Multiple sequence alignment - TraesCS2D01G245500
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 | TraesCS2D01G245500 | chr2D | 100.000 | 8852 | 0 | 0 | 1 | 8852 | 280657061 | 280648210 | 0.000000e+00 | 16347.0 |
1 | TraesCS2D01G245500 | chr2D | 96.000 | 50 | 2 | 0 | 8438 | 8487 | 280648563 | 280648514 | 2.050000e-11 | 82.4 |
2 | TraesCS2D01G245500 | chr2D | 96.000 | 50 | 2 | 0 | 8499 | 8548 | 280648624 | 280648575 | 2.050000e-11 | 82.4 |
3 | TraesCS2D01G245500 | chr2B | 96.356 | 4555 | 123 | 17 | 3809 | 8349 | 326677528 | 326682053 | 0.000000e+00 | 7452.0 |
4 | TraesCS2D01G245500 | chr2B | 95.085 | 2177 | 60 | 21 | 852 | 3005 | 326675393 | 326677545 | 0.000000e+00 | 3384.0 |
5 | TraesCS2D01G245500 | chr2B | 89.014 | 355 | 33 | 4 | 8499 | 8852 | 326682103 | 326682452 | 1.360000e-117 | 435.0 |
6 | TraesCS2D01G245500 | chr2B | 95.604 | 91 | 4 | 0 | 8395 | 8485 | 326682060 | 326682150 | 7.160000e-31 | 147.0 |
7 | TraesCS2D01G245500 | chr2B | 100.000 | 48 | 0 | 0 | 7633 | 7680 | 104943309 | 104943356 | 1.220000e-13 | 89.8 |
8 | TraesCS2D01G245500 | chr2A | 96.611 | 2921 | 65 | 12 | 428 | 3339 | 334598792 | 334595897 | 0.000000e+00 | 4815.0 |
9 | TraesCS2D01G245500 | chr2A | 98.427 | 1653 | 25 | 1 | 5922 | 7573 | 334592254 | 334590602 | 0.000000e+00 | 2907.0 |
10 | TraesCS2D01G245500 | chr2A | 97.523 | 1292 | 20 | 7 | 3749 | 5039 | 334594289 | 334593009 | 0.000000e+00 | 2198.0 |
11 | TraesCS2D01G245500 | chr2A | 97.759 | 714 | 13 | 2 | 5080 | 5790 | 334593006 | 334592293 | 0.000000e+00 | 1227.0 |
12 | TraesCS2D01G245500 | chr2A | 91.954 | 609 | 23 | 9 | 8244 | 8852 | 334590602 | 334590020 | 0.000000e+00 | 830.0 |
13 | TraesCS2D01G245500 | chr2A | 99.022 | 409 | 3 | 1 | 3346 | 3753 | 334594723 | 334594315 | 0.000000e+00 | 732.0 |
14 | TraesCS2D01G245500 | chr2A | 98.077 | 52 | 1 | 0 | 5918 | 5969 | 334592301 | 334592250 | 3.400000e-14 | 91.6 |
15 | TraesCS2D01G245500 | chr4D | 93.354 | 632 | 39 | 3 | 3119 | 3749 | 465059094 | 465058465 | 0.000000e+00 | 931.0 |
16 | TraesCS2D01G245500 | chr4D | 91.453 | 117 | 6 | 4 | 3005 | 3117 | 465063397 | 465063281 | 3.310000e-34 | 158.0 |
17 | TraesCS2D01G245500 | chr4D | 98.039 | 51 | 1 | 0 | 3747 | 3797 | 465058437 | 465058387 | 1.220000e-13 | 89.8 |
18 | TraesCS2D01G245500 | chr7B | 88.841 | 699 | 67 | 8 | 1 | 689 | 749293828 | 749294525 | 0.000000e+00 | 848.0 |
19 | TraesCS2D01G245500 | chr3B | 88.588 | 701 | 70 | 7 | 1 | 692 | 784154504 | 784153805 | 0.000000e+00 | 843.0 |
20 | TraesCS2D01G245500 | chr3B | 87.714 | 700 | 72 | 10 | 1 | 689 | 207054490 | 207055186 | 0.000000e+00 | 804.0 |
21 | TraesCS2D01G245500 | chr3B | 91.045 | 67 | 5 | 1 | 7632 | 7698 | 172008078 | 172008013 | 1.220000e-13 | 89.8 |
22 | TraesCS2D01G245500 | chr1B | 88.126 | 699 | 71 | 9 | 1 | 689 | 205499950 | 205500646 | 0.000000e+00 | 821.0 |
23 | TraesCS2D01G245500 | chr3A | 87.214 | 743 | 62 | 18 | 3013 | 3749 | 684591185 | 684591900 | 0.000000e+00 | 815.0 |
24 | TraesCS2D01G245500 | chr3A | 87.536 | 698 | 77 | 8 | 1 | 689 | 746839064 | 746838368 | 0.000000e+00 | 798.0 |
25 | TraesCS2D01G245500 | chr3A | 87.536 | 698 | 77 | 8 | 1 | 689 | 748076349 | 748075653 | 0.000000e+00 | 798.0 |
26 | TraesCS2D01G245500 | chr3A | 95.161 | 62 | 3 | 0 | 3747 | 3808 | 684591928 | 684591989 | 2.030000e-16 | 99.0 |
27 | TraesCS2D01G245500 | chr3A | 84.810 | 79 | 8 | 3 | 7630 | 7707 | 149572363 | 149572288 | 9.530000e-10 | 76.8 |
28 | TraesCS2D01G245500 | chr3A | 86.957 | 69 | 8 | 1 | 4007 | 4074 | 483152034 | 483152102 | 9.530000e-10 | 76.8 |
29 | TraesCS2D01G245500 | chr4A | 86.963 | 698 | 81 | 8 | 1 | 689 | 490152889 | 490153585 | 0.000000e+00 | 776.0 |
30 | TraesCS2D01G245500 | chr1A | 86.963 | 698 | 81 | 8 | 1 | 689 | 592540285 | 592539589 | 0.000000e+00 | 776.0 |
31 | TraesCS2D01G245500 | chr1A | 90.769 | 65 | 1 | 1 | 7634 | 7698 | 53412016 | 53412075 | 2.050000e-11 | 82.4 |
32 | TraesCS2D01G245500 | chr6B | 85.673 | 698 | 87 | 8 | 1 | 689 | 71220709 | 71221402 | 0.000000e+00 | 723.0 |
33 | TraesCS2D01G245500 | chr6B | 84.768 | 302 | 41 | 3 | 3444 | 3745 | 135870568 | 135870272 | 1.870000e-76 | 298.0 |
34 | TraesCS2D01G245500 | chr6B | 77.698 | 139 | 24 | 5 | 3929 | 4061 | 615992803 | 615992666 | 2.650000e-10 | 78.7 |
35 | TraesCS2D01G245500 | chr3D | 88.571 | 70 | 5 | 3 | 4007 | 4074 | 362727871 | 362727939 | 2.050000e-11 | 82.4 |
36 | TraesCS2D01G245500 | chr3D | 87.324 | 71 | 5 | 1 | 7632 | 7698 | 525535676 | 525535606 | 2.650000e-10 | 78.7 |
37 | TraesCS2D01G245500 | chr6D | 88.889 | 63 | 7 | 0 | 3999 | 4061 | 409775715 | 409775653 | 2.650000e-10 | 78.7 |
38 | TraesCS2D01G245500 | chr5A | 86.076 | 79 | 4 | 6 | 7631 | 7708 | 342045715 | 342045643 | 2.650000e-10 | 78.7 |
39 | TraesCS2D01G245500 | chr6A | 84.615 | 78 | 10 | 2 | 3999 | 4074 | 555245226 | 555245149 | 9.530000e-10 | 76.8 |
40 | TraesCS2D01G245500 | chr1D | 89.231 | 65 | 2 | 2 | 7634 | 7698 | 53403107 | 53403166 | 9.530000e-10 | 76.8 |
41 | TraesCS2D01G245500 | chr1D | 84.000 | 75 | 11 | 1 | 4007 | 4080 | 346018924 | 346018850 | 4.430000e-08 | 71.3 |
42 | TraesCS2D01G245500 | chr5D | 85.000 | 80 | 5 | 3 | 4007 | 4079 | 509887005 | 509886926 | 3.430000e-09 | 75.0 |
43 | TraesCS2D01G245500 | chr7A | 83.544 | 79 | 9 | 3 | 7630 | 7707 | 388489311 | 388489386 | 4.430000e-08 | 71.3 |
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 | TraesCS2D01G245500 | chr2D | 280648210 | 280657061 | 8851 | True | 16347.000000 | 16347 | 100.000000 | 1 | 8852 | 1 | chr2D.!!$R1 | 8851 |
1 | TraesCS2D01G245500 | chr2B | 326675393 | 326682452 | 7059 | False | 2854.500000 | 7452 | 94.014750 | 852 | 8852 | 4 | chr2B.!!$F2 | 8000 |
2 | TraesCS2D01G245500 | chr2A | 334590020 | 334598792 | 8772 | True | 1828.657143 | 4815 | 97.053286 | 428 | 8852 | 7 | chr2A.!!$R1 | 8424 |
3 | TraesCS2D01G245500 | chr4D | 465058387 | 465059094 | 707 | True | 510.400000 | 931 | 95.696500 | 3119 | 3797 | 2 | chr4D.!!$R2 | 678 |
4 | TraesCS2D01G245500 | chr7B | 749293828 | 749294525 | 697 | False | 848.000000 | 848 | 88.841000 | 1 | 689 | 1 | chr7B.!!$F1 | 688 |
5 | TraesCS2D01G245500 | chr3B | 784153805 | 784154504 | 699 | True | 843.000000 | 843 | 88.588000 | 1 | 692 | 1 | chr3B.!!$R2 | 691 |
6 | TraesCS2D01G245500 | chr3B | 207054490 | 207055186 | 696 | False | 804.000000 | 804 | 87.714000 | 1 | 689 | 1 | chr3B.!!$F1 | 688 |
7 | TraesCS2D01G245500 | chr1B | 205499950 | 205500646 | 696 | False | 821.000000 | 821 | 88.126000 | 1 | 689 | 1 | chr1B.!!$F1 | 688 |
8 | TraesCS2D01G245500 | chr3A | 746838368 | 746839064 | 696 | True | 798.000000 | 798 | 87.536000 | 1 | 689 | 1 | chr3A.!!$R2 | 688 |
9 | TraesCS2D01G245500 | chr3A | 748075653 | 748076349 | 696 | True | 798.000000 | 798 | 87.536000 | 1 | 689 | 1 | chr3A.!!$R3 | 688 |
10 | TraesCS2D01G245500 | chr3A | 684591185 | 684591989 | 804 | False | 457.000000 | 815 | 91.187500 | 3013 | 3808 | 2 | chr3A.!!$F2 | 795 |
11 | TraesCS2D01G245500 | chr4A | 490152889 | 490153585 | 696 | False | 776.000000 | 776 | 86.963000 | 1 | 689 | 1 | chr4A.!!$F1 | 688 |
12 | TraesCS2D01G245500 | chr1A | 592539589 | 592540285 | 696 | True | 776.000000 | 776 | 86.963000 | 1 | 689 | 1 | chr1A.!!$R1 | 688 |
13 | TraesCS2D01G245500 | chr6B | 71220709 | 71221402 | 693 | False | 723.000000 | 723 | 85.673000 | 1 | 689 | 1 | chr6B.!!$F1 | 688 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
182 | 187 | 0.251386 | AGTTCAGCAGTCTCCTCCGA | 60.251 | 55.000 | 0.00 | 0.0 | 0.00 | 4.55 | F |
570 | 578 | 0.260230 | TGGAAACCCAGTCTGCCAAA | 59.740 | 50.000 | 0.00 | 0.0 | 0.00 | 3.28 | F |
1326 | 1339 | 1.479021 | GGTGCGGAGGTAGAGGTAGAT | 60.479 | 57.143 | 0.00 | 0.0 | 0.00 | 1.98 | F |
1801 | 1814 | 0.458025 | GGAGCTTGACCGGTTCTACG | 60.458 | 60.000 | 9.42 | 0.0 | 0.00 | 3.51 | F |
2880 | 2912 | 1.005037 | CAACCGACAGTGGCAGCTA | 60.005 | 57.895 | 0.00 | 0.0 | 0.00 | 3.32 | F |
3745 | 4953 | 0.610232 | GGTGCAAAGCTCCAGGACAT | 60.610 | 55.000 | 5.31 | 0.0 | 41.27 | 3.06 | F |
4663 | 5910 | 5.339008 | ACACGAGCCTGAATGATAGTTTA | 57.661 | 39.130 | 0.00 | 0.0 | 0.00 | 2.01 | F |
4919 | 6174 | 1.472990 | ACTTTTGCGCGTAACTTTGC | 58.527 | 45.000 | 9.79 | 0.0 | 0.00 | 3.68 | F |
5876 | 7133 | 4.432712 | ACAGTGAAAGTCCATTTTTGCAC | 58.567 | 39.130 | 0.00 | 0.0 | 0.00 | 4.57 | F |
6781 | 8042 | 2.595750 | TTGTACTGTTTCCCCATGGG | 57.404 | 50.000 | 25.30 | 25.3 | 46.11 | 4.00 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1326 | 1339 | 1.813753 | GGCATCGCCTAAACGCTCA | 60.814 | 57.895 | 0.00 | 0.0 | 46.69 | 4.26 | R |
1548 | 1561 | 2.923035 | ACCCTGACCTCGGTGTGG | 60.923 | 66.667 | 0.00 | 0.0 | 0.00 | 4.17 | R |
2844 | 2876 | 1.299976 | GTCACGAAATCCTGGGGCT | 59.700 | 57.895 | 0.00 | 0.0 | 0.00 | 5.19 | R |
2987 | 3019 | 1.404315 | GGTTCACGATCTGTCACCCTC | 60.404 | 57.143 | 0.00 | 0.0 | 0.00 | 4.30 | R |
4663 | 5910 | 0.111061 | TGCTTCCTCTGCACATGGTT | 59.889 | 50.000 | 0.00 | 0.0 | 35.31 | 3.67 | R |
4756 | 6003 | 4.134563 | TGACTTTCCTCTTAAGCAACCAC | 58.865 | 43.478 | 0.00 | 0.0 | 0.00 | 4.16 | R |
5865 | 7122 | 5.355596 | TCACAAGTTTAGGTGCAAAAATGG | 58.644 | 37.500 | 0.00 | 0.0 | 35.04 | 3.16 | R |
6699 | 7960 | 6.865834 | AAATGAGATACTCACAGTTCTCCT | 57.134 | 37.500 | 3.54 | 0.0 | 43.63 | 3.69 | R |
7156 | 8417 | 0.035881 | CAAGTTGCTCAGGCTCTCCA | 59.964 | 55.000 | 0.00 | 0.0 | 39.59 | 3.86 | R |
7895 | 9158 | 0.957362 | AAGAGCCTTGAAGCAGCAAC | 59.043 | 50.000 | 0.00 | 0.0 | 34.23 | 4.17 | 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 |
---|---|---|---|---|---|---|---|---|---|
20 | 25 | 1.616865 | CTTCCCTACTTGACGTGGACA | 59.383 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
74 | 79 | 4.837896 | AAGATCGAGCGAGATTGTATGA | 57.162 | 40.909 | 0.00 | 0.00 | 0.00 | 2.15 |
99 | 104 | 9.988815 | GATGAACAGACAGTATATAGTCCAAAT | 57.011 | 33.333 | 4.47 | 0.00 | 35.38 | 2.32 |
113 | 118 | 1.361668 | CCAAATCGAGTGTGAGGCCG | 61.362 | 60.000 | 0.00 | 0.00 | 0.00 | 6.13 |
125 | 130 | 3.190535 | GTGTGAGGCCGATACACAAAATT | 59.809 | 43.478 | 25.38 | 0.00 | 44.21 | 1.82 |
182 | 187 | 0.251386 | AGTTCAGCAGTCTCCTCCGA | 60.251 | 55.000 | 0.00 | 0.00 | 0.00 | 4.55 |
218 | 224 | 3.188460 | ACATTTTCTTCGTCCAATGACCG | 59.812 | 43.478 | 0.00 | 0.00 | 38.32 | 4.79 |
229 | 235 | 1.086696 | CAATGACCGTGTCCATCCAC | 58.913 | 55.000 | 2.23 | 0.00 | 0.00 | 4.02 |
253 | 259 | 5.293324 | CGAGGCAACACACTTTAGCATATTA | 59.707 | 40.000 | 0.00 | 0.00 | 41.41 | 0.98 |
256 | 262 | 6.828273 | AGGCAACACACTTTAGCATATTATGA | 59.172 | 34.615 | 7.87 | 0.00 | 41.41 | 2.15 |
281 | 287 | 9.696917 | GAAATTGAAAATAGAGTCCACAACATT | 57.303 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
286 | 292 | 7.658167 | TGAAAATAGAGTCCACAACATTTACGA | 59.342 | 33.333 | 0.00 | 0.00 | 0.00 | 3.43 |
290 | 296 | 3.343617 | AGTCCACAACATTTACGATGGG | 58.656 | 45.455 | 0.00 | 0.00 | 0.00 | 4.00 |
305 | 311 | 2.227757 | TGGGCGTCCAGGAATCCAA | 61.228 | 57.895 | 3.51 | 0.00 | 38.32 | 3.53 |
307 | 313 | 0.472471 | GGGCGTCCAGGAATCCAATA | 59.528 | 55.000 | 0.00 | 0.00 | 0.00 | 1.90 |
347 | 353 | 3.198417 | CCTTTTGGCCATTAGCAATTCCT | 59.802 | 43.478 | 6.09 | 0.00 | 46.50 | 3.36 |
355 | 361 | 3.885297 | CCATTAGCAATTCCTCACCGAAT | 59.115 | 43.478 | 0.00 | 0.00 | 33.84 | 3.34 |
365 | 371 | 1.656652 | CTCACCGAATACCAGCCTTG | 58.343 | 55.000 | 0.00 | 0.00 | 0.00 | 3.61 |
468 | 476 | 8.743714 | GTGGAGAAAATAATGTCCTTTGAGAAT | 58.256 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
528 | 536 | 4.943705 | CCAACATTGTCTACCAAGCATAGT | 59.056 | 41.667 | 0.00 | 0.00 | 36.25 | 2.12 |
564 | 572 | 5.011023 | GTGAAAAATCATGGAAACCCAGTCT | 59.989 | 40.000 | 0.00 | 0.00 | 37.09 | 3.24 |
565 | 573 | 5.010922 | TGAAAAATCATGGAAACCCAGTCTG | 59.989 | 40.000 | 0.00 | 0.00 | 37.09 | 3.51 |
570 | 578 | 0.260230 | TGGAAACCCAGTCTGCCAAA | 59.740 | 50.000 | 0.00 | 0.00 | 0.00 | 3.28 |
604 | 613 | 2.088423 | GGTAACCATTCCATGAACGCA | 58.912 | 47.619 | 0.00 | 0.00 | 0.00 | 5.24 |
630 | 640 | 6.937465 | GGTGAAGTTTCCTCTTACATCTTCTT | 59.063 | 38.462 | 0.00 | 0.00 | 33.41 | 2.52 |
639 | 649 | 6.903534 | TCCTCTTACATCTTCTTTATCCCACT | 59.096 | 38.462 | 0.00 | 0.00 | 0.00 | 4.00 |
704 | 714 | 3.163467 | GGGTATACGCAGGGAGTTCTAT | 58.837 | 50.000 | 14.60 | 0.00 | 0.00 | 1.98 |
1252 | 1265 | 2.198287 | GGCGACGCCCTAGTGGATA | 61.198 | 63.158 | 28.74 | 0.00 | 44.06 | 2.59 |
1326 | 1339 | 1.479021 | GGTGCGGAGGTAGAGGTAGAT | 60.479 | 57.143 | 0.00 | 0.00 | 0.00 | 1.98 |
1548 | 1561 | 5.824624 | TGATAAAGCAGGAAATGGAGATGAC | 59.175 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1801 | 1814 | 0.458025 | GGAGCTTGACCGGTTCTACG | 60.458 | 60.000 | 9.42 | 0.00 | 0.00 | 3.51 |
2157 | 2173 | 7.101652 | TGTGGTTTGCTTACTTAATGAACAA | 57.898 | 32.000 | 0.00 | 0.00 | 0.00 | 2.83 |
2677 | 2709 | 1.227263 | GTGCTCGTCATGCCGGTAT | 60.227 | 57.895 | 1.90 | 0.00 | 0.00 | 2.73 |
2701 | 2733 | 1.137086 | GCCACCGAGATCAGCTTCTTA | 59.863 | 52.381 | 0.00 | 0.00 | 0.00 | 2.10 |
2725 | 2757 | 2.202783 | GCACAAATGGCGCCCATC | 60.203 | 61.111 | 26.77 | 0.00 | 44.40 | 3.51 |
2844 | 2876 | 2.192861 | CCTGAAAACTGCACCGCCA | 61.193 | 57.895 | 0.00 | 0.00 | 0.00 | 5.69 |
2880 | 2912 | 1.005037 | CAACCGACAGTGGCAGCTA | 60.005 | 57.895 | 0.00 | 0.00 | 0.00 | 3.32 |
2987 | 3019 | 1.202533 | AGGAGACACAAGTTGGTCACG | 60.203 | 52.381 | 19.93 | 3.21 | 36.50 | 4.35 |
2989 | 3021 | 2.128035 | GAGACACAAGTTGGTCACGAG | 58.872 | 52.381 | 19.93 | 0.00 | 36.50 | 4.18 |
3232 | 3270 | 4.407621 | TCGGAATAAGATGGTCCTGCTTTA | 59.592 | 41.667 | 2.76 | 0.00 | 0.00 | 1.85 |
3292 | 3330 | 2.084930 | AGTTGGCCCCCTGTGTCTT | 61.085 | 57.895 | 0.00 | 0.00 | 0.00 | 3.01 |
3295 | 3333 | 3.971702 | GGCCCCCTGTGTCTTGCT | 61.972 | 66.667 | 0.00 | 0.00 | 0.00 | 3.91 |
3552 | 4760 | 1.402984 | GCAGACCGTTCAATCGACTCT | 60.403 | 52.381 | 0.00 | 0.00 | 0.00 | 3.24 |
3649 | 4857 | 2.722487 | GCGACGATGGAGTCCGAT | 59.278 | 61.111 | 4.30 | 0.00 | 37.85 | 4.18 |
3745 | 4953 | 0.610232 | GGTGCAAAGCTCCAGGACAT | 60.610 | 55.000 | 5.31 | 0.00 | 41.27 | 3.06 |
3790 | 5029 | 9.469807 | GTTATTTGTTGAATGAACATGTGGTAA | 57.530 | 29.630 | 0.00 | 0.00 | 44.23 | 2.85 |
3800 | 5039 | 5.491070 | TGAACATGTGGTAATTCCTCTCAG | 58.509 | 41.667 | 0.00 | 0.00 | 37.07 | 3.35 |
4072 | 5318 | 8.783660 | ATAGGACCTCTGATACATTTTACTCA | 57.216 | 34.615 | 0.00 | 0.00 | 0.00 | 3.41 |
4073 | 5319 | 7.682787 | AGGACCTCTGATACATTTTACTCAT | 57.317 | 36.000 | 0.00 | 0.00 | 0.00 | 2.90 |
4074 | 5320 | 7.731054 | AGGACCTCTGATACATTTTACTCATC | 58.269 | 38.462 | 0.00 | 0.00 | 0.00 | 2.92 |
4075 | 5321 | 7.566879 | AGGACCTCTGATACATTTTACTCATCT | 59.433 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
4076 | 5322 | 8.207545 | GGACCTCTGATACATTTTACTCATCTT | 58.792 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
4077 | 5323 | 9.606631 | GACCTCTGATACATTTTACTCATCTTT | 57.393 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
4591 | 5837 | 7.035840 | ACCTTATTGAGCAAATCAGCATAAG | 57.964 | 36.000 | 0.00 | 0.00 | 39.68 | 1.73 |
4663 | 5910 | 5.339008 | ACACGAGCCTGAATGATAGTTTA | 57.661 | 39.130 | 0.00 | 0.00 | 0.00 | 2.01 |
4756 | 6003 | 4.471373 | TGCATACACAATTAGCAAACACG | 58.529 | 39.130 | 0.00 | 0.00 | 31.42 | 4.49 |
4919 | 6174 | 1.472990 | ACTTTTGCGCGTAACTTTGC | 58.527 | 45.000 | 9.79 | 0.00 | 0.00 | 3.68 |
5133 | 6388 | 5.048991 | GGAGTTGGAACGTAATTGACATGTT | 60.049 | 40.000 | 0.00 | 0.00 | 0.00 | 2.71 |
5876 | 7133 | 4.432712 | ACAGTGAAAGTCCATTTTTGCAC | 58.567 | 39.130 | 0.00 | 0.00 | 0.00 | 4.57 |
5882 | 7139 | 6.019075 | GTGAAAGTCCATTTTTGCACCTAAAC | 60.019 | 38.462 | 0.00 | 0.00 | 0.00 | 2.01 |
5884 | 7141 | 5.869649 | AGTCCATTTTTGCACCTAAACTT | 57.130 | 34.783 | 0.00 | 0.00 | 0.00 | 2.66 |
6256 | 7515 | 6.950842 | TCTGGACATCATTTGTTAGACATCT | 58.049 | 36.000 | 0.00 | 0.00 | 39.18 | 2.90 |
6699 | 7960 | 6.889177 | TGCTGATTGGGTGAAGATAAATGTTA | 59.111 | 34.615 | 0.00 | 0.00 | 0.00 | 2.41 |
6781 | 8042 | 2.595750 | TTGTACTGTTTCCCCATGGG | 57.404 | 50.000 | 25.30 | 25.30 | 46.11 | 4.00 |
7135 | 8396 | 3.452627 | AGGTACATGTTCAGTCAGATCCC | 59.547 | 47.826 | 2.30 | 0.00 | 0.00 | 3.85 |
7156 | 8417 | 1.473434 | GCTGGCCGCTTGATAGTTACT | 60.473 | 52.381 | 11.61 | 0.00 | 35.14 | 2.24 |
7174 | 8435 | 0.324285 | CTGGAGAGCCTGAGCAACTT | 59.676 | 55.000 | 0.00 | 0.00 | 43.56 | 2.66 |
7335 | 8596 | 1.280421 | GATCCTCACCAAACCTCAGCT | 59.720 | 52.381 | 0.00 | 0.00 | 0.00 | 4.24 |
7518 | 8780 | 9.893305 | TCTAAGAAAGAACGGAAAATGAATTTC | 57.107 | 29.630 | 0.00 | 0.00 | 45.55 | 2.17 |
7610 | 8872 | 4.632153 | AGCACTAGATTGTTTCACGAGTT | 58.368 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
7622 | 8884 | 7.151999 | TGTTTCACGAGTTATAAATGGCAAT | 57.848 | 32.000 | 0.00 | 0.00 | 0.00 | 3.56 |
7703 | 8965 | 1.309006 | GGGACGGAGGGAGGAGTAA | 59.691 | 63.158 | 0.00 | 0.00 | 0.00 | 2.24 |
7704 | 8966 | 0.105607 | GGGACGGAGGGAGGAGTAAT | 60.106 | 60.000 | 0.00 | 0.00 | 0.00 | 1.89 |
7705 | 8967 | 1.146566 | GGGACGGAGGGAGGAGTAATA | 59.853 | 57.143 | 0.00 | 0.00 | 0.00 | 0.98 |
7740 | 9002 | 0.105709 | TCTGGTCTGGTCACAGTGGA | 60.106 | 55.000 | 0.00 | 0.00 | 45.14 | 4.02 |
7795 | 9058 | 5.930135 | ACACAGAACACTTATCTTCCAACT | 58.070 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
7796 | 9059 | 5.760253 | ACACAGAACACTTATCTTCCAACTG | 59.240 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
7797 | 9060 | 4.757149 | ACAGAACACTTATCTTCCAACTGC | 59.243 | 41.667 | 0.00 | 0.00 | 0.00 | 4.40 |
7798 | 9061 | 4.154918 | CAGAACACTTATCTTCCAACTGCC | 59.845 | 45.833 | 0.00 | 0.00 | 0.00 | 4.85 |
7799 | 9062 | 3.788227 | ACACTTATCTTCCAACTGCCA | 57.212 | 42.857 | 0.00 | 0.00 | 0.00 | 4.92 |
7800 | 9063 | 3.412386 | ACACTTATCTTCCAACTGCCAC | 58.588 | 45.455 | 0.00 | 0.00 | 0.00 | 5.01 |
7801 | 9064 | 3.181445 | ACACTTATCTTCCAACTGCCACA | 60.181 | 43.478 | 0.00 | 0.00 | 0.00 | 4.17 |
7802 | 9065 | 3.189287 | CACTTATCTTCCAACTGCCACAC | 59.811 | 47.826 | 0.00 | 0.00 | 0.00 | 3.82 |
7803 | 9066 | 3.181445 | ACTTATCTTCCAACTGCCACACA | 60.181 | 43.478 | 0.00 | 0.00 | 0.00 | 3.72 |
7804 | 9067 | 1.609208 | ATCTTCCAACTGCCACACAC | 58.391 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
7805 | 9068 | 0.465460 | TCTTCCAACTGCCACACACC | 60.465 | 55.000 | 0.00 | 0.00 | 0.00 | 4.16 |
7806 | 9069 | 0.466189 | CTTCCAACTGCCACACACCT | 60.466 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
7807 | 9070 | 0.033601 | TTCCAACTGCCACACACCTT | 60.034 | 50.000 | 0.00 | 0.00 | 0.00 | 3.50 |
7808 | 9071 | 0.751277 | TCCAACTGCCACACACCTTG | 60.751 | 55.000 | 0.00 | 0.00 | 0.00 | 3.61 |
7809 | 9072 | 0.751277 | CCAACTGCCACACACCTTGA | 60.751 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
7810 | 9073 | 0.381801 | CAACTGCCACACACCTTGAC | 59.618 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
7811 | 9074 | 0.255890 | AACTGCCACACACCTTGACT | 59.744 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
7812 | 9075 | 0.255890 | ACTGCCACACACCTTGACTT | 59.744 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
7813 | 9076 | 1.488812 | ACTGCCACACACCTTGACTTA | 59.511 | 47.619 | 0.00 | 0.00 | 0.00 | 2.24 |
7814 | 9077 | 1.873591 | CTGCCACACACCTTGACTTAC | 59.126 | 52.381 | 0.00 | 0.00 | 0.00 | 2.34 |
7815 | 9078 | 1.235724 | GCCACACACCTTGACTTACC | 58.764 | 55.000 | 0.00 | 0.00 | 0.00 | 2.85 |
7895 | 9158 | 4.559251 | CCTGATCTTTGTTCGTCTAGTTCG | 59.441 | 45.833 | 0.00 | 0.00 | 0.00 | 3.95 |
7918 | 9181 | 1.881498 | GCTGCTTCAAGGCTCTTCAGT | 60.881 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
7942 | 9205 | 4.935205 | GGTGCTGTATGTTCTGTGTATTGA | 59.065 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
7947 | 9210 | 9.394767 | TGCTGTATGTTCTGTGTATTGATTAAT | 57.605 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
8007 | 9270 | 4.449743 | TGTGACATTTAGCGTAAGTTCCAC | 59.550 | 41.667 | 0.00 | 0.00 | 41.68 | 4.02 |
8017 | 9280 | 1.351350 | GTAAGTTCCACCCTCCAAGCT | 59.649 | 52.381 | 0.00 | 0.00 | 0.00 | 3.74 |
8071 | 9334 | 5.184287 | TCATGGTTTATTCGTTCCCTTTTCC | 59.816 | 40.000 | 0.00 | 0.00 | 0.00 | 3.13 |
8090 | 9353 | 4.764050 | TCCGTTTAGCCATCAAAGGATA | 57.236 | 40.909 | 0.00 | 0.00 | 30.87 | 2.59 |
8092 | 9355 | 5.690865 | TCCGTTTAGCCATCAAAGGATAAT | 58.309 | 37.500 | 0.00 | 0.00 | 39.10 | 1.28 |
8146 | 9409 | 9.823647 | CCTAATACTTGAGTTTGTCATCATACT | 57.176 | 33.333 | 0.00 | 0.00 | 38.25 | 2.12 |
8151 | 9414 | 4.503910 | TGAGTTTGTCATCATACTTCCGG | 58.496 | 43.478 | 0.00 | 0.00 | 36.34 | 5.14 |
8221 | 9484 | 2.818130 | ACAAAACCATTGCATTCGCT | 57.182 | 40.000 | 0.00 | 0.00 | 39.64 | 4.93 |
8234 | 9497 | 5.369685 | TGCATTCGCTTGACTGAAAATAA | 57.630 | 34.783 | 0.00 | 0.00 | 39.64 | 1.40 |
8259 | 9522 | 5.836358 | TGGTTCTTTAGGCCTTGTACAATTT | 59.164 | 36.000 | 12.58 | 0.00 | 0.00 | 1.82 |
8270 | 9533 | 6.090783 | GCCTTGTACAATTTAAGGTGCTTAC | 58.909 | 40.000 | 9.13 | 0.00 | 42.30 | 2.34 |
8331 | 9594 | 2.582052 | ACGCATTGGTCCTTCAGAAAA | 58.418 | 42.857 | 0.00 | 0.00 | 0.00 | 2.29 |
8332 | 9595 | 2.955660 | ACGCATTGGTCCTTCAGAAAAA | 59.044 | 40.909 | 0.00 | 0.00 | 0.00 | 1.94 |
8333 | 9596 | 3.243401 | ACGCATTGGTCCTTCAGAAAAAC | 60.243 | 43.478 | 0.00 | 0.00 | 0.00 | 2.43 |
8334 | 9597 | 3.653344 | GCATTGGTCCTTCAGAAAAACC | 58.347 | 45.455 | 6.65 | 6.65 | 0.00 | 3.27 |
8335 | 9598 | 3.554960 | GCATTGGTCCTTCAGAAAAACCC | 60.555 | 47.826 | 9.98 | 0.00 | 0.00 | 4.11 |
8336 | 9599 | 3.390175 | TTGGTCCTTCAGAAAAACCCA | 57.610 | 42.857 | 9.98 | 0.36 | 0.00 | 4.51 |
8337 | 9600 | 2.944129 | TGGTCCTTCAGAAAAACCCAG | 58.056 | 47.619 | 9.98 | 0.00 | 0.00 | 4.45 |
8338 | 9601 | 2.243736 | TGGTCCTTCAGAAAAACCCAGT | 59.756 | 45.455 | 9.98 | 0.00 | 0.00 | 4.00 |
8339 | 9602 | 3.296854 | GGTCCTTCAGAAAAACCCAGTT | 58.703 | 45.455 | 3.15 | 0.00 | 0.00 | 3.16 |
8340 | 9603 | 3.704566 | GGTCCTTCAGAAAAACCCAGTTT | 59.295 | 43.478 | 3.15 | 0.00 | 37.34 | 2.66 |
8341 | 9604 | 4.202121 | GGTCCTTCAGAAAAACCCAGTTTC | 60.202 | 45.833 | 3.15 | 0.00 | 34.43 | 2.78 |
8342 | 9605 | 4.645136 | GTCCTTCAGAAAAACCCAGTTTCT | 59.355 | 41.667 | 0.00 | 0.00 | 44.30 | 2.52 |
8343 | 9606 | 5.127194 | GTCCTTCAGAAAAACCCAGTTTCTT | 59.873 | 40.000 | 0.00 | 0.00 | 41.47 | 2.52 |
8344 | 9607 | 5.719563 | TCCTTCAGAAAAACCCAGTTTCTTT | 59.280 | 36.000 | 0.00 | 0.00 | 41.47 | 2.52 |
8345 | 9608 | 6.212589 | TCCTTCAGAAAAACCCAGTTTCTTTT | 59.787 | 34.615 | 0.00 | 0.00 | 41.47 | 2.27 |
8346 | 9609 | 6.878923 | CCTTCAGAAAAACCCAGTTTCTTTTT | 59.121 | 34.615 | 0.00 | 0.00 | 41.47 | 1.94 |
8347 | 9610 | 7.064609 | CCTTCAGAAAAACCCAGTTTCTTTTTC | 59.935 | 37.037 | 6.70 | 6.70 | 41.47 | 2.29 |
8349 | 9612 | 7.676004 | TCAGAAAAACCCAGTTTCTTTTTCTT | 58.324 | 30.769 | 12.46 | 0.39 | 45.49 | 2.52 |
8350 | 9613 | 8.154203 | TCAGAAAAACCCAGTTTCTTTTTCTTT | 58.846 | 29.630 | 12.46 | 0.00 | 45.49 | 2.52 |
8351 | 9614 | 8.783093 | CAGAAAAACCCAGTTTCTTTTTCTTTT | 58.217 | 29.630 | 12.46 | 0.00 | 45.49 | 2.27 |
8352 | 9615 | 9.349713 | AGAAAAACCCAGTTTCTTTTTCTTTTT | 57.650 | 25.926 | 10.23 | 0.00 | 45.49 | 1.94 |
8408 | 9678 | 1.583054 | CTTAGCATTGTACGAGGCCC | 58.417 | 55.000 | 15.94 | 0.00 | 0.00 | 5.80 |
8412 | 9682 | 2.686106 | ATTGTACGAGGCCCGGGT | 60.686 | 61.111 | 24.63 | 1.57 | 43.93 | 5.28 |
8510 | 9780 | 2.490217 | CTACAGGCCGAGGACACG | 59.510 | 66.667 | 0.00 | 0.00 | 0.00 | 4.49 |
8658 | 9928 | 1.677052 | GTAACCCCGAAGTTGTTGCAA | 59.323 | 47.619 | 0.00 | 0.00 | 0.00 | 4.08 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
15 | 16 | 1.603842 | CAGTATGGCTGGCTGTCCA | 59.396 | 57.895 | 2.00 | 9.24 | 41.42 | 4.02 |
26 | 31 | 8.048534 | AGATTTCTTTTCATCACACAGTATGG | 57.951 | 34.615 | 0.00 | 0.00 | 43.62 | 2.74 |
74 | 79 | 9.988815 | GATTTGGACTATATACTGTCTGTTCAT | 57.011 | 33.333 | 6.83 | 0.00 | 34.01 | 2.57 |
99 | 104 | 0.678684 | TGTATCGGCCTCACACTCGA | 60.679 | 55.000 | 0.00 | 0.00 | 36.07 | 4.04 |
113 | 118 | 6.261826 | CCATGGAGGAGAGAATTTTGTGTATC | 59.738 | 42.308 | 5.56 | 0.00 | 41.22 | 2.24 |
125 | 130 | 0.262876 | TAGCAGCCATGGAGGAGAGA | 59.737 | 55.000 | 18.40 | 0.00 | 41.22 | 3.10 |
218 | 224 | 1.003839 | TTGCCTCGTGGATGGACAC | 60.004 | 57.895 | 7.92 | 0.00 | 37.99 | 3.67 |
229 | 235 | 1.225855 | TGCTAAAGTGTGTTGCCTCG | 58.774 | 50.000 | 0.00 | 0.00 | 0.00 | 4.63 |
253 | 259 | 8.859090 | TGTTGTGGACTCTATTTTCAATTTCAT | 58.141 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
262 | 268 | 7.972832 | TCGTAAATGTTGTGGACTCTATTTT | 57.027 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
272 | 278 | 1.202132 | CGCCCATCGTAAATGTTGTGG | 60.202 | 52.381 | 0.00 | 0.00 | 0.00 | 4.17 |
286 | 292 | 1.570857 | TTGGATTCCTGGACGCCCAT | 61.571 | 55.000 | 3.95 | 0.00 | 42.59 | 4.00 |
290 | 296 | 5.003804 | ACATATTATTGGATTCCTGGACGC | 58.996 | 41.667 | 3.95 | 0.00 | 0.00 | 5.19 |
307 | 313 | 9.382275 | GCCAAAAGGTTAAAATCATGACATATT | 57.618 | 29.630 | 0.00 | 0.00 | 0.00 | 1.28 |
347 | 353 | 1.066430 | GTCAAGGCTGGTATTCGGTGA | 60.066 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
355 | 361 | 1.276421 | GAGAGCTTGTCAAGGCTGGTA | 59.724 | 52.381 | 14.40 | 0.00 | 39.05 | 3.25 |
365 | 371 | 0.747255 | TCTATGGCCGAGAGCTTGTC | 59.253 | 55.000 | 3.06 | 0.00 | 43.05 | 3.18 |
424 | 430 | 2.126467 | CACTGCAATTTTTGGGACACG | 58.874 | 47.619 | 0.00 | 0.00 | 39.29 | 4.49 |
425 | 431 | 2.102252 | TCCACTGCAATTTTTGGGACAC | 59.898 | 45.455 | 0.00 | 0.00 | 39.29 | 3.67 |
426 | 432 | 2.364970 | CTCCACTGCAATTTTTGGGACA | 59.635 | 45.455 | 0.00 | 0.00 | 0.00 | 4.02 |
468 | 476 | 4.067896 | GCCAGATTCTCTTTGTGTTCAGA | 58.932 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
528 | 536 | 6.016024 | CCATGATTTTTCACTCTTCAACCAGA | 60.016 | 38.462 | 0.00 | 0.00 | 0.00 | 3.86 |
604 | 613 | 6.271159 | AGAAGATGTAAGAGGAAACTTCACCT | 59.729 | 38.462 | 0.00 | 0.00 | 44.43 | 4.00 |
630 | 640 | 6.040391 | GCTGTTGCCAATTATTAGTGGGATAA | 59.960 | 38.462 | 0.00 | 0.00 | 39.65 | 1.75 |
633 | 643 | 3.699038 | GCTGTTGCCAATTATTAGTGGGA | 59.301 | 43.478 | 0.00 | 0.00 | 39.89 | 4.37 |
639 | 649 | 9.748708 | GATGAAATAAGCTGTTGCCAATTATTA | 57.251 | 29.630 | 0.00 | 0.00 | 40.80 | 0.98 |
646 | 656 | 2.760092 | GGGATGAAATAAGCTGTTGCCA | 59.240 | 45.455 | 0.00 | 0.00 | 40.80 | 4.92 |
647 | 657 | 3.026694 | AGGGATGAAATAAGCTGTTGCC | 58.973 | 45.455 | 0.00 | 0.00 | 40.80 | 4.52 |
660 | 670 | 5.887598 | CCATTTCTACATGTGAAGGGATGAA | 59.112 | 40.000 | 9.11 | 0.00 | 0.00 | 2.57 |
711 | 721 | 7.201974 | CCAACGGTCTATCCTCTTTTTATAGGA | 60.202 | 40.741 | 0.00 | 0.00 | 45.76 | 2.94 |
712 | 722 | 6.929606 | CCAACGGTCTATCCTCTTTTTATAGG | 59.070 | 42.308 | 0.00 | 0.00 | 0.00 | 2.57 |
1316 | 1329 | 3.568853 | GCCTAAACGCTCATCTACCTCTA | 59.431 | 47.826 | 0.00 | 0.00 | 0.00 | 2.43 |
1326 | 1339 | 1.813753 | GGCATCGCCTAAACGCTCA | 60.814 | 57.895 | 0.00 | 0.00 | 46.69 | 4.26 |
1548 | 1561 | 2.923035 | ACCCTGACCTCGGTGTGG | 60.923 | 66.667 | 0.00 | 0.00 | 0.00 | 4.17 |
1801 | 1814 | 6.074142 | GGCTTGAATTCCATTAATTTCATCGC | 60.074 | 38.462 | 2.27 | 7.20 | 37.93 | 4.58 |
2157 | 2173 | 6.147000 | GCGGACAAACATTTCCAAACATAATT | 59.853 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
2677 | 2709 | 2.981302 | CTGATCTCGGTGGCCACA | 59.019 | 61.111 | 35.78 | 17.29 | 0.00 | 4.17 |
2701 | 2733 | 3.683937 | GCCATTTGTGCAGGGCGT | 61.684 | 61.111 | 0.00 | 0.00 | 36.58 | 5.68 |
2725 | 2757 | 3.082579 | GCACCTCTGGGTCTAGCGG | 62.083 | 68.421 | 0.00 | 0.00 | 45.41 | 5.52 |
2844 | 2876 | 1.299976 | GTCACGAAATCCTGGGGCT | 59.700 | 57.895 | 0.00 | 0.00 | 0.00 | 5.19 |
2880 | 2912 | 2.203728 | TGTGTAGCGGGTCCAGGT | 60.204 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
2987 | 3019 | 1.404315 | GGTTCACGATCTGTCACCCTC | 60.404 | 57.143 | 0.00 | 0.00 | 0.00 | 4.30 |
2989 | 3021 | 3.139029 | GGTTCACGATCTGTCACCC | 57.861 | 57.895 | 0.00 | 0.00 | 0.00 | 4.61 |
3232 | 3270 | 3.009115 | CATCACCGAGGTGGGGGT | 61.009 | 66.667 | 20.79 | 3.94 | 43.65 | 4.95 |
3286 | 3324 | 4.094590 | CAGATCTGAAATCCAGCAAGACAC | 59.905 | 45.833 | 18.34 | 0.00 | 42.62 | 3.67 |
3292 | 3330 | 2.497273 | TCGTCAGATCTGAAATCCAGCA | 59.503 | 45.455 | 26.70 | 0.00 | 41.85 | 4.41 |
3295 | 3333 | 4.743057 | ACATCGTCAGATCTGAAATCCA | 57.257 | 40.909 | 26.70 | 9.51 | 41.85 | 3.41 |
3649 | 4857 | 5.653330 | TGCAAATCCAATCTCTTAAGCATCA | 59.347 | 36.000 | 0.00 | 0.00 | 0.00 | 3.07 |
4071 | 5317 | 8.915654 | GCACAGAGGTTGTTAAATTAAAAGATG | 58.084 | 33.333 | 0.00 | 0.00 | 38.16 | 2.90 |
4072 | 5318 | 8.860088 | AGCACAGAGGTTGTTAAATTAAAAGAT | 58.140 | 29.630 | 0.00 | 0.00 | 38.16 | 2.40 |
4073 | 5319 | 8.232913 | AGCACAGAGGTTGTTAAATTAAAAGA | 57.767 | 30.769 | 0.00 | 0.00 | 38.16 | 2.52 |
4074 | 5320 | 8.871686 | AAGCACAGAGGTTGTTAAATTAAAAG | 57.128 | 30.769 | 0.00 | 0.00 | 38.16 | 2.27 |
4075 | 5321 | 9.660180 | AAAAGCACAGAGGTTGTTAAATTAAAA | 57.340 | 25.926 | 0.00 | 0.00 | 38.16 | 1.52 |
4076 | 5322 | 9.092876 | CAAAAGCACAGAGGTTGTTAAATTAAA | 57.907 | 29.630 | 0.00 | 0.00 | 38.16 | 1.52 |
4077 | 5323 | 8.254508 | ACAAAAGCACAGAGGTTGTTAAATTAA | 58.745 | 29.630 | 0.00 | 0.00 | 38.16 | 1.40 |
4088 | 5334 | 3.577805 | AGGTAACAAAAGCACAGAGGT | 57.422 | 42.857 | 0.00 | 0.00 | 41.41 | 3.85 |
4255 | 5501 | 7.099764 | ACGAGGATTATAAACAGCATATGGAG | 58.900 | 38.462 | 4.56 | 0.00 | 0.00 | 3.86 |
4591 | 5837 | 8.691797 | TCTGGGTTTGCAATAAATCCTTATTAC | 58.308 | 33.333 | 0.00 | 0.00 | 35.88 | 1.89 |
4663 | 5910 | 0.111061 | TGCTTCCTCTGCACATGGTT | 59.889 | 50.000 | 0.00 | 0.00 | 35.31 | 3.67 |
4756 | 6003 | 4.134563 | TGACTTTCCTCTTAAGCAACCAC | 58.865 | 43.478 | 0.00 | 0.00 | 0.00 | 4.16 |
4919 | 6174 | 8.279970 | TCAACCTCACATTGATAAAGGTTATG | 57.720 | 34.615 | 4.88 | 0.00 | 46.04 | 1.90 |
5133 | 6388 | 7.121463 | GTGATAGGAGAGAGTACAGAAAGAACA | 59.879 | 40.741 | 0.00 | 0.00 | 0.00 | 3.18 |
5802 | 7059 | 6.805016 | ACACATGACTCCTCTCTATTTGAT | 57.195 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
5860 | 7117 | 6.233905 | AGTTTAGGTGCAAAAATGGACTTT | 57.766 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
5865 | 7122 | 5.355596 | TCACAAGTTTAGGTGCAAAAATGG | 58.644 | 37.500 | 0.00 | 0.00 | 35.04 | 3.16 |
5876 | 7133 | 8.571336 | ACTTCAAAGAATGATCACAAGTTTAGG | 58.429 | 33.333 | 0.00 | 0.00 | 38.03 | 2.69 |
5884 | 7141 | 9.591792 | CTCATACTACTTCAAAGAATGATCACA | 57.408 | 33.333 | 0.00 | 0.00 | 38.03 | 3.58 |
6699 | 7960 | 6.865834 | AAATGAGATACTCACAGTTCTCCT | 57.134 | 37.500 | 3.54 | 0.00 | 43.63 | 3.69 |
6781 | 8042 | 7.553402 | TGTACTGAGAACTATTGGAGTAGAGAC | 59.447 | 40.741 | 0.00 | 0.00 | 37.44 | 3.36 |
7156 | 8417 | 0.035881 | CAAGTTGCTCAGGCTCTCCA | 59.964 | 55.000 | 0.00 | 0.00 | 39.59 | 3.86 |
7174 | 8435 | 4.165372 | GGAGTAACACCCCAAGGATTATCA | 59.835 | 45.833 | 0.00 | 0.00 | 36.73 | 2.15 |
7335 | 8596 | 0.036732 | GCCCATGGAGAGTGACAACA | 59.963 | 55.000 | 15.22 | 0.00 | 0.00 | 3.33 |
7518 | 8780 | 6.309712 | ACATTCCTCAATAATGCATCTTCG | 57.690 | 37.500 | 0.00 | 0.00 | 37.77 | 3.79 |
7616 | 8878 | 7.149202 | AGGGAGTATTATTTCAGTATTGCCA | 57.851 | 36.000 | 0.00 | 0.00 | 0.00 | 4.92 |
7622 | 8884 | 6.500751 | GGGATGGAGGGAGTATTATTTCAGTA | 59.499 | 42.308 | 0.00 | 0.00 | 0.00 | 2.74 |
7633 | 8895 | 7.844779 | GTCTTATATTATGGGATGGAGGGAGTA | 59.155 | 40.741 | 0.00 | 0.00 | 0.00 | 2.59 |
7740 | 9002 | 5.697633 | GCAAATGAAAATGATGAACACAGGT | 59.302 | 36.000 | 0.00 | 0.00 | 0.00 | 4.00 |
7795 | 9058 | 1.476110 | GGTAAGTCAAGGTGTGTGGCA | 60.476 | 52.381 | 0.00 | 0.00 | 0.00 | 4.92 |
7796 | 9059 | 1.202770 | AGGTAAGTCAAGGTGTGTGGC | 60.203 | 52.381 | 0.00 | 0.00 | 0.00 | 5.01 |
7797 | 9060 | 2.930826 | AGGTAAGTCAAGGTGTGTGG | 57.069 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
7798 | 9061 | 4.073293 | AGAAGGTAAGTCAAGGTGTGTG | 57.927 | 45.455 | 0.00 | 0.00 | 0.00 | 3.82 |
7799 | 9062 | 4.704965 | GAAGAAGGTAAGTCAAGGTGTGT | 58.295 | 43.478 | 0.00 | 0.00 | 0.00 | 3.72 |
7800 | 9063 | 3.741344 | CGAAGAAGGTAAGTCAAGGTGTG | 59.259 | 47.826 | 0.00 | 0.00 | 0.00 | 3.82 |
7801 | 9064 | 3.387050 | ACGAAGAAGGTAAGTCAAGGTGT | 59.613 | 43.478 | 0.00 | 0.00 | 0.00 | 4.16 |
7802 | 9065 | 3.741344 | CACGAAGAAGGTAAGTCAAGGTG | 59.259 | 47.826 | 0.00 | 0.00 | 0.00 | 4.00 |
7803 | 9066 | 3.802675 | GCACGAAGAAGGTAAGTCAAGGT | 60.803 | 47.826 | 0.00 | 0.00 | 0.00 | 3.50 |
7804 | 9067 | 2.737252 | GCACGAAGAAGGTAAGTCAAGG | 59.263 | 50.000 | 0.00 | 0.00 | 0.00 | 3.61 |
7805 | 9068 | 3.390135 | TGCACGAAGAAGGTAAGTCAAG | 58.610 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
7806 | 9069 | 3.390135 | CTGCACGAAGAAGGTAAGTCAA | 58.610 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
7807 | 9070 | 2.288825 | CCTGCACGAAGAAGGTAAGTCA | 60.289 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
7808 | 9071 | 2.288886 | ACCTGCACGAAGAAGGTAAGTC | 60.289 | 50.000 | 10.06 | 0.00 | 42.59 | 3.01 |
7809 | 9072 | 1.692519 | ACCTGCACGAAGAAGGTAAGT | 59.307 | 47.619 | 10.06 | 0.00 | 42.59 | 2.24 |
7810 | 9073 | 2.457366 | ACCTGCACGAAGAAGGTAAG | 57.543 | 50.000 | 10.06 | 0.00 | 42.59 | 2.34 |
7811 | 9074 | 2.489971 | CAACCTGCACGAAGAAGGTAA | 58.510 | 47.619 | 11.80 | 0.00 | 43.62 | 2.85 |
7812 | 9075 | 1.876416 | GCAACCTGCACGAAGAAGGTA | 60.876 | 52.381 | 11.80 | 0.00 | 43.62 | 3.08 |
7813 | 9076 | 1.166531 | GCAACCTGCACGAAGAAGGT | 61.167 | 55.000 | 6.49 | 6.49 | 46.40 | 3.50 |
7814 | 9077 | 1.576421 | GCAACCTGCACGAAGAAGG | 59.424 | 57.895 | 5.29 | 5.29 | 44.26 | 3.46 |
7895 | 9158 | 0.957362 | AAGAGCCTTGAAGCAGCAAC | 59.043 | 50.000 | 0.00 | 0.00 | 34.23 | 4.17 |
7918 | 9181 | 2.928801 | ACACAGAACATACAGCACCA | 57.071 | 45.000 | 0.00 | 0.00 | 0.00 | 4.17 |
7963 | 9226 | 1.401905 | GGCAATGCACAGTACTAAGCC | 59.598 | 52.381 | 7.79 | 7.99 | 0.00 | 4.35 |
8007 | 9270 | 1.139853 | CTAGGCTACAAGCTTGGAGGG | 59.860 | 57.143 | 34.45 | 16.20 | 41.99 | 4.30 |
8017 | 9280 | 2.170607 | GCATCAGGAACCTAGGCTACAA | 59.829 | 50.000 | 9.30 | 0.00 | 0.00 | 2.41 |
8071 | 9334 | 6.618287 | TCATTATCCTTTGATGGCTAAACG | 57.382 | 37.500 | 0.00 | 0.00 | 32.18 | 3.60 |
8090 | 9353 | 5.880054 | AAGCTACAACGCTACAAATCATT | 57.120 | 34.783 | 0.00 | 0.00 | 39.86 | 2.57 |
8092 | 9355 | 6.978343 | ATAAAGCTACAACGCTACAAATCA | 57.022 | 33.333 | 0.00 | 0.00 | 39.86 | 2.57 |
8138 | 9401 | 4.867047 | GCATCTATGTCCGGAAGTATGATG | 59.133 | 45.833 | 21.33 | 21.33 | 33.93 | 3.07 |
8139 | 9402 | 4.380973 | CGCATCTATGTCCGGAAGTATGAT | 60.381 | 45.833 | 5.23 | 3.99 | 0.00 | 2.45 |
8140 | 9403 | 3.057526 | CGCATCTATGTCCGGAAGTATGA | 60.058 | 47.826 | 5.23 | 1.37 | 0.00 | 2.15 |
8146 | 9409 | 2.815384 | TCCGCATCTATGTCCGGAA | 58.185 | 52.632 | 5.23 | 0.00 | 45.79 | 4.30 |
8151 | 9414 | 5.106791 | CCAGAATTTCATCCGCATCTATGTC | 60.107 | 44.000 | 0.00 | 0.00 | 0.00 | 3.06 |
8221 | 9484 | 8.303876 | GCCTAAAGAACCATTATTTTCAGTCAA | 58.696 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
8234 | 9497 | 4.650972 | TGTACAAGGCCTAAAGAACCAT | 57.349 | 40.909 | 5.16 | 0.00 | 0.00 | 3.55 |
8259 | 9522 | 3.512724 | GTGTACCCTCTGTAAGCACCTTA | 59.487 | 47.826 | 0.00 | 0.00 | 0.00 | 2.69 |
8270 | 9533 | 6.034591 | CGTCTAATTAAGTGTGTACCCTCTG | 58.965 | 44.000 | 0.00 | 0.00 | 0.00 | 3.35 |
8351 | 9614 | 9.157104 | GAAAAATAAACTGGGTTGTCTCAAAAA | 57.843 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
8352 | 9615 | 8.536175 | AGAAAAATAAACTGGGTTGTCTCAAAA | 58.464 | 29.630 | 0.00 | 0.00 | 0.00 | 2.44 |
8353 | 9616 | 8.073467 | AGAAAAATAAACTGGGTTGTCTCAAA | 57.927 | 30.769 | 0.00 | 0.00 | 0.00 | 2.69 |
8354 | 9617 | 7.654022 | AGAAAAATAAACTGGGTTGTCTCAA | 57.346 | 32.000 | 0.00 | 0.00 | 0.00 | 3.02 |
8355 | 9618 | 8.754991 | TTAGAAAAATAAACTGGGTTGTCTCA | 57.245 | 30.769 | 0.00 | 0.00 | 0.00 | 3.27 |
8356 | 9619 | 9.459640 | GTTTAGAAAAATAAACTGGGTTGTCTC | 57.540 | 33.333 | 2.85 | 0.00 | 40.77 | 3.36 |
8357 | 9620 | 8.973182 | TGTTTAGAAAAATAAACTGGGTTGTCT | 58.027 | 29.630 | 9.88 | 0.00 | 43.17 | 3.41 |
8358 | 9621 | 9.027129 | GTGTTTAGAAAAATAAACTGGGTTGTC | 57.973 | 33.333 | 9.88 | 0.00 | 43.17 | 3.18 |
8359 | 9622 | 7.982919 | GGTGTTTAGAAAAATAAACTGGGTTGT | 59.017 | 33.333 | 9.88 | 0.00 | 43.17 | 3.32 |
8360 | 9623 | 7.982354 | TGGTGTTTAGAAAAATAAACTGGGTTG | 59.018 | 33.333 | 9.88 | 0.00 | 43.17 | 3.77 |
8408 | 9678 | 2.743928 | GAGTCCAAGCAGCACCCG | 60.744 | 66.667 | 0.00 | 0.00 | 0.00 | 5.28 |
8523 | 9793 | 2.308039 | GGTCGAAGCACCACACGTC | 61.308 | 63.158 | 0.00 | 0.00 | 36.32 | 4.34 |
8820 | 10090 | 3.680937 | CGTATTCTTTTACAACGGCCTGA | 59.319 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.