Multiple sequence alignment - TraesCS5B01G396900

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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 TraesCS5B01G396900 chr5B 100.000 4816 0 0 1 4816 574679336 574674521 0.000000e+00 8894.0
1 TraesCS5B01G396900 chr5B 85.957 1061 116 18 1932 2964 574719770 574718715 0.000000e+00 1103.0
2 TraesCS5B01G396900 chr5B 82.011 567 54 28 965 1516 574720669 574720136 5.720000e-119 438.0
3 TraesCS5B01G396900 chr5B 92.486 173 13 0 1631 1803 574719941 574719769 1.040000e-61 248.0
4 TraesCS5B01G396900 chr5B 89.706 136 12 2 9 143 272434294 272434160 6.410000e-39 172.0
5 TraesCS5B01G396900 chr5B 83.333 120 19 1 10 129 556172503 556172621 5.100000e-20 110.0
6 TraesCS5B01G396900 chr5B 93.182 44 3 0 1848 1891 602267365 602267408 1.120000e-06 65.8
7 TraesCS5B01G396900 chr5B 100.000 29 0 0 1554 1582 574719991 574719963 2.000000e-03 54.7
8 TraesCS5B01G396900 chr5A 96.267 2411 74 7 1884 4279 588377926 588375517 0.000000e+00 3940.0
9 TraesCS5B01G396900 chr5A 88.436 1522 67 33 333 1814 588379476 588378024 0.000000e+00 1735.0
10 TraesCS5B01G396900 chr5A 92.958 426 21 5 4390 4807 588375180 588374756 3.190000e-171 612.0
11 TraesCS5B01G396900 chr5A 88.060 335 30 4 1 335 588380677 588380353 5.850000e-104 388.0
12 TraesCS5B01G396900 chr5A 85.276 326 41 5 2492 2810 588408856 588408531 3.590000e-86 329.0
13 TraesCS5B01G396900 chr5A 93.333 150 6 1 1654 1803 588411396 588411251 8.120000e-53 219.0
14 TraesCS5B01G396900 chr5A 94.059 101 5 1 4279 4378 588375546 588375446 8.350000e-33 152.0
15 TraesCS5B01G396900 chr5D 96.247 2398 77 9 1884 4270 467603288 467600893 0.000000e+00 3917.0
16 TraesCS5B01G396900 chr5D 93.286 1534 42 27 336 1839 467604787 467603285 0.000000e+00 2206.0
17 TraesCS5B01G396900 chr5D 86.852 1042 126 8 1932 2964 467689876 467688837 0.000000e+00 1155.0
18 TraesCS5B01G396900 chr5D 82.805 599 63 20 965 1558 467699480 467698917 2.590000e-137 499.0
19 TraesCS5B01G396900 chr5D 93.478 184 10 1 1620 1803 467690056 467689875 6.140000e-69 272.0
20 TraesCS5B01G396900 chr6D 83.061 980 143 14 2850 3820 454232264 454233229 0.000000e+00 869.0
21 TraesCS5B01G396900 chr6B 79.865 1182 173 36 2853 3990 690559882 690558722 0.000000e+00 804.0
22 TraesCS5B01G396900 chr6B 81.752 137 25 0 30 166 225322112 225321976 1.100000e-21 115.0
23 TraesCS5B01G396900 chr6A 79.862 1157 166 33 2868 3990 600405167 600406290 0.000000e+00 784.0
24 TraesCS5B01G396900 chr7B 85.000 160 22 2 17 174 63927307 63927466 1.390000e-35 161.0
25 TraesCS5B01G396900 chr3A 81.761 159 27 2 9 166 683368209 683368366 1.090000e-26 132.0
26 TraesCS5B01G396900 chr2A 78.641 206 39 4 17 222 733779117 733778917 1.090000e-26 132.0
27 TraesCS5B01G396900 chr7D 88.525 61 7 0 114 174 105252981 105253041 1.860000e-09 75.0
28 TraesCS5B01G396900 chr3D 80.208 96 15 2 49 142 560355586 560355679 8.650000e-08 69.4
29 TraesCS5B01G396900 chr2D 100.000 28 0 0 1862 1889 261735984 261735957 9.000000e-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 TraesCS5B01G396900 chr5B 574674521 574679336 4815 True 8894.000 8894 100.0000 1 4816 1 chr5B.!!$R2 4815
1 TraesCS5B01G396900 chr5B 574718715 574720669 1954 True 460.925 1103 90.1135 965 2964 4 chr5B.!!$R3 1999
2 TraesCS5B01G396900 chr5A 588374756 588380677 5921 True 1365.400 3940 91.9560 1 4807 5 chr5A.!!$R1 4806
3 TraesCS5B01G396900 chr5A 588408531 588411396 2865 True 274.000 329 89.3045 1654 2810 2 chr5A.!!$R2 1156
4 TraesCS5B01G396900 chr5D 467600893 467604787 3894 True 3061.500 3917 94.7665 336 4270 2 chr5D.!!$R2 3934
5 TraesCS5B01G396900 chr5D 467688837 467690056 1219 True 713.500 1155 90.1650 1620 2964 2 chr5D.!!$R3 1344
6 TraesCS5B01G396900 chr5D 467698917 467699480 563 True 499.000 499 82.8050 965 1558 1 chr5D.!!$R1 593
7 TraesCS5B01G396900 chr6D 454232264 454233229 965 False 869.000 869 83.0610 2850 3820 1 chr6D.!!$F1 970
8 TraesCS5B01G396900 chr6B 690558722 690559882 1160 True 804.000 804 79.8650 2853 3990 1 chr6B.!!$R2 1137
9 TraesCS5B01G396900 chr6A 600405167 600406290 1123 False 784.000 784 79.8620 2868 3990 1 chr6A.!!$F1 1122

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
453 1332 0.684535 TGGCATCGGACTTTGTCAGA 59.315 50.000 3.36 3.36 40.53 3.27 F
878 1773 1.106351 TCGCCTCAGATCTCCAGCTC 61.106 60.000 0.00 0.00 0.00 4.09 F
1363 2268 1.128692 GTTCATTTCGAGCTTGTCCGG 59.871 52.381 0.00 0.00 0.00 5.14 F
2111 3245 1.133915 TCGTGGGCAAAGAAAGAGGTT 60.134 47.619 0.00 0.00 0.00 3.50 F
3252 6267 0.819259 CCCACATGTGCCCGATAAGG 60.819 60.000 20.81 9.55 40.63 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2111 3245 0.762842 CCCCCACCATCGACCAGATA 60.763 60.000 0.00 0.0 37.52 1.98 R
2390 3524 1.536907 ACATGTGTACCCCGGACCA 60.537 57.895 0.73 0.0 0.00 4.02 R
3252 6267 2.029623 AGCTTCACATGCCAATGGATC 58.970 47.619 2.05 0.0 38.19 3.36 R
3773 6817 1.123077 TAGCCATCGCAGTCCAGAAT 58.877 50.000 0.00 0.0 37.52 2.40 R
4387 7450 0.105778 GCATAGAGCAGTCCCTCCAC 59.894 60.000 0.00 0.0 44.79 4.02 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
25 26 5.551920 GCGTTTCTTAAAGCTTGTCAAAACG 60.552 40.000 27.87 27.87 46.10 3.60
82 83 7.172868 TCACAAGGAACATGAATATGCAAAT 57.827 32.000 0.00 0.00 37.85 2.32
86 87 4.338964 AGGAACATGAATATGCAAATGCGA 59.661 37.500 0.00 0.00 45.83 5.10
159 160 6.749139 AGTCAAAAGGAAAAACATTAGAGGC 58.251 36.000 0.00 0.00 0.00 4.70
168 169 1.819632 CATTAGAGGCGGGGTGTGC 60.820 63.158 0.00 0.00 0.00 4.57
192 193 1.961793 CCCACACTCTCCGACAAAAA 58.038 50.000 0.00 0.00 0.00 1.94
196 197 4.700213 CCCACACTCTCCGACAAAAATTAT 59.300 41.667 0.00 0.00 0.00 1.28
197 198 5.878116 CCCACACTCTCCGACAAAAATTATA 59.122 40.000 0.00 0.00 0.00 0.98
198 199 6.183360 CCCACACTCTCCGACAAAAATTATAC 60.183 42.308 0.00 0.00 0.00 1.47
199 200 6.455113 CCACACTCTCCGACAAAAATTATACG 60.455 42.308 0.00 0.00 0.00 3.06
216 217 2.989422 ACGTACCAAAAGCTGCATTC 57.011 45.000 1.02 0.00 0.00 2.67
220 221 3.853671 CGTACCAAAAGCTGCATTCATTC 59.146 43.478 1.02 0.00 0.00 2.67
222 223 4.546829 ACCAAAAGCTGCATTCATTCAT 57.453 36.364 1.02 0.00 0.00 2.57
229 230 7.591006 AAAGCTGCATTCATTCATTAAACTG 57.409 32.000 1.02 0.00 0.00 3.16
250 251 7.083875 ACTGTAATCATAAAACCACATTCCG 57.916 36.000 0.00 0.00 0.00 4.30
252 253 7.392113 ACTGTAATCATAAAACCACATTCCGAA 59.608 33.333 0.00 0.00 0.00 4.30
254 255 8.402472 TGTAATCATAAAACCACATTCCGAATC 58.598 33.333 0.00 0.00 0.00 2.52
259 260 4.766404 AAACCACATTCCGAATCTCAAC 57.234 40.909 0.00 0.00 0.00 3.18
308 309 1.587613 GCGCCACAGATCGTCTCTC 60.588 63.158 0.00 0.00 29.16 3.20
331 332 3.059597 CGAGTTGTGTTGGAGAACATGTC 60.060 47.826 0.00 0.00 43.95 3.06
403 1282 4.339530 CAGAACTGAGCATGGCTAGTAGTA 59.660 45.833 0.00 0.00 39.88 1.82
404 1283 4.582656 AGAACTGAGCATGGCTAGTAGTAG 59.417 45.833 0.00 0.00 39.88 2.57
405 1284 3.904717 ACTGAGCATGGCTAGTAGTAGT 58.095 45.455 6.47 0.00 39.88 2.73
449 1328 2.028130 TGTTTTGGCATCGGACTTTGT 58.972 42.857 0.00 0.00 0.00 2.83
450 1329 2.034053 TGTTTTGGCATCGGACTTTGTC 59.966 45.455 0.00 0.00 0.00 3.18
451 1330 1.974265 TTTGGCATCGGACTTTGTCA 58.026 45.000 0.00 0.00 33.68 3.58
452 1331 1.522668 TTGGCATCGGACTTTGTCAG 58.477 50.000 0.00 0.00 33.68 3.51
453 1332 0.684535 TGGCATCGGACTTTGTCAGA 59.315 50.000 3.36 3.36 40.53 3.27
498 1378 1.740718 GCAGAAGGATCTCCGGAACAC 60.741 57.143 5.23 0.00 42.08 3.32
835 1730 1.952621 TTAAGTCCCACTCCCTCCTG 58.047 55.000 0.00 0.00 0.00 3.86
849 1744 4.704833 CCTGCTCCACCACCACCG 62.705 72.222 0.00 0.00 0.00 4.94
878 1773 1.106351 TCGCCTCAGATCTCCAGCTC 61.106 60.000 0.00 0.00 0.00 4.09
957 1852 3.646715 GGGTGGGTAGGTGCAGCA 61.647 66.667 19.63 0.00 0.00 4.41
1103 1998 3.816090 ACCGGCCACCACAGGTTT 61.816 61.111 0.00 0.00 31.02 3.27
1254 2159 2.355837 GTCGCACGGTTCTGCTCA 60.356 61.111 0.00 0.00 34.77 4.26
1314 2219 1.153823 CGGTGTCGGTGGCTTCTAG 60.154 63.158 0.00 0.00 0.00 2.43
1363 2268 1.128692 GTTCATTTCGAGCTTGTCCGG 59.871 52.381 0.00 0.00 0.00 5.14
1377 2287 1.281867 TGTCCGGATTCTGAAGCCAAT 59.718 47.619 23.03 0.00 36.54 3.16
1478 2392 1.576920 CTCGTGTCGAGCTCTGTGT 59.423 57.895 12.85 0.00 46.75 3.72
1481 2395 1.442857 GTGTCGAGCTCTGTGTCGG 60.443 63.158 12.85 0.00 36.81 4.79
1534 2461 9.061610 CAGTAAAAACATATCGACCAATTGTTC 57.938 33.333 4.43 0.00 30.62 3.18
1549 2558 5.152097 CAATTGTTCTGCTGCTAGAAAGTG 58.848 41.667 13.47 7.43 38.33 3.16
1613 2639 9.368416 ACAGTAGTAACATCATATGTATCTGGT 57.632 33.333 1.90 0.00 44.07 4.00
1618 2644 8.486210 AGTAACATCATATGTATCTGGTGTGTT 58.514 33.333 1.90 0.00 44.07 3.32
1627 2681 6.516739 TGTATCTGGTGTGTTTTTGTTTCA 57.483 33.333 0.00 0.00 0.00 2.69
1835 2965 4.401022 AGCTCATGATTTGACCTTGACAA 58.599 39.130 0.00 0.00 0.00 3.18
1836 2966 4.217118 AGCTCATGATTTGACCTTGACAAC 59.783 41.667 0.00 0.00 0.00 3.32
1837 2967 4.217118 GCTCATGATTTGACCTTGACAACT 59.783 41.667 0.00 0.00 0.00 3.16
1838 2968 5.412594 GCTCATGATTTGACCTTGACAACTA 59.587 40.000 0.00 0.00 0.00 2.24
1839 2969 6.621596 GCTCATGATTTGACCTTGACAACTAC 60.622 42.308 0.00 0.00 0.00 2.73
1840 2970 6.533730 TCATGATTTGACCTTGACAACTACT 58.466 36.000 0.00 0.00 0.00 2.57
1841 2971 6.650807 TCATGATTTGACCTTGACAACTACTC 59.349 38.462 0.00 0.00 0.00 2.59
1842 2972 5.305585 TGATTTGACCTTGACAACTACTCC 58.694 41.667 0.00 0.00 0.00 3.85
1843 2973 3.764237 TTGACCTTGACAACTACTCCC 57.236 47.619 0.00 0.00 0.00 4.30
1844 2974 2.684943 TGACCTTGACAACTACTCCCA 58.315 47.619 0.00 0.00 0.00 4.37
1845 2975 3.248024 TGACCTTGACAACTACTCCCAT 58.752 45.455 0.00 0.00 0.00 4.00
1846 2976 3.260884 TGACCTTGACAACTACTCCCATC 59.739 47.826 0.00 0.00 0.00 3.51
1847 2977 3.248024 ACCTTGACAACTACTCCCATCA 58.752 45.455 0.00 0.00 0.00 3.07
1848 2978 3.261897 ACCTTGACAACTACTCCCATCAG 59.738 47.826 0.00 0.00 0.00 2.90
1849 2979 3.261897 CCTTGACAACTACTCCCATCAGT 59.738 47.826 0.00 0.00 0.00 3.41
1850 2980 3.961480 TGACAACTACTCCCATCAGTG 57.039 47.619 0.00 0.00 0.00 3.66
1851 2981 3.506398 TGACAACTACTCCCATCAGTGA 58.494 45.455 0.00 0.00 0.00 3.41
1852 2982 4.096681 TGACAACTACTCCCATCAGTGAT 58.903 43.478 0.00 0.00 0.00 3.06
1853 2983 4.160439 TGACAACTACTCCCATCAGTGATC 59.840 45.833 1.56 0.00 0.00 2.92
1854 2984 4.357325 ACAACTACTCCCATCAGTGATCT 58.643 43.478 1.56 0.00 0.00 2.75
1855 2985 5.519808 ACAACTACTCCCATCAGTGATCTA 58.480 41.667 1.56 0.00 0.00 1.98
1856 2986 5.958380 ACAACTACTCCCATCAGTGATCTAA 59.042 40.000 1.56 0.00 0.00 2.10
1857 2987 6.440647 ACAACTACTCCCATCAGTGATCTAAA 59.559 38.462 1.56 0.00 0.00 1.85
1858 2988 7.126421 ACAACTACTCCCATCAGTGATCTAAAT 59.874 37.037 1.56 0.00 0.00 1.40
1859 2989 7.060383 ACTACTCCCATCAGTGATCTAAATG 57.940 40.000 1.56 0.00 0.00 2.32
1860 2990 6.841229 ACTACTCCCATCAGTGATCTAAATGA 59.159 38.462 1.56 0.00 0.00 2.57
1861 2991 6.760440 ACTCCCATCAGTGATCTAAATGAT 57.240 37.500 1.56 0.00 38.27 2.45
1881 3011 8.438676 AATGATCTTACATTTCTTTACGGAGG 57.561 34.615 0.00 0.00 37.20 4.30
1882 3012 6.346096 TGATCTTACATTTCTTTACGGAGGG 58.654 40.000 0.00 0.00 0.00 4.30
1899 3029 3.583086 GGAGGGAGTAGCATGGCTAATAA 59.417 47.826 0.00 0.00 43.07 1.40
1930 3060 9.817809 TTACAAACTTTGCCACAAACAATATAA 57.182 25.926 1.14 0.00 0.00 0.98
2111 3245 1.133915 TCGTGGGCAAAGAAAGAGGTT 60.134 47.619 0.00 0.00 0.00 3.50
2273 3407 2.436417 TGTTGCAAGGCAGGAGTTATC 58.564 47.619 0.00 0.00 40.61 1.75
2521 5489 6.183360 TGCTCTTCACTGCTTGCTCTATATTA 60.183 38.462 0.00 0.00 0.00 0.98
2524 5492 8.465273 TCTTCACTGCTTGCTCTATATTACTA 57.535 34.615 0.00 0.00 0.00 1.82
2620 5607 5.902613 TTCTGCTCCTTAATTGTGAATGG 57.097 39.130 0.00 0.00 0.00 3.16
3140 6155 9.696917 CAACTTTCTGCAAATTCCTTACTAATT 57.303 29.630 0.00 0.00 0.00 1.40
3252 6267 0.819259 CCCACATGTGCCCGATAAGG 60.819 60.000 20.81 9.55 40.63 2.69
3508 6537 4.585162 CCTCCTATCTGACGTGTTTATCCT 59.415 45.833 0.00 0.00 0.00 3.24
3632 6676 2.289133 GCGGAAGGACTCAGAGACTTTT 60.289 50.000 3.79 0.00 0.00 2.27
3710 6754 1.115326 TCATGCCGTCTCCCGATGAT 61.115 55.000 0.00 0.00 39.56 2.45
3740 6784 2.212327 GCCTAGTGCAAGCCCTCTA 58.788 57.895 0.00 0.00 40.77 2.43
3758 6802 4.582656 CCTCTAACAAAACAACCATGGACA 59.417 41.667 21.47 0.00 0.00 4.02
3773 6817 1.132977 TGGACACTCCCACTCTTGGTA 60.133 52.381 0.00 0.00 42.10 3.25
3786 6830 2.166459 CTCTTGGTATTCTGGACTGCGA 59.834 50.000 0.00 0.00 0.00 5.10
3820 6864 6.301486 TGCTGGCTTATTATGTCTGATGAAT 58.699 36.000 0.00 0.00 0.00 2.57
3823 6867 7.361031 GCTGGCTTATTATGTCTGATGAATGAG 60.361 40.741 0.00 0.00 0.00 2.90
3824 6868 7.512130 TGGCTTATTATGTCTGATGAATGAGT 58.488 34.615 0.00 0.00 0.00 3.41
3825 6869 7.994911 TGGCTTATTATGTCTGATGAATGAGTT 59.005 33.333 0.00 0.00 0.00 3.01
3835 6882 7.978414 TGTCTGATGAATGAGTTACAAGAGATC 59.022 37.037 0.00 0.00 0.00 2.75
3923 6973 2.236146 TCCACGGTTGCATAGAAGACAT 59.764 45.455 0.00 0.00 0.00 3.06
3999 7056 6.691508 AGGGCTGAAAATGTATTTCTTGTTC 58.308 36.000 2.98 0.00 0.00 3.18
4016 7073 4.682778 TGTTCTGGTATATACTGGCCAC 57.317 45.455 0.00 0.00 0.00 5.01
4041 7098 7.123830 CGAAACTTTGGTGAACTTAGTTACTG 58.876 38.462 0.00 0.00 0.00 2.74
4045 7102 6.541278 ACTTTGGTGAACTTAGTTACTGGAAC 59.459 38.462 0.00 0.00 38.44 3.62
4106 7163 6.308766 GCAGACGCAGACATTTTAATTGAATT 59.691 34.615 0.00 0.00 38.36 2.17
4145 7202 8.981724 TCTTGTAGTGATTGTATGAGTTACAC 57.018 34.615 0.00 0.00 40.53 2.90
4225 7287 3.129988 GCATTGTTTTCCTGATCCCTCTG 59.870 47.826 0.00 0.00 0.00 3.35
4231 7294 3.721087 TTCCTGATCCCTCTGGTTTTC 57.279 47.619 0.00 0.00 40.45 2.29
4237 7300 3.888930 TGATCCCTCTGGTTTTCAAACAC 59.111 43.478 4.85 0.00 40.63 3.32
4242 7305 1.813178 TCTGGTTTTCAAACACGTGCA 59.187 42.857 17.22 0.68 40.63 4.57
4257 7320 4.574828 ACACGTGCAAGAGTTAACAAGAAT 59.425 37.500 17.22 0.00 0.00 2.40
4258 7321 5.140177 CACGTGCAAGAGTTAACAAGAATC 58.860 41.667 6.65 0.00 0.00 2.52
4259 7322 4.814234 ACGTGCAAGAGTTAACAAGAATCA 59.186 37.500 6.65 0.00 0.00 2.57
4260 7323 5.295787 ACGTGCAAGAGTTAACAAGAATCAA 59.704 36.000 6.65 0.00 0.00 2.57
4261 7324 6.183360 ACGTGCAAGAGTTAACAAGAATCAAA 60.183 34.615 6.65 0.00 0.00 2.69
4262 7325 6.690957 CGTGCAAGAGTTAACAAGAATCAAAA 59.309 34.615 8.61 0.00 0.00 2.44
4263 7326 7.096885 CGTGCAAGAGTTAACAAGAATCAAAAG 60.097 37.037 8.61 0.00 0.00 2.27
4264 7327 7.915397 GTGCAAGAGTTAACAAGAATCAAAAGA 59.085 33.333 8.61 0.00 0.00 2.52
4265 7328 8.465999 TGCAAGAGTTAACAAGAATCAAAAGAA 58.534 29.630 8.61 0.00 0.00 2.52
4266 7329 8.962111 GCAAGAGTTAACAAGAATCAAAAGAAG 58.038 33.333 8.61 0.00 0.00 2.85
4267 7330 8.962111 CAAGAGTTAACAAGAATCAAAAGAAGC 58.038 33.333 8.61 0.00 0.00 3.86
4268 7331 8.225603 AGAGTTAACAAGAATCAAAAGAAGCA 57.774 30.769 8.61 0.00 0.00 3.91
4269 7332 8.131731 AGAGTTAACAAGAATCAAAAGAAGCAC 58.868 33.333 8.61 0.00 0.00 4.40
4270 7333 7.771183 AGTTAACAAGAATCAAAAGAAGCACA 58.229 30.769 8.61 0.00 0.00 4.57
4271 7334 7.917505 AGTTAACAAGAATCAAAAGAAGCACAG 59.082 33.333 8.61 0.00 0.00 3.66
4272 7335 5.192327 ACAAGAATCAAAAGAAGCACAGG 57.808 39.130 0.00 0.00 0.00 4.00
4273 7336 4.038402 ACAAGAATCAAAAGAAGCACAGGG 59.962 41.667 0.00 0.00 0.00 4.45
4274 7337 2.560105 AGAATCAAAAGAAGCACAGGGC 59.440 45.455 0.00 0.00 45.30 5.19
4283 7346 4.736165 GCACAGGGCAACAACAAG 57.264 55.556 0.00 0.00 43.97 3.16
4284 7347 2.114638 GCACAGGGCAACAACAAGA 58.885 52.632 0.00 0.00 43.97 3.02
4285 7348 0.459489 GCACAGGGCAACAACAAGAA 59.541 50.000 0.00 0.00 43.97 2.52
4326 7389 1.209019 CACTCAGGCTAGGCTGAACAT 59.791 52.381 38.76 27.65 0.00 2.71
4327 7390 1.209019 ACTCAGGCTAGGCTGAACATG 59.791 52.381 38.76 30.85 0.00 3.21
4344 7407 6.097356 TGAACATGAACGTACCTAAGATCAC 58.903 40.000 0.00 0.00 0.00 3.06
4350 7413 6.518493 TGAACGTACCTAAGATCACAAAACT 58.482 36.000 0.00 0.00 0.00 2.66
4371 7434 7.745620 AACTATAATGTACAGCAAATAGGGC 57.254 36.000 0.33 0.00 34.25 5.19
4372 7435 6.837312 ACTATAATGTACAGCAAATAGGGCA 58.163 36.000 0.33 0.00 34.25 5.36
4373 7436 7.461749 ACTATAATGTACAGCAAATAGGGCAT 58.538 34.615 0.33 0.00 34.25 4.40
4374 7437 4.924305 AATGTACAGCAAATAGGGCATG 57.076 40.909 0.33 0.00 0.00 4.06
4375 7438 3.643199 TGTACAGCAAATAGGGCATGA 57.357 42.857 0.00 0.00 0.00 3.07
4379 7442 4.888326 ACAGCAAATAGGGCATGAAAAA 57.112 36.364 0.00 0.00 0.00 1.94
4380 7443 4.568956 ACAGCAAATAGGGCATGAAAAAC 58.431 39.130 0.00 0.00 0.00 2.43
4381 7444 3.934579 CAGCAAATAGGGCATGAAAAACC 59.065 43.478 0.00 0.00 0.00 3.27
4383 7446 3.934579 GCAAATAGGGCATGAAAAACCTG 59.065 43.478 0.00 0.00 34.59 4.00
4385 7448 2.300956 TAGGGCATGAAAAACCTGCA 57.699 45.000 0.00 0.00 40.88 4.41
4386 7449 1.422531 AGGGCATGAAAAACCTGCAA 58.577 45.000 0.00 0.00 40.88 4.08
4387 7450 1.345415 AGGGCATGAAAAACCTGCAAG 59.655 47.619 0.00 0.00 40.88 4.01
4429 7747 5.622233 GCTGGACAATATGGAAAACCAGAAC 60.622 44.000 13.37 0.00 43.91 3.01
4470 7788 5.145564 AGAAAATGCCTAATGATCCTGCAT 58.854 37.500 0.00 0.00 44.02 3.96
4485 7803 4.965814 TCCTGCATCAGTTATCTTCCATC 58.034 43.478 0.00 0.00 0.00 3.51
4509 7827 1.947678 GCAGTCATCTCACCAACTGGG 60.948 57.143 0.00 0.00 39.57 4.45
4529 7847 6.043938 ACTGGGAAATCTTGTAGACAAACCTA 59.956 38.462 0.00 0.00 35.15 3.08
4637 7958 0.464373 CCAGAATCACGGGTGGATGG 60.464 60.000 0.00 0.00 31.04 3.51
4650 7971 3.518303 GGGTGGATGGTTTCTACTACACT 59.482 47.826 0.00 0.00 36.17 3.55
4656 7977 4.002906 TGGTTTCTACTACACTGCCTTG 57.997 45.455 0.00 0.00 0.00 3.61
4659 7980 4.820173 GGTTTCTACTACACTGCCTTGTTT 59.180 41.667 0.00 0.00 0.00 2.83
4661 7982 6.427974 GTTTCTACTACACTGCCTTGTTTTC 58.572 40.000 0.00 0.00 0.00 2.29
4670 7995 3.885901 ACTGCCTTGTTTTCTTCTTCCTC 59.114 43.478 0.00 0.00 0.00 3.71
4680 8005 6.868864 TGTTTTCTTCTTCCTCGAGTGATAAG 59.131 38.462 12.31 13.47 0.00 1.73
4689 8015 4.817464 TCCTCGAGTGATAAGCTCTTAGTC 59.183 45.833 12.31 0.00 0.00 2.59
4701 8027 5.730296 AGCTCTTAGTCTGCTTTACAAGA 57.270 39.130 0.00 0.00 32.61 3.02
4711 8037 5.065988 GTCTGCTTTACAAGACTTGTTCCAA 59.934 40.000 25.10 11.55 42.22 3.53
4720 8046 4.045636 AGACTTGTTCCAATTTGTGTGC 57.954 40.909 0.00 0.00 0.00 4.57
4732 8058 0.179150 TTGTGTGCGAGTGCCAAAAC 60.179 50.000 0.00 0.00 41.78 2.43
4741 8067 1.370900 GTGCCAAAACGCTCTGCTG 60.371 57.895 0.00 0.00 0.00 4.41
4765 8091 3.205784 AGTTCTGAAGAAACTGCTGCT 57.794 42.857 0.00 0.00 35.58 4.24
4791 8117 2.247790 CTGGTTTTCAGGACCTGCG 58.752 57.895 17.33 0.00 39.76 5.18
4793 8119 2.556287 GTTTTCAGGACCTGCGCG 59.444 61.111 17.33 0.00 0.00 6.86
4807 8133 3.035576 GCGCGGTTACCTGAAAGCC 62.036 63.158 8.83 0.00 0.00 4.35
4808 8134 1.669760 CGCGGTTACCTGAAAGCCA 60.670 57.895 0.00 0.00 0.00 4.75
4809 8135 1.635663 CGCGGTTACCTGAAAGCCAG 61.636 60.000 0.00 0.00 42.55 4.85
4810 8136 0.321298 GCGGTTACCTGAAAGCCAGA 60.321 55.000 0.00 0.00 45.78 3.86
4811 8137 1.679032 GCGGTTACCTGAAAGCCAGAT 60.679 52.381 0.00 0.00 45.78 2.90
4812 8138 2.009774 CGGTTACCTGAAAGCCAGATG 58.990 52.381 0.00 0.00 45.78 2.90
4813 8139 2.615493 CGGTTACCTGAAAGCCAGATGT 60.615 50.000 0.00 0.00 45.78 3.06
4814 8140 3.421844 GGTTACCTGAAAGCCAGATGTT 58.578 45.455 0.00 0.00 45.78 2.71
4815 8141 3.440522 GGTTACCTGAAAGCCAGATGTTC 59.559 47.826 0.00 0.00 45.78 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 8.555166 TTGAATACGTTTTGACAAGCTTTAAG 57.445 30.769 0.00 0.00 0.00 1.85
13 14 6.470877 TCACTTTTGAATACGTTTTGACAAGC 59.529 34.615 0.00 0.00 0.00 4.01
25 26 7.985634 TTGAAACAAGCTCACTTTTGAATAC 57.014 32.000 0.00 0.00 32.29 1.89
53 54 6.514541 GCATATTCATGTTCCTTGTGATGAGG 60.515 42.308 0.00 0.00 34.40 3.86
174 175 5.880054 ATAATTTTTGTCGGAGAGTGTGG 57.120 39.130 0.00 0.00 36.95 4.17
184 185 7.747357 AGCTTTTGGTACGTATAATTTTTGTCG 59.253 33.333 0.00 0.00 0.00 4.35
192 193 6.317642 TGAATGCAGCTTTTGGTACGTATAAT 59.682 34.615 0.00 0.00 0.00 1.28
196 197 3.403968 TGAATGCAGCTTTTGGTACGTA 58.596 40.909 0.00 0.00 0.00 3.57
197 198 2.226330 TGAATGCAGCTTTTGGTACGT 58.774 42.857 0.00 0.00 0.00 3.57
198 199 2.987413 TGAATGCAGCTTTTGGTACG 57.013 45.000 0.00 0.00 0.00 3.67
199 200 4.808558 TGAATGAATGCAGCTTTTGGTAC 58.191 39.130 0.00 0.00 0.00 3.34
229 230 8.621286 AGATTCGGAATGTGGTTTTATGATTAC 58.379 33.333 8.18 0.00 0.00 1.89
236 237 5.106869 CGTTGAGATTCGGAATGTGGTTTTA 60.107 40.000 8.18 0.00 0.00 1.52
241 242 1.062587 GCGTTGAGATTCGGAATGTGG 59.937 52.381 8.18 0.00 0.00 4.17
245 246 2.271800 GACTGCGTTGAGATTCGGAAT 58.728 47.619 2.19 2.19 0.00 3.01
250 251 2.448726 GCATGACTGCGTTGAGATTC 57.551 50.000 0.00 0.00 38.92 2.52
284 285 2.279517 GATCTGTGGCGCGTAGGG 60.280 66.667 8.43 0.00 46.11 3.53
290 291 1.587613 GAGAGACGATCTGTGGCGC 60.588 63.158 0.00 0.00 38.84 6.53
308 309 1.948104 TGTTCTCCAACACAACTCGG 58.052 50.000 0.00 0.00 37.61 4.63
331 332 6.970484 ACAAAGCTTGGTGTCAAAATACTAG 58.030 36.000 5.44 0.00 31.77 2.57
403 1282 4.093261 GCACATGTTTGAAACAAAAGCACT 59.907 37.500 15.31 0.00 45.86 4.40
404 1283 4.093261 AGCACATGTTTGAAACAAAAGCAC 59.907 37.500 23.66 10.88 45.86 4.40
405 1284 4.252073 AGCACATGTTTGAAACAAAAGCA 58.748 34.783 23.66 1.53 45.86 3.91
449 1328 5.063944 GCGAACTTTGCTAAATCTGATCTGA 59.936 40.000 4.63 4.63 0.00 3.27
450 1329 5.064452 AGCGAACTTTGCTAAATCTGATCTG 59.936 40.000 1.22 0.00 41.87 2.90
451 1330 5.181748 AGCGAACTTTGCTAAATCTGATCT 58.818 37.500 1.22 0.00 41.87 2.75
452 1331 5.063944 TGAGCGAACTTTGCTAAATCTGATC 59.936 40.000 3.30 0.00 44.18 2.92
453 1332 4.937620 TGAGCGAACTTTGCTAAATCTGAT 59.062 37.500 3.30 0.00 44.18 2.90
498 1378 1.247567 GAGTGGGGTGTTTGGATGTG 58.752 55.000 0.00 0.00 0.00 3.21
741 1626 2.202544 CCGTCTGCGAGTCTGCTC 60.203 66.667 8.13 0.00 41.33 4.26
849 1744 4.074526 TGAGGCGACTGAGCAGGC 62.075 66.667 0.00 0.00 44.43 4.85
957 1852 2.644212 CCGACACTCTCCAGCAGCT 61.644 63.158 0.00 0.00 0.00 4.24
996 1891 2.341911 CCAACCGGCGCCATTTTT 59.658 55.556 28.98 10.22 0.00 1.94
997 1892 2.915137 ACCAACCGGCGCCATTTT 60.915 55.556 28.98 13.03 34.57 1.82
1103 1998 1.383248 GAAGGAGGGGAGCTAGCCA 60.383 63.158 12.13 0.00 0.00 4.75
1140 2044 2.717390 CACGAGAAAGAGAGAGAGGGA 58.283 52.381 0.00 0.00 0.00 4.20
1141 2045 1.134175 GCACGAGAAAGAGAGAGAGGG 59.866 57.143 0.00 0.00 0.00 4.30
1363 2268 5.359292 AGCTTCCTAAATTGGCTTCAGAATC 59.641 40.000 0.00 0.00 0.00 2.52
1377 2287 6.013379 CCCACAGATATGGATAGCTTCCTAAA 60.013 42.308 13.76 3.16 45.68 1.85
1478 2392 1.133761 CCTCCTGGACAGATCTACCGA 60.134 57.143 11.76 5.20 34.57 4.69
1481 2395 2.757894 TCCCTCCTGGACAGATCTAC 57.242 55.000 0.00 0.00 38.61 2.59
1534 2461 2.344950 CTGGACACTTTCTAGCAGCAG 58.655 52.381 0.00 0.00 0.00 4.24
1600 2626 9.128107 GAAACAAAAACACACCAGATACATATG 57.872 33.333 0.00 0.00 0.00 1.78
1601 2627 8.855110 TGAAACAAAAACACACCAGATACATAT 58.145 29.630 0.00 0.00 0.00 1.78
1602 2628 8.226819 TGAAACAAAAACACACCAGATACATA 57.773 30.769 0.00 0.00 0.00 2.29
1603 2629 7.106439 TGAAACAAAAACACACCAGATACAT 57.894 32.000 0.00 0.00 0.00 2.29
1627 2681 8.996655 AGGGTGCATACATCAGATACATATATT 58.003 33.333 0.00 0.00 0.00 1.28
1835 2965 6.841229 TCATTTAGATCACTGATGGGAGTAGT 59.159 38.462 0.00 0.00 0.00 2.73
1836 2966 7.295322 TCATTTAGATCACTGATGGGAGTAG 57.705 40.000 0.00 0.00 0.00 2.57
1837 2967 7.862274 ATCATTTAGATCACTGATGGGAGTA 57.138 36.000 0.00 0.00 28.20 2.59
1838 2968 6.760440 ATCATTTAGATCACTGATGGGAGT 57.240 37.500 0.00 0.00 28.20 3.85
1855 2985 8.893727 CCTCCGTAAAGAAATGTAAGATCATTT 58.106 33.333 0.00 4.66 46.41 2.32
1856 2986 7.499232 CCCTCCGTAAAGAAATGTAAGATCATT 59.501 37.037 0.00 0.00 39.35 2.57
1857 2987 6.992715 CCCTCCGTAAAGAAATGTAAGATCAT 59.007 38.462 0.00 0.00 0.00 2.45
1858 2988 6.155565 TCCCTCCGTAAAGAAATGTAAGATCA 59.844 38.462 0.00 0.00 0.00 2.92
1859 2989 6.579865 TCCCTCCGTAAAGAAATGTAAGATC 58.420 40.000 0.00 0.00 0.00 2.75
1860 2990 6.156429 ACTCCCTCCGTAAAGAAATGTAAGAT 59.844 38.462 0.00 0.00 0.00 2.40
1861 2991 5.482878 ACTCCCTCCGTAAAGAAATGTAAGA 59.517 40.000 0.00 0.00 0.00 2.10
1862 2992 5.731591 ACTCCCTCCGTAAAGAAATGTAAG 58.268 41.667 0.00 0.00 0.00 2.34
1863 2993 5.750352 ACTCCCTCCGTAAAGAAATGTAA 57.250 39.130 0.00 0.00 0.00 2.41
1864 2994 5.163478 GCTACTCCCTCCGTAAAGAAATGTA 60.163 44.000 0.00 0.00 0.00 2.29
1865 2995 4.382793 GCTACTCCCTCCGTAAAGAAATGT 60.383 45.833 0.00 0.00 0.00 2.71
1866 2996 4.120589 GCTACTCCCTCCGTAAAGAAATG 58.879 47.826 0.00 0.00 0.00 2.32
1867 2997 3.773119 TGCTACTCCCTCCGTAAAGAAAT 59.227 43.478 0.00 0.00 0.00 2.17
1868 2998 3.167485 TGCTACTCCCTCCGTAAAGAAA 58.833 45.455 0.00 0.00 0.00 2.52
1869 2999 2.811410 TGCTACTCCCTCCGTAAAGAA 58.189 47.619 0.00 0.00 0.00 2.52
1870 3000 2.519771 TGCTACTCCCTCCGTAAAGA 57.480 50.000 0.00 0.00 0.00 2.52
1871 3001 2.224066 CCATGCTACTCCCTCCGTAAAG 60.224 54.545 0.00 0.00 0.00 1.85
1872 3002 1.760613 CCATGCTACTCCCTCCGTAAA 59.239 52.381 0.00 0.00 0.00 2.01
1873 3003 1.410004 CCATGCTACTCCCTCCGTAA 58.590 55.000 0.00 0.00 0.00 3.18
1874 3004 1.113517 GCCATGCTACTCCCTCCGTA 61.114 60.000 0.00 0.00 0.00 4.02
1875 3005 2.435693 GCCATGCTACTCCCTCCGT 61.436 63.158 0.00 0.00 0.00 4.69
1876 3006 0.827925 TAGCCATGCTACTCCCTCCG 60.828 60.000 0.00 0.00 40.44 4.63
1877 3007 1.424638 TTAGCCATGCTACTCCCTCC 58.575 55.000 0.00 0.00 41.12 4.30
1878 3008 4.891992 TTATTAGCCATGCTACTCCCTC 57.108 45.455 0.00 0.00 41.12 4.30
1879 3009 5.515534 CCAATTATTAGCCATGCTACTCCCT 60.516 44.000 0.00 0.00 41.12 4.20
1880 3010 4.702131 CCAATTATTAGCCATGCTACTCCC 59.298 45.833 0.00 0.00 41.12 4.30
1881 3011 5.316987 ACCAATTATTAGCCATGCTACTCC 58.683 41.667 0.00 0.00 41.12 3.85
1882 3012 6.884280 AACCAATTATTAGCCATGCTACTC 57.116 37.500 0.00 0.00 41.12 2.59
1899 3029 4.744795 TGTGGCAAAGTTTGTAACCAAT 57.255 36.364 16.70 0.00 0.00 3.16
1930 3060 5.437060 CTGGTAATTGTACTTGGTGGCTAT 58.563 41.667 0.00 0.00 0.00 2.97
2111 3245 0.762842 CCCCCACCATCGACCAGATA 60.763 60.000 0.00 0.00 37.52 1.98
2273 3407 3.758554 CTGGGTCCTGGTTAAATGTCTTG 59.241 47.826 0.00 0.00 0.00 3.02
2390 3524 1.536907 ACATGTGTACCCCGGACCA 60.537 57.895 0.73 0.00 0.00 4.02
3002 6008 2.631428 CACGTTGGGCAGTTCACG 59.369 61.111 0.00 0.00 0.00 4.35
3140 6155 7.201609 GCGAATTGTCACTGTAAAATGGATAGA 60.202 37.037 0.00 0.00 0.00 1.98
3252 6267 2.029623 AGCTTCACATGCCAATGGATC 58.970 47.619 2.05 0.00 38.19 3.36
3508 6537 2.710377 CGGTGTCATCTGAAATGGGAA 58.290 47.619 0.00 0.00 0.00 3.97
3710 6754 2.930950 GCACTAGGCAACCATGGATAA 58.069 47.619 21.47 0.00 43.97 1.75
3740 6784 3.132111 GGAGTGTCCATGGTTGTTTTGTT 59.868 43.478 12.58 0.00 36.28 2.83
3773 6817 1.123077 TAGCCATCGCAGTCCAGAAT 58.877 50.000 0.00 0.00 37.52 2.40
3786 6830 2.806945 TAAGCCAGCAAAGTAGCCAT 57.193 45.000 0.00 0.00 34.23 4.40
3820 6864 3.089284 TCGCTGGATCTCTTGTAACTCA 58.911 45.455 0.00 0.00 0.00 3.41
3823 6867 2.159170 AGCTCGCTGGATCTCTTGTAAC 60.159 50.000 0.00 0.00 0.00 2.50
3824 6868 2.103373 AGCTCGCTGGATCTCTTGTAA 58.897 47.619 0.00 0.00 0.00 2.41
3825 6869 1.769026 AGCTCGCTGGATCTCTTGTA 58.231 50.000 0.00 0.00 0.00 2.41
3835 6882 3.468007 CGACTTGAAGCTCGCTGG 58.532 61.111 0.00 0.00 0.00 4.85
3999 7056 4.056050 GTTTCGTGGCCAGTATATACCAG 58.944 47.826 5.11 2.59 31.46 4.00
4016 7073 7.123830 CAGTAACTAAGTTCACCAAAGTTTCG 58.876 38.462 0.00 0.00 32.66 3.46
4041 7098 6.792326 GTGCAACCATAATTACCTAAGTTCC 58.208 40.000 0.00 0.00 0.00 3.62
4106 7163 7.418337 TCACTACAAGAAAGGCAGTCATATA 57.582 36.000 0.00 0.00 0.00 0.86
4173 7230 1.699083 TCAACCAACAGCATCCTCTCA 59.301 47.619 0.00 0.00 0.00 3.27
4225 7287 2.851824 CTCTTGCACGTGTTTGAAAACC 59.148 45.455 18.38 0.00 38.11 3.27
4231 7294 4.009798 TGTTAACTCTTGCACGTGTTTG 57.990 40.909 18.38 7.41 0.00 2.93
4237 7300 5.342806 TGATTCTTGTTAACTCTTGCACG 57.657 39.130 7.22 0.00 0.00 5.34
4242 7305 8.686334 TGCTTCTTTTGATTCTTGTTAACTCTT 58.314 29.630 7.22 0.00 0.00 2.85
4257 7320 1.408702 GTTGCCCTGTGCTTCTTTTGA 59.591 47.619 0.00 0.00 42.00 2.69
4258 7321 1.136695 TGTTGCCCTGTGCTTCTTTTG 59.863 47.619 0.00 0.00 42.00 2.44
4259 7322 1.484038 TGTTGCCCTGTGCTTCTTTT 58.516 45.000 0.00 0.00 42.00 2.27
4260 7323 1.136891 GTTGTTGCCCTGTGCTTCTTT 59.863 47.619 0.00 0.00 42.00 2.52
4261 7324 0.746659 GTTGTTGCCCTGTGCTTCTT 59.253 50.000 0.00 0.00 42.00 2.52
4262 7325 0.395586 TGTTGTTGCCCTGTGCTTCT 60.396 50.000 0.00 0.00 42.00 2.85
4263 7326 0.459489 TTGTTGTTGCCCTGTGCTTC 59.541 50.000 0.00 0.00 42.00 3.86
4264 7327 0.461135 CTTGTTGTTGCCCTGTGCTT 59.539 50.000 0.00 0.00 42.00 3.91
4265 7328 0.395586 TCTTGTTGTTGCCCTGTGCT 60.396 50.000 0.00 0.00 42.00 4.40
4266 7329 0.459489 TTCTTGTTGTTGCCCTGTGC 59.541 50.000 0.00 0.00 41.77 4.57
4267 7330 2.361757 TGATTCTTGTTGTTGCCCTGTG 59.638 45.455 0.00 0.00 0.00 3.66
4268 7331 2.665165 TGATTCTTGTTGTTGCCCTGT 58.335 42.857 0.00 0.00 0.00 4.00
4269 7332 3.731652 TTGATTCTTGTTGTTGCCCTG 57.268 42.857 0.00 0.00 0.00 4.45
4270 7333 4.405358 TCTTTTGATTCTTGTTGTTGCCCT 59.595 37.500 0.00 0.00 0.00 5.19
4271 7334 4.692228 TCTTTTGATTCTTGTTGTTGCCC 58.308 39.130 0.00 0.00 0.00 5.36
4272 7335 5.277011 GCTTCTTTTGATTCTTGTTGTTGCC 60.277 40.000 0.00 0.00 0.00 4.52
4273 7336 5.291614 TGCTTCTTTTGATTCTTGTTGTTGC 59.708 36.000 0.00 0.00 0.00 4.17
4274 7337 6.310956 TGTGCTTCTTTTGATTCTTGTTGTTG 59.689 34.615 0.00 0.00 0.00 3.33
4275 7338 6.397272 TGTGCTTCTTTTGATTCTTGTTGTT 58.603 32.000 0.00 0.00 0.00 2.83
4276 7339 5.964758 TGTGCTTCTTTTGATTCTTGTTGT 58.035 33.333 0.00 0.00 0.00 3.32
4277 7340 5.461078 CCTGTGCTTCTTTTGATTCTTGTTG 59.539 40.000 0.00 0.00 0.00 3.33
4278 7341 5.360714 TCCTGTGCTTCTTTTGATTCTTGTT 59.639 36.000 0.00 0.00 0.00 2.83
4279 7342 4.889409 TCCTGTGCTTCTTTTGATTCTTGT 59.111 37.500 0.00 0.00 0.00 3.16
4280 7343 5.218139 GTCCTGTGCTTCTTTTGATTCTTG 58.782 41.667 0.00 0.00 0.00 3.02
4281 7344 4.889409 TGTCCTGTGCTTCTTTTGATTCTT 59.111 37.500 0.00 0.00 0.00 2.52
4282 7345 4.464008 TGTCCTGTGCTTCTTTTGATTCT 58.536 39.130 0.00 0.00 0.00 2.40
4283 7346 4.836125 TGTCCTGTGCTTCTTTTGATTC 57.164 40.909 0.00 0.00 0.00 2.52
4284 7347 4.402155 TGTTGTCCTGTGCTTCTTTTGATT 59.598 37.500 0.00 0.00 0.00 2.57
4285 7348 3.953612 TGTTGTCCTGTGCTTCTTTTGAT 59.046 39.130 0.00 0.00 0.00 2.57
4326 7389 6.518493 AGTTTTGTGATCTTAGGTACGTTCA 58.482 36.000 0.00 0.00 0.00 3.18
4327 7390 8.699283 ATAGTTTTGTGATCTTAGGTACGTTC 57.301 34.615 0.00 0.00 0.00 3.95
4344 7407 9.950680 CCCTATTTGCTGTACATTATAGTTTTG 57.049 33.333 0.00 0.00 0.00 2.44
4350 7413 7.457561 TCATGCCCTATTTGCTGTACATTATA 58.542 34.615 0.00 0.00 0.00 0.98
4371 7434 3.553508 CCTCCACTTGCAGGTTTTTCATG 60.554 47.826 0.00 0.00 0.00 3.07
4372 7435 2.629617 CCTCCACTTGCAGGTTTTTCAT 59.370 45.455 0.00 0.00 0.00 2.57
4373 7436 2.031120 CCTCCACTTGCAGGTTTTTCA 58.969 47.619 0.00 0.00 0.00 2.69
4374 7437 1.341209 CCCTCCACTTGCAGGTTTTTC 59.659 52.381 0.00 0.00 0.00 2.29
4375 7438 1.063266 TCCCTCCACTTGCAGGTTTTT 60.063 47.619 0.00 0.00 0.00 1.94
4379 7442 1.462238 AGTCCCTCCACTTGCAGGT 60.462 57.895 0.00 0.00 0.00 4.00
4380 7443 1.002868 CAGTCCCTCCACTTGCAGG 60.003 63.158 0.00 0.00 0.00 4.85
4381 7444 1.673665 GCAGTCCCTCCACTTGCAG 60.674 63.158 0.00 0.00 0.00 4.41
4383 7446 1.376553 GAGCAGTCCCTCCACTTGC 60.377 63.158 0.00 0.00 0.00 4.01
4385 7448 2.114616 CATAGAGCAGTCCCTCCACTT 58.885 52.381 0.00 0.00 32.17 3.16
4386 7449 1.786937 CATAGAGCAGTCCCTCCACT 58.213 55.000 0.00 0.00 32.17 4.00
4387 7450 0.105778 GCATAGAGCAGTCCCTCCAC 59.894 60.000 0.00 0.00 44.79 4.02
4429 7747 7.453034 CATTTTCTTATCAAAACATGCTGCAG 58.547 34.615 10.11 10.11 0.00 4.41
4470 7788 5.809001 ACTGCAAAGATGGAAGATAACTGA 58.191 37.500 0.00 0.00 0.00 3.41
4485 7803 3.058432 CAGTTGGTGAGATGACTGCAAAG 60.058 47.826 0.00 0.00 33.87 2.77
4509 7827 8.349983 TGCTTTTAGGTTTGTCTACAAGATTTC 58.650 33.333 0.00 0.00 37.15 2.17
4529 7847 2.738013 GCTCAATGCTTCCTGCTTTT 57.262 45.000 0.00 0.00 43.37 2.27
4578 7899 4.962362 TCCATGGCTTCTGTTGTAGATCTA 59.038 41.667 6.96 0.00 34.80 1.98
4637 7958 6.260271 AGAAAACAAGGCAGTGTAGTAGAAAC 59.740 38.462 0.00 0.00 0.00 2.78
4650 7971 2.878406 CGAGGAAGAAGAAAACAAGGCA 59.122 45.455 0.00 0.00 0.00 4.75
4656 7977 6.183360 GCTTATCACTCGAGGAAGAAGAAAAC 60.183 42.308 20.97 5.90 0.00 2.43
4659 7980 4.707448 AGCTTATCACTCGAGGAAGAAGAA 59.293 41.667 20.97 12.08 0.00 2.52
4661 7982 4.338118 AGAGCTTATCACTCGAGGAAGAAG 59.662 45.833 18.41 16.56 39.23 2.85
4670 7995 4.036262 AGCAGACTAAGAGCTTATCACTCG 59.964 45.833 0.00 0.00 39.23 4.18
4680 8005 5.474825 AGTCTTGTAAAGCAGACTAAGAGC 58.525 41.667 0.54 0.00 45.70 4.09
4711 8037 0.743688 TTTGGCACTCGCACACAAAT 59.256 45.000 0.00 0.00 41.24 2.32
4720 8046 1.205064 CAGAGCGTTTTGGCACTCG 59.795 57.895 0.00 0.00 31.25 4.18
4732 8058 2.138320 TCAGAACTTTTCAGCAGAGCG 58.862 47.619 0.00 0.00 0.00 5.03
4735 8061 5.882557 AGTTTCTTCAGAACTTTTCAGCAGA 59.117 36.000 0.00 0.00 33.13 4.26
4741 8067 4.737279 GCAGCAGTTTCTTCAGAACTTTTC 59.263 41.667 0.00 0.00 33.13 2.29
4765 8091 1.211703 TCCTGAAAACCAGCTCACACA 59.788 47.619 0.00 0.00 41.57 3.72
4791 8117 0.321298 TCTGGCTTTCAGGTAACCGC 60.321 55.000 0.00 0.00 43.53 5.68
4793 8119 3.073274 ACATCTGGCTTTCAGGTAACC 57.927 47.619 0.00 0.00 43.53 2.85


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

AutoCloner maintained by Alex Coulton.