Multiple sequence alignment - TraesCS6A01G391200
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 | TraesCS6A01G391200 | chr6A | 100.000 | 2657 | 0 | 0 | 1 | 2657 | 606092864 | 606090208 | 0.000000e+00 | 4907.0 |
1 | TraesCS6A01G391200 | chr6A | 96.610 | 413 | 11 | 1 | 2247 | 2656 | 180939493 | 180939081 | 0.000000e+00 | 682.0 |
2 | TraesCS6A01G391200 | chr6A | 95.884 | 413 | 12 | 2 | 2249 | 2656 | 556222125 | 556222537 | 0.000000e+00 | 664.0 |
3 | TraesCS6A01G391200 | chr6A | 95.422 | 415 | 14 | 2 | 2247 | 2656 | 556228743 | 556229157 | 0.000000e+00 | 656.0 |
4 | TraesCS6A01G391200 | chr6A | 88.559 | 236 | 18 | 5 | 2016 | 2248 | 15570212 | 15569983 | 7.240000e-71 | 278.0 |
5 | TraesCS6A01G391200 | chr7B | 84.480 | 1482 | 186 | 24 | 556 | 2016 | 733461461 | 733460003 | 0.000000e+00 | 1423.0 |
6 | TraesCS6A01G391200 | chr7D | 83.886 | 1477 | 203 | 20 | 556 | 2013 | 630794147 | 630795607 | 0.000000e+00 | 1376.0 |
7 | TraesCS6A01G391200 | chr7D | 89.596 | 644 | 45 | 13 | 2027 | 2656 | 618818282 | 618818917 | 0.000000e+00 | 798.0 |
8 | TraesCS6A01G391200 | chr7D | 81.452 | 248 | 26 | 12 | 109 | 346 | 566313871 | 566314108 | 4.520000e-43 | 185.0 |
9 | TraesCS6A01G391200 | chr7D | 81.633 | 98 | 13 | 4 | 347 | 441 | 310972876 | 310972971 | 2.840000e-10 | 76.8 |
10 | TraesCS6A01G391200 | chr2A | 97.842 | 556 | 9 | 2 | 1 | 555 | 4630150 | 4630703 | 0.000000e+00 | 957.0 |
11 | TraesCS6A01G391200 | chr2A | 96.296 | 567 | 8 | 2 | 1 | 556 | 681505884 | 681505320 | 0.000000e+00 | 918.0 |
12 | TraesCS6A01G391200 | chr2A | 89.732 | 224 | 19 | 3 | 2027 | 2247 | 457211151 | 457210929 | 1.560000e-72 | 283.0 |
13 | TraesCS6A01G391200 | chr1A | 98.351 | 485 | 8 | 0 | 1 | 485 | 497922532 | 497922048 | 0.000000e+00 | 852.0 |
14 | TraesCS6A01G391200 | chr1A | 89.381 | 226 | 18 | 5 | 2027 | 2248 | 514878044 | 514878267 | 2.010000e-71 | 279.0 |
15 | TraesCS6A01G391200 | chr1A | 88.938 | 226 | 19 | 6 | 2027 | 2248 | 515131576 | 515131799 | 9.370000e-70 | 274.0 |
16 | TraesCS6A01G391200 | chr6D | 91.538 | 520 | 34 | 3 | 556 | 1072 | 460219689 | 460219177 | 0.000000e+00 | 708.0 |
17 | TraesCS6A01G391200 | chr6D | 92.574 | 202 | 12 | 2 | 2050 | 2248 | 289365598 | 289365397 | 1.200000e-73 | 287.0 |
18 | TraesCS6A01G391200 | chr4A | 96.350 | 411 | 14 | 1 | 2247 | 2656 | 60898047 | 60897637 | 0.000000e+00 | 675.0 |
19 | TraesCS6A01G391200 | chr4A | 96.126 | 413 | 13 | 1 | 2247 | 2656 | 300072025 | 300071613 | 0.000000e+00 | 671.0 |
20 | TraesCS6A01G391200 | chr4A | 92.093 | 215 | 13 | 2 | 344 | 555 | 602749995 | 602749782 | 1.550000e-77 | 300.0 |
21 | TraesCS6A01G391200 | chr4A | 88.938 | 226 | 19 | 6 | 2027 | 2248 | 613688864 | 613688641 | 9.370000e-70 | 274.0 |
22 | TraesCS6A01G391200 | chr4A | 87.500 | 56 | 5 | 1 | 501 | 556 | 405991527 | 405991474 | 2.210000e-06 | 63.9 |
23 | TraesCS6A01G391200 | chr5A | 96.117 | 412 | 14 | 1 | 2247 | 2656 | 32911589 | 32912000 | 0.000000e+00 | 671.0 |
24 | TraesCS6A01G391200 | chr5A | 95.884 | 413 | 14 | 1 | 2247 | 2656 | 535414788 | 535415200 | 0.000000e+00 | 665.0 |
25 | TraesCS6A01G391200 | chr5A | 76.000 | 200 | 30 | 13 | 361 | 556 | 368129628 | 368129443 | 1.310000e-13 | 87.9 |
26 | TraesCS6A01G391200 | chr7A | 95.642 | 413 | 15 | 2 | 2247 | 2656 | 38896368 | 38895956 | 0.000000e+00 | 660.0 |
27 | TraesCS6A01G391200 | chr7A | 95.631 | 412 | 14 | 4 | 2248 | 2656 | 365945432 | 365945842 | 0.000000e+00 | 658.0 |
28 | TraesCS6A01G391200 | chr7A | 89.439 | 303 | 20 | 3 | 53 | 345 | 730842613 | 730842313 | 3.230000e-99 | 372.0 |
29 | TraesCS6A01G391200 | chr7A | 89.427 | 227 | 16 | 8 | 2027 | 2248 | 717946889 | 717947112 | 2.010000e-71 | 279.0 |
30 | TraesCS6A01G391200 | chr7A | 84.146 | 82 | 8 | 4 | 362 | 440 | 182380226 | 182380147 | 1.020000e-09 | 75.0 |
31 | TraesCS6A01G391200 | chr7A | 97.368 | 38 | 1 | 0 | 1 | 38 | 730842649 | 730842612 | 6.140000e-07 | 65.8 |
32 | TraesCS6A01G391200 | chr3A | 96.034 | 353 | 11 | 2 | 207 | 559 | 338926985 | 338926636 | 2.970000e-159 | 571.0 |
33 | TraesCS6A01G391200 | chr3A | 95.192 | 208 | 10 | 0 | 1 | 208 | 338951692 | 338951485 | 1.970000e-86 | 329.0 |
34 | TraesCS6A01G391200 | chr3A | 89.778 | 225 | 18 | 4 | 2027 | 2248 | 509874155 | 509873933 | 1.560000e-72 | 283.0 |
35 | TraesCS6A01G391200 | chr4B | 89.197 | 361 | 17 | 12 | 1 | 346 | 334107448 | 334107095 | 5.250000e-117 | 431.0 |
36 | TraesCS6A01G391200 | chr4B | 90.610 | 213 | 17 | 2 | 344 | 555 | 334106927 | 334106717 | 2.010000e-71 | 279.0 |
37 | TraesCS6A01G391200 | chr4B | 82.323 | 198 | 25 | 2 | 110 | 297 | 174064706 | 174064509 | 2.120000e-36 | 163.0 |
38 | TraesCS6A01G391200 | chr4B | 93.750 | 48 | 2 | 1 | 509 | 556 | 449656684 | 449656638 | 1.320000e-08 | 71.3 |
39 | TraesCS6A01G391200 | chr2D | 90.610 | 213 | 10 | 2 | 143 | 345 | 299383788 | 299384000 | 9.370000e-70 | 274.0 |
40 | TraesCS6A01G391200 | chrUn | 76.923 | 208 | 30 | 12 | 154 | 345 | 93998650 | 93998855 | 4.680000e-18 | 102.0 |
41 | TraesCS6A01G391200 | chr1D | 74.894 | 235 | 44 | 12 | 343 | 570 | 453329781 | 453330007 | 2.820000e-15 | 93.5 |
42 | TraesCS6A01G391200 | chr5D | 76.142 | 197 | 30 | 11 | 164 | 345 | 447693667 | 447693861 | 1.310000e-13 | 87.9 |
43 | TraesCS6A01G391200 | chr5D | 83.784 | 74 | 9 | 2 | 489 | 560 | 458737564 | 458737492 | 1.710000e-07 | 67.6 |
44 | TraesCS6A01G391200 | chr3B | 88.000 | 75 | 4 | 3 | 489 | 558 | 479302222 | 479302148 | 1.690000e-12 | 84.2 |
45 | TraesCS6A01G391200 | chr6B | 95.556 | 45 | 1 | 1 | 512 | 556 | 17994116 | 17994159 | 1.320000e-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 | TraesCS6A01G391200 | chr6A | 606090208 | 606092864 | 2656 | True | 4907 | 4907 | 100.0000 | 1 | 2657 | 1 | chr6A.!!$R3 | 2656 |
1 | TraesCS6A01G391200 | chr7B | 733460003 | 733461461 | 1458 | True | 1423 | 1423 | 84.4800 | 556 | 2016 | 1 | chr7B.!!$R1 | 1460 |
2 | TraesCS6A01G391200 | chr7D | 630794147 | 630795607 | 1460 | False | 1376 | 1376 | 83.8860 | 556 | 2013 | 1 | chr7D.!!$F4 | 1457 |
3 | TraesCS6A01G391200 | chr7D | 618818282 | 618818917 | 635 | False | 798 | 798 | 89.5960 | 2027 | 2656 | 1 | chr7D.!!$F3 | 629 |
4 | TraesCS6A01G391200 | chr2A | 4630150 | 4630703 | 553 | False | 957 | 957 | 97.8420 | 1 | 555 | 1 | chr2A.!!$F1 | 554 |
5 | TraesCS6A01G391200 | chr2A | 681505320 | 681505884 | 564 | True | 918 | 918 | 96.2960 | 1 | 556 | 1 | chr2A.!!$R2 | 555 |
6 | TraesCS6A01G391200 | chr6D | 460219177 | 460219689 | 512 | True | 708 | 708 | 91.5380 | 556 | 1072 | 1 | chr6D.!!$R2 | 516 |
7 | TraesCS6A01G391200 | chr4B | 334106717 | 334107448 | 731 | True | 355 | 431 | 89.9035 | 1 | 555 | 2 | chr4B.!!$R3 | 554 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
743 | 929 | 0.106868 | TCCTCGGCATCTTCTCCGTA | 60.107 | 55.0 | 0.47 | 0.0 | 45.44 | 4.02 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1660 | 1863 | 0.251916 | TTTCTATCAGGGTGTGCGGG | 59.748 | 55.0 | 0.0 | 0.0 | 0.0 | 6.13 | 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 |
---|---|---|---|---|---|---|---|---|---|
28 | 29 | 1.279271 | GTGTGACCTGAGGCCATTAGT | 59.721 | 52.381 | 5.01 | 0.00 | 0.00 | 2.24 |
579 | 765 | 1.372499 | GCGTACGTCAAGTCTGCCA | 60.372 | 57.895 | 17.90 | 0.00 | 0.00 | 4.92 |
584 | 770 | 0.952497 | ACGTCAAGTCTGCCATGCTG | 60.952 | 55.000 | 0.00 | 0.00 | 0.00 | 4.41 |
660 | 846 | 2.885644 | CCTTGTCCGACATCGCCG | 60.886 | 66.667 | 1.09 | 0.00 | 38.18 | 6.46 |
728 | 914 | 4.899239 | CGCGCCCTCACCATCCTC | 62.899 | 72.222 | 0.00 | 0.00 | 0.00 | 3.71 |
743 | 929 | 0.106868 | TCCTCGGCATCTTCTCCGTA | 60.107 | 55.000 | 0.47 | 0.00 | 45.44 | 4.02 |
786 | 972 | 1.608025 | CCACCGACATGCACTACAAGT | 60.608 | 52.381 | 0.00 | 0.00 | 31.55 | 3.16 |
791 | 977 | 3.059884 | CGACATGCACTACAAGTTCACT | 58.940 | 45.455 | 0.00 | 0.00 | 28.28 | 3.41 |
881 | 1067 | 2.750350 | CTGTCCTTGACCGCCCTT | 59.250 | 61.111 | 0.00 | 0.00 | 0.00 | 3.95 |
1003 | 1192 | 0.039256 | ACACGTGGCATGTTCAATGC | 60.039 | 50.000 | 21.57 | 1.65 | 43.85 | 3.56 |
1077 | 1266 | 0.523072 | CAACATCTTTGAGGGCGTGG | 59.477 | 55.000 | 0.00 | 0.00 | 0.00 | 4.94 |
1078 | 1267 | 0.400213 | AACATCTTTGAGGGCGTGGA | 59.600 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1079 | 1268 | 0.321653 | ACATCTTTGAGGGCGTGGAC | 60.322 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1093 | 1282 | 0.959553 | GTGGACCTCTCTCGTTGACA | 59.040 | 55.000 | 0.00 | 0.00 | 0.00 | 3.58 |
1095 | 1284 | 0.244178 | GGACCTCTCTCGTTGACACC | 59.756 | 60.000 | 0.00 | 0.00 | 0.00 | 4.16 |
1152 | 1341 | 3.134127 | GCGCTCCCCCACATCAAC | 61.134 | 66.667 | 0.00 | 0.00 | 0.00 | 3.18 |
1161 | 1350 | 1.577328 | CCCACATCAACTGCACCGTC | 61.577 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
1162 | 1351 | 0.603707 | CCACATCAACTGCACCGTCT | 60.604 | 55.000 | 0.00 | 0.00 | 0.00 | 4.18 |
1164 | 1353 | 1.069703 | CACATCAACTGCACCGTCTTG | 60.070 | 52.381 | 0.00 | 0.00 | 0.00 | 3.02 |
1182 | 1371 | 2.264794 | GACCTCCCACACGCGATT | 59.735 | 61.111 | 15.93 | 0.00 | 0.00 | 3.34 |
1210 | 1399 | 2.098117 | GCACCTGCCATCAGTAATGTTC | 59.902 | 50.000 | 0.00 | 0.00 | 38.66 | 3.18 |
1239 | 1428 | 2.225491 | TGCTGGCGATTTGTTTGAGTAC | 59.775 | 45.455 | 0.00 | 0.00 | 0.00 | 2.73 |
1277 | 1466 | 5.221382 | ACGTTGTTCTACTCAAGGTACACAT | 60.221 | 40.000 | 0.00 | 0.00 | 40.46 | 3.21 |
1279 | 1468 | 6.527023 | CGTTGTTCTACTCAAGGTACACATAG | 59.473 | 42.308 | 0.00 | 0.00 | 0.00 | 2.23 |
1285 | 1474 | 4.157246 | ACTCAAGGTACACATAGGACACA | 58.843 | 43.478 | 0.00 | 0.00 | 0.00 | 3.72 |
1286 | 1475 | 4.591498 | ACTCAAGGTACACATAGGACACAA | 59.409 | 41.667 | 0.00 | 0.00 | 0.00 | 3.33 |
1292 | 1481 | 5.955959 | AGGTACACATAGGACACAACATCTA | 59.044 | 40.000 | 0.00 | 0.00 | 0.00 | 1.98 |
1296 | 1485 | 6.398918 | ACACATAGGACACAACATCTAGTTC | 58.601 | 40.000 | 0.00 | 0.00 | 38.74 | 3.01 |
1342 | 1545 | 3.744238 | TGAACGAGATGTGTTCTTCCA | 57.256 | 42.857 | 7.30 | 0.00 | 44.67 | 3.53 |
1343 | 1546 | 4.271696 | TGAACGAGATGTGTTCTTCCAT | 57.728 | 40.909 | 7.30 | 0.00 | 44.67 | 3.41 |
1347 | 1550 | 5.613358 | ACGAGATGTGTTCTTCCATTTTC | 57.387 | 39.130 | 0.00 | 0.00 | 33.74 | 2.29 |
1359 | 1562 | 5.459505 | TCTTCCATTTTCCAGTGGGTTTTA | 58.540 | 37.500 | 9.92 | 0.00 | 36.15 | 1.52 |
1433 | 1636 | 4.080356 | AGCAATAATCAGTAGAGGTGCCAA | 60.080 | 41.667 | 0.00 | 0.00 | 0.00 | 4.52 |
1455 | 1658 | 3.028850 | AGGGAAGGTGATAATCGTCGAA | 58.971 | 45.455 | 0.00 | 0.00 | 0.00 | 3.71 |
1479 | 1682 | 2.099756 | CGTGATAGACTCCAGCATGTCA | 59.900 | 50.000 | 0.00 | 0.00 | 35.81 | 3.58 |
1481 | 1684 | 2.099756 | TGATAGACTCCAGCATGTCACG | 59.900 | 50.000 | 0.00 | 0.00 | 35.81 | 4.35 |
1487 | 1690 | 1.820906 | CCAGCATGTCACGGGATGG | 60.821 | 63.158 | 0.00 | 0.00 | 0.00 | 3.51 |
1491 | 1694 | 0.960364 | GCATGTCACGGGATGGTGTT | 60.960 | 55.000 | 0.00 | 0.00 | 39.00 | 3.32 |
1509 | 1712 | 4.202326 | GGTGTTCTTCTTAGGGAGACACAA | 60.202 | 45.833 | 13.83 | 0.00 | 36.60 | 3.33 |
1535 | 1738 | 5.932455 | TCTATTTGATGTCCAGATGATGCA | 58.068 | 37.500 | 0.00 | 0.00 | 0.00 | 3.96 |
1542 | 1745 | 3.893521 | TGTCCAGATGATGCATGTTGAT | 58.106 | 40.909 | 2.46 | 0.00 | 0.00 | 2.57 |
1548 | 1751 | 1.044231 | TGATGCATGTTGATGGGGGC | 61.044 | 55.000 | 2.46 | 0.00 | 0.00 | 5.80 |
1573 | 1776 | 1.216710 | GACGAGAAGCAGTGGAGGG | 59.783 | 63.158 | 0.00 | 0.00 | 0.00 | 4.30 |
1599 | 1802 | 0.984230 | TCCTTGAAGCCGGATTCAGT | 59.016 | 50.000 | 31.60 | 0.00 | 40.16 | 3.41 |
1602 | 1805 | 2.636830 | CTTGAAGCCGGATTCAGTGAT | 58.363 | 47.619 | 31.60 | 0.00 | 40.16 | 3.06 |
1605 | 1808 | 3.531538 | TGAAGCCGGATTCAGTGATTAC | 58.468 | 45.455 | 30.32 | 2.86 | 34.31 | 1.89 |
1647 | 1850 | 5.530171 | AGGATTTCGATCCATCATTGAAGTG | 59.470 | 40.000 | 7.77 | 0.00 | 43.14 | 3.16 |
1657 | 1860 | 5.044919 | TCCATCATTGAAGTGTACCCTTGAT | 60.045 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1660 | 1863 | 4.458989 | TCATTGAAGTGTACCCTTGATTGC | 59.541 | 41.667 | 0.00 | 0.00 | 0.00 | 3.56 |
1665 | 1868 | 1.377987 | GTACCCTTGATTGCCCGCA | 60.378 | 57.895 | 0.00 | 0.00 | 0.00 | 5.69 |
1687 | 1891 | 4.274459 | CACACCCTGATAGAAATAAGCAGC | 59.726 | 45.833 | 0.00 | 0.00 | 0.00 | 5.25 |
1697 | 1911 | 8.374743 | TGATAGAAATAAGCAGCATGTATGGTA | 58.625 | 33.333 | 0.00 | 0.00 | 39.31 | 3.25 |
1698 | 1912 | 9.388506 | GATAGAAATAAGCAGCATGTATGGTAT | 57.611 | 33.333 | 0.00 | 0.84 | 39.31 | 2.73 |
1699 | 1913 | 7.444629 | AGAAATAAGCAGCATGTATGGTATG | 57.555 | 36.000 | 0.00 | 0.00 | 39.31 | 2.39 |
1700 | 1914 | 7.000472 | AGAAATAAGCAGCATGTATGGTATGT | 59.000 | 34.615 | 0.00 | 0.00 | 39.31 | 2.29 |
1701 | 1915 | 8.156820 | AGAAATAAGCAGCATGTATGGTATGTA | 58.843 | 33.333 | 0.00 | 0.00 | 39.31 | 2.29 |
1702 | 1916 | 7.912056 | AATAAGCAGCATGTATGGTATGTAG | 57.088 | 36.000 | 0.00 | 0.00 | 39.31 | 2.74 |
1703 | 1917 | 4.963318 | AGCAGCATGTATGGTATGTAGT | 57.037 | 40.909 | 0.00 | 0.00 | 39.31 | 2.73 |
1704 | 1918 | 4.635223 | AGCAGCATGTATGGTATGTAGTG | 58.365 | 43.478 | 0.00 | 0.00 | 39.31 | 2.74 |
1705 | 1919 | 4.101585 | AGCAGCATGTATGGTATGTAGTGT | 59.898 | 41.667 | 0.00 | 0.00 | 39.31 | 3.55 |
1706 | 1920 | 4.449068 | GCAGCATGTATGGTATGTAGTGTC | 59.551 | 45.833 | 0.00 | 0.00 | 39.31 | 3.67 |
1707 | 1921 | 4.991056 | CAGCATGTATGGTATGTAGTGTCC | 59.009 | 45.833 | 0.00 | 0.00 | 36.64 | 4.02 |
1708 | 1922 | 4.040461 | AGCATGTATGGTATGTAGTGTCCC | 59.960 | 45.833 | 0.00 | 0.00 | 36.64 | 4.46 |
1711 | 1925 | 4.616553 | TGTATGGTATGTAGTGTCCCTGT | 58.383 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
1714 | 1928 | 6.842280 | TGTATGGTATGTAGTGTCCCTGTTAT | 59.158 | 38.462 | 0.00 | 0.00 | 0.00 | 1.89 |
1724 | 1938 | 5.057149 | AGTGTCCCTGTTATCGAATAATGC | 58.943 | 41.667 | 0.00 | 0.00 | 0.00 | 3.56 |
1730 | 1944 | 4.457810 | CTGTTATCGAATAATGCCTTGCG | 58.542 | 43.478 | 0.00 | 0.00 | 0.00 | 4.85 |
1733 | 1947 | 2.823196 | TCGAATAATGCCTTGCGTTG | 57.177 | 45.000 | 3.87 | 0.00 | 38.31 | 4.10 |
1734 | 1948 | 2.080693 | TCGAATAATGCCTTGCGTTGT | 58.919 | 42.857 | 3.87 | 0.00 | 38.31 | 3.32 |
1735 | 1949 | 3.263261 | TCGAATAATGCCTTGCGTTGTA | 58.737 | 40.909 | 3.87 | 0.00 | 38.31 | 2.41 |
1736 | 1950 | 3.874543 | TCGAATAATGCCTTGCGTTGTAT | 59.125 | 39.130 | 3.87 | 0.00 | 38.31 | 2.29 |
1737 | 1951 | 4.334203 | TCGAATAATGCCTTGCGTTGTATT | 59.666 | 37.500 | 3.87 | 0.00 | 38.31 | 1.89 |
1745 | 1959 | 3.262420 | CCTTGCGTTGTATTAGCAGACT | 58.738 | 45.455 | 0.00 | 0.00 | 42.19 | 3.24 |
1751 | 1965 | 5.119588 | TGCGTTGTATTAGCAGACTGTTTAC | 59.880 | 40.000 | 3.99 | 0.00 | 35.81 | 2.01 |
1792 | 2007 | 8.847196 | AGTAATATTTGTGATACTACTCGAGCA | 58.153 | 33.333 | 13.61 | 0.00 | 0.00 | 4.26 |
1818 | 2033 | 7.665559 | AGTTCCATGTCTGCACTTCTTATAAAA | 59.334 | 33.333 | 0.00 | 0.00 | 0.00 | 1.52 |
1857 | 2076 | 8.899427 | AAATAGTGTCTTCATCCATATGACAG | 57.101 | 34.615 | 3.65 | 0.00 | 41.87 | 3.51 |
1863 | 2082 | 6.183360 | TGTCTTCATCCATATGACAGTCAGAG | 60.183 | 42.308 | 9.64 | 1.29 | 41.87 | 3.35 |
1881 | 2100 | 8.502387 | CAGTCAGAGAATTTTCTTTCTGGTAAG | 58.498 | 37.037 | 14.29 | 0.00 | 37.73 | 2.34 |
1885 | 2104 | 6.147985 | AGAGAATTTTCTTTCTGGTAAGCGAC | 59.852 | 38.462 | 0.00 | 0.00 | 37.73 | 5.19 |
1886 | 2105 | 5.763204 | AGAATTTTCTTTCTGGTAAGCGACA | 59.237 | 36.000 | 0.00 | 0.00 | 34.68 | 4.35 |
1889 | 2108 | 2.750948 | TCTTTCTGGTAAGCGACACAC | 58.249 | 47.619 | 0.00 | 0.00 | 0.00 | 3.82 |
1890 | 2109 | 2.101750 | TCTTTCTGGTAAGCGACACACA | 59.898 | 45.455 | 0.00 | 0.00 | 0.00 | 3.72 |
1891 | 2110 | 2.605837 | TTCTGGTAAGCGACACACAA | 57.394 | 45.000 | 0.00 | 0.00 | 0.00 | 3.33 |
1894 | 2113 | 1.464608 | CTGGTAAGCGACACACAATGG | 59.535 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
1895 | 2114 | 1.202710 | TGGTAAGCGACACACAATGGT | 60.203 | 47.619 | 0.00 | 0.00 | 0.00 | 3.55 |
1896 | 2115 | 1.463444 | GGTAAGCGACACACAATGGTC | 59.537 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
1898 | 2117 | 2.831685 | AAGCGACACACAATGGTCTA | 57.168 | 45.000 | 0.00 | 0.00 | 31.88 | 2.59 |
1901 | 2120 | 1.062587 | GCGACACACAATGGTCTATGC | 59.937 | 52.381 | 0.00 | 0.00 | 31.88 | 3.14 |
1902 | 2121 | 1.665679 | CGACACACAATGGTCTATGCC | 59.334 | 52.381 | 0.00 | 0.00 | 31.88 | 4.40 |
1903 | 2122 | 2.710377 | GACACACAATGGTCTATGCCA | 58.290 | 47.619 | 0.00 | 0.00 | 43.48 | 4.92 |
1904 | 2123 | 2.679837 | GACACACAATGGTCTATGCCAG | 59.320 | 50.000 | 0.00 | 0.00 | 42.47 | 4.85 |
1905 | 2124 | 2.040278 | ACACACAATGGTCTATGCCAGT | 59.960 | 45.455 | 0.00 | 0.00 | 42.47 | 4.00 |
1906 | 2125 | 3.084039 | CACACAATGGTCTATGCCAGTT | 58.916 | 45.455 | 0.00 | 0.00 | 42.47 | 3.16 |
1911 | 2130 | 4.832266 | ACAATGGTCTATGCCAGTTTTTCA | 59.168 | 37.500 | 0.00 | 0.00 | 42.47 | 2.69 |
1912 | 2131 | 5.304101 | ACAATGGTCTATGCCAGTTTTTCAA | 59.696 | 36.000 | 0.00 | 0.00 | 42.47 | 2.69 |
1914 | 2133 | 4.724399 | TGGTCTATGCCAGTTTTTCAAGA | 58.276 | 39.130 | 0.00 | 0.00 | 33.97 | 3.02 |
1915 | 2134 | 5.324409 | TGGTCTATGCCAGTTTTTCAAGAT | 58.676 | 37.500 | 0.00 | 0.00 | 33.97 | 2.40 |
1918 | 2137 | 6.808704 | GGTCTATGCCAGTTTTTCAAGATTTC | 59.191 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
1920 | 2139 | 8.084684 | GTCTATGCCAGTTTTTCAAGATTTCTT | 58.915 | 33.333 | 0.00 | 0.00 | 36.45 | 2.52 |
1945 | 2167 | 3.720818 | AAAAACTTGTTGCGCTGTTTG | 57.279 | 38.095 | 9.73 | 0.00 | 33.61 | 2.93 |
1946 | 2168 | 2.645730 | AAACTTGTTGCGCTGTTTGA | 57.354 | 40.000 | 9.73 | 0.00 | 32.32 | 2.69 |
1947 | 2169 | 2.645730 | AACTTGTTGCGCTGTTTGAA | 57.354 | 40.000 | 9.73 | 0.00 | 0.00 | 2.69 |
1949 | 2171 | 1.199624 | CTTGTTGCGCTGTTTGAACC | 58.800 | 50.000 | 9.73 | 0.00 | 0.00 | 3.62 |
1950 | 2172 | 0.524392 | TTGTTGCGCTGTTTGAACCG | 60.524 | 50.000 | 9.73 | 0.00 | 0.00 | 4.44 |
1951 | 2173 | 1.353804 | GTTGCGCTGTTTGAACCGA | 59.646 | 52.632 | 9.73 | 0.00 | 0.00 | 4.69 |
1952 | 2174 | 0.040425 | GTTGCGCTGTTTGAACCGAT | 60.040 | 50.000 | 9.73 | 0.00 | 0.00 | 4.18 |
1983 | 2205 | 6.805713 | AGTTCACTAAATTTGTTGGGTTCTG | 58.194 | 36.000 | 0.00 | 0.00 | 0.00 | 3.02 |
1985 | 2207 | 7.558444 | AGTTCACTAAATTTGTTGGGTTCTGTA | 59.442 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
1987 | 2209 | 7.881142 | TCACTAAATTTGTTGGGTTCTGTATG | 58.119 | 34.615 | 0.00 | 0.00 | 0.00 | 2.39 |
1992 | 2214 | 2.235016 | TGTTGGGTTCTGTATGTTGCC | 58.765 | 47.619 | 0.00 | 0.00 | 0.00 | 4.52 |
1993 | 2215 | 2.235016 | GTTGGGTTCTGTATGTTGCCA | 58.765 | 47.619 | 0.00 | 0.00 | 0.00 | 4.92 |
2001 | 2223 | 4.137116 | TCTGTATGTTGCCATAGTGGAC | 57.863 | 45.455 | 0.00 | 0.00 | 40.96 | 4.02 |
2013 | 2235 | 1.568504 | TAGTGGACTAGCCTGTTGGG | 58.431 | 55.000 | 5.06 | 0.00 | 37.63 | 4.12 |
2016 | 2238 | 0.770557 | TGGACTAGCCTGTTGGGGTT | 60.771 | 55.000 | 5.06 | 0.00 | 44.41 | 4.11 |
2017 | 2239 | 0.322546 | GGACTAGCCTGTTGGGGTTG | 60.323 | 60.000 | 0.00 | 0.00 | 44.41 | 3.77 |
2018 | 2240 | 2.551996 | ACTAGCCTGTTGGGGTTGT | 58.448 | 52.632 | 0.00 | 0.00 | 44.41 | 3.32 |
2019 | 2241 | 0.850784 | ACTAGCCTGTTGGGGTTGTT | 59.149 | 50.000 | 0.00 | 0.00 | 46.12 | 2.83 |
2020 | 2242 | 2.059490 | ACTAGCCTGTTGGGGTTGTTA | 58.941 | 47.619 | 0.00 | 0.00 | 46.12 | 2.41 |
2021 | 2243 | 2.039879 | ACTAGCCTGTTGGGGTTGTTAG | 59.960 | 50.000 | 0.00 | 0.00 | 46.12 | 2.34 |
2022 | 2244 | 1.145571 | AGCCTGTTGGGGTTGTTAGA | 58.854 | 50.000 | 0.00 | 0.00 | 44.41 | 2.10 |
2023 | 2245 | 1.497286 | AGCCTGTTGGGGTTGTTAGAA | 59.503 | 47.619 | 0.00 | 0.00 | 44.41 | 2.10 |
2024 | 2246 | 2.110011 | AGCCTGTTGGGGTTGTTAGAAT | 59.890 | 45.455 | 0.00 | 0.00 | 44.41 | 2.40 |
2025 | 2247 | 3.332485 | AGCCTGTTGGGGTTGTTAGAATA | 59.668 | 43.478 | 0.00 | 0.00 | 44.41 | 1.75 |
2026 | 2248 | 4.083565 | GCCTGTTGGGGTTGTTAGAATAA | 58.916 | 43.478 | 0.00 | 0.00 | 35.12 | 1.40 |
2027 | 2249 | 4.525100 | GCCTGTTGGGGTTGTTAGAATAAA | 59.475 | 41.667 | 0.00 | 0.00 | 35.12 | 1.40 |
2028 | 2250 | 5.186992 | GCCTGTTGGGGTTGTTAGAATAAAT | 59.813 | 40.000 | 0.00 | 0.00 | 35.12 | 1.40 |
2029 | 2251 | 6.627287 | GCCTGTTGGGGTTGTTAGAATAAATC | 60.627 | 42.308 | 0.00 | 0.00 | 35.12 | 2.17 |
2030 | 2252 | 6.435904 | CCTGTTGGGGTTGTTAGAATAAATCA | 59.564 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
2031 | 2253 | 7.039363 | CCTGTTGGGGTTGTTAGAATAAATCAA | 60.039 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
2036 | 2258 | 7.676043 | TGGGGTTGTTAGAATAAATCAAATCCA | 59.324 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
2045 | 2267 | 5.954153 | ATAAATCAAATCCAATGCCACCA | 57.046 | 34.783 | 0.00 | 0.00 | 0.00 | 4.17 |
2047 | 2269 | 4.847990 | AATCAAATCCAATGCCACCATT | 57.152 | 36.364 | 0.00 | 0.00 | 42.26 | 3.16 |
2081 | 2303 | 0.587768 | CAAGCAATCACACGAGCACA | 59.412 | 50.000 | 0.00 | 0.00 | 0.00 | 4.57 |
2085 | 2307 | 1.069022 | GCAATCACACGAGCACAACAT | 60.069 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 |
2087 | 2309 | 2.168326 | ATCACACGAGCACAACATCA | 57.832 | 45.000 | 0.00 | 0.00 | 0.00 | 3.07 |
2099 | 2321 | 6.803320 | CGAGCACAACATCAAGATTTGTTAAT | 59.197 | 34.615 | 7.44 | 0.00 | 34.42 | 1.40 |
2137 | 2361 | 4.791069 | TCCCCGGGGCCTGACTAC | 62.791 | 72.222 | 36.68 | 0.00 | 34.68 | 2.73 |
2148 | 2372 | 3.127352 | CTGACTACGGGCGCTCCTC | 62.127 | 68.421 | 7.64 | 1.25 | 0.00 | 3.71 |
2150 | 2374 | 4.444081 | ACTACGGGCGCTCCTCCT | 62.444 | 66.667 | 7.64 | 0.00 | 0.00 | 3.69 |
2161 | 2385 | 1.608717 | GCTCCTCCTCATGACACCGT | 61.609 | 60.000 | 0.00 | 0.00 | 0.00 | 4.83 |
2168 | 2392 | 3.595173 | TCCTCATGACACCGTTACAATG | 58.405 | 45.455 | 0.00 | 0.00 | 0.00 | 2.82 |
2177 | 2401 | 2.882132 | GTTACAATGCCGCACCCC | 59.118 | 61.111 | 0.00 | 0.00 | 0.00 | 4.95 |
2229 | 2454 | 3.121030 | CCTGCGTGCCTGTGCTAC | 61.121 | 66.667 | 0.00 | 0.00 | 38.71 | 3.58 |
2239 | 2464 | 1.678728 | GCCTGTGCTACTATGTTGGCA | 60.679 | 52.381 | 0.00 | 0.00 | 38.99 | 4.92 |
2441 | 2675 | 8.528044 | GGTTATGTTTCCTAACCATGGATAAA | 57.472 | 34.615 | 21.47 | 8.05 | 44.95 | 1.40 |
2449 | 2683 | 7.027874 | TCCTAACCATGGATAAAGAGTTGTT | 57.972 | 36.000 | 21.47 | 0.00 | 0.00 | 2.83 |
2469 | 2703 | 6.352682 | TGTTATTTGATTAACGGGATCACG | 57.647 | 37.500 | 17.58 | 17.58 | 35.30 | 4.35 |
2478 | 2712 | 1.481871 | ACGGGATCACGTCATTAGGT | 58.518 | 50.000 | 19.33 | 0.00 | 45.08 | 3.08 |
2507 | 2741 | 5.449297 | TCTAATTGACATGACCCATTCCA | 57.551 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
2520 | 2754 | 2.887152 | CCCATTCCATTAGCTTAGCACC | 59.113 | 50.000 | 7.07 | 0.00 | 0.00 | 5.01 |
2526 | 2760 | 2.224281 | CCATTAGCTTAGCACCCGATCA | 60.224 | 50.000 | 7.07 | 0.00 | 0.00 | 2.92 |
2539 | 2773 | 4.574828 | GCACCCGATCATTTAGTATGTTGT | 59.425 | 41.667 | 0.00 | 0.00 | 0.00 | 3.32 |
2594 | 2828 | 8.874156 | TCCTATGACTATGAGATTATGCAACTT | 58.126 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
2600 | 2834 | 5.741388 | ATGAGATTATGCAACTTCCGTTC | 57.259 | 39.130 | 0.00 | 0.00 | 0.00 | 3.95 |
2603 | 2837 | 3.689649 | AGATTATGCAACTTCCGTTCACC | 59.310 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
2631 | 2865 | 3.508012 | AACACTTTGTGTGCTACCAAACA | 59.492 | 39.130 | 4.01 | 0.00 | 46.79 | 2.83 |
2656 | 2890 | 6.880484 | TCACAACGTAACTGGGTGATTATAT | 58.120 | 36.000 | 0.00 | 0.00 | 33.88 | 0.86 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
316 | 330 | 7.113658 | ACTCTTCATTACCACATCGTAGATT | 57.886 | 36.000 | 0.00 | 0.00 | 45.12 | 2.40 |
606 | 792 | 4.832608 | GTGGATGGCGTCGGGGAC | 62.833 | 72.222 | 0.00 | 0.00 | 0.00 | 4.46 |
660 | 846 | 2.190578 | CTGGATCCCGACCTTGGC | 59.809 | 66.667 | 9.90 | 0.00 | 0.00 | 4.52 |
671 | 857 | 1.250840 | AAACCTTTGCCGGCTGGATC | 61.251 | 55.000 | 30.27 | 0.00 | 37.49 | 3.36 |
672 | 858 | 1.228862 | AAACCTTTGCCGGCTGGAT | 60.229 | 52.632 | 30.27 | 20.63 | 37.49 | 3.41 |
786 | 972 | 2.258591 | GCGCGAGAGTGGAGTGAA | 59.741 | 61.111 | 12.10 | 0.00 | 43.14 | 3.18 |
791 | 977 | 4.742649 | AGGAGGCGCGAGAGTGGA | 62.743 | 66.667 | 12.10 | 0.00 | 43.14 | 4.02 |
881 | 1067 | 2.263895 | ACCACTCCCCTATACTGCAA | 57.736 | 50.000 | 0.00 | 0.00 | 0.00 | 4.08 |
920 | 1109 | 0.689623 | CCTCAAAGAGTGTCAGGGCT | 59.310 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
935 | 1124 | 2.435663 | CACCCATGTGCCACCTCA | 59.564 | 61.111 | 0.00 | 0.00 | 35.31 | 3.86 |
956 | 1145 | 3.148279 | GCCGTCATCTCCTCCCGT | 61.148 | 66.667 | 0.00 | 0.00 | 0.00 | 5.28 |
1003 | 1192 | 0.320247 | GCTATCGGAGACCATGCCAG | 60.320 | 60.000 | 0.00 | 0.00 | 42.51 | 4.85 |
1048 | 1237 | 3.084039 | TCAAAGATGTTGCAGTGATCCC | 58.916 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
1077 | 1266 | 0.109689 | CGGTGTCAACGAGAGAGGTC | 60.110 | 60.000 | 3.57 | 0.00 | 0.00 | 3.85 |
1078 | 1267 | 1.524863 | CCGGTGTCAACGAGAGAGGT | 61.525 | 60.000 | 12.97 | 0.00 | 0.00 | 3.85 |
1079 | 1268 | 1.213013 | CCGGTGTCAACGAGAGAGG | 59.787 | 63.158 | 12.97 | 0.00 | 0.00 | 3.69 |
1083 | 1272 | 4.351938 | CCGCCGGTGTCAACGAGA | 62.352 | 66.667 | 12.97 | 0.00 | 0.00 | 4.04 |
1138 | 1327 | 0.962356 | GTGCAGTTGATGTGGGGGAG | 60.962 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1143 | 1332 | 0.603707 | AGACGGTGCAGTTGATGTGG | 60.604 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
1152 | 1341 | 1.374758 | GAGGTCCAAGACGGTGCAG | 60.375 | 63.158 | 0.00 | 0.00 | 35.57 | 4.41 |
1164 | 1353 | 3.310860 | AATCGCGTGTGGGAGGTCC | 62.311 | 63.158 | 5.77 | 0.00 | 40.74 | 4.46 |
1201 | 1390 | 4.499696 | GCCAGCAACAAACTGAACATTACT | 60.500 | 41.667 | 0.00 | 0.00 | 37.32 | 2.24 |
1202 | 1391 | 3.735746 | GCCAGCAACAAACTGAACATTAC | 59.264 | 43.478 | 0.00 | 0.00 | 37.32 | 1.89 |
1203 | 1392 | 3.549827 | CGCCAGCAACAAACTGAACATTA | 60.550 | 43.478 | 0.00 | 0.00 | 37.32 | 1.90 |
1210 | 1399 | 1.788308 | CAAATCGCCAGCAACAAACTG | 59.212 | 47.619 | 0.00 | 0.00 | 34.82 | 3.16 |
1277 | 1466 | 6.698380 | GGAAAGAACTAGATGTTGTGTCCTA | 58.302 | 40.000 | 0.00 | 0.00 | 46.92 | 2.94 |
1279 | 1468 | 5.864628 | GGAAAGAACTAGATGTTGTGTCC | 57.135 | 43.478 | 0.00 | 0.20 | 45.35 | 4.02 |
1316 | 1508 | 6.128795 | GGAAGAACACATCTCGTTCAAAGTAG | 60.129 | 42.308 | 5.89 | 0.00 | 44.22 | 2.57 |
1317 | 1509 | 5.694910 | GGAAGAACACATCTCGTTCAAAGTA | 59.305 | 40.000 | 5.89 | 0.00 | 44.22 | 2.24 |
1318 | 1510 | 4.511826 | GGAAGAACACATCTCGTTCAAAGT | 59.488 | 41.667 | 5.89 | 0.00 | 44.22 | 2.66 |
1319 | 1511 | 4.511454 | TGGAAGAACACATCTCGTTCAAAG | 59.489 | 41.667 | 5.89 | 0.00 | 44.22 | 2.77 |
1334 | 1537 | 3.230976 | ACCCACTGGAAAATGGAAGAAC | 58.769 | 45.455 | 0.00 | 0.00 | 38.34 | 3.01 |
1342 | 1545 | 5.071653 | ACAAGCATAAAACCCACTGGAAAAT | 59.928 | 36.000 | 0.00 | 0.00 | 34.81 | 1.82 |
1343 | 1546 | 4.407296 | ACAAGCATAAAACCCACTGGAAAA | 59.593 | 37.500 | 0.00 | 0.00 | 34.81 | 2.29 |
1347 | 1550 | 2.029110 | CCACAAGCATAAAACCCACTGG | 60.029 | 50.000 | 0.00 | 0.00 | 37.80 | 4.00 |
1371 | 1574 | 3.996921 | ACCTTGACAGCATCTTCATCT | 57.003 | 42.857 | 0.00 | 0.00 | 0.00 | 2.90 |
1418 | 1621 | 0.984230 | CCCTTTGGCACCTCTACTGA | 59.016 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1433 | 1636 | 3.028850 | TCGACGATTATCACCTTCCCTT | 58.971 | 45.455 | 0.00 | 0.00 | 0.00 | 3.95 |
1455 | 1658 | 2.130272 | TGCTGGAGTCTATCACGACT | 57.870 | 50.000 | 0.00 | 0.00 | 46.39 | 4.18 |
1469 | 1672 | 1.820906 | CCATCCCGTGACATGCTGG | 60.821 | 63.158 | 0.00 | 0.00 | 0.00 | 4.85 |
1471 | 1674 | 1.078214 | CACCATCCCGTGACATGCT | 60.078 | 57.895 | 0.00 | 0.00 | 35.68 | 3.79 |
1473 | 1676 | 1.086696 | GAACACCATCCCGTGACATG | 58.913 | 55.000 | 0.00 | 0.00 | 37.20 | 3.21 |
1479 | 1682 | 2.236395 | CCTAAGAAGAACACCATCCCGT | 59.764 | 50.000 | 0.00 | 0.00 | 0.00 | 5.28 |
1481 | 1684 | 2.844348 | TCCCTAAGAAGAACACCATCCC | 59.156 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1487 | 1690 | 4.602340 | TGTGTCTCCCTAAGAAGAACAC | 57.398 | 45.455 | 0.00 | 0.00 | 35.21 | 3.32 |
1491 | 1694 | 5.148502 | AGAACTTGTGTCTCCCTAAGAAGA | 58.851 | 41.667 | 0.00 | 0.00 | 35.21 | 2.87 |
1509 | 1712 | 6.485984 | GCATCATCTGGACATCAAATAGAACT | 59.514 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
1535 | 1738 | 2.124151 | GCTCGCCCCCATCAACAT | 60.124 | 61.111 | 0.00 | 0.00 | 0.00 | 2.71 |
1548 | 1751 | 1.582424 | CTGCTTCTCGTCTCGCTCG | 60.582 | 63.158 | 0.00 | 0.00 | 0.00 | 5.03 |
1561 | 1764 | 2.291217 | GGAAAATCTCCCTCCACTGCTT | 60.291 | 50.000 | 0.00 | 0.00 | 38.44 | 3.91 |
1573 | 1776 | 2.711542 | TCCGGCTTCAAGGAAAATCTC | 58.288 | 47.619 | 0.00 | 0.00 | 32.86 | 2.75 |
1599 | 1802 | 5.748402 | AGCATTGGAGTGATCTTGTAATCA | 58.252 | 37.500 | 0.00 | 0.00 | 33.30 | 2.57 |
1602 | 1805 | 5.425217 | TCCTAGCATTGGAGTGATCTTGTAA | 59.575 | 40.000 | 0.00 | 0.00 | 0.00 | 2.41 |
1605 | 1808 | 4.412796 | TCCTAGCATTGGAGTGATCTTG | 57.587 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
1647 | 1850 | 1.377987 | TGCGGGCAATCAAGGGTAC | 60.378 | 57.895 | 0.00 | 0.00 | 0.00 | 3.34 |
1657 | 1860 | 2.535485 | CTATCAGGGTGTGCGGGCAA | 62.535 | 60.000 | 0.00 | 0.00 | 0.00 | 4.52 |
1660 | 1863 | 0.251916 | TTTCTATCAGGGTGTGCGGG | 59.748 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
1665 | 1868 | 4.080356 | TGCTGCTTATTTCTATCAGGGTGT | 60.080 | 41.667 | 0.00 | 0.00 | 0.00 | 4.16 |
1687 | 1891 | 5.070446 | ACAGGGACACTACATACCATACATG | 59.930 | 44.000 | 0.00 | 0.00 | 0.00 | 3.21 |
1697 | 1911 | 5.871396 | ATTCGATAACAGGGACACTACAT | 57.129 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
1698 | 1912 | 6.778834 | TTATTCGATAACAGGGACACTACA | 57.221 | 37.500 | 0.00 | 0.00 | 0.00 | 2.74 |
1699 | 1913 | 6.145696 | GCATTATTCGATAACAGGGACACTAC | 59.854 | 42.308 | 0.00 | 0.00 | 0.00 | 2.73 |
1700 | 1914 | 6.220930 | GCATTATTCGATAACAGGGACACTA | 58.779 | 40.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1701 | 1915 | 5.057149 | GCATTATTCGATAACAGGGACACT | 58.943 | 41.667 | 0.00 | 0.00 | 0.00 | 3.55 |
1702 | 1916 | 4.213482 | GGCATTATTCGATAACAGGGACAC | 59.787 | 45.833 | 0.00 | 0.00 | 0.00 | 3.67 |
1703 | 1917 | 4.102524 | AGGCATTATTCGATAACAGGGACA | 59.897 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
1704 | 1918 | 4.642429 | AGGCATTATTCGATAACAGGGAC | 58.358 | 43.478 | 0.00 | 0.00 | 0.00 | 4.46 |
1705 | 1919 | 4.974645 | AGGCATTATTCGATAACAGGGA | 57.025 | 40.909 | 0.00 | 0.00 | 0.00 | 4.20 |
1706 | 1920 | 4.320494 | GCAAGGCATTATTCGATAACAGGG | 60.320 | 45.833 | 0.00 | 0.00 | 0.00 | 4.45 |
1707 | 1921 | 4.611355 | CGCAAGGCATTATTCGATAACAGG | 60.611 | 45.833 | 0.00 | 0.00 | 0.00 | 4.00 |
1708 | 1922 | 4.024893 | ACGCAAGGCATTATTCGATAACAG | 60.025 | 41.667 | 6.59 | 0.00 | 46.39 | 3.16 |
1711 | 1925 | 4.334203 | ACAACGCAAGGCATTATTCGATAA | 59.666 | 37.500 | 6.59 | 0.00 | 46.39 | 1.75 |
1714 | 1928 | 2.080693 | ACAACGCAAGGCATTATTCGA | 58.919 | 42.857 | 6.59 | 0.00 | 46.39 | 3.71 |
1724 | 1938 | 3.062639 | CAGTCTGCTAATACAACGCAAGG | 59.937 | 47.826 | 0.00 | 0.00 | 46.39 | 3.61 |
1730 | 1944 | 7.416154 | TGTGTAAACAGTCTGCTAATACAAC | 57.584 | 36.000 | 0.00 | 1.80 | 0.00 | 3.32 |
1766 | 1980 | 8.847196 | TGCTCGAGTAGTATCACAAATATTACT | 58.153 | 33.333 | 15.13 | 1.31 | 32.19 | 2.24 |
1778 | 1992 | 4.036971 | ACATGGAACTGCTCGAGTAGTATC | 59.963 | 45.833 | 32.22 | 27.28 | 40.09 | 2.24 |
1785 | 2000 | 1.638133 | CAGACATGGAACTGCTCGAG | 58.362 | 55.000 | 8.45 | 8.45 | 0.00 | 4.04 |
1792 | 2007 | 3.498774 | AAGAAGTGCAGACATGGAACT | 57.501 | 42.857 | 0.00 | 0.00 | 0.00 | 3.01 |
1823 | 2038 | 9.958180 | TGGATGAAGACACTATTTCTAATTTCA | 57.042 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
1844 | 2063 | 8.447924 | AAAATTCTCTGACTGTCATATGGATG | 57.552 | 34.615 | 11.45 | 0.00 | 0.00 | 3.51 |
1845 | 2064 | 8.492782 | AGAAAATTCTCTGACTGTCATATGGAT | 58.507 | 33.333 | 11.45 | 2.30 | 29.94 | 3.41 |
1852 | 2071 | 6.484643 | CCAGAAAGAAAATTCTCTGACTGTCA | 59.515 | 38.462 | 10.50 | 10.50 | 37.56 | 3.58 |
1857 | 2076 | 7.301789 | GCTTACCAGAAAGAAAATTCTCTGAC | 58.698 | 38.462 | 11.79 | 0.00 | 37.56 | 3.51 |
1863 | 2082 | 5.851703 | GTGTCGCTTACCAGAAAGAAAATTC | 59.148 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
1881 | 2100 | 1.062587 | GCATAGACCATTGTGTGTCGC | 59.937 | 52.381 | 0.00 | 0.00 | 36.61 | 5.19 |
1885 | 2104 | 2.715046 | ACTGGCATAGACCATTGTGTG | 58.285 | 47.619 | 0.00 | 0.00 | 39.54 | 3.82 |
1886 | 2105 | 3.439857 | AACTGGCATAGACCATTGTGT | 57.560 | 42.857 | 0.00 | 0.00 | 39.54 | 3.72 |
1889 | 2108 | 5.389859 | TGAAAAACTGGCATAGACCATTG | 57.610 | 39.130 | 0.00 | 0.00 | 39.54 | 2.82 |
1890 | 2109 | 5.774690 | TCTTGAAAAACTGGCATAGACCATT | 59.225 | 36.000 | 0.00 | 0.00 | 39.54 | 3.16 |
1891 | 2110 | 5.324409 | TCTTGAAAAACTGGCATAGACCAT | 58.676 | 37.500 | 0.00 | 0.00 | 39.54 | 3.55 |
1894 | 2113 | 7.597386 | AGAAATCTTGAAAAACTGGCATAGAC | 58.403 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
1895 | 2114 | 7.765695 | AGAAATCTTGAAAAACTGGCATAGA | 57.234 | 32.000 | 0.00 | 0.00 | 0.00 | 1.98 |
1926 | 2148 | 2.953020 | TCAAACAGCGCAACAAGTTTT | 58.047 | 38.095 | 11.47 | 0.00 | 32.34 | 2.43 |
1937 | 2159 | 0.366871 | CTCGATCGGTTCAAACAGCG | 59.633 | 55.000 | 16.41 | 0.00 | 39.05 | 5.18 |
1945 | 2167 | 2.422832 | AGTGAACTACCTCGATCGGTTC | 59.577 | 50.000 | 20.44 | 20.44 | 38.49 | 3.62 |
1946 | 2168 | 2.444421 | AGTGAACTACCTCGATCGGTT | 58.556 | 47.619 | 16.41 | 10.79 | 38.49 | 4.44 |
1947 | 2169 | 2.125773 | AGTGAACTACCTCGATCGGT | 57.874 | 50.000 | 16.41 | 8.79 | 41.10 | 4.69 |
1949 | 2171 | 6.530534 | ACAAATTTAGTGAACTACCTCGATCG | 59.469 | 38.462 | 9.36 | 9.36 | 0.00 | 3.69 |
1950 | 2172 | 7.829378 | ACAAATTTAGTGAACTACCTCGATC | 57.171 | 36.000 | 0.00 | 0.00 | 0.00 | 3.69 |
1951 | 2173 | 7.119262 | CCAACAAATTTAGTGAACTACCTCGAT | 59.881 | 37.037 | 0.00 | 0.00 | 0.00 | 3.59 |
1952 | 2174 | 6.425721 | CCAACAAATTTAGTGAACTACCTCGA | 59.574 | 38.462 | 0.00 | 0.00 | 0.00 | 4.04 |
1958 | 2180 | 7.558444 | ACAGAACCCAACAAATTTAGTGAACTA | 59.442 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
1983 | 2205 | 5.038284 | GGCTAGTCCACTATGGCAACATAC | 61.038 | 50.000 | 0.00 | 0.00 | 45.85 | 2.39 |
1987 | 2209 | 1.486726 | AGGCTAGTCCACTATGGCAAC | 59.513 | 52.381 | 0.00 | 0.00 | 37.47 | 4.17 |
1992 | 2214 | 2.158900 | CCCAACAGGCTAGTCCACTATG | 60.159 | 54.545 | 6.07 | 0.00 | 37.29 | 2.23 |
1993 | 2215 | 2.119495 | CCCAACAGGCTAGTCCACTAT | 58.881 | 52.381 | 6.07 | 0.00 | 37.29 | 2.12 |
2001 | 2223 | 2.304761 | TCTAACAACCCCAACAGGCTAG | 59.695 | 50.000 | 0.00 | 0.00 | 0.00 | 3.42 |
2016 | 2238 | 8.756927 | TGGCATTGGATTTGATTTATTCTAACA | 58.243 | 29.630 | 0.00 | 0.00 | 0.00 | 2.41 |
2017 | 2239 | 9.034544 | GTGGCATTGGATTTGATTTATTCTAAC | 57.965 | 33.333 | 0.00 | 0.00 | 0.00 | 2.34 |
2018 | 2240 | 8.203485 | GGTGGCATTGGATTTGATTTATTCTAA | 58.797 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
2019 | 2241 | 7.344093 | TGGTGGCATTGGATTTGATTTATTCTA | 59.656 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
2020 | 2242 | 6.156602 | TGGTGGCATTGGATTTGATTTATTCT | 59.843 | 34.615 | 0.00 | 0.00 | 0.00 | 2.40 |
2021 | 2243 | 6.347696 | TGGTGGCATTGGATTTGATTTATTC | 58.652 | 36.000 | 0.00 | 0.00 | 0.00 | 1.75 |
2022 | 2244 | 6.310764 | TGGTGGCATTGGATTTGATTTATT | 57.689 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
2023 | 2245 | 5.954153 | TGGTGGCATTGGATTTGATTTAT | 57.046 | 34.783 | 0.00 | 0.00 | 0.00 | 1.40 |
2024 | 2246 | 5.954153 | ATGGTGGCATTGGATTTGATTTA | 57.046 | 34.783 | 0.00 | 0.00 | 0.00 | 1.40 |
2025 | 2247 | 4.847990 | ATGGTGGCATTGGATTTGATTT | 57.152 | 36.364 | 0.00 | 0.00 | 0.00 | 2.17 |
2026 | 2248 | 4.225492 | TCAATGGTGGCATTGGATTTGATT | 59.775 | 37.500 | 0.00 | 0.00 | 41.50 | 2.57 |
2027 | 2249 | 3.775866 | TCAATGGTGGCATTGGATTTGAT | 59.224 | 39.130 | 0.00 | 0.00 | 41.50 | 2.57 |
2028 | 2250 | 3.171528 | TCAATGGTGGCATTGGATTTGA | 58.828 | 40.909 | 0.00 | 0.00 | 41.50 | 2.69 |
2029 | 2251 | 3.613494 | TCAATGGTGGCATTGGATTTG | 57.387 | 42.857 | 0.00 | 0.00 | 41.50 | 2.32 |
2030 | 2252 | 4.035112 | AGATCAATGGTGGCATTGGATTT | 58.965 | 39.130 | 0.00 | 0.00 | 41.50 | 2.17 |
2031 | 2253 | 3.649843 | AGATCAATGGTGGCATTGGATT | 58.350 | 40.909 | 0.00 | 0.00 | 41.50 | 3.01 |
2036 | 2258 | 2.172505 | TCGGTAGATCAATGGTGGCATT | 59.827 | 45.455 | 0.00 | 0.00 | 0.00 | 3.56 |
2038 | 2260 | 1.138859 | CTCGGTAGATCAATGGTGGCA | 59.861 | 52.381 | 0.00 | 0.00 | 0.00 | 4.92 |
2045 | 2267 | 2.103263 | GCTTGGTCCTCGGTAGATCAAT | 59.897 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2047 | 2269 | 1.112113 | GCTTGGTCCTCGGTAGATCA | 58.888 | 55.000 | 0.00 | 0.00 | 0.00 | 2.92 |
2081 | 2303 | 7.872483 | GGTGAACCATTAACAAATCTTGATGTT | 59.128 | 33.333 | 0.00 | 0.00 | 38.42 | 2.71 |
2085 | 2307 | 6.968263 | TGGTGAACCATTAACAAATCTTGA | 57.032 | 33.333 | 0.00 | 0.00 | 42.01 | 3.02 |
2108 | 2332 | 1.492133 | CCCGGGGATGTAGCCATGAT | 61.492 | 60.000 | 14.71 | 0.00 | 0.00 | 2.45 |
2109 | 2333 | 2.146724 | CCCGGGGATGTAGCCATGA | 61.147 | 63.158 | 14.71 | 0.00 | 0.00 | 3.07 |
2110 | 2334 | 2.431683 | CCCGGGGATGTAGCCATG | 59.568 | 66.667 | 14.71 | 0.00 | 0.00 | 3.66 |
2137 | 2361 | 4.598894 | CATGAGGAGGAGCGCCCG | 62.599 | 72.222 | 2.29 | 0.00 | 40.87 | 6.13 |
2148 | 2372 | 2.095853 | GCATTGTAACGGTGTCATGAGG | 59.904 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2150 | 2374 | 2.080693 | GGCATTGTAACGGTGTCATGA | 58.919 | 47.619 | 0.00 | 0.00 | 0.00 | 3.07 |
2161 | 2385 | 2.748251 | CGGGGTGCGGCATTGTAA | 60.748 | 61.111 | 5.72 | 0.00 | 0.00 | 2.41 |
2219 | 2444 | 1.017387 | GCCAACATAGTAGCACAGGC | 58.983 | 55.000 | 0.00 | 0.00 | 41.61 | 4.85 |
2239 | 2464 | 6.332901 | AGGGCATATTTCCTTCAGTAACCTAT | 59.667 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
2244 | 2469 | 6.043243 | CCTCTAGGGCATATTTCCTTCAGTAA | 59.957 | 42.308 | 0.00 | 0.00 | 34.75 | 2.24 |
2245 | 2470 | 5.544176 | CCTCTAGGGCATATTTCCTTCAGTA | 59.456 | 44.000 | 0.00 | 0.00 | 34.75 | 2.74 |
2246 | 2471 | 4.349342 | CCTCTAGGGCATATTTCCTTCAGT | 59.651 | 45.833 | 0.00 | 0.00 | 34.75 | 3.41 |
2247 | 2472 | 4.904241 | CCTCTAGGGCATATTTCCTTCAG | 58.096 | 47.826 | 0.00 | 0.00 | 34.75 | 3.02 |
2430 | 2664 | 8.877864 | TCAAATAACAACTCTTTATCCATGGT | 57.122 | 30.769 | 12.58 | 1.59 | 0.00 | 3.55 |
2438 | 2672 | 9.504708 | TCCCGTTAATCAAATAACAACTCTTTA | 57.495 | 29.630 | 0.00 | 0.00 | 35.89 | 1.85 |
2440 | 2674 | 7.989416 | TCCCGTTAATCAAATAACAACTCTT | 57.011 | 32.000 | 0.00 | 0.00 | 35.89 | 2.85 |
2441 | 2675 | 7.827236 | TGATCCCGTTAATCAAATAACAACTCT | 59.173 | 33.333 | 0.00 | 0.00 | 35.89 | 3.24 |
2449 | 2683 | 5.662456 | TGACGTGATCCCGTTAATCAAATA | 58.338 | 37.500 | 4.33 | 0.00 | 41.98 | 1.40 |
2478 | 2712 | 6.661777 | TGGGTCATGTCAATTAGATCATTCA | 58.338 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2485 | 2719 | 5.449297 | TGGAATGGGTCATGTCAATTAGA | 57.551 | 39.130 | 0.00 | 0.00 | 0.00 | 2.10 |
2486 | 2720 | 6.720112 | AATGGAATGGGTCATGTCAATTAG | 57.280 | 37.500 | 0.00 | 0.00 | 0.00 | 1.73 |
2488 | 2722 | 5.069516 | GCTAATGGAATGGGTCATGTCAATT | 59.930 | 40.000 | 0.00 | 0.00 | 0.00 | 2.32 |
2495 | 2729 | 4.141181 | TGCTAAGCTAATGGAATGGGTCAT | 60.141 | 41.667 | 0.00 | 0.00 | 0.00 | 3.06 |
2507 | 2741 | 4.357918 | AATGATCGGGTGCTAAGCTAAT | 57.642 | 40.909 | 0.00 | 0.00 | 0.00 | 1.73 |
2520 | 2754 | 8.559536 | AGCAATAACAACATACTAAATGATCGG | 58.440 | 33.333 | 0.00 | 0.00 | 0.00 | 4.18 |
2600 | 2834 | 0.944386 | CACAAAGTGTTCCTCCGGTG | 59.056 | 55.000 | 0.00 | 0.00 | 0.00 | 4.94 |
2603 | 2837 | 0.307760 | GCACACAAAGTGTTCCTCCG | 59.692 | 55.000 | 0.00 | 0.00 | 45.08 | 4.63 |
2631 | 2865 | 3.695830 | ATCACCCAGTTACGTTGTGAT | 57.304 | 42.857 | 0.00 | 9.60 | 40.74 | 3.06 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.