Multiple sequence alignment - TraesCS5D01G074300

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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 TraesCS5D01G074300 chr5D 100.000 2655 0 0 1 2655 73499844 73502498 0.000000e+00 4903.0
1 TraesCS5D01G074300 chr5D 96.923 65 2 0 2272 2336 73502050 73502114 2.790000e-20 110.0
2 TraesCS5D01G074300 chr5D 96.923 65 2 0 2207 2271 73502115 73502179 2.790000e-20 110.0
3 TraesCS5D01G074300 chr5D 88.136 59 4 3 2044 2101 475152442 475152498 1.710000e-07 67.6
4 TraesCS5D01G074300 chr5D 90.566 53 2 3 2048 2098 478164185 478164236 1.710000e-07 67.6
5 TraesCS5D01G074300 chr5B 90.451 2084 108 36 1 2044 79083120 79081088 0.000000e+00 2662.0
6 TraesCS5D01G074300 chr5B 91.549 71 6 0 327 397 79082868 79082798 6.050000e-17 99.0
7 TraesCS5D01G074300 chr5B 87.059 85 9 2 2112 2196 78968525 78968443 7.820000e-16 95.3
8 TraesCS5D01G074300 chr5B 90.000 60 3 3 2044 2101 582391976 582392034 1.020000e-09 75.0
9 TraesCS5D01G074300 chr5B 90.909 55 2 3 2046 2098 585752803 585752856 1.320000e-08 71.3
10 TraesCS5D01G074300 chr5A 87.609 1606 90 49 639 2182 68612957 68614515 0.000000e+00 1762.0
11 TraesCS5D01G074300 chr5A 84.828 435 34 14 23 428 68612078 68612509 2.460000e-110 409.0
12 TraesCS5D01G074300 chr5A 87.432 366 32 8 2301 2655 68614506 68614868 2.460000e-110 409.0
13 TraesCS5D01G074300 chr5A 91.892 74 5 1 324 397 68612321 68612393 4.680000e-18 102.0
14 TraesCS5D01G074300 chr5A 91.525 59 2 3 2045 2101 594323240 594323297 7.880000e-11 78.7
15 TraesCS5D01G074300 chr7A 77.538 325 54 12 1171 1493 191826939 191827246 7.550000e-41 178.0
16 TraesCS5D01G074300 chr7B 76.627 338 55 20 1171 1493 154552774 154553102 5.880000e-37 165.0
17 TraesCS5D01G074300 chr4B 88.889 117 11 2 2432 2547 647904016 647904131 2.750000e-30 143.0
18 TraesCS5D01G074300 chr4B 87.500 120 13 2 2432 2550 584307452 584307334 1.280000e-28 137.0
19 TraesCS5D01G074300 chr4B 85.496 131 18 1 1171 1300 144284932 144285062 4.610000e-28 135.0
20 TraesCS5D01G074300 chr4B 86.325 117 14 2 2432 2547 646811753 646811868 2.770000e-25 126.0
21 TraesCS5D01G074300 chr7D 86.614 127 17 0 1171 1297 184857146 184857272 9.910000e-30 141.0
22 TraesCS5D01G074300 chr6B 86.667 120 14 2 2432 2550 56384759 56384641 5.960000e-27 132.0
23 TraesCS5D01G074300 chr6B 86.667 120 14 2 2432 2550 388812246 388812364 5.960000e-27 132.0
24 TraesCS5D01G074300 chr2D 87.179 117 13 2 2432 2547 439645244 439645129 5.960000e-27 132.0
25 TraesCS5D01G074300 chr6D 86.325 117 14 2 2432 2547 263269868 263269983 2.770000e-25 126.0
26 TraesCS5D01G074300 chr6D 88.333 60 4 3 2044 2101 78352772 78352714 4.740000e-08 69.4
27 TraesCS5D01G074300 chr1B 86.325 117 14 2 2432 2547 341397637 341397752 2.770000e-25 126.0
28 TraesCS5D01G074300 chr1B 86.441 59 6 2 2044 2101 49924633 49924576 2.210000e-06 63.9
29 TraesCS5D01G074300 chr4D 88.333 60 4 3 2044 2101 127555248 127555306 4.740000e-08 69.4
30 TraesCS5D01G074300 chr4A 86.667 60 7 1 2044 2102 440873186 440873127 6.130000e-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 TraesCS5D01G074300 chr5D 73499844 73502498 2654 False 1707.666667 4903 97.948667 1 2655 3 chr5D.!!$F3 2654
1 TraesCS5D01G074300 chr5B 79081088 79083120 2032 True 1380.500000 2662 91.000000 1 2044 2 chr5B.!!$R2 2043
2 TraesCS5D01G074300 chr5A 68612078 68614868 2790 False 670.500000 1762 87.940250 23 2655 4 chr5A.!!$F2 2632

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
505 556 0.961019 ATTCAGCACAACACGCCAAT 59.039 45.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2195 2577 0.106015 AGCTGAAACAAACAGGGCCT 60.106 50.0 0.0 0.0 36.09 5.19 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
57 67 3.755628 CAGCAGGCCACCACATGC 61.756 66.667 5.01 4.58 38.97 4.06
113 130 2.103042 GGGACGTGTGCTGATCTGC 61.103 63.158 16.98 16.98 0.00 4.26
208 230 2.167398 GACTGCTGGTGGCTCCGTTA 62.167 60.000 0.53 0.00 42.39 3.18
271 307 3.961480 AAGTGTTCTCATCACGGATGA 57.039 42.857 13.64 13.64 45.35 2.92
272 308 4.478206 AAGTGTTCTCATCACGGATGAT 57.522 40.909 14.41 0.40 46.16 2.45
344 381 3.068024 TGCCCAACAAAAGTGTTCTCATC 59.932 43.478 0.00 0.00 45.00 2.92
345 382 3.068024 GCCCAACAAAAGTGTTCTCATCA 59.932 43.478 0.00 0.00 45.00 3.07
408 451 1.742761 ATCTCCACCGAGCATTGTTG 58.257 50.000 0.00 0.00 35.94 3.33
439 489 2.029020 CCAACTCCACATGTCTCTTCGA 60.029 50.000 0.00 0.00 0.00 3.71
457 507 7.974501 TCTCTTCGATGTCATTTTAACTACTCC 59.025 37.037 0.00 0.00 0.00 3.85
501 552 2.159653 CCTTAGATTCAGCACAACACGC 60.160 50.000 0.00 0.00 0.00 5.34
505 556 0.961019 ATTCAGCACAACACGCCAAT 59.039 45.000 0.00 0.00 0.00 3.16
578 879 1.389609 ATCGGCCGTCCTCATAACGT 61.390 55.000 27.15 0.00 38.44 3.99
588 889 4.051922 GTCCTCATAACGTATTGCAGGAG 58.948 47.826 13.89 4.80 0.00 3.69
607 908 1.558756 AGGAATCTGCCTCTTGACCTG 59.441 52.381 0.00 0.00 30.76 4.00
609 910 2.172293 GGAATCTGCCTCTTGACCTGAT 59.828 50.000 0.00 0.00 0.00 2.90
612 913 5.431765 GAATCTGCCTCTTGACCTGATTTA 58.568 41.667 0.00 0.00 30.56 1.40
614 915 3.582647 TCTGCCTCTTGACCTGATTTACA 59.417 43.478 0.00 0.00 0.00 2.41
630 931 8.646004 CCTGATTTACATTTCCTAGATCTCTCA 58.354 37.037 0.00 0.00 0.00 3.27
651 952 6.385176 TCTCACAGTAGATCCAATCCAAAGAT 59.615 38.462 0.00 0.00 0.00 2.40
653 954 7.730084 TCACAGTAGATCCAATCCAAAGATAG 58.270 38.462 0.00 0.00 30.42 2.08
906 1220 6.185114 ACAACATCCAAATCCAAATCCAAA 57.815 33.333 0.00 0.00 0.00 3.28
907 1221 5.997129 ACAACATCCAAATCCAAATCCAAAC 59.003 36.000 0.00 0.00 0.00 2.93
915 1229 2.764269 TCCAAATCCAAACCCAAACCA 58.236 42.857 0.00 0.00 0.00 3.67
918 1232 4.018415 TCCAAATCCAAACCCAAACCAAAA 60.018 37.500 0.00 0.00 0.00 2.44
926 1240 3.904800 ACCCAAACCAAAACCAAGAAG 57.095 42.857 0.00 0.00 0.00 2.85
958 1278 1.000359 TCCATCAGTCTCCGCCTCA 60.000 57.895 0.00 0.00 0.00 3.86
1064 1398 3.004106 GCAGGGTATGTGCAGATTGAATC 59.996 47.826 0.00 0.00 40.86 2.52
1066 1400 4.885907 CAGGGTATGTGCAGATTGAATCTT 59.114 41.667 4.67 0.00 37.58 2.40
1070 1404 6.753744 GGGTATGTGCAGATTGAATCTTTTTC 59.246 38.462 4.67 0.00 37.58 2.29
1071 1405 7.363268 GGGTATGTGCAGATTGAATCTTTTTCT 60.363 37.037 4.67 0.00 37.58 2.52
1072 1406 8.031277 GGTATGTGCAGATTGAATCTTTTTCTT 58.969 33.333 4.67 0.00 37.58 2.52
1073 1407 7.884816 ATGTGCAGATTGAATCTTTTTCTTG 57.115 32.000 4.67 0.00 37.58 3.02
1087 1421 6.319399 TCTTTTTCTTGTTCGGTTCTTGTTC 58.681 36.000 0.00 0.00 0.00 3.18
1088 1422 5.630661 TTTTCTTGTTCGGTTCTTGTTCA 57.369 34.783 0.00 0.00 0.00 3.18
1090 1424 6.928979 TTTCTTGTTCGGTTCTTGTTCATA 57.071 33.333 0.00 0.00 0.00 2.15
1091 1425 6.539649 TTCTTGTTCGGTTCTTGTTCATAG 57.460 37.500 0.00 0.00 0.00 2.23
1099 1442 3.614616 GGTTCTTGTTCATAGTGAGCTCG 59.385 47.826 9.64 0.00 0.00 5.03
1107 1450 1.018148 ATAGTGAGCTCGACTGACGG 58.982 55.000 21.70 0.00 37.61 4.79
1124 1467 4.481112 GGTGCGGCCATTTGCTCG 62.481 66.667 2.24 0.00 40.92 5.03
1168 1514 1.898154 GTGATGCTCCTGTACCCGT 59.102 57.895 0.00 0.00 0.00 5.28
1307 1653 7.435488 CCTCATCTACTGGTAATTAAACGACAG 59.565 40.741 0.00 0.00 0.00 3.51
1322 1668 1.267806 CGACAGGCAAATCAAGCAAGT 59.732 47.619 0.00 0.00 0.00 3.16
1323 1669 2.666619 CGACAGGCAAATCAAGCAAGTC 60.667 50.000 0.00 0.00 35.40 3.01
1362 1725 4.037446 TGTTTGATTTCTGTGGTGGCTTAC 59.963 41.667 0.00 0.00 0.00 2.34
1366 1729 2.839486 TTCTGTGGTGGCTTACTCTG 57.161 50.000 0.00 0.00 0.00 3.35
1714 2081 3.447742 CTTCTTGGCTTGTGGTGTTTTC 58.552 45.455 0.00 0.00 0.00 2.29
1748 2116 7.815840 TTGAGATTTTAGATTGTGGTGTTGA 57.184 32.000 0.00 0.00 0.00 3.18
1749 2117 7.439157 TGAGATTTTAGATTGTGGTGTTGAG 57.561 36.000 0.00 0.00 0.00 3.02
1750 2118 7.223584 TGAGATTTTAGATTGTGGTGTTGAGA 58.776 34.615 0.00 0.00 0.00 3.27
1751 2119 7.388776 TGAGATTTTAGATTGTGGTGTTGAGAG 59.611 37.037 0.00 0.00 0.00 3.20
1752 2120 7.227156 AGATTTTAGATTGTGGTGTTGAGAGT 58.773 34.615 0.00 0.00 0.00 3.24
1753 2121 8.375506 AGATTTTAGATTGTGGTGTTGAGAGTA 58.624 33.333 0.00 0.00 0.00 2.59
1754 2122 9.167311 GATTTTAGATTGTGGTGTTGAGAGTAT 57.833 33.333 0.00 0.00 0.00 2.12
1827 2195 1.871408 CGGTTGCAGGCTAGCTAGATG 60.871 57.143 25.15 20.75 34.99 2.90
1828 2196 1.542108 GGTTGCAGGCTAGCTAGATGG 60.542 57.143 25.15 12.55 34.99 3.51
1829 2197 1.139853 GTTGCAGGCTAGCTAGATGGT 59.860 52.381 25.15 1.90 34.99 3.55
1830 2198 0.755079 TGCAGGCTAGCTAGATGGTG 59.245 55.000 25.15 14.72 34.99 4.17
1954 2327 5.557891 AAGCTAGCTTGTGATGTTCATTC 57.442 39.130 28.83 0.00 34.60 2.67
1964 2337 7.061905 GCTTGTGATGTTCATTCTTGAGATTTG 59.938 37.037 0.00 0.00 32.27 2.32
2066 2447 7.230108 GCCACTACCTCTGTACACTAATATACA 59.770 40.741 0.00 0.00 0.00 2.29
2090 2472 8.945057 ACACATTTTTGCAGTTTAATTTGAACT 58.055 25.926 1.00 1.00 37.82 3.01
2164 2546 6.949715 AGACCCAAAATAAACGAGTATACCA 58.050 36.000 0.00 0.00 0.00 3.25
2185 2567 7.617041 ACCATCAATTCTTAGTGTAGAAAGC 57.383 36.000 0.00 0.00 37.66 3.51
2186 2568 6.599638 ACCATCAATTCTTAGTGTAGAAAGCC 59.400 38.462 0.00 0.00 37.66 4.35
2187 2569 6.825721 CCATCAATTCTTAGTGTAGAAAGCCT 59.174 38.462 0.00 0.00 37.66 4.58
2188 2570 7.337942 CCATCAATTCTTAGTGTAGAAAGCCTT 59.662 37.037 0.00 0.00 37.66 4.35
2189 2571 8.734386 CATCAATTCTTAGTGTAGAAAGCCTTT 58.266 33.333 0.00 0.00 37.66 3.11
2190 2572 9.959721 ATCAATTCTTAGTGTAGAAAGCCTTTA 57.040 29.630 0.00 0.00 37.66 1.85
2191 2573 9.787435 TCAATTCTTAGTGTAGAAAGCCTTTAA 57.213 29.630 0.00 0.00 37.66 1.52
2192 2574 9.827411 CAATTCTTAGTGTAGAAAGCCTTTAAC 57.173 33.333 0.00 0.00 37.66 2.01
2193 2575 9.794719 AATTCTTAGTGTAGAAAGCCTTTAACT 57.205 29.630 0.00 0.00 37.66 2.24
2194 2576 9.794719 ATTCTTAGTGTAGAAAGCCTTTAACTT 57.205 29.630 0.00 0.00 37.66 2.66
2196 2578 9.924650 TCTTAGTGTAGAAAGCCTTTAACTTAG 57.075 33.333 0.00 0.00 0.00 2.18
2197 2579 9.152595 CTTAGTGTAGAAAGCCTTTAACTTAGG 57.847 37.037 0.00 0.00 35.80 2.69
2206 2588 4.783764 CCTTTAACTTAGGCCCTGTTTG 57.216 45.455 0.00 0.00 0.00 2.93
2207 2589 4.149598 CCTTTAACTTAGGCCCTGTTTGT 58.850 43.478 0.00 0.00 0.00 2.83
2208 2590 4.587262 CCTTTAACTTAGGCCCTGTTTGTT 59.413 41.667 0.00 0.00 0.00 2.83
2209 2591 5.069914 CCTTTAACTTAGGCCCTGTTTGTTT 59.930 40.000 0.00 0.00 0.00 2.83
2210 2592 5.777850 TTAACTTAGGCCCTGTTTGTTTC 57.222 39.130 0.00 0.00 0.00 2.78
2211 2593 3.306472 ACTTAGGCCCTGTTTGTTTCA 57.694 42.857 0.00 0.00 0.00 2.69
2212 2594 3.222603 ACTTAGGCCCTGTTTGTTTCAG 58.777 45.455 0.00 0.00 0.00 3.02
2213 2595 1.616159 TAGGCCCTGTTTGTTTCAGC 58.384 50.000 0.00 0.00 0.00 4.26
2214 2596 0.106015 AGGCCCTGTTTGTTTCAGCT 60.106 50.000 0.00 0.00 0.00 4.24
2215 2597 0.752658 GGCCCTGTTTGTTTCAGCTT 59.247 50.000 0.00 0.00 0.00 3.74
2216 2598 1.538849 GGCCCTGTTTGTTTCAGCTTG 60.539 52.381 0.00 0.00 0.00 4.01
2217 2599 1.856802 CCCTGTTTGTTTCAGCTTGC 58.143 50.000 0.00 0.00 0.00 4.01
2218 2600 1.410153 CCCTGTTTGTTTCAGCTTGCT 59.590 47.619 0.00 0.00 0.00 3.91
2219 2601 2.159057 CCCTGTTTGTTTCAGCTTGCTT 60.159 45.455 0.00 0.00 0.00 3.91
2220 2602 2.861935 CCTGTTTGTTTCAGCTTGCTTG 59.138 45.455 0.00 0.00 0.00 4.01
2221 2603 3.429272 CCTGTTTGTTTCAGCTTGCTTGA 60.429 43.478 0.00 0.00 0.00 3.02
2222 2604 4.365723 CTGTTTGTTTCAGCTTGCTTGAT 58.634 39.130 0.00 0.00 0.00 2.57
2223 2605 4.362279 TGTTTGTTTCAGCTTGCTTGATC 58.638 39.130 0.00 0.00 0.00 2.92
2224 2606 3.648339 TTGTTTCAGCTTGCTTGATCC 57.352 42.857 0.00 0.00 0.00 3.36
2225 2607 2.585330 TGTTTCAGCTTGCTTGATCCA 58.415 42.857 0.00 0.00 0.00 3.41
2226 2608 2.957680 TGTTTCAGCTTGCTTGATCCAA 59.042 40.909 0.00 0.00 0.00 3.53
2227 2609 3.005050 TGTTTCAGCTTGCTTGATCCAAG 59.995 43.478 5.99 5.99 43.57 3.61
2228 2610 2.574006 TCAGCTTGCTTGATCCAAGT 57.426 45.000 10.63 0.00 42.77 3.16
2229 2611 2.156917 TCAGCTTGCTTGATCCAAGTG 58.843 47.619 10.63 8.33 42.77 3.16
2230 2612 1.884579 CAGCTTGCTTGATCCAAGTGT 59.115 47.619 10.63 0.00 42.77 3.55
2231 2613 1.884579 AGCTTGCTTGATCCAAGTGTG 59.115 47.619 10.63 1.24 42.77 3.82
2246 2628 4.549458 CAAGTGTGGATTTGCTTTAGTGG 58.451 43.478 0.00 0.00 0.00 4.00
2247 2629 2.558359 AGTGTGGATTTGCTTTAGTGGC 59.442 45.455 0.00 0.00 0.00 5.01
2248 2630 2.295909 GTGTGGATTTGCTTTAGTGGCA 59.704 45.455 0.00 0.00 37.97 4.92
2249 2631 2.557924 TGTGGATTTGCTTTAGTGGCAG 59.442 45.455 0.00 0.00 40.90 4.85
2250 2632 2.558359 GTGGATTTGCTTTAGTGGCAGT 59.442 45.455 0.00 0.00 40.90 4.40
2251 2633 2.819608 TGGATTTGCTTTAGTGGCAGTC 59.180 45.455 0.00 0.00 40.90 3.51
2252 2634 2.819608 GGATTTGCTTTAGTGGCAGTCA 59.180 45.455 0.00 0.00 40.90 3.41
2253 2635 3.255642 GGATTTGCTTTAGTGGCAGTCAA 59.744 43.478 0.00 0.00 40.90 3.18
2254 2636 3.708563 TTTGCTTTAGTGGCAGTCAAC 57.291 42.857 0.00 0.00 40.90 3.18
2255 2637 2.638480 TGCTTTAGTGGCAGTCAACT 57.362 45.000 0.00 0.00 34.56 3.16
2256 2638 2.930950 TGCTTTAGTGGCAGTCAACTT 58.069 42.857 0.00 0.00 34.56 2.66
2257 2639 3.287222 TGCTTTAGTGGCAGTCAACTTT 58.713 40.909 0.00 0.00 34.56 2.66
2258 2640 3.066621 TGCTTTAGTGGCAGTCAACTTTG 59.933 43.478 0.00 0.00 34.56 2.77
2259 2641 3.066760 GCTTTAGTGGCAGTCAACTTTGT 59.933 43.478 0.00 0.00 0.00 2.83
2260 2642 4.789802 GCTTTAGTGGCAGTCAACTTTGTC 60.790 45.833 0.00 0.00 0.00 3.18
2261 2643 2.418368 AGTGGCAGTCAACTTTGTCA 57.582 45.000 0.00 0.00 0.00 3.58
2262 2644 2.475200 GTGGCAGTCAACTTTGTCAC 57.525 50.000 0.00 0.00 41.95 3.67
2263 2645 1.065551 GTGGCAGTCAACTTTGTCACC 59.934 52.381 0.00 0.00 42.52 4.02
2264 2646 0.307760 GGCAGTCAACTTTGTCACCG 59.692 55.000 0.00 0.00 0.00 4.94
2265 2647 1.295792 GCAGTCAACTTTGTCACCGA 58.704 50.000 0.00 0.00 0.00 4.69
2266 2648 1.668751 GCAGTCAACTTTGTCACCGAA 59.331 47.619 0.00 0.00 0.00 4.30
2267 2649 2.286418 GCAGTCAACTTTGTCACCGAAG 60.286 50.000 0.00 0.00 37.97 3.79
2268 2650 2.936498 CAGTCAACTTTGTCACCGAAGT 59.064 45.455 0.00 0.00 45.45 3.01
2269 2651 4.116961 CAGTCAACTTTGTCACCGAAGTA 58.883 43.478 0.00 0.00 43.22 2.24
2270 2652 4.025979 CAGTCAACTTTGTCACCGAAGTAC 60.026 45.833 0.00 0.00 43.22 2.73
2271 2653 3.060740 GTCAACTTTGTCACCGAAGTACG 60.061 47.826 0.00 0.00 43.22 3.67
2272 2654 2.861935 CAACTTTGTCACCGAAGTACGT 59.138 45.455 0.00 0.00 43.22 3.57
2273 2655 3.169355 ACTTTGTCACCGAAGTACGTT 57.831 42.857 0.00 0.00 42.40 3.99
2274 2656 3.524541 ACTTTGTCACCGAAGTACGTTT 58.475 40.909 0.00 0.00 42.40 3.60
2275 2657 3.553105 ACTTTGTCACCGAAGTACGTTTC 59.447 43.478 0.00 0.00 42.40 2.78
2276 2658 2.867287 TGTCACCGAAGTACGTTTCA 57.133 45.000 0.00 0.00 40.78 2.69
2277 2659 2.734670 TGTCACCGAAGTACGTTTCAG 58.265 47.619 0.00 0.00 40.78 3.02
2278 2660 1.454653 GTCACCGAAGTACGTTTCAGC 59.545 52.381 0.00 0.00 40.78 4.26
2279 2661 1.338973 TCACCGAAGTACGTTTCAGCT 59.661 47.619 0.00 0.00 40.78 4.24
2280 2662 2.132762 CACCGAAGTACGTTTCAGCTT 58.867 47.619 0.00 0.00 40.78 3.74
2281 2663 2.096909 CACCGAAGTACGTTTCAGCTTG 60.097 50.000 0.00 0.00 40.78 4.01
2282 2664 1.136336 CCGAAGTACGTTTCAGCTTGC 60.136 52.381 0.00 0.00 40.78 4.01
2283 2665 1.792949 CGAAGTACGTTTCAGCTTGCT 59.207 47.619 0.00 0.00 37.22 3.91
2284 2666 2.221055 CGAAGTACGTTTCAGCTTGCTT 59.779 45.455 0.00 0.00 37.22 3.91
2285 2667 3.545633 GAAGTACGTTTCAGCTTGCTTG 58.454 45.455 0.00 0.00 0.00 4.01
2286 2668 2.833794 AGTACGTTTCAGCTTGCTTGA 58.166 42.857 0.00 0.00 0.00 3.02
2287 2669 3.403038 AGTACGTTTCAGCTTGCTTGAT 58.597 40.909 0.00 0.00 0.00 2.57
2288 2670 2.977405 ACGTTTCAGCTTGCTTGATC 57.023 45.000 0.00 0.00 0.00 2.92
2289 2671 1.537202 ACGTTTCAGCTTGCTTGATCC 59.463 47.619 0.00 0.00 0.00 3.36
2290 2672 1.536766 CGTTTCAGCTTGCTTGATCCA 59.463 47.619 0.00 0.00 0.00 3.41
2291 2673 2.666619 CGTTTCAGCTTGCTTGATCCAC 60.667 50.000 0.00 0.00 0.00 4.02
2292 2674 2.275134 TTCAGCTTGCTTGATCCACA 57.725 45.000 0.00 0.00 0.00 4.17
2293 2675 2.502142 TCAGCTTGCTTGATCCACAT 57.498 45.000 0.00 0.00 0.00 3.21
2294 2676 2.089201 TCAGCTTGCTTGATCCACATG 58.911 47.619 0.00 0.00 0.00 3.21
2295 2677 1.816835 CAGCTTGCTTGATCCACATGT 59.183 47.619 0.00 0.00 0.00 3.21
2296 2678 1.816835 AGCTTGCTTGATCCACATGTG 59.183 47.619 19.31 19.31 0.00 3.21
2322 2704 3.287222 TGCTTTAGTGGCAGTCAACTTT 58.713 40.909 0.00 0.00 34.56 2.66
2350 2732 4.101942 CGAAGTACACTCTGAGATGCTTC 58.898 47.826 21.98 21.98 0.00 3.86
2364 2746 9.136323 TCTGAGATGCTTCAGATAATTACACTA 57.864 33.333 10.70 0.00 46.42 2.74
2388 2779 1.075601 TGGCCAAATCCAGAACCTCT 58.924 50.000 0.61 0.00 0.00 3.69
2402 2793 3.582208 AGAACCTCTGAGATGCTTCAAGT 59.418 43.478 6.17 0.00 0.00 3.16
2407 2798 7.187824 ACCTCTGAGATGCTTCAAGTAATTA 57.812 36.000 6.17 0.00 0.00 1.40
2445 2836 2.872732 TCCAGAACCGAAGTACACTCT 58.127 47.619 0.00 0.00 0.00 3.24
2448 2839 3.366476 CCAGAACCGAAGTACACTCTGAG 60.366 52.174 2.45 2.45 33.65 3.35
2453 2844 2.425312 CCGAAGTACACTCTGAGATGCT 59.575 50.000 12.44 5.17 0.00 3.79
2454 2845 3.119316 CCGAAGTACACTCTGAGATGCTT 60.119 47.826 12.44 13.10 0.00 3.91
2458 2849 3.446873 AGTACACTCTGAGATGCTTCAGG 59.553 47.826 12.44 6.87 43.78 3.86
2467 2858 6.475504 TCTGAGATGCTTCAGGAAATTACAA 58.524 36.000 11.67 0.00 43.78 2.41
2481 2872 7.171678 CAGGAAATTACAATAAAAACGGCCAAA 59.828 33.333 2.24 0.00 0.00 3.28
2492 2883 5.975693 AAAACGGCCAAATCTAGATTCAA 57.024 34.783 18.19 0.00 0.00 2.69
2495 2886 6.530019 AACGGCCAAATCTAGATTCAATTT 57.470 33.333 18.19 0.37 0.00 1.82
2513 2904 9.798994 ATTCAATTTCACTGATAAAGCTGATTC 57.201 29.630 0.00 0.00 0.00 2.52
2531 2922 6.424812 GCTGATTCCAAATAGCTGTTTGTTTT 59.575 34.615 27.61 15.27 37.37 2.43
2534 2925 8.149647 TGATTCCAAATAGCTGTTTGTTTTCAT 58.850 29.630 27.61 15.06 37.37 2.57
2563 2954 0.174389 TCGACTCTGCCAGCTGATTC 59.826 55.000 17.39 4.40 0.00 2.52
2588 2979 6.587608 CCAAATAGCTGGTTGTTTTCAGATTC 59.412 38.462 0.00 0.00 31.67 2.52
2596 2987 5.832595 TGGTTGTTTTCAGATTCCAGATTCA 59.167 36.000 0.00 0.00 0.00 2.57
2597 2988 6.152379 GGTTGTTTTCAGATTCCAGATTCAC 58.848 40.000 0.00 0.00 0.00 3.18
2598 2989 6.015940 GGTTGTTTTCAGATTCCAGATTCACT 60.016 38.462 0.00 0.00 0.00 3.41
2600 2991 7.206981 TGTTTTCAGATTCCAGATTCACTTC 57.793 36.000 0.00 0.00 0.00 3.01
2629 3021 4.394920 GCAAAGTTGAATCTCGTCCCATAA 59.605 41.667 0.00 0.00 0.00 1.90
2632 3024 5.359194 AGTTGAATCTCGTCCCATAACAT 57.641 39.130 0.00 0.00 0.00 2.71
2645 3037 6.750039 CGTCCCATAACATAATCCAAACAAAC 59.250 38.462 0.00 0.00 0.00 2.93
2648 3040 7.233553 TCCCATAACATAATCCAAACAAACACA 59.766 33.333 0.00 0.00 0.00 3.72
2649 3041 7.545265 CCCATAACATAATCCAAACAAACACAG 59.455 37.037 0.00 0.00 0.00 3.66
2650 3042 8.303156 CCATAACATAATCCAAACAAACACAGA 58.697 33.333 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 67 2.761213 GCATTGGGAGGGGCTTGG 60.761 66.667 0.00 0.00 0.00 3.61
58 68 3.142838 CGCATTGGGAGGGGCTTG 61.143 66.667 0.00 0.00 0.00 4.01
208 230 4.796408 TTGTTGGGCACAAAGGGT 57.204 50.000 1.02 0.00 42.76 4.34
230 266 0.816018 TTTTGCGCGTCCTCCAGAAA 60.816 50.000 8.43 0.00 0.00 2.52
268 304 0.545171 CAGCTCACCTCACCCATCAT 59.455 55.000 0.00 0.00 0.00 2.45
271 307 0.545171 CATCAGCTCACCTCACCCAT 59.455 55.000 0.00 0.00 0.00 4.00
272 308 0.545071 TCATCAGCTCACCTCACCCA 60.545 55.000 0.00 0.00 0.00 4.51
335 372 1.676968 CCCACCCGTGATGAGAACA 59.323 57.895 0.00 0.00 0.00 3.18
336 373 1.078426 CCCCACCCGTGATGAGAAC 60.078 63.158 0.00 0.00 0.00 3.01
344 381 4.329545 CACCTCACCCCACCCGTG 62.330 72.222 0.00 0.00 0.00 4.94
345 382 4.567597 TCACCTCACCCCACCCGT 62.568 66.667 0.00 0.00 0.00 5.28
439 489 6.157994 TGGCTAGGGAGTAGTTAAAATGACAT 59.842 38.462 0.00 0.00 0.00 3.06
457 507 2.787473 TGTGGAAGACAATGGCTAGG 57.213 50.000 0.00 0.00 0.00 3.02
501 552 4.437682 TCAAGCCCTCCAGTATTATTGG 57.562 45.455 0.00 0.00 37.04 3.16
505 556 3.648067 CCAGATCAAGCCCTCCAGTATTA 59.352 47.826 0.00 0.00 0.00 0.98
588 889 1.556911 TCAGGTCAAGAGGCAGATTCC 59.443 52.381 0.00 0.00 0.00 3.01
607 908 9.474920 CTGTGAGAGATCTAGGAAATGTAAATC 57.525 37.037 0.00 0.00 0.00 2.17
609 910 8.367660 ACTGTGAGAGATCTAGGAAATGTAAA 57.632 34.615 0.00 0.00 0.00 2.01
612 913 7.350382 TCTACTGTGAGAGATCTAGGAAATGT 58.650 38.462 0.00 0.00 0.00 2.71
614 915 7.669722 GGATCTACTGTGAGAGATCTAGGAAAT 59.330 40.741 15.15 0.00 45.01 2.17
630 931 7.682787 ACTATCTTTGGATTGGATCTACTGT 57.317 36.000 0.00 0.00 33.71 3.55
842 1153 6.071051 GGGGAAAGCTGTGGATTTATAACAAA 60.071 38.462 0.00 0.00 30.71 2.83
906 1220 3.196901 GTCTTCTTGGTTTTGGTTTGGGT 59.803 43.478 0.00 0.00 0.00 4.51
907 1221 3.196685 TGTCTTCTTGGTTTTGGTTTGGG 59.803 43.478 0.00 0.00 0.00 4.12
915 1229 5.010282 AGAACAGTGTGTCTTCTTGGTTTT 58.990 37.500 0.00 0.00 0.00 2.43
918 1232 3.452627 AGAGAACAGTGTGTCTTCTTGGT 59.547 43.478 0.00 0.00 0.00 3.67
926 1240 3.006323 ACTGATGGAGAGAACAGTGTGTC 59.994 47.826 0.00 0.00 41.16 3.67
958 1278 3.485463 TCTTGGTTGGACGAATCAGTT 57.515 42.857 0.00 0.00 0.00 3.16
1064 1398 6.090129 TGAACAAGAACCGAACAAGAAAAAG 58.910 36.000 0.00 0.00 0.00 2.27
1066 1400 5.630661 TGAACAAGAACCGAACAAGAAAA 57.369 34.783 0.00 0.00 0.00 2.29
1070 1404 5.465390 TCACTATGAACAAGAACCGAACAAG 59.535 40.000 0.00 0.00 0.00 3.16
1071 1405 5.361427 TCACTATGAACAAGAACCGAACAA 58.639 37.500 0.00 0.00 0.00 2.83
1072 1406 4.951254 TCACTATGAACAAGAACCGAACA 58.049 39.130 0.00 0.00 0.00 3.18
1073 1407 4.143094 GCTCACTATGAACAAGAACCGAAC 60.143 45.833 0.00 0.00 0.00 3.95
1087 1421 1.268285 CCGTCAGTCGAGCTCACTATG 60.268 57.143 15.40 6.70 42.86 2.23
1088 1422 1.018148 CCGTCAGTCGAGCTCACTAT 58.982 55.000 15.40 0.00 42.86 2.12
1090 1424 2.336478 CCCGTCAGTCGAGCTCACT 61.336 63.158 15.40 13.14 42.86 3.41
1091 1425 2.179517 CCCGTCAGTCGAGCTCAC 59.820 66.667 15.40 11.03 42.86 3.51
1107 1450 4.481112 CGAGCAAATGGCCGCACC 62.481 66.667 0.00 0.00 46.50 5.01
1168 1514 1.739929 CCTGCACCGACGCATACAA 60.740 57.895 0.00 0.00 42.06 2.41
1307 1653 2.613691 CATGGACTTGCTTGATTTGCC 58.386 47.619 0.00 0.00 0.00 4.52
1322 1668 0.539438 ACAAGAAAAGCGGCCATGGA 60.539 50.000 18.40 0.00 0.00 3.41
1323 1669 0.318120 AACAAGAAAAGCGGCCATGG 59.682 50.000 7.63 7.63 0.00 3.66
1362 1725 2.445427 TCCTGAGAGTGAGAAGCAGAG 58.555 52.381 0.00 0.00 0.00 3.35
1366 1729 2.034053 CGGTATCCTGAGAGTGAGAAGC 59.966 54.545 0.00 0.00 0.00 3.86
1408 1771 3.560251 AGCCACGCCAGGAACAGT 61.560 61.111 0.00 0.00 0.00 3.55
1532 1895 1.743252 CGTTCTCCTCCTTGCTGCC 60.743 63.158 0.00 0.00 0.00 4.85
1533 1896 1.743252 CCGTTCTCCTCCTTGCTGC 60.743 63.158 0.00 0.00 0.00 5.25
1534 1897 1.743252 GCCGTTCTCCTCCTTGCTG 60.743 63.158 0.00 0.00 0.00 4.41
1541 1904 2.815647 CTTGCCGCCGTTCTCCTC 60.816 66.667 0.00 0.00 0.00 3.71
1714 2081 9.533253 ACAATCTAAAATCTCAAACAAACCAAG 57.467 29.630 0.00 0.00 0.00 3.61
1736 2103 9.905713 ATATGTAAATACTCTCAACACCACAAT 57.094 29.630 0.00 0.00 0.00 2.71
1776 2144 8.740906 CCTCATATATGGAGTCGTAGTACAATT 58.259 37.037 12.78 0.00 0.00 2.32
1777 2145 7.148052 GCCTCATATATGGAGTCGTAGTACAAT 60.148 40.741 12.78 0.00 0.00 2.71
1779 2147 5.646793 GCCTCATATATGGAGTCGTAGTACA 59.353 44.000 12.78 0.00 0.00 2.90
1780 2148 5.066246 GGCCTCATATATGGAGTCGTAGTAC 59.934 48.000 12.78 0.00 0.00 2.73
1781 2149 5.191426 GGCCTCATATATGGAGTCGTAGTA 58.809 45.833 12.78 0.00 0.00 1.82
1782 2150 4.017808 GGCCTCATATATGGAGTCGTAGT 58.982 47.826 12.78 0.00 0.00 2.73
1783 2151 3.381908 GGGCCTCATATATGGAGTCGTAG 59.618 52.174 12.78 1.12 0.00 3.51
1784 2152 3.011369 AGGGCCTCATATATGGAGTCGTA 59.989 47.826 12.78 0.00 0.00 3.43
1785 2153 2.180276 GGGCCTCATATATGGAGTCGT 58.820 52.381 12.78 0.00 0.00 4.34
1827 2195 2.912025 CACCACAAGCCACCCACC 60.912 66.667 0.00 0.00 0.00 4.61
1828 2196 1.756561 AACACCACAAGCCACCCAC 60.757 57.895 0.00 0.00 0.00 4.61
1829 2197 1.756172 CAACACCACAAGCCACCCA 60.756 57.895 0.00 0.00 0.00 4.51
1830 2198 0.466555 TACAACACCACAAGCCACCC 60.467 55.000 0.00 0.00 0.00 4.61
1878 2251 4.081642 TGGTTACTGCTCCAATCTCAGTAC 60.082 45.833 1.32 0.00 41.39 2.73
1945 2318 6.183360 GCTAGCCAAATCTCAAGAATGAACAT 60.183 38.462 2.29 0.00 34.49 2.71
1954 2327 5.356190 TCAAATCAGCTAGCCAAATCTCAAG 59.644 40.000 12.13 0.00 0.00 3.02
1964 2337 3.243002 GCTTCACATCAAATCAGCTAGCC 60.243 47.826 12.13 0.00 0.00 3.93
2002 2375 8.499162 CGTCTTATGAAAAGTTCAACTTGATCT 58.501 33.333 2.78 0.00 43.95 2.75
2085 2467 8.893884 CGTATTTAATAACGTTTTTGCAGTTCA 58.106 29.630 5.91 0.00 34.48 3.18
2086 2468 8.360132 CCGTATTTAATAACGTTTTTGCAGTTC 58.640 33.333 5.91 0.00 37.40 3.01
2087 2469 8.074972 TCCGTATTTAATAACGTTTTTGCAGTT 58.925 29.630 5.91 0.00 37.40 3.16
2090 2472 8.967552 ATTCCGTATTTAATAACGTTTTTGCA 57.032 26.923 5.91 0.00 37.40 4.08
2164 2546 8.870075 AAAGGCTTTCTACACTAAGAATTGAT 57.130 30.769 6.68 0.00 35.48 2.57
2185 2567 4.149598 ACAAACAGGGCCTAAGTTAAAGG 58.850 43.478 5.28 1.36 37.17 3.11
2186 2568 5.784578 AACAAACAGGGCCTAAGTTAAAG 57.215 39.130 5.28 4.17 0.00 1.85
2187 2569 5.657302 TGAAACAAACAGGGCCTAAGTTAAA 59.343 36.000 5.28 0.00 0.00 1.52
2188 2570 5.202004 TGAAACAAACAGGGCCTAAGTTAA 58.798 37.500 5.28 0.00 0.00 2.01
2189 2571 4.794334 TGAAACAAACAGGGCCTAAGTTA 58.206 39.130 5.28 0.00 0.00 2.24
2190 2572 3.636764 CTGAAACAAACAGGGCCTAAGTT 59.363 43.478 5.28 4.21 0.00 2.66
2191 2573 3.222603 CTGAAACAAACAGGGCCTAAGT 58.777 45.455 5.28 0.00 0.00 2.24
2192 2574 2.029918 GCTGAAACAAACAGGGCCTAAG 60.030 50.000 5.28 0.00 36.09 2.18
2193 2575 1.960689 GCTGAAACAAACAGGGCCTAA 59.039 47.619 5.28 0.00 36.09 2.69
2194 2576 1.144913 AGCTGAAACAAACAGGGCCTA 59.855 47.619 5.28 0.00 36.09 3.93
2195 2577 0.106015 AGCTGAAACAAACAGGGCCT 60.106 50.000 0.00 0.00 36.09 5.19
2196 2578 0.752658 AAGCTGAAACAAACAGGGCC 59.247 50.000 0.00 0.00 36.09 5.80
2197 2579 1.856802 CAAGCTGAAACAAACAGGGC 58.143 50.000 0.00 0.00 36.09 5.19
2198 2580 1.410153 AGCAAGCTGAAACAAACAGGG 59.590 47.619 0.00 0.00 36.09 4.45
2199 2581 2.861935 CAAGCAAGCTGAAACAAACAGG 59.138 45.455 0.00 0.00 36.09 4.00
2200 2582 3.772932 TCAAGCAAGCTGAAACAAACAG 58.227 40.909 0.00 0.00 38.27 3.16
2201 2583 3.865011 TCAAGCAAGCTGAAACAAACA 57.135 38.095 0.00 0.00 0.00 2.83
2202 2584 3.737774 GGATCAAGCAAGCTGAAACAAAC 59.262 43.478 0.00 0.00 0.00 2.93
2203 2585 3.384146 TGGATCAAGCAAGCTGAAACAAA 59.616 39.130 0.00 0.00 0.00 2.83
2204 2586 2.957680 TGGATCAAGCAAGCTGAAACAA 59.042 40.909 0.00 0.00 0.00 2.83
2205 2587 2.585330 TGGATCAAGCAAGCTGAAACA 58.415 42.857 0.00 0.00 0.00 2.83
2206 2588 3.005155 ACTTGGATCAAGCAAGCTGAAAC 59.995 43.478 9.36 0.00 44.43 2.78
2207 2589 3.005050 CACTTGGATCAAGCAAGCTGAAA 59.995 43.478 9.36 0.00 44.43 2.69
2208 2590 2.555325 CACTTGGATCAAGCAAGCTGAA 59.445 45.455 9.36 0.00 44.43 3.02
2209 2591 2.156917 CACTTGGATCAAGCAAGCTGA 58.843 47.619 9.36 0.00 44.43 4.26
2210 2592 1.884579 ACACTTGGATCAAGCAAGCTG 59.115 47.619 9.36 9.28 44.43 4.24
2211 2593 1.884579 CACACTTGGATCAAGCAAGCT 59.115 47.619 9.36 0.00 44.43 3.74
2212 2594 2.342910 CACACTTGGATCAAGCAAGC 57.657 50.000 9.36 0.00 44.43 4.01
2223 2605 4.549458 CACTAAAGCAAATCCACACTTGG 58.451 43.478 0.00 0.00 45.56 3.61
2224 2606 4.549458 CCACTAAAGCAAATCCACACTTG 58.451 43.478 0.00 0.00 0.00 3.16
2225 2607 3.005791 GCCACTAAAGCAAATCCACACTT 59.994 43.478 0.00 0.00 0.00 3.16
2226 2608 2.558359 GCCACTAAAGCAAATCCACACT 59.442 45.455 0.00 0.00 0.00 3.55
2227 2609 2.295909 TGCCACTAAAGCAAATCCACAC 59.704 45.455 0.00 0.00 37.28 3.82
2228 2610 2.557924 CTGCCACTAAAGCAAATCCACA 59.442 45.455 0.00 0.00 40.35 4.17
2229 2611 2.558359 ACTGCCACTAAAGCAAATCCAC 59.442 45.455 0.00 0.00 40.35 4.02
2230 2612 2.819608 GACTGCCACTAAAGCAAATCCA 59.180 45.455 0.00 0.00 40.35 3.41
2231 2613 2.819608 TGACTGCCACTAAAGCAAATCC 59.180 45.455 0.00 0.00 40.35 3.01
2232 2614 4.022849 AGTTGACTGCCACTAAAGCAAATC 60.023 41.667 0.00 0.00 40.35 2.17
2233 2615 3.891366 AGTTGACTGCCACTAAAGCAAAT 59.109 39.130 0.00 0.00 40.35 2.32
2234 2616 3.287222 AGTTGACTGCCACTAAAGCAAA 58.713 40.909 0.00 0.00 40.35 3.68
2235 2617 2.930950 AGTTGACTGCCACTAAAGCAA 58.069 42.857 0.00 0.00 40.35 3.91
2236 2618 2.638480 AGTTGACTGCCACTAAAGCA 57.362 45.000 0.00 0.00 38.82 3.91
2237 2619 3.066760 ACAAAGTTGACTGCCACTAAAGC 59.933 43.478 0.00 0.00 0.00 3.51
2238 2620 4.335315 TGACAAAGTTGACTGCCACTAAAG 59.665 41.667 0.00 0.00 0.00 1.85
2239 2621 4.095782 GTGACAAAGTTGACTGCCACTAAA 59.904 41.667 0.00 0.00 0.00 1.85
2240 2622 3.625764 GTGACAAAGTTGACTGCCACTAA 59.374 43.478 0.00 0.00 0.00 2.24
2241 2623 3.202906 GTGACAAAGTTGACTGCCACTA 58.797 45.455 0.00 0.00 0.00 2.74
2242 2624 2.017049 GTGACAAAGTTGACTGCCACT 58.983 47.619 0.00 0.00 0.00 4.00
2243 2625 1.065551 GGTGACAAAGTTGACTGCCAC 59.934 52.381 0.00 0.00 0.00 5.01
2244 2626 1.388547 GGTGACAAAGTTGACTGCCA 58.611 50.000 0.00 0.00 0.00 4.92
2245 2627 0.307760 CGGTGACAAAGTTGACTGCC 59.692 55.000 0.00 0.00 0.00 4.85
2246 2628 1.295792 TCGGTGACAAAGTTGACTGC 58.704 50.000 0.00 0.00 0.00 4.40
2247 2629 2.936498 ACTTCGGTGACAAAGTTGACTG 59.064 45.455 0.00 0.00 0.00 3.51
2248 2630 3.261981 ACTTCGGTGACAAAGTTGACT 57.738 42.857 0.00 0.00 0.00 3.41
2249 2631 3.060740 CGTACTTCGGTGACAAAGTTGAC 60.061 47.826 7.71 1.86 35.71 3.18
2250 2632 3.117794 CGTACTTCGGTGACAAAGTTGA 58.882 45.455 7.71 0.00 35.71 3.18
2251 2633 2.861935 ACGTACTTCGGTGACAAAGTTG 59.138 45.455 7.71 4.85 44.69 3.16
2252 2634 3.169355 ACGTACTTCGGTGACAAAGTT 57.831 42.857 7.71 0.00 44.69 2.66
2253 2635 2.877043 ACGTACTTCGGTGACAAAGT 57.123 45.000 7.57 7.57 44.69 2.66
2254 2636 3.552699 TGAAACGTACTTCGGTGACAAAG 59.447 43.478 0.00 0.00 44.69 2.77
2255 2637 3.519579 TGAAACGTACTTCGGTGACAAA 58.480 40.909 0.00 0.00 44.69 2.83
2256 2638 3.117794 CTGAAACGTACTTCGGTGACAA 58.882 45.455 0.00 0.00 44.69 3.18
2257 2639 2.734670 CTGAAACGTACTTCGGTGACA 58.265 47.619 0.00 0.00 44.69 3.58
2258 2640 1.454653 GCTGAAACGTACTTCGGTGAC 59.545 52.381 9.86 0.00 44.69 3.67
2259 2641 1.338973 AGCTGAAACGTACTTCGGTGA 59.661 47.619 9.86 0.00 44.69 4.02
2260 2642 1.779569 AGCTGAAACGTACTTCGGTG 58.220 50.000 9.86 0.00 44.69 4.94
2261 2643 2.132762 CAAGCTGAAACGTACTTCGGT 58.867 47.619 9.86 2.06 44.69 4.69
2262 2644 1.136336 GCAAGCTGAAACGTACTTCGG 60.136 52.381 4.71 4.71 44.69 4.30
2263 2645 1.792949 AGCAAGCTGAAACGTACTTCG 59.207 47.619 0.00 0.00 46.00 3.79
2264 2646 3.247648 TCAAGCAAGCTGAAACGTACTTC 59.752 43.478 0.00 0.00 0.00 3.01
2265 2647 3.202906 TCAAGCAAGCTGAAACGTACTT 58.797 40.909 0.00 0.00 0.00 2.24
2266 2648 2.833794 TCAAGCAAGCTGAAACGTACT 58.166 42.857 0.00 0.00 0.00 2.73
2267 2649 3.424962 GGATCAAGCAAGCTGAAACGTAC 60.425 47.826 0.00 0.00 0.00 3.67
2268 2650 2.742053 GGATCAAGCAAGCTGAAACGTA 59.258 45.455 0.00 0.00 0.00 3.57
2269 2651 1.537202 GGATCAAGCAAGCTGAAACGT 59.463 47.619 0.00 0.00 0.00 3.99
2270 2652 1.536766 TGGATCAAGCAAGCTGAAACG 59.463 47.619 0.00 0.00 0.00 3.60
2271 2653 2.294233 TGTGGATCAAGCAAGCTGAAAC 59.706 45.455 0.00 0.00 0.00 2.78
2272 2654 2.585330 TGTGGATCAAGCAAGCTGAAA 58.415 42.857 0.00 0.00 0.00 2.69
2273 2655 2.275134 TGTGGATCAAGCAAGCTGAA 57.725 45.000 0.00 0.00 0.00 3.02
2274 2656 2.089201 CATGTGGATCAAGCAAGCTGA 58.911 47.619 0.00 0.00 0.00 4.26
2275 2657 1.816835 ACATGTGGATCAAGCAAGCTG 59.183 47.619 0.00 0.00 0.00 4.24
2276 2658 1.816835 CACATGTGGATCAAGCAAGCT 59.183 47.619 18.51 0.00 0.00 3.74
2277 2659 2.273370 CACATGTGGATCAAGCAAGC 57.727 50.000 18.51 0.00 0.00 4.01
2289 2671 4.487948 CCACTAAAGCAAATCCACATGTG 58.512 43.478 19.31 19.31 0.00 3.21
2290 2672 3.056607 GCCACTAAAGCAAATCCACATGT 60.057 43.478 0.00 0.00 0.00 3.21
2291 2673 3.056678 TGCCACTAAAGCAAATCCACATG 60.057 43.478 0.00 0.00 37.28 3.21
2292 2674 3.164268 TGCCACTAAAGCAAATCCACAT 58.836 40.909 0.00 0.00 37.28 3.21
2293 2675 2.557924 CTGCCACTAAAGCAAATCCACA 59.442 45.455 0.00 0.00 40.35 4.17
2294 2676 2.558359 ACTGCCACTAAAGCAAATCCAC 59.442 45.455 0.00 0.00 40.35 4.02
2295 2677 2.819608 GACTGCCACTAAAGCAAATCCA 59.180 45.455 0.00 0.00 40.35 3.41
2296 2678 2.819608 TGACTGCCACTAAAGCAAATCC 59.180 45.455 0.00 0.00 40.35 3.01
2297 2679 4.022849 AGTTGACTGCCACTAAAGCAAATC 60.023 41.667 0.00 0.00 40.35 2.17
2298 2680 3.891366 AGTTGACTGCCACTAAAGCAAAT 59.109 39.130 0.00 0.00 40.35 2.32
2299 2681 3.287222 AGTTGACTGCCACTAAAGCAAA 58.713 40.909 0.00 0.00 40.35 3.68
2300 2682 2.930950 AGTTGACTGCCACTAAAGCAA 58.069 42.857 0.00 0.00 40.35 3.91
2301 2683 2.638480 AGTTGACTGCCACTAAAGCA 57.362 45.000 0.00 0.00 38.82 3.91
2302 2684 3.066760 ACAAAGTTGACTGCCACTAAAGC 59.933 43.478 0.00 0.00 0.00 3.51
2303 2685 4.335315 TGACAAAGTTGACTGCCACTAAAG 59.665 41.667 0.00 0.00 0.00 1.85
2304 2686 4.095782 GTGACAAAGTTGACTGCCACTAAA 59.904 41.667 0.00 0.00 0.00 1.85
2305 2687 3.625764 GTGACAAAGTTGACTGCCACTAA 59.374 43.478 0.00 0.00 0.00 2.24
2306 2688 3.202906 GTGACAAAGTTGACTGCCACTA 58.797 45.455 0.00 0.00 0.00 2.74
2307 2689 2.017049 GTGACAAAGTTGACTGCCACT 58.983 47.619 0.00 0.00 0.00 4.00
2308 2690 1.065551 GGTGACAAAGTTGACTGCCAC 59.934 52.381 0.00 0.00 0.00 5.01
2309 2691 1.388547 GGTGACAAAGTTGACTGCCA 58.611 50.000 0.00 0.00 0.00 4.92
2322 2704 2.552743 CTCAGAGTGTACTTCGGTGACA 59.447 50.000 0.00 0.00 0.00 3.58
2350 2732 9.868277 TTTGGCCATTTTTAGTGTAATTATCTG 57.132 29.630 6.09 0.00 0.00 2.90
2353 2735 9.830975 GGATTTGGCCATTTTTAGTGTAATTAT 57.169 29.630 6.09 0.00 0.00 1.28
2354 2736 8.816894 TGGATTTGGCCATTTTTAGTGTAATTA 58.183 29.630 6.09 0.00 31.66 1.40
2364 2746 3.652387 AGGTTCTGGATTTGGCCATTTTT 59.348 39.130 6.09 0.00 37.30 1.94
2388 2779 9.719355 TTTAGTGTAATTACTTGAAGCATCTCA 57.281 29.630 16.33 0.00 32.19 3.27
2398 2789 9.482627 TTTGGCCATTTTTAGTGTAATTACTTG 57.517 29.630 6.09 0.00 32.19 3.16
2400 2791 9.869757 GATTTGGCCATTTTTAGTGTAATTACT 57.130 29.630 6.09 1.65 34.71 2.24
2402 2793 8.816894 TGGATTTGGCCATTTTTAGTGTAATTA 58.183 29.630 6.09 0.00 31.66 1.40
2407 2798 4.837860 TCTGGATTTGGCCATTTTTAGTGT 59.162 37.500 6.09 0.00 37.30 3.55
2445 2836 8.806429 TTATTGTAATTTCCTGAAGCATCTCA 57.194 30.769 0.00 0.00 0.00 3.27
2453 2844 6.869388 GGCCGTTTTTATTGTAATTTCCTGAA 59.131 34.615 0.00 0.00 0.00 3.02
2454 2845 6.015350 TGGCCGTTTTTATTGTAATTTCCTGA 60.015 34.615 0.00 0.00 0.00 3.86
2458 2849 8.931775 AGATTTGGCCGTTTTTATTGTAATTTC 58.068 29.630 0.00 0.00 0.00 2.17
2467 2858 7.639113 TGAATCTAGATTTGGCCGTTTTTAT 57.361 32.000 18.88 0.00 0.00 1.40
2474 2865 5.973565 GTGAAATTGAATCTAGATTTGGCCG 59.026 40.000 18.88 0.00 0.00 6.13
2492 2883 7.707624 TTGGAATCAGCTTTATCAGTGAAAT 57.292 32.000 0.00 0.00 0.00 2.17
2495 2886 7.012704 GCTATTTGGAATCAGCTTTATCAGTGA 59.987 37.037 0.00 0.00 0.00 3.41
2513 2904 9.643693 AGAATATGAAAACAAACAGCTATTTGG 57.356 29.630 20.90 4.17 42.74 3.28
2531 2922 5.770162 TGGCAGAGTCGAATCTAGAATATGA 59.230 40.000 15.98 0.00 27.88 2.15
2534 2925 4.022762 GCTGGCAGAGTCGAATCTAGAATA 60.023 45.833 20.86 0.20 0.00 1.75
2536 2927 2.099921 GCTGGCAGAGTCGAATCTAGAA 59.900 50.000 20.86 2.90 0.00 2.10
2550 2941 2.034305 GCTATTTGGAATCAGCTGGCAG 59.966 50.000 15.13 10.94 0.00 4.85
2563 2954 5.452078 TCTGAAAACAACCAGCTATTTGG 57.548 39.130 10.41 0.13 44.09 3.28
2588 2979 1.271543 TGCCCAGTGAAGTGAATCTGG 60.272 52.381 0.00 0.00 44.74 3.86
2596 2987 2.435372 TCAACTTTGCCCAGTGAAGT 57.565 45.000 0.00 0.00 35.27 3.01
2597 2988 3.571401 AGATTCAACTTTGCCCAGTGAAG 59.429 43.478 0.00 0.00 0.00 3.02
2598 2989 3.565307 AGATTCAACTTTGCCCAGTGAA 58.435 40.909 0.00 0.00 0.00 3.18
2600 2991 2.095567 CGAGATTCAACTTTGCCCAGTG 60.096 50.000 0.00 0.00 0.00 3.66
2629 3021 6.959639 AGTCTGTGTTTGTTTGGATTATGT 57.040 33.333 0.00 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.