414 34.783 0.00 0.00 41.38 1.85
2666 2888 6.156748 AGTTCGCTTTTGGTTTTCCTTAAT 57.843 33.333 0.00 0.00 41.38 1.40
2667 2889 5.983118 AGTTCGCTTTTGGTTTTCCTTAATG 59.017 36.000 0.00 0.00 41.38 1.90
2668 2890 4.877282 TCGCTTTTGGTTTTCCTTAATGG 58.123 39.130 0.00 0.00 41.38 3.16
2669 2891 4.585162 TCGCTTTTGGTTTTCCTTAATGGA 59.415 37.500 0.00 0.00 44.51 3.41
2686 2908 2.509166 GGAAATCGTTCCCCCTTCTT 57.491 50.000 0.00 0.00 46.84 2.52
2687 2909 2.803956 GGAAATCGTTCCCCCTTCTTT 58.196 47.619 0.00 0.00 46.84 2.52
2688 2910 2.492088 GGAAATCGTTCCCCCTTCTTTG 59.508 50.000 0.00 0.00 46.84 2.77
2689 2911 2.971901 AATCGTTCCCCCTTCTTTGT 57.028 45.000 0.00 0.00 0.00 2.83
2690 2912 2.971901 ATCGTTCCCCCTTCTTTGTT 57.028 45.000 0.00 0.00 0.00 2.83
2691 2913 4.376225 AATCGTTCCCCCTTCTTTGTTA 57.624 40.909 0.00 0.00 0.00 2.41
2692 2914 3.860968 TCGTTCCCCCTTCTTTGTTAA 57.139 42.857 0.00 0.00 0.00 2.01
2693 2915 4.167652 TCGTTCCCCCTTCTTTGTTAAA 57.832 40.909 0.00 0.00 0.00 1.52
2694 2916 4.534797 TCGTTCCCCCTTCTTTGTTAAAA 58.465 39.130 0.00 0.00 0.00 1.52
2695 2917 4.954826 TCGTTCCCCCTTCTTTGTTAAAAA 59.045 37.500 0.00 0.00 0.00 1.94
2696 2918 5.599242 TCGTTCCCCCTTCTTTGTTAAAAAT 59.401 36.000 0.00 0.00 0.00 1.82
2697 2919 6.776603 TCGTTCCCCCTTCTTTGTTAAAAATA 59.223 34.615 0.00 0.00 0.00 1.40
2698 2920 7.452189 TCGTTCCCCCTTCTTTGTTAAAAATAT 59.548 33.333 0.00 0.00 0.00 1.28
2699 2921 7.544217 CGTTCCCCCTTCTTTGTTAAAAATATG 59.456 37.037 0.00 0.00 0.00 1.78
2700 2922 7.489239 TCCCCCTTCTTTGTTAAAAATATGG 57.511 36.000 0.00 0.00 0.00 2.74
2701 2923 6.070481 TCCCCCTTCTTTGTTAAAAATATGGC 60.070 38.462 0.00 0.00 0.00 4.40
2702 2924 6.070251 CCCCCTTCTTTGTTAAAAATATGGCT 60.070 38.462 0.00 0.00 0.00 4.75
2703 2925 6.818142 CCCCTTCTTTGTTAAAAATATGGCTG 59.182 38.462 0.00 0.00 0.00 4.85
2704 2926 7.386059 CCCTTCTTTGTTAAAAATATGGCTGT 58.614 34.615 0.00 0.00 0.00 4.40
2705 2927 8.527810 CCCTTCTTTGTTAAAAATATGGCTGTA 58.472 33.333 0.00 0.00 0.00 2.74
2706 2928 9.573133 CCTTCTTTGTTAAAAATATGGCTGTAG 57.427 33.333 0.00 0.00 0.00 2.74
2720 2942 8.941995 ATATGGCTGTAGAACTATAGTCTTCA 57.058 34.615 5.70 8.26 31.37 3.02
2721 2943 7.847711 ATGGCTGTAGAACTATAGTCTTCAT 57.152 36.000 5.70 0.00 31.37 2.57
2722 2944 8.941995 ATGGCTGTAGAACTATAGTCTTCATA 57.058 34.615 5.70 1.36 31.37 2.15
2723 2945 8.762481 TGGCTGTAGAACTATAGTCTTCATAA 57.238 34.615 5.70 0.00 31.37 1.90
2724 2946 9.368416 TGGCTGTAGAACTATAGTCTTCATAAT 57.632 33.333 5.70 0.00 31.37 1.28
2747 2969 4.916983 TTTTCATTGGGTCACAAGACAG 57.083 40.909 0.00 0.00 46.80 3.51
2748 2970 3.855255 TTCATTGGGTCACAAGACAGA 57.145 42.857 0.00 0.00 46.80 3.41
2749 2971 4.371624 TTCATTGGGTCACAAGACAGAT 57.628 40.909 0.00 0.00 46.80 2.90
2750 2972 3.678289 TCATTGGGTCACAAGACAGATG 58.322 45.455 0.00 0.00 46.80 2.90
2751 2973 3.072915 TCATTGGGTCACAAGACAGATGT 59.927 43.478 0.00 0.00 46.80 3.06
2752 2974 3.576078 TTGGGTCACAAGACAGATGTT 57.424 42.857 0.00 0.00 46.80 2.71
2753 2975 2.849942 TGGGTCACAAGACAGATGTTG 58.150 47.619 0.00 0.00 46.80 3.33
2754 2976 2.172505 TGGGTCACAAGACAGATGTTGT 59.827 45.455 0.00 0.00 46.80 3.32
2755 2977 3.214328 GGGTCACAAGACAGATGTTGTT 58.786 45.455 0.00 0.00 46.80 2.83
2756 2978 4.141597 TGGGTCACAAGACAGATGTTGTTA 60.142 41.667 0.00 0.00 46.80 2.41
2757 2979 4.213482 GGGTCACAAGACAGATGTTGTTAC 59.787 45.833 0.00 0.00 46.80 2.50
2758 2980 4.814234 GGTCACAAGACAGATGTTGTTACA 59.186 41.667 4.64 0.00 46.80 2.41
2759 2981 5.470098 GGTCACAAGACAGATGTTGTTACAT 59.530 40.000 4.64 0.00 45.82 2.29
2760 2982 6.017109 GGTCACAAGACAGATGTTGTTACATT 60.017 38.462 4.64 0.00 44.50 2.71
2761 2983 7.172532 GGTCACAAGACAGATGTTGTTACATTA 59.827 37.037 4.64 0.00 44.50 1.90
2762 2984 8.223769 GTCACAAGACAGATGTTGTTACATTAG 58.776 37.037 0.00 0.00 43.35 1.73
2763 2985 8.147704 TCACAAGACAGATGTTGTTACATTAGA 58.852 33.333 0.00 0.00 44.90 2.10
2764 2986 8.939929 CACAAGACAGATGTTGTTACATTAGAT 58.060 33.333 0.00 0.00 44.90 1.98
2798 3020 9.754382 TTATATTAAGACTAGTAAAAGTGCCCG 57.246 33.333 0.00 0.00 0.00 6.13
2799 3021 5.473066 TTAAGACTAGTAAAAGTGCCCGT 57.527 39.130 0.00 0.00 0.00 5.28
2800 3022 3.314541 AGACTAGTAAAAGTGCCCGTG 57.685 47.619 0.00 0.00 0.00 4.94
2801 3023 1.730612 GACTAGTAAAAGTGCCCGTGC 59.269 52.381 0.00 0.00 38.26 5.34
2802 3024 0.719465 CTAGTAAAAGTGCCCGTGCG 59.281 55.000 0.00 0.00 41.78 5.34
2803 3025 0.033781 TAGTAAAAGTGCCCGTGCGT 59.966 50.000 0.00 0.00 41.78 5.24
2804 3026 0.816421 AGTAAAAGTGCCCGTGCGTT 60.816 50.000 0.00 0.00 41.78 4.84
2805 3027 0.659123 GTAAAAGTGCCCGTGCGTTG 60.659 55.000 0.00 0.00 41.78 4.10
2806 3028 2.395367 TAAAAGTGCCCGTGCGTTGC 62.395 55.000 0.00 0.00 41.78 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 6.367695 CCTGAACACAGTGACAATCGTATTAA 59.632 38.462 7.81 0.00 0.00 1.40
27 28 2.158957 ACCTGAACACAGTGACAATCGT 60.159 45.455 7.81 1.66 0.00 3.73
41 42 1.287730 CTCTCTGCGCACACCTGAAC 61.288 60.000 5.66 0.00 0.00 3.18
53 54 0.037790 AACGAAGCCTGTCTCTCTGC 60.038 55.000 0.00 0.00 0.00 4.26
59 60 0.603569 ACGATGAACGAAGCCTGTCT 59.396 50.000 0.00 0.00 45.77 3.41
60 61 0.716108 CACGATGAACGAAGCCTGTC 59.284 55.000 0.00 0.00 45.77 3.51
61 62 1.291877 GCACGATGAACGAAGCCTGT 61.292 55.000 0.00 0.00 45.77 4.00
106 111 2.761559 TCGATCGCTTCACAAAGGAAA 58.238 42.857 11.09 0.00 32.79 3.13
128 133 1.003839 ACGTCCATCATGCACCGTT 60.004 52.632 0.00 0.00 0.00 4.44
130 135 2.463620 CCACGTCCATCATGCACCG 61.464 63.158 0.00 0.00 0.00 4.94
131 136 2.114670 CCCACGTCCATCATGCACC 61.115 63.158 0.00 0.00 0.00 5.01
132 137 1.078497 TCCCACGTCCATCATGCAC 60.078 57.895 0.00 0.00 0.00 4.57
133 138 1.221566 CTCCCACGTCCATCATGCA 59.778 57.895 0.00 0.00 0.00 3.96
134 139 0.107456 ATCTCCCACGTCCATCATGC 59.893 55.000 0.00 0.00 0.00 4.06
135 140 2.627515 AATCTCCCACGTCCATCATG 57.372 50.000 0.00 0.00 0.00 3.07
136 141 4.982241 ATTAATCTCCCACGTCCATCAT 57.018 40.909 0.00 0.00 0.00 2.45
137 142 4.703897 GAATTAATCTCCCACGTCCATCA 58.296 43.478 0.00 0.00 0.00 3.07
138 143 3.741344 CGAATTAATCTCCCACGTCCATC 59.259 47.826 0.00 0.00 0.00 3.51
139 144 3.134081 ACGAATTAATCTCCCACGTCCAT 59.866 43.478 0.00 0.00 0.00 3.41
140 145 2.498481 ACGAATTAATCTCCCACGTCCA 59.502 45.455 0.00 0.00 0.00 4.02
141 146 3.121544 GACGAATTAATCTCCCACGTCC 58.878 50.000 0.00 0.00 41.33 4.79
142 147 2.787680 CGACGAATTAATCTCCCACGTC 59.212 50.000 0.00 0.00 42.90 4.34
143 148 2.165030 ACGACGAATTAATCTCCCACGT 59.835 45.455 0.00 0.00 35.31 4.49
144 149 2.805845 ACGACGAATTAATCTCCCACG 58.194 47.619 0.00 0.00 0.00 4.94
145 150 4.675510 TGTACGACGAATTAATCTCCCAC 58.324 43.478 0.00 0.00 0.00 4.61
146 151 4.987408 TGTACGACGAATTAATCTCCCA 57.013 40.909 0.00 0.00 0.00 4.37
147 152 4.208666 GCTTGTACGACGAATTAATCTCCC 59.791 45.833 0.00 0.00 0.00 4.30
148 153 4.802039 TGCTTGTACGACGAATTAATCTCC 59.198 41.667 0.00 0.00 0.00 3.71
149 154 5.287752 TGTGCTTGTACGACGAATTAATCTC 59.712 40.000 0.00 0.00 0.00 2.75
150 155 5.165676 TGTGCTTGTACGACGAATTAATCT 58.834 37.500 0.00 0.00 0.00 2.40
151 156 5.287752 TCTGTGCTTGTACGACGAATTAATC 59.712 40.000 0.00 0.00 0.00 1.75
152 157 5.165676 TCTGTGCTTGTACGACGAATTAAT 58.834 37.500 0.00 0.00 0.00 1.40
153 158 4.548494 TCTGTGCTTGTACGACGAATTAA 58.452 39.130 0.00 0.00 0.00 1.40
154 159 4.163458 TCTGTGCTTGTACGACGAATTA 57.837 40.909 0.00 0.00 0.00 1.40
155 160 3.021269 TCTGTGCTTGTACGACGAATT 57.979 42.857 0.00 0.00 0.00 2.17
156 161 2.717580 TCTGTGCTTGTACGACGAAT 57.282 45.000 0.00 0.00 0.00 3.34
157 162 2.390938 CTTCTGTGCTTGTACGACGAA 58.609 47.619 0.00 0.00 0.00 3.85
158 163 1.929038 GCTTCTGTGCTTGTACGACGA 60.929 52.381 0.00 0.00 0.00 4.20
159 164 0.435008 GCTTCTGTGCTTGTACGACG 59.565 55.000 0.00 0.00 0.00 5.12
160 165 1.497991 TGCTTCTGTGCTTGTACGAC 58.502 50.000 0.00 0.00 0.00 4.34
161 166 2.232756 TTGCTTCTGTGCTTGTACGA 57.767 45.000 0.00 0.00 0.00 3.43
178 183 2.615447 CCAGCACAGTACCAGCATATTG 59.385 50.000 4.85 0.00 0.00 1.90
187 192 1.827969 AGATCACTCCAGCACAGTACC 59.172 52.381 0.00 0.00 0.00 3.34
192 198 1.208052 GGCTTAGATCACTCCAGCACA 59.792 52.381 0.00 0.00 35.49 4.57
351 360 3.305516 CCAAAGGGTGTGCTGCCC 61.306 66.667 0.00 3.12 46.43 5.36
420 436 0.955919 GTTCCCTTTCCTCGTGCAGG 60.956 60.000 0.00 0.00 45.15 4.85
421 437 0.955919 GGTTCCCTTTCCTCGTGCAG 60.956 60.000 0.00 0.00 0.00 4.41
754 807 4.293648 GTTTGGGCGGTTGGTGGC 62.294 66.667 0.00 0.00 0.00 5.01
900 958 3.033909 TGATGAATGATGAGAGGGACGT 58.966 45.455 0.00 0.00 0.00 4.34
902 960 4.378774 CTGTGATGAATGATGAGAGGGAC 58.621 47.826 0.00 0.00 0.00 4.46
993 1055 4.807039 CTGGGCGCCATTGCTTGC 62.807 66.667 30.85 8.62 30.82 4.01
994 1056 4.807039 GCTGGGCGCCATTGCTTG 62.807 66.667 30.85 10.24 30.82 4.01
1414 1476 3.458163 GGACCGGACTGCGGATGA 61.458 66.667 16.86 0.00 0.00 2.92
1416 1478 4.779733 AGGGACCGGACTGCGGAT 62.780 66.667 16.86 0.00 0.00 4.18
1528 1590 3.075005 CACCCCGGACACCTCGAT 61.075 66.667 0.73 0.00 0.00 3.59
1581 1643 4.373116 GAGGAGAACACGGCGGCA 62.373 66.667 13.24 0.00 0.00 5.69
1692 1754 2.671682 GCCACCTCCTTGTCCTCC 59.328 66.667 0.00 0.00 0.00 4.30
1752 1814 4.193334 TCGCTGCCGGTCTCGATG 62.193 66.667 1.90 0.00 39.00 3.84
1760 1822 4.988598 ACACCTTGTCGCTGCCGG 62.989 66.667 0.00 0.00 34.56 6.13
1832 1894 2.089980 GCATTGAGTTGGATCAGCAGT 58.910 47.619 0.00 0.00 0.00 4.40
1845 1907 3.639094 ACTACACTAGCTAGGGCATTGAG 59.361 47.826 23.24 13.94 41.70 3.02
1846 1908 3.643237 ACTACACTAGCTAGGGCATTGA 58.357 45.455 23.24 2.69 41.70 2.57
1848 1910 3.574826 GCTACTACACTAGCTAGGGCATT 59.425 47.826 23.24 7.13 41.70 3.56
1953 2015 2.692817 GCCTTTGCTTTGCTTTGCA 58.307 47.368 0.00 0.00 37.42 4.08
1972 2034 9.605684 GCAGTCTGCTATGGAAATGGAACAAAA 62.606 40.741 17.89 0.00 41.20 2.44
2017 2083 2.026978 GCGAGCGAGATATACGATTTGC 59.973 50.000 6.06 4.83 0.00 3.68
2042 2108 3.380004 GTGTGTTTGTGTTCCATCTTCCA 59.620 43.478 0.00 0.00 0.00 3.53
2043 2109 3.548014 CGTGTGTTTGTGTTCCATCTTCC 60.548 47.826 0.00 0.00 0.00 3.46
2044 2110 3.311322 TCGTGTGTTTGTGTTCCATCTTC 59.689 43.478 0.00 0.00 0.00 2.87
2045 2111 3.275143 TCGTGTGTTTGTGTTCCATCTT 58.725 40.909 0.00 0.00 0.00 2.40
2046 2112 2.912771 TCGTGTGTTTGTGTTCCATCT 58.087 42.857 0.00 0.00 0.00 2.90
2047 2113 3.249799 TCATCGTGTGTTTGTGTTCCATC 59.750 43.478 0.00 0.00 0.00 3.51
2048 2114 3.210227 TCATCGTGTGTTTGTGTTCCAT 58.790 40.909 0.00 0.00 0.00 3.41
2066 2132 9.817809 ACGATTTACACTTGTATGATAGTTCAT 57.182 29.630 0.00 0.00 44.76 2.57
2073 2139 8.867112 ACGATTACGATTTACACTTGTATGAT 57.133 30.769 0.00 0.00 42.66 2.45
2087 2189 7.088905 GGTAATCACCTGATACGATTACGATT 58.911 38.462 12.75 0.00 46.48 3.34
2110 2212 2.894126 AGATTGAAGAGACGACAGTGGT 59.106 45.455 0.00 0.00 0.00 4.16
2111 2213 3.584406 AGATTGAAGAGACGACAGTGG 57.416 47.619 0.00 0.00 0.00 4.00
2128 2325 3.584406 TGAACTCTCATGTGGGTGAAGAT 59.416 43.478 0.05 0.00 0.00 2.40
2142 2339 3.053455 CACTTTCCGTGAGTGAACTCTC 58.947 50.000 11.55 7.16 46.81 3.20
2156 2353 5.069119 ACTTGGGAGTTGATTTTCACTTTCC 59.931 40.000 0.00 0.00 29.87 3.13
2167 2364 2.092429 ACACACACACTTGGGAGTTGAT 60.092 45.455 0.00 0.00 32.54 2.57
2176 2373 2.344504 TGCAAACACACACACACTTG 57.655 45.000 0.00 0.00 0.00 3.16
2195 2392 2.872245 CACAGACACATCGAGGTTGTTT 59.128 45.455 0.00 0.00 0.00 2.83
2269 2484 2.493035 TCTGATCGCAAGCAGTTTTGA 58.507 42.857 0.00 0.00 33.90 2.69
2285 2500 0.617935 TGGGTCGCCATCAAATCTGA 59.382 50.000 0.00 0.00 35.56 3.27
2286 2501 1.019673 CTGGGTCGCCATCAAATCTG 58.980 55.000 0.00 0.00 0.00 2.90
2287 2502 0.107017 CCTGGGTCGCCATCAAATCT 60.107 55.000 0.00 0.00 0.00 2.40
2288 2503 0.394352 ACCTGGGTCGCCATCAAATC 60.394 55.000 0.00 0.00 0.00 2.17
2289 2504 0.680921 CACCTGGGTCGCCATCAAAT 60.681 55.000 0.00 0.00 0.00 2.32
2290 2505 1.303236 CACCTGGGTCGCCATCAAA 60.303 57.895 0.00 0.00 0.00 2.69
2291 2506 2.350895 CACCTGGGTCGCCATCAA 59.649 61.111 0.00 0.00 0.00 2.57
2292 2507 4.408821 GCACCTGGGTCGCCATCA 62.409 66.667 0.00 0.00 0.00 3.07
2293 2508 4.101448 AGCACCTGGGTCGCCATC 62.101 66.667 0.00 0.00 0.00 3.51
2294 2509 4.415150 CAGCACCTGGGTCGCCAT 62.415 66.667 0.00 0.00 0.00 4.40
2298 2513 3.357079 GTTGCAGCACCTGGGTCG 61.357 66.667 0.00 0.00 31.21 4.79
2299 2514 2.203337 TGTTGCAGCACCTGGGTC 60.203 61.111 0.00 0.00 31.21 4.46
2300 2515 2.203394 CTGTTGCAGCACCTGGGT 60.203 61.111 0.00 0.00 31.21 4.51
2328 2543 2.039084 GGAGTGTGGAGAATTGGTGAGT 59.961 50.000 0.00 0.00 0.00 3.41
2391 2606 4.894784 AGATTACTCCACGCAAGAAAAGA 58.105 39.130 0.00 0.00 43.62 2.52
2626 2848 4.550255 GCGAACTACAAGCACCGATTTATC 60.550 45.833 0.00 0.00 0.00 1.75
2627 2849 3.308866 GCGAACTACAAGCACCGATTTAT 59.691 43.478 0.00 0.00 0.00 1.40
2628 2850 2.669434 GCGAACTACAAGCACCGATTTA 59.331 45.455 0.00 0.00 0.00 1.40
2629 2851 1.463444 GCGAACTACAAGCACCGATTT 59.537 47.619 0.00 0.00 0.00 2.17
2630 2852 1.076332 GCGAACTACAAGCACCGATT 58.924 50.000 0.00 0.00 0.00 3.34
2631 2853 0.246635 AGCGAACTACAAGCACCGAT 59.753 50.000 0.00 0.00 0.00 4.18
2632 2854 0.032952 AAGCGAACTACAAGCACCGA 59.967 50.000 0.00 0.00 0.00 4.69
2633 2855 0.865769 AAAGCGAACTACAAGCACCG 59.134 50.000 0.00 0.00 0.00 4.94
2634 2856 2.604614 CCAAAAGCGAACTACAAGCACC 60.605 50.000 0.00 0.00 0.00 5.01
2635 2857 2.032924 ACCAAAAGCGAACTACAAGCAC 59.967 45.455 0.00 0.00 0.00 4.40
2636 2858 2.294074 ACCAAAAGCGAACTACAAGCA 58.706 42.857 0.00 0.00 0.00 3.91
2637 2859 3.349488 AACCAAAAGCGAACTACAAGC 57.651 42.857 0.00 0.00 0.00 4.01
2638 2860 4.738252 GGAAAACCAAAAGCGAACTACAAG 59.262 41.667 0.00 0.00 0.00 3.16
2639 2861 4.399934 AGGAAAACCAAAAGCGAACTACAA 59.600 37.500 0.00 0.00 0.00 2.41
2640 2862 3.949113 AGGAAAACCAAAAGCGAACTACA 59.051 39.130 0.00 0.00 0.00 2.74
2641 2863 4.563337 AGGAAAACCAAAAGCGAACTAC 57.437 40.909 0.00 0.00 0.00 2.73
2642 2864 6.696441 TTAAGGAAAACCAAAAGCGAACTA 57.304 33.333 0.00 0.00 0.00 2.24
2643 2865 5.585820 TTAAGGAAAACCAAAAGCGAACT 57.414 34.783 0.00 0.00 0.00 3.01
2644 2866 5.176774 CCATTAAGGAAAACCAAAAGCGAAC 59.823 40.000 0.00 0.00 41.22 3.95
2645 2867 5.069251 TCCATTAAGGAAAACCAAAAGCGAA 59.931 36.000 0.00 0.00 45.65 4.70
2646 2868 4.585162 TCCATTAAGGAAAACCAAAAGCGA 59.415 37.500 0.00 0.00 45.65 4.93
2647 2869 4.877282 TCCATTAAGGAAAACCAAAAGCG 58.123 39.130 0.00 0.00 45.65 4.68
2668 2890 3.154710 ACAAAGAAGGGGGAACGATTTC 58.845 45.455 0.00 0.00 0.00 2.17
2669 2891 3.238788 ACAAAGAAGGGGGAACGATTT 57.761 42.857 0.00 0.00 0.00 2.17
2670 2892 2.971901 ACAAAGAAGGGGGAACGATT 57.028 45.000 0.00 0.00 0.00 3.34
2671 2893 2.971901 AACAAAGAAGGGGGAACGAT 57.028 45.000 0.00 0.00 0.00 3.73
2672 2894 3.860968 TTAACAAAGAAGGGGGAACGA 57.139 42.857 0.00 0.00 0.00 3.85
2673 2895 4.922471 TTTTAACAAAGAAGGGGGAACG 57.078 40.909 0.00 0.00 0.00 3.95
2674 2896 7.822334 CCATATTTTTAACAAAGAAGGGGGAAC 59.178 37.037 0.00 0.00 0.00 3.62
2675 2897 7.528036 GCCATATTTTTAACAAAGAAGGGGGAA 60.528 37.037 0.00 0.00 0.00 3.97
2676 2898 6.070481 GCCATATTTTTAACAAAGAAGGGGGA 60.070 38.462 0.00 0.00 0.00 4.81
2677 2899 6.070251 AGCCATATTTTTAACAAAGAAGGGGG 60.070 38.462 0.00 0.00 0.00 5.40
2678 2900 6.818142 CAGCCATATTTTTAACAAAGAAGGGG 59.182 38.462 0.00 0.00 0.00 4.79
2679 2901 7.386059 ACAGCCATATTTTTAACAAAGAAGGG 58.614 34.615 0.00 0.00 0.00 3.95
2680 2902 9.573133 CTACAGCCATATTTTTAACAAAGAAGG 57.427 33.333 0.00 0.00 0.00 3.46
2694 2916 9.368416 TGAAGACTATAGTTCTACAGCCATATT 57.632 33.333 6.88 0.00 0.00 1.28
2695 2917 8.941995 TGAAGACTATAGTTCTACAGCCATAT 57.058 34.615 6.88 0.00 0.00 1.78
2696 2918 8.941995 ATGAAGACTATAGTTCTACAGCCATA 57.058 34.615 6.88 0.00 0.00 2.74
2697 2919 7.847711 ATGAAGACTATAGTTCTACAGCCAT 57.152 36.000 6.88 0.85 0.00 4.40
2698 2920 8.762481 TTATGAAGACTATAGTTCTACAGCCA 57.238 34.615 6.88 0.00 0.00 4.75
2725 2947 4.952957 TCTGTCTTGTGACCCAATGAAAAA 59.047 37.500 0.00 0.00 42.28 1.94
2726 2948 4.531854 TCTGTCTTGTGACCCAATGAAAA 58.468 39.130 0.00 0.00 42.28 2.29
2727 2949 4.163441 TCTGTCTTGTGACCCAATGAAA 57.837 40.909 0.00 0.00 42.28 2.69
2728 2950 3.855255 TCTGTCTTGTGACCCAATGAA 57.145 42.857 0.00 0.00 42.28 2.57
2729 2951 3.072915 ACATCTGTCTTGTGACCCAATGA 59.927 43.478 0.00 0.00 42.28 2.57
2730 2952 3.415212 ACATCTGTCTTGTGACCCAATG 58.585 45.455 0.00 0.00 42.28 2.82
2731 2953 3.795688 ACATCTGTCTTGTGACCCAAT 57.204 42.857 0.00 0.00 42.28 3.16
2732 2954 3.213506 CAACATCTGTCTTGTGACCCAA 58.786 45.455 0.00 0.00 42.28 4.12
2733 2955 2.172505 ACAACATCTGTCTTGTGACCCA 59.827 45.455 0.00 0.00 42.28 4.51
2734 2956 2.851195 ACAACATCTGTCTTGTGACCC 58.149 47.619 0.00 0.00 42.28 4.46
2735 2957 4.814234 TGTAACAACATCTGTCTTGTGACC 59.186 41.667 1.85 0.00 42.28 4.02
2736 2958 5.984233 TGTAACAACATCTGTCTTGTGAC 57.016 39.130 0.00 0.00 43.20 3.67
2737 2959 8.147704 TCTAATGTAACAACATCTGTCTTGTGA 58.852 33.333 0.00 0.00 37.23 3.58
2738 2960 8.310406 TCTAATGTAACAACATCTGTCTTGTG 57.690 34.615 0.00 0.00 37.23 3.33
2772 2994 9.754382 CGGGCACTTTTACTAGTCTTAATATAA 57.246 33.333 0.00 0.00 0.00 0.98
2773 2995 8.917088 ACGGGCACTTTTACTAGTCTTAATATA 58.083 33.333 0.00 0.00 0.00 0.86
2774 2996 7.709613 CACGGGCACTTTTACTAGTCTTAATAT 59.290 37.037 0.00 0.00 0.00 1.28
2775 2997 7.037438 CACGGGCACTTTTACTAGTCTTAATA 58.963 38.462 0.00 0.00 0.00 0.98
2776 2998 5.873164 CACGGGCACTTTTACTAGTCTTAAT 59.127 40.000 0.00 0.00 0.00 1.40
2777 2999 5.232463 CACGGGCACTTTTACTAGTCTTAA 58.768 41.667 0.00 0.00 0.00 1.85
2778 3000 4.813027 CACGGGCACTTTTACTAGTCTTA 58.187 43.478 0.00 0.00 0.00 2.10
2779 3001 3.660865 CACGGGCACTTTTACTAGTCTT 58.339 45.455 0.00 0.00 0.00 3.01
2780 3002 2.612221 GCACGGGCACTTTTACTAGTCT 60.612 50.000 3.77 0.00 40.72 3.24
2781 3003 1.730612 GCACGGGCACTTTTACTAGTC 59.269 52.381 3.77 0.00 40.72 2.59
2782 3004 1.804601 GCACGGGCACTTTTACTAGT 58.195 50.000 3.77 0.00 40.72 2.57
2783 3005 0.719465 CGCACGGGCACTTTTACTAG 59.281 55.000 11.77 0.00 41.24 2.57
2784 3006 0.033781 ACGCACGGGCACTTTTACTA 59.966 50.000 11.77 0.00 41.24 1.82
2785 3007 0.816421 AACGCACGGGCACTTTTACT 60.816 50.000 11.77 0.00 41.24 2.24
2786 3008 0.659123 CAACGCACGGGCACTTTTAC 60.659 55.000 11.77 0.00 41.24 2.01
2787 3009 1.649815 CAACGCACGGGCACTTTTA 59.350 52.632 11.77 0.00 41.24 1.52
2788 3010 2.411290 CAACGCACGGGCACTTTT 59.589 55.556 11.77 0.00 41.24 2.27
2789 3011 4.264638 GCAACGCACGGGCACTTT 62.265 61.111 11.77 0.00 41.24 2.66


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

AutoCloner maintained by Alex Coulton.