Multiple sequence alignment - TraesCS3D01G208900
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 | TraesCS3D01G208900 | chr3D | 100.000 | 5791 | 0 | 0 | 1 | 5791 | 275993913 | 275999703 | 0.000000e+00 | 10695.0 |
1 | TraesCS3D01G208900 | chr3D | 100.000 | 41 | 0 | 0 | 5468 | 5508 | 275999340 | 275999380 | 6.220000e-10 | 76.8 |
2 | TraesCS3D01G208900 | chr3D | 100.000 | 41 | 0 | 0 | 5428 | 5468 | 275999380 | 275999420 | 6.220000e-10 | 76.8 |
3 | TraesCS3D01G208900 | chr3B | 96.976 | 3406 | 68 | 13 | 1826 | 5209 | 375499579 | 375496187 | 0.000000e+00 | 5686.0 |
4 | TraesCS3D01G208900 | chr3B | 93.525 | 973 | 42 | 13 | 767 | 1737 | 375500531 | 375499578 | 0.000000e+00 | 1428.0 |
5 | TraesCS3D01G208900 | chr3B | 96.914 | 324 | 10 | 0 | 5468 | 5791 | 375494400 | 375494077 | 1.420000e-150 | 544.0 |
6 | TraesCS3D01G208900 | chr3B | 88.614 | 404 | 21 | 10 | 248 | 637 | 375528349 | 375527957 | 8.790000e-128 | 468.0 |
7 | TraesCS3D01G208900 | chr3B | 96.667 | 270 | 6 | 1 | 5202 | 5468 | 375494629 | 375494360 | 4.120000e-121 | 446.0 |
8 | TraesCS3D01G208900 | chr3B | 89.683 | 252 | 19 | 6 | 2032 | 2281 | 799775926 | 799776172 | 1.210000e-81 | 315.0 |
9 | TraesCS3D01G208900 | chr3B | 92.891 | 211 | 14 | 1 | 1 | 211 | 375528558 | 375528349 | 7.290000e-79 | 305.0 |
10 | TraesCS3D01G208900 | chr3B | 96.842 | 95 | 3 | 0 | 1735 | 1829 | 187150399 | 187150493 | 6.010000e-35 | 159.0 |
11 | TraesCS3D01G208900 | chr3B | 85.906 | 149 | 21 | 0 | 1589 | 1737 | 799775767 | 799775915 | 6.010000e-35 | 159.0 |
12 | TraesCS3D01G208900 | chr3B | 95.789 | 95 | 4 | 0 | 1736 | 1830 | 187150491 | 187150397 | 2.790000e-33 | 154.0 |
13 | TraesCS3D01G208900 | chr3B | 80.588 | 170 | 21 | 9 | 628 | 787 | 375500708 | 375500541 | 2.830000e-23 | 121.0 |
14 | TraesCS3D01G208900 | chr3A | 95.313 | 3350 | 108 | 20 | 1826 | 5143 | 364197519 | 364194187 | 0.000000e+00 | 5271.0 |
15 | TraesCS3D01G208900 | chr3A | 90.735 | 1565 | 92 | 29 | 210 | 1737 | 364199066 | 364197518 | 0.000000e+00 | 2037.0 |
16 | TraesCS3D01G208900 | chr3A | 92.400 | 250 | 14 | 5 | 2034 | 2281 | 688140713 | 688140959 | 9.230000e-93 | 351.0 |
17 | TraesCS3D01G208900 | chr3A | 89.032 | 155 | 17 | 0 | 1583 | 1737 | 688140546 | 688140700 | 5.920000e-45 | 193.0 |
18 | TraesCS3D01G208900 | chr3A | 81.893 | 243 | 26 | 7 | 1304 | 1543 | 688140318 | 688140545 | 7.660000e-44 | 189.0 |
19 | TraesCS3D01G208900 | chr3A | 92.391 | 92 | 5 | 2 | 122 | 213 | 364386325 | 364386236 | 4.710000e-26 | 130.0 |
20 | TraesCS3D01G208900 | chr1B | 91.165 | 249 | 19 | 3 | 2034 | 2281 | 248235135 | 248235381 | 9.300000e-88 | 335.0 |
21 | TraesCS3D01G208900 | chr1B | 81.377 | 247 | 24 | 8 | 1304 | 1543 | 248234739 | 248234970 | 1.280000e-41 | 182.0 |
22 | TraesCS3D01G208900 | chr1B | 87.692 | 130 | 12 | 2 | 1118 | 1247 | 248234594 | 248234719 | 1.300000e-31 | 148.0 |
23 | TraesCS3D01G208900 | chr1B | 92.593 | 54 | 4 | 0 | 1194 | 1247 | 688997139 | 688997192 | 1.730000e-10 | 78.7 |
24 | TraesCS3D01G208900 | chr1A | 91.770 | 243 | 16 | 4 | 2040 | 2281 | 9819172 | 9818933 | 9.300000e-88 | 335.0 |
25 | TraesCS3D01G208900 | chr1A | 83.128 | 243 | 22 | 8 | 1304 | 1543 | 9819571 | 9819345 | 2.740000e-48 | 204.0 |
26 | TraesCS3D01G208900 | chr1A | 84.211 | 133 | 17 | 2 | 1118 | 1250 | 9819716 | 9819588 | 6.090000e-25 | 126.0 |
27 | TraesCS3D01G208900 | chr1A | 88.043 | 92 | 10 | 1 | 991 | 1082 | 591157541 | 591157451 | 2.210000e-19 | 108.0 |
28 | TraesCS3D01G208900 | chrUn | 90.000 | 250 | 25 | 0 | 2032 | 2281 | 90339621 | 90339870 | 2.010000e-84 | 324.0 |
29 | TraesCS3D01G208900 | chrUn | 90.000 | 250 | 25 | 0 | 2032 | 2281 | 290523846 | 290524095 | 2.010000e-84 | 324.0 |
30 | TraesCS3D01G208900 | chrUn | 81.148 | 244 | 23 | 10 | 1304 | 1543 | 90339245 | 90339469 | 2.140000e-39 | 174.0 |
31 | TraesCS3D01G208900 | chrUn | 81.148 | 244 | 23 | 10 | 1304 | 1543 | 290523470 | 290523694 | 2.140000e-39 | 174.0 |
32 | TraesCS3D01G208900 | chr6B | 89.286 | 252 | 21 | 5 | 2032 | 2281 | 337884740 | 337884987 | 1.570000e-80 | 311.0 |
33 | TraesCS3D01G208900 | chr6B | 81.609 | 174 | 16 | 6 | 1359 | 1531 | 337884423 | 337884581 | 4.710000e-26 | 130.0 |
34 | TraesCS3D01G208900 | chr6B | 86.022 | 93 | 11 | 2 | 1283 | 1373 | 337876249 | 337876341 | 1.330000e-16 | 99.0 |
35 | TraesCS3D01G208900 | chr4B | 82.661 | 248 | 23 | 10 | 1292 | 1536 | 97560312 | 97560082 | 9.840000e-48 | 202.0 |
36 | TraesCS3D01G208900 | chr7A | 95.000 | 100 | 5 | 0 | 1736 | 1835 | 125149693 | 125149792 | 2.160000e-34 | 158.0 |
37 | TraesCS3D01G208900 | chr7A | 92.593 | 54 | 4 | 0 | 1194 | 1247 | 37300361 | 37300308 | 1.730000e-10 | 78.7 |
38 | TraesCS3D01G208900 | chr7D | 94.175 | 103 | 3 | 2 | 1734 | 1833 | 635688981 | 635688879 | 2.790000e-33 | 154.0 |
39 | TraesCS3D01G208900 | chr7D | 94.175 | 103 | 3 | 2 | 1734 | 1833 | 636310156 | 636310258 | 2.790000e-33 | 154.0 |
40 | TraesCS3D01G208900 | chr7D | 100.000 | 32 | 0 | 0 | 288 | 319 | 59616718 | 59616687 | 6.270000e-05 | 60.2 |
41 | TraesCS3D01G208900 | chr2B | 95.833 | 96 | 2 | 1 | 1736 | 1829 | 206371277 | 206371182 | 2.790000e-33 | 154.0 |
42 | TraesCS3D01G208900 | chr6D | 94.845 | 97 | 4 | 1 | 1735 | 1831 | 431311851 | 431311756 | 3.610000e-32 | 150.0 |
43 | TraesCS3D01G208900 | chr6D | 91.150 | 113 | 4 | 3 | 1736 | 1843 | 428262041 | 428262152 | 1.300000e-31 | 148.0 |
44 | TraesCS3D01G208900 | chr5A | 89.565 | 115 | 8 | 2 | 1729 | 1839 | 230755588 | 230755702 | 6.050000e-30 | 143.0 |
45 | TraesCS3D01G208900 | chr1D | 92.593 | 54 | 4 | 0 | 1194 | 1247 | 492650295 | 492650242 | 1.730000e-10 | 78.7 |
46 | TraesCS3D01G208900 | chr7B | 88.889 | 54 | 6 | 0 | 1194 | 1247 | 689887697 | 689887644 | 3.740000e-07 | 67.6 |
47 | TraesCS3D01G208900 | chr5D | 94.737 | 38 | 2 | 0 | 288 | 325 | 444710131 | 444710094 | 6.270000e-05 | 60.2 |
48 | TraesCS3D01G208900 | chr2D | 100.000 | 32 | 0 | 0 | 288 | 319 | 569433464 | 569433433 | 6.270000e-05 | 60.2 |
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 | TraesCS3D01G208900 | chr3D | 275993913 | 275999703 | 5790 | False | 3616.200000 | 10695 | 100.000000 | 1 | 5791 | 3 | chr3D.!!$F1 | 5790 |
1 | TraesCS3D01G208900 | chr3B | 375494077 | 375500708 | 6631 | True | 1645.000000 | 5686 | 92.934000 | 628 | 5791 | 5 | chr3B.!!$R2 | 5163 |
2 | TraesCS3D01G208900 | chr3B | 375527957 | 375528558 | 601 | True | 386.500000 | 468 | 90.752500 | 1 | 637 | 2 | chr3B.!!$R3 | 636 |
3 | TraesCS3D01G208900 | chr3A | 364194187 | 364199066 | 4879 | True | 3654.000000 | 5271 | 93.024000 | 210 | 5143 | 2 | chr3A.!!$R2 | 4933 |
4 | TraesCS3D01G208900 | chr3A | 688140318 | 688140959 | 641 | False | 244.333333 | 351 | 87.775000 | 1304 | 2281 | 3 | chr3A.!!$F1 | 977 |
5 | TraesCS3D01G208900 | chr1B | 248234594 | 248235381 | 787 | False | 221.666667 | 335 | 86.744667 | 1118 | 2281 | 3 | chr1B.!!$F2 | 1163 |
6 | TraesCS3D01G208900 | chr1A | 9818933 | 9819716 | 783 | True | 221.666667 | 335 | 86.369667 | 1118 | 2281 | 3 | chr1A.!!$R2 | 1163 |
7 | TraesCS3D01G208900 | chrUn | 90339245 | 90339870 | 625 | False | 249.000000 | 324 | 85.574000 | 1304 | 2281 | 2 | chrUn.!!$F1 | 977 |
8 | TraesCS3D01G208900 | chrUn | 290523470 | 290524095 | 625 | False | 249.000000 | 324 | 85.574000 | 1304 | 2281 | 2 | chrUn.!!$F2 | 977 |
9 | TraesCS3D01G208900 | chr6B | 337884423 | 337884987 | 564 | False | 220.500000 | 311 | 85.447500 | 1359 | 2281 | 2 | chr6B.!!$F2 | 922 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
414 | 420 | 1.439679 | GGGTGTGAACTCGGATGAAC | 58.560 | 55.000 | 0.0 | 0.0 | 0.00 | 3.18 | F |
1151 | 1222 | 0.961019 | TTGTGCTGATTCTGTTGGGC | 59.039 | 50.000 | 0.0 | 0.0 | 0.00 | 5.36 | F |
1752 | 1851 | 1.286849 | TGATACTCCCTCCGTTCCAGA | 59.713 | 52.381 | 0.0 | 0.0 | 0.00 | 3.86 | F |
1757 | 1856 | 2.024273 | ACTCCCTCCGTTCCAGAATAGA | 60.024 | 50.000 | 0.0 | 0.0 | 0.00 | 1.98 | F |
1831 | 1930 | 2.108168 | TGGAACGGAGGAAGTAGATGG | 58.892 | 52.381 | 0.0 | 0.0 | 0.00 | 3.51 | F |
3777 | 3885 | 1.663702 | GACCAGTGTTCCACGACGG | 60.664 | 63.158 | 0.0 | 0.0 | 39.64 | 4.79 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1830 | 1929 | 0.107165 | GAGGTGGATGGGCTGTTACC | 60.107 | 60.000 | 0.00 | 0.0 | 0.00 | 2.85 | R |
2009 | 2108 | 2.295349 | CTGAACAGAACAAAGCCTGCAT | 59.705 | 45.455 | 0.00 | 0.0 | 33.90 | 3.96 | R |
3374 | 3477 | 0.106918 | AAGTGGCAACCTTCCGTTCA | 60.107 | 50.000 | 0.00 | 0.0 | 29.93 | 3.18 | R |
3384 | 3487 | 2.622942 | TCACCTCAATTGAAGTGGCAAC | 59.377 | 45.455 | 28.49 | 0.0 | 37.17 | 4.17 | R |
3808 | 3916 | 0.179234 | TCCACGGACAAGTGCAGAAA | 59.821 | 50.000 | 0.00 | 0.0 | 40.59 | 2.52 | R |
5270 | 6977 | 0.173708 | TTTTGGCAACCAACACGTCC | 59.826 | 50.000 | 0.00 | 0.0 | 43.82 | 4.79 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
56 | 57 | 5.712152 | AAAGACTAAAACAGATTGGCCAG | 57.288 | 39.130 | 5.11 | 0.00 | 0.00 | 4.85 |
127 | 128 | 6.069963 | ACCTAGATTAAGCCACTCAATCACTT | 60.070 | 38.462 | 0.00 | 0.00 | 32.27 | 3.16 |
129 | 130 | 7.337942 | CCTAGATTAAGCCACTCAATCACTTTT | 59.662 | 37.037 | 0.00 | 0.00 | 32.27 | 2.27 |
148 | 149 | 6.366332 | CACTTTTTGAGCCAGTACTACACTAG | 59.634 | 42.308 | 0.00 | 0.00 | 34.98 | 2.57 |
166 | 167 | 9.429359 | CTACACTAGTCAATCACTTTTCTGATT | 57.571 | 33.333 | 0.00 | 0.00 | 40.81 | 2.57 |
224 | 225 | 6.570692 | AGTACTACACTAAATCGGTCATTGG | 58.429 | 40.000 | 0.00 | 0.00 | 34.98 | 3.16 |
227 | 228 | 6.938507 | ACTACACTAAATCGGTCATTGGTAA | 58.061 | 36.000 | 0.00 | 0.00 | 0.00 | 2.85 |
228 | 229 | 6.815142 | ACTACACTAAATCGGTCATTGGTAAC | 59.185 | 38.462 | 0.00 | 0.00 | 0.00 | 2.50 |
235 | 236 | 6.557291 | AATCGGTCATTGGTAACGTAAAAA | 57.443 | 33.333 | 0.00 | 0.00 | 42.51 | 1.94 |
325 | 331 | 5.957842 | TTGAGCGACAACTAATTTGGATT | 57.042 | 34.783 | 0.00 | 0.00 | 39.84 | 3.01 |
367 | 373 | 8.713708 | TTGGGTAACATAAAAAGAAATCTCCA | 57.286 | 30.769 | 0.00 | 0.00 | 39.74 | 3.86 |
414 | 420 | 1.439679 | GGGTGTGAACTCGGATGAAC | 58.560 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
477 | 486 | 8.707796 | TGACTTTTTATAAACATTGGTGGGTA | 57.292 | 30.769 | 0.00 | 0.00 | 0.00 | 3.69 |
486 | 495 | 4.470334 | ACATTGGTGGGTATTTCATTGC | 57.530 | 40.909 | 0.00 | 0.00 | 0.00 | 3.56 |
487 | 496 | 3.119173 | ACATTGGTGGGTATTTCATTGCG | 60.119 | 43.478 | 0.00 | 0.00 | 0.00 | 4.85 |
490 | 499 | 2.294074 | GGTGGGTATTTCATTGCGCTA | 58.706 | 47.619 | 9.73 | 0.00 | 0.00 | 4.26 |
491 | 500 | 2.685897 | GGTGGGTATTTCATTGCGCTAA | 59.314 | 45.455 | 9.73 | 1.22 | 0.00 | 3.09 |
606 | 627 | 5.065602 | CACATCCACGAATGTCATTTCATCT | 59.934 | 40.000 | 0.00 | 0.00 | 37.78 | 2.90 |
693 | 715 | 8.722342 | TTGTTTCTTCTTATTTTTCCGATTCG | 57.278 | 30.769 | 0.00 | 0.00 | 0.00 | 3.34 |
723 | 745 | 5.600696 | AGAATGGCATTTTCGTCACTTTTT | 58.399 | 33.333 | 14.93 | 0.00 | 0.00 | 1.94 |
733 | 771 | 2.798283 | TCGTCACTTTTTCTAGTTGCGG | 59.202 | 45.455 | 0.00 | 0.00 | 0.00 | 5.69 |
923 | 993 | 3.738481 | CCCCGCAATTCCTCCCCA | 61.738 | 66.667 | 0.00 | 0.00 | 0.00 | 4.96 |
1116 | 1186 | 3.013921 | GCCTGAACAAACCATTCGGATA | 58.986 | 45.455 | 0.00 | 0.00 | 34.85 | 2.59 |
1150 | 1221 | 2.029649 | CCTTTGTGCTGATTCTGTTGGG | 60.030 | 50.000 | 0.00 | 0.00 | 0.00 | 4.12 |
1151 | 1222 | 0.961019 | TTGTGCTGATTCTGTTGGGC | 59.039 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
1171 | 1242 | 3.419915 | GCTGCTGATTAAATCGTGTGTG | 58.580 | 45.455 | 0.00 | 0.00 | 0.00 | 3.82 |
1482 | 1581 | 2.092699 | GCTCCTTGGCTATTCCTTCAGT | 60.093 | 50.000 | 0.00 | 0.00 | 35.26 | 3.41 |
1686 | 1785 | 7.222872 | TGCATTAGTTCATTTTTGTTCCCAAT | 58.777 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
1738 | 1837 | 9.890915 | AGATATAGGAGAGGAAAAGTTGATACT | 57.109 | 33.333 | 0.00 | 0.00 | 35.68 | 2.12 |
1741 | 1840 | 4.471747 | AGGAGAGGAAAAGTTGATACTCCC | 59.528 | 45.833 | 0.00 | 6.64 | 42.20 | 4.30 |
1743 | 1842 | 5.395879 | GGAGAGGAAAAGTTGATACTCCCTC | 60.396 | 48.000 | 0.00 | 0.00 | 39.26 | 4.30 |
1744 | 1843 | 4.471747 | AGAGGAAAAGTTGATACTCCCTCC | 59.528 | 45.833 | 0.00 | 5.52 | 39.67 | 4.30 |
1747 | 1846 | 4.565028 | GGAAAAGTTGATACTCCCTCCGTT | 60.565 | 45.833 | 0.00 | 0.00 | 31.99 | 4.44 |
1748 | 1847 | 3.889520 | AAGTTGATACTCCCTCCGTTC | 57.110 | 47.619 | 0.00 | 0.00 | 31.99 | 3.95 |
1749 | 1848 | 2.108970 | AGTTGATACTCCCTCCGTTCC | 58.891 | 52.381 | 0.00 | 0.00 | 0.00 | 3.62 |
1750 | 1849 | 1.829222 | GTTGATACTCCCTCCGTTCCA | 59.171 | 52.381 | 0.00 | 0.00 | 0.00 | 3.53 |
1751 | 1850 | 1.776662 | TGATACTCCCTCCGTTCCAG | 58.223 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
1752 | 1851 | 1.286849 | TGATACTCCCTCCGTTCCAGA | 59.713 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
1753 | 1852 | 2.291996 | TGATACTCCCTCCGTTCCAGAA | 60.292 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
1754 | 1853 | 2.544844 | TACTCCCTCCGTTCCAGAAT | 57.455 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
1755 | 1854 | 2.544844 | ACTCCCTCCGTTCCAGAATA | 57.455 | 50.000 | 0.00 | 0.00 | 0.00 | 1.75 |
1756 | 1855 | 2.389715 | ACTCCCTCCGTTCCAGAATAG | 58.610 | 52.381 | 0.00 | 0.00 | 0.00 | 1.73 |
1757 | 1856 | 2.024273 | ACTCCCTCCGTTCCAGAATAGA | 60.024 | 50.000 | 0.00 | 0.00 | 0.00 | 1.98 |
1758 | 1857 | 3.235200 | CTCCCTCCGTTCCAGAATAGAT | 58.765 | 50.000 | 0.00 | 0.00 | 0.00 | 1.98 |
1759 | 1858 | 2.965831 | TCCCTCCGTTCCAGAATAGATG | 59.034 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1760 | 1859 | 2.965831 | CCCTCCGTTCCAGAATAGATGA | 59.034 | 50.000 | 0.00 | 0.00 | 0.00 | 2.92 |
1761 | 1860 | 3.243907 | CCCTCCGTTCCAGAATAGATGAC | 60.244 | 52.174 | 0.00 | 0.00 | 0.00 | 3.06 |
1762 | 1861 | 3.639094 | CCTCCGTTCCAGAATAGATGACT | 59.361 | 47.826 | 0.00 | 0.00 | 0.00 | 3.41 |
1763 | 1862 | 4.261825 | CCTCCGTTCCAGAATAGATGACTC | 60.262 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1764 | 1863 | 4.278310 | TCCGTTCCAGAATAGATGACTCA | 58.722 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
1765 | 1864 | 4.709886 | TCCGTTCCAGAATAGATGACTCAA | 59.290 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
1766 | 1865 | 4.806247 | CCGTTCCAGAATAGATGACTCAAC | 59.194 | 45.833 | 0.00 | 0.00 | 0.00 | 3.18 |
1767 | 1866 | 5.394663 | CCGTTCCAGAATAGATGACTCAACT | 60.395 | 44.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1768 | 1867 | 6.102663 | CGTTCCAGAATAGATGACTCAACTT | 58.897 | 40.000 | 0.00 | 0.00 | 0.00 | 2.66 |
1769 | 1868 | 6.591834 | CGTTCCAGAATAGATGACTCAACTTT | 59.408 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
1770 | 1869 | 7.412346 | CGTTCCAGAATAGATGACTCAACTTTG | 60.412 | 40.741 | 0.00 | 0.00 | 0.00 | 2.77 |
1771 | 1870 | 7.009179 | TCCAGAATAGATGACTCAACTTTGT | 57.991 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
1772 | 1871 | 8.134202 | TCCAGAATAGATGACTCAACTTTGTA | 57.866 | 34.615 | 0.00 | 0.00 | 0.00 | 2.41 |
1773 | 1872 | 8.035394 | TCCAGAATAGATGACTCAACTTTGTAC | 58.965 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
1774 | 1873 | 8.037758 | CCAGAATAGATGACTCAACTTTGTACT | 58.962 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
1813 | 1912 | 9.003658 | AGTACAAAGTTGAGTCATCTATTTTGG | 57.996 | 33.333 | 14.35 | 0.00 | 40.00 | 3.28 |
1814 | 1913 | 8.999431 | GTACAAAGTTGAGTCATCTATTTTGGA | 58.001 | 33.333 | 14.35 | 6.88 | 40.00 | 3.53 |
1815 | 1914 | 8.463930 | ACAAAGTTGAGTCATCTATTTTGGAA | 57.536 | 30.769 | 14.35 | 0.00 | 40.00 | 3.53 |
1816 | 1915 | 8.352942 | ACAAAGTTGAGTCATCTATTTTGGAAC | 58.647 | 33.333 | 14.35 | 0.00 | 40.00 | 3.62 |
1817 | 1916 | 6.727824 | AGTTGAGTCATCTATTTTGGAACG | 57.272 | 37.500 | 1.70 | 0.00 | 0.00 | 3.95 |
1818 | 1917 | 5.643777 | AGTTGAGTCATCTATTTTGGAACGG | 59.356 | 40.000 | 1.70 | 0.00 | 0.00 | 4.44 |
1819 | 1918 | 5.414789 | TGAGTCATCTATTTTGGAACGGA | 57.585 | 39.130 | 0.00 | 0.00 | 0.00 | 4.69 |
1820 | 1919 | 5.419542 | TGAGTCATCTATTTTGGAACGGAG | 58.580 | 41.667 | 0.00 | 0.00 | 0.00 | 4.63 |
1821 | 1920 | 4.770795 | AGTCATCTATTTTGGAACGGAGG | 58.229 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
1822 | 1921 | 4.469945 | AGTCATCTATTTTGGAACGGAGGA | 59.530 | 41.667 | 0.00 | 0.00 | 0.00 | 3.71 |
1823 | 1922 | 5.045869 | AGTCATCTATTTTGGAACGGAGGAA | 60.046 | 40.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1824 | 1923 | 5.294552 | GTCATCTATTTTGGAACGGAGGAAG | 59.705 | 44.000 | 0.00 | 0.00 | 0.00 | 3.46 |
1825 | 1924 | 4.903045 | TCTATTTTGGAACGGAGGAAGT | 57.097 | 40.909 | 0.00 | 0.00 | 0.00 | 3.01 |
1826 | 1925 | 6.155565 | TCATCTATTTTGGAACGGAGGAAGTA | 59.844 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
1827 | 1926 | 5.974108 | TCTATTTTGGAACGGAGGAAGTAG | 58.026 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
1828 | 1927 | 4.903045 | ATTTTGGAACGGAGGAAGTAGA | 57.097 | 40.909 | 0.00 | 0.00 | 0.00 | 2.59 |
1829 | 1928 | 4.903045 | TTTTGGAACGGAGGAAGTAGAT | 57.097 | 40.909 | 0.00 | 0.00 | 0.00 | 1.98 |
1830 | 1929 | 3.887621 | TTGGAACGGAGGAAGTAGATG | 57.112 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
1831 | 1930 | 2.108168 | TGGAACGGAGGAAGTAGATGG | 58.892 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
1832 | 1931 | 2.108970 | GGAACGGAGGAAGTAGATGGT | 58.891 | 52.381 | 0.00 | 0.00 | 0.00 | 3.55 |
1833 | 1932 | 3.294214 | GGAACGGAGGAAGTAGATGGTA | 58.706 | 50.000 | 0.00 | 0.00 | 0.00 | 3.25 |
1834 | 1933 | 3.703052 | GGAACGGAGGAAGTAGATGGTAA | 59.297 | 47.826 | 0.00 | 0.00 | 0.00 | 2.85 |
1852 | 1951 | 2.142292 | AACAGCCCATCCACCTCCAC | 62.142 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1925 | 2024 | 6.926630 | AATTTTAGTCCCTTATTTGTGGCA | 57.073 | 33.333 | 0.00 | 0.00 | 0.00 | 4.92 |
2009 | 2108 | 8.429641 | ACACTCAGTCTATTTCTCCAAAACTAA | 58.570 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
3303 | 3406 | 3.324846 | TCATCTGGTGTGTTCTAACAGCT | 59.675 | 43.478 | 7.88 | 0.00 | 46.33 | 4.24 |
3374 | 3477 | 9.566432 | AAGAAACAGAAGTATGAGAAAATCAGT | 57.434 | 29.630 | 0.00 | 0.00 | 42.53 | 3.41 |
3384 | 3487 | 4.065088 | TGAGAAAATCAGTGAACGGAAGG | 58.935 | 43.478 | 0.00 | 0.00 | 32.77 | 3.46 |
3562 | 3665 | 7.904558 | TGAAGACAGTCCAGACTATCAATAT | 57.095 | 36.000 | 8.68 | 0.00 | 37.33 | 1.28 |
3617 | 3720 | 6.821665 | TCGAGAGGGTTGGTTTTCTATTTATG | 59.178 | 38.462 | 0.00 | 0.00 | 0.00 | 1.90 |
3773 | 3881 | 1.946768 | ACAAATGACCAGTGTTCCACG | 59.053 | 47.619 | 0.00 | 0.00 | 39.64 | 4.94 |
3777 | 3885 | 1.663702 | GACCAGTGTTCCACGACGG | 60.664 | 63.158 | 0.00 | 0.00 | 39.64 | 4.79 |
3867 | 3975 | 7.698836 | AATGTTCATGTTCTGTTGTTTTAGC | 57.301 | 32.000 | 0.00 | 0.00 | 0.00 | 3.09 |
3875 | 3983 | 1.080772 | GTTGTTTTAGCCCGCTGCC | 60.081 | 57.895 | 0.00 | 0.00 | 42.71 | 4.85 |
3941 | 4050 | 8.768501 | ATAGACTGTCAGGTATTCTTGTCATA | 57.231 | 34.615 | 10.88 | 0.00 | 0.00 | 2.15 |
3952 | 4061 | 9.331282 | AGGTATTCTTGTCATATAGCTGTTTTC | 57.669 | 33.333 | 0.00 | 0.00 | 32.91 | 2.29 |
3953 | 4062 | 8.560374 | GGTATTCTTGTCATATAGCTGTTTTCC | 58.440 | 37.037 | 0.00 | 0.00 | 0.00 | 3.13 |
3954 | 4063 | 7.573968 | ATTCTTGTCATATAGCTGTTTTCCC | 57.426 | 36.000 | 0.00 | 0.00 | 0.00 | 3.97 |
4170 | 4279 | 3.930336 | TCAGGTGCATGTTCAGAACTAG | 58.070 | 45.455 | 14.51 | 7.84 | 0.00 | 2.57 |
4797 | 4909 | 9.044646 | ACGATAGGATCCACTACTAGTATCTTA | 57.955 | 37.037 | 15.82 | 0.25 | 43.77 | 2.10 |
5052 | 5186 | 0.179179 | GCGTTGAGATGCTGCTTTCC | 60.179 | 55.000 | 0.00 | 0.00 | 34.88 | 3.13 |
5069 | 5203 | 7.910683 | GCTGCTTTCCTACTTTTCACATAATAC | 59.089 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
5133 | 5275 | 5.132897 | TGTTTACATTGGAATGCCTTGTC | 57.867 | 39.130 | 2.45 | 0.00 | 40.04 | 3.18 |
5172 | 5314 | 3.270027 | TCGAGCCCAGTGATAATTGTTG | 58.730 | 45.455 | 0.00 | 0.00 | 0.00 | 3.33 |
5194 | 5336 | 8.575589 | TGTTGAAGTGCTTGTGATTATTATTGT | 58.424 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
5360 | 7070 | 9.162764 | ACACATGTTAATCAATCCTAACACTAC | 57.837 | 33.333 | 0.00 | 0.00 | 39.99 | 2.73 |
5370 | 7080 | 8.410673 | TCAATCCTAACACTACTAGATGATCC | 57.589 | 38.462 | 0.00 | 0.00 | 0.00 | 3.36 |
5404 | 7114 | 5.938279 | AGCAGACATCATCATGATAAAGGT | 58.062 | 37.500 | 8.15 | 7.54 | 34.28 | 3.50 |
5418 | 7128 | 5.321927 | TGATAAAGGTTTCTCCAAGAACCC | 58.678 | 41.667 | 1.88 | 0.00 | 37.08 | 4.11 |
5708 | 7418 | 0.759346 | AGCCTAATTAGGAGCCCACG | 59.241 | 55.000 | 31.78 | 6.26 | 46.63 | 4.94 |
5709 | 7419 | 0.756903 | GCCTAATTAGGAGCCCACGA | 59.243 | 55.000 | 31.78 | 0.00 | 46.63 | 4.35 |
5713 | 7423 | 2.693267 | AATTAGGAGCCCACGAACTC | 57.307 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
5752 | 7462 | 0.620556 | TTCCCCACCTCATCTCAAGC | 59.379 | 55.000 | 0.00 | 0.00 | 0.00 | 4.01 |
5775 | 7485 | 1.405821 | AGCCTTAGTCATTCGTCGAGG | 59.594 | 52.381 | 0.00 | 0.00 | 0.00 | 4.63 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
44 | 45 | 4.722193 | CCGTTCTGGCCAATCTGT | 57.278 | 55.556 | 7.01 | 0.00 | 0.00 | 3.41 |
95 | 96 | 1.478837 | GGCTTAATCTAGGTTGGGGGC | 60.479 | 57.143 | 0.00 | 0.00 | 0.00 | 5.80 |
98 | 99 | 3.199946 | TGAGTGGCTTAATCTAGGTTGGG | 59.800 | 47.826 | 0.00 | 0.00 | 0.00 | 4.12 |
127 | 128 | 5.537295 | TGACTAGTGTAGTACTGGCTCAAAA | 59.463 | 40.000 | 5.39 | 0.00 | 41.24 | 2.44 |
129 | 130 | 4.659115 | TGACTAGTGTAGTACTGGCTCAA | 58.341 | 43.478 | 5.39 | 0.00 | 41.24 | 3.02 |
148 | 149 | 6.712241 | TCGAGAATCAGAAAAGTGATTGAC | 57.288 | 37.500 | 3.87 | 0.00 | 45.32 | 3.18 |
185 | 186 | 7.897864 | AGTGTAGTACTAGCTCAAAAAGTGAT | 58.102 | 34.615 | 1.87 | 0.00 | 38.04 | 3.06 |
187 | 188 | 9.472361 | TTTAGTGTAGTACTAGCTCAAAAAGTG | 57.528 | 33.333 | 1.87 | 0.00 | 42.57 | 3.16 |
287 | 293 | 5.463392 | GTCGCTCAAATGAATGTATCTAGCA | 59.537 | 40.000 | 0.00 | 0.00 | 0.00 | 3.49 |
325 | 331 | 9.548631 | TGTTACCCAAAATTAATATTTCCTCCA | 57.451 | 29.630 | 0.00 | 0.00 | 32.85 | 3.86 |
367 | 373 | 4.562143 | GCAGAAACTTCATGCCTCCAAAAT | 60.562 | 41.667 | 0.00 | 0.00 | 33.81 | 1.82 |
381 | 387 | 1.073199 | CACCCGGGAGCAGAAACTT | 59.927 | 57.895 | 32.02 | 0.00 | 0.00 | 2.66 |
448 | 454 | 9.927668 | CCACCAATGTTTATAAAAAGTCAGAAT | 57.072 | 29.630 | 0.00 | 0.00 | 0.00 | 2.40 |
449 | 455 | 8.364142 | CCCACCAATGTTTATAAAAAGTCAGAA | 58.636 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
450 | 456 | 7.507616 | ACCCACCAATGTTTATAAAAAGTCAGA | 59.492 | 33.333 | 0.00 | 0.00 | 0.00 | 3.27 |
452 | 458 | 7.604657 | ACCCACCAATGTTTATAAAAAGTCA | 57.395 | 32.000 | 0.00 | 0.00 | 0.00 | 3.41 |
606 | 627 | 9.654417 | GTTTTCTAACTGTGCGTAAATTTTAGA | 57.346 | 29.630 | 0.00 | 0.00 | 0.00 | 2.10 |
687 | 709 | 3.130633 | TGCCATTCTAACATCCGAATCG | 58.869 | 45.455 | 0.00 | 0.00 | 0.00 | 3.34 |
692 | 714 | 4.201910 | ACGAAAATGCCATTCTAACATCCG | 60.202 | 41.667 | 0.00 | 0.00 | 0.00 | 4.18 |
693 | 715 | 5.163663 | TGACGAAAATGCCATTCTAACATCC | 60.164 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
694 | 716 | 5.739161 | GTGACGAAAATGCCATTCTAACATC | 59.261 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
695 | 717 | 5.415701 | AGTGACGAAAATGCCATTCTAACAT | 59.584 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
696 | 718 | 4.759693 | AGTGACGAAAATGCCATTCTAACA | 59.240 | 37.500 | 0.00 | 0.00 | 0.00 | 2.41 |
697 | 719 | 5.296813 | AGTGACGAAAATGCCATTCTAAC | 57.703 | 39.130 | 0.00 | 0.00 | 0.00 | 2.34 |
723 | 745 | 1.134818 | ACATCGCAATCCGCAACTAGA | 60.135 | 47.619 | 0.00 | 0.00 | 42.60 | 2.43 |
733 | 771 | 5.555256 | CGTGTGAGAGATTAACATCGCAATC | 60.555 | 44.000 | 0.00 | 0.00 | 34.28 | 2.67 |
808 | 876 | 2.435938 | TTTCGCGAGCATCACCCC | 60.436 | 61.111 | 9.59 | 0.00 | 33.17 | 4.95 |
1150 | 1221 | 3.120199 | ACACACACGATTTAATCAGCAGC | 60.120 | 43.478 | 5.76 | 0.00 | 0.00 | 5.25 |
1151 | 1222 | 4.668576 | ACACACACGATTTAATCAGCAG | 57.331 | 40.909 | 5.76 | 0.00 | 0.00 | 4.24 |
1171 | 1242 | 0.312102 | GCAACCCAGAGCAAGTGAAC | 59.688 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1393 | 1482 | 1.771854 | TCGCTCTAATATTTGGGCCCA | 59.228 | 47.619 | 24.45 | 24.45 | 0.00 | 5.36 |
1482 | 1581 | 5.822519 | AGCTGCCAATTCACGAAATATAAGA | 59.177 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
1577 | 1676 | 6.024552 | TGGCAGGAAATAGTTTTCAATGAC | 57.975 | 37.500 | 1.38 | 2.41 | 42.55 | 3.06 |
1677 | 1776 | 7.162761 | TCTCTGACGTTTAATTATTGGGAACA | 58.837 | 34.615 | 0.00 | 0.00 | 39.83 | 3.18 |
1686 | 1785 | 9.445878 | TTCTCTACTCTCTCTGACGTTTAATTA | 57.554 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
1743 | 1842 | 4.655762 | TGAGTCATCTATTCTGGAACGG | 57.344 | 45.455 | 0.00 | 0.00 | 0.00 | 4.44 |
1744 | 1843 | 5.655488 | AGTTGAGTCATCTATTCTGGAACG | 58.345 | 41.667 | 1.70 | 0.00 | 0.00 | 3.95 |
1747 | 1846 | 7.009179 | ACAAAGTTGAGTCATCTATTCTGGA | 57.991 | 36.000 | 4.14 | 0.00 | 0.00 | 3.86 |
1748 | 1847 | 8.037758 | AGTACAAAGTTGAGTCATCTATTCTGG | 58.962 | 37.037 | 4.14 | 0.00 | 0.00 | 3.86 |
1749 | 1848 | 8.994429 | AGTACAAAGTTGAGTCATCTATTCTG | 57.006 | 34.615 | 4.14 | 3.46 | 0.00 | 3.02 |
1787 | 1886 | 9.003658 | CCAAAATAGATGACTCAACTTTGTACT | 57.996 | 33.333 | 0.00 | 0.00 | 0.00 | 2.73 |
1788 | 1887 | 8.999431 | TCCAAAATAGATGACTCAACTTTGTAC | 58.001 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
1789 | 1888 | 9.567776 | TTCCAAAATAGATGACTCAACTTTGTA | 57.432 | 29.630 | 0.00 | 0.00 | 0.00 | 2.41 |
1790 | 1889 | 8.352942 | GTTCCAAAATAGATGACTCAACTTTGT | 58.647 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
1791 | 1890 | 7.535258 | CGTTCCAAAATAGATGACTCAACTTTG | 59.465 | 37.037 | 0.00 | 0.00 | 0.00 | 2.77 |
1792 | 1891 | 7.308589 | CCGTTCCAAAATAGATGACTCAACTTT | 60.309 | 37.037 | 0.00 | 0.00 | 0.00 | 2.66 |
1793 | 1892 | 6.149474 | CCGTTCCAAAATAGATGACTCAACTT | 59.851 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
1794 | 1893 | 5.643777 | CCGTTCCAAAATAGATGACTCAACT | 59.356 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1795 | 1894 | 5.642063 | TCCGTTCCAAAATAGATGACTCAAC | 59.358 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1796 | 1895 | 5.800296 | TCCGTTCCAAAATAGATGACTCAA | 58.200 | 37.500 | 0.00 | 0.00 | 0.00 | 3.02 |
1797 | 1896 | 5.414789 | TCCGTTCCAAAATAGATGACTCA | 57.585 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
1798 | 1897 | 4.811557 | CCTCCGTTCCAAAATAGATGACTC | 59.188 | 45.833 | 0.00 | 0.00 | 0.00 | 3.36 |
1799 | 1898 | 4.469945 | TCCTCCGTTCCAAAATAGATGACT | 59.530 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
1800 | 1899 | 4.766375 | TCCTCCGTTCCAAAATAGATGAC | 58.234 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
1801 | 1900 | 5.045869 | ACTTCCTCCGTTCCAAAATAGATGA | 60.046 | 40.000 | 0.00 | 0.00 | 0.00 | 2.92 |
1802 | 1901 | 5.186198 | ACTTCCTCCGTTCCAAAATAGATG | 58.814 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
1803 | 1902 | 5.437191 | ACTTCCTCCGTTCCAAAATAGAT | 57.563 | 39.130 | 0.00 | 0.00 | 0.00 | 1.98 |
1804 | 1903 | 4.903045 | ACTTCCTCCGTTCCAAAATAGA | 57.097 | 40.909 | 0.00 | 0.00 | 0.00 | 1.98 |
1805 | 1904 | 5.974108 | TCTACTTCCTCCGTTCCAAAATAG | 58.026 | 41.667 | 0.00 | 0.00 | 0.00 | 1.73 |
1806 | 1905 | 6.346096 | CATCTACTTCCTCCGTTCCAAAATA | 58.654 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1807 | 1906 | 4.903045 | TCTACTTCCTCCGTTCCAAAAT | 57.097 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
1808 | 1907 | 4.564821 | CCATCTACTTCCTCCGTTCCAAAA | 60.565 | 45.833 | 0.00 | 0.00 | 0.00 | 2.44 |
1809 | 1908 | 3.055385 | CCATCTACTTCCTCCGTTCCAAA | 60.055 | 47.826 | 0.00 | 0.00 | 0.00 | 3.28 |
1810 | 1909 | 2.500098 | CCATCTACTTCCTCCGTTCCAA | 59.500 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
1811 | 1910 | 2.108168 | CCATCTACTTCCTCCGTTCCA | 58.892 | 52.381 | 0.00 | 0.00 | 0.00 | 3.53 |
1812 | 1911 | 2.108970 | ACCATCTACTTCCTCCGTTCC | 58.891 | 52.381 | 0.00 | 0.00 | 0.00 | 3.62 |
1813 | 1912 | 4.159135 | TGTTACCATCTACTTCCTCCGTTC | 59.841 | 45.833 | 0.00 | 0.00 | 0.00 | 3.95 |
1814 | 1913 | 4.091549 | TGTTACCATCTACTTCCTCCGTT | 58.908 | 43.478 | 0.00 | 0.00 | 0.00 | 4.44 |
1815 | 1914 | 3.700038 | CTGTTACCATCTACTTCCTCCGT | 59.300 | 47.826 | 0.00 | 0.00 | 0.00 | 4.69 |
1816 | 1915 | 3.491104 | GCTGTTACCATCTACTTCCTCCG | 60.491 | 52.174 | 0.00 | 0.00 | 0.00 | 4.63 |
1817 | 1916 | 3.181464 | GGCTGTTACCATCTACTTCCTCC | 60.181 | 52.174 | 0.00 | 0.00 | 0.00 | 4.30 |
1818 | 1917 | 3.181464 | GGGCTGTTACCATCTACTTCCTC | 60.181 | 52.174 | 0.00 | 0.00 | 0.00 | 3.71 |
1819 | 1918 | 2.772515 | GGGCTGTTACCATCTACTTCCT | 59.227 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1820 | 1919 | 2.504175 | TGGGCTGTTACCATCTACTTCC | 59.496 | 50.000 | 0.00 | 0.00 | 31.83 | 3.46 |
1821 | 1920 | 3.906720 | TGGGCTGTTACCATCTACTTC | 57.093 | 47.619 | 0.00 | 0.00 | 31.83 | 3.01 |
1829 | 1928 | 0.844661 | AGGTGGATGGGCTGTTACCA | 60.845 | 55.000 | 0.00 | 0.00 | 43.22 | 3.25 |
1830 | 1929 | 0.107165 | GAGGTGGATGGGCTGTTACC | 60.107 | 60.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1831 | 1930 | 0.107165 | GGAGGTGGATGGGCTGTTAC | 60.107 | 60.000 | 0.00 | 0.00 | 0.00 | 2.50 |
1832 | 1931 | 0.548926 | TGGAGGTGGATGGGCTGTTA | 60.549 | 55.000 | 0.00 | 0.00 | 0.00 | 2.41 |
1833 | 1932 | 1.852157 | TGGAGGTGGATGGGCTGTT | 60.852 | 57.895 | 0.00 | 0.00 | 0.00 | 3.16 |
1834 | 1933 | 2.204136 | TGGAGGTGGATGGGCTGT | 60.204 | 61.111 | 0.00 | 0.00 | 0.00 | 4.40 |
1842 | 1941 | 1.273267 | ACTAGAGCATGTGGAGGTGGA | 60.273 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
1925 | 2024 | 3.189702 | GCAGCAACATTTTTCCAATGCAT | 59.810 | 39.130 | 0.00 | 0.00 | 36.30 | 3.96 |
2009 | 2108 | 2.295349 | CTGAACAGAACAAAGCCTGCAT | 59.705 | 45.455 | 0.00 | 0.00 | 33.90 | 3.96 |
2381 | 2484 | 7.488322 | ACAAAGACTAGCTGATCTCTGTTATC | 58.512 | 38.462 | 0.00 | 0.00 | 0.00 | 1.75 |
2885 | 2988 | 7.881775 | AGAAAAGGATGGTTGGTAATACATC | 57.118 | 36.000 | 0.00 | 0.00 | 39.11 | 3.06 |
3055 | 3158 | 8.728337 | TGCATAGCAGATAAATGGATCTAATC | 57.272 | 34.615 | 0.00 | 0.00 | 34.29 | 1.75 |
3137 | 3240 | 9.143155 | ACCTTTATTCTTTAAACAAGATGGTGT | 57.857 | 29.630 | 0.00 | 0.00 | 0.00 | 4.16 |
3178 | 3281 | 3.190118 | GTCATCCCTTCTGCTTTGTTCTG | 59.810 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
3374 | 3477 | 0.106918 | AAGTGGCAACCTTCCGTTCA | 60.107 | 50.000 | 0.00 | 0.00 | 29.93 | 3.18 |
3384 | 3487 | 2.622942 | TCACCTCAATTGAAGTGGCAAC | 59.377 | 45.455 | 28.49 | 0.00 | 37.17 | 4.17 |
3617 | 3720 | 8.850452 | GCAATGCAAAACTTTATCTAGTAACAC | 58.150 | 33.333 | 0.00 | 0.00 | 0.00 | 3.32 |
3656 | 3759 | 8.974060 | ATGAGAAGTGTCCAAAAAGTAGTTTA | 57.026 | 30.769 | 0.00 | 0.00 | 0.00 | 2.01 |
3668 | 3776 | 7.890127 | AGAAAAATATCCAATGAGAAGTGTCCA | 59.110 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
3773 | 3881 | 2.810650 | CTGTACTGACAATAGCCCGTC | 58.189 | 52.381 | 0.00 | 0.00 | 34.35 | 4.79 |
3777 | 3885 | 3.526931 | TGAGCTGTACTGACAATAGCC | 57.473 | 47.619 | 3.61 | 0.00 | 34.35 | 3.93 |
3808 | 3916 | 0.179234 | TCCACGGACAAGTGCAGAAA | 59.821 | 50.000 | 0.00 | 0.00 | 40.59 | 2.52 |
3875 | 3983 | 3.121030 | CCCGAGCTTTGTCCTGCG | 61.121 | 66.667 | 0.00 | 0.00 | 0.00 | 5.18 |
4170 | 4279 | 8.721478 | TGAAGAAATAGCAATACAACAGAAGAC | 58.279 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
4910 | 5030 | 0.396974 | TTTGGGTCAGCAAACTGCCT | 60.397 | 50.000 | 0.00 | 0.00 | 46.52 | 4.75 |
5133 | 5275 | 1.079503 | GAAGTTACCTGCTCAAGCCG | 58.920 | 55.000 | 0.00 | 0.00 | 41.18 | 5.52 |
5172 | 5314 | 7.698130 | GTCCACAATAATAATCACAAGCACTTC | 59.302 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
5270 | 6977 | 0.173708 | TTTTGGCAACCAACACGTCC | 59.826 | 50.000 | 0.00 | 0.00 | 43.82 | 4.79 |
5360 | 7070 | 4.236147 | CTCGCTGTCAATGGATCATCTAG | 58.764 | 47.826 | 0.00 | 0.00 | 0.00 | 2.43 |
5370 | 7080 | 1.326852 | GATGTCTGCTCGCTGTCAATG | 59.673 | 52.381 | 0.78 | 0.00 | 0.00 | 2.82 |
5404 | 7114 | 3.537337 | TCCCATAGGGTTCTTGGAGAAA | 58.463 | 45.455 | 1.36 | 0.00 | 44.74 | 2.52 |
5734 | 7444 | 1.617018 | CGCTTGAGATGAGGTGGGGA | 61.617 | 60.000 | 0.00 | 0.00 | 0.00 | 4.81 |
5752 | 7462 | 2.031314 | TCGACGAATGACTAAGGCTACG | 59.969 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.