Multiple sequence alignment - TraesCS3A01G119900

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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 TraesCS3A01G119900 chr3A 100.000 3032 0 0 1 3032 93685897 93688928 0.000000e+00 5600.0
1 TraesCS3A01G119900 chr3A 98.152 1082 16 4 1 1081 93678094 93679172 0.000000e+00 1884.0
2 TraesCS3A01G119900 chr3A 86.546 1442 141 18 782 2217 93589753 93591147 0.000000e+00 1539.0
3 TraesCS3A01G119900 chr3B 88.369 1986 187 21 818 2786 125926748 125928706 0.000000e+00 2348.0
4 TraesCS3A01G119900 chr3B 95.954 173 7 0 2784 2956 120617078 120616906 6.400000e-72 281.0
5 TraesCS3A01G119900 chr3D 88.274 1680 156 17 626 2294 79599856 79601505 0.000000e+00 1973.0
6 TraesCS3A01G119900 chr3D 94.896 431 19 1 2359 2786 79601747 79602177 0.000000e+00 671.0
7 TraesCS3A01G119900 chr3D 96.450 169 6 0 2782 2950 360695995 360695827 2.300000e-71 279.0
8 TraesCS3A01G119900 chr3D 96.512 86 3 0 2947 3032 79602178 79602263 3.150000e-30 143.0
9 TraesCS3A01G119900 chr3D 97.183 71 2 0 2290 2360 79601583 79601653 1.480000e-23 121.0
10 TraesCS3A01G119900 chr2A 96.926 618 15 4 1 614 389577538 389578155 0.000000e+00 1033.0
11 TraesCS3A01G119900 chr2A 96.284 619 20 3 2 617 54429318 54428700 0.000000e+00 1013.0
12 TraesCS3A01G119900 chr2A 76.923 130 30 0 2589 2718 419185398 419185527 1.170000e-09 75.0
13 TraesCS3A01G119900 chr6A 96.290 620 17 3 1 614 548611392 548612011 0.000000e+00 1013.0
14 TraesCS3A01G119900 chr7A 96.423 615 18 4 1 611 296536459 296535845 0.000000e+00 1011.0
15 TraesCS3A01G119900 chr7A 93.956 182 8 3 2781 2961 431989281 431989102 3.850000e-69 272.0
16 TraesCS3A01G119900 chr7A 89.062 64 7 0 2654 2717 696947188 696947125 2.510000e-11 80.5
17 TraesCS3A01G119900 chr7A 87.500 64 8 0 2654 2717 696877722 696877659 1.170000e-09 75.0
18 TraesCS3A01G119900 chr4A 96.278 618 19 4 1 614 466695381 466695998 0.000000e+00 1011.0
19 TraesCS3A01G119900 chr4A 96.284 619 18 4 1 614 592584410 592585028 0.000000e+00 1011.0
20 TraesCS3A01G119900 chr4A 96.000 625 20 5 1 621 617397130 617397753 0.000000e+00 1011.0
21 TraesCS3A01G119900 chr1A 96.429 616 16 5 1 611 500587476 500586862 0.000000e+00 1011.0
22 TraesCS3A01G119900 chr1A 86.364 66 9 0 1132 1197 68377205 68377270 4.190000e-09 73.1
23 TraesCS3A01G119900 chr6D 96.471 170 6 0 2782 2951 392897142 392896973 6.400000e-72 281.0
24 TraesCS3A01G119900 chr4D 95.954 173 7 0 2781 2953 238640161 238640333 6.400000e-72 281.0
25 TraesCS3A01G119900 chr4D 96.429 168 6 0 2783 2950 75782051 75782218 8.280000e-71 278.0
26 TraesCS3A01G119900 chr1D 95.954 173 7 0 2778 2950 238940209 238940381 6.400000e-72 281.0
27 TraesCS3A01G119900 chr2D 95.882 170 7 0 2782 2951 309971416 309971585 2.980000e-70 276.0
28 TraesCS3A01G119900 chr2D 94.382 178 9 1 2776 2952 446317634 446317811 3.850000e-69 272.0
29 TraesCS3A01G119900 chr2D 78.462 130 28 0 2589 2718 315984045 315983916 5.390000e-13 86.1
30 TraesCS3A01G119900 chr2B 75.622 201 37 8 2589 2786 383646197 383646006 4.160000e-14 89.8
31 TraesCS3A01G119900 chr1B 78.169 142 29 2 1057 1197 111027339 111027479 4.160000e-14 89.8
32 TraesCS3A01G119900 chr1B 80.672 119 19 4 1048 1164 111046831 111046947 4.160000e-14 89.8
33 TraesCS3A01G119900 chr7D 89.231 65 7 0 2653 2717 605479356 605479420 6.970000e-12 82.4
34 TraesCS3A01G119900 chrUn 87.500 64 8 0 2654 2717 401645507 401645570 1.170000e-09 75.0


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 TraesCS3A01G119900 chr3A 93685897 93688928 3031 False 5600 5600 100.00000 1 3032 1 chr3A.!!$F3 3031
1 TraesCS3A01G119900 chr3A 93678094 93679172 1078 False 1884 1884 98.15200 1 1081 1 chr3A.!!$F2 1080
2 TraesCS3A01G119900 chr3A 93589753 93591147 1394 False 1539 1539 86.54600 782 2217 1 chr3A.!!$F1 1435
3 TraesCS3A01G119900 chr3B 125926748 125928706 1958 False 2348 2348 88.36900 818 2786 1 chr3B.!!$F1 1968
4 TraesCS3A01G119900 chr3D 79599856 79602263 2407 False 727 1973 94.21625 626 3032 4 chr3D.!!$F1 2406
5 TraesCS3A01G119900 chr2A 389577538 389578155 617 False 1033 1033 96.92600 1 614 1 chr2A.!!$F1 613
6 TraesCS3A01G119900 chr2A 54428700 54429318 618 True 1013 1013 96.28400 2 617 1 chr2A.!!$R1 615
7 TraesCS3A01G119900 chr6A 548611392 548612011 619 False 1013 1013 96.29000 1 614 1 chr6A.!!$F1 613
8 TraesCS3A01G119900 chr7A 296535845 296536459 614 True 1011 1011 96.42300 1 611 1 chr7A.!!$R1 610
9 TraesCS3A01G119900 chr4A 466695381 466695998 617 False 1011 1011 96.27800 1 614 1 chr4A.!!$F1 613
10 TraesCS3A01G119900 chr4A 592584410 592585028 618 False 1011 1011 96.28400 1 614 1 chr4A.!!$F2 613
11 TraesCS3A01G119900 chr4A 617397130 617397753 623 False 1011 1011 96.00000 1 621 1 chr4A.!!$F3 620
12 TraesCS3A01G119900 chr1A 500586862 500587476 614 True 1011 1011 96.42900 1 611 1 chr1A.!!$R1 610

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
98 99 0.704664 CTAAAGGGGGAAGGCACCTT 59.295 55.0 0.37 0.37 46.09 3.50 F
1095 1121 0.249120 TGCCCGACGACATTCTCATT 59.751 50.0 0.00 0.00 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1237 1263 0.103208 GTGAGGGCGGAGACTATGTG 59.897 60.0 0.0 0.0 32.7 3.21 R
2421 2630 0.947244 CAAGGACTGCTGGTGTTCAC 59.053 55.0 0.0 0.0 0.0 3.18 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
98 99 0.704664 CTAAAGGGGGAAGGCACCTT 59.295 55.000 0.37 0.37 46.09 3.50
379 386 2.269023 TGCTGGATCAAGAAGGAGGAA 58.731 47.619 0.00 0.00 0.00 3.36
428 435 4.353437 GAGGTGCCGTCCGTTCGT 62.353 66.667 0.00 0.00 0.00 3.85
534 541 4.561254 AGGGTATGTAGATCCACTCCTT 57.439 45.455 0.00 0.00 0.00 3.36
550 557 1.757118 TCCTTCCTCGTTGCTAGATGG 59.243 52.381 0.00 0.00 0.00 3.51
618 627 4.235360 GCTACGTTCACAACAGTGATACT 58.765 43.478 0.00 0.00 41.56 2.12
677 686 8.188139 TCGTAAAGGCAAAATATTCTTCCAATC 58.812 33.333 0.00 0.00 0.00 2.67
711 720 3.492102 TCATGGTTTATAGAGGCAGGC 57.508 47.619 0.00 0.00 0.00 4.85
1095 1121 0.249120 TGCCCGACGACATTCTCATT 59.751 50.000 0.00 0.00 0.00 2.57
1096 1122 0.652592 GCCCGACGACATTCTCATTG 59.347 55.000 0.00 0.00 0.00 2.82
1106 1132 3.201290 ACATTCTCATTGACATCCTCGC 58.799 45.455 0.00 0.00 0.00 5.03
1115 1141 2.244117 GACATCCTCGCCAAGCTCCA 62.244 60.000 0.00 0.00 0.00 3.86
1117 1143 3.036429 ATCCTCGCCAAGCTCCACC 62.036 63.158 0.00 0.00 0.00 4.61
1123 1149 4.641645 CCAAGCTCCACCGCACCA 62.642 66.667 0.00 0.00 0.00 4.17
1130 1156 4.343323 CCACCGCACCACCATGGA 62.343 66.667 21.47 0.00 40.96 3.41
1187 1213 2.685380 CTGGAAGCTCCTCCCGGT 60.685 66.667 0.00 0.00 37.46 5.28
1197 1223 1.376037 CCTCCCGGTGCTCAACTTC 60.376 63.158 0.00 0.00 0.00 3.01
1200 1226 2.429930 CCGGTGCTCAACTTCCCA 59.570 61.111 0.00 0.00 0.00 4.37
1243 1269 2.802816 GGCATAGAACCGAAGCACATAG 59.197 50.000 0.00 0.00 0.00 2.23
1244 1270 3.458189 GCATAGAACCGAAGCACATAGT 58.542 45.455 0.00 0.00 0.00 2.12
1258 1284 1.043816 CATAGTCTCCGCCCTCACAT 58.956 55.000 0.00 0.00 0.00 3.21
1293 1319 1.153369 CATCCGCCACCTCATCGTT 60.153 57.895 0.00 0.00 0.00 3.85
1294 1320 0.104120 CATCCGCCACCTCATCGTTA 59.896 55.000 0.00 0.00 0.00 3.18
1295 1321 0.389391 ATCCGCCACCTCATCGTTAG 59.611 55.000 0.00 0.00 0.00 2.34
1301 1327 0.249073 CACCTCATCGTTAGCCTCCG 60.249 60.000 0.00 0.00 0.00 4.63
1305 1331 1.107538 TCATCGTTAGCCTCCGGGAG 61.108 60.000 17.41 17.41 33.58 4.30
1393 1419 1.909302 TCTTCAATCTCAGGTGGGACC 59.091 52.381 0.00 0.00 38.99 4.46
1398 1424 3.391382 CTCAGGTGGGACCGGGAC 61.391 72.222 6.32 0.00 44.90 4.46
1399 1425 4.242586 TCAGGTGGGACCGGGACA 62.243 66.667 6.32 0.00 44.90 4.02
1406 1432 2.306384 GGGACCGGGACAGGGAAAT 61.306 63.158 6.32 0.00 35.02 2.17
1413 1439 0.106669 GGGACAGGGAAATAGGCACC 60.107 60.000 0.00 0.00 0.00 5.01
1435 1461 1.002868 GAGCTGCCTTGCTTCCAGA 60.003 57.895 0.00 0.00 44.17 3.86
1444 1470 2.435059 GCTTCCAGAGTGCCGACC 60.435 66.667 0.00 0.00 0.00 4.79
1451 1477 2.105128 GAGTGCCGACCGGATCTG 59.895 66.667 9.46 0.00 37.50 2.90
1456 1482 3.147595 CCGACCGGATCTGCCTCA 61.148 66.667 9.46 0.00 37.50 3.86
1465 1491 1.067821 GGATCTGCCTCAACCTAGACG 59.932 57.143 0.00 0.00 0.00 4.18
1469 1495 1.751351 CTGCCTCAACCTAGACGATCA 59.249 52.381 0.00 0.00 0.00 2.92
1513 1539 3.884774 TGTTTGCCCGGCTCACCT 61.885 61.111 11.61 0.00 0.00 4.00
1519 1545 2.873525 GCCCGGCTCACCTATCTCC 61.874 68.421 0.71 0.00 0.00 3.71
1522 1548 0.536687 CCGGCTCACCTATCTCCGTA 60.537 60.000 0.00 0.00 38.54 4.02
1525 1551 2.515854 GGCTCACCTATCTCCGTATGA 58.484 52.381 0.00 0.00 0.00 2.15
1528 1554 4.890581 GGCTCACCTATCTCCGTATGATAT 59.109 45.833 0.00 0.00 0.00 1.63
1531 1557 6.074698 TCACCTATCTCCGTATGATATCCA 57.925 41.667 0.00 0.00 0.00 3.41
1595 1621 4.972733 ACGGTGCCCATTGCTGCA 62.973 61.111 0.00 0.00 42.00 4.41
1596 1622 3.682885 CGGTGCCCATTGCTGCAA 61.683 61.111 18.43 18.43 39.57 4.08
1611 1637 2.417719 CTGCAAAAGCTCTTCCTACGT 58.582 47.619 0.00 0.00 0.00 3.57
1615 1641 3.654414 CAAAAGCTCTTCCTACGTGACT 58.346 45.455 0.00 0.00 0.00 3.41
1618 1644 1.004979 AGCTCTTCCTACGTGACTCCT 59.995 52.381 0.00 0.00 0.00 3.69
1620 1646 3.117813 AGCTCTTCCTACGTGACTCCTAT 60.118 47.826 0.00 0.00 0.00 2.57
1625 1651 2.240414 TCCTACGTGACTCCTATGTCCA 59.760 50.000 0.00 0.00 36.21 4.02
1633 1659 2.294791 GACTCCTATGTCCAGGATGACG 59.705 54.545 0.00 0.00 43.83 4.35
1634 1660 2.311463 CTCCTATGTCCAGGATGACGT 58.689 52.381 0.00 0.00 43.83 4.34
1635 1661 2.695666 CTCCTATGTCCAGGATGACGTT 59.304 50.000 0.00 0.00 43.83 3.99
1636 1662 2.430694 TCCTATGTCCAGGATGACGTTG 59.569 50.000 0.00 0.00 39.89 4.10
1674 1700 8.950480 TCAGAGTCTCTCTTAGAAATAGGGATA 58.050 37.037 0.00 0.00 38.99 2.59
1709 1735 4.003788 CCACGACGCCTTGGGTCT 62.004 66.667 9.22 0.00 42.18 3.85
1711 1737 4.681978 ACGACGCCTTGGGTCTGC 62.682 66.667 9.22 0.00 42.18 4.26
1766 1792 8.782144 CCTCCAAATAGATCTGAAGAATTTAGC 58.218 37.037 5.18 0.00 30.80 3.09
1767 1793 8.682936 TCCAAATAGATCTGAAGAATTTAGCC 57.317 34.615 5.18 0.00 30.80 3.93
1768 1794 8.497745 TCCAAATAGATCTGAAGAATTTAGCCT 58.502 33.333 5.18 0.00 30.80 4.58
1806 1835 4.520846 GCGCCCGCACTCATTTCG 62.521 66.667 7.91 0.00 41.49 3.46
1820 1849 6.138761 CACTCATTTCGTTGAAAGAGAAAGG 58.861 40.000 17.57 5.73 37.31 3.11
1825 1854 1.266989 CGTTGAAAGAGAAAGGCACCC 59.733 52.381 0.00 0.00 0.00 4.61
1826 1855 2.306847 GTTGAAAGAGAAAGGCACCCA 58.693 47.619 0.00 0.00 0.00 4.51
1840 1869 1.402968 GCACCCACTACATTGCTGATG 59.597 52.381 0.00 0.00 41.71 3.07
1850 1879 2.298610 CATTGCTGATGCTGTGGATCT 58.701 47.619 0.00 0.00 40.48 2.75
1865 1894 2.705658 TGGATCTGAGTCAACCAGTTGT 59.294 45.455 10.17 0.00 41.16 3.32
1899 1928 2.156917 CCTCAGCTCATGTTGCTTGAA 58.843 47.619 11.97 2.92 38.92 2.69
1909 1938 4.705991 TCATGTTGCTTGAATGGAATGCTA 59.294 37.500 0.00 0.00 0.00 3.49
1918 1947 7.040892 TGCTTGAATGGAATGCTAGTTATGATC 60.041 37.037 0.00 0.00 26.42 2.92
1923 1952 6.161855 TGGAATGCTAGTTATGATCGAAGT 57.838 37.500 0.00 0.00 0.00 3.01
1933 1962 3.594603 ATGATCGAAGTTCCGTTCAGT 57.405 42.857 0.00 0.00 40.26 3.41
1992 2021 7.229306 GCTGGTCAATTTCTTGTATATGGATCA 59.771 37.037 0.00 0.00 33.87 2.92
2016 2045 5.421056 AGATGAGGATTTTGCACACAATCAT 59.579 36.000 10.69 4.48 34.67 2.45
2029 2058 5.622914 GCACACAATCATATCAGGCTTTTGT 60.623 40.000 0.00 0.00 0.00 2.83
2032 2061 6.886459 ACACAATCATATCAGGCTTTTGTAGT 59.114 34.615 0.00 0.00 0.00 2.73
2048 2077 2.736721 TGTAGTGCTTTGAGTTCATCGC 59.263 45.455 0.00 0.00 0.00 4.58
2056 2085 3.953712 TTGAGTTCATCGCCTGTCTTA 57.046 42.857 0.00 0.00 0.00 2.10
2247 2278 4.220693 ACATGGCTTAGTGCACTCAATA 57.779 40.909 25.56 1.91 45.15 1.90
2421 2630 1.801178 GCTCTCAGGAGTGGAAAAACG 59.199 52.381 0.00 0.00 41.38 3.60
2467 2676 2.716424 GGATTGGATATCCTCCCACCAA 59.284 50.000 22.35 7.71 44.23 3.67
2482 2691 2.333014 CACCAACACACACAAAACCAC 58.667 47.619 0.00 0.00 0.00 4.16
2490 2699 4.521256 ACACACACAAAACCACTTGTAGTT 59.479 37.500 0.00 0.00 37.43 2.24
2496 2705 8.188139 CACACAAAACCACTTGTAGTTAGAAAT 58.812 33.333 0.00 0.00 37.43 2.17
2578 2792 3.511540 TCAACCTGTAGGACATGTCTGAG 59.488 47.826 24.50 14.31 38.94 3.35
2585 2799 1.632409 AGGACATGTCTGAGCACCAAT 59.368 47.619 24.50 0.00 0.00 3.16
2614 2828 1.000396 GGAGGACATGCCAAGGCTT 60.000 57.895 12.96 2.83 42.51 4.35
2699 2913 1.421268 TCCATGTTCTCAGGCTGTGTT 59.579 47.619 15.27 0.00 0.00 3.32
2702 2916 3.306989 CCATGTTCTCAGGCTGTGTTCTA 60.307 47.826 15.27 1.74 0.00 2.10
2720 2934 7.013942 TGTGTTCTAGTGTAAGAAAGCTGACTA 59.986 37.037 0.00 0.00 37.24 2.59
2795 3009 7.850935 TCTGTTTATCTAATATTCCCTCCGT 57.149 36.000 0.00 0.00 0.00 4.69
2796 3010 8.258850 TCTGTTTATCTAATATTCCCTCCGTT 57.741 34.615 0.00 0.00 0.00 4.44
2797 3011 8.365647 TCTGTTTATCTAATATTCCCTCCGTTC 58.634 37.037 0.00 0.00 0.00 3.95
2798 3012 7.447594 TGTTTATCTAATATTCCCTCCGTTCC 58.552 38.462 0.00 0.00 0.00 3.62
2799 3013 7.291651 TGTTTATCTAATATTCCCTCCGTTCCT 59.708 37.037 0.00 0.00 0.00 3.36
2800 3014 8.810041 GTTTATCTAATATTCCCTCCGTTCCTA 58.190 37.037 0.00 0.00 0.00 2.94
2801 3015 8.961293 TTATCTAATATTCCCTCCGTTCCTAA 57.039 34.615 0.00 0.00 0.00 2.69
2802 3016 7.867160 ATCTAATATTCCCTCCGTTCCTAAA 57.133 36.000 0.00 0.00 0.00 1.85
2803 3017 7.867160 TCTAATATTCCCTCCGTTCCTAAAT 57.133 36.000 0.00 0.00 0.00 1.40
2804 3018 8.961293 TCTAATATTCCCTCCGTTCCTAAATA 57.039 34.615 0.00 0.00 0.00 1.40
2805 3019 9.556772 TCTAATATTCCCTCCGTTCCTAAATAT 57.443 33.333 0.00 0.00 0.00 1.28
2808 3022 8.863872 ATATTCCCTCCGTTCCTAAATATTTG 57.136 34.615 11.05 1.40 0.00 2.32
2809 3023 5.703730 TCCCTCCGTTCCTAAATATTTGT 57.296 39.130 11.05 0.00 0.00 2.83
2810 3024 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
2811 3025 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2812 3026 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2813 3027 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
2814 3028 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
2815 3029 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
2843 3057 8.873215 AGATTTCAAATAGACTACCACATACG 57.127 34.615 0.00 0.00 0.00 3.06
2844 3058 7.926555 AGATTTCAAATAGACTACCACATACGG 59.073 37.037 0.00 0.00 0.00 4.02
2845 3059 6.778834 TTCAAATAGACTACCACATACGGA 57.221 37.500 0.00 0.00 0.00 4.69
2846 3060 6.971726 TCAAATAGACTACCACATACGGAT 57.028 37.500 0.00 0.00 0.00 4.18
2847 3061 6.745116 TCAAATAGACTACCACATACGGATG 58.255 40.000 5.94 5.94 39.16 3.51
2849 3063 7.503230 TCAAATAGACTACCACATACGGATGTA 59.497 37.037 14.23 0.00 44.82 2.29
2850 3064 8.304596 CAAATAGACTACCACATACGGATGTAT 58.695 37.037 14.23 7.46 44.82 2.29
2851 3065 9.524496 AAATAGACTACCACATACGGATGTATA 57.476 33.333 14.23 8.27 44.82 1.47
2852 3066 9.696572 AATAGACTACCACATACGGATGTATAT 57.303 33.333 14.23 4.37 44.82 0.86
2854 3068 8.734218 AGACTACCACATACGGATGTATATAG 57.266 38.462 14.23 16.35 44.82 1.31
2855 3069 8.546322 AGACTACCACATACGGATGTATATAGA 58.454 37.037 22.62 5.04 44.82 1.98
2856 3070 8.503458 ACTACCACATACGGATGTATATAGAC 57.497 38.462 22.62 0.00 44.82 2.59
2857 3071 8.105197 ACTACCACATACGGATGTATATAGACA 58.895 37.037 22.62 2.07 44.82 3.41
2858 3072 7.956328 ACCACATACGGATGTATATAGACAT 57.044 36.000 14.23 12.70 44.82 3.06
2860 3074 8.900781 ACCACATACGGATGTATATAGACATAC 58.099 37.037 14.23 12.39 44.82 2.39
2861 3075 9.121658 CCACATACGGATGTATATAGACATACT 57.878 37.037 14.23 9.55 44.82 2.12
2890 3104 7.440523 AGTGTAGATTCACTCATTTTGTTCC 57.559 36.000 0.00 0.00 44.07 3.62
2891 3105 6.147821 AGTGTAGATTCACTCATTTTGTTCCG 59.852 38.462 0.00 0.00 44.07 4.30
2892 3106 5.995282 TGTAGATTCACTCATTTTGTTCCGT 59.005 36.000 0.00 0.00 0.00 4.69
2893 3107 7.117236 GTGTAGATTCACTCATTTTGTTCCGTA 59.883 37.037 0.00 0.00 35.68 4.02
2894 3108 7.822334 TGTAGATTCACTCATTTTGTTCCGTAT 59.178 33.333 0.00 0.00 0.00 3.06
2895 3109 7.076842 AGATTCACTCATTTTGTTCCGTATG 57.923 36.000 0.00 0.00 0.00 2.39
2896 3110 6.655003 AGATTCACTCATTTTGTTCCGTATGT 59.345 34.615 0.00 0.00 0.00 2.29
2897 3111 7.822334 AGATTCACTCATTTTGTTCCGTATGTA 59.178 33.333 0.00 0.00 0.00 2.29
2898 3112 6.961359 TCACTCATTTTGTTCCGTATGTAG 57.039 37.500 0.00 0.00 0.00 2.74
2899 3113 6.460781 TCACTCATTTTGTTCCGTATGTAGT 58.539 36.000 0.00 0.00 0.00 2.73
2900 3114 6.588756 TCACTCATTTTGTTCCGTATGTAGTC 59.411 38.462 0.00 0.00 0.00 2.59
2901 3115 6.367695 CACTCATTTTGTTCCGTATGTAGTCA 59.632 38.462 0.00 0.00 0.00 3.41
2902 3116 6.367969 ACTCATTTTGTTCCGTATGTAGTCAC 59.632 38.462 0.00 0.00 0.00 3.67
2903 3117 6.460781 TCATTTTGTTCCGTATGTAGTCACT 58.539 36.000 0.00 0.00 0.00 3.41
2904 3118 6.932400 TCATTTTGTTCCGTATGTAGTCACTT 59.068 34.615 0.00 0.00 0.00 3.16
2905 3119 6.533819 TTTTGTTCCGTATGTAGTCACTTG 57.466 37.500 0.00 0.00 0.00 3.16
2906 3120 4.859304 TGTTCCGTATGTAGTCACTTGT 57.141 40.909 0.00 0.00 0.00 3.16
2907 3121 5.204409 TGTTCCGTATGTAGTCACTTGTT 57.796 39.130 0.00 0.00 0.00 2.83
2908 3122 4.986034 TGTTCCGTATGTAGTCACTTGTTG 59.014 41.667 0.00 0.00 0.00 3.33
2909 3123 5.221283 TGTTCCGTATGTAGTCACTTGTTGA 60.221 40.000 0.00 0.00 0.00 3.18
2910 3124 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
2911 3125 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
2912 3126 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
2913 3127 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
2914 3128 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
2915 3129 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
2916 3130 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
2917 3131 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
2918 3132 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
2919 3133 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
2920 3134 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
2921 3135 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
2922 3136 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
2923 3137 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
2924 3138 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
2925 3139 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
2926 3140 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
2927 3141 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
2943 3157 8.947115 AGAAAGACAAATATTTAGAAACGGAGG 58.053 33.333 0.00 0.00 0.00 4.30
2944 3158 7.625828 AAGACAAATATTTAGAAACGGAGGG 57.374 36.000 0.00 0.00 0.00 4.30
2945 3159 6.120220 AGACAAATATTTAGAAACGGAGGGG 58.880 40.000 0.00 0.00 0.00 4.79
2946 3160 5.198207 ACAAATATTTAGAAACGGAGGGGG 58.802 41.667 0.00 0.00 0.00 5.40
2947 3161 5.198207 CAAATATTTAGAAACGGAGGGGGT 58.802 41.667 0.00 0.00 0.00 4.95
2948 3162 6.069498 ACAAATATTTAGAAACGGAGGGGGTA 60.069 38.462 0.00 0.00 0.00 3.69
2949 3163 6.775234 AATATTTAGAAACGGAGGGGGTAT 57.225 37.500 0.00 0.00 0.00 2.73
2971 3185 5.367945 TTTGAGTTACCTGGAAAGTCACT 57.632 39.130 0.00 0.00 36.32 3.41
3028 3242 2.736531 GCTTGGGTTGCCAGTTGG 59.263 61.111 0.00 0.00 38.53 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 99 1.306997 CCTCCCCAAGGCACCTAGA 60.307 63.158 0.00 0.00 38.67 2.43
379 386 2.126580 GTACGGAGCAGCGACGTT 60.127 61.111 19.89 7.22 41.53 3.99
428 435 1.911057 ATCACCGATGATCCTAGCGA 58.089 50.000 0.00 0.00 42.15 4.93
534 541 0.747255 GAGCCATCTAGCAACGAGGA 59.253 55.000 0.00 0.00 34.23 3.71
550 557 4.965814 TCACCAAGATCAATCTATGGAGC 58.034 43.478 19.34 0.00 37.92 4.70
618 627 1.943730 AACCTTGGGCTGGGTTGTGA 61.944 55.000 8.09 0.00 43.28 3.58
677 686 1.081892 CCATGAAAGCGTCACCTCTG 58.918 55.000 0.00 0.00 39.72 3.35
711 720 5.571784 AACACTCATATCAGGCACAAATG 57.428 39.130 0.00 0.00 0.00 2.32
1095 1121 1.219124 GAGCTTGGCGAGGATGTCA 59.781 57.895 3.44 0.00 0.00 3.58
1096 1122 1.522580 GGAGCTTGGCGAGGATGTC 60.523 63.158 3.44 0.00 0.00 3.06
1106 1132 4.641645 TGGTGCGGTGGAGCTTGG 62.642 66.667 0.00 0.00 38.13 3.61
1115 1141 4.697756 CGTCCATGGTGGTGCGGT 62.698 66.667 12.58 0.00 39.03 5.68
1123 1149 3.771160 GGTCCGAGCGTCCATGGT 61.771 66.667 12.58 0.00 0.00 3.55
1187 1213 1.371183 CCGAGTGGGAAGTTGAGCA 59.629 57.895 0.00 0.00 38.47 4.26
1222 1248 1.668419 ATGTGCTTCGGTTCTATGCC 58.332 50.000 0.00 0.00 0.00 4.40
1223 1249 3.458189 ACTATGTGCTTCGGTTCTATGC 58.542 45.455 0.00 0.00 0.00 3.14
1224 1250 4.938080 AGACTATGTGCTTCGGTTCTATG 58.062 43.478 0.00 0.00 0.00 2.23
1225 1251 4.038162 GGAGACTATGTGCTTCGGTTCTAT 59.962 45.833 0.00 0.00 0.00 1.98
1226 1252 3.380637 GGAGACTATGTGCTTCGGTTCTA 59.619 47.826 0.00 0.00 0.00 2.10
1227 1253 2.166664 GGAGACTATGTGCTTCGGTTCT 59.833 50.000 0.00 0.00 0.00 3.01
1228 1254 2.541556 GGAGACTATGTGCTTCGGTTC 58.458 52.381 0.00 0.00 0.00 3.62
1229 1255 1.135083 CGGAGACTATGTGCTTCGGTT 60.135 52.381 0.00 0.00 29.59 4.44
1230 1256 0.456221 CGGAGACTATGTGCTTCGGT 59.544 55.000 0.00 0.00 29.59 4.69
1231 1257 0.872021 GCGGAGACTATGTGCTTCGG 60.872 60.000 0.00 0.00 33.78 4.30
1232 1258 0.872021 GGCGGAGACTATGTGCTTCG 60.872 60.000 0.00 0.00 36.23 3.79
1233 1259 0.530870 GGGCGGAGACTATGTGCTTC 60.531 60.000 0.00 0.00 32.70 3.86
1234 1260 0.978146 AGGGCGGAGACTATGTGCTT 60.978 55.000 0.00 0.00 32.70 3.91
1235 1261 1.381872 AGGGCGGAGACTATGTGCT 60.382 57.895 0.00 0.00 32.70 4.40
1236 1262 1.068250 GAGGGCGGAGACTATGTGC 59.932 63.158 0.00 0.00 32.70 4.57
1237 1263 0.103208 GTGAGGGCGGAGACTATGTG 59.897 60.000 0.00 0.00 32.70 3.21
1238 1264 0.324368 TGTGAGGGCGGAGACTATGT 60.324 55.000 0.00 0.00 32.70 2.29
1243 1269 2.501610 GGATGTGAGGGCGGAGAC 59.498 66.667 0.00 0.00 0.00 3.36
1244 1270 2.764128 GGGATGTGAGGGCGGAGA 60.764 66.667 0.00 0.00 0.00 3.71
1282 1308 0.249073 CGGAGGCTAACGATGAGGTG 60.249 60.000 5.24 0.00 0.00 4.00
1283 1309 1.392710 CCGGAGGCTAACGATGAGGT 61.393 60.000 12.05 0.00 46.14 3.85
1328 1354 2.910360 CGATGATGGGGAGCCACA 59.090 61.111 0.00 0.00 0.00 4.17
1370 1396 2.507058 TCCCACCTGAGATTGAAGATGG 59.493 50.000 0.00 0.00 0.00 3.51
1393 1419 0.463833 GTGCCTATTTCCCTGTCCCG 60.464 60.000 0.00 0.00 0.00 5.14
1398 1424 1.094785 CAACGGTGCCTATTTCCCTG 58.905 55.000 0.00 0.00 0.00 4.45
1399 1425 0.988832 TCAACGGTGCCTATTTCCCT 59.011 50.000 0.00 0.00 0.00 4.20
1413 1439 1.208614 GAAGCAAGGCAGCTCAACG 59.791 57.895 4.92 0.00 45.89 4.10
1435 1461 4.148825 GCAGATCCGGTCGGCACT 62.149 66.667 18.74 3.73 45.82 4.40
1444 1470 1.067821 GTCTAGGTTGAGGCAGATCCG 59.932 57.143 0.00 0.00 40.77 4.18
1451 1477 2.546795 CCATGATCGTCTAGGTTGAGGC 60.547 54.545 0.00 0.00 0.00 4.70
1456 1482 1.689273 GAGGCCATGATCGTCTAGGTT 59.311 52.381 5.01 0.00 0.00 3.50
1531 1557 0.469917 CAGGGACCACGCATCCTAAT 59.530 55.000 0.00 0.00 36.40 1.73
1595 1621 3.306156 GGAGTCACGTAGGAAGAGCTTTT 60.306 47.826 0.00 0.00 0.00 2.27
1596 1622 2.231721 GGAGTCACGTAGGAAGAGCTTT 59.768 50.000 0.00 0.00 0.00 3.51
1603 1629 3.285484 GGACATAGGAGTCACGTAGGAA 58.715 50.000 0.00 0.00 40.29 3.36
1618 1644 3.007506 ACAACAACGTCATCCTGGACATA 59.992 43.478 0.00 0.00 37.66 2.29
1620 1646 1.140052 ACAACAACGTCATCCTGGACA 59.860 47.619 0.00 0.00 37.66 4.02
1625 1651 4.000988 GTGGATTACAACAACGTCATCCT 58.999 43.478 6.00 0.00 39.46 3.24
1633 1659 5.542779 AGACTCTGAGTGGATTACAACAAC 58.457 41.667 16.28 0.00 0.00 3.32
1634 1660 5.540337 AGAGACTCTGAGTGGATTACAACAA 59.460 40.000 16.28 0.00 0.00 2.83
1635 1661 5.080337 AGAGACTCTGAGTGGATTACAACA 58.920 41.667 16.28 0.00 0.00 3.33
1636 1662 5.417580 AGAGAGACTCTGAGTGGATTACAAC 59.582 44.000 16.28 0.00 39.62 3.32
1690 1716 4.619227 ACCCAAGGCGTCGTGGTG 62.619 66.667 20.62 13.98 40.28 4.17
1711 1737 2.025156 GCAAATGGCGAGGATGCG 59.975 61.111 0.00 0.00 35.06 4.73
1727 1753 1.261480 TTGGAGGACAGACTCTGAGC 58.739 55.000 13.25 4.36 37.63 4.26
1767 1793 2.670934 ACAAGGAGCTGCCGCAAG 60.671 61.111 0.00 0.00 43.43 4.01
1768 1794 2.669569 GACAAGGAGCTGCCGCAA 60.670 61.111 0.00 0.00 43.43 4.85
1794 1823 3.184379 TCTCTTTCAACGAAATGAGTGCG 59.816 43.478 0.00 0.00 33.24 5.34
1806 1835 2.034685 GTGGGTGCCTTTCTCTTTCAAC 59.965 50.000 0.00 0.00 0.00 3.18
1820 1849 1.402968 CATCAGCAATGTAGTGGGTGC 59.597 52.381 0.00 0.00 37.26 5.01
1825 1854 2.096980 CCACAGCATCAGCAATGTAGTG 59.903 50.000 13.77 13.77 45.49 2.74
1826 1855 2.026915 TCCACAGCATCAGCAATGTAGT 60.027 45.455 1.66 0.00 45.49 2.73
1840 1869 1.002430 TGGTTGACTCAGATCCACAGC 59.998 52.381 0.00 0.00 0.00 4.40
1850 1879 3.342377 TGTTGACAACTGGTTGACTCA 57.658 42.857 18.73 10.60 42.93 3.41
1865 1894 0.907486 CTGAGGGGCTGAGATGTTGA 59.093 55.000 0.00 0.00 0.00 3.18
1899 1928 6.763355 ACTTCGATCATAACTAGCATTCCAT 58.237 36.000 0.00 0.00 0.00 3.41
1909 1938 5.068234 TGAACGGAACTTCGATCATAACT 57.932 39.130 0.00 0.00 37.10 2.24
1918 1947 1.333791 GCCAAACTGAACGGAACTTCG 60.334 52.381 0.00 0.00 0.00 3.79
1923 1952 2.045561 TCTTGCCAAACTGAACGGAA 57.954 45.000 0.00 0.00 0.00 4.30
1933 1962 1.820519 GAGATGTGCCATCTTGCCAAA 59.179 47.619 15.93 0.00 0.00 3.28
1992 2021 4.768448 TGATTGTGTGCAAAATCCTCATCT 59.232 37.500 11.34 0.00 38.21 2.90
2016 2045 5.312895 TCAAAGCACTACAAAAGCCTGATA 58.687 37.500 0.00 0.00 0.00 2.15
2029 2058 2.028112 AGGCGATGAACTCAAAGCACTA 60.028 45.455 10.53 0.00 35.17 2.74
2032 2061 1.159285 CAGGCGATGAACTCAAAGCA 58.841 50.000 10.53 0.00 35.17 3.91
2189 2220 7.773224 TGAGGAAAGACAAACAAGTGAGAATTA 59.227 33.333 0.00 0.00 0.00 1.40
2376 2585 8.416329 GCTGATGTCCCATTCAATAACTAAATT 58.584 33.333 0.00 0.00 0.00 1.82
2399 2608 2.810852 GTTTTTCCACTCCTGAGAGCTG 59.189 50.000 0.00 0.00 44.65 4.24
2421 2630 0.947244 CAAGGACTGCTGGTGTTCAC 59.053 55.000 0.00 0.00 0.00 3.18
2467 2676 4.076394 ACTACAAGTGGTTTTGTGTGTGT 58.924 39.130 1.90 0.00 41.18 3.72
2509 2718 9.976511 TTATATATAACGGTTGGAGAAAGACAG 57.023 33.333 3.07 0.00 0.00 3.51
2585 2799 2.420547 GCATGTCCTCCATCAAGTAGCA 60.421 50.000 0.00 0.00 0.00 3.49
2699 2913 7.036220 GCAATAGTCAGCTTTCTTACACTAGA 58.964 38.462 0.00 0.00 0.00 2.43
2702 2916 5.551233 TGCAATAGTCAGCTTTCTTACACT 58.449 37.500 0.00 0.00 0.00 3.55
2720 2934 4.400251 CCTGGTACTGACATCAAATGCAAT 59.600 41.667 0.00 0.00 0.00 3.56
2786 3000 6.069705 ACAAATATTTAGGAACGGAGGGAA 57.930 37.500 0.00 0.00 0.00 3.97
2788 3002 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
2817 3031 8.969267 CGTATGTGGTAGTCTATTTGAAATCTC 58.031 37.037 0.00 0.00 0.00 2.75
2818 3032 7.926555 CCGTATGTGGTAGTCTATTTGAAATCT 59.073 37.037 0.00 0.00 0.00 2.40
2819 3033 7.924412 TCCGTATGTGGTAGTCTATTTGAAATC 59.076 37.037 0.00 0.00 0.00 2.17
2820 3034 7.788026 TCCGTATGTGGTAGTCTATTTGAAAT 58.212 34.615 0.00 0.00 0.00 2.17
2821 3035 7.172868 TCCGTATGTGGTAGTCTATTTGAAA 57.827 36.000 0.00 0.00 0.00 2.69
2822 3036 6.778834 TCCGTATGTGGTAGTCTATTTGAA 57.221 37.500 0.00 0.00 0.00 2.69
2823 3037 6.322969 ACATCCGTATGTGGTAGTCTATTTGA 59.677 38.462 0.00 0.00 44.79 2.69
2824 3038 6.513180 ACATCCGTATGTGGTAGTCTATTTG 58.487 40.000 0.00 0.00 44.79 2.32
2825 3039 6.726490 ACATCCGTATGTGGTAGTCTATTT 57.274 37.500 0.00 0.00 44.79 1.40
2826 3040 9.696572 ATATACATCCGTATGTGGTAGTCTATT 57.303 33.333 3.56 0.00 45.99 1.73
2828 3042 9.828039 CTATATACATCCGTATGTGGTAGTCTA 57.172 37.037 3.56 0.00 45.99 2.59
2829 3043 8.546322 TCTATATACATCCGTATGTGGTAGTCT 58.454 37.037 3.56 0.00 45.99 3.24
2830 3044 8.610896 GTCTATATACATCCGTATGTGGTAGTC 58.389 40.741 3.56 0.00 45.99 2.59
2831 3045 8.105197 TGTCTATATACATCCGTATGTGGTAGT 58.895 37.037 3.56 0.00 45.99 2.73
2832 3046 8.502105 TGTCTATATACATCCGTATGTGGTAG 57.498 38.462 3.56 3.93 45.99 3.18
2834 3048 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
2835 3049 9.121658 AGTATGTCTATATACATCCGTATGTGG 57.878 37.037 3.56 0.00 45.99 4.17
2853 3067 9.469097 AGTGAATCTACACTCTAAAGTATGTCT 57.531 33.333 0.00 0.00 46.36 3.41
2867 3081 6.073222 ACGGAACAAAATGAGTGAATCTACAC 60.073 38.462 0.00 0.00 40.60 2.90
2868 3082 5.995282 ACGGAACAAAATGAGTGAATCTACA 59.005 36.000 0.00 0.00 0.00 2.74
2869 3083 6.481954 ACGGAACAAAATGAGTGAATCTAC 57.518 37.500 0.00 0.00 0.00 2.59
2870 3084 7.822334 ACATACGGAACAAAATGAGTGAATCTA 59.178 33.333 0.00 0.00 0.00 1.98
2871 3085 6.655003 ACATACGGAACAAAATGAGTGAATCT 59.345 34.615 0.00 0.00 0.00 2.40
2872 3086 6.842163 ACATACGGAACAAAATGAGTGAATC 58.158 36.000 0.00 0.00 0.00 2.52
2873 3087 6.817765 ACATACGGAACAAAATGAGTGAAT 57.182 33.333 0.00 0.00 0.00 2.57
2874 3088 6.932400 ACTACATACGGAACAAAATGAGTGAA 59.068 34.615 0.00 0.00 0.00 3.18
2875 3089 6.460781 ACTACATACGGAACAAAATGAGTGA 58.539 36.000 0.00 0.00 0.00 3.41
2876 3090 6.367695 TGACTACATACGGAACAAAATGAGTG 59.632 38.462 0.00 0.00 0.00 3.51
2877 3091 6.367969 GTGACTACATACGGAACAAAATGAGT 59.632 38.462 0.00 0.00 0.00 3.41
2878 3092 6.590292 AGTGACTACATACGGAACAAAATGAG 59.410 38.462 0.00 0.00 0.00 2.90
2879 3093 6.460781 AGTGACTACATACGGAACAAAATGA 58.539 36.000 0.00 0.00 0.00 2.57
2880 3094 6.721571 AGTGACTACATACGGAACAAAATG 57.278 37.500 0.00 0.00 0.00 2.32
2881 3095 6.708949 ACAAGTGACTACATACGGAACAAAAT 59.291 34.615 0.00 0.00 0.00 1.82
2882 3096 6.050432 ACAAGTGACTACATACGGAACAAAA 58.950 36.000 0.00 0.00 0.00 2.44
2883 3097 5.603596 ACAAGTGACTACATACGGAACAAA 58.396 37.500 0.00 0.00 0.00 2.83
2884 3098 5.204409 ACAAGTGACTACATACGGAACAA 57.796 39.130 0.00 0.00 0.00 2.83
2885 3099 4.859304 ACAAGTGACTACATACGGAACA 57.141 40.909 0.00 0.00 0.00 3.18
2886 3100 5.224888 TCAACAAGTGACTACATACGGAAC 58.775 41.667 0.00 0.00 0.00 3.62
2887 3101 5.456548 TCAACAAGTGACTACATACGGAA 57.543 39.130 0.00 0.00 0.00 4.30
2888 3102 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
2889 3103 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
2890 3104 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
2891 3105 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
2893 3107 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
2894 3108 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
2895 3109 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
2896 3110 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
2897 3111 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
2898 3112 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
2899 3113 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
2900 3114 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
2901 3115 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
2917 3131 8.947115 CCTCCGTTTCTAAATATTTGTCTTTCT 58.053 33.333 11.05 0.00 0.00 2.52
2918 3132 8.182227 CCCTCCGTTTCTAAATATTTGTCTTTC 58.818 37.037 11.05 0.00 0.00 2.62
2919 3133 7.122204 CCCCTCCGTTTCTAAATATTTGTCTTT 59.878 37.037 11.05 0.00 0.00 2.52
2920 3134 6.602009 CCCCTCCGTTTCTAAATATTTGTCTT 59.398 38.462 11.05 0.00 0.00 3.01
2921 3135 6.120220 CCCCTCCGTTTCTAAATATTTGTCT 58.880 40.000 11.05 0.00 0.00 3.41
2922 3136 5.298527 CCCCCTCCGTTTCTAAATATTTGTC 59.701 44.000 11.05 0.00 0.00 3.18
2923 3137 5.198207 CCCCCTCCGTTTCTAAATATTTGT 58.802 41.667 11.05 0.00 0.00 2.83
2924 3138 5.198207 ACCCCCTCCGTTTCTAAATATTTG 58.802 41.667 11.05 1.65 0.00 2.32
2925 3139 5.461516 ACCCCCTCCGTTTCTAAATATTT 57.538 39.130 5.89 5.89 0.00 1.40
2926 3140 6.775234 ATACCCCCTCCGTTTCTAAATATT 57.225 37.500 0.00 0.00 0.00 1.28
2927 3141 6.775234 AATACCCCCTCCGTTTCTAAATAT 57.225 37.500 0.00 0.00 0.00 1.28
2928 3142 6.158344 TCAAATACCCCCTCCGTTTCTAAATA 59.842 38.462 0.00 0.00 0.00 1.40
2929 3143 5.044698 TCAAATACCCCCTCCGTTTCTAAAT 60.045 40.000 0.00 0.00 0.00 1.40
2930 3144 4.289148 TCAAATACCCCCTCCGTTTCTAAA 59.711 41.667 0.00 0.00 0.00 1.85
2931 3145 3.845398 TCAAATACCCCCTCCGTTTCTAA 59.155 43.478 0.00 0.00 0.00 2.10
2932 3146 3.452878 TCAAATACCCCCTCCGTTTCTA 58.547 45.455 0.00 0.00 0.00 2.10
2933 3147 2.238898 CTCAAATACCCCCTCCGTTTCT 59.761 50.000 0.00 0.00 0.00 2.52
2934 3148 2.026542 ACTCAAATACCCCCTCCGTTTC 60.027 50.000 0.00 0.00 0.00 2.78
2935 3149 1.990327 ACTCAAATACCCCCTCCGTTT 59.010 47.619 0.00 0.00 0.00 3.60
2936 3150 1.665137 ACTCAAATACCCCCTCCGTT 58.335 50.000 0.00 0.00 0.00 4.44
2937 3151 1.665137 AACTCAAATACCCCCTCCGT 58.335 50.000 0.00 0.00 0.00 4.69
2938 3152 2.158856 GGTAACTCAAATACCCCCTCCG 60.159 54.545 0.00 0.00 37.44 4.63
2939 3153 3.572632 GGTAACTCAAATACCCCCTCC 57.427 52.381 0.00 0.00 37.44 4.30


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

AutoCloner maintained by Alex Coulton.