Multiple sequence alignment - TraesCS5D01G373100

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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 TraesCS5D01G373100 chr5D 100.000 4295 0 0 1 4295 446568834 446573128 0.000000e+00 7932.0
1 TraesCS5D01G373100 chr5D 92.294 558 39 4 249 804 397030360 397029805 0.000000e+00 789.0
2 TraesCS5D01G373100 chr5D 83.747 443 48 13 3352 3776 446741815 446742251 8.650000e-107 398.0
3 TraesCS5D01G373100 chr5D 85.333 225 31 2 4073 4295 446684017 446684241 9.290000e-57 231.0
4 TraesCS5D01G373100 chr5D 83.740 123 10 5 3688 3806 446755984 446756100 1.630000e-19 108.0
5 TraesCS5D01G373100 chr5B 94.042 1242 63 5 3057 4295 544765301 544766534 0.000000e+00 1873.0
6 TraesCS5D01G373100 chr5B 91.474 1208 66 14 1854 3038 544764026 544765219 0.000000e+00 1626.0
7 TraesCS5D01G373100 chr5B 90.244 902 47 12 929 1790 544763127 544764027 0.000000e+00 1140.0
8 TraesCS5D01G373100 chr5B 83.296 449 48 12 3352 3781 544812165 544812605 5.210000e-104 388.0
9 TraesCS5D01G373100 chr5B 87.838 222 23 1 3085 3302 544811874 544812095 1.530000e-64 257.0
10 TraesCS5D01G373100 chr5B 92.727 165 5 3 1 158 544762584 544762748 9.290000e-57 231.0
11 TraesCS5D01G373100 chr5B 82.403 233 24 7 2842 3058 544811542 544811773 2.040000e-43 187.0
12 TraesCS5D01G373100 chr5B 95.652 46 2 0 4244 4289 544821246 544821291 1.660000e-09 75.0
13 TraesCS5D01G373100 chr5A 94.776 1206 56 6 1856 3059 564532022 564533222 0.000000e+00 1871.0
14 TraesCS5D01G373100 chr5A 89.854 1025 48 18 816 1792 564531008 564532024 0.000000e+00 1266.0
15 TraesCS5D01G373100 chr5A 92.460 809 39 6 3057 3861 564533252 564534042 0.000000e+00 1136.0
16 TraesCS5D01G373100 chr5A 84.234 444 44 11 3352 3776 564588831 564589267 4.000000e-110 409.0
17 TraesCS5D01G373100 chr5A 89.928 278 15 4 3845 4122 564534186 564534450 3.180000e-91 346.0
18 TraesCS5D01G373100 chr5A 83.553 152 23 2 4073 4222 564579913 564580064 1.610000e-29 141.0
19 TraesCS5D01G373100 chr5A 79.532 171 25 6 3640 3806 564594931 564595095 3.510000e-21 113.0
20 TraesCS5D01G373100 chr4D 93.211 545 35 1 262 804 63076830 63077374 0.000000e+00 800.0
21 TraesCS5D01G373100 chr4D 92.896 549 37 2 258 804 501080618 501080070 0.000000e+00 797.0
22 TraesCS5D01G373100 chr4D 92.844 545 37 1 262 804 108101782 108101238 0.000000e+00 789.0
23 TraesCS5D01G373100 chr4D 83.559 517 54 13 3390 3884 14198486 14198993 5.060000e-124 455.0
24 TraesCS5D01G373100 chr1D 93.211 545 35 2 262 804 250740842 250741386 0.000000e+00 800.0
25 TraesCS5D01G373100 chr1D 93.028 545 36 1 262 804 19874692 19875236 0.000000e+00 795.0
26 TraesCS5D01G373100 chr1D 85.265 509 51 11 3390 3884 470414755 470414257 1.780000e-138 503.0
27 TraesCS5D01G373100 chr1D 89.778 225 20 1 3081 3302 470415046 470414822 7.030000e-73 285.0
28 TraesCS5D01G373100 chr1D 93.506 77 2 3 1781 1855 474820753 474820678 1.260000e-20 111.0
29 TraesCS5D01G373100 chr1B 93.028 545 36 1 262 804 305284327 305284871 0.000000e+00 795.0
30 TraesCS5D01G373100 chr1B 84.538 498 53 15 3392 3873 653050388 653049899 5.030000e-129 472.0
31 TraesCS5D01G373100 chr1B 91.038 212 18 1 3085 3296 653055617 653055407 7.030000e-73 285.0
32 TraesCS5D01G373100 chr1B 86.770 257 30 4 1232 1484 653057166 653056910 2.530000e-72 283.0
33 TraesCS5D01G373100 chr1B 87.324 213 23 4 2840 3050 653055929 653055719 1.540000e-59 241.0
34 TraesCS5D01G373100 chrUn 92.857 546 36 2 262 805 115110312 115109768 0.000000e+00 789.0
35 TraesCS5D01G373100 chr2D 91.564 569 43 4 252 816 534494456 534495023 0.000000e+00 780.0
36 TraesCS5D01G373100 chr2D 82.143 588 62 23 2080 2633 78523789 78523211 8.410000e-127 464.0
37 TraesCS5D01G373100 chr2D 98.529 68 0 1 1789 1855 32990577 32990644 7.540000e-23 119.0
38 TraesCS5D01G373100 chr4B 90.571 350 32 1 2265 2613 564854950 564855299 3.030000e-126 462.0
39 TraesCS5D01G373100 chr4B 87.805 82 2 1 1500 1573 564822114 564822195 5.920000e-14 89.8
40 TraesCS5D01G373100 chr2A 80.815 589 62 23 2080 2633 78805529 78804957 8.590000e-112 414.0
41 TraesCS5D01G373100 chr2A 79.854 412 69 7 1162 1570 78806430 78806030 5.430000e-74 289.0
42 TraesCS5D01G373100 chr1A 82.942 469 59 9 3391 3847 564090091 564089632 1.860000e-108 403.0
43 TraesCS5D01G373100 chr1A 81.297 401 43 20 2670 3046 564090940 564090548 3.250000e-76 296.0
44 TraesCS5D01G373100 chr1A 88.571 210 24 0 3085 3294 564090375 564090166 5.510000e-64 255.0
45 TraesCS5D01G373100 chr2B 80.833 360 44 13 1212 1570 121512984 121512649 4.260000e-65 259.0
46 TraesCS5D01G373100 chr6D 94.667 75 1 3 1789 1861 389645659 389645586 3.510000e-21 113.0
47 TraesCS5D01G373100 chr6D 94.444 72 2 2 1789 1859 18118518 18118448 4.540000e-20 110.0
48 TraesCS5D01G373100 chr6D 92.208 77 0 3 1789 1860 29889906 29889981 2.110000e-18 104.0
49 TraesCS5D01G373100 chr3B 95.714 70 2 1 1787 1855 357066731 357066800 1.260000e-20 111.0
50 TraesCS5D01G373100 chr3D 95.714 70 0 2 1789 1855 341026309 341026240 4.540000e-20 110.0
51 TraesCS5D01G373100 chr3D 94.366 71 3 1 1785 1855 129694656 129694725 1.630000e-19 108.0
52 TraesCS5D01G373100 chr7D 93.056 72 4 1 1785 1855 18437276 18437347 2.110000e-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 TraesCS5D01G373100 chr5D 446568834 446573128 4294 False 7932.000000 7932 100.000000 1 4295 1 chr5D.!!$F1 4294
1 TraesCS5D01G373100 chr5D 397029805 397030360 555 True 789.000000 789 92.294000 249 804 1 chr5D.!!$R1 555
2 TraesCS5D01G373100 chr5B 544762584 544766534 3950 False 1217.500000 1873 92.121750 1 4295 4 chr5B.!!$F2 4294
3 TraesCS5D01G373100 chr5B 544811542 544812605 1063 False 277.333333 388 84.512333 2842 3781 3 chr5B.!!$F3 939
4 TraesCS5D01G373100 chr5A 564531008 564534450 3442 False 1154.750000 1871 91.754500 816 4122 4 chr5A.!!$F4 3306
5 TraesCS5D01G373100 chr4D 63076830 63077374 544 False 800.000000 800 93.211000 262 804 1 chr4D.!!$F2 542
6 TraesCS5D01G373100 chr4D 501080070 501080618 548 True 797.000000 797 92.896000 258 804 1 chr4D.!!$R2 546
7 TraesCS5D01G373100 chr4D 108101238 108101782 544 True 789.000000 789 92.844000 262 804 1 chr4D.!!$R1 542
8 TraesCS5D01G373100 chr4D 14198486 14198993 507 False 455.000000 455 83.559000 3390 3884 1 chr4D.!!$F1 494
9 TraesCS5D01G373100 chr1D 250740842 250741386 544 False 800.000000 800 93.211000 262 804 1 chr1D.!!$F2 542
10 TraesCS5D01G373100 chr1D 19874692 19875236 544 False 795.000000 795 93.028000 262 804 1 chr1D.!!$F1 542
11 TraesCS5D01G373100 chr1D 470414257 470415046 789 True 394.000000 503 87.521500 3081 3884 2 chr1D.!!$R2 803
12 TraesCS5D01G373100 chr1B 305284327 305284871 544 False 795.000000 795 93.028000 262 804 1 chr1B.!!$F1 542
13 TraesCS5D01G373100 chr1B 653055407 653057166 1759 True 269.666667 285 88.377333 1232 3296 3 chr1B.!!$R2 2064
14 TraesCS5D01G373100 chrUn 115109768 115110312 544 True 789.000000 789 92.857000 262 805 1 chrUn.!!$R1 543
15 TraesCS5D01G373100 chr2D 534494456 534495023 567 False 780.000000 780 91.564000 252 816 1 chr2D.!!$F2 564
16 TraesCS5D01G373100 chr2D 78523211 78523789 578 True 464.000000 464 82.143000 2080 2633 1 chr2D.!!$R1 553
17 TraesCS5D01G373100 chr2A 78804957 78806430 1473 True 351.500000 414 80.334500 1162 2633 2 chr2A.!!$R1 1471
18 TraesCS5D01G373100 chr1A 564089632 564090940 1308 True 318.000000 403 84.270000 2670 3847 3 chr1A.!!$R1 1177

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
166 174 0.106918 AAGTTGCGTGGGAGTGGAAA 60.107 50.0 0.0 0.0 0.0 3.13 F
1596 1689 0.034896 TGAGCTGGGGTTTTCTCGTC 59.965 55.0 0.0 0.0 0.0 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1844 2063 1.202428 GCTTGCTAGTTACTCCCTCCG 60.202 57.143 0.0 0.0 0.00 4.63 R
3304 4107 2.215196 GCCACCTAGTTCGTCAAACAA 58.785 47.619 0.0 0.0 40.56 2.83 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
26 27 3.009033 TGAAAGTAATGCACTGCCTAGGT 59.991 43.478 11.31 0.00 37.63 3.08
35 36 1.071385 CACTGCCTAGGTGGATCCATC 59.929 57.143 19.62 18.78 38.35 3.51
47 48 1.339438 GGATCCATCATGCTGCCGTAT 60.339 52.381 6.95 0.00 0.00 3.06
154 162 0.667487 TGAGCTTCTCGGAAGTTGCG 60.667 55.000 10.91 10.91 32.35 4.85
158 166 1.291877 CTTCTCGGAAGTTGCGTGGG 61.292 60.000 16.64 8.43 31.47 4.61
159 167 1.750341 TTCTCGGAAGTTGCGTGGGA 61.750 55.000 16.64 10.46 31.47 4.37
160 168 1.738099 CTCGGAAGTTGCGTGGGAG 60.738 63.158 16.64 2.78 31.47 4.30
161 169 2.030562 CGGAAGTTGCGTGGGAGT 59.969 61.111 8.81 0.00 0.00 3.85
162 170 2.317609 CGGAAGTTGCGTGGGAGTG 61.318 63.158 8.81 0.00 0.00 3.51
163 171 1.966451 GGAAGTTGCGTGGGAGTGG 60.966 63.158 0.00 0.00 0.00 4.00
166 174 0.106918 AAGTTGCGTGGGAGTGGAAA 60.107 50.000 0.00 0.00 0.00 3.13
176 184 0.743345 GGAGTGGAAAATCGGACGGG 60.743 60.000 0.00 0.00 0.00 5.28
177 185 0.743345 GAGTGGAAAATCGGACGGGG 60.743 60.000 0.00 0.00 0.00 5.73
178 186 1.747745 GTGGAAAATCGGACGGGGG 60.748 63.158 0.00 0.00 0.00 5.40
179 187 1.919308 TGGAAAATCGGACGGGGGA 60.919 57.895 0.00 0.00 0.00 4.81
180 188 1.153229 GGAAAATCGGACGGGGGAG 60.153 63.158 0.00 0.00 0.00 4.30
181 189 1.153229 GAAAATCGGACGGGGGAGG 60.153 63.158 0.00 0.00 0.00 4.30
182 190 2.604299 GAAAATCGGACGGGGGAGGG 62.604 65.000 0.00 0.00 0.00 4.30
183 191 3.937372 AAATCGGACGGGGGAGGGT 62.937 63.158 0.00 0.00 0.00 4.34
238 246 1.779683 GCGCAGAGTGTACGAAACC 59.220 57.895 0.30 0.00 0.00 3.27
255 263 2.037136 CCAACCGAGCCAGAGCAAG 61.037 63.158 0.00 0.00 43.56 4.01
273 281 1.168714 AGCTCGGCAAATTTGACCTC 58.831 50.000 22.31 9.26 30.46 3.85
274 282 0.171231 GCTCGGCAAATTTGACCTCC 59.829 55.000 22.31 11.84 30.46 4.30
276 284 1.154035 CGGCAAATTTGACCTCCGC 60.154 57.895 22.31 4.13 30.46 5.54
279 287 0.313672 GCAAATTTGACCTCCGCACA 59.686 50.000 22.31 0.00 0.00 4.57
315 323 8.730427 CACAAAATAAACTGTTCGTGAAACTAC 58.270 33.333 0.00 0.00 38.76 2.73
329 337 0.246635 AACTACTTCACGCGGCTGAT 59.753 50.000 12.47 0.00 0.00 2.90
338 347 1.463056 CACGCGGCTGATCTTTTTGTA 59.537 47.619 12.47 0.00 0.00 2.41
369 380 0.533491 ACGAAGGCGCCACTACATTA 59.467 50.000 31.54 0.00 42.48 1.90
459 470 3.423539 AGTCATTGTGCAGAGCCTAAA 57.576 42.857 0.00 0.00 0.00 1.85
461 472 4.144297 AGTCATTGTGCAGAGCCTAAAAA 58.856 39.130 0.00 0.00 0.00 1.94
519 530 1.961277 GCGCTGCACTAGTGGTTGT 60.961 57.895 23.95 0.00 37.39 3.32
524 535 3.428999 CGCTGCACTAGTGGTTGTACTAT 60.429 47.826 23.95 0.00 33.04 2.12
530 541 9.811995 CTGCACTAGTGGTTGTACTATAAAATA 57.188 33.333 23.95 0.00 33.04 1.40
634 645 7.156000 TGACTTAGTAATTTTCGGATCACACA 58.844 34.615 0.00 0.00 0.00 3.72
705 717 2.566570 TAGTGTGGCGCCTTCGTGA 61.567 57.895 29.70 1.94 38.14 4.35
725 737 1.299850 GGGCGTCACACAAAAAGGC 60.300 57.895 0.00 0.00 0.00 4.35
731 743 1.069596 CACACAAAAAGGCCAGCCC 59.930 57.895 5.01 0.00 36.58 5.19
777 789 9.037737 CAGTTCATTCTGTGATTTGATTTTGTT 57.962 29.630 0.00 0.00 36.54 2.83
797 809 9.658799 TTTTGTTCATAGGTCAAATTTGTCAAA 57.341 25.926 17.47 0.00 32.41 2.69
808 820 5.831702 AAATTTGTCAAATTTGCCAGCAA 57.168 30.435 27.61 11.84 46.30 3.91
809 821 5.427036 AATTTGTCAAATTTGCCAGCAAG 57.573 34.783 16.26 0.00 37.84 4.01
810 822 1.868469 TGTCAAATTTGCCAGCAAGC 58.132 45.000 13.54 0.00 37.24 4.01
811 823 1.413445 TGTCAAATTTGCCAGCAAGCT 59.587 42.857 13.54 0.00 37.24 3.74
812 824 2.064014 GTCAAATTTGCCAGCAAGCTC 58.936 47.619 13.54 0.00 37.24 4.09
813 825 1.065358 CAAATTTGCCAGCAAGCTCG 58.935 50.000 5.01 0.00 37.24 5.03
814 826 0.668401 AAATTTGCCAGCAAGCTCGC 60.668 50.000 4.66 4.66 37.24 5.03
839 851 1.524848 TCACTCTCACTGACCGAGAC 58.475 55.000 2.99 0.00 34.59 3.36
845 857 1.466950 CTCACTGACCGAGACTGAGAC 59.533 57.143 0.00 0.00 29.80 3.36
846 858 1.072489 TCACTGACCGAGACTGAGACT 59.928 52.381 0.00 0.00 0.00 3.24
851 863 1.735571 GACCGAGACTGAGACTGAGAC 59.264 57.143 0.00 0.00 0.00 3.36
865 877 2.966516 ACTGAGACCGAGAAAGAAACCT 59.033 45.455 0.00 0.00 0.00 3.50
1486 1544 1.147153 GCATCTTCTTCCTCCCCCG 59.853 63.158 0.00 0.00 0.00 5.73
1596 1689 0.034896 TGAGCTGGGGTTTTCTCGTC 59.965 55.000 0.00 0.00 0.00 4.20
1598 1691 0.321996 AGCTGGGGTTTTCTCGTCTC 59.678 55.000 0.00 0.00 0.00 3.36
1602 1701 0.685660 GGGGTTTTCTCGTCTCCAGT 59.314 55.000 0.00 0.00 0.00 4.00
1606 1705 4.565028 GGGGTTTTCTCGTCTCCAGTTAAT 60.565 45.833 0.00 0.00 0.00 1.40
1609 1708 6.313164 GGGTTTTCTCGTCTCCAGTTAATAAG 59.687 42.308 0.00 0.00 0.00 1.73
1618 1741 7.123697 TCGTCTCCAGTTAATAAGGAATTCAGA 59.876 37.037 7.93 0.00 0.00 3.27
1645 1815 6.899393 TCATCCATATTAGTTGGCCAAATC 57.101 37.500 23.78 10.13 34.06 2.17
1788 2007 2.276732 CAGGGTTCCTGTTGACACAT 57.723 50.000 5.82 0.00 45.82 3.21
1789 2008 3.417069 CAGGGTTCCTGTTGACACATA 57.583 47.619 5.82 0.00 45.82 2.29
1790 2009 3.074412 CAGGGTTCCTGTTGACACATAC 58.926 50.000 5.82 0.00 45.82 2.39
1791 2010 2.979678 AGGGTTCCTGTTGACACATACT 59.020 45.455 0.00 0.00 29.57 2.12
1792 2011 3.008049 AGGGTTCCTGTTGACACATACTC 59.992 47.826 0.00 0.00 29.57 2.59
1793 2012 3.335579 GGTTCCTGTTGACACATACTCC 58.664 50.000 0.00 0.00 30.39 3.85
1794 2013 3.335579 GTTCCTGTTGACACATACTCCC 58.664 50.000 0.00 0.00 30.39 4.30
1795 2014 2.902608 TCCTGTTGACACATACTCCCT 58.097 47.619 0.00 0.00 30.39 4.20
1796 2015 2.832129 TCCTGTTGACACATACTCCCTC 59.168 50.000 0.00 0.00 30.39 4.30
1797 2016 2.093447 CCTGTTGACACATACTCCCTCC 60.093 54.545 0.00 0.00 30.39 4.30
1798 2017 1.548719 TGTTGACACATACTCCCTCCG 59.451 52.381 0.00 0.00 0.00 4.63
1799 2018 1.549170 GTTGACACATACTCCCTCCGT 59.451 52.381 0.00 0.00 0.00 4.69
1800 2019 1.933021 TGACACATACTCCCTCCGTT 58.067 50.000 0.00 0.00 0.00 4.44
1801 2020 1.822990 TGACACATACTCCCTCCGTTC 59.177 52.381 0.00 0.00 0.00 3.95
1802 2021 1.136500 GACACATACTCCCTCCGTTCC 59.864 57.143 0.00 0.00 0.00 3.62
1803 2022 1.191535 CACATACTCCCTCCGTTCCA 58.808 55.000 0.00 0.00 0.00 3.53
1804 2023 1.553248 CACATACTCCCTCCGTTCCAA 59.447 52.381 0.00 0.00 0.00 3.53
1805 2024 2.027561 CACATACTCCCTCCGTTCCAAA 60.028 50.000 0.00 0.00 0.00 3.28
1806 2025 2.844348 ACATACTCCCTCCGTTCCAAAT 59.156 45.455 0.00 0.00 0.00 2.32
1807 2026 3.265995 ACATACTCCCTCCGTTCCAAATT 59.734 43.478 0.00 0.00 0.00 1.82
1808 2027 4.472108 ACATACTCCCTCCGTTCCAAATTA 59.528 41.667 0.00 0.00 0.00 1.40
1809 2028 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
1810 2029 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
1811 2030 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
1812 2031 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
1813 2032 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
1814 2033 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
1815 2034 3.368116 CCTCCGTTCCAAATTACTCGTCT 60.368 47.826 0.00 0.00 0.00 4.18
1816 2035 4.142315 CCTCCGTTCCAAATTACTCGTCTA 60.142 45.833 0.00 0.00 0.00 2.59
1817 2036 5.389859 TCCGTTCCAAATTACTCGTCTAA 57.610 39.130 0.00 0.00 0.00 2.10
1818 2037 5.163513 TCCGTTCCAAATTACTCGTCTAAC 58.836 41.667 0.00 0.00 0.00 2.34
1819 2038 5.047802 TCCGTTCCAAATTACTCGTCTAACT 60.048 40.000 0.00 0.00 0.00 2.24
1820 2039 6.150976 TCCGTTCCAAATTACTCGTCTAACTA 59.849 38.462 0.00 0.00 0.00 2.24
1821 2040 6.808212 CCGTTCCAAATTACTCGTCTAACTAA 59.192 38.462 0.00 0.00 0.00 2.24
1822 2041 7.329226 CCGTTCCAAATTACTCGTCTAACTAAA 59.671 37.037 0.00 0.00 0.00 1.85
1823 2042 8.702438 CGTTCCAAATTACTCGTCTAACTAAAA 58.298 33.333 0.00 0.00 0.00 1.52
1824 2043 9.803130 GTTCCAAATTACTCGTCTAACTAAAAC 57.197 33.333 0.00 0.00 0.00 2.43
1825 2044 8.538409 TCCAAATTACTCGTCTAACTAAAACC 57.462 34.615 0.00 0.00 0.00 3.27
1826 2045 8.149647 TCCAAATTACTCGTCTAACTAAAACCA 58.850 33.333 0.00 0.00 0.00 3.67
1827 2046 8.225777 CCAAATTACTCGTCTAACTAAAACCAC 58.774 37.037 0.00 0.00 0.00 4.16
1828 2047 7.572502 AATTACTCGTCTAACTAAAACCACG 57.427 36.000 0.00 0.00 0.00 4.94
1829 2048 4.836125 ACTCGTCTAACTAAAACCACGA 57.164 40.909 0.00 0.00 35.17 4.35
1830 2049 4.540824 ACTCGTCTAACTAAAACCACGAC 58.459 43.478 0.00 0.00 33.07 4.34
1831 2050 3.554524 TCGTCTAACTAAAACCACGACG 58.445 45.455 0.00 0.00 42.69 5.12
1832 2051 3.249799 TCGTCTAACTAAAACCACGACGA 59.750 43.478 0.00 7.42 46.14 4.20
1833 2052 3.601211 CGTCTAACTAAAACCACGACGAG 59.399 47.826 0.00 0.00 43.65 4.18
1834 2053 4.540824 GTCTAACTAAAACCACGACGAGT 58.459 43.478 0.00 0.00 0.00 4.18
1835 2054 5.614668 CGTCTAACTAAAACCACGACGAGTA 60.615 44.000 0.00 0.00 43.65 2.59
1836 2055 6.142817 GTCTAACTAAAACCACGACGAGTAA 58.857 40.000 0.00 0.00 0.00 2.24
1837 2056 6.803807 GTCTAACTAAAACCACGACGAGTAAT 59.196 38.462 0.00 0.00 0.00 1.89
1838 2057 7.327032 GTCTAACTAAAACCACGACGAGTAATT 59.673 37.037 0.00 1.08 0.00 1.40
1839 2058 6.849588 AACTAAAACCACGACGAGTAATTT 57.150 33.333 0.00 0.34 0.00 1.82
1840 2059 6.219302 ACTAAAACCACGACGAGTAATTTG 57.781 37.500 0.00 2.39 0.00 2.32
1841 2060 4.477302 AAAACCACGACGAGTAATTTGG 57.523 40.909 0.00 0.00 0.00 3.28
1842 2061 3.389925 AACCACGACGAGTAATTTGGA 57.610 42.857 0.00 0.00 0.00 3.53
1843 2062 3.389925 ACCACGACGAGTAATTTGGAA 57.610 42.857 0.00 0.00 0.00 3.53
1844 2063 3.062042 ACCACGACGAGTAATTTGGAAC 58.938 45.455 0.00 0.00 0.00 3.62
1845 2064 2.091588 CCACGACGAGTAATTTGGAACG 59.908 50.000 0.00 0.00 0.00 3.95
1846 2065 2.091588 CACGACGAGTAATTTGGAACGG 59.908 50.000 0.00 0.00 0.00 4.44
1847 2066 2.030007 ACGACGAGTAATTTGGAACGGA 60.030 45.455 0.00 0.00 0.00 4.69
1848 2067 2.597305 CGACGAGTAATTTGGAACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
1849 2068 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
1850 2069 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
1851 2070 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
1852 2071 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
1927 2151 8.209917 ACAAGAACCACTTCTTAAACTTAGTG 57.790 34.615 0.00 0.00 43.70 2.74
1960 2184 2.238646 TGCCATCTAAAATGGACTCGGT 59.761 45.455 8.23 0.00 41.64 4.69
1997 2221 8.083462 ACTAGCAAGTAAGAGTACTGTTTTCTC 58.917 37.037 10.92 0.61 39.79 2.87
2159 2570 5.494632 CAGATGCTCATATCTGTTTGCAA 57.505 39.130 0.00 0.00 45.70 4.08
2416 2832 5.132648 ACTCAGCCATTCTGGTTATGGATAA 59.867 40.000 6.07 0.00 44.36 1.75
2434 2851 5.700832 TGGATAATCGGAATAGTGTGATTGC 59.299 40.000 0.00 0.00 33.42 3.56
2453 2870 5.384063 TTGCAATGGACAATCGTGTATTT 57.616 34.783 0.00 0.00 38.41 1.40
2503 2952 6.527023 AGTGTTTTACGATTAGTCTGACATCG 59.473 38.462 21.69 21.69 44.37 3.84
2575 3024 3.430042 TCATCTCAGCTGCCTTTCTTT 57.570 42.857 9.47 0.00 0.00 2.52
2627 3190 4.202274 TGGTTGTCGGAATTCAGAACAGTA 60.202 41.667 9.99 0.00 0.00 2.74
2646 3209 6.349300 ACAGTATGATTAATGGACACTGACC 58.651 40.000 16.84 0.00 39.69 4.02
3053 3704 0.549950 AGCCCATCTGTCATTCCCTG 59.450 55.000 0.00 0.00 0.00 4.45
3304 4107 2.120737 GAGGGCGTAGTTTGTGGGGT 62.121 60.000 0.00 0.00 0.00 4.95
3418 4241 7.948278 ATCGACATTTCTGTAGTAATTAGGC 57.052 36.000 0.00 0.00 35.14 3.93
3570 4421 4.159879 GGCTACTTTGTAGAGCTCAAGGTA 59.840 45.833 17.77 11.76 36.69 3.08
3876 4894 6.680810 TGTGATGATCTGAACAAAATGGAAC 58.319 36.000 0.00 0.00 0.00 3.62
3955 4973 0.109226 AGCGTTCTTACTCGGTCAGC 60.109 55.000 0.00 0.00 32.40 4.26
4068 5086 5.249852 ACAAATGTAAGAAGGCTACCCACTA 59.750 40.000 0.00 0.00 0.00 2.74
4122 5140 5.045942 TGCAGGTACATTTGTGGAGAAGATA 60.046 40.000 0.00 0.00 0.00 1.98
4123 5141 5.525378 GCAGGTACATTTGTGGAGAAGATAG 59.475 44.000 0.00 0.00 0.00 2.08
4140 5158 7.710896 AGAAGATAGATTACAATGGCAAAAGC 58.289 34.615 0.00 0.00 0.00 3.51
4148 5166 4.670896 ACAATGGCAAAAGCTAAACAGT 57.329 36.364 0.00 0.00 0.00 3.55
4165 5183 4.744795 ACAGTAAAACCAAAATGGCACA 57.255 36.364 0.00 0.00 42.67 4.57
4213 5231 2.235155 TCGCTTTAACTGGTCCATGCTA 59.765 45.455 0.00 0.00 0.00 3.49
4236 5254 1.077212 CTAGGAGGGTTCGTCGGGA 60.077 63.158 0.00 0.00 0.00 5.14
4257 5275 3.749665 TTCTTGAAACCCCTTGCATTG 57.250 42.857 0.00 0.00 0.00 2.82
4265 5283 0.901580 CCCCTTGCATTGGACTTGCT 60.902 55.000 7.73 0.00 40.77 3.91
4284 5302 4.402829 TGCTTGCCTTTTCTGGTAATACA 58.597 39.130 0.00 0.00 31.59 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 1.228033 CGGCAGCATGATGGATCCA 60.228 57.895 18.88 18.88 39.69 3.41
68 69 0.607762 TATGCCTCGCACCAAAGCAA 60.608 50.000 0.00 0.00 43.04 3.91
154 162 1.450025 GTCCGATTTTCCACTCCCAC 58.550 55.000 0.00 0.00 0.00 4.61
158 166 0.743345 CCCCGTCCGATTTTCCACTC 60.743 60.000 0.00 0.00 0.00 3.51
159 167 1.298667 CCCCGTCCGATTTTCCACT 59.701 57.895 0.00 0.00 0.00 4.00
160 168 1.747745 CCCCCGTCCGATTTTCCAC 60.748 63.158 0.00 0.00 0.00 4.02
161 169 1.906105 CTCCCCCGTCCGATTTTCCA 61.906 60.000 0.00 0.00 0.00 3.53
162 170 1.153229 CTCCCCCGTCCGATTTTCC 60.153 63.158 0.00 0.00 0.00 3.13
163 171 1.153229 CCTCCCCCGTCCGATTTTC 60.153 63.158 0.00 0.00 0.00 2.29
166 174 4.410033 ACCCTCCCCCGTCCGATT 62.410 66.667 0.00 0.00 0.00 3.34
214 222 3.299977 TACACTCTGCGCGTGGGT 61.300 61.111 16.56 14.33 36.71 4.51
219 227 1.411089 GTTTCGTACACTCTGCGCG 59.589 57.895 0.00 0.00 0.00 6.86
220 228 0.942410 TGGTTTCGTACACTCTGCGC 60.942 55.000 0.00 0.00 0.00 6.09
238 246 2.684843 GCTTGCTCTGGCTCGGTTG 61.685 63.158 0.00 0.00 39.59 3.77
255 263 0.171231 GGAGGTCAAATTTGCCGAGC 59.829 55.000 13.54 6.39 32.17 5.03
273 281 5.401033 TTTTGTGATTTGATTTTGTGCGG 57.599 34.783 0.00 0.00 0.00 5.69
274 282 8.881231 GTTTATTTTGTGATTTGATTTTGTGCG 58.119 29.630 0.00 0.00 0.00 5.34
315 323 0.798776 AAAAGATCAGCCGCGTGAAG 59.201 50.000 4.92 0.00 0.00 3.02
329 337 2.070783 GTCGGGCGTCATACAAAAAGA 58.929 47.619 0.00 0.00 0.00 2.52
338 347 2.126071 CTTCGTGTCGGGCGTCAT 60.126 61.111 0.00 0.00 0.00 3.06
369 380 1.473965 CCTATCTGTGAGGCGTTGCAT 60.474 52.381 0.00 0.00 0.00 3.96
459 470 0.320374 TACAGTGCAGCGCCTAGTTT 59.680 50.000 2.29 0.00 0.00 2.66
461 472 1.338337 CTATACAGTGCAGCGCCTAGT 59.662 52.381 2.29 1.91 0.00 2.57
524 535 6.885952 TGCACTAGTGGTTGCTTTATTTTA 57.114 33.333 23.95 0.00 0.00 1.52
530 541 1.333619 CGTTGCACTAGTGGTTGCTTT 59.666 47.619 23.95 0.00 0.00 3.51
671 683 0.179056 ACTACACTGTGCAACGCCTT 60.179 50.000 7.90 0.00 42.39 4.35
705 717 1.720694 CCTTTTTGTGTGACGCCCGT 61.721 55.000 0.00 0.00 0.00 5.28
725 737 1.834188 AAACTATTTCACGGGGCTGG 58.166 50.000 0.00 0.00 0.00 4.85
731 743 4.687483 ACTGTCCGTAAAACTATTTCACGG 59.313 41.667 9.34 9.34 41.63 4.94
797 809 1.975407 AGCGAGCTTGCTGGCAAAT 60.975 52.632 27.99 1.19 45.28 2.32
805 817 0.948141 AGTGAAGTGAGCGAGCTTGC 60.948 55.000 18.89 18.89 0.00 4.01
806 818 1.066914 GAGTGAAGTGAGCGAGCTTG 58.933 55.000 0.00 0.00 0.00 4.01
807 819 0.965439 AGAGTGAAGTGAGCGAGCTT 59.035 50.000 0.00 0.00 0.00 3.74
808 820 0.525761 GAGAGTGAAGTGAGCGAGCT 59.474 55.000 0.00 0.00 0.00 4.09
809 821 0.242286 TGAGAGTGAAGTGAGCGAGC 59.758 55.000 0.00 0.00 0.00 5.03
810 822 1.539388 AGTGAGAGTGAAGTGAGCGAG 59.461 52.381 0.00 0.00 0.00 5.03
811 823 1.268079 CAGTGAGAGTGAAGTGAGCGA 59.732 52.381 0.00 0.00 0.00 4.93
812 824 1.268079 TCAGTGAGAGTGAAGTGAGCG 59.732 52.381 0.00 0.00 0.00 5.03
813 825 2.609244 GGTCAGTGAGAGTGAAGTGAGC 60.609 54.545 0.00 0.00 37.16 4.26
814 826 2.351253 CGGTCAGTGAGAGTGAAGTGAG 60.351 54.545 0.00 0.00 0.00 3.51
839 851 3.078097 TCTTTCTCGGTCTCAGTCTCAG 58.922 50.000 0.00 0.00 0.00 3.35
845 857 3.580731 GAGGTTTCTTTCTCGGTCTCAG 58.419 50.000 0.00 0.00 0.00 3.35
846 858 2.299297 GGAGGTTTCTTTCTCGGTCTCA 59.701 50.000 0.00 0.00 0.00 3.27
851 863 2.427506 CCAAGGAGGTTTCTTTCTCGG 58.572 52.381 0.00 0.00 0.00 4.63
927 939 2.123589 GGGGTTTTGGGGGATTTATGG 58.876 52.381 0.00 0.00 0.00 2.74
1596 1689 9.844257 AATCTCTGAATTCCTTATTAACTGGAG 57.156 33.333 2.27 0.00 0.00 3.86
1598 1691 9.618890 TGAATCTCTGAATTCCTTATTAACTGG 57.381 33.333 2.27 0.00 35.23 4.00
1609 1708 9.956640 ACTAATATGGATGAATCTCTGAATTCC 57.043 33.333 2.27 0.00 35.23 3.01
1618 1741 6.204852 TGGCCAACTAATATGGATGAATCT 57.795 37.500 0.61 0.00 40.56 2.40
1645 1815 8.038944 AGAAGTACTAACAGACAGAGTCTAGAG 58.961 40.741 0.00 0.94 41.37 2.43
1788 2007 4.098894 AGTAATTTGGAACGGAGGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
1789 2008 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
1790 2009 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
1791 2010 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
1792 2011 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
1793 2012 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
1794 2013 3.846360 AGACGAGTAATTTGGAACGGAG 58.154 45.455 0.00 0.00 0.00 4.63
1795 2014 3.947910 AGACGAGTAATTTGGAACGGA 57.052 42.857 0.00 0.00 0.00 4.69
1796 2015 5.166398 AGTTAGACGAGTAATTTGGAACGG 58.834 41.667 0.00 0.00 0.00 4.44
1797 2016 7.801547 TTAGTTAGACGAGTAATTTGGAACG 57.198 36.000 0.00 0.00 0.00 3.95
1798 2017 9.803130 GTTTTAGTTAGACGAGTAATTTGGAAC 57.197 33.333 0.00 0.00 0.00 3.62
1799 2018 8.992073 GGTTTTAGTTAGACGAGTAATTTGGAA 58.008 33.333 0.00 0.00 0.00 3.53
1800 2019 8.149647 TGGTTTTAGTTAGACGAGTAATTTGGA 58.850 33.333 0.00 0.00 0.00 3.53
1801 2020 8.225777 GTGGTTTTAGTTAGACGAGTAATTTGG 58.774 37.037 0.00 0.00 0.00 3.28
1802 2021 7.948363 CGTGGTTTTAGTTAGACGAGTAATTTG 59.052 37.037 0.00 0.00 0.00 2.32
1803 2022 7.867403 TCGTGGTTTTAGTTAGACGAGTAATTT 59.133 33.333 0.00 0.00 32.47 1.82
1804 2023 7.327032 GTCGTGGTTTTAGTTAGACGAGTAATT 59.673 37.037 0.00 0.00 36.59 1.40
1805 2024 6.803807 GTCGTGGTTTTAGTTAGACGAGTAAT 59.196 38.462 0.00 0.00 36.59 1.89
1806 2025 6.142817 GTCGTGGTTTTAGTTAGACGAGTAA 58.857 40.000 0.00 0.00 36.59 2.24
1807 2026 5.689819 GTCGTGGTTTTAGTTAGACGAGTA 58.310 41.667 0.00 0.00 36.59 2.59
1808 2027 4.540824 GTCGTGGTTTTAGTTAGACGAGT 58.459 43.478 0.00 0.00 36.59 4.18
1811 2030 3.941088 CGTCGTGGTTTTAGTTAGACG 57.059 47.619 0.83 0.83 42.65 4.18
1812 2031 4.540824 ACTCGTCGTGGTTTTAGTTAGAC 58.459 43.478 0.00 0.00 0.00 2.59
1813 2032 4.836125 ACTCGTCGTGGTTTTAGTTAGA 57.164 40.909 0.00 0.00 0.00 2.10
1814 2033 7.572502 AATTACTCGTCGTGGTTTTAGTTAG 57.427 36.000 0.00 0.00 0.00 2.34
1815 2034 7.095691 CCAAATTACTCGTCGTGGTTTTAGTTA 60.096 37.037 0.00 0.00 0.00 2.24
1816 2035 6.293027 CCAAATTACTCGTCGTGGTTTTAGTT 60.293 38.462 0.00 0.00 0.00 2.24
1817 2036 5.178067 CCAAATTACTCGTCGTGGTTTTAGT 59.822 40.000 0.00 0.00 0.00 2.24
1818 2037 5.406175 TCCAAATTACTCGTCGTGGTTTTAG 59.594 40.000 0.00 0.00 0.00 1.85
1819 2038 5.295950 TCCAAATTACTCGTCGTGGTTTTA 58.704 37.500 0.00 0.00 0.00 1.52
1820 2039 4.128643 TCCAAATTACTCGTCGTGGTTTT 58.871 39.130 0.00 0.00 0.00 2.43
1821 2040 3.731089 TCCAAATTACTCGTCGTGGTTT 58.269 40.909 0.00 0.00 0.00 3.27
1822 2041 3.389925 TCCAAATTACTCGTCGTGGTT 57.610 42.857 0.00 0.00 0.00 3.67
1823 2042 3.062042 GTTCCAAATTACTCGTCGTGGT 58.938 45.455 0.00 0.00 0.00 4.16
1824 2043 2.091588 CGTTCCAAATTACTCGTCGTGG 59.908 50.000 0.00 0.00 0.00 4.94
1825 2044 2.091588 CCGTTCCAAATTACTCGTCGTG 59.908 50.000 0.00 0.00 0.00 4.35
1826 2045 2.030007 TCCGTTCCAAATTACTCGTCGT 60.030 45.455 0.00 0.00 0.00 4.34
1827 2046 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
1828 2047 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
1829 2048 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
1830 2049 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
1831 2050 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
1832 2051 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
1833 2052 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
1834 2053 4.533311 AGTTACTCCCTCCGTTCCAAATTA 59.467 41.667 0.00 0.00 0.00 1.40
1835 2054 3.329814 AGTTACTCCCTCCGTTCCAAATT 59.670 43.478 0.00 0.00 0.00 1.82
1836 2055 2.910977 AGTTACTCCCTCCGTTCCAAAT 59.089 45.455 0.00 0.00 0.00 2.32
1837 2056 2.332117 AGTTACTCCCTCCGTTCCAAA 58.668 47.619 0.00 0.00 0.00 3.28
1838 2057 2.019807 AGTTACTCCCTCCGTTCCAA 57.980 50.000 0.00 0.00 0.00 3.53
1839 2058 2.731572 CTAGTTACTCCCTCCGTTCCA 58.268 52.381 0.00 0.00 0.00 3.53
1840 2059 1.408340 GCTAGTTACTCCCTCCGTTCC 59.592 57.143 0.00 0.00 0.00 3.62
1841 2060 2.097825 TGCTAGTTACTCCCTCCGTTC 58.902 52.381 0.00 0.00 0.00 3.95
1842 2061 2.226962 TGCTAGTTACTCCCTCCGTT 57.773 50.000 0.00 0.00 0.00 4.44
1843 2062 2.100989 CTTGCTAGTTACTCCCTCCGT 58.899 52.381 0.00 0.00 0.00 4.69
1844 2063 1.202428 GCTTGCTAGTTACTCCCTCCG 60.202 57.143 0.00 0.00 0.00 4.63
1845 2064 1.831736 TGCTTGCTAGTTACTCCCTCC 59.168 52.381 0.00 0.00 0.00 4.30
1846 2065 3.133003 TCATGCTTGCTAGTTACTCCCTC 59.867 47.826 0.00 0.00 0.00 4.30
1847 2066 3.107601 TCATGCTTGCTAGTTACTCCCT 58.892 45.455 0.00 0.00 0.00 4.20
1848 2067 3.543680 TCATGCTTGCTAGTTACTCCC 57.456 47.619 0.00 0.00 0.00 4.30
1849 2068 4.093556 GTGTTCATGCTTGCTAGTTACTCC 59.906 45.833 0.00 0.00 0.00 3.85
1850 2069 4.690748 TGTGTTCATGCTTGCTAGTTACTC 59.309 41.667 0.00 0.00 0.00 2.59
1851 2070 4.641396 TGTGTTCATGCTTGCTAGTTACT 58.359 39.130 0.00 0.00 0.00 2.24
1852 2071 4.690748 TCTGTGTTCATGCTTGCTAGTTAC 59.309 41.667 0.00 0.00 0.00 2.50
1927 2151 9.709693 CCATTTTAGATGGCATGGTGTTGTACC 62.710 44.444 3.81 0.00 40.05 3.34
1960 2184 6.424032 TCTTACTTGCTAGTCCTGATCACTA 58.576 40.000 3.45 0.00 35.78 2.74
2017 2242 9.577110 CTTGGATGTGAAATACTTAGTACGTAA 57.423 33.333 0.00 0.00 0.00 3.18
2159 2570 7.446013 TCAAAGGGTGTAAAAGTATCGAAATGT 59.554 33.333 0.00 0.00 0.00 2.71
2359 2775 1.180029 ATCAGCATGCCCACTGAAAC 58.820 50.000 15.66 0.00 45.49 2.78
2416 2832 4.276678 CCATTGCAATCACACTATTCCGAT 59.723 41.667 9.53 0.00 0.00 4.18
2434 2851 5.159925 TGCAAAATACACGATTGTCCATTG 58.840 37.500 0.00 0.00 37.15 2.82
2453 2870 5.351189 GGATGCACGATATGTATGTATGCAA 59.649 40.000 0.00 0.00 44.06 4.08
2503 2952 3.916761 TGATTTGCATTGCCTCTTTCAC 58.083 40.909 6.12 0.00 0.00 3.18
2550 2999 3.316071 AAGGCAGCTGAGATGATATCG 57.684 47.619 20.43 0.00 0.00 2.92
2575 3024 6.119536 ACTAACAAATCCTATCGGCAAATCA 58.880 36.000 0.00 0.00 0.00 2.57
2590 3112 6.469410 TCCGACAACCAGAATACTAACAAAT 58.531 36.000 0.00 0.00 0.00 2.32
2599 3121 5.414789 TCTGAATTCCGACAACCAGAATA 57.585 39.130 2.27 0.00 30.21 1.75
2786 3374 6.978080 TGAAAGCAACATCCTAAGTGAAAAAC 59.022 34.615 0.00 0.00 0.00 2.43
3053 3704 5.948992 AGAAGATACTTTGCTTGTTCCAC 57.051 39.130 0.00 0.00 0.00 4.02
3304 4107 2.215196 GCCACCTAGTTCGTCAAACAA 58.785 47.619 0.00 0.00 40.56 2.83
3683 4536 3.303351 AGGGCCTACTGAATGAATTGG 57.697 47.619 2.82 0.00 0.00 3.16
3876 4894 2.040178 ACCGGTATCTTAGCCTTCAGG 58.960 52.381 4.49 0.00 38.53 3.86
3955 4973 2.349590 TCATCACACCAGCAGATTTCG 58.650 47.619 0.00 0.00 0.00 3.46
4012 5030 6.331845 TGGATTGAATTCATGAACCAAATCG 58.668 36.000 21.57 0.00 0.00 3.34
4068 5086 4.323104 GCTTCTGACAGGAGTAGAAACCAT 60.323 45.833 12.50 0.00 30.77 3.55
4140 5158 6.758886 TGTGCCATTTTGGTTTTACTGTTTAG 59.241 34.615 0.00 0.00 40.46 1.85
4148 5166 4.762289 ACCTTGTGCCATTTTGGTTTTA 57.238 36.364 0.00 0.00 40.46 1.52
4165 5183 6.038985 CGATCATCGCTCATATTGATACCTT 58.961 40.000 0.00 0.00 31.14 3.50
4167 5185 5.582550 TCGATCATCGCTCATATTGATACC 58.417 41.667 0.80 0.00 40.21 2.73
4169 5187 6.634436 CGATTCGATCATCGCTCATATTGATA 59.366 38.462 0.80 0.00 39.69 2.15
4194 5212 5.161358 GTTTTAGCATGGACCAGTTAAAGC 58.839 41.667 0.00 5.99 0.00 3.51
4236 5254 3.008266 CCAATGCAAGGGGTTTCAAGAAT 59.992 43.478 0.00 0.00 0.00 2.40
4257 5275 1.000171 CCAGAAAAGGCAAGCAAGTCC 60.000 52.381 0.00 0.00 0.00 3.85
4265 5283 7.363705 CCATTCATGTATTACCAGAAAAGGCAA 60.364 37.037 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.