Multiple sequence alignment - TraesCS5B01G141900

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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 TraesCS5B01G141900 chr5B 100.000 3818 0 0 1 3818 267762171 267758354 0.000000e+00 7051.0
1 TraesCS5B01G141900 chr5B 82.432 148 24 2 1203 1349 461141440 461141294 1.110000e-25 128.0
2 TraesCS5B01G141900 chr5B 98.361 61 1 0 1 61 524576449 524576389 1.450000e-19 108.0
3 TraesCS5B01G141900 chr5B 96.721 61 2 0 1 61 267773093 267773153 6.750000e-18 102.0
4 TraesCS5B01G141900 chr5D 90.715 2897 123 70 61 2896 238072010 238074821 0.000000e+00 3725.0
5 TraesCS5B01G141900 chr5D 89.176 425 14 10 3421 3818 238077183 238077602 5.690000e-138 501.0
6 TraesCS5B01G141900 chr5D 87.376 404 18 13 2948 3333 238074928 238075316 2.110000e-117 433.0
7 TraesCS5B01G141900 chr5D 82.432 148 24 2 1203 1349 384348077 384347931 1.110000e-25 128.0
8 TraesCS5B01G141900 chr5D 92.857 56 2 1 2896 2949 238074839 238074894 3.160000e-11 80.5
9 TraesCS5B01G141900 chr5A 90.892 2734 128 50 751 3400 317240725 317238029 0.000000e+00 3557.0
10 TraesCS5B01G141900 chr5A 88.745 693 37 22 77 753 317241704 317241037 0.000000e+00 809.0
11 TraesCS5B01G141900 chr5A 85.748 421 19 9 3434 3818 317236610 317236195 1.280000e-109 407.0
12 TraesCS5B01G141900 chr5A 85.714 63 6 2 1206 1268 660799241 660799300 3.180000e-06 63.9
13 TraesCS5B01G141900 chr4A 81.679 262 34 12 1433 1688 173630684 173630937 5.000000e-49 206.0
14 TraesCS5B01G141900 chr4A 96.721 61 2 0 1 61 740136307 740136247 6.750000e-18 102.0
15 TraesCS5B01G141900 chr4D 80.843 261 38 10 1433 1688 305141316 305141569 1.080000e-45 195.0
16 TraesCS5B01G141900 chr4D 85.714 63 6 2 1206 1268 481912565 481912506 3.180000e-06 63.9
17 TraesCS5B01G141900 chr4B 80.545 257 39 9 1433 1685 381374097 381374346 1.810000e-43 187.0
18 TraesCS5B01G141900 chr4B 85.714 63 6 2 1206 1268 611553517 611553458 3.180000e-06 63.9
19 TraesCS5B01G141900 chr2D 79.839 248 37 10 1446 1689 417544124 417544362 6.560000e-38 169.0
20 TraesCS5B01G141900 chr2A 78.629 248 40 10 1446 1689 572615832 572615594 6.610000e-33 152.0
21 TraesCS5B01G141900 chr3D 76.763 241 54 2 1439 1678 39120472 39120233 2.390000e-27 134.0
22 TraesCS5B01G141900 chr3B 77.249 189 39 4 1439 1625 61916092 61915906 1.450000e-19 108.0
23 TraesCS5B01G141900 chr2B 95.455 66 3 0 1 66 699769292 699769357 5.220000e-19 106.0
24 TraesCS5B01G141900 chr2B 96.721 61 2 0 1 61 699751227 699751167 6.750000e-18 102.0
25 TraesCS5B01G141900 chr2B 93.939 66 4 0 3 68 631107939 631107874 2.430000e-17 100.0
26 TraesCS5B01G141900 chr1B 96.721 61 2 0 1 61 659692861 659692801 6.750000e-18 102.0
27 TraesCS5B01G141900 chr1B 96.721 61 2 0 1 61 659733117 659733057 6.750000e-18 102.0
28 TraesCS5B01G141900 chr1A 96.667 60 2 0 1 60 562940026 562939967 2.430000e-17 100.0
29 TraesCS5B01G141900 chr3A 100.000 28 0 0 3780 3807 639433942 639433915 7.000000e-03 52.8


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 TraesCS5B01G141900 chr5B 267758354 267762171 3817 True 7051.000 7051 100.000000 1 3818 1 chr5B.!!$R1 3817
1 TraesCS5B01G141900 chr5D 238072010 238077602 5592 False 1184.875 3725 90.031000 61 3818 4 chr5D.!!$F1 3757
2 TraesCS5B01G141900 chr5A 317236195 317241704 5509 True 1591.000 3557 88.461667 77 3818 3 chr5A.!!$R1 3741

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
158 166 0.037326 TGCAAGAACGAGCCTACCTG 60.037 55.0 0.00 0.00 0.00 4.00 F
159 167 0.741221 GCAAGAACGAGCCTACCTGG 60.741 60.0 0.00 0.00 39.35 4.45 F
192 200 0.757512 TGCATGCCCACACAACAAAT 59.242 45.0 16.68 0.00 0.00 2.32 F
1113 1497 0.752009 CACTCCTAGCCGGCTACTGA 60.752 60.0 32.24 26.75 0.00 3.41 F
1288 1676 1.030488 TCCTCGACCCTAGCTTCGTG 61.030 60.0 5.51 3.45 36.60 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1092 1474 0.186386 AGTAGCCGGCTAGGAGTGAT 59.814 55.0 36.09 10.62 45.0 3.06 R
1095 1477 0.186386 ATCAGTAGCCGGCTAGGAGT 59.814 55.0 36.09 18.05 45.0 3.85 R
1651 2059 0.392998 GGAACTCGTGCATGACCCAT 60.393 55.0 3.97 0.00 0.0 4.00 R
1982 2395 0.464916 TGTAGCAGAGCGGGTCGATA 60.465 55.0 0.96 0.00 0.0 2.92 R
3046 3530 0.525761 GCCACATACAAACGCCACAT 59.474 50.0 0.00 0.00 0.0 3.21 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
20 21 3.781079 TTGAAAGCAGGTCAGTTTGTG 57.219 42.857 0.00 0.00 0.00 3.33
21 22 2.997980 TGAAAGCAGGTCAGTTTGTGA 58.002 42.857 0.00 0.00 0.00 3.58
22 23 3.351740 TGAAAGCAGGTCAGTTTGTGAA 58.648 40.909 0.00 0.00 36.74 3.18
23 24 3.953612 TGAAAGCAGGTCAGTTTGTGAAT 59.046 39.130 0.00 0.00 36.74 2.57
24 25 4.402155 TGAAAGCAGGTCAGTTTGTGAATT 59.598 37.500 0.00 0.00 36.74 2.17
25 26 3.996150 AGCAGGTCAGTTTGTGAATTG 57.004 42.857 0.00 0.00 36.74 2.32
26 27 3.554934 AGCAGGTCAGTTTGTGAATTGA 58.445 40.909 0.00 0.00 36.74 2.57
27 28 4.147321 AGCAGGTCAGTTTGTGAATTGAT 58.853 39.130 0.00 0.00 36.74 2.57
28 29 4.586001 AGCAGGTCAGTTTGTGAATTGATT 59.414 37.500 0.00 0.00 36.74 2.57
29 30 5.069516 AGCAGGTCAGTTTGTGAATTGATTT 59.930 36.000 0.00 0.00 36.74 2.17
30 31 6.265196 AGCAGGTCAGTTTGTGAATTGATTTA 59.735 34.615 0.00 0.00 36.74 1.40
31 32 6.583806 GCAGGTCAGTTTGTGAATTGATTTAG 59.416 38.462 0.00 0.00 36.74 1.85
32 33 7.086376 CAGGTCAGTTTGTGAATTGATTTAGG 58.914 38.462 0.00 0.00 36.74 2.69
33 34 5.863935 GGTCAGTTTGTGAATTGATTTAGGC 59.136 40.000 0.00 0.00 36.74 3.93
34 35 5.863935 GTCAGTTTGTGAATTGATTTAGGCC 59.136 40.000 0.00 0.00 36.74 5.19
35 36 5.774690 TCAGTTTGTGAATTGATTTAGGCCT 59.225 36.000 11.78 11.78 29.64 5.19
36 37 6.071952 TCAGTTTGTGAATTGATTTAGGCCTC 60.072 38.462 9.68 0.00 29.64 4.70
37 38 5.774690 AGTTTGTGAATTGATTTAGGCCTCA 59.225 36.000 9.68 0.00 0.00 3.86
38 39 5.902613 TTGTGAATTGATTTAGGCCTCAG 57.097 39.130 9.68 0.00 0.00 3.35
39 40 4.272489 TGTGAATTGATTTAGGCCTCAGG 58.728 43.478 9.68 0.00 0.00 3.86
40 41 4.263905 TGTGAATTGATTTAGGCCTCAGGT 60.264 41.667 9.68 0.00 0.00 4.00
41 42 4.336713 GTGAATTGATTTAGGCCTCAGGTC 59.663 45.833 9.68 4.30 0.00 3.85
42 43 4.018506 TGAATTGATTTAGGCCTCAGGTCA 60.019 41.667 9.68 7.29 0.00 4.02
43 44 4.591321 ATTGATTTAGGCCTCAGGTCAA 57.409 40.909 9.68 16.26 0.00 3.18
44 45 4.380843 TTGATTTAGGCCTCAGGTCAAA 57.619 40.909 9.68 2.90 0.00 2.69
45 46 4.591321 TGATTTAGGCCTCAGGTCAAAT 57.409 40.909 9.68 8.83 0.00 2.32
46 47 5.708736 TGATTTAGGCCTCAGGTCAAATA 57.291 39.130 9.68 0.00 0.00 1.40
47 48 6.266131 TGATTTAGGCCTCAGGTCAAATAT 57.734 37.500 9.68 0.00 0.00 1.28
48 49 6.064060 TGATTTAGGCCTCAGGTCAAATATG 58.936 40.000 9.68 0.00 0.00 1.78
49 50 5.450818 TTTAGGCCTCAGGTCAAATATGT 57.549 39.130 9.68 0.00 0.00 2.29
50 51 3.287867 AGGCCTCAGGTCAAATATGTG 57.712 47.619 0.00 0.00 0.00 3.21
51 52 2.846206 AGGCCTCAGGTCAAATATGTGA 59.154 45.455 0.00 0.00 0.00 3.58
52 53 3.461085 AGGCCTCAGGTCAAATATGTGAT 59.539 43.478 0.00 0.00 0.00 3.06
53 54 4.079558 AGGCCTCAGGTCAAATATGTGATT 60.080 41.667 0.00 0.00 0.00 2.57
54 55 4.646492 GGCCTCAGGTCAAATATGTGATTT 59.354 41.667 0.00 0.00 0.00 2.17
55 56 5.221126 GGCCTCAGGTCAAATATGTGATTTC 60.221 44.000 0.00 0.00 0.00 2.17
56 57 5.591877 GCCTCAGGTCAAATATGTGATTTCT 59.408 40.000 0.00 0.00 0.00 2.52
57 58 6.459298 GCCTCAGGTCAAATATGTGATTTCTG 60.459 42.308 0.00 7.91 0.00 3.02
58 59 6.441093 TCAGGTCAAATATGTGATTTCTGC 57.559 37.500 14.18 0.00 0.00 4.26
59 60 5.357878 TCAGGTCAAATATGTGATTTCTGCC 59.642 40.000 14.18 5.01 0.00 4.85
104 107 4.043561 TCCTACCTTGGCCAACTAAATTGA 59.956 41.667 16.05 2.70 41.23 2.57
116 119 6.558009 CCAACTAAATTGACATGGTCATGAG 58.442 40.000 16.77 5.27 42.40 2.90
157 165 0.685097 TTGCAAGAACGAGCCTACCT 59.315 50.000 0.00 0.00 0.00 3.08
158 166 0.037326 TGCAAGAACGAGCCTACCTG 60.037 55.000 0.00 0.00 0.00 4.00
159 167 0.741221 GCAAGAACGAGCCTACCTGG 60.741 60.000 0.00 0.00 39.35 4.45
189 197 1.666580 CATGCATGCCCACACAACA 59.333 52.632 14.93 0.00 0.00 3.33
192 200 0.757512 TGCATGCCCACACAACAAAT 59.242 45.000 16.68 0.00 0.00 2.32
193 201 1.966354 TGCATGCCCACACAACAAATA 59.034 42.857 16.68 0.00 0.00 1.40
194 202 2.566279 TGCATGCCCACACAACAAATAT 59.434 40.909 16.68 0.00 0.00 1.28
197 205 4.566360 GCATGCCCACACAACAAATATTAC 59.434 41.667 6.36 0.00 0.00 1.89
204 212 6.404293 CCCACACAACAAATATTACTAGCACC 60.404 42.308 0.00 0.00 0.00 5.01
243 267 7.604164 GCTAAGCTTAATGTTAGGCTGATATGA 59.396 37.037 7.74 0.00 44.09 2.15
256 280 5.105392 AGGCTGATATGAATGCTAGCTACTC 60.105 44.000 17.23 9.99 0.00 2.59
258 282 5.337089 GCTGATATGAATGCTAGCTACTCCA 60.337 44.000 17.23 7.24 0.00 3.86
259 283 6.278172 TGATATGAATGCTAGCTACTCCAG 57.722 41.667 17.23 0.00 0.00 3.86
317 352 8.472683 TGCGCTGCACTATTTTATTTTATTTT 57.527 26.923 9.73 0.00 31.71 1.82
371 406 1.082104 GAAACCGGAGCAAAGCACG 60.082 57.895 9.46 0.00 0.00 5.34
405 440 9.559958 CTACACTCATCAACAATTAACAAATCC 57.440 33.333 0.00 0.00 0.00 3.01
412 447 8.497554 CATCAACAATTAACAAATCCAAACTGG 58.502 33.333 0.00 0.00 39.43 4.00
459 494 9.720667 CGAAATTTCACATTATCATTGAGCTAA 57.279 29.630 17.99 0.00 0.00 3.09
500 537 3.719268 AGACCTGACCAAACATGCATA 57.281 42.857 0.00 0.00 0.00 3.14
501 538 3.347216 AGACCTGACCAAACATGCATAC 58.653 45.455 0.00 0.00 0.00 2.39
539 586 4.539870 CATGGTCATCAAAGAACACACAC 58.460 43.478 0.00 0.00 38.19 3.82
540 587 3.615155 TGGTCATCAAAGAACACACACA 58.385 40.909 0.00 0.00 28.35 3.72
572 619 6.096001 ACATGTTTCTTCAAATCAGCCTATCC 59.904 38.462 0.00 0.00 0.00 2.59
582 629 6.379988 TCAAATCAGCCTATCCGCTATATACA 59.620 38.462 0.00 0.00 36.82 2.29
614 661 7.347252 GGACATAGGAGAAAAGTAAAGGGAAT 58.653 38.462 0.00 0.00 0.00 3.01
615 662 8.491958 GGACATAGGAGAAAAGTAAAGGGAATA 58.508 37.037 0.00 0.00 0.00 1.75
616 663 9.327628 GACATAGGAGAAAAGTAAAGGGAATAC 57.672 37.037 0.00 0.00 0.00 1.89
656 703 6.969993 AATATCTAGGTGAGAGAACAGTCC 57.030 41.667 0.00 0.00 37.70 3.85
681 731 7.148255 CCGTGATTTGGATTTGTATCTTTCTCA 60.148 37.037 0.00 0.00 0.00 3.27
695 745 2.812358 TTCTCAGCAACGCTACAAGA 57.188 45.000 0.00 0.00 36.40 3.02
696 746 2.812358 TCTCAGCAACGCTACAAGAA 57.188 45.000 0.00 0.00 36.40 2.52
697 747 3.106242 TCTCAGCAACGCTACAAGAAA 57.894 42.857 0.00 0.00 36.40 2.52
698 748 3.462982 TCTCAGCAACGCTACAAGAAAA 58.537 40.909 0.00 0.00 36.40 2.29
699 749 3.494626 TCTCAGCAACGCTACAAGAAAAG 59.505 43.478 0.00 0.00 36.40 2.27
700 750 2.032030 TCAGCAACGCTACAAGAAAAGC 60.032 45.455 0.00 0.00 36.40 3.51
701 751 2.031682 CAGCAACGCTACAAGAAAAGCT 60.032 45.455 0.00 0.00 36.40 3.74
845 1214 2.435372 TCGCTGAAATTAATGCCCCT 57.565 45.000 0.00 0.00 0.00 4.79
1034 1403 1.431488 CCATTCATCCGTCTGCACCG 61.431 60.000 0.00 0.00 0.00 4.94
1052 1421 1.229428 CGAGCCTTGCTTTCTTGTGA 58.771 50.000 0.00 0.00 39.88 3.58
1066 1435 3.376918 GTGAGCCCAAGCAAGCCC 61.377 66.667 0.00 0.00 43.56 5.19
1083 1465 1.912731 GCCCTCTTCTTCTTCCTTCCT 59.087 52.381 0.00 0.00 0.00 3.36
1092 1474 5.384145 TCTTCTTCCTTCCTACCGATCTA 57.616 43.478 0.00 0.00 0.00 1.98
1093 1475 5.954757 TCTTCTTCCTTCCTACCGATCTAT 58.045 41.667 0.00 0.00 0.00 1.98
1095 1477 5.320488 TCTTCCTTCCTACCGATCTATCA 57.680 43.478 0.00 0.00 0.00 2.15
1097 1479 4.726035 TCCTTCCTACCGATCTATCACT 57.274 45.455 0.00 0.00 0.00 3.41
1098 1480 4.653868 TCCTTCCTACCGATCTATCACTC 58.346 47.826 0.00 0.00 0.00 3.51
1104 1488 2.797786 ACCGATCTATCACTCCTAGCC 58.202 52.381 0.00 0.00 0.00 3.93
1113 1497 0.752009 CACTCCTAGCCGGCTACTGA 60.752 60.000 32.24 26.75 0.00 3.41
1122 1506 1.406887 GCCGGCTACTGATTTCCTTGA 60.407 52.381 22.15 0.00 0.00 3.02
1129 1517 5.649831 GGCTACTGATTTCCTTGACTTGATT 59.350 40.000 0.00 0.00 0.00 2.57
1154 1542 2.580815 CGAGCATGGTGGAGAGCA 59.419 61.111 0.00 0.00 0.00 4.26
1288 1676 1.030488 TCCTCGACCCTAGCTTCGTG 61.030 60.000 5.51 3.45 36.60 4.35
1347 1735 1.776662 CCACGAGATCTCCCAGGTAA 58.223 55.000 17.13 0.00 0.00 2.85
1357 1745 2.093658 TCTCCCAGGTAACAATTCGCTC 60.094 50.000 0.00 0.00 41.41 5.03
1359 1747 1.379527 CCAGGTAACAATTCGCTCCC 58.620 55.000 0.00 0.00 41.41 4.30
1360 1748 1.065418 CCAGGTAACAATTCGCTCCCT 60.065 52.381 0.00 0.00 41.41 4.20
1363 1764 2.304761 AGGTAACAATTCGCTCCCTTCA 59.695 45.455 0.00 0.00 41.41 3.02
1366 1767 1.656652 ACAATTCGCTCCCTTCATCG 58.343 50.000 0.00 0.00 0.00 3.84
1394 1796 9.859427 CTTCTTCTTTTTCCATGCATATTTACA 57.141 29.630 0.00 0.00 0.00 2.41
1397 1799 7.167924 TCTTTTTCCATGCATATTTACAGCA 57.832 32.000 0.00 0.00 43.14 4.41
1428 1836 6.682113 GCTGCTGATGTTGTTTGATATGGAAT 60.682 38.462 0.00 0.00 0.00 3.01
1607 2015 1.697432 TGGTTGGGATGAAGAAGACGT 59.303 47.619 0.00 0.00 0.00 4.34
1609 2017 2.484264 GGTTGGGATGAAGAAGACGTTG 59.516 50.000 0.00 0.00 0.00 4.10
1627 2035 2.652530 GTGTTCTACACGGGCCGA 59.347 61.111 35.78 9.74 39.53 5.54
1651 2059 4.697756 CGGGGCGCCAAGTCTGAA 62.698 66.667 30.85 0.00 0.00 3.02
1864 2277 1.145119 GTTCAACAAGAAGGGGGAGGT 59.855 52.381 0.00 0.00 36.78 3.85
1880 2293 4.070552 GTCAAGGCGACGAGGGCT 62.071 66.667 0.00 0.00 45.86 5.19
1904 2317 2.396955 CGTGGACGCCGAGTACTCT 61.397 63.158 20.34 1.44 33.83 3.24
1982 2395 1.338107 TCACCGACTCCATGTTCACT 58.662 50.000 0.00 0.00 0.00 3.41
2048 2461 2.743928 CAGCTGCCGACCAAGACC 60.744 66.667 0.00 0.00 0.00 3.85
2051 2464 2.358737 CTGCCGACCAAGACCACC 60.359 66.667 0.00 0.00 0.00 4.61
2052 2465 4.308458 TGCCGACCAAGACCACCG 62.308 66.667 0.00 0.00 0.00 4.94
2072 2488 2.123897 ACCACCACCAACAGTGCC 60.124 61.111 0.00 0.00 45.83 5.01
2073 2489 2.912025 CCACCACCAACAGTGCCC 60.912 66.667 0.00 0.00 45.83 5.36
2105 2521 0.464554 ACGCGGACTACTACTACCCC 60.465 60.000 12.47 0.00 0.00 4.95
2144 2560 3.614092 TGGAAGCTTCAATCTCATGTCC 58.386 45.455 27.02 7.24 0.00 4.02
2164 2580 2.210116 CAACTACAGCTTGACCAACGT 58.790 47.619 0.00 0.00 0.00 3.99
2215 2631 2.270205 CAGCTCAGTCCCGGCAAT 59.730 61.111 0.00 0.00 0.00 3.56
2271 2690 2.592574 CGCCGCATGGGATGATGT 60.593 61.111 12.02 0.00 38.47 3.06
2272 2691 2.610694 CGCCGCATGGGATGATGTC 61.611 63.158 12.02 0.00 38.47 3.06
2291 2710 3.243301 TGTCAAGAAGAAGCTACGACGTT 60.243 43.478 5.50 0.00 0.00 3.99
2332 2751 3.087781 CGATCATGATGAGAGCCCTAGA 58.912 50.000 14.30 0.00 0.00 2.43
2382 2801 2.032528 CGGCAAAGGGTCTGCAGA 59.967 61.111 13.74 13.74 41.78 4.26
2383 2802 2.328099 CGGCAAAGGGTCTGCAGAC 61.328 63.158 34.25 34.25 41.78 3.51
2457 2876 0.792356 GAGCTACGACGACGGTGAAC 60.792 60.000 12.58 0.00 44.46 3.18
2497 2916 0.654683 CTTGCTTCTGCCGCTATGAC 59.345 55.000 0.00 0.00 38.71 3.06
2620 3039 7.986889 TCGATGTTGATTATATATGGACCATGG 59.013 37.037 17.73 11.19 0.00 3.66
2806 3235 8.828688 ATCTTTGAGTAACGGGTAATATAAGC 57.171 34.615 0.00 0.00 0.00 3.09
2838 3267 5.193728 AGGTGGAGATCCTTTGCCTAAAATA 59.806 40.000 0.00 0.00 36.82 1.40
2839 3268 6.071320 GGTGGAGATCCTTTGCCTAAAATAT 58.929 40.000 0.00 0.00 36.82 1.28
2840 3269 7.073725 AGGTGGAGATCCTTTGCCTAAAATATA 59.926 37.037 0.00 0.00 36.82 0.86
2841 3270 7.391833 GGTGGAGATCCTTTGCCTAAAATATAG 59.608 40.741 0.00 0.00 36.82 1.31
2842 3271 7.391833 GTGGAGATCCTTTGCCTAAAATATAGG 59.608 40.741 0.00 0.00 35.95 2.57
2843 3272 7.294720 TGGAGATCCTTTGCCTAAAATATAGGA 59.705 37.037 5.71 0.00 35.35 2.94
2934 3383 8.184304 AGTTATATATGAGGACTGAAGTGGTC 57.816 38.462 0.00 0.00 0.00 4.02
2976 3460 5.391629 GGATGTTGGTCCAAATTACGACTTC 60.392 44.000 5.69 0.77 38.20 3.01
2991 3475 5.117355 ACGACTTCGAGAAATAGACAACA 57.883 39.130 5.47 0.00 43.02 3.33
3042 3526 8.512138 GCAAACTCTTTCTTTAGGCTTTGTATA 58.488 33.333 0.00 0.00 0.00 1.47
3060 3544 9.944663 CTTTGTATATAAATGTGGCGTTTGTAT 57.055 29.630 0.00 7.74 33.51 2.29
3061 3545 9.723447 TTTGTATATAAATGTGGCGTTTGTATG 57.277 29.630 10.99 0.00 32.10 2.39
3086 3571 7.828717 TGTGGCTCTTCTTCATTGTTAATGATA 59.171 33.333 5.20 0.00 46.50 2.15
3087 3572 8.125448 GTGGCTCTTCTTCATTGTTAATGATAC 58.875 37.037 5.20 0.00 46.50 2.24
3108 3593 2.928116 CAATAAGGACCTCGGTCGTTTC 59.072 50.000 23.90 5.81 46.72 2.78
3183 3680 9.874205 TTTGCCTTCTCATCCAAAATAATTAAG 57.126 29.630 0.00 0.00 0.00 1.85
3230 3730 6.038382 CGTGGTAGCTTATTCTGTTCTCTAGA 59.962 42.308 0.00 0.00 0.00 2.43
3236 3736 7.885297 AGCTTATTCTGTTCTCTAGATAGCTG 58.115 38.462 0.00 0.00 34.93 4.24
3237 3737 7.039784 AGCTTATTCTGTTCTCTAGATAGCTGG 60.040 40.741 0.00 0.00 34.93 4.85
3242 3742 6.292923 TCTGTTCTCTAGATAGCTGGAGTAC 58.707 44.000 19.58 19.58 46.47 2.73
3243 3743 6.100569 TCTGTTCTCTAGATAGCTGGAGTACT 59.899 42.308 24.21 0.00 46.47 2.73
3244 3744 7.290481 TCTGTTCTCTAGATAGCTGGAGTACTA 59.710 40.741 24.21 14.09 46.47 1.82
3245 3745 7.446769 TGTTCTCTAGATAGCTGGAGTACTAG 58.553 42.308 24.21 2.07 46.47 2.57
3246 3746 6.045072 TCTCTAGATAGCTGGAGTACTAGC 57.955 45.833 19.28 9.27 46.47 3.42
3299 3802 6.412214 ACTAGCTACAAATCGGTAACCAAAT 58.588 36.000 0.00 0.00 0.00 2.32
3300 3803 6.882678 ACTAGCTACAAATCGGTAACCAAATT 59.117 34.615 0.00 0.00 0.00 1.82
3301 3804 8.042515 ACTAGCTACAAATCGGTAACCAAATTA 58.957 33.333 0.00 0.00 0.00 1.40
3302 3805 7.690952 AGCTACAAATCGGTAACCAAATTAA 57.309 32.000 0.00 0.00 0.00 1.40
3303 3806 8.113173 AGCTACAAATCGGTAACCAAATTAAA 57.887 30.769 0.00 0.00 0.00 1.52
3368 3937 3.134623 TGGAGACAGAGAGAGCTAGAGAG 59.865 52.174 0.00 0.00 35.01 3.20
3369 3938 3.388024 GGAGACAGAGAGAGCTAGAGAGA 59.612 52.174 0.00 0.00 0.00 3.10
3386 3955 9.073475 GCTAGAGAGATATCTAAACCAAGAGAA 57.927 37.037 4.89 0.00 31.51 2.87
3477 6394 2.407521 AGCGCTCATACGTATGACAG 57.592 50.000 29.79 25.26 37.76 3.51
3487 6404 7.274904 GCTCATACGTATGACAGTACTTTTCAA 59.725 37.037 29.79 8.55 37.76 2.69
3490 6407 9.563898 CATACGTATGACAGTACTTTTCAAGTA 57.436 33.333 27.88 11.48 38.13 2.24
3502 6419 5.875930 ACTTTTCAAGTACGGTGACTTTTG 58.124 37.500 2.16 0.00 40.69 2.44
3537 6475 5.414765 ACCTAATGTAACCAAGCTAGTTTGC 59.585 40.000 13.42 1.32 0.00 3.68
3629 6567 3.175240 CTGGAGCGTTCGTCAGCG 61.175 66.667 0.00 0.00 38.61 5.18
3741 6692 4.651503 AGGTCATTCACTTGATCTACCGAT 59.348 41.667 0.00 0.00 35.30 4.18
3758 6709 8.757982 TCTACCGATAGACCAGTTTAATTACT 57.242 34.615 0.00 0.00 32.16 2.24
3759 6710 9.851686 TCTACCGATAGACCAGTTTAATTACTA 57.148 33.333 0.00 0.00 32.16 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.351740 TCACAAACTGACCTGCTTTCAA 58.648 40.909 0.00 0.00 0.00 2.69
1 2 2.997980 TCACAAACTGACCTGCTTTCA 58.002 42.857 0.00 0.00 0.00 2.69
2 3 4.574599 ATTCACAAACTGACCTGCTTTC 57.425 40.909 0.00 0.00 0.00 2.62
3 4 4.402155 TCAATTCACAAACTGACCTGCTTT 59.598 37.500 0.00 0.00 0.00 3.51
4 5 3.953612 TCAATTCACAAACTGACCTGCTT 59.046 39.130 0.00 0.00 0.00 3.91
5 6 3.554934 TCAATTCACAAACTGACCTGCT 58.445 40.909 0.00 0.00 0.00 4.24
6 7 3.988379 TCAATTCACAAACTGACCTGC 57.012 42.857 0.00 0.00 0.00 4.85
7 8 7.086376 CCTAAATCAATTCACAAACTGACCTG 58.914 38.462 0.00 0.00 0.00 4.00
8 9 6.294731 GCCTAAATCAATTCACAAACTGACCT 60.295 38.462 0.00 0.00 0.00 3.85
9 10 5.863935 GCCTAAATCAATTCACAAACTGACC 59.136 40.000 0.00 0.00 0.00 4.02
10 11 5.863935 GGCCTAAATCAATTCACAAACTGAC 59.136 40.000 0.00 0.00 0.00 3.51
11 12 5.774690 AGGCCTAAATCAATTCACAAACTGA 59.225 36.000 1.29 0.00 0.00 3.41
12 13 6.029346 AGGCCTAAATCAATTCACAAACTG 57.971 37.500 1.29 0.00 0.00 3.16
13 14 5.774690 TGAGGCCTAAATCAATTCACAAACT 59.225 36.000 4.42 0.00 0.00 2.66
14 15 6.024552 TGAGGCCTAAATCAATTCACAAAC 57.975 37.500 4.42 0.00 0.00 2.93
15 16 5.185635 CCTGAGGCCTAAATCAATTCACAAA 59.814 40.000 4.42 0.00 0.00 2.83
16 17 4.706476 CCTGAGGCCTAAATCAATTCACAA 59.294 41.667 4.42 0.00 0.00 3.33
17 18 4.263905 ACCTGAGGCCTAAATCAATTCACA 60.264 41.667 4.42 0.00 0.00 3.58
18 19 4.273318 ACCTGAGGCCTAAATCAATTCAC 58.727 43.478 4.42 0.00 0.00 3.18
19 20 4.018506 TGACCTGAGGCCTAAATCAATTCA 60.019 41.667 4.42 2.02 0.00 2.57
20 21 4.526970 TGACCTGAGGCCTAAATCAATTC 58.473 43.478 4.42 0.00 0.00 2.17
21 22 4.591321 TGACCTGAGGCCTAAATCAATT 57.409 40.909 4.42 0.00 0.00 2.32
22 23 4.591321 TTGACCTGAGGCCTAAATCAAT 57.409 40.909 4.42 0.00 0.00 2.57
23 24 4.380843 TTTGACCTGAGGCCTAAATCAA 57.619 40.909 4.42 8.93 0.00 2.57
24 25 4.591321 ATTTGACCTGAGGCCTAAATCA 57.409 40.909 4.42 1.71 0.00 2.57
25 26 6.016777 CACATATTTGACCTGAGGCCTAAATC 60.017 42.308 4.42 0.00 0.00 2.17
26 27 5.829924 CACATATTTGACCTGAGGCCTAAAT 59.170 40.000 4.42 9.82 0.00 1.40
27 28 5.045213 TCACATATTTGACCTGAGGCCTAAA 60.045 40.000 4.42 0.89 0.00 1.85
28 29 4.473196 TCACATATTTGACCTGAGGCCTAA 59.527 41.667 4.42 0.00 0.00 2.69
29 30 4.037222 TCACATATTTGACCTGAGGCCTA 58.963 43.478 4.42 0.00 0.00 3.93
30 31 2.846206 TCACATATTTGACCTGAGGCCT 59.154 45.455 3.86 3.86 0.00 5.19
31 32 3.281727 TCACATATTTGACCTGAGGCC 57.718 47.619 0.00 0.00 0.00 5.19
32 33 5.591877 AGAAATCACATATTTGACCTGAGGC 59.408 40.000 0.00 0.00 0.00 4.70
33 34 6.459298 GCAGAAATCACATATTTGACCTGAGG 60.459 42.308 15.94 0.00 0.00 3.86
34 35 6.459298 GGCAGAAATCACATATTTGACCTGAG 60.459 42.308 15.94 1.99 0.00 3.35
35 36 5.357878 GGCAGAAATCACATATTTGACCTGA 59.642 40.000 15.94 0.00 0.00 3.86
36 37 5.359009 AGGCAGAAATCACATATTTGACCTG 59.641 40.000 10.82 10.82 0.00 4.00
37 38 5.513233 AGGCAGAAATCACATATTTGACCT 58.487 37.500 0.00 0.00 0.00 3.85
38 39 5.841957 AGGCAGAAATCACATATTTGACC 57.158 39.130 0.00 0.00 0.00 4.02
39 40 9.638239 TTTTTAGGCAGAAATCACATATTTGAC 57.362 29.630 0.00 0.00 0.00 3.18
104 107 2.865119 TGTTCAGCTCATGACCATGT 57.135 45.000 9.53 0.00 37.77 3.21
116 119 5.051891 AGTTGCAATATGTCTTGTTCAGC 57.948 39.130 0.59 0.00 0.00 4.26
186 194 7.201732 GCATGAGTGGTGCTAGTAATATTTGTT 60.202 37.037 0.00 0.00 39.45 2.83
189 197 6.867662 GCATGAGTGGTGCTAGTAATATTT 57.132 37.500 0.00 0.00 39.45 1.40
256 280 3.671433 GCATGTACACACATTGAAGCTGG 60.671 47.826 0.00 0.00 42.98 4.85
258 282 3.148412 TGCATGTACACACATTGAAGCT 58.852 40.909 0.00 0.00 42.98 3.74
259 283 3.557577 TGCATGTACACACATTGAAGC 57.442 42.857 0.00 0.00 42.98 3.86
261 285 3.670091 CGCATGCATGTACACACATTGAA 60.670 43.478 26.79 0.00 42.98 2.69
262 286 2.159544 CGCATGCATGTACACACATTGA 60.160 45.455 26.79 0.00 42.98 2.57
264 288 2.083002 TCGCATGCATGTACACACATT 58.917 42.857 26.79 0.00 42.98 2.71
265 289 1.736612 TCGCATGCATGTACACACAT 58.263 45.000 26.79 1.71 46.58 3.21
266 290 1.196581 GTTCGCATGCATGTACACACA 59.803 47.619 26.79 0.00 39.52 3.72
267 291 1.464608 AGTTCGCATGCATGTACACAC 59.535 47.619 26.79 16.06 0.00 3.82
371 406 6.486253 TTGTTGATGAGTGTAGATTCAAGC 57.514 37.500 0.00 0.00 0.00 4.01
405 440 8.632679 AGCATATATGATAAACAACCCAGTTTG 58.367 33.333 17.10 0.00 41.48 2.93
412 447 6.480524 TCGCAGCATATATGATAAACAACC 57.519 37.500 17.10 0.00 0.00 3.77
459 494 0.543277 TGCATGCAGTTAGGCTAGCT 59.457 50.000 18.46 4.92 36.00 3.32
500 537 2.433604 CCATGCATGAGAGACTAGGTGT 59.566 50.000 28.31 0.00 0.00 4.16
501 538 2.433604 ACCATGCATGAGAGACTAGGTG 59.566 50.000 28.31 8.80 0.00 4.00
539 586 7.432869 TGATTTGAAGAAACATGTAGGGTTTG 58.567 34.615 0.00 0.00 38.50 2.93
540 587 7.595819 TGATTTGAAGAAACATGTAGGGTTT 57.404 32.000 0.00 0.00 40.91 3.27
572 619 4.233123 TGTCCGGTTTCTGTATATAGCG 57.767 45.455 0.00 0.00 0.00 4.26
582 629 4.286291 ACTTTTCTCCTATGTCCGGTTTCT 59.714 41.667 0.00 0.00 0.00 2.52
643 690 3.554960 CCAAATCACGGACTGTTCTCTCA 60.555 47.826 0.00 0.00 0.00 3.27
656 703 7.751732 TGAGAAAGATACAAATCCAAATCACG 58.248 34.615 0.00 0.00 31.98 4.35
681 731 2.222027 AGCTTTTCTTGTAGCGTTGCT 58.778 42.857 0.00 0.00 42.18 3.91
695 745 6.484977 CCACTTGACTTTCTTCTCTAGCTTTT 59.515 38.462 0.00 0.00 0.00 2.27
696 746 5.994668 CCACTTGACTTTCTTCTCTAGCTTT 59.005 40.000 0.00 0.00 0.00 3.51
697 747 5.546526 CCACTTGACTTTCTTCTCTAGCTT 58.453 41.667 0.00 0.00 0.00 3.74
698 748 4.562552 GCCACTTGACTTTCTTCTCTAGCT 60.563 45.833 0.00 0.00 0.00 3.32
699 749 3.682377 GCCACTTGACTTTCTTCTCTAGC 59.318 47.826 0.00 0.00 0.00 3.42
700 750 4.020662 AGGCCACTTGACTTTCTTCTCTAG 60.021 45.833 5.01 0.00 0.00 2.43
701 751 3.904339 AGGCCACTTGACTTTCTTCTCTA 59.096 43.478 5.01 0.00 0.00 2.43
770 1136 0.389948 GACAGCTACCGGGAAGTGTG 60.390 60.000 6.32 7.61 0.00 3.82
776 1142 2.447408 TATCTTGACAGCTACCGGGA 57.553 50.000 6.32 0.00 0.00 5.14
845 1214 6.053632 ACACATCAGATTTAGGTGTGATCA 57.946 37.500 12.93 0.00 41.93 2.92
1034 1403 1.068679 GCTCACAAGAAAGCAAGGCTC 60.069 52.381 0.00 0.00 38.25 4.70
1052 1421 2.778055 GAAGAGGGCTTGCTTGGGCT 62.778 60.000 0.00 0.00 39.59 5.19
1066 1435 4.017808 TCGGTAGGAAGGAAGAAGAAGAG 58.982 47.826 0.00 0.00 0.00 2.85
1083 1465 3.619242 CGGCTAGGAGTGATAGATCGGTA 60.619 52.174 0.00 0.00 0.00 4.02
1092 1474 0.186386 AGTAGCCGGCTAGGAGTGAT 59.814 55.000 36.09 10.62 45.00 3.06
1093 1475 0.752009 CAGTAGCCGGCTAGGAGTGA 60.752 60.000 36.09 13.20 45.00 3.41
1095 1477 0.186386 ATCAGTAGCCGGCTAGGAGT 59.814 55.000 36.09 18.05 45.00 3.85
1097 1479 1.687123 GAAATCAGTAGCCGGCTAGGA 59.313 52.381 36.09 32.36 45.00 2.94
1098 1480 1.270358 GGAAATCAGTAGCCGGCTAGG 60.270 57.143 36.09 28.65 44.97 3.02
1104 1488 3.252974 AGTCAAGGAAATCAGTAGCCG 57.747 47.619 0.00 0.00 0.00 5.52
1113 1497 5.647225 GCTCTCTCAATCAAGTCAAGGAAAT 59.353 40.000 0.00 0.00 0.00 2.17
1122 1506 1.547820 TGCTCGCTCTCTCAATCAAGT 59.452 47.619 0.00 0.00 0.00 3.16
1129 1517 1.514553 CACCATGCTCGCTCTCTCA 59.485 57.895 0.00 0.00 0.00 3.27
1154 1542 2.885644 CGACGGCGTTGCTGCTAT 60.886 61.111 16.19 0.00 38.71 2.97
1347 1735 1.066143 ACGATGAAGGGAGCGAATTGT 60.066 47.619 0.00 0.00 0.00 2.71
1357 1745 5.106515 GGAAAAAGAAGAAGACGATGAAGGG 60.107 44.000 0.00 0.00 0.00 3.95
1359 1747 6.545504 TGGAAAAAGAAGAAGACGATGAAG 57.454 37.500 0.00 0.00 0.00 3.02
1360 1748 6.568462 GCATGGAAAAAGAAGAAGACGATGAA 60.568 38.462 0.00 0.00 0.00 2.57
1363 1764 4.761739 TGCATGGAAAAAGAAGAAGACGAT 59.238 37.500 0.00 0.00 0.00 3.73
1366 1767 8.992835 AAATATGCATGGAAAAAGAAGAAGAC 57.007 30.769 10.16 0.00 0.00 3.01
1588 1996 2.474410 ACGTCTTCTTCATCCCAACC 57.526 50.000 0.00 0.00 0.00 3.77
1591 1999 1.697432 ACCAACGTCTTCTTCATCCCA 59.303 47.619 0.00 0.00 0.00 4.37
1607 2015 1.071814 GGCCCGTGTAGAACACCAA 59.928 57.895 4.69 0.00 45.93 3.67
1609 2017 2.433664 CGGCCCGTGTAGAACACC 60.434 66.667 0.00 0.00 45.93 4.16
1651 2059 0.392998 GGAACTCGTGCATGACCCAT 60.393 55.000 3.97 0.00 0.00 4.00
1813 2226 1.911766 ACCCATTCGTCCTGACCGT 60.912 57.895 0.00 0.00 0.00 4.83
1864 2277 4.069232 CAGCCCTCGTCGCCTTGA 62.069 66.667 0.00 0.00 0.00 3.02
1982 2395 0.464916 TGTAGCAGAGCGGGTCGATA 60.465 55.000 0.96 0.00 0.00 2.92
2040 2453 4.265056 GGTGGCGGTGGTCTTGGT 62.265 66.667 0.00 0.00 0.00 3.67
2048 2461 4.885270 TTGGTGGTGGTGGCGGTG 62.885 66.667 0.00 0.00 0.00 4.94
2051 2464 3.286751 CTGTTGGTGGTGGTGGCG 61.287 66.667 0.00 0.00 0.00 5.69
2052 2465 2.123897 ACTGTTGGTGGTGGTGGC 60.124 61.111 0.00 0.00 0.00 5.01
2105 2521 1.405821 CCAGCTGTAGTAGGAACGGAG 59.594 57.143 13.81 0.00 0.00 4.63
2135 2551 3.578282 TCAAGCTGTAGTTGGACATGAGA 59.422 43.478 0.00 0.00 0.00 3.27
2144 2560 2.210116 ACGTTGGTCAAGCTGTAGTTG 58.790 47.619 0.00 0.00 0.00 3.16
2164 2580 3.212682 TTTGCGCGTTGCTTGGGA 61.213 55.556 8.43 0.00 46.63 4.37
2215 2631 3.470888 GCCAGGAGGAGCCGCTTA 61.471 66.667 0.00 0.00 43.43 3.09
2271 2690 3.637998 AACGTCGTAGCTTCTTCTTGA 57.362 42.857 0.00 0.00 0.00 3.02
2272 2691 4.089636 GGTTAACGTCGTAGCTTCTTCTTG 59.910 45.833 0.00 0.00 0.00 3.02
2291 2710 0.543277 CCTGCTGCTCATGGAGGTTA 59.457 55.000 0.00 0.00 38.09 2.85
2554 2973 8.272866 GCAACCAACAAAATTACTACAATCAAC 58.727 33.333 0.00 0.00 0.00 3.18
2616 3035 4.763073 TGCAACTGTAATCTCTCTCCATG 58.237 43.478 0.00 0.00 0.00 3.66
2620 3039 8.386606 CAAACTAATGCAACTGTAATCTCTCTC 58.613 37.037 0.00 0.00 0.00 3.20
2694 3114 5.884232 TCAGCTCAATGAAGAAGCAACATAT 59.116 36.000 0.00 0.00 0.00 1.78
2749 3176 2.503920 TTAGGCGACCGAGAATTAGC 57.496 50.000 0.00 0.00 0.00 3.09
2806 3235 5.121811 CAAAGGATCTCCACCTGAGTTATG 58.878 45.833 0.00 0.00 42.12 1.90
2934 3383 1.064758 TCCAACCATCCTCATTTCCGG 60.065 52.381 0.00 0.00 0.00 5.14
2970 3454 6.448053 TTTGTTGTCTATTTCTCGAAGTCG 57.552 37.500 0.00 0.00 41.45 4.18
2976 3460 9.107367 GTCTGAAATTTTGTTGTCTATTTCTCG 57.893 33.333 0.00 0.00 37.69 4.04
2991 3475 8.611757 GCAAAACCATAAGTTGTCTGAAATTTT 58.388 29.630 0.00 0.00 39.19 1.82
3042 3526 4.676723 GCCACATACAAACGCCACATTTAT 60.677 41.667 0.00 0.00 0.00 1.40
3043 3527 3.366476 GCCACATACAAACGCCACATTTA 60.366 43.478 0.00 0.00 0.00 1.40
3044 3528 2.609244 GCCACATACAAACGCCACATTT 60.609 45.455 0.00 0.00 0.00 2.32
3045 3529 1.067915 GCCACATACAAACGCCACATT 60.068 47.619 0.00 0.00 0.00 2.71
3046 3530 0.525761 GCCACATACAAACGCCACAT 59.474 50.000 0.00 0.00 0.00 3.21
3060 3544 6.003326 TCATTAACAATGAAGAAGAGCCACA 58.997 36.000 0.00 0.00 44.47 4.17
3061 3545 6.500684 TCATTAACAATGAAGAAGAGCCAC 57.499 37.500 0.00 0.00 44.47 5.01
3086 3571 1.553706 ACGACCGAGGTCCTTATTGT 58.446 50.000 15.88 4.78 41.76 2.71
3087 3572 2.667473 AACGACCGAGGTCCTTATTG 57.333 50.000 15.88 4.18 41.76 1.90
3106 3591 7.575414 TTCAACAAAAACAGCCTGTATAGAA 57.425 32.000 0.00 0.00 0.00 2.10
3108 3593 7.820648 AGATTCAACAAAAACAGCCTGTATAG 58.179 34.615 0.00 0.00 0.00 1.31
3183 3680 5.105554 ACGACCTAATCCATAGCATCATCTC 60.106 44.000 0.00 0.00 0.00 2.75
3194 3691 2.679082 AGCTACCACGACCTAATCCAT 58.321 47.619 0.00 0.00 0.00 3.41
3196 3693 4.868314 ATAAGCTACCACGACCTAATCC 57.132 45.455 0.00 0.00 0.00 3.01
3236 3736 3.834938 ACCCATCTGTAGCTAGTACTCC 58.165 50.000 0.00 0.00 32.19 3.85
3237 3737 5.241285 GGTTACCCATCTGTAGCTAGTACTC 59.759 48.000 0.00 0.00 32.19 2.59
3239 3739 4.891756 TGGTTACCCATCTGTAGCTAGTAC 59.108 45.833 0.00 0.00 35.17 2.73
3242 3742 5.104900 ACTTTGGTTACCCATCTGTAGCTAG 60.105 44.000 0.00 0.00 41.49 3.42
3243 3743 4.781087 ACTTTGGTTACCCATCTGTAGCTA 59.219 41.667 0.00 0.00 41.49 3.32
3244 3744 3.587506 ACTTTGGTTACCCATCTGTAGCT 59.412 43.478 0.00 0.00 41.49 3.32
3245 3745 3.951663 ACTTTGGTTACCCATCTGTAGC 58.048 45.455 0.00 0.00 41.49 3.58
3246 3746 5.104900 AGCTACTTTGGTTACCCATCTGTAG 60.105 44.000 0.00 5.97 41.49 2.74
3247 3747 4.781087 AGCTACTTTGGTTACCCATCTGTA 59.219 41.667 0.00 0.00 41.49 2.74
3319 3822 7.330454 CAGCCTATTTAGAGTACACATGCATAG 59.670 40.741 0.00 0.00 0.00 2.23
3368 3937 9.995003 ATGTCTCATTCTCTTGGTTTAGATATC 57.005 33.333 0.00 0.00 0.00 1.63
3369 3938 9.775854 CATGTCTCATTCTCTTGGTTTAGATAT 57.224 33.333 0.00 0.00 0.00 1.63
3411 3980 9.599866 TTGTGTCTTTCTATACATACATGGAAG 57.400 33.333 0.00 0.00 28.63 3.46
3487 6404 3.613030 ACAAACCAAAAGTCACCGTACT 58.387 40.909 0.00 0.00 0.00 2.73
3490 6407 1.399089 CGACAAACCAAAAGTCACCGT 59.601 47.619 0.00 0.00 32.68 4.83
3502 6419 4.628766 GGTTACATTAGGTCTCGACAAACC 59.371 45.833 0.00 0.00 35.69 3.27
3629 6567 4.043200 GGCTGCACGTGCTTTCCC 62.043 66.667 37.59 26.82 42.66 3.97


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

AutoCloner maintained by Alex Coulton.