Multiple sequence alignment - TraesCS5D01G173900
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 | TraesCS5D01G173900 | chr5D | 100.000 | 5302 | 0 | 0 | 1 | 5302 | 272353667 | 272358968 | 0.000000e+00 | 9792.0 |
1 | TraesCS5D01G173900 | chr5D | 94.224 | 831 | 47 | 1 | 1944 | 2773 | 213006466 | 213007296 | 0.000000e+00 | 1267.0 |
2 | TraesCS5D01G173900 | chr5D | 94.565 | 92 | 3 | 2 | 5211 | 5301 | 489725413 | 489725323 | 1.990000e-29 | 141.0 |
3 | TraesCS5D01G173900 | chr5D | 96.386 | 83 | 3 | 0 | 5219 | 5301 | 276447878 | 276447796 | 2.580000e-28 | 137.0 |
4 | TraesCS5D01G173900 | chr5D | 85.714 | 98 | 11 | 3 | 288 | 383 | 416418530 | 416418434 | 3.380000e-17 | 100.0 |
5 | TraesCS5D01G173900 | chr5A | 92.335 | 1957 | 77 | 36 | 1 | 1944 | 362167688 | 362169584 | 0.000000e+00 | 2715.0 |
6 | TraesCS5D01G173900 | chr5A | 93.966 | 1243 | 50 | 11 | 2777 | 4003 | 362169577 | 362170810 | 0.000000e+00 | 1857.0 |
7 | TraesCS5D01G173900 | chr5A | 89.372 | 621 | 32 | 15 | 4129 | 4739 | 362171096 | 362171692 | 0.000000e+00 | 750.0 |
8 | TraesCS5D01G173900 | chr5A | 94.239 | 243 | 10 | 4 | 4721 | 4960 | 362172648 | 362172889 | 8.390000e-98 | 368.0 |
9 | TraesCS5D01G173900 | chr5A | 92.683 | 205 | 8 | 3 | 5017 | 5221 | 362172888 | 362173085 | 6.720000e-74 | 289.0 |
10 | TraesCS5D01G173900 | chr5A | 96.923 | 130 | 4 | 0 | 4002 | 4131 | 362170892 | 362171021 | 8.940000e-53 | 219.0 |
11 | TraesCS5D01G173900 | chr5A | 93.684 | 95 | 6 | 0 | 5208 | 5302 | 6980920 | 6980826 | 5.540000e-30 | 143.0 |
12 | TraesCS5D01G173900 | chr5A | 85.849 | 106 | 14 | 1 | 3406 | 3511 | 362173050 | 362173154 | 1.560000e-20 | 111.0 |
13 | TraesCS5D01G173900 | chr5A | 87.209 | 86 | 10 | 1 | 299 | 383 | 445263768 | 445263683 | 4.370000e-16 | 97.1 |
14 | TraesCS5D01G173900 | chr5B | 90.753 | 1568 | 72 | 24 | 407 | 1944 | 308549381 | 308550905 | 0.000000e+00 | 2025.0 |
15 | TraesCS5D01G173900 | chr5B | 91.068 | 1377 | 78 | 29 | 2777 | 4131 | 308550898 | 308552251 | 0.000000e+00 | 1820.0 |
16 | TraesCS5D01G173900 | chr5B | 95.511 | 802 | 27 | 5 | 4129 | 4923 | 308552304 | 308553103 | 0.000000e+00 | 1273.0 |
17 | TraesCS5D01G173900 | chr5B | 88.306 | 496 | 36 | 14 | 12 | 507 | 308548915 | 308549388 | 4.610000e-160 | 575.0 |
18 | TraesCS5D01G173900 | chr5B | 91.694 | 301 | 16 | 5 | 4922 | 5221 | 308553265 | 308553557 | 4.940000e-110 | 409.0 |
19 | TraesCS5D01G173900 | chr7D | 95.574 | 836 | 33 | 4 | 1944 | 2778 | 561874236 | 561873404 | 0.000000e+00 | 1336.0 |
20 | TraesCS5D01G173900 | chr7D | 94.769 | 822 | 40 | 3 | 1953 | 2773 | 410121514 | 410122333 | 0.000000e+00 | 1277.0 |
21 | TraesCS5D01G173900 | chr7D | 94.146 | 837 | 44 | 4 | 1943 | 2778 | 438546401 | 438545569 | 0.000000e+00 | 1269.0 |
22 | TraesCS5D01G173900 | chr6D | 94.775 | 823 | 40 | 2 | 1954 | 2776 | 17973065 | 17972246 | 0.000000e+00 | 1279.0 |
23 | TraesCS5D01G173900 | chr6D | 80.315 | 127 | 18 | 7 | 262 | 383 | 27511309 | 27511185 | 7.310000e-14 | 89.8 |
24 | TraesCS5D01G173900 | chr4D | 94.286 | 840 | 41 | 6 | 1941 | 2777 | 385586262 | 385587097 | 0.000000e+00 | 1279.0 |
25 | TraesCS5D01G173900 | chr4D | 94.033 | 838 | 47 | 3 | 1940 | 2775 | 471243119 | 471242283 | 0.000000e+00 | 1267.0 |
26 | TraesCS5D01G173900 | chr3D | 94.026 | 837 | 46 | 4 | 1943 | 2778 | 501079271 | 501078438 | 0.000000e+00 | 1266.0 |
27 | TraesCS5D01G173900 | chr1D | 93.853 | 846 | 43 | 7 | 1940 | 2784 | 452692939 | 452692102 | 0.000000e+00 | 1266.0 |
28 | TraesCS5D01G173900 | chr1D | 95.556 | 90 | 3 | 1 | 5213 | 5302 | 223430853 | 223430941 | 5.540000e-30 | 143.0 |
29 | TraesCS5D01G173900 | chr1D | 84.694 | 98 | 12 | 3 | 288 | 383 | 95869119 | 95869023 | 1.570000e-15 | 95.3 |
30 | TraesCS5D01G173900 | chr2A | 97.647 | 85 | 2 | 0 | 5217 | 5301 | 770103190 | 770103106 | 4.280000e-31 | 147.0 |
31 | TraesCS5D01G173900 | chr2A | 100.000 | 29 | 0 | 0 | 438 | 466 | 203665426 | 203665398 | 3.000000e-03 | 54.7 |
32 | TraesCS5D01G173900 | chr6A | 98.750 | 80 | 1 | 0 | 5222 | 5301 | 495679394 | 495679315 | 5.540000e-30 | 143.0 |
33 | TraesCS5D01G173900 | chr6A | 100.000 | 30 | 0 | 0 | 472 | 501 | 338003206 | 338003235 | 7.420000e-04 | 56.5 |
34 | TraesCS5D01G173900 | chrUn | 94.565 | 92 | 3 | 2 | 5211 | 5301 | 68146052 | 68146142 | 1.990000e-29 | 141.0 |
35 | TraesCS5D01G173900 | chrUn | 100.000 | 28 | 0 | 0 | 439 | 466 | 32515215 | 32515242 | 1.000000e-02 | 52.8 |
36 | TraesCS5D01G173900 | chrUn | 100.000 | 28 | 0 | 0 | 439 | 466 | 262108472 | 262108499 | 1.000000e-02 | 52.8 |
37 | TraesCS5D01G173900 | chrUn | 100.000 | 28 | 0 | 0 | 439 | 466 | 282922635 | 282922608 | 1.000000e-02 | 52.8 |
38 | TraesCS5D01G173900 | chr4B | 97.531 | 81 | 2 | 0 | 5221 | 5301 | 187444242 | 187444322 | 7.160000e-29 | 139.0 |
39 | TraesCS5D01G173900 | chr4B | 97.143 | 35 | 1 | 0 | 474 | 508 | 411629625 | 411629591 | 5.730000e-05 | 60.2 |
40 | TraesCS5D01G173900 | chr2B | 95.402 | 87 | 3 | 1 | 5216 | 5301 | 800248999 | 800248913 | 2.580000e-28 | 137.0 |
41 | TraesCS5D01G173900 | chr2B | 79.310 | 87 | 16 | 2 | 382 | 468 | 8039401 | 8039485 | 5.730000e-05 | 60.2 |
42 | TraesCS5D01G173900 | chr1A | 85.714 | 98 | 11 | 3 | 288 | 383 | 459273346 | 459273250 | 3.380000e-17 | 100.0 |
43 | TraesCS5D01G173900 | chr1B | 84.694 | 98 | 12 | 3 | 288 | 383 | 156850460 | 156850556 | 1.570000e-15 | 95.3 |
44 | TraesCS5D01G173900 | chr1B | 84.536 | 97 | 13 | 2 | 288 | 383 | 632021041 | 632020946 | 1.570000e-15 | 95.3 |
45 | TraesCS5D01G173900 | chr1B | 80.992 | 121 | 16 | 6 | 268 | 383 | 568569260 | 568569378 | 7.310000e-14 | 89.8 |
46 | TraesCS5D01G173900 | chr4A | 94.286 | 35 | 2 | 0 | 474 | 508 | 615180478 | 615180444 | 3.000000e-03 | 54.7 |
47 | TraesCS5D01G173900 | chr3A | 92.105 | 38 | 3 | 0 | 474 | 511 | 23210150 | 23210187 | 3.000000e-03 | 54.7 |
48 | TraesCS5D01G173900 | chr3A | 100.000 | 28 | 0 | 0 | 439 | 466 | 55616937 | 55616910 | 1.000000e-02 | 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 | TraesCS5D01G173900 | chr5D | 272353667 | 272358968 | 5301 | False | 9792.000000 | 9792 | 100.000000 | 1 | 5302 | 1 | chr5D.!!$F2 | 5301 |
1 | TraesCS5D01G173900 | chr5D | 213006466 | 213007296 | 830 | False | 1267.000000 | 1267 | 94.224000 | 1944 | 2773 | 1 | chr5D.!!$F1 | 829 |
2 | TraesCS5D01G173900 | chr5A | 362167688 | 362173154 | 5466 | False | 901.285714 | 2715 | 92.195286 | 1 | 5221 | 7 | chr5A.!!$F1 | 5220 |
3 | TraesCS5D01G173900 | chr5B | 308548915 | 308553557 | 4642 | False | 1220.400000 | 2025 | 91.466400 | 12 | 5221 | 5 | chr5B.!!$F1 | 5209 |
4 | TraesCS5D01G173900 | chr7D | 561873404 | 561874236 | 832 | True | 1336.000000 | 1336 | 95.574000 | 1944 | 2778 | 1 | chr7D.!!$R2 | 834 |
5 | TraesCS5D01G173900 | chr7D | 410121514 | 410122333 | 819 | False | 1277.000000 | 1277 | 94.769000 | 1953 | 2773 | 1 | chr7D.!!$F1 | 820 |
6 | TraesCS5D01G173900 | chr7D | 438545569 | 438546401 | 832 | True | 1269.000000 | 1269 | 94.146000 | 1943 | 2778 | 1 | chr7D.!!$R1 | 835 |
7 | TraesCS5D01G173900 | chr6D | 17972246 | 17973065 | 819 | True | 1279.000000 | 1279 | 94.775000 | 1954 | 2776 | 1 | chr6D.!!$R1 | 822 |
8 | TraesCS5D01G173900 | chr4D | 385586262 | 385587097 | 835 | False | 1279.000000 | 1279 | 94.286000 | 1941 | 2777 | 1 | chr4D.!!$F1 | 836 |
9 | TraesCS5D01G173900 | chr4D | 471242283 | 471243119 | 836 | True | 1267.000000 | 1267 | 94.033000 | 1940 | 2775 | 1 | chr4D.!!$R1 | 835 |
10 | TraesCS5D01G173900 | chr3D | 501078438 | 501079271 | 833 | True | 1266.000000 | 1266 | 94.026000 | 1943 | 2778 | 1 | chr3D.!!$R1 | 835 |
11 | TraesCS5D01G173900 | chr1D | 452692102 | 452692939 | 837 | True | 1266.000000 | 1266 | 93.853000 | 1940 | 2784 | 1 | chr1D.!!$R2 | 844 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
957 | 1077 | 0.616111 | ATCCACTCCTTCGGTCAGCT | 60.616 | 55.000 | 0.0 | 0.0 | 0.00 | 4.24 | F |
1066 | 1189 | 0.477204 | ATCCGTATCCTCTCCGTCCA | 59.523 | 55.000 | 0.0 | 0.0 | 0.00 | 4.02 | F |
1977 | 2110 | 1.064463 | CCAATATGTGTGGTGGGAGCT | 60.064 | 52.381 | 0.0 | 0.0 | 0.00 | 4.09 | F |
3068 | 3214 | 0.183492 | AGTGCCCTCTTCTGTGCAAA | 59.817 | 50.000 | 0.0 | 0.0 | 35.16 | 3.68 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2945 | 3088 | 0.037882 | ATAGGCGCATGTCTCCATCG | 60.038 | 55.000 | 10.83 | 0.0 | 0.00 | 3.84 | R |
3015 | 3158 | 6.950842 | TGACCACAATCAAGAGATCTGTAAT | 58.049 | 36.000 | 0.00 | 0.0 | 31.90 | 1.89 | R |
3772 | 3941 | 3.555956 | GGACGAATGATGCTAAATCGTGT | 59.444 | 43.478 | 3.67 | 0.0 | 45.67 | 4.49 | R |
4406 | 4747 | 0.321653 | GGTGCACTCCATTCGGAAGT | 60.322 | 55.000 | 17.98 | 0.0 | 42.21 | 3.01 | 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 |
---|---|---|---|---|---|---|---|---|---|
48 | 50 | 1.897560 | GGTCACAACCTTTGGAGGAG | 58.102 | 55.000 | 0.00 | 0.00 | 46.74 | 3.69 |
55 | 57 | 4.397417 | CACAACCTTTGGAGGAGAATGATC | 59.603 | 45.833 | 0.00 | 0.00 | 46.74 | 2.92 |
61 | 63 | 5.011533 | CCTTTGGAGGAGAATGATCGTAGAT | 59.988 | 44.000 | 0.00 | 0.00 | 46.74 | 1.98 |
65 | 67 | 5.473846 | TGGAGGAGAATGATCGTAGATGTAC | 59.526 | 44.000 | 0.00 | 0.00 | 45.12 | 2.90 |
72 | 74 | 9.678941 | GAGAATGATCGTAGATGTACAAACATA | 57.321 | 33.333 | 0.00 | 0.00 | 46.49 | 2.29 |
75 | 77 | 8.763049 | ATGATCGTAGATGTACAAACATATGG | 57.237 | 34.615 | 7.80 | 0.00 | 46.49 | 2.74 |
76 | 78 | 7.722363 | TGATCGTAGATGTACAAACATATGGT | 58.278 | 34.615 | 7.80 | 0.00 | 46.49 | 3.55 |
77 | 79 | 8.201464 | TGATCGTAGATGTACAAACATATGGTT | 58.799 | 33.333 | 7.80 | 3.38 | 46.49 | 3.67 |
78 | 80 | 9.687210 | GATCGTAGATGTACAAACATATGGTTA | 57.313 | 33.333 | 5.49 | 0.00 | 46.49 | 2.85 |
112 | 114 | 4.019231 | GGTTTTGTCAGGTCCCTATCTCTT | 60.019 | 45.833 | 0.00 | 0.00 | 0.00 | 2.85 |
115 | 117 | 2.587777 | TGTCAGGTCCCTATCTCTTCCT | 59.412 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
116 | 118 | 2.962421 | GTCAGGTCCCTATCTCTTCCTG | 59.038 | 54.545 | 0.00 | 0.00 | 42.36 | 3.86 |
121 | 123 | 4.226168 | AGGTCCCTATCTCTTCCTGTTTTG | 59.774 | 45.833 | 0.00 | 0.00 | 0.00 | 2.44 |
145 | 147 | 4.202151 | GCCCACTCTGAAAAGTTGTGAAAT | 60.202 | 41.667 | 0.00 | 0.00 | 0.00 | 2.17 |
146 | 148 | 5.284079 | CCCACTCTGAAAAGTTGTGAAATG | 58.716 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
294 | 296 | 6.373216 | TCCGTCCATAAATAGAACTTTTGTGG | 59.627 | 38.462 | 5.80 | 5.80 | 43.08 | 4.17 |
344 | 346 | 5.647658 | TGTGTTTGTTCACTCATTTCAGTCT | 59.352 | 36.000 | 0.00 | 0.00 | 38.90 | 3.24 |
350 | 352 | 6.330278 | TGTTCACTCATTTCAGTCTATACCG | 58.670 | 40.000 | 0.00 | 0.00 | 0.00 | 4.02 |
355 | 357 | 6.015856 | CACTCATTTCAGTCTATACCGGATCT | 60.016 | 42.308 | 9.46 | 0.00 | 0.00 | 2.75 |
422 | 516 | 4.380841 | AGTTATCGCTCAAACGGATGTA | 57.619 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
425 | 519 | 5.815740 | AGTTATCGCTCAAACGGATGTAATT | 59.184 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
428 | 522 | 6.671614 | ATCGCTCAAACGGATGTAATTTAA | 57.328 | 33.333 | 0.00 | 0.00 | 0.00 | 1.52 |
469 | 564 | 2.857592 | TATCCGTTTGAGCGACTACC | 57.142 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
478 | 573 | 2.888594 | TGAGCGACTACCAAATAGTGC | 58.111 | 47.619 | 0.00 | 0.00 | 44.64 | 4.40 |
493 | 589 | 8.275040 | ACCAAATAGTGCTAGATACATCCTTTT | 58.725 | 33.333 | 0.00 | 0.00 | 0.00 | 2.27 |
501 | 597 | 3.448686 | AGATACATCCTTTTGAGCGACG | 58.551 | 45.455 | 0.00 | 0.00 | 0.00 | 5.12 |
631 | 735 | 9.522804 | GATTGGCGAATGGTATGTTATTTAAAA | 57.477 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
636 | 740 | 8.812329 | GCGAATGGTATGTTATTTAAAAATGCA | 58.188 | 29.630 | 0.00 | 0.00 | 0.00 | 3.96 |
659 | 763 | 9.160496 | TGCAAGATTGTTCTTTTGTTTTTGTAT | 57.840 | 25.926 | 0.00 | 0.00 | 40.28 | 2.29 |
731 | 843 | 1.217183 | AGATCTCCCCCTACGTGCTTA | 59.783 | 52.381 | 0.00 | 0.00 | 0.00 | 3.09 |
753 | 865 | 7.569599 | TTAAGTCCTCTCCTTTTTAGATGGT | 57.430 | 36.000 | 0.00 | 0.00 | 0.00 | 3.55 |
957 | 1077 | 0.616111 | ATCCACTCCTTCGGTCAGCT | 60.616 | 55.000 | 0.00 | 0.00 | 0.00 | 4.24 |
1066 | 1189 | 0.477204 | ATCCGTATCCTCTCCGTCCA | 59.523 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1081 | 1204 | 4.436998 | CCACCCACTCGCCGTCTC | 62.437 | 72.222 | 0.00 | 0.00 | 0.00 | 3.36 |
1101 | 1224 | 4.147449 | CTCCGCAGCATCCGTGGA | 62.147 | 66.667 | 0.00 | 0.00 | 40.71 | 4.02 |
1196 | 1322 | 3.539604 | GTGTGCATGCTCTTCCTCTTAT | 58.460 | 45.455 | 20.33 | 0.00 | 0.00 | 1.73 |
1198 | 1324 | 4.749099 | GTGTGCATGCTCTTCCTCTTATAG | 59.251 | 45.833 | 20.33 | 0.00 | 0.00 | 1.31 |
1202 | 1328 | 6.540189 | GTGCATGCTCTTCCTCTTATAGAAAA | 59.460 | 38.462 | 20.33 | 0.00 | 0.00 | 2.29 |
1484 | 1610 | 6.936900 | AGAAATAAGTACATGCAGACACACTT | 59.063 | 34.615 | 0.00 | 0.00 | 33.01 | 3.16 |
1485 | 1611 | 7.445402 | AGAAATAAGTACATGCAGACACACTTT | 59.555 | 33.333 | 0.00 | 0.00 | 31.61 | 2.66 |
1486 | 1612 | 4.818534 | AAGTACATGCAGACACACTTTG | 57.181 | 40.909 | 0.00 | 0.00 | 0.00 | 2.77 |
1487 | 1613 | 4.071961 | AGTACATGCAGACACACTTTGA | 57.928 | 40.909 | 0.00 | 0.00 | 0.00 | 2.69 |
1488 | 1614 | 4.645535 | AGTACATGCAGACACACTTTGAT | 58.354 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
1489 | 1615 | 5.065914 | AGTACATGCAGACACACTTTGATT | 58.934 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
1499 | 1625 | 8.454106 | GCAGACACACTTTGATTTGATATACTT | 58.546 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
1500 | 1626 | 9.764870 | CAGACACACTTTGATTTGATATACTTG | 57.235 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
1755 | 1886 | 2.737252 | CGTGCTAAGGGAGAACTTCAAC | 59.263 | 50.000 | 0.00 | 0.00 | 30.22 | 3.18 |
1821 | 1953 | 6.402011 | CGTCATGTGCAGTGTTAATAATCACA | 60.402 | 38.462 | 0.00 | 7.13 | 37.07 | 3.58 |
1822 | 1954 | 7.475015 | GTCATGTGCAGTGTTAATAATCACAT | 58.525 | 34.615 | 9.89 | 9.89 | 42.31 | 3.21 |
1823 | 1955 | 8.611757 | GTCATGTGCAGTGTTAATAATCACATA | 58.388 | 33.333 | 13.10 | 0.00 | 40.42 | 2.29 |
1824 | 1956 | 8.611757 | TCATGTGCAGTGTTAATAATCACATAC | 58.388 | 33.333 | 13.10 | 4.24 | 40.42 | 2.39 |
1825 | 1957 | 6.999456 | TGTGCAGTGTTAATAATCACATACG | 58.001 | 36.000 | 0.00 | 0.00 | 37.07 | 3.06 |
1826 | 1958 | 6.814146 | TGTGCAGTGTTAATAATCACATACGA | 59.186 | 34.615 | 0.00 | 0.00 | 37.07 | 3.43 |
1951 | 2084 | 5.756833 | CAGGTTCGTTACTTTTAGGACAAGT | 59.243 | 40.000 | 0.00 | 0.00 | 38.13 | 3.16 |
1959 | 2092 | 4.453751 | ACTTTTAGGACAAGTTAACGCCA | 58.546 | 39.130 | 0.00 | 0.00 | 29.75 | 5.69 |
1961 | 2094 | 5.533528 | ACTTTTAGGACAAGTTAACGCCAAT | 59.466 | 36.000 | 0.00 | 0.00 | 29.75 | 3.16 |
1963 | 2096 | 7.392393 | ACTTTTAGGACAAGTTAACGCCAATAT | 59.608 | 33.333 | 0.00 | 0.00 | 29.75 | 1.28 |
1977 | 2110 | 1.064463 | CCAATATGTGTGGTGGGAGCT | 60.064 | 52.381 | 0.00 | 0.00 | 0.00 | 4.09 |
2012 | 2145 | 2.558795 | CGCCCTATAGCACACAGACTAT | 59.441 | 50.000 | 0.00 | 0.00 | 33.71 | 2.12 |
2018 | 2151 | 5.185828 | CCTATAGCACACAGACTATGCCATA | 59.814 | 44.000 | 0.00 | 0.00 | 40.33 | 2.74 |
2050 | 2187 | 7.744059 | CATGCATGCATGTGAAAATCTTTTTA | 58.256 | 30.769 | 40.30 | 8.22 | 46.20 | 1.52 |
2051 | 2188 | 7.908827 | TGCATGCATGTGAAAATCTTTTTAT | 57.091 | 28.000 | 26.79 | 0.00 | 0.00 | 1.40 |
2252 | 2392 | 9.088987 | TGTCTATACTGAAGTTGCCATGATATA | 57.911 | 33.333 | 0.00 | 0.00 | 0.00 | 0.86 |
2702 | 2845 | 5.088680 | TGCTGATGTCATCTGTTCATACA | 57.911 | 39.130 | 17.91 | 6.50 | 0.00 | 2.29 |
2778 | 2921 | 2.096268 | GTGGGCGTTAGTTTTTCCGTAC | 60.096 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
2784 | 2927 | 6.348458 | GGGCGTTAGTTTTTCCGTACTTTTAT | 60.348 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
2785 | 2928 | 6.520790 | GGCGTTAGTTTTTCCGTACTTTTATG | 59.479 | 38.462 | 0.00 | 0.00 | 0.00 | 1.90 |
2945 | 3088 | 5.239087 | GTGCAGGTACCTACTATGAGTCTAC | 59.761 | 48.000 | 15.80 | 0.00 | 0.00 | 2.59 |
3039 | 3185 | 4.897509 | ACAGATCTCTTGATTGTGGTCA | 57.102 | 40.909 | 0.00 | 0.00 | 32.19 | 4.02 |
3068 | 3214 | 0.183492 | AGTGCCCTCTTCTGTGCAAA | 59.817 | 50.000 | 0.00 | 0.00 | 35.16 | 3.68 |
3237 | 3383 | 4.000325 | GGTATGTTTTGGATGTTTTGGGC | 59.000 | 43.478 | 0.00 | 0.00 | 0.00 | 5.36 |
3353 | 3505 | 6.224584 | TGTGACTGAATGGTTGACGTTATTA | 58.775 | 36.000 | 0.00 | 0.00 | 0.00 | 0.98 |
3387 | 3539 | 5.941146 | AATATAAATAGGCCCCTTCCACA | 57.059 | 39.130 | 0.00 | 0.00 | 0.00 | 4.17 |
3678 | 3846 | 5.309638 | GAGAAGGGAATATTTGTAGGCTCC | 58.690 | 45.833 | 0.00 | 0.00 | 0.00 | 4.70 |
3767 | 3936 | 8.626526 | ACTTTATTAAAGAAACCAACATCACGT | 58.373 | 29.630 | 20.33 | 0.00 | 41.02 | 4.49 |
3772 | 3941 | 5.821516 | AAGAAACCAACATCACGTTACAA | 57.178 | 34.783 | 0.00 | 0.00 | 35.52 | 2.41 |
3773 | 3942 | 5.164606 | AGAAACCAACATCACGTTACAAC | 57.835 | 39.130 | 0.00 | 0.00 | 35.52 | 3.32 |
3901 | 4079 | 7.373493 | ACAAGCAAGTTTTCATCTAATCCTTG | 58.627 | 34.615 | 0.00 | 0.00 | 32.40 | 3.61 |
3991 | 4171 | 7.331026 | TGCTACTCAGTCTAGCAACATAAAAT | 58.669 | 34.615 | 0.00 | 0.00 | 42.89 | 1.82 |
4024 | 4287 | 9.715121 | AGATAGTTTGTACTGGATTTTTACGAA | 57.285 | 29.630 | 0.00 | 0.00 | 35.78 | 3.85 |
4127 | 4390 | 8.896320 | TCTGCTGTAAGTTTTTGTACTTATCA | 57.104 | 30.769 | 0.00 | 0.00 | 41.29 | 2.15 |
4235 | 4576 | 2.303311 | GCAGGTTTTGGTAGGAGAGTCT | 59.697 | 50.000 | 0.00 | 0.00 | 0.00 | 3.24 |
4481 | 4828 | 9.893634 | TCCAAAATAATGTAATCCGTTCTCTTA | 57.106 | 29.630 | 0.00 | 0.00 | 0.00 | 2.10 |
4518 | 4866 | 5.298276 | TGTGACCCATCTTAAAACTGAACAC | 59.702 | 40.000 | 0.00 | 0.00 | 0.00 | 3.32 |
4598 | 4946 | 4.104738 | CCAGAATATCAACCATGTACCCCT | 59.895 | 45.833 | 0.00 | 0.00 | 0.00 | 4.79 |
4599 | 4947 | 5.065914 | CAGAATATCAACCATGTACCCCTG | 58.934 | 45.833 | 0.00 | 0.00 | 0.00 | 4.45 |
4603 | 4951 | 3.433306 | TCAACCATGTACCCCTGAAAG | 57.567 | 47.619 | 0.00 | 0.00 | 0.00 | 2.62 |
4668 | 5016 | 1.078497 | CTGCCGTGCTACCAATCCA | 60.078 | 57.895 | 0.00 | 0.00 | 0.00 | 3.41 |
4683 | 5031 | 3.118371 | CCAATCCAGTACTCCCTTACCAC | 60.118 | 52.174 | 0.00 | 0.00 | 0.00 | 4.16 |
4758 | 6081 | 6.159293 | TCTAGCATGTACAAGAGTTCAACTG | 58.841 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
4874 | 6200 | 1.391485 | GTACATGCTTCACGTCTGCAG | 59.609 | 52.381 | 7.63 | 7.63 | 40.18 | 4.41 |
4960 | 6454 | 6.295236 | CCAATTTCTTGCCAGAACTATCCAAA | 60.295 | 38.462 | 0.00 | 0.00 | 38.86 | 3.28 |
4978 | 6472 | 4.097741 | TCCAAATGCATGGAGTTAATTCGG | 59.902 | 41.667 | 4.87 | 0.00 | 44.52 | 4.30 |
4989 | 6483 | 5.237779 | TGGAGTTAATTCGGTTTTGACTGTC | 59.762 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
5016 | 6510 | 7.602644 | GGTGTTACTCTGTGTTATGAAGAATGA | 59.397 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
5043 | 6537 | 4.439289 | GCTCATGATCCCTTTTGCAACTAC | 60.439 | 45.833 | 0.00 | 0.00 | 0.00 | 2.73 |
5044 | 6538 | 4.922206 | TCATGATCCCTTTTGCAACTACT | 58.078 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
5045 | 6539 | 6.061022 | TCATGATCCCTTTTGCAACTACTA | 57.939 | 37.500 | 0.00 | 0.00 | 0.00 | 1.82 |
5134 | 6628 | 7.682787 | ATCACCCTATCAGTCTAGTTCATTT | 57.317 | 36.000 | 0.00 | 0.00 | 0.00 | 2.32 |
5154 | 6648 | 7.348815 | TCATTTGATTGTATCCTCTTGGTGAT | 58.651 | 34.615 | 0.00 | 0.00 | 34.23 | 3.06 |
5222 | 6717 | 7.179927 | CTATTTCAGCTTCATGATGAGAGTG | 57.820 | 40.000 | 12.54 | 2.54 | 42.43 | 3.51 |
5223 | 6718 | 4.548451 | TTCAGCTTCATGATGAGAGTGT | 57.452 | 40.909 | 12.54 | 0.00 | 42.43 | 3.55 |
5224 | 6719 | 4.548451 | TCAGCTTCATGATGAGAGTGTT | 57.452 | 40.909 | 12.54 | 0.00 | 36.01 | 3.32 |
5225 | 6720 | 4.251268 | TCAGCTTCATGATGAGAGTGTTG | 58.749 | 43.478 | 12.54 | 1.23 | 36.01 | 3.33 |
5226 | 6721 | 4.020839 | TCAGCTTCATGATGAGAGTGTTGA | 60.021 | 41.667 | 12.54 | 3.28 | 36.01 | 3.18 |
5228 | 6723 | 5.180680 | CAGCTTCATGATGAGAGTGTTGAAA | 59.819 | 40.000 | 12.54 | 0.00 | 33.12 | 2.69 |
5229 | 6724 | 5.944599 | AGCTTCATGATGAGAGTGTTGAAAT | 59.055 | 36.000 | 12.54 | 0.00 | 0.00 | 2.17 |
5230 | 6725 | 7.065443 | CAGCTTCATGATGAGAGTGTTGAAATA | 59.935 | 37.037 | 12.54 | 0.00 | 33.12 | 1.40 |
5232 | 6727 | 9.049523 | GCTTCATGATGAGAGTGTTGAAATATA | 57.950 | 33.333 | 12.54 | 0.00 | 0.00 | 0.86 |
5236 | 6731 | 9.608617 | CATGATGAGAGTGTTGAAATATATTGC | 57.391 | 33.333 | 0.00 | 0.00 | 0.00 | 3.56 |
5238 | 6733 | 6.942532 | TGAGAGTGTTGAAATATATTGCCC | 57.057 | 37.500 | 0.00 | 0.00 | 0.00 | 5.36 |
5239 | 6734 | 6.422333 | TGAGAGTGTTGAAATATATTGCCCA | 58.578 | 36.000 | 0.00 | 0.00 | 0.00 | 5.36 |
5240 | 6735 | 6.318648 | TGAGAGTGTTGAAATATATTGCCCAC | 59.681 | 38.462 | 12.40 | 12.40 | 0.00 | 4.61 |
5241 | 6736 | 5.594317 | AGAGTGTTGAAATATATTGCCCACC | 59.406 | 40.000 | 15.06 | 9.68 | 0.00 | 4.61 |
5242 | 6737 | 5.518865 | AGTGTTGAAATATATTGCCCACCT | 58.481 | 37.500 | 15.06 | 4.86 | 0.00 | 4.00 |
5243 | 6738 | 5.594317 | AGTGTTGAAATATATTGCCCACCTC | 59.406 | 40.000 | 15.06 | 3.10 | 0.00 | 3.85 |
5244 | 6739 | 4.892934 | TGTTGAAATATATTGCCCACCTCC | 59.107 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
5245 | 6740 | 4.112634 | TGAAATATATTGCCCACCTCCC | 57.887 | 45.455 | 0.00 | 0.00 | 0.00 | 4.30 |
5246 | 6741 | 3.726859 | TGAAATATATTGCCCACCTCCCT | 59.273 | 43.478 | 0.00 | 0.00 | 0.00 | 4.20 |
5247 | 6742 | 4.202567 | TGAAATATATTGCCCACCTCCCTC | 60.203 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
5248 | 6743 | 1.742308 | TATATTGCCCACCTCCCTCC | 58.258 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
5249 | 6744 | 0.328450 | ATATTGCCCACCTCCCTCCA | 60.328 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
5250 | 6745 | 0.328450 | TATTGCCCACCTCCCTCCAT | 60.328 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
5251 | 6746 | 1.649271 | ATTGCCCACCTCCCTCCATC | 61.649 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
5252 | 6747 | 2.692368 | GCCCACCTCCCTCCATCA | 60.692 | 66.667 | 0.00 | 0.00 | 0.00 | 3.07 |
5253 | 6748 | 2.750657 | GCCCACCTCCCTCCATCAG | 61.751 | 68.421 | 0.00 | 0.00 | 0.00 | 2.90 |
5255 | 6750 | 0.916358 | CCCACCTCCCTCCATCAGTT | 60.916 | 60.000 | 0.00 | 0.00 | 0.00 | 3.16 |
5256 | 6751 | 0.543749 | CCACCTCCCTCCATCAGTTC | 59.456 | 60.000 | 0.00 | 0.00 | 0.00 | 3.01 |
5258 | 6753 | 0.978146 | ACCTCCCTCCATCAGTTCGG | 60.978 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
5259 | 6754 | 0.687757 | CCTCCCTCCATCAGTTCGGA | 60.688 | 60.000 | 0.00 | 0.00 | 0.00 | 4.55 |
5260 | 6755 | 0.461961 | CTCCCTCCATCAGTTCGGAC | 59.538 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
5261 | 6756 | 0.041238 | TCCCTCCATCAGTTCGGACT | 59.959 | 55.000 | 0.00 | 0.00 | 36.25 | 3.85 |
5264 | 6759 | 2.290323 | CCCTCCATCAGTTCGGACTTTT | 60.290 | 50.000 | 0.00 | 0.00 | 32.54 | 2.27 |
5266 | 6761 | 3.403038 | CTCCATCAGTTCGGACTTTTGT | 58.597 | 45.455 | 0.00 | 0.00 | 32.54 | 2.83 |
5269 | 6764 | 4.935205 | TCCATCAGTTCGGACTTTTGTATG | 59.065 | 41.667 | 0.00 | 0.00 | 32.54 | 2.39 |
5271 | 6766 | 5.063944 | CCATCAGTTCGGACTTTTGTATGAG | 59.936 | 44.000 | 0.00 | 0.00 | 32.54 | 2.90 |
5273 | 6768 | 5.607477 | TCAGTTCGGACTTTTGTATGAGTT | 58.393 | 37.500 | 0.00 | 0.00 | 32.54 | 3.01 |
5274 | 6769 | 5.465390 | TCAGTTCGGACTTTTGTATGAGTTG | 59.535 | 40.000 | 0.00 | 0.00 | 32.54 | 3.16 |
5275 | 6770 | 4.755123 | AGTTCGGACTTTTGTATGAGTTGG | 59.245 | 41.667 | 0.00 | 0.00 | 29.87 | 3.77 |
5277 | 6772 | 3.074412 | CGGACTTTTGTATGAGTTGGCT | 58.926 | 45.455 | 0.00 | 0.00 | 0.00 | 4.75 |
5278 | 6773 | 3.120199 | CGGACTTTTGTATGAGTTGGCTG | 60.120 | 47.826 | 0.00 | 0.00 | 0.00 | 4.85 |
5279 | 6774 | 3.191371 | GGACTTTTGTATGAGTTGGCTGG | 59.809 | 47.826 | 0.00 | 0.00 | 0.00 | 4.85 |
5280 | 6775 | 4.072131 | GACTTTTGTATGAGTTGGCTGGA | 58.928 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
5281 | 6776 | 4.074970 | ACTTTTGTATGAGTTGGCTGGAG | 58.925 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
5282 | 6777 | 2.113860 | TTGTATGAGTTGGCTGGAGC | 57.886 | 50.000 | 0.00 | 0.00 | 41.14 | 4.70 |
5283 | 6778 | 0.983467 | TGTATGAGTTGGCTGGAGCA | 59.017 | 50.000 | 0.20 | 0.00 | 44.36 | 4.26 |
5284 | 6779 | 1.561076 | TGTATGAGTTGGCTGGAGCAT | 59.439 | 47.619 | 0.20 | 0.00 | 44.36 | 3.79 |
5285 | 6780 | 2.771372 | TGTATGAGTTGGCTGGAGCATA | 59.229 | 45.455 | 0.20 | 0.00 | 44.36 | 3.14 |
5286 | 6781 | 3.199727 | TGTATGAGTTGGCTGGAGCATAA | 59.800 | 43.478 | 0.20 | 0.00 | 44.36 | 1.90 |
5287 | 6782 | 2.877097 | TGAGTTGGCTGGAGCATAAA | 57.123 | 45.000 | 0.20 | 0.00 | 44.36 | 1.40 |
5288 | 6783 | 3.370840 | TGAGTTGGCTGGAGCATAAAT | 57.629 | 42.857 | 0.20 | 0.00 | 44.36 | 1.40 |
5289 | 6784 | 3.700538 | TGAGTTGGCTGGAGCATAAATT | 58.299 | 40.909 | 0.20 | 0.00 | 44.36 | 1.82 |
5290 | 6785 | 3.696051 | TGAGTTGGCTGGAGCATAAATTC | 59.304 | 43.478 | 0.20 | 0.00 | 44.36 | 2.17 |
5291 | 6786 | 3.696051 | GAGTTGGCTGGAGCATAAATTCA | 59.304 | 43.478 | 0.20 | 0.00 | 44.36 | 2.57 |
5292 | 6787 | 4.088634 | AGTTGGCTGGAGCATAAATTCAA | 58.911 | 39.130 | 0.20 | 0.00 | 44.36 | 2.69 |
5293 | 6788 | 4.713321 | AGTTGGCTGGAGCATAAATTCAAT | 59.287 | 37.500 | 0.20 | 0.00 | 44.36 | 2.57 |
5294 | 6789 | 5.893255 | AGTTGGCTGGAGCATAAATTCAATA | 59.107 | 36.000 | 0.20 | 0.00 | 44.36 | 1.90 |
5295 | 6790 | 6.552350 | AGTTGGCTGGAGCATAAATTCAATAT | 59.448 | 34.615 | 0.20 | 0.00 | 44.36 | 1.28 |
5296 | 6791 | 6.335471 | TGGCTGGAGCATAAATTCAATATG | 57.665 | 37.500 | 0.20 | 0.00 | 44.36 | 1.78 |
5297 | 6792 | 5.244402 | TGGCTGGAGCATAAATTCAATATGG | 59.756 | 40.000 | 0.20 | 0.00 | 44.36 | 2.74 |
5298 | 6793 | 5.244626 | GGCTGGAGCATAAATTCAATATGGT | 59.755 | 40.000 | 0.20 | 1.00 | 42.43 | 3.55 |
5299 | 6794 | 6.434028 | GGCTGGAGCATAAATTCAATATGGTA | 59.566 | 38.462 | 0.20 | 0.00 | 40.50 | 3.25 |
5300 | 6795 | 7.123247 | GGCTGGAGCATAAATTCAATATGGTAT | 59.877 | 37.037 | 0.20 | 0.00 | 40.50 | 2.73 |
5301 | 6796 | 8.526147 | GCTGGAGCATAAATTCAATATGGTATT | 58.474 | 33.333 | 1.35 | 0.00 | 40.50 | 1.89 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
2 | 3 | 1.141881 | ACAGCAGGAATAGACGCCG | 59.858 | 57.895 | 0.00 | 0.00 | 0.00 | 6.46 |
8 | 9 | 2.182842 | GCCGCCACAGCAGGAATAG | 61.183 | 63.158 | 0.00 | 0.00 | 39.83 | 1.73 |
10 | 11 | 2.599645 | CTAGCCGCCACAGCAGGAAT | 62.600 | 60.000 | 0.00 | 0.00 | 39.83 | 3.01 |
78 | 80 | 9.197306 | GGGACCTGACAAAACCTTATTTATAAT | 57.803 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
79 | 81 | 8.395605 | AGGGACCTGACAAAACCTTATTTATAA | 58.604 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
80 | 82 | 7.935405 | AGGGACCTGACAAAACCTTATTTATA | 58.065 | 34.615 | 0.00 | 0.00 | 0.00 | 0.98 |
81 | 83 | 6.800890 | AGGGACCTGACAAAACCTTATTTAT | 58.199 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
82 | 84 | 6.208840 | AGGGACCTGACAAAACCTTATTTA | 57.791 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
83 | 85 | 5.074746 | AGGGACCTGACAAAACCTTATTT | 57.925 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
84 | 86 | 4.741928 | AGGGACCTGACAAAACCTTATT | 57.258 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
85 | 87 | 5.731678 | AGATAGGGACCTGACAAAACCTTAT | 59.268 | 40.000 | 0.00 | 0.00 | 0.00 | 1.73 |
86 | 88 | 5.098663 | AGATAGGGACCTGACAAAACCTTA | 58.901 | 41.667 | 0.00 | 0.00 | 0.00 | 2.69 |
87 | 89 | 3.916989 | AGATAGGGACCTGACAAAACCTT | 59.083 | 43.478 | 0.00 | 0.00 | 0.00 | 3.50 |
88 | 90 | 3.519913 | GAGATAGGGACCTGACAAAACCT | 59.480 | 47.826 | 0.00 | 0.00 | 0.00 | 3.50 |
93 | 95 | 3.012959 | AGGAAGAGATAGGGACCTGACAA | 59.987 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
102 | 104 | 3.282885 | GCCAAAACAGGAAGAGATAGGG | 58.717 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
112 | 114 | 0.178992 | CAGAGTGGGCCAAAACAGGA | 60.179 | 55.000 | 8.40 | 0.00 | 0.00 | 3.86 |
115 | 117 | 2.151502 | TTTCAGAGTGGGCCAAAACA | 57.848 | 45.000 | 8.40 | 0.00 | 0.00 | 2.83 |
116 | 118 | 2.430694 | ACTTTTCAGAGTGGGCCAAAAC | 59.569 | 45.455 | 8.40 | 2.32 | 0.00 | 2.43 |
121 | 123 | 1.338020 | CACAACTTTTCAGAGTGGGCC | 59.662 | 52.381 | 0.00 | 0.00 | 0.00 | 5.80 |
184 | 186 | 8.595421 | TGCACCAATTATTGCAAATGGATATAT | 58.405 | 29.630 | 22.86 | 0.63 | 45.65 | 0.86 |
389 | 391 | 3.926616 | AGCGATAACTAATTCCGGATGG | 58.073 | 45.455 | 4.15 | 0.00 | 0.00 | 3.51 |
391 | 393 | 4.866508 | TGAGCGATAACTAATTCCGGAT | 57.133 | 40.909 | 4.15 | 0.00 | 0.00 | 4.18 |
469 | 564 | 9.330063 | TCAAAAGGATGTATCTAGCACTATTTG | 57.670 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
478 | 573 | 4.677378 | CGTCGCTCAAAAGGATGTATCTAG | 59.323 | 45.833 | 0.00 | 0.00 | 0.00 | 2.43 |
493 | 589 | 3.842732 | TCAAGAATTAGTCGTCGCTCA | 57.157 | 42.857 | 0.00 | 0.00 | 0.00 | 4.26 |
596 | 699 | 0.378257 | ATTCGCCAATCGTGCATGTC | 59.622 | 50.000 | 5.68 | 0.00 | 39.67 | 3.06 |
631 | 735 | 8.513774 | ACAAAAACAAAAGAACAATCTTGCATT | 58.486 | 25.926 | 0.00 | 0.00 | 45.19 | 3.56 |
639 | 743 | 9.541143 | CCCTGTATACAAAAACAAAAGAACAAT | 57.459 | 29.630 | 7.06 | 0.00 | 0.00 | 2.71 |
652 | 756 | 3.741249 | TGAACGTGCCCTGTATACAAAA | 58.259 | 40.909 | 7.06 | 0.00 | 0.00 | 2.44 |
659 | 763 | 2.779755 | ATGATTGAACGTGCCCTGTA | 57.220 | 45.000 | 0.00 | 0.00 | 0.00 | 2.74 |
704 | 808 | 2.690026 | CGTAGGGGGAGATCTGGAAAGA | 60.690 | 54.545 | 0.00 | 0.00 | 0.00 | 2.52 |
715 | 819 | 1.136500 | GACTTAAGCACGTAGGGGGAG | 59.864 | 57.143 | 1.29 | 0.00 | 0.00 | 4.30 |
731 | 843 | 5.310857 | ACACCATCTAAAAAGGAGAGGACTT | 59.689 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
753 | 865 | 2.125310 | CGGCCGGATTACAGCACA | 60.125 | 61.111 | 20.10 | 0.00 | 0.00 | 4.57 |
957 | 1077 | 3.323979 | GGAAGATCGTGGGAGGCTAATAA | 59.676 | 47.826 | 0.00 | 0.00 | 0.00 | 1.40 |
1066 | 1189 | 3.063084 | GAGAGACGGCGAGTGGGT | 61.063 | 66.667 | 16.62 | 0.00 | 0.00 | 4.51 |
1196 | 1322 | 5.694910 | AGACGAACGCAGATTTTCTTTTCTA | 59.305 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
1198 | 1324 | 4.608882 | CAGACGAACGCAGATTTTCTTTTC | 59.391 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
1202 | 1328 | 2.476619 | CACAGACGAACGCAGATTTTCT | 59.523 | 45.455 | 0.00 | 0.00 | 0.00 | 2.52 |
1484 | 1610 | 6.200808 | CGTGCATGCAAGTATATCAAATCAA | 58.799 | 36.000 | 24.58 | 0.00 | 0.00 | 2.57 |
1485 | 1611 | 5.750650 | CGTGCATGCAAGTATATCAAATCA | 58.249 | 37.500 | 24.58 | 0.00 | 0.00 | 2.57 |
1486 | 1612 | 4.614284 | GCGTGCATGCAAGTATATCAAATC | 59.386 | 41.667 | 29.87 | 10.23 | 34.15 | 2.17 |
1487 | 1613 | 4.276678 | AGCGTGCATGCAAGTATATCAAAT | 59.723 | 37.500 | 31.36 | 4.12 | 37.31 | 2.32 |
1488 | 1614 | 3.627123 | AGCGTGCATGCAAGTATATCAAA | 59.373 | 39.130 | 31.36 | 0.00 | 37.31 | 2.69 |
1489 | 1615 | 3.002553 | CAGCGTGCATGCAAGTATATCAA | 59.997 | 43.478 | 31.36 | 0.00 | 37.31 | 2.57 |
1847 | 1979 | 4.094684 | CGATCTCAACCTGTCGCC | 57.905 | 61.111 | 0.00 | 0.00 | 0.00 | 5.54 |
1951 | 2084 | 2.750166 | CCACCACACATATTGGCGTTAA | 59.250 | 45.455 | 0.00 | 0.00 | 37.69 | 2.01 |
1959 | 2092 | 4.270008 | GTTTAGCTCCCACCACACATATT | 58.730 | 43.478 | 0.00 | 0.00 | 0.00 | 1.28 |
1961 | 2094 | 2.026636 | GGTTTAGCTCCCACCACACATA | 60.027 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
1963 | 2096 | 0.109723 | GGTTTAGCTCCCACCACACA | 59.890 | 55.000 | 0.00 | 0.00 | 0.00 | 3.72 |
1977 | 2110 | 2.281900 | GGCGTGTGGGCAGGTTTA | 60.282 | 61.111 | 0.00 | 0.00 | 41.77 | 2.01 |
2012 | 2145 | 0.537828 | ATGCATGCGGTGATATGGCA | 60.538 | 50.000 | 14.09 | 0.00 | 41.48 | 4.92 |
2651 | 2793 | 7.062906 | TCTTTTTGGTTTTCGGCTTAAAAAC | 57.937 | 32.000 | 11.11 | 11.11 | 42.93 | 2.43 |
2702 | 2845 | 2.498481 | CCATCACCACTCATTTTGCCAT | 59.502 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
2784 | 2927 | 7.775053 | AAACCAGTTCATCTAAAAATAGGCA | 57.225 | 32.000 | 0.00 | 0.00 | 0.00 | 4.75 |
2945 | 3088 | 0.037882 | ATAGGCGCATGTCTCCATCG | 60.038 | 55.000 | 10.83 | 0.00 | 0.00 | 3.84 |
3012 | 3155 | 8.048534 | ACCACAATCAAGAGATCTGTAATTTG | 57.951 | 34.615 | 0.00 | 3.65 | 31.90 | 2.32 |
3013 | 3156 | 7.884877 | TGACCACAATCAAGAGATCTGTAATTT | 59.115 | 33.333 | 0.00 | 0.00 | 31.90 | 1.82 |
3014 | 3157 | 7.397221 | TGACCACAATCAAGAGATCTGTAATT | 58.603 | 34.615 | 0.00 | 0.00 | 31.90 | 1.40 |
3015 | 3158 | 6.950842 | TGACCACAATCAAGAGATCTGTAAT | 58.049 | 36.000 | 0.00 | 0.00 | 31.90 | 1.89 |
3280 | 3428 | 7.620888 | AGGAGTGGTCCATTTTTCATATCAAAT | 59.379 | 33.333 | 0.00 | 0.00 | 46.80 | 2.32 |
3338 | 3490 | 4.628333 | CACGGAGTTAATAACGTCAACCAT | 59.372 | 41.667 | 0.00 | 0.00 | 41.61 | 3.55 |
3353 | 3505 | 7.827729 | GGGCCTATTTATATTTATCACGGAGTT | 59.172 | 37.037 | 0.84 | 0.00 | 41.61 | 3.01 |
3387 | 3539 | 6.426646 | TTTTAGCATACATTTTTGTGGGGT | 57.573 | 33.333 | 0.00 | 0.00 | 0.00 | 4.95 |
3561 | 3729 | 6.759497 | AAGGATAATAAACTTCAGCACCAC | 57.241 | 37.500 | 0.00 | 0.00 | 0.00 | 4.16 |
3669 | 3837 | 4.196193 | CGGTCAATTAAATGGAGCCTACA | 58.804 | 43.478 | 0.00 | 0.00 | 0.00 | 2.74 |
3678 | 3846 | 4.701956 | AGGAGCAACGGTCAATTAAATG | 57.298 | 40.909 | 0.00 | 0.00 | 0.00 | 2.32 |
3767 | 3936 | 6.091577 | ACGAATGATGCTAAATCGTGTTGTAA | 59.908 | 34.615 | 0.00 | 0.00 | 44.20 | 2.41 |
3772 | 3941 | 3.555956 | GGACGAATGATGCTAAATCGTGT | 59.444 | 43.478 | 3.67 | 0.00 | 45.67 | 4.49 |
3773 | 3942 | 3.804325 | AGGACGAATGATGCTAAATCGTG | 59.196 | 43.478 | 3.67 | 0.00 | 45.67 | 4.35 |
3880 | 4058 | 6.474751 | GCATCAAGGATTAGATGAAAACTTGC | 59.525 | 38.462 | 6.60 | 0.00 | 43.28 | 4.01 |
3991 | 4171 | 9.515226 | AAATCCAGTACAAACTATCTTAAAGCA | 57.485 | 29.630 | 0.00 | 0.00 | 33.48 | 3.91 |
4024 | 4287 | 4.469586 | ACCAACAACCTGAAAACCAAAGAT | 59.530 | 37.500 | 0.00 | 0.00 | 0.00 | 2.40 |
4092 | 4355 | 1.565156 | TTACAGCAGAAACGCCAGCG | 61.565 | 55.000 | 11.05 | 11.05 | 46.03 | 5.18 |
4135 | 4476 | 8.814038 | AAGATTATTTGTACTGGCTCTCATTT | 57.186 | 30.769 | 0.00 | 0.00 | 0.00 | 2.32 |
4137 | 4478 | 8.486210 | TGTAAGATTATTTGTACTGGCTCTCAT | 58.514 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
4235 | 4576 | 4.408270 | CCAGGATCTTCTTCCTTGATCAGA | 59.592 | 45.833 | 0.00 | 0.00 | 43.88 | 3.27 |
4406 | 4747 | 0.321653 | GGTGCACTCCATTCGGAAGT | 60.322 | 55.000 | 17.98 | 0.00 | 42.21 | 3.01 |
4518 | 4866 | 2.034124 | CCACCTCTGGCCCAATATTTG | 58.966 | 52.381 | 0.00 | 0.00 | 0.00 | 2.32 |
4874 | 6200 | 3.505293 | AGAGCAGTCATTCCAAGCTTTTC | 59.495 | 43.478 | 0.00 | 0.00 | 35.36 | 2.29 |
4960 | 6454 | 5.184864 | TCAAAACCGAATTAACTCCATGCAT | 59.815 | 36.000 | 0.00 | 0.00 | 0.00 | 3.96 |
4976 | 6470 | 1.011333 | AACACCGACAGTCAAAACCG | 58.989 | 50.000 | 0.41 | 0.00 | 0.00 | 4.44 |
4978 | 6472 | 4.025979 | CAGAGTAACACCGACAGTCAAAAC | 60.026 | 45.833 | 0.41 | 0.00 | 0.00 | 2.43 |
4989 | 6483 | 5.466819 | TCTTCATAACACAGAGTAACACCG | 58.533 | 41.667 | 0.00 | 0.00 | 0.00 | 4.94 |
5016 | 6510 | 3.516300 | TGCAAAAGGGATCATGAGCAATT | 59.484 | 39.130 | 13.85 | 3.66 | 0.00 | 2.32 |
5044 | 6538 | 9.964354 | AGCATGAATTTTCCAGCATAGTATATA | 57.036 | 29.630 | 0.00 | 0.00 | 0.00 | 0.86 |
5045 | 6539 | 8.874744 | AGCATGAATTTTCCAGCATAGTATAT | 57.125 | 30.769 | 0.00 | 0.00 | 0.00 | 0.86 |
5134 | 6628 | 6.611236 | TCAGTATCACCAAGAGGATACAATCA | 59.389 | 38.462 | 12.65 | 0.00 | 45.23 | 2.57 |
5154 | 6648 | 4.002982 | CTGCTAAATGCCACAGTTCAGTA | 58.997 | 43.478 | 0.00 | 0.00 | 42.00 | 2.74 |
5178 | 6673 | 7.982371 | AATAGCAGTCACATTTAGTACGTAC | 57.018 | 36.000 | 18.10 | 18.10 | 0.00 | 3.67 |
5179 | 6674 | 8.245491 | TGAAATAGCAGTCACATTTAGTACGTA | 58.755 | 33.333 | 0.00 | 0.00 | 0.00 | 3.57 |
5180 | 6675 | 7.094631 | TGAAATAGCAGTCACATTTAGTACGT | 58.905 | 34.615 | 0.00 | 0.00 | 0.00 | 3.57 |
5181 | 6676 | 7.520119 | TGAAATAGCAGTCACATTTAGTACG | 57.480 | 36.000 | 0.00 | 0.00 | 0.00 | 3.67 |
5221 | 6716 | 4.892934 | GGAGGTGGGCAATATATTTCAACA | 59.107 | 41.667 | 0.00 | 0.00 | 0.00 | 3.33 |
5222 | 6717 | 4.280929 | GGGAGGTGGGCAATATATTTCAAC | 59.719 | 45.833 | 0.00 | 0.00 | 0.00 | 3.18 |
5223 | 6718 | 4.169856 | AGGGAGGTGGGCAATATATTTCAA | 59.830 | 41.667 | 0.00 | 0.00 | 0.00 | 2.69 |
5224 | 6719 | 3.726859 | AGGGAGGTGGGCAATATATTTCA | 59.273 | 43.478 | 0.00 | 0.00 | 0.00 | 2.69 |
5225 | 6720 | 4.336280 | GAGGGAGGTGGGCAATATATTTC | 58.664 | 47.826 | 0.00 | 0.00 | 0.00 | 2.17 |
5226 | 6721 | 3.076032 | GGAGGGAGGTGGGCAATATATTT | 59.924 | 47.826 | 0.00 | 0.00 | 0.00 | 1.40 |
5228 | 6723 | 2.279173 | GGAGGGAGGTGGGCAATATAT | 58.721 | 52.381 | 0.00 | 0.00 | 0.00 | 0.86 |
5229 | 6724 | 1.060954 | TGGAGGGAGGTGGGCAATATA | 60.061 | 52.381 | 0.00 | 0.00 | 0.00 | 0.86 |
5230 | 6725 | 0.328450 | TGGAGGGAGGTGGGCAATAT | 60.328 | 55.000 | 0.00 | 0.00 | 0.00 | 1.28 |
5232 | 6727 | 1.623686 | ATGGAGGGAGGTGGGCAAT | 60.624 | 57.895 | 0.00 | 0.00 | 0.00 | 3.56 |
5233 | 6728 | 2.204291 | ATGGAGGGAGGTGGGCAA | 60.204 | 61.111 | 0.00 | 0.00 | 0.00 | 4.52 |
5234 | 6729 | 2.692368 | GATGGAGGGAGGTGGGCA | 60.692 | 66.667 | 0.00 | 0.00 | 0.00 | 5.36 |
5235 | 6730 | 2.692368 | TGATGGAGGGAGGTGGGC | 60.692 | 66.667 | 0.00 | 0.00 | 0.00 | 5.36 |
5236 | 6731 | 0.916358 | AACTGATGGAGGGAGGTGGG | 60.916 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
5238 | 6733 | 0.176680 | CGAACTGATGGAGGGAGGTG | 59.823 | 60.000 | 0.00 | 0.00 | 0.00 | 4.00 |
5239 | 6734 | 0.978146 | CCGAACTGATGGAGGGAGGT | 60.978 | 60.000 | 0.00 | 0.00 | 0.00 | 3.85 |
5240 | 6735 | 0.687757 | TCCGAACTGATGGAGGGAGG | 60.688 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
5241 | 6736 | 0.461961 | GTCCGAACTGATGGAGGGAG | 59.538 | 60.000 | 0.00 | 0.00 | 34.21 | 4.30 |
5242 | 6737 | 0.041238 | AGTCCGAACTGATGGAGGGA | 59.959 | 55.000 | 0.00 | 0.00 | 34.21 | 4.20 |
5243 | 6738 | 0.905357 | AAGTCCGAACTGATGGAGGG | 59.095 | 55.000 | 0.00 | 0.00 | 35.36 | 4.30 |
5244 | 6739 | 2.744202 | CAAAAGTCCGAACTGATGGAGG | 59.256 | 50.000 | 0.00 | 0.00 | 35.36 | 4.30 |
5245 | 6740 | 3.403038 | ACAAAAGTCCGAACTGATGGAG | 58.597 | 45.455 | 0.00 | 0.00 | 35.36 | 3.86 |
5246 | 6741 | 3.485463 | ACAAAAGTCCGAACTGATGGA | 57.515 | 42.857 | 0.00 | 0.00 | 35.36 | 3.41 |
5247 | 6742 | 4.935205 | TCATACAAAAGTCCGAACTGATGG | 59.065 | 41.667 | 0.00 | 0.00 | 35.36 | 3.51 |
5248 | 6743 | 5.639506 | ACTCATACAAAAGTCCGAACTGATG | 59.360 | 40.000 | 0.00 | 0.00 | 35.36 | 3.07 |
5249 | 6744 | 5.794894 | ACTCATACAAAAGTCCGAACTGAT | 58.205 | 37.500 | 0.00 | 0.00 | 35.36 | 2.90 |
5250 | 6745 | 5.209818 | ACTCATACAAAAGTCCGAACTGA | 57.790 | 39.130 | 0.00 | 0.00 | 35.36 | 3.41 |
5251 | 6746 | 5.334105 | CCAACTCATACAAAAGTCCGAACTG | 60.334 | 44.000 | 0.00 | 0.00 | 35.36 | 3.16 |
5252 | 6747 | 4.755123 | CCAACTCATACAAAAGTCCGAACT | 59.245 | 41.667 | 0.00 | 0.00 | 37.32 | 3.01 |
5253 | 6748 | 4.612939 | GCCAACTCATACAAAAGTCCGAAC | 60.613 | 45.833 | 0.00 | 0.00 | 0.00 | 3.95 |
5255 | 6750 | 3.071479 | GCCAACTCATACAAAAGTCCGA | 58.929 | 45.455 | 0.00 | 0.00 | 0.00 | 4.55 |
5256 | 6751 | 3.074412 | AGCCAACTCATACAAAAGTCCG | 58.926 | 45.455 | 0.00 | 0.00 | 0.00 | 4.79 |
5258 | 6753 | 4.072131 | TCCAGCCAACTCATACAAAAGTC | 58.928 | 43.478 | 0.00 | 0.00 | 0.00 | 3.01 |
5259 | 6754 | 4.074970 | CTCCAGCCAACTCATACAAAAGT | 58.925 | 43.478 | 0.00 | 0.00 | 0.00 | 2.66 |
5260 | 6755 | 3.119708 | GCTCCAGCCAACTCATACAAAAG | 60.120 | 47.826 | 0.00 | 0.00 | 34.31 | 2.27 |
5261 | 6756 | 2.819608 | GCTCCAGCCAACTCATACAAAA | 59.180 | 45.455 | 0.00 | 0.00 | 34.31 | 2.44 |
5264 | 6759 | 0.983467 | TGCTCCAGCCAACTCATACA | 59.017 | 50.000 | 0.00 | 0.00 | 41.18 | 2.29 |
5266 | 6761 | 4.502105 | TTTATGCTCCAGCCAACTCATA | 57.498 | 40.909 | 0.00 | 0.00 | 41.18 | 2.15 |
5269 | 6764 | 3.696051 | TGAATTTATGCTCCAGCCAACTC | 59.304 | 43.478 | 0.00 | 0.00 | 41.18 | 3.01 |
5271 | 6766 | 4.454728 | TTGAATTTATGCTCCAGCCAAC | 57.545 | 40.909 | 0.00 | 0.00 | 41.18 | 3.77 |
5273 | 6768 | 5.244402 | CCATATTGAATTTATGCTCCAGCCA | 59.756 | 40.000 | 0.00 | 0.00 | 41.18 | 4.75 |
5274 | 6769 | 5.244626 | ACCATATTGAATTTATGCTCCAGCC | 59.755 | 40.000 | 0.00 | 0.00 | 41.18 | 4.85 |
5275 | 6770 | 6.336842 | ACCATATTGAATTTATGCTCCAGC | 57.663 | 37.500 | 0.00 | 0.00 | 42.50 | 4.85 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.