Multiple sequence alignment - TraesCS7A01G068700

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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 TraesCS7A01G068700 chr7A 100.000 3993 0 0 1 3993 34742521 34746513 0.000000e+00 7374.0
1 TraesCS7A01G068700 chr7A 90.696 1107 69 11 1960 3062 35001799 35000723 0.000000e+00 1443.0
2 TraesCS7A01G068700 chr7A 88.792 919 48 22 3089 3990 34963752 34962872 0.000000e+00 1075.0
3 TraesCS7A01G068700 chr7A 87.660 940 50 21 3069 3993 35000682 34999794 0.000000e+00 1033.0
4 TraesCS7A01G068700 chr7A 87.384 753 66 16 887 1612 35003033 35002283 0.000000e+00 837.0
5 TraesCS7A01G068700 chr7A 94.444 90 4 1 308 397 7326434 7326346 1.940000e-28 137.0
6 TraesCS7A01G068700 chr4A 92.002 1813 103 24 2162 3935 690412915 690414724 0.000000e+00 2507.0
7 TraesCS7A01G068700 chr4A 91.652 1114 67 10 1960 3073 690620225 690619138 0.000000e+00 1519.0
8 TraesCS7A01G068700 chr4A 89.241 883 57 10 3069 3935 690619108 690618248 0.000000e+00 1070.0
9 TraesCS7A01G068700 chr4A 86.220 820 65 22 882 1663 690409526 690410335 0.000000e+00 845.0
10 TraesCS7A01G068700 chr4A 84.793 868 83 19 834 1669 690623633 690622783 0.000000e+00 826.0
11 TraesCS7A01G068700 chr4A 86.687 323 26 7 1838 2143 690622649 690622327 3.820000e-90 342.0
12 TraesCS7A01G068700 chr4A 87.458 295 30 4 1856 2143 690410431 690410725 2.300000e-87 333.0
13 TraesCS7A01G068700 chr4A 81.292 449 43 29 376 790 690409076 690409517 3.850000e-85 326.0
14 TraesCS7A01G068700 chr4A 85.217 230 18 10 61 289 690408668 690408882 5.190000e-54 222.0
15 TraesCS7A01G068700 chr4A 80.317 315 34 12 405 694 690623967 690623656 3.130000e-51 213.0
16 TraesCS7A01G068700 chr7D 94.498 1236 56 4 1842 3073 34471436 34472663 0.000000e+00 1895.0
17 TraesCS7A01G068700 chr7D 94.086 1116 38 12 1960 3073 34374786 34375875 0.000000e+00 1670.0
18 TraesCS7A01G068700 chr7D 93.615 1065 40 12 1960 3022 34755193 34754155 0.000000e+00 1565.0
19 TraesCS7A01G068700 chr7D 92.674 778 43 7 3069 3839 34753988 34753218 0.000000e+00 1109.0
20 TraesCS7A01G068700 chr7D 91.754 764 47 4 3069 3816 34472693 34473456 0.000000e+00 1048.0
21 TraesCS7A01G068700 chr7D 86.338 893 63 22 834 1669 34470406 34471296 0.000000e+00 918.0
22 TraesCS7A01G068700 chr7D 82.222 1080 134 30 621 1658 34759194 34758131 0.000000e+00 878.0
23 TraesCS7A01G068700 chr7D 89.072 668 46 9 3340 3993 34376251 34376905 0.000000e+00 804.0
24 TraesCS7A01G068700 chr7D 86.030 723 58 14 931 1612 34371590 34372310 0.000000e+00 736.0
25 TraesCS7A01G068700 chr7D 92.837 349 20 3 3069 3415 34375905 34376250 5.960000e-138 501.0
26 TraesCS7A01G068700 chr7D 87.540 313 32 4 1838 2143 34758040 34757728 4.910000e-94 355.0
27 TraesCS7A01G068700 chr7D 86.166 253 24 8 67 310 34469802 34470052 3.060000e-66 263.0
28 TraesCS7A01G068700 chr7D 80.967 331 30 17 391 694 34470060 34470384 8.630000e-57 231.0
29 TraesCS7A01G068700 chr7D 90.179 112 3 5 3824 3935 34753129 34753026 5.380000e-29 139.0
30 TraesCS7A01G068700 chr7D 91.398 93 7 1 1686 1778 557712828 557712919 4.190000e-25 126.0
31 TraesCS7A01G068700 chr2B 90.389 489 46 1 2071 2559 704812642 704813129 3.360000e-180 641.0
32 TraesCS7A01G068700 chr2B 83.735 332 29 14 1133 1444 704812308 704812634 1.400000e-74 291.0
33 TraesCS7A01G068700 chr2B 92.857 84 6 0 1688 1771 187701117 187701034 5.420000e-24 122.0
34 TraesCS7A01G068700 chr3D 85.222 203 25 5 1971 2171 579426305 579426106 1.880000e-48 204.0
35 TraesCS7A01G068700 chr3D 86.869 99 11 2 1681 1778 411631914 411632011 4.220000e-20 110.0
36 TraesCS7A01G068700 chr5B 95.604 91 3 1 309 399 513662187 513662098 1.160000e-30 145.0
37 TraesCS7A01G068700 chr5B 88.496 113 11 2 282 394 602817772 602817882 6.960000e-28 135.0
38 TraesCS7A01G068700 chr5A 96.552 87 2 1 308 394 38014706 38014621 4.160000e-30 143.0
39 TraesCS7A01G068700 chr4D 91.509 106 5 4 309 413 485409351 485409453 4.160000e-30 143.0
40 TraesCS7A01G068700 chr2A 95.506 89 3 1 306 394 56937885 56937972 1.500000e-29 141.0
41 TraesCS7A01G068700 chr2A 91.765 85 6 1 1696 1780 203318582 203318499 2.520000e-22 117.0
42 TraesCS7A01G068700 chr3A 93.617 94 4 2 305 397 747596040 747595948 5.380000e-29 139.0
43 TraesCS7A01G068700 chr3A 93.617 94 4 2 305 397 747598960 747598868 5.380000e-29 139.0
44 TraesCS7A01G068700 chr1B 93.617 94 4 2 309 402 117222094 117222185 5.380000e-29 139.0
45 TraesCS7A01G068700 chr6B 94.937 79 4 0 1693 1771 452529815 452529737 1.510000e-24 124.0
46 TraesCS7A01G068700 chr6B 87.879 99 10 2 1682 1779 576199779 576199682 9.070000e-22 115.0
47 TraesCS7A01G068700 chr6B 88.136 59 5 2 244 302 570907114 570907170 7.160000e-08 69.4
48 TraesCS7A01G068700 chr7B 91.954 87 7 0 1685 1771 313178589 313178675 5.420000e-24 122.0
49 TraesCS7A01G068700 chr6D 90.426 94 8 1 1688 1780 140023099 140023192 5.420000e-24 122.0
50 TraesCS7A01G068700 chr5D 84.821 112 7 9 1688 1794 56467690 56467584 1.960000e-18 104.0


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 TraesCS7A01G068700 chr7A 34742521 34746513 3992 False 7374.000000 7374 100.00000 1 3993 1 chr7A.!!$F1 3992
1 TraesCS7A01G068700 chr7A 34999794 35003033 3239 True 1104.333333 1443 88.58000 887 3993 3 chr7A.!!$R3 3106
2 TraesCS7A01G068700 chr7A 34962872 34963752 880 True 1075.000000 1075 88.79200 3089 3990 1 chr7A.!!$R2 901
3 TraesCS7A01G068700 chr4A 690408668 690414724 6056 False 846.600000 2507 86.43780 61 3935 5 chr4A.!!$F1 3874
4 TraesCS7A01G068700 chr4A 690618248 690623967 5719 True 794.000000 1519 86.53800 405 3935 5 chr4A.!!$R1 3530
5 TraesCS7A01G068700 chr7D 34371590 34376905 5315 False 927.750000 1670 90.50625 931 3993 4 chr7D.!!$F2 3062
6 TraesCS7A01G068700 chr7D 34469802 34473456 3654 False 871.000000 1895 87.94460 67 3816 5 chr7D.!!$F3 3749
7 TraesCS7A01G068700 chr7D 34753026 34759194 6168 True 809.200000 1565 89.24600 621 3935 5 chr7D.!!$R1 3314
8 TraesCS7A01G068700 chr2B 704812308 704813129 821 False 466.000000 641 87.06200 1133 2559 2 chr2B.!!$F1 1426

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
324 350 0.042131 TTGTACTCCCTCCGTCCCAT 59.958 55.0 0.0 0.0 0.00 4.00 F
1385 1667 0.736636 CCGAGTACGACTATGGTGCA 59.263 55.0 0.0 0.0 42.66 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1756 2054 0.112801 ATAGCTACTCCCTCCGTCCC 59.887 60.0 0.00 0.0 0.00 4.46 R
3102 8866 1.468985 TCCACAGAGCTGAGACTAGC 58.531 55.0 4.21 0.0 44.01 3.42 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
18 19 3.800826 GGATTGTGGACCGGCTAAT 57.199 52.632 0.00 0.00 0.00 1.73
19 20 2.922740 GGATTGTGGACCGGCTAATA 57.077 50.000 0.00 0.00 0.00 0.98
20 21 3.418684 GGATTGTGGACCGGCTAATAT 57.581 47.619 0.00 0.00 0.00 1.28
21 22 3.751518 GGATTGTGGACCGGCTAATATT 58.248 45.455 0.00 0.00 0.00 1.28
22 23 4.901868 GGATTGTGGACCGGCTAATATTA 58.098 43.478 0.00 0.00 0.00 0.98
23 24 5.497474 GGATTGTGGACCGGCTAATATTAT 58.503 41.667 0.00 0.00 0.00 1.28
24 25 5.585047 GGATTGTGGACCGGCTAATATTATC 59.415 44.000 0.00 0.00 0.00 1.75
25 26 5.818678 TTGTGGACCGGCTAATATTATCT 57.181 39.130 0.00 0.00 0.00 1.98
26 27 5.818678 TGTGGACCGGCTAATATTATCTT 57.181 39.130 0.00 0.00 0.00 2.40
27 28 5.547465 TGTGGACCGGCTAATATTATCTTG 58.453 41.667 0.00 0.00 0.00 3.02
28 29 5.305902 TGTGGACCGGCTAATATTATCTTGA 59.694 40.000 0.00 0.00 0.00 3.02
29 30 6.183361 TGTGGACCGGCTAATATTATCTTGAA 60.183 38.462 0.00 0.00 0.00 2.69
30 31 6.147328 GTGGACCGGCTAATATTATCTTGAAC 59.853 42.308 0.00 0.00 0.00 3.18
31 32 5.642491 GGACCGGCTAATATTATCTTGAACC 59.358 44.000 0.00 0.00 0.00 3.62
32 33 6.182507 ACCGGCTAATATTATCTTGAACCA 57.817 37.500 0.00 0.00 0.00 3.67
33 34 6.597562 ACCGGCTAATATTATCTTGAACCAA 58.402 36.000 0.00 0.00 0.00 3.67
34 35 7.231467 ACCGGCTAATATTATCTTGAACCAAT 58.769 34.615 0.00 0.00 0.00 3.16
35 36 8.380099 ACCGGCTAATATTATCTTGAACCAATA 58.620 33.333 0.00 0.00 0.00 1.90
36 37 9.226606 CCGGCTAATATTATCTTGAACCAATAA 57.773 33.333 0.00 0.00 0.00 1.40
45 46 8.792830 TTATCTTGAACCAATAAAGTGGAGAG 57.207 34.615 3.02 0.00 41.65 3.20
46 47 6.433847 TCTTGAACCAATAAAGTGGAGAGA 57.566 37.500 3.02 0.00 41.65 3.10
47 48 7.020827 TCTTGAACCAATAAAGTGGAGAGAT 57.979 36.000 3.02 0.00 41.65 2.75
48 49 7.461749 TCTTGAACCAATAAAGTGGAGAGATT 58.538 34.615 3.02 0.00 41.65 2.40
49 50 7.944554 TCTTGAACCAATAAAGTGGAGAGATTT 59.055 33.333 3.02 0.00 41.65 2.17
50 51 7.687941 TGAACCAATAAAGTGGAGAGATTTC 57.312 36.000 3.02 0.00 41.65 2.17
51 52 7.461749 TGAACCAATAAAGTGGAGAGATTTCT 58.538 34.615 3.02 0.00 41.65 2.52
52 53 8.602424 TGAACCAATAAAGTGGAGAGATTTCTA 58.398 33.333 3.02 0.00 41.65 2.10
53 54 8.794335 AACCAATAAAGTGGAGAGATTTCTAC 57.206 34.615 3.02 0.00 41.65 2.59
54 55 7.918076 ACCAATAAAGTGGAGAGATTTCTACA 58.082 34.615 3.02 0.00 42.12 2.74
55 56 8.383175 ACCAATAAAGTGGAGAGATTTCTACAA 58.617 33.333 0.00 0.00 45.81 2.41
56 57 9.231297 CCAATAAAGTGGAGAGATTTCTACAAA 57.769 33.333 0.00 0.00 45.81 2.83
100 101 4.230657 TGTTTGTTCCACACGTTTTCTTG 58.769 39.130 0.00 0.00 0.00 3.02
109 110 6.721321 TCCACACGTTTTCTTGTCTTTATTC 58.279 36.000 0.00 0.00 29.73 1.75
112 113 8.504005 CCACACGTTTTCTTGTCTTTATTCTAT 58.496 33.333 0.00 0.00 29.73 1.98
132 133 9.899226 ATTCTATTTTTAGCTGTTCAACTTGTC 57.101 29.630 0.00 0.00 0.00 3.18
135 136 9.736023 CTATTTTTAGCTGTTCAACTTGTCTTT 57.264 29.630 0.00 0.00 0.00 2.52
167 169 5.348418 TGTTCTTTCTTCATTTCTCTGCG 57.652 39.130 0.00 0.00 0.00 5.18
320 346 2.825861 TGTTTTGTACTCCCTCCGTC 57.174 50.000 0.00 0.00 0.00 4.79
323 349 0.178926 TTTGTACTCCCTCCGTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
324 350 0.042131 TTGTACTCCCTCCGTCCCAT 59.958 55.000 0.00 0.00 0.00 4.00
327 353 2.090943 TGTACTCCCTCCGTCCCATAAT 60.091 50.000 0.00 0.00 0.00 1.28
330 356 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
331 357 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
333 359 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
338 364 6.409524 TCCGTCCCATAATATAAGACGTTT 57.590 37.500 17.31 0.00 46.62 3.60
340 366 7.274447 TCCGTCCCATAATATAAGACGTTTTT 58.726 34.615 17.31 0.00 46.62 1.94
394 498 3.173965 CATTATGGGACGGAGGGAGTAT 58.826 50.000 0.00 0.00 0.00 2.12
395 499 4.202749 ACATTATGGGACGGAGGGAGTATA 60.203 45.833 0.00 0.00 0.00 1.47
396 500 4.687262 TTATGGGACGGAGGGAGTATAT 57.313 45.455 0.00 0.00 0.00 0.86
397 501 2.304221 TGGGACGGAGGGAGTATATG 57.696 55.000 0.00 0.00 0.00 1.78
398 502 1.502039 TGGGACGGAGGGAGTATATGT 59.498 52.381 0.00 0.00 0.00 2.29
399 503 2.169330 GGGACGGAGGGAGTATATGTC 58.831 57.143 0.00 0.00 0.00 3.06
401 505 3.009916 GGGACGGAGGGAGTATATGTCTA 59.990 52.174 0.00 0.00 0.00 2.59
402 506 4.263435 GGACGGAGGGAGTATATGTCTAG 58.737 52.174 0.00 0.00 0.00 2.43
403 507 4.263418 GGACGGAGGGAGTATATGTCTAGT 60.263 50.000 0.00 0.00 0.00 2.57
404 508 5.046014 GGACGGAGGGAGTATATGTCTAGTA 60.046 48.000 0.00 0.00 0.00 1.82
405 509 6.352910 GGACGGAGGGAGTATATGTCTAGTAT 60.353 46.154 0.00 0.00 0.00 2.12
406 510 7.147585 GGACGGAGGGAGTATATGTCTAGTATA 60.148 44.444 0.00 0.00 0.00 1.47
407 511 8.334522 ACGGAGGGAGTATATGTCTAGTATAT 57.665 38.462 0.00 0.00 0.00 0.86
408 512 8.780003 ACGGAGGGAGTATATGTCTAGTATATT 58.220 37.037 7.30 0.00 0.00 1.28
409 513 9.058174 CGGAGGGAGTATATGTCTAGTATATTG 57.942 40.741 7.30 0.00 0.00 1.90
775 920 8.522178 AAACAAAATTAGAAAAACACGTGACA 57.478 26.923 25.01 0.00 0.00 3.58
790 935 2.682893 GACATCTGGATGGCGTCAC 58.317 57.895 9.27 0.00 42.91 3.67
817 962 3.069158 GCGATACTATGTGGTAACTGGGT 59.931 47.826 0.00 0.00 37.61 4.51
823 968 3.324108 TGGTAACTGGGTCGGGCC 61.324 66.667 0.00 0.00 37.61 5.80
844 1038 4.502962 CCACGACGGTTTAAGGGTAAATA 58.497 43.478 0.00 0.00 31.94 1.40
845 1039 5.118286 CCACGACGGTTTAAGGGTAAATAT 58.882 41.667 0.00 0.00 31.94 1.28
878 1072 1.482182 CCATTGAAGGGGCCTTTTAGC 59.518 52.381 1.09 0.00 36.26 3.09
880 1074 1.627864 TTGAAGGGGCCTTTTAGCAC 58.372 50.000 1.09 0.00 36.26 4.40
1385 1667 0.736636 CCGAGTACGACTATGGTGCA 59.263 55.000 0.00 0.00 42.66 4.57
1539 1822 4.840271 TGTATCTTCTCTGTCTACACGGA 58.160 43.478 0.00 0.00 36.42 4.69
1543 1826 4.590918 TCTTCTCTGTCTACACGGATCTT 58.409 43.478 0.00 0.00 37.29 2.40
1551 1834 5.361427 TGTCTACACGGATCTTTTTGTTCA 58.639 37.500 0.00 0.00 0.00 3.18
1560 1843 9.146984 CACGGATCTTTTTGTTCATACTTACTA 57.853 33.333 0.00 0.00 0.00 1.82
1629 1912 5.650266 AGTCGTGGTGGATAAATTGCATTTA 59.350 36.000 0.00 0.00 38.90 1.40
1672 1970 7.602517 AAGTTGATCTAATGACTTACTGTGC 57.397 36.000 0.00 0.00 31.05 4.57
1682 1980 9.197694 CTAATGACTTACTGTGCTGGATAATAC 57.802 37.037 0.00 0.00 0.00 1.89
1695 1993 9.857957 GTGCTGGATAATACTAAATACTACTCC 57.142 37.037 0.00 0.00 0.00 3.85
1696 1994 8.737175 TGCTGGATAATACTAAATACTACTCCG 58.263 37.037 0.00 0.00 0.00 4.63
1697 1995 8.738106 GCTGGATAATACTAAATACTACTCCGT 58.262 37.037 0.00 0.00 0.00 4.69
1699 1997 9.236006 TGGATAATACTAAATACTACTCCGTCC 57.764 37.037 0.00 0.00 0.00 4.79
1700 1998 8.681806 GGATAATACTAAATACTACTCCGTCCC 58.318 40.741 0.00 0.00 0.00 4.46
1701 1999 9.236006 GATAATACTAAATACTACTCCGTCCCA 57.764 37.037 0.00 0.00 0.00 4.37
1702 2000 6.890979 ATACTAAATACTACTCCGTCCCAC 57.109 41.667 0.00 0.00 0.00 4.61
1703 2001 4.603131 ACTAAATACTACTCCGTCCCACA 58.397 43.478 0.00 0.00 0.00 4.17
1704 2002 5.018809 ACTAAATACTACTCCGTCCCACAA 58.981 41.667 0.00 0.00 0.00 3.33
1705 2003 5.659971 ACTAAATACTACTCCGTCCCACAAT 59.340 40.000 0.00 0.00 0.00 2.71
1706 2004 4.402056 AATACTACTCCGTCCCACAATG 57.598 45.455 0.00 0.00 0.00 2.82
1707 2005 1.640917 ACTACTCCGTCCCACAATGT 58.359 50.000 0.00 0.00 0.00 2.71
1708 2006 2.811410 ACTACTCCGTCCCACAATGTA 58.189 47.619 0.00 0.00 0.00 2.29
1709 2007 3.167485 ACTACTCCGTCCCACAATGTAA 58.833 45.455 0.00 0.00 0.00 2.41
1710 2008 2.762535 ACTCCGTCCCACAATGTAAG 57.237 50.000 0.00 0.00 0.00 2.34
1711 2009 2.253610 ACTCCGTCCCACAATGTAAGA 58.746 47.619 0.00 0.00 0.00 2.10
1712 2010 2.028385 ACTCCGTCCCACAATGTAAGAC 60.028 50.000 5.24 5.24 0.00 3.01
1714 2012 1.337447 CCGTCCCACAATGTAAGACGT 60.337 52.381 25.28 0.00 46.62 4.34
1715 2013 2.409975 CGTCCCACAATGTAAGACGTT 58.590 47.619 21.67 0.00 43.89 3.99
1716 2014 2.803956 CGTCCCACAATGTAAGACGTTT 59.196 45.455 21.67 0.00 43.89 3.60
1717 2015 3.249080 CGTCCCACAATGTAAGACGTTTT 59.751 43.478 21.67 0.00 43.89 2.43
1718 2016 4.260866 CGTCCCACAATGTAAGACGTTTTT 60.261 41.667 21.67 0.00 43.89 1.94
1719 2017 4.973663 GTCCCACAATGTAAGACGTTTTTG 59.026 41.667 0.00 0.00 0.00 2.44
1720 2018 4.882427 TCCCACAATGTAAGACGTTTTTGA 59.118 37.500 0.00 0.00 0.00 2.69
1721 2019 5.357314 TCCCACAATGTAAGACGTTTTTGAA 59.643 36.000 0.00 0.00 0.00 2.69
1722 2020 6.037098 CCCACAATGTAAGACGTTTTTGAAA 58.963 36.000 0.00 0.00 0.00 2.69
1723 2021 6.198216 CCCACAATGTAAGACGTTTTTGAAAG 59.802 38.462 0.00 0.00 0.00 2.62
1724 2022 6.291585 CCACAATGTAAGACGTTTTTGAAAGC 60.292 38.462 0.00 0.00 0.00 3.51
1725 2023 6.472163 CACAATGTAAGACGTTTTTGAAAGCT 59.528 34.615 0.00 0.00 0.00 3.74
1726 2024 7.642194 CACAATGTAAGACGTTTTTGAAAGCTA 59.358 33.333 0.00 0.00 0.00 3.32
1727 2025 8.185505 ACAATGTAAGACGTTTTTGAAAGCTAA 58.814 29.630 0.00 0.00 0.00 3.09
1728 2026 8.469125 CAATGTAAGACGTTTTTGAAAGCTAAC 58.531 33.333 0.00 0.00 0.00 2.34
1729 2027 7.074507 TGTAAGACGTTTTTGAAAGCTAACA 57.925 32.000 0.00 0.00 0.00 2.41
1730 2028 7.699566 TGTAAGACGTTTTTGAAAGCTAACAT 58.300 30.769 0.00 0.00 0.00 2.71
1731 2029 8.828644 TGTAAGACGTTTTTGAAAGCTAACATA 58.171 29.630 0.00 0.00 0.00 2.29
1732 2030 9.314501 GTAAGACGTTTTTGAAAGCTAACATAG 57.685 33.333 0.00 0.00 0.00 2.23
1733 2031 7.492352 AGACGTTTTTGAAAGCTAACATAGT 57.508 32.000 0.00 0.00 0.00 2.12
1734 2032 7.927048 AGACGTTTTTGAAAGCTAACATAGTT 58.073 30.769 0.00 0.00 0.00 2.24
1735 2033 8.403236 AGACGTTTTTGAAAGCTAACATAGTTT 58.597 29.630 0.00 0.00 0.00 2.66
1736 2034 9.654417 GACGTTTTTGAAAGCTAACATAGTTTA 57.346 29.630 0.00 0.00 0.00 2.01
1737 2035 9.442033 ACGTTTTTGAAAGCTAACATAGTTTAC 57.558 29.630 0.00 0.00 0.00 2.01
1738 2036 9.440784 CGTTTTTGAAAGCTAACATAGTTTACA 57.559 29.630 0.00 0.00 0.00 2.41
1758 2056 9.120422 GTTTACAAAAACGTCTTACATTATGGG 57.880 33.333 0.00 0.00 35.96 4.00
1759 2057 8.618702 TTACAAAAACGTCTTACATTATGGGA 57.381 30.769 0.00 0.00 0.00 4.37
1760 2058 6.905578 ACAAAAACGTCTTACATTATGGGAC 58.094 36.000 0.00 1.75 0.00 4.46
1763 2061 3.720949 CGTCTTACATTATGGGACGGA 57.279 47.619 20.50 2.30 43.69 4.69
1764 2062 3.639538 CGTCTTACATTATGGGACGGAG 58.360 50.000 20.50 2.74 43.69 4.63
1765 2063 3.552273 CGTCTTACATTATGGGACGGAGG 60.552 52.174 20.50 5.87 43.69 4.30
1766 2064 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
1767 2065 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
1768 2066 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
1780 2078 2.694109 ACGGAGGGAGTAGCTATTTGTC 59.306 50.000 0.00 0.00 0.00 3.18
1784 2082 4.838986 GGAGGGAGTAGCTATTTGTCCATA 59.161 45.833 13.40 0.00 0.00 2.74
1785 2083 5.279556 GGAGGGAGTAGCTATTTGTCCATAC 60.280 48.000 13.40 6.26 0.00 2.39
1871 2421 4.023450 TCAAGCTTCATGTTCAGCTCAAAG 60.023 41.667 14.48 7.82 46.01 2.77
1956 2530 2.234300 TCTCGTGGGACTTTTGTGTC 57.766 50.000 0.00 0.00 36.31 3.67
2012 2595 4.374707 CGTTAGCTTGTCACGTTCAGTTAC 60.375 45.833 0.00 0.00 0.00 2.50
2062 2645 2.352651 CCCACAATGCACGATTCAGTAG 59.647 50.000 0.00 0.00 0.00 2.57
2063 2646 2.352651 CCACAATGCACGATTCAGTAGG 59.647 50.000 0.00 0.00 0.00 3.18
2064 2647 3.002791 CACAATGCACGATTCAGTAGGT 58.997 45.455 0.00 0.00 0.00 3.08
2152 7791 3.440173 AGCCAATCGTTTTATCCTGTGTG 59.560 43.478 0.00 0.00 0.00 3.82
2269 7908 3.181471 CCAGAATTCCTGATACTGTCGCT 60.181 47.826 0.65 0.00 45.78 4.93
2378 8018 5.282055 CAGTATTCCCTGCTATGAGTTCA 57.718 43.478 0.00 0.00 0.00 3.18
2415 8055 7.391833 ACCTCAAAACTAATGATTCACCTCTTC 59.608 37.037 0.00 0.00 0.00 2.87
2487 8127 1.948145 GGCTCCAGCATTCAGATTCAG 59.052 52.381 0.03 0.00 44.36 3.02
2651 8291 7.946655 TGAATTCTCCTACTATGCAAATACG 57.053 36.000 7.05 0.00 0.00 3.06
2977 8620 6.567687 TTTATCGAATTCTTTGTGAAGCCA 57.432 33.333 3.52 0.00 38.18 4.75
2999 8642 4.100808 CAGAGGAGGAGGATTAAAGGACAG 59.899 50.000 0.00 0.00 0.00 3.51
3001 8644 4.034410 AGGAGGAGGATTAAAGGACAGAC 58.966 47.826 0.00 0.00 0.00 3.51
3102 8866 9.438291 CTGTCTAATGACTTTTGTTGTAAACTG 57.562 33.333 0.00 0.00 44.68 3.16
3191 8955 2.386661 TGCCATCGTTCTTCTTCCTC 57.613 50.000 0.00 0.00 0.00 3.71
3192 8956 1.623311 TGCCATCGTTCTTCTTCCTCA 59.377 47.619 0.00 0.00 0.00 3.86
3196 8961 4.613850 GCCATCGTTCTTCTTCCTCAAAAC 60.614 45.833 0.00 0.00 0.00 2.43
3208 8973 5.363580 TCTTCCTCAAAACCAGCTTCATTTT 59.636 36.000 0.00 0.00 0.00 1.82
3306 9074 7.231467 AGGTGGAGTACAAAAACTATTGACAT 58.769 34.615 0.00 0.00 34.38 3.06
3372 9140 7.673641 ATTTATCCATGGCTGGTTTAATGAA 57.326 32.000 6.96 0.00 43.61 2.57
3425 9266 8.821686 TTTGATTTATCAATGGACTATGTGGT 57.178 30.769 6.03 0.00 45.30 4.16
3474 9324 3.364964 GGAGCAAATGGTCTTGTTACACG 60.365 47.826 11.90 0.00 41.88 4.49
3476 9326 2.292292 GCAAATGGTCTTGTTACACGGT 59.708 45.455 0.00 0.00 0.00 4.83
3506 9356 7.195646 ACATCGTATGTTGCCTGAAAATAATG 58.804 34.615 0.00 0.00 41.63 1.90
3724 9589 8.557029 GTTTATTCTGTACCCTGTACATAATGC 58.443 37.037 19.74 11.13 30.41 3.56
3725 9590 5.685520 TTCTGTACCCTGTACATAATGCA 57.314 39.130 7.47 0.00 0.00 3.96
3778 9643 2.552315 CCAACTGCTTACCACGACAAAT 59.448 45.455 0.00 0.00 0.00 2.32
3863 9832 8.457238 AAGAGAAGTTCTTTTTATCTGCAACT 57.543 30.769 6.88 0.00 43.68 3.16
3882 9851 2.439507 ACTGTGAGGGCAGAAGAGAAAA 59.560 45.455 0.00 0.00 39.62 2.29
3910 9879 9.219603 CATCTTCCATTAATATATCACCAACGT 57.780 33.333 0.00 0.00 0.00 3.99
3935 9904 9.595357 GTATCTTCAACAAGTAAAAAGTACAGC 57.405 33.333 0.00 0.00 0.00 4.40
3936 9905 7.618502 TCTTCAACAAGTAAAAAGTACAGCA 57.381 32.000 0.00 0.00 0.00 4.41
3937 9906 7.469260 TCTTCAACAAGTAAAAAGTACAGCAC 58.531 34.615 0.00 0.00 0.00 4.40
3938 9907 6.745159 TCAACAAGTAAAAAGTACAGCACA 57.255 33.333 0.00 0.00 0.00 4.57
3939 9908 6.781138 TCAACAAGTAAAAAGTACAGCACAG 58.219 36.000 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.922740 TATTAGCCGGTCCACAATCC 57.077 50.000 1.90 0.00 0.00 3.01
1 2 6.407202 AGATAATATTAGCCGGTCCACAATC 58.593 40.000 1.90 0.00 0.00 2.67
2 3 6.374417 AGATAATATTAGCCGGTCCACAAT 57.626 37.500 1.90 0.00 0.00 2.71
3 4 5.818678 AGATAATATTAGCCGGTCCACAA 57.181 39.130 1.90 0.00 0.00 3.33
4 5 5.305902 TCAAGATAATATTAGCCGGTCCACA 59.694 40.000 1.90 0.00 0.00 4.17
5 6 5.790593 TCAAGATAATATTAGCCGGTCCAC 58.209 41.667 1.90 0.00 0.00 4.02
6 7 6.228258 GTTCAAGATAATATTAGCCGGTCCA 58.772 40.000 1.90 0.00 0.00 4.02
7 8 5.642491 GGTTCAAGATAATATTAGCCGGTCC 59.358 44.000 1.90 1.54 0.00 4.46
8 9 6.228258 TGGTTCAAGATAATATTAGCCGGTC 58.772 40.000 1.90 0.00 0.00 4.79
9 10 6.182507 TGGTTCAAGATAATATTAGCCGGT 57.817 37.500 1.90 0.00 0.00 5.28
10 11 7.687941 ATTGGTTCAAGATAATATTAGCCGG 57.312 36.000 7.11 0.00 0.00 6.13
19 20 9.401058 CTCTCCACTTTATTGGTTCAAGATAAT 57.599 33.333 0.00 0.00 37.93 1.28
20 21 8.602424 TCTCTCCACTTTATTGGTTCAAGATAA 58.398 33.333 0.00 0.00 37.93 1.75
21 22 8.146053 TCTCTCCACTTTATTGGTTCAAGATA 57.854 34.615 0.00 0.00 37.93 1.98
22 23 7.020827 TCTCTCCACTTTATTGGTTCAAGAT 57.979 36.000 0.00 0.00 37.93 2.40
23 24 6.433847 TCTCTCCACTTTATTGGTTCAAGA 57.566 37.500 0.00 0.00 37.93 3.02
24 25 7.693969 AATCTCTCCACTTTATTGGTTCAAG 57.306 36.000 0.00 0.00 37.93 3.02
25 26 7.944554 AGAAATCTCTCCACTTTATTGGTTCAA 59.055 33.333 0.00 0.00 37.93 2.69
26 27 7.461749 AGAAATCTCTCCACTTTATTGGTTCA 58.538 34.615 0.00 0.00 37.93 3.18
27 28 7.929941 AGAAATCTCTCCACTTTATTGGTTC 57.070 36.000 0.00 0.00 37.93 3.62
28 29 8.383175 TGTAGAAATCTCTCCACTTTATTGGTT 58.617 33.333 0.00 0.00 37.93 3.67
29 30 7.918076 TGTAGAAATCTCTCCACTTTATTGGT 58.082 34.615 0.00 0.00 37.93 3.67
30 31 8.792830 TTGTAGAAATCTCTCCACTTTATTGG 57.207 34.615 0.00 0.00 38.10 3.16
58 59 3.448660 ACAAAGCAGAAAAAGACAGGCTT 59.551 39.130 0.00 0.00 42.82 4.35
59 60 3.026694 ACAAAGCAGAAAAAGACAGGCT 58.973 40.909 0.00 0.00 0.00 4.58
62 63 6.183360 GGAACAAACAAAGCAGAAAAAGACAG 60.183 38.462 0.00 0.00 0.00 3.51
109 110 9.736023 AAAGACAAGTTGAACAGCTAAAAATAG 57.264 29.630 10.54 0.00 0.00 1.73
112 113 6.811170 CCAAAGACAAGTTGAACAGCTAAAAA 59.189 34.615 10.54 0.00 0.00 1.94
118 119 3.782889 ACCAAAGACAAGTTGAACAGC 57.217 42.857 10.54 0.00 0.00 4.40
119 120 6.389906 AGAAAACCAAAGACAAGTTGAACAG 58.610 36.000 10.54 0.00 0.00 3.16
127 128 7.889589 AAGAACAAAGAAAACCAAAGACAAG 57.110 32.000 0.00 0.00 0.00 3.16
130 131 8.534333 AAGAAAGAACAAAGAAAACCAAAGAC 57.466 30.769 0.00 0.00 0.00 3.01
132 133 8.532977 TGAAGAAAGAACAAAGAAAACCAAAG 57.467 30.769 0.00 0.00 0.00 2.77
135 136 9.150348 GAAATGAAGAAAGAACAAAGAAAACCA 57.850 29.630 0.00 0.00 0.00 3.67
167 169 7.304735 TGTGTATAAAAATGCAGACATGTGTC 58.695 34.615 1.15 5.01 45.08 3.67
206 209 8.028938 GTGCAACAAAATGTTCCTCTTGTATAT 58.971 33.333 0.00 0.00 38.77 0.86
214 217 4.305989 TGAGTGCAACAAAATGTTCCTC 57.694 40.909 0.00 1.13 38.77 3.71
278 289 9.656040 AACAATGTACAATATGCATGAAAACAT 57.344 25.926 10.16 9.67 33.32 2.71
279 290 9.486497 AAACAATGTACAATATGCATGAAAACA 57.514 25.926 10.16 7.73 33.32 2.83
307 324 2.077687 TTATGGGACGGAGGGAGTAC 57.922 55.000 0.00 0.00 0.00 2.73
361 387 6.887545 TCCGTCCCATAATGTAAGATGTTTTT 59.112 34.615 0.00 0.00 0.00 1.94
363 389 5.996644 TCCGTCCCATAATGTAAGATGTTT 58.003 37.500 0.00 0.00 0.00 2.83
365 391 4.040461 CCTCCGTCCCATAATGTAAGATGT 59.960 45.833 0.00 0.00 0.00 3.06
366 392 4.563580 CCCTCCGTCCCATAATGTAAGATG 60.564 50.000 0.00 0.00 0.00 2.90
367 393 3.583086 CCCTCCGTCCCATAATGTAAGAT 59.417 47.826 0.00 0.00 0.00 2.40
368 394 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
369 395 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
370 396 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
373 399 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
377 481 2.111972 ACATATACTCCCTCCGTCCCAT 59.888 50.000 0.00 0.00 0.00 4.00
378 482 1.502039 ACATATACTCCCTCCGTCCCA 59.498 52.381 0.00 0.00 0.00 4.37
381 485 4.909001 ACTAGACATATACTCCCTCCGTC 58.091 47.826 0.00 0.00 0.00 4.79
436 545 5.753438 TGCATAGTCCAAAATCGTCTCATAC 59.247 40.000 0.00 0.00 0.00 2.39
437 546 5.912892 TGCATAGTCCAAAATCGTCTCATA 58.087 37.500 0.00 0.00 0.00 2.15
438 547 4.769688 TGCATAGTCCAAAATCGTCTCAT 58.230 39.130 0.00 0.00 0.00 2.90
439 548 4.200838 TGCATAGTCCAAAATCGTCTCA 57.799 40.909 0.00 0.00 0.00 3.27
440 549 5.106712 TGTTTGCATAGTCCAAAATCGTCTC 60.107 40.000 0.00 0.00 34.33 3.36
441 550 4.759693 TGTTTGCATAGTCCAAAATCGTCT 59.240 37.500 0.00 0.00 34.33 4.18
442 551 5.041951 TGTTTGCATAGTCCAAAATCGTC 57.958 39.130 0.00 0.00 34.33 4.20
444 553 5.401550 ACATGTTTGCATAGTCCAAAATCG 58.598 37.500 0.00 0.00 34.33 3.34
578 710 7.038154 TGTAAGTGACATTTTCTGAAAAGGG 57.962 36.000 25.45 18.95 36.54 3.95
639 771 7.168972 GCAAATGCAGTGTACAAAAGTATTTGA 59.831 33.333 29.41 2.44 43.51 2.69
752 893 8.188139 AGATGTCACGTGTTTTTCTAATTTTGT 58.812 29.630 16.51 0.00 0.00 2.83
753 894 8.471457 CAGATGTCACGTGTTTTTCTAATTTTG 58.529 33.333 16.51 0.00 0.00 2.44
758 899 5.361427 TCCAGATGTCACGTGTTTTTCTAA 58.639 37.500 16.51 3.77 0.00 2.10
773 918 1.221840 GGTGACGCCATCCAGATGT 59.778 57.895 0.00 0.00 37.11 3.06
775 920 0.107508 CAAGGTGACGCCATCCAGAT 60.108 55.000 7.99 0.00 40.61 2.90
790 935 2.910688 ACCACATAGTATCGCCAAGG 57.089 50.000 0.00 0.00 0.00 3.61
804 949 2.886134 GCCCGACCCAGTTACCACA 61.886 63.158 0.00 0.00 0.00 4.17
817 962 2.768503 CTTAAACCGTCGTGGCCCGA 62.769 60.000 11.66 11.66 45.00 5.14
823 968 6.667007 AATATTTACCCTTAAACCGTCGTG 57.333 37.500 0.00 0.00 29.77 4.35
827 972 9.871175 ATCCATAAATATTTACCCTTAAACCGT 57.129 29.630 10.07 0.00 29.77 4.83
844 1038 5.336102 CCTTCAATGGGCCTATCCATAAAT 58.664 41.667 0.34 0.00 46.05 1.40
845 1039 4.449081 CCCTTCAATGGGCCTATCCATAAA 60.449 45.833 0.34 0.00 46.05 1.40
878 1072 2.672996 CGGTTCAGGCCTTGGGTG 60.673 66.667 0.00 0.00 0.00 4.61
880 1074 2.876368 CTAGCGGTTCAGGCCTTGGG 62.876 65.000 0.00 0.00 0.00 4.12
1160 1420 1.815840 GGCAAGGCGGCTCTTAGAC 60.816 63.158 13.70 0.73 37.17 2.59
1385 1667 2.203596 AACCGTGGACGACCCTCT 60.204 61.111 0.34 0.00 43.02 3.69
1565 1848 8.383619 GTGAGTTACATGATCAATTGACAGTAC 58.616 37.037 11.07 3.39 0.00 2.73
1659 1942 7.366847 AGTATTATCCAGCACAGTAAGTCAT 57.633 36.000 0.00 0.00 0.00 3.06
1692 1990 2.618053 GTCTTACATTGTGGGACGGAG 58.382 52.381 0.00 0.00 0.00 4.63
1694 1992 1.355971 CGTCTTACATTGTGGGACGG 58.644 55.000 24.96 14.26 43.69 4.79
1696 1994 4.823790 AAAACGTCTTACATTGTGGGAC 57.176 40.909 0.00 6.72 0.00 4.46
1697 1995 4.882427 TCAAAAACGTCTTACATTGTGGGA 59.118 37.500 0.00 0.00 0.00 4.37
1698 1996 5.176407 TCAAAAACGTCTTACATTGTGGG 57.824 39.130 0.00 0.00 0.00 4.61
1699 1997 6.291585 GCTTTCAAAAACGTCTTACATTGTGG 60.292 38.462 0.00 0.00 0.00 4.17
1700 1998 6.472163 AGCTTTCAAAAACGTCTTACATTGTG 59.528 34.615 0.00 0.00 0.00 3.33
1701 1999 6.560711 AGCTTTCAAAAACGTCTTACATTGT 58.439 32.000 0.00 0.00 0.00 2.71
1702 2000 8.469125 GTTAGCTTTCAAAAACGTCTTACATTG 58.531 33.333 0.00 0.00 0.00 2.82
1703 2001 8.185505 TGTTAGCTTTCAAAAACGTCTTACATT 58.814 29.630 0.00 0.00 0.00 2.71
1704 2002 7.699566 TGTTAGCTTTCAAAAACGTCTTACAT 58.300 30.769 0.00 0.00 0.00 2.29
1705 2003 7.074507 TGTTAGCTTTCAAAAACGTCTTACA 57.925 32.000 0.00 0.00 0.00 2.41
1706 2004 9.314501 CTATGTTAGCTTTCAAAAACGTCTTAC 57.685 33.333 0.00 0.00 0.00 2.34
1707 2005 9.048446 ACTATGTTAGCTTTCAAAAACGTCTTA 57.952 29.630 0.00 0.00 0.00 2.10
1708 2006 7.927048 ACTATGTTAGCTTTCAAAAACGTCTT 58.073 30.769 0.00 0.00 0.00 3.01
1709 2007 7.492352 ACTATGTTAGCTTTCAAAAACGTCT 57.508 32.000 0.00 0.00 0.00 4.18
1710 2008 8.556517 AAACTATGTTAGCTTTCAAAAACGTC 57.443 30.769 0.00 0.00 0.00 4.34
1711 2009 9.442033 GTAAACTATGTTAGCTTTCAAAAACGT 57.558 29.630 0.00 0.00 0.00 3.99
1712 2010 9.440784 TGTAAACTATGTTAGCTTTCAAAAACG 57.559 29.630 0.00 0.00 0.00 3.60
1718 2016 9.440784 CGTTTTTGTAAACTATGTTAGCTTTCA 57.559 29.630 0.00 0.00 41.18 2.69
1719 2017 9.442033 ACGTTTTTGTAAACTATGTTAGCTTTC 57.558 29.630 0.00 0.00 41.18 2.62
1720 2018 9.442033 GACGTTTTTGTAAACTATGTTAGCTTT 57.558 29.630 0.00 0.00 41.18 3.51
1721 2019 8.833493 AGACGTTTTTGTAAACTATGTTAGCTT 58.167 29.630 0.00 0.00 41.18 3.74
1722 2020 8.374327 AGACGTTTTTGTAAACTATGTTAGCT 57.626 30.769 0.00 0.00 41.18 3.32
1723 2021 8.998558 AAGACGTTTTTGTAAACTATGTTAGC 57.001 30.769 0.00 0.00 41.18 3.09
1731 2029 9.887406 CCATAATGTAAGACGTTTTTGTAAACT 57.113 29.630 0.00 0.00 41.18 2.66
1732 2030 9.120422 CCCATAATGTAAGACGTTTTTGTAAAC 57.880 33.333 0.00 0.00 40.19 2.01
1733 2031 9.064706 TCCCATAATGTAAGACGTTTTTGTAAA 57.935 29.630 0.00 0.00 0.00 2.01
1734 2032 8.505625 GTCCCATAATGTAAGACGTTTTTGTAA 58.494 33.333 0.00 0.00 0.00 2.41
1735 2033 7.148606 CGTCCCATAATGTAAGACGTTTTTGTA 60.149 37.037 0.00 0.00 43.89 2.41
1736 2034 6.347888 CGTCCCATAATGTAAGACGTTTTTGT 60.348 38.462 0.00 0.00 43.89 2.83
1737 2035 6.019152 CGTCCCATAATGTAAGACGTTTTTG 58.981 40.000 0.00 0.00 43.89 2.44
1738 2036 5.122711 CCGTCCCATAATGTAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
1739 2037 4.632688 CCGTCCCATAATGTAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
1740 2038 4.081531 TCCGTCCCATAATGTAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
1741 2039 3.448301 TCCGTCCCATAATGTAAGACGTT 59.552 43.478 9.63 0.00 46.62 3.99
1742 2040 3.025978 TCCGTCCCATAATGTAAGACGT 58.974 45.455 9.63 0.00 46.62 4.34
1744 2042 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
1745 2043 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
1746 2044 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
1747 2045 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
1748 2046 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
1749 2047 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
1750 2048 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
1751 2049 2.890814 CTACTCCCTCCGTCCCATAAT 58.109 52.381 0.00 0.00 0.00 1.28
1752 2050 1.756690 GCTACTCCCTCCGTCCCATAA 60.757 57.143 0.00 0.00 0.00 1.90
1753 2051 0.178970 GCTACTCCCTCCGTCCCATA 60.179 60.000 0.00 0.00 0.00 2.74
1754 2052 1.457831 GCTACTCCCTCCGTCCCAT 60.458 63.158 0.00 0.00 0.00 4.00
1755 2053 1.284111 TAGCTACTCCCTCCGTCCCA 61.284 60.000 0.00 0.00 0.00 4.37
1756 2054 0.112801 ATAGCTACTCCCTCCGTCCC 59.887 60.000 0.00 0.00 0.00 4.46
1757 2055 1.998222 AATAGCTACTCCCTCCGTCC 58.002 55.000 0.00 0.00 0.00 4.79
1758 2056 2.694109 ACAAATAGCTACTCCCTCCGTC 59.306 50.000 0.00 0.00 0.00 4.79
1759 2057 2.694109 GACAAATAGCTACTCCCTCCGT 59.306 50.000 0.00 0.00 0.00 4.69
1760 2058 2.036089 GGACAAATAGCTACTCCCTCCG 59.964 54.545 0.00 0.00 0.00 4.63
1761 2059 3.039011 TGGACAAATAGCTACTCCCTCC 58.961 50.000 0.00 0.00 0.00 4.30
1762 2060 4.965200 ATGGACAAATAGCTACTCCCTC 57.035 45.455 0.00 0.00 0.00 4.30
1763 2061 5.468658 AGTATGGACAAATAGCTACTCCCT 58.531 41.667 0.00 0.00 0.00 4.20
1764 2062 5.810080 AGTATGGACAAATAGCTACTCCC 57.190 43.478 0.00 0.00 0.00 4.30
1765 2063 7.484035 CAAAGTATGGACAAATAGCTACTCC 57.516 40.000 0.00 0.00 0.00 3.85
1784 2082 3.519913 GAGGGTAGAGTCAATCCCAAAGT 59.480 47.826 16.08 0.22 42.12 2.66
1785 2083 3.777522 AGAGGGTAGAGTCAATCCCAAAG 59.222 47.826 16.08 0.00 42.12 2.77
1818 2264 6.824305 ATTTGTTGTCCTCATCAAGGTTAG 57.176 37.500 0.00 0.00 46.32 2.34
1832 2331 8.351495 TGAAGCTTGAATGTTTATTTGTTGTC 57.649 30.769 2.10 0.00 0.00 3.18
1833 2332 8.767085 CATGAAGCTTGAATGTTTATTTGTTGT 58.233 29.630 2.10 0.00 0.00 3.32
1934 2498 2.093128 ACACAAAAGTCCCACGAGAACT 60.093 45.455 0.00 0.00 0.00 3.01
1956 2530 6.314648 ACAGCACTGAATGAATGTATACACTG 59.685 38.462 7.96 8.67 30.36 3.66
1990 2573 4.743644 AGTAACTGAACGTGACAAGCTAAC 59.256 41.667 0.00 0.00 28.39 2.34
2012 2595 1.677052 GGCTAGGACTAAGTCACGGAG 59.323 57.143 0.00 0.00 33.68 4.63
2062 2645 2.143925 GCAGTTACAGAACCAGACACC 58.856 52.381 0.00 0.00 36.08 4.16
2063 2646 3.113260 AGCAGTTACAGAACCAGACAC 57.887 47.619 0.00 0.00 36.08 3.67
2064 2647 3.639561 TGTAGCAGTTACAGAACCAGACA 59.360 43.478 0.00 0.00 37.35 3.41
2100 5542 6.882656 TCATTGAAGTTCAGAAGAGGGATAG 58.117 40.000 5.56 0.00 0.00 2.08
2152 7791 9.525409 AAGCATGAGCAAAATGATAAAATCTAC 57.475 29.630 0.00 0.00 45.49 2.59
2415 8055 2.422479 CAGGATGGCAGACTGTCATTTG 59.578 50.000 22.90 19.03 43.66 2.32
2651 8291 5.591877 ACACTGGAATGCAATTAGAAGATCC 59.408 40.000 0.00 0.00 36.07 3.36
2977 8620 4.016105 TCTGTCCTTTAATCCTCCTCCTCT 60.016 45.833 0.00 0.00 0.00 3.69
2999 8642 4.258702 ACAATACATGCTAGGGATCGTC 57.741 45.455 0.00 0.00 0.00 4.20
3001 8644 8.300286 CCTATATACAATACATGCTAGGGATCG 58.700 40.741 0.00 0.00 0.00 3.69
3102 8866 1.468985 TCCACAGAGCTGAGACTAGC 58.531 55.000 4.21 0.00 44.01 3.42
3191 8955 9.862585 GTAACAATTAAAATGAAGCTGGTTTTG 57.137 29.630 11.89 0.00 0.00 2.44
3192 8956 9.051679 GGTAACAATTAAAATGAAGCTGGTTTT 57.948 29.630 8.45 8.45 0.00 2.43
3306 9074 2.673775 TGGGGCTCAAATTCAGTTCA 57.326 45.000 0.00 0.00 0.00 3.18
3446 9296 1.632589 AGACCATTTGCTCCCAAACC 58.367 50.000 0.00 0.00 43.20 3.27
3474 9324 4.506654 CAGGCAACATACGATGTAGTTACC 59.493 45.833 0.00 0.00 44.07 2.85
3476 9326 5.585820 TCAGGCAACATACGATGTAGTTA 57.414 39.130 0.00 0.00 44.07 2.24
3778 9643 5.527951 TCCACACGTTTTGTCTATTTAAGCA 59.472 36.000 0.00 0.00 35.67 3.91
3863 9832 3.214328 GTTTTTCTCTTCTGCCCTCACA 58.786 45.455 0.00 0.00 0.00 3.58
3895 9864 9.607988 TTGTTGAAGATACGTTGGTGATATATT 57.392 29.630 0.00 0.00 0.00 1.28
3898 9867 7.103641 ACTTGTTGAAGATACGTTGGTGATAT 58.896 34.615 0.00 0.00 32.98 1.63
3910 9879 9.332502 TGCTGTACTTTTTACTTGTTGAAGATA 57.667 29.630 0.00 0.00 32.98 1.98
3950 9919 2.151202 ACATAGTTCCAACAAGGTGCG 58.849 47.619 0.00 0.00 39.02 5.34
3954 9923 6.697019 CACAAAGAAACATAGTTCCAACAAGG 59.303 38.462 0.00 0.00 39.47 3.61
3956 9925 6.153680 ACCACAAAGAAACATAGTTCCAACAA 59.846 34.615 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.