Multiple sequence alignment - TraesCS7A01G199300
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 | TraesCS7A01G199300 | chr7A | 100.000 | 2231 | 0 | 0 | 1 | 2231 | 162401457 | 162399227 | 0.000000e+00 | 4120 |
1 | TraesCS7A01G199300 | chr7A | 84.663 | 802 | 83 | 25 | 458 | 1252 | 162408770 | 162408002 | 0.000000e+00 | 763 |
2 | TraesCS7A01G199300 | chr7A | 85.584 | 437 | 27 | 8 | 1 | 432 | 162415479 | 162415074 | 2.050000e-115 | 425 |
3 | TraesCS7A01G199300 | chr7A | 85.766 | 274 | 35 | 3 | 1957 | 2227 | 2946655 | 2946383 | 1.010000e-73 | 287 |
4 | TraesCS7A01G199300 | chr7A | 85.526 | 228 | 27 | 3 | 1006 | 1233 | 162454206 | 162453985 | 1.330000e-57 | 233 |
5 | TraesCS7A01G199300 | chr7A | 85.398 | 226 | 27 | 3 | 1006 | 1231 | 162414357 | 162414138 | 1.720000e-56 | 230 |
6 | TraesCS7A01G199300 | chr7A | 88.235 | 102 | 9 | 3 | 1557 | 1658 | 97021638 | 97021736 | 3.890000e-23 | 119 |
7 | TraesCS7A01G199300 | chr7B | 92.451 | 1126 | 57 | 15 | 458 | 1574 | 123278892 | 123277786 | 0.000000e+00 | 1583 |
8 | TraesCS7A01G199300 | chr7B | 85.088 | 228 | 28 | 4 | 1006 | 1233 | 123288285 | 123288064 | 6.200000e-56 | 228 |
9 | TraesCS7A01G199300 | chr7B | 84.685 | 222 | 28 | 3 | 1010 | 1231 | 123285064 | 123284849 | 1.340000e-52 | 217 |
10 | TraesCS7A01G199300 | chr7D | 91.906 | 1112 | 55 | 19 | 462 | 1569 | 160980064 | 160978984 | 0.000000e+00 | 1522 |
11 | TraesCS7A01G199300 | chr7D | 88.081 | 495 | 50 | 9 | 1738 | 2231 | 505422702 | 505423188 | 1.490000e-161 | 579 |
12 | TraesCS7A01G199300 | chr7D | 86.463 | 229 | 25 | 3 | 1005 | 1233 | 161040101 | 161039879 | 1.710000e-61 | 246 |
13 | TraesCS7A01G199300 | chr7D | 84.211 | 228 | 30 | 4 | 1006 | 1233 | 161060689 | 161060468 | 1.340000e-52 | 217 |
14 | TraesCS7A01G199300 | chr4D | 90.439 | 387 | 29 | 8 | 1741 | 2126 | 503542392 | 503542013 | 9.200000e-139 | 503 |
15 | TraesCS7A01G199300 | chr5D | 81.835 | 545 | 75 | 18 | 1707 | 2231 | 563455676 | 563455136 | 9.460000e-119 | 436 |
16 | TraesCS7A01G199300 | chr5D | 90.323 | 93 | 6 | 3 | 1566 | 1657 | 455323421 | 455323331 | 3.890000e-23 | 119 |
17 | TraesCS7A01G199300 | chr6D | 81.921 | 531 | 63 | 24 | 1707 | 2231 | 221449103 | 221448600 | 3.430000e-113 | 418 |
18 | TraesCS7A01G199300 | chr6D | 91.860 | 86 | 7 | 0 | 1572 | 1657 | 462762739 | 462762824 | 1.080000e-23 | 121 |
19 | TraesCS7A01G199300 | chr3A | 80.835 | 527 | 67 | 26 | 1710 | 2231 | 485057745 | 485057248 | 1.250000e-102 | 383 |
20 | TraesCS7A01G199300 | chr3A | 91.860 | 86 | 7 | 0 | 1572 | 1657 | 499556223 | 499556308 | 1.080000e-23 | 121 |
21 | TraesCS7A01G199300 | chr3A | 87.879 | 99 | 11 | 1 | 1573 | 1671 | 19272104 | 19272007 | 5.030000e-22 | 115 |
22 | TraesCS7A01G199300 | chr1B | 85.042 | 361 | 48 | 5 | 1873 | 2231 | 492380179 | 492380535 | 1.630000e-96 | 363 |
23 | TraesCS7A01G199300 | chr5B | 79.705 | 542 | 74 | 27 | 1707 | 2231 | 555956721 | 555957243 | 2.110000e-95 | 359 |
24 | TraesCS7A01G199300 | chr5B | 91.954 | 87 | 7 | 0 | 1572 | 1658 | 165930730 | 165930644 | 3.010000e-24 | 122 |
25 | TraesCS7A01G199300 | chr5B | 91.954 | 87 | 7 | 0 | 1571 | 1657 | 670118937 | 670118851 | 3.010000e-24 | 122 |
26 | TraesCS7A01G199300 | chr6A | 88.809 | 277 | 29 | 2 | 1956 | 2231 | 262949201 | 262949476 | 2.740000e-89 | 339 |
27 | TraesCS7A01G199300 | chr4B | 93.023 | 86 | 6 | 0 | 1572 | 1657 | 525796144 | 525796059 | 2.330000e-25 | 126 |
28 | TraesCS7A01G199300 | chr2B | 93.023 | 86 | 6 | 0 | 1572 | 1657 | 95449801 | 95449716 | 2.330000e-25 | 126 |
29 | TraesCS7A01G199300 | chr4A | 94.000 | 50 | 1 | 2 | 1707 | 1754 | 727259982 | 727260031 | 8.540000e-10 | 75 |
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 | TraesCS7A01G199300 | chr7A | 162399227 | 162401457 | 2230 | True | 4120.0 | 4120 | 100.0000 | 1 | 2231 | 1 | chr7A.!!$R2 | 2230 |
1 | TraesCS7A01G199300 | chr7A | 162408002 | 162408770 | 768 | True | 763.0 | 763 | 84.6630 | 458 | 1252 | 1 | chr7A.!!$R3 | 794 |
2 | TraesCS7A01G199300 | chr7A | 162414138 | 162415479 | 1341 | True | 327.5 | 425 | 85.4910 | 1 | 1231 | 2 | chr7A.!!$R5 | 1230 |
3 | TraesCS7A01G199300 | chr7B | 123277786 | 123278892 | 1106 | True | 1583.0 | 1583 | 92.4510 | 458 | 1574 | 1 | chr7B.!!$R1 | 1116 |
4 | TraesCS7A01G199300 | chr7B | 123284849 | 123288285 | 3436 | True | 222.5 | 228 | 84.8865 | 1006 | 1233 | 2 | chr7B.!!$R2 | 227 |
5 | TraesCS7A01G199300 | chr7D | 160978984 | 160980064 | 1080 | True | 1522.0 | 1522 | 91.9060 | 462 | 1569 | 1 | chr7D.!!$R1 | 1107 |
6 | TraesCS7A01G199300 | chr5D | 563455136 | 563455676 | 540 | True | 436.0 | 436 | 81.8350 | 1707 | 2231 | 1 | chr5D.!!$R2 | 524 |
7 | TraesCS7A01G199300 | chr6D | 221448600 | 221449103 | 503 | True | 418.0 | 418 | 81.9210 | 1707 | 2231 | 1 | chr6D.!!$R1 | 524 |
8 | TraesCS7A01G199300 | chr5B | 555956721 | 555957243 | 522 | False | 359.0 | 359 | 79.7050 | 1707 | 2231 | 1 | chr5B.!!$F1 | 524 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
347 | 352 | 0.031994 | CGTTGGCAAAAGGGTTCCTG | 59.968 | 55.0 | 0.0 | 0.0 | 32.13 | 3.86 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1262 | 3475 | 0.243907 | TTTTCTGTCGCTCTCTCCCG | 59.756 | 55.0 | 0.0 | 0.0 | 0.0 | 5.14 | 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 |
---|---|---|---|---|---|---|---|---|---|
43 | 44 | 7.815068 | CCTATGATTTACTTATGTCCTTCTCCG | 59.185 | 40.741 | 0.00 | 0.00 | 0.00 | 4.63 |
67 | 68 | 7.308589 | CCGAACTAACCAATCTCAGACATTTTT | 60.309 | 37.037 | 0.00 | 0.00 | 0.00 | 1.94 |
174 | 177 | 7.455641 | AAATGTCTGTATATCTACTCTCCCG | 57.544 | 40.000 | 0.00 | 0.00 | 0.00 | 5.14 |
262 | 267 | 1.202639 | CCCATGATAACTAGCACCGCA | 60.203 | 52.381 | 0.00 | 0.00 | 0.00 | 5.69 |
264 | 269 | 1.522676 | CATGATAACTAGCACCGCACG | 59.477 | 52.381 | 0.00 | 0.00 | 0.00 | 5.34 |
306 | 311 | 7.803724 | AGTAGTAAATTTAGAAGCCAAACACG | 58.196 | 34.615 | 0.00 | 0.00 | 0.00 | 4.49 |
307 | 312 | 6.870971 | AGTAAATTTAGAAGCCAAACACGA | 57.129 | 33.333 | 0.00 | 0.00 | 0.00 | 4.35 |
308 | 313 | 7.448748 | AGTAAATTTAGAAGCCAAACACGAT | 57.551 | 32.000 | 0.00 | 0.00 | 0.00 | 3.73 |
309 | 314 | 8.556213 | AGTAAATTTAGAAGCCAAACACGATA | 57.444 | 30.769 | 0.00 | 0.00 | 0.00 | 2.92 |
310 | 315 | 9.005777 | AGTAAATTTAGAAGCCAAACACGATAA | 57.994 | 29.630 | 0.00 | 0.00 | 0.00 | 1.75 |
312 | 317 | 8.515473 | AAATTTAGAAGCCAAACACGATAAAC | 57.485 | 30.769 | 0.00 | 0.00 | 0.00 | 2.01 |
313 | 318 | 5.616488 | TTAGAAGCCAAACACGATAAACC | 57.384 | 39.130 | 0.00 | 0.00 | 0.00 | 3.27 |
314 | 319 | 3.751518 | AGAAGCCAAACACGATAAACCT | 58.248 | 40.909 | 0.00 | 0.00 | 0.00 | 3.50 |
315 | 320 | 4.901868 | AGAAGCCAAACACGATAAACCTA | 58.098 | 39.130 | 0.00 | 0.00 | 0.00 | 3.08 |
316 | 321 | 5.310451 | AGAAGCCAAACACGATAAACCTAA | 58.690 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
317 | 322 | 5.766174 | AGAAGCCAAACACGATAAACCTAAA | 59.234 | 36.000 | 0.00 | 0.00 | 0.00 | 1.85 |
318 | 323 | 6.263617 | AGAAGCCAAACACGATAAACCTAAAA | 59.736 | 34.615 | 0.00 | 0.00 | 0.00 | 1.52 |
319 | 324 | 6.009115 | AGCCAAACACGATAAACCTAAAAG | 57.991 | 37.500 | 0.00 | 0.00 | 0.00 | 2.27 |
321 | 326 | 5.158494 | CCAAACACGATAAACCTAAAAGGC | 58.842 | 41.667 | 0.00 | 0.00 | 39.63 | 4.35 |
323 | 328 | 4.023726 | ACACGATAAACCTAAAAGGCCA | 57.976 | 40.909 | 5.01 | 0.00 | 39.63 | 5.36 |
344 | 349 | 0.741915 | TCACGTTGGCAAAAGGGTTC | 59.258 | 50.000 | 0.00 | 0.00 | 0.00 | 3.62 |
347 | 352 | 0.031994 | CGTTGGCAAAAGGGTTCCTG | 59.968 | 55.000 | 0.00 | 0.00 | 32.13 | 3.86 |
363 | 368 | 4.157840 | GGTTCCTGTTTGGCGATATTTTCT | 59.842 | 41.667 | 0.00 | 0.00 | 35.26 | 2.52 |
364 | 369 | 5.332707 | GTTCCTGTTTGGCGATATTTTCTC | 58.667 | 41.667 | 0.00 | 0.00 | 35.26 | 2.87 |
387 | 392 | 7.336176 | TCTCGATGACTACACAAATAGTACTGT | 59.664 | 37.037 | 5.39 | 0.00 | 35.48 | 3.55 |
389 | 394 | 8.610035 | TCGATGACTACACAAATAGTACTGTAG | 58.390 | 37.037 | 5.39 | 10.50 | 41.23 | 2.74 |
460 | 495 | 3.660054 | TCTCGATCGAGAGACTTTTCG | 57.340 | 47.619 | 37.31 | 14.52 | 45.26 | 3.46 |
657 | 745 | 9.684448 | ACATAATTGTCGTCATCTTAGATAGTG | 57.316 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
658 | 746 | 9.899226 | CATAATTGTCGTCATCTTAGATAGTGA | 57.101 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
877 | 1054 | 3.847671 | TCATATACGCATCACCCCAAA | 57.152 | 42.857 | 0.00 | 0.00 | 0.00 | 3.28 |
917 | 1094 | 1.144936 | AAGGCTAGCTGTGATCGGC | 59.855 | 57.895 | 15.72 | 0.00 | 45.49 | 5.54 |
969 | 1148 | 1.349357 | ACAAGCAAGAAGAGGGGAGAC | 59.651 | 52.381 | 0.00 | 0.00 | 0.00 | 3.36 |
988 | 1167 | 1.143684 | ACACACTTGATTCCCAGTGCT | 59.856 | 47.619 | 11.29 | 0.32 | 35.87 | 4.40 |
1056 | 3269 | 1.447838 | GATCGTGGCCTTCTTCGCA | 60.448 | 57.895 | 3.32 | 0.00 | 0.00 | 5.10 |
1167 | 3380 | 2.711542 | CTTCTCCGGCAAATGTACCTT | 58.288 | 47.619 | 0.00 | 0.00 | 0.00 | 3.50 |
1174 | 3387 | 1.165270 | GCAAATGTACCTTCAGCGGT | 58.835 | 50.000 | 0.00 | 0.00 | 41.10 | 5.68 |
1262 | 3475 | 1.215382 | GCCAAAGATTTCGGGTGCC | 59.785 | 57.895 | 0.00 | 0.00 | 0.00 | 5.01 |
1295 | 3508 | 4.540824 | GACAGAAAATCCAACAACTCAGC | 58.459 | 43.478 | 0.00 | 0.00 | 0.00 | 4.26 |
1300 | 3513 | 0.396435 | ATCCAACAACTCAGCCGTGA | 59.604 | 50.000 | 0.00 | 0.00 | 0.00 | 4.35 |
1371 | 3584 | 1.006825 | CGTCATTCCGTCGCACTCAA | 61.007 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
1381 | 3594 | 2.553268 | GCACTCAAGCTGTCACGC | 59.447 | 61.111 | 0.00 | 0.00 | 0.00 | 5.34 |
1438 | 3651 | 9.758651 | ACTACTGTATCATTTTATATGTTGCGA | 57.241 | 29.630 | 0.00 | 0.00 | 0.00 | 5.10 |
1539 | 3754 | 5.646360 | CAGGTCCGGTTCATTGTACTATTTT | 59.354 | 40.000 | 0.00 | 0.00 | 0.00 | 1.82 |
1583 | 3803 | 7.427989 | TGATAAAATAAAGTACTCCCTCCGT | 57.572 | 36.000 | 0.00 | 0.00 | 0.00 | 4.69 |
1584 | 3804 | 7.854337 | TGATAAAATAAAGTACTCCCTCCGTT | 58.146 | 34.615 | 0.00 | 0.00 | 0.00 | 4.44 |
1585 | 3805 | 7.983484 | TGATAAAATAAAGTACTCCCTCCGTTC | 59.017 | 37.037 | 0.00 | 0.00 | 0.00 | 3.95 |
1586 | 3806 | 4.750021 | AATAAAGTACTCCCTCCGTTCC | 57.250 | 45.455 | 0.00 | 0.00 | 0.00 | 3.62 |
1587 | 3807 | 2.019807 | AAAGTACTCCCTCCGTTCCA | 57.980 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
1588 | 3808 | 2.249309 | AAGTACTCCCTCCGTTCCAT | 57.751 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1589 | 3809 | 3.393426 | AAGTACTCCCTCCGTTCCATA | 57.607 | 47.619 | 0.00 | 0.00 | 0.00 | 2.74 |
1590 | 3810 | 3.393426 | AGTACTCCCTCCGTTCCATAA | 57.607 | 47.619 | 0.00 | 0.00 | 0.00 | 1.90 |
1591 | 3811 | 3.924922 | AGTACTCCCTCCGTTCCATAAT | 58.075 | 45.455 | 0.00 | 0.00 | 0.00 | 1.28 |
1592 | 3812 | 5.070823 | AGTACTCCCTCCGTTCCATAATA | 57.929 | 43.478 | 0.00 | 0.00 | 0.00 | 0.98 |
1593 | 3813 | 5.652324 | AGTACTCCCTCCGTTCCATAATAT | 58.348 | 41.667 | 0.00 | 0.00 | 0.00 | 1.28 |
1594 | 3814 | 6.797707 | AGTACTCCCTCCGTTCCATAATATA | 58.202 | 40.000 | 0.00 | 0.00 | 0.00 | 0.86 |
1595 | 3815 | 7.243824 | AGTACTCCCTCCGTTCCATAATATAA | 58.756 | 38.462 | 0.00 | 0.00 | 0.00 | 0.98 |
1596 | 3816 | 6.607004 | ACTCCCTCCGTTCCATAATATAAG | 57.393 | 41.667 | 0.00 | 0.00 | 0.00 | 1.73 |
1597 | 3817 | 6.320518 | ACTCCCTCCGTTCCATAATATAAGA | 58.679 | 40.000 | 0.00 | 0.00 | 0.00 | 2.10 |
1598 | 3818 | 6.785963 | ACTCCCTCCGTTCCATAATATAAGAA | 59.214 | 38.462 | 0.00 | 0.00 | 0.00 | 2.52 |
1599 | 3819 | 7.458170 | ACTCCCTCCGTTCCATAATATAAGAAT | 59.542 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
1600 | 3820 | 7.620880 | TCCCTCCGTTCCATAATATAAGAATG | 58.379 | 38.462 | 0.00 | 0.00 | 0.00 | 2.67 |
1601 | 3821 | 7.236847 | TCCCTCCGTTCCATAATATAAGAATGT | 59.763 | 37.037 | 0.00 | 0.00 | 0.00 | 2.71 |
1602 | 3822 | 7.883311 | CCCTCCGTTCCATAATATAAGAATGTT | 59.117 | 37.037 | 0.00 | 0.00 | 0.00 | 2.71 |
1603 | 3823 | 9.284968 | CCTCCGTTCCATAATATAAGAATGTTT | 57.715 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
1616 | 3836 | 5.852282 | AAGAATGTTTTTGGCACTAGTGT | 57.148 | 34.783 | 23.44 | 0.00 | 0.00 | 3.55 |
1617 | 3837 | 6.952773 | AAGAATGTTTTTGGCACTAGTGTA | 57.047 | 33.333 | 23.44 | 10.89 | 0.00 | 2.90 |
1618 | 3838 | 6.560253 | AGAATGTTTTTGGCACTAGTGTAG | 57.440 | 37.500 | 23.44 | 0.00 | 0.00 | 2.74 |
1619 | 3839 | 6.062095 | AGAATGTTTTTGGCACTAGTGTAGT | 58.938 | 36.000 | 23.44 | 0.94 | 40.28 | 2.73 |
1652 | 3872 | 9.892130 | AACACTCTTATATTTTAGAACAGAGGG | 57.108 | 33.333 | 0.00 | 0.00 | 36.55 | 4.30 |
1653 | 3873 | 9.268282 | ACACTCTTATATTTTAGAACAGAGGGA | 57.732 | 33.333 | 2.59 | 0.00 | 34.50 | 4.20 |
1654 | 3874 | 9.757227 | CACTCTTATATTTTAGAACAGAGGGAG | 57.243 | 37.037 | 0.00 | 0.00 | 32.92 | 4.30 |
1655 | 3875 | 9.495382 | ACTCTTATATTTTAGAACAGAGGGAGT | 57.505 | 33.333 | 0.00 | 0.00 | 32.21 | 3.85 |
1658 | 3878 | 9.699703 | CTTATATTTTAGAACAGAGGGAGTAGC | 57.300 | 37.037 | 0.00 | 0.00 | 0.00 | 3.58 |
1659 | 3879 | 7.922699 | ATATTTTAGAACAGAGGGAGTAGCT | 57.077 | 36.000 | 0.00 | 0.00 | 0.00 | 3.32 |
1660 | 3880 | 6.628644 | ATTTTAGAACAGAGGGAGTAGCTT | 57.371 | 37.500 | 0.00 | 0.00 | 0.00 | 3.74 |
1661 | 3881 | 6.435292 | TTTTAGAACAGAGGGAGTAGCTTT | 57.565 | 37.500 | 0.00 | 0.00 | 0.00 | 3.51 |
1662 | 3882 | 3.971245 | AGAACAGAGGGAGTAGCTTTG | 57.029 | 47.619 | 0.00 | 0.00 | 0.00 | 2.77 |
1663 | 3883 | 3.243724 | AGAACAGAGGGAGTAGCTTTGT | 58.756 | 45.455 | 0.00 | 0.00 | 0.00 | 2.83 |
1664 | 3884 | 4.417437 | AGAACAGAGGGAGTAGCTTTGTA | 58.583 | 43.478 | 0.00 | 0.00 | 0.00 | 2.41 |
1665 | 3885 | 4.838986 | AGAACAGAGGGAGTAGCTTTGTAA | 59.161 | 41.667 | 0.00 | 0.00 | 0.00 | 2.41 |
1666 | 3886 | 5.485708 | AGAACAGAGGGAGTAGCTTTGTAAT | 59.514 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
1667 | 3887 | 5.091261 | ACAGAGGGAGTAGCTTTGTAATG | 57.909 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
1668 | 3888 | 3.873952 | CAGAGGGAGTAGCTTTGTAATGC | 59.126 | 47.826 | 0.00 | 0.00 | 0.00 | 3.56 |
1669 | 3889 | 3.519510 | AGAGGGAGTAGCTTTGTAATGCA | 59.480 | 43.478 | 0.00 | 0.00 | 0.00 | 3.96 |
1670 | 3890 | 4.019321 | AGAGGGAGTAGCTTTGTAATGCAA | 60.019 | 41.667 | 0.00 | 0.00 | 34.87 | 4.08 |
1671 | 3891 | 4.010349 | AGGGAGTAGCTTTGTAATGCAAC | 58.990 | 43.478 | 0.00 | 0.00 | 36.72 | 4.17 |
1672 | 3892 | 3.181510 | GGGAGTAGCTTTGTAATGCAACG | 60.182 | 47.826 | 0.00 | 0.00 | 36.72 | 4.10 |
1673 | 3893 | 3.181510 | GGAGTAGCTTTGTAATGCAACGG | 60.182 | 47.826 | 0.00 | 0.00 | 36.72 | 4.44 |
1674 | 3894 | 3.408634 | AGTAGCTTTGTAATGCAACGGT | 58.591 | 40.909 | 0.00 | 0.00 | 39.73 | 4.83 |
1675 | 3895 | 3.818773 | AGTAGCTTTGTAATGCAACGGTT | 59.181 | 39.130 | 0.00 | 0.00 | 37.97 | 4.44 |
1676 | 3896 | 4.998672 | AGTAGCTTTGTAATGCAACGGTTA | 59.001 | 37.500 | 0.00 | 0.00 | 37.97 | 2.85 |
1677 | 3897 | 5.646360 | AGTAGCTTTGTAATGCAACGGTTAT | 59.354 | 36.000 | 0.00 | 0.00 | 37.97 | 1.89 |
1678 | 3898 | 4.732784 | AGCTTTGTAATGCAACGGTTATG | 58.267 | 39.130 | 0.00 | 0.00 | 34.10 | 1.90 |
1679 | 3899 | 3.857093 | GCTTTGTAATGCAACGGTTATGG | 59.143 | 43.478 | 0.00 | 0.00 | 36.72 | 2.74 |
1680 | 3900 | 4.617298 | GCTTTGTAATGCAACGGTTATGGT | 60.617 | 41.667 | 0.00 | 0.00 | 36.72 | 3.55 |
1681 | 3901 | 5.392165 | GCTTTGTAATGCAACGGTTATGGTA | 60.392 | 40.000 | 0.00 | 0.00 | 36.72 | 3.25 |
1682 | 3902 | 6.570672 | TTTGTAATGCAACGGTTATGGTAA | 57.429 | 33.333 | 0.00 | 0.00 | 36.72 | 2.85 |
1683 | 3903 | 6.761099 | TTGTAATGCAACGGTTATGGTAAT | 57.239 | 33.333 | 0.00 | 0.00 | 31.07 | 1.89 |
1684 | 3904 | 6.125327 | TGTAATGCAACGGTTATGGTAATG | 57.875 | 37.500 | 0.00 | 0.00 | 0.00 | 1.90 |
1685 | 3905 | 5.880887 | TGTAATGCAACGGTTATGGTAATGA | 59.119 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1686 | 3906 | 6.544197 | TGTAATGCAACGGTTATGGTAATGAT | 59.456 | 34.615 | 0.00 | 0.00 | 0.00 | 2.45 |
1687 | 3907 | 6.463995 | AATGCAACGGTTATGGTAATGATT | 57.536 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
1688 | 3908 | 5.906113 | TGCAACGGTTATGGTAATGATTT | 57.094 | 34.783 | 0.00 | 0.00 | 0.00 | 2.17 |
1689 | 3909 | 5.645624 | TGCAACGGTTATGGTAATGATTTG | 58.354 | 37.500 | 0.00 | 0.00 | 0.00 | 2.32 |
1690 | 3910 | 5.416013 | TGCAACGGTTATGGTAATGATTTGA | 59.584 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
1691 | 3911 | 6.071896 | TGCAACGGTTATGGTAATGATTTGAA | 60.072 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
1692 | 3912 | 6.809196 | GCAACGGTTATGGTAATGATTTGAAA | 59.191 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
1693 | 3913 | 7.329717 | GCAACGGTTATGGTAATGATTTGAAAA | 59.670 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
1694 | 3914 | 9.197694 | CAACGGTTATGGTAATGATTTGAAAAA | 57.802 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
1753 | 3973 | 5.447279 | CCTCCGATTTCATTAACGAAACCAG | 60.447 | 44.000 | 0.00 | 0.00 | 37.69 | 4.00 |
1760 | 3981 | 4.323417 | TCATTAACGAAACCAGATGCACT | 58.677 | 39.130 | 0.00 | 0.00 | 0.00 | 4.40 |
1763 | 3984 | 1.229428 | ACGAAACCAGATGCACTGTG | 58.771 | 50.000 | 2.76 | 2.76 | 44.40 | 3.66 |
1764 | 3985 | 1.229428 | CGAAACCAGATGCACTGTGT | 58.771 | 50.000 | 9.86 | 8.94 | 44.40 | 3.72 |
1774 | 3995 | 3.313526 | AGATGCACTGTGTCAAGTTCAAC | 59.686 | 43.478 | 9.86 | 0.00 | 27.14 | 3.18 |
1775 | 3996 | 1.396648 | TGCACTGTGTCAAGTTCAACG | 59.603 | 47.619 | 9.86 | 0.00 | 0.00 | 4.10 |
1777 | 3998 | 2.287915 | GCACTGTGTCAAGTTCAACGAT | 59.712 | 45.455 | 9.86 | 0.00 | 0.00 | 3.73 |
1783 | 4004 | 2.158885 | TGTCAAGTTCAACGATCCACCA | 60.159 | 45.455 | 0.00 | 0.00 | 0.00 | 4.17 |
1784 | 4005 | 2.223377 | GTCAAGTTCAACGATCCACCAC | 59.777 | 50.000 | 0.00 | 0.00 | 0.00 | 4.16 |
1785 | 4006 | 1.535462 | CAAGTTCAACGATCCACCACC | 59.465 | 52.381 | 0.00 | 0.00 | 0.00 | 4.61 |
1786 | 4007 | 0.762418 | AGTTCAACGATCCACCACCA | 59.238 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
1799 | 4020 | 3.773119 | TCCACCACCACCTAGATCTAAAC | 59.227 | 47.826 | 3.57 | 0.00 | 0.00 | 2.01 |
1802 | 4023 | 4.081862 | CACCACCACCTAGATCTAAACGAA | 60.082 | 45.833 | 3.57 | 0.00 | 0.00 | 3.85 |
1803 | 4024 | 4.529377 | ACCACCACCTAGATCTAAACGAAA | 59.471 | 41.667 | 3.57 | 0.00 | 0.00 | 3.46 |
1805 | 4026 | 5.337330 | CCACCACCTAGATCTAAACGAAACT | 60.337 | 44.000 | 3.57 | 0.00 | 0.00 | 2.66 |
1811 | 4032 | 8.861101 | CACCTAGATCTAAACGAAACTAAACTG | 58.139 | 37.037 | 3.57 | 0.00 | 0.00 | 3.16 |
1816 | 4037 | 6.764877 | TCTAAACGAAACTAAACTGCAGAG | 57.235 | 37.500 | 23.35 | 10.28 | 0.00 | 3.35 |
1821 | 4042 | 3.678548 | CGAAACTAAACTGCAGAGTACCC | 59.321 | 47.826 | 23.35 | 5.60 | 0.00 | 3.69 |
1829 | 4051 | 3.744660 | ACTGCAGAGTACCCAAAGAAAG | 58.255 | 45.455 | 23.35 | 0.00 | 0.00 | 2.62 |
1841 | 4096 | 2.288395 | CCAAAGAAAGGCAGTTCGCAAT | 60.288 | 45.455 | 0.00 | 0.00 | 45.17 | 3.56 |
1848 | 4103 | 1.009829 | GGCAGTTCGCAATAGACCAG | 58.990 | 55.000 | 0.00 | 0.00 | 45.17 | 4.00 |
1850 | 4105 | 1.661112 | GCAGTTCGCAATAGACCAGAC | 59.339 | 52.381 | 0.00 | 0.00 | 41.79 | 3.51 |
1852 | 4107 | 2.926200 | CAGTTCGCAATAGACCAGACAG | 59.074 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
1853 | 4108 | 1.661112 | GTTCGCAATAGACCAGACAGC | 59.339 | 52.381 | 0.00 | 0.00 | 0.00 | 4.40 |
1855 | 4110 | 1.275010 | TCGCAATAGACCAGACAGCAA | 59.725 | 47.619 | 0.00 | 0.00 | 0.00 | 3.91 |
1858 | 4113 | 3.667960 | CGCAATAGACCAGACAGCAAAAC | 60.668 | 47.826 | 0.00 | 0.00 | 0.00 | 2.43 |
1859 | 4114 | 3.253188 | GCAATAGACCAGACAGCAAAACA | 59.747 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
1860 | 4115 | 4.261572 | GCAATAGACCAGACAGCAAAACAA | 60.262 | 41.667 | 0.00 | 0.00 | 0.00 | 2.83 |
1861 | 4116 | 5.455392 | CAATAGACCAGACAGCAAAACAAG | 58.545 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
1862 | 4117 | 3.004752 | AGACCAGACAGCAAAACAAGT | 57.995 | 42.857 | 0.00 | 0.00 | 0.00 | 3.16 |
1863 | 4118 | 3.356290 | AGACCAGACAGCAAAACAAGTT | 58.644 | 40.909 | 0.00 | 0.00 | 0.00 | 2.66 |
1864 | 4119 | 3.763897 | AGACCAGACAGCAAAACAAGTTT | 59.236 | 39.130 | 0.00 | 0.00 | 0.00 | 2.66 |
1866 | 4121 | 4.494484 | ACCAGACAGCAAAACAAGTTTTC | 58.506 | 39.130 | 7.89 | 4.43 | 40.45 | 2.29 |
1867 | 4122 | 4.021544 | ACCAGACAGCAAAACAAGTTTTCA | 60.022 | 37.500 | 7.89 | 0.00 | 40.45 | 2.69 |
1868 | 4123 | 4.928615 | CCAGACAGCAAAACAAGTTTTCAA | 59.071 | 37.500 | 7.89 | 0.00 | 40.45 | 2.69 |
1869 | 4124 | 5.163963 | CCAGACAGCAAAACAAGTTTTCAAC | 60.164 | 40.000 | 7.89 | 2.17 | 40.45 | 3.18 |
1871 | 4126 | 6.091169 | CAGACAGCAAAACAAGTTTTCAACAT | 59.909 | 34.615 | 7.89 | 0.00 | 40.45 | 2.71 |
1872 | 4127 | 7.275341 | CAGACAGCAAAACAAGTTTTCAACATA | 59.725 | 33.333 | 7.89 | 0.00 | 40.45 | 2.29 |
1882 | 4157 | 3.320826 | AGTTTTCAACATAAGGGCCACAC | 59.679 | 43.478 | 6.18 | 0.00 | 0.00 | 3.82 |
1887 | 4162 | 3.395702 | ATAAGGGCCACACGCGGA | 61.396 | 61.111 | 12.47 | 0.00 | 38.94 | 5.54 |
1903 | 4178 | 1.131315 | GCGGACAAAAGATCAAGAGGC | 59.869 | 52.381 | 0.00 | 0.00 | 0.00 | 4.70 |
1920 | 4195 | 2.818714 | CCGCAGCCTCAGCAGAAG | 60.819 | 66.667 | 0.00 | 0.00 | 43.56 | 2.85 |
1921 | 4196 | 3.497932 | CGCAGCCTCAGCAGAAGC | 61.498 | 66.667 | 0.00 | 0.00 | 43.56 | 3.86 |
1924 | 4200 | 1.924320 | GCAGCCTCAGCAGAAGCAAG | 61.924 | 60.000 | 2.31 | 0.00 | 45.49 | 4.01 |
1936 | 4214 | 5.468072 | CAGCAGAAGCAAGAGAAACTAAAGA | 59.532 | 40.000 | 0.00 | 0.00 | 45.49 | 2.52 |
1941 | 4219 | 9.598517 | CAGAAGCAAGAGAAACTAAAGATAGAT | 57.401 | 33.333 | 0.00 | 0.00 | 33.15 | 1.98 |
1950 | 4228 | 8.012957 | AGAAACTAAAGATAGATGATGTCGGT | 57.987 | 34.615 | 0.00 | 0.00 | 33.15 | 4.69 |
2020 | 4303 | 0.528017 | CCTCACTTGCTACTCGCTCA | 59.472 | 55.000 | 0.00 | 0.00 | 40.11 | 4.26 |
2035 | 4318 | 0.684153 | GCTCAATTAGCCTTGCCCCA | 60.684 | 55.000 | 0.00 | 0.00 | 46.25 | 4.96 |
2182 | 4466 | 2.016961 | CATTTCCAGATCGCCCACG | 58.983 | 57.895 | 0.00 | 0.00 | 42.01 | 4.94 |
2193 | 4477 | 1.153647 | CGCCCACGTGATAGCAGAA | 60.154 | 57.895 | 19.30 | 0.00 | 33.53 | 3.02 |
2217 | 4501 | 5.562298 | TCCCAACTAGCACTAGTCTTTTT | 57.438 | 39.130 | 10.64 | 0.00 | 44.96 | 1.94 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
16 | 17 | 8.652290 | GGAGAAGGACATAAGTAAATCATAGGT | 58.348 | 37.037 | 0.00 | 0.00 | 0.00 | 3.08 |
43 | 44 | 8.023706 | GGAAAAATGTCTGAGATTGGTTAGTTC | 58.976 | 37.037 | 0.34 | 0.21 | 0.00 | 3.01 |
152 | 155 | 6.013206 | AGACGGGAGAGTAGATATACAGACAT | 60.013 | 42.308 | 0.00 | 0.00 | 0.00 | 3.06 |
170 | 173 | 4.610605 | TTGACACTATTTTGAGACGGGA | 57.389 | 40.909 | 0.00 | 0.00 | 0.00 | 5.14 |
216 | 221 | 8.902540 | AACGCATGAAGATATTAATACTTCCA | 57.097 | 30.769 | 21.86 | 15.46 | 39.14 | 3.53 |
220 | 225 | 7.450074 | TGGGAACGCATGAAGATATTAATACT | 58.550 | 34.615 | 0.00 | 0.00 | 0.00 | 2.12 |
221 | 226 | 7.667043 | TGGGAACGCATGAAGATATTAATAC | 57.333 | 36.000 | 0.00 | 0.00 | 0.00 | 1.89 |
222 | 227 | 8.100164 | TCATGGGAACGCATGAAGATATTAATA | 58.900 | 33.333 | 24.70 | 0.00 | 40.90 | 0.98 |
250 | 255 | 3.622826 | ACCCGTGCGGTGCTAGTT | 61.623 | 61.111 | 9.90 | 0.00 | 46.09 | 2.24 |
262 | 267 | 3.555966 | ACTATACTAGCCGTAAACCCGT | 58.444 | 45.455 | 0.00 | 0.00 | 0.00 | 5.28 |
264 | 269 | 7.745620 | TTACTACTATACTAGCCGTAAACCC | 57.254 | 40.000 | 0.00 | 0.00 | 0.00 | 4.11 |
301 | 306 | 4.400120 | TGGCCTTTTAGGTTTATCGTGTT | 58.600 | 39.130 | 3.32 | 0.00 | 37.80 | 3.32 |
302 | 307 | 4.023726 | TGGCCTTTTAGGTTTATCGTGT | 57.976 | 40.909 | 3.32 | 0.00 | 37.80 | 4.49 |
303 | 308 | 5.124776 | TGAATGGCCTTTTAGGTTTATCGTG | 59.875 | 40.000 | 3.32 | 0.00 | 37.80 | 4.35 |
304 | 309 | 5.124936 | GTGAATGGCCTTTTAGGTTTATCGT | 59.875 | 40.000 | 3.32 | 0.00 | 37.80 | 3.73 |
305 | 310 | 5.578776 | GTGAATGGCCTTTTAGGTTTATCG | 58.421 | 41.667 | 3.32 | 0.00 | 37.80 | 2.92 |
306 | 311 | 5.124936 | ACGTGAATGGCCTTTTAGGTTTATC | 59.875 | 40.000 | 13.57 | 0.00 | 37.80 | 1.75 |
307 | 312 | 5.014202 | ACGTGAATGGCCTTTTAGGTTTAT | 58.986 | 37.500 | 13.57 | 0.00 | 37.80 | 1.40 |
308 | 313 | 4.400120 | ACGTGAATGGCCTTTTAGGTTTA | 58.600 | 39.130 | 13.57 | 0.00 | 37.80 | 2.01 |
309 | 314 | 3.227614 | ACGTGAATGGCCTTTTAGGTTT | 58.772 | 40.909 | 13.57 | 0.00 | 37.80 | 3.27 |
310 | 315 | 2.871453 | ACGTGAATGGCCTTTTAGGTT | 58.129 | 42.857 | 13.57 | 2.02 | 37.80 | 3.50 |
312 | 317 | 2.094752 | CCAACGTGAATGGCCTTTTAGG | 60.095 | 50.000 | 3.32 | 9.29 | 38.80 | 2.69 |
313 | 318 | 3.216147 | CCAACGTGAATGGCCTTTTAG | 57.784 | 47.619 | 3.32 | 2.36 | 0.00 | 1.85 |
321 | 326 | 1.605202 | CCCTTTTGCCAACGTGAATGG | 60.605 | 52.381 | 0.10 | 0.10 | 41.08 | 3.16 |
323 | 328 | 1.408969 | ACCCTTTTGCCAACGTGAAT | 58.591 | 45.000 | 0.00 | 0.00 | 0.00 | 2.57 |
344 | 349 | 3.621268 | TCGAGAAAATATCGCCAAACAGG | 59.379 | 43.478 | 0.00 | 0.00 | 39.98 | 4.00 |
347 | 352 | 5.006746 | AGTCATCGAGAAAATATCGCCAAAC | 59.993 | 40.000 | 0.00 | 0.00 | 39.98 | 2.93 |
363 | 368 | 7.387119 | ACAGTACTATTTGTGTAGTCATCGA | 57.613 | 36.000 | 0.00 | 0.00 | 36.39 | 3.59 |
364 | 369 | 8.769396 | CTACAGTACTATTTGTGTAGTCATCG | 57.231 | 38.462 | 0.00 | 0.00 | 38.28 | 3.84 |
405 | 410 | 1.226746 | GCGGCGCAAGGAACTATATT | 58.773 | 50.000 | 29.21 | 0.00 | 38.49 | 1.28 |
407 | 412 | 0.108089 | TTGCGGCGCAAGGAACTATA | 60.108 | 50.000 | 40.01 | 18.12 | 43.99 | 1.31 |
408 | 413 | 1.376683 | TTGCGGCGCAAGGAACTAT | 60.377 | 52.632 | 40.01 | 0.00 | 43.99 | 2.12 |
409 | 414 | 2.031314 | TTGCGGCGCAAGGAACTA | 59.969 | 55.556 | 40.01 | 19.72 | 43.99 | 2.24 |
452 | 487 | 2.851104 | CACGGTCGGCGAAAAGTC | 59.149 | 61.111 | 12.92 | 0.00 | 0.00 | 3.01 |
453 | 488 | 3.343421 | GCACGGTCGGCGAAAAGT | 61.343 | 61.111 | 12.92 | 9.40 | 0.00 | 2.66 |
454 | 489 | 3.295228 | CTGCACGGTCGGCGAAAAG | 62.295 | 63.158 | 12.92 | 8.67 | 0.00 | 2.27 |
455 | 490 | 3.342627 | CTGCACGGTCGGCGAAAA | 61.343 | 61.111 | 12.92 | 0.00 | 0.00 | 2.29 |
659 | 747 | 9.676195 | GGCTTGCTACTAGTACTAATTAACTAC | 57.324 | 37.037 | 3.76 | 0.00 | 0.00 | 2.73 |
917 | 1094 | 0.591741 | GTACGGCTCGATCAACTCCG | 60.592 | 60.000 | 10.04 | 10.04 | 45.04 | 4.63 |
969 | 1148 | 1.808945 | GAGCACTGGGAATCAAGTGTG | 59.191 | 52.381 | 14.18 | 4.53 | 35.00 | 3.82 |
988 | 1167 | 1.950216 | CCTTGTCATCCTCGATCGAGA | 59.050 | 52.381 | 39.64 | 27.10 | 44.53 | 4.04 |
1262 | 3475 | 0.243907 | TTTTCTGTCGCTCTCTCCCG | 59.756 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
1269 | 3482 | 3.251004 | AGTTGTTGGATTTTCTGTCGCTC | 59.749 | 43.478 | 0.00 | 0.00 | 0.00 | 5.03 |
1270 | 3483 | 3.214328 | AGTTGTTGGATTTTCTGTCGCT | 58.786 | 40.909 | 0.00 | 0.00 | 0.00 | 4.93 |
1271 | 3484 | 3.003275 | TGAGTTGTTGGATTTTCTGTCGC | 59.997 | 43.478 | 0.00 | 0.00 | 0.00 | 5.19 |
1295 | 3508 | 7.219154 | CGCTATAAGATTTCTATAAGCTCACGG | 59.781 | 40.741 | 0.00 | 0.00 | 0.00 | 4.94 |
1300 | 3513 | 7.543868 | CAGCACGCTATAAGATTTCTATAAGCT | 59.456 | 37.037 | 0.00 | 0.00 | 0.00 | 3.74 |
1312 | 3525 | 2.093711 | TGAAAGGCAGCACGCTATAAGA | 60.094 | 45.455 | 0.00 | 0.00 | 41.91 | 2.10 |
1381 | 3594 | 4.495422 | AGCACTACTTCGACCATTAACTG | 58.505 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
1430 | 3643 | 7.145985 | ACGATAGACTATACAAATCGCAACAT | 58.854 | 34.615 | 0.00 | 0.00 | 42.31 | 2.71 |
1560 | 3780 | 7.440556 | GGAACGGAGGGAGTACTTTATTTTATC | 59.559 | 40.741 | 0.00 | 0.00 | 0.00 | 1.75 |
1569 | 3789 | 2.249309 | ATGGAACGGAGGGAGTACTT | 57.751 | 50.000 | 0.00 | 0.00 | 0.00 | 2.24 |
1570 | 3790 | 3.393426 | TTATGGAACGGAGGGAGTACT | 57.607 | 47.619 | 0.00 | 0.00 | 0.00 | 2.73 |
1571 | 3791 | 5.997384 | ATATTATGGAACGGAGGGAGTAC | 57.003 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
1572 | 3792 | 7.472741 | TCTTATATTATGGAACGGAGGGAGTA | 58.527 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
1573 | 3793 | 6.320518 | TCTTATATTATGGAACGGAGGGAGT | 58.679 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1574 | 3794 | 6.852420 | TCTTATATTATGGAACGGAGGGAG | 57.148 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
1575 | 3795 | 7.236847 | ACATTCTTATATTATGGAACGGAGGGA | 59.763 | 37.037 | 0.00 | 0.00 | 0.00 | 4.20 |
1576 | 3796 | 7.394816 | ACATTCTTATATTATGGAACGGAGGG | 58.605 | 38.462 | 0.00 | 0.00 | 0.00 | 4.30 |
1577 | 3797 | 8.848474 | AACATTCTTATATTATGGAACGGAGG | 57.152 | 34.615 | 0.00 | 0.00 | 0.00 | 4.30 |
1590 | 3810 | 9.243105 | ACACTAGTGCCAAAAACATTCTTATAT | 57.757 | 29.630 | 22.90 | 0.00 | 0.00 | 0.86 |
1591 | 3811 | 8.630054 | ACACTAGTGCCAAAAACATTCTTATA | 57.370 | 30.769 | 22.90 | 0.00 | 0.00 | 0.98 |
1592 | 3812 | 7.524717 | ACACTAGTGCCAAAAACATTCTTAT | 57.475 | 32.000 | 22.90 | 0.00 | 0.00 | 1.73 |
1593 | 3813 | 6.952773 | ACACTAGTGCCAAAAACATTCTTA | 57.047 | 33.333 | 22.90 | 0.00 | 0.00 | 2.10 |
1594 | 3814 | 5.852282 | ACACTAGTGCCAAAAACATTCTT | 57.148 | 34.783 | 22.90 | 0.00 | 0.00 | 2.52 |
1595 | 3815 | 6.062095 | ACTACACTAGTGCCAAAAACATTCT | 58.938 | 36.000 | 22.90 | 0.96 | 37.69 | 2.40 |
1596 | 3816 | 6.313744 | ACTACACTAGTGCCAAAAACATTC | 57.686 | 37.500 | 22.90 | 0.00 | 37.69 | 2.67 |
1626 | 3846 | 9.892130 | CCCTCTGTTCTAAAATATAAGAGTGTT | 57.108 | 33.333 | 0.00 | 0.00 | 0.00 | 3.32 |
1627 | 3847 | 9.268282 | TCCCTCTGTTCTAAAATATAAGAGTGT | 57.732 | 33.333 | 0.00 | 0.00 | 0.00 | 3.55 |
1628 | 3848 | 9.757227 | CTCCCTCTGTTCTAAAATATAAGAGTG | 57.243 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
1629 | 3849 | 9.495382 | ACTCCCTCTGTTCTAAAATATAAGAGT | 57.505 | 33.333 | 0.00 | 0.00 | 0.00 | 3.24 |
1632 | 3852 | 9.699703 | GCTACTCCCTCTGTTCTAAAATATAAG | 57.300 | 37.037 | 0.00 | 0.00 | 0.00 | 1.73 |
1633 | 3853 | 9.435570 | AGCTACTCCCTCTGTTCTAAAATATAA | 57.564 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
1634 | 3854 | 9.435570 | AAGCTACTCCCTCTGTTCTAAAATATA | 57.564 | 33.333 | 0.00 | 0.00 | 0.00 | 0.86 |
1635 | 3855 | 7.922699 | AGCTACTCCCTCTGTTCTAAAATAT | 57.077 | 36.000 | 0.00 | 0.00 | 0.00 | 1.28 |
1636 | 3856 | 7.735326 | AAGCTACTCCCTCTGTTCTAAAATA | 57.265 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1637 | 3857 | 6.628644 | AAGCTACTCCCTCTGTTCTAAAAT | 57.371 | 37.500 | 0.00 | 0.00 | 0.00 | 1.82 |
1638 | 3858 | 6.183361 | ACAAAGCTACTCCCTCTGTTCTAAAA | 60.183 | 38.462 | 0.00 | 0.00 | 0.00 | 1.52 |
1639 | 3859 | 5.307196 | ACAAAGCTACTCCCTCTGTTCTAAA | 59.693 | 40.000 | 0.00 | 0.00 | 0.00 | 1.85 |
1640 | 3860 | 4.838986 | ACAAAGCTACTCCCTCTGTTCTAA | 59.161 | 41.667 | 0.00 | 0.00 | 0.00 | 2.10 |
1641 | 3861 | 4.417437 | ACAAAGCTACTCCCTCTGTTCTA | 58.583 | 43.478 | 0.00 | 0.00 | 0.00 | 2.10 |
1642 | 3862 | 3.243724 | ACAAAGCTACTCCCTCTGTTCT | 58.756 | 45.455 | 0.00 | 0.00 | 0.00 | 3.01 |
1643 | 3863 | 3.686916 | ACAAAGCTACTCCCTCTGTTC | 57.313 | 47.619 | 0.00 | 0.00 | 0.00 | 3.18 |
1644 | 3864 | 5.491982 | CATTACAAAGCTACTCCCTCTGTT | 58.508 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
1645 | 3865 | 4.624125 | GCATTACAAAGCTACTCCCTCTGT | 60.624 | 45.833 | 0.00 | 0.00 | 0.00 | 3.41 |
1646 | 3866 | 3.873952 | GCATTACAAAGCTACTCCCTCTG | 59.126 | 47.826 | 0.00 | 0.00 | 0.00 | 3.35 |
1647 | 3867 | 3.519510 | TGCATTACAAAGCTACTCCCTCT | 59.480 | 43.478 | 0.00 | 0.00 | 0.00 | 3.69 |
1648 | 3868 | 3.873910 | TGCATTACAAAGCTACTCCCTC | 58.126 | 45.455 | 0.00 | 0.00 | 0.00 | 4.30 |
1649 | 3869 | 4.010349 | GTTGCATTACAAAGCTACTCCCT | 58.990 | 43.478 | 0.00 | 0.00 | 40.82 | 4.20 |
1650 | 3870 | 3.181510 | CGTTGCATTACAAAGCTACTCCC | 60.182 | 47.826 | 0.00 | 0.00 | 40.82 | 4.30 |
1651 | 3871 | 3.181510 | CCGTTGCATTACAAAGCTACTCC | 60.182 | 47.826 | 0.00 | 0.00 | 40.82 | 3.85 |
1652 | 3872 | 3.435671 | ACCGTTGCATTACAAAGCTACTC | 59.564 | 43.478 | 0.00 | 0.00 | 40.82 | 2.59 |
1653 | 3873 | 3.408634 | ACCGTTGCATTACAAAGCTACT | 58.591 | 40.909 | 0.00 | 0.00 | 40.82 | 2.57 |
1654 | 3874 | 3.824414 | ACCGTTGCATTACAAAGCTAC | 57.176 | 42.857 | 0.00 | 0.00 | 40.82 | 3.58 |
1655 | 3875 | 5.163703 | CCATAACCGTTGCATTACAAAGCTA | 60.164 | 40.000 | 0.00 | 0.00 | 40.82 | 3.32 |
1656 | 3876 | 4.380444 | CCATAACCGTTGCATTACAAAGCT | 60.380 | 41.667 | 0.00 | 0.00 | 40.82 | 3.74 |
1657 | 3877 | 3.857093 | CCATAACCGTTGCATTACAAAGC | 59.143 | 43.478 | 0.00 | 0.00 | 40.82 | 3.51 |
1658 | 3878 | 5.054390 | ACCATAACCGTTGCATTACAAAG | 57.946 | 39.130 | 0.00 | 0.00 | 40.82 | 2.77 |
1659 | 3879 | 6.570672 | TTACCATAACCGTTGCATTACAAA | 57.429 | 33.333 | 0.00 | 0.00 | 40.82 | 2.83 |
1660 | 3880 | 6.374613 | TCATTACCATAACCGTTGCATTACAA | 59.625 | 34.615 | 0.00 | 0.00 | 35.33 | 2.41 |
1661 | 3881 | 5.880887 | TCATTACCATAACCGTTGCATTACA | 59.119 | 36.000 | 0.00 | 0.00 | 0.00 | 2.41 |
1662 | 3882 | 6.366315 | TCATTACCATAACCGTTGCATTAC | 57.634 | 37.500 | 0.00 | 0.00 | 0.00 | 1.89 |
1663 | 3883 | 7.575414 | AATCATTACCATAACCGTTGCATTA | 57.425 | 32.000 | 0.00 | 0.00 | 0.00 | 1.90 |
1664 | 3884 | 6.463995 | AATCATTACCATAACCGTTGCATT | 57.536 | 33.333 | 0.00 | 0.00 | 0.00 | 3.56 |
1665 | 3885 | 6.096141 | TCAAATCATTACCATAACCGTTGCAT | 59.904 | 34.615 | 0.00 | 0.00 | 0.00 | 3.96 |
1666 | 3886 | 5.416013 | TCAAATCATTACCATAACCGTTGCA | 59.584 | 36.000 | 0.00 | 0.00 | 0.00 | 4.08 |
1667 | 3887 | 5.885881 | TCAAATCATTACCATAACCGTTGC | 58.114 | 37.500 | 0.00 | 0.00 | 0.00 | 4.17 |
1668 | 3888 | 8.749841 | TTTTCAAATCATTACCATAACCGTTG | 57.250 | 30.769 | 0.00 | 0.00 | 0.00 | 4.10 |
1701 | 3921 | 4.356405 | CCCCCTCTTTTGCTCAATTTTT | 57.644 | 40.909 | 0.00 | 0.00 | 0.00 | 1.94 |
1726 | 3946 | 2.502538 | TCGTTAATGAAATCGGAGGGGT | 59.497 | 45.455 | 0.00 | 0.00 | 0.00 | 4.95 |
1753 | 3973 | 3.621794 | GTTGAACTTGACACAGTGCATC | 58.378 | 45.455 | 0.00 | 0.00 | 31.90 | 3.91 |
1760 | 3981 | 2.869801 | GTGGATCGTTGAACTTGACACA | 59.130 | 45.455 | 0.00 | 0.00 | 0.00 | 3.72 |
1763 | 3984 | 2.223377 | GTGGTGGATCGTTGAACTTGAC | 59.777 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1764 | 3985 | 2.489971 | GTGGTGGATCGTTGAACTTGA | 58.510 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
1774 | 3995 | 1.341531 | GATCTAGGTGGTGGTGGATCG | 59.658 | 57.143 | 0.00 | 0.00 | 0.00 | 3.69 |
1775 | 3996 | 2.683768 | AGATCTAGGTGGTGGTGGATC | 58.316 | 52.381 | 0.00 | 0.00 | 0.00 | 3.36 |
1777 | 3998 | 3.769189 | TTAGATCTAGGTGGTGGTGGA | 57.231 | 47.619 | 2.02 | 0.00 | 0.00 | 4.02 |
1783 | 4004 | 5.997384 | AGTTTCGTTTAGATCTAGGTGGT | 57.003 | 39.130 | 2.02 | 0.00 | 0.00 | 4.16 |
1784 | 4005 | 8.033626 | AGTTTAGTTTCGTTTAGATCTAGGTGG | 58.966 | 37.037 | 2.02 | 0.00 | 0.00 | 4.61 |
1785 | 4006 | 8.861101 | CAGTTTAGTTTCGTTTAGATCTAGGTG | 58.139 | 37.037 | 2.02 | 0.00 | 0.00 | 4.00 |
1786 | 4007 | 7.544915 | GCAGTTTAGTTTCGTTTAGATCTAGGT | 59.455 | 37.037 | 2.02 | 0.00 | 0.00 | 3.08 |
1799 | 4020 | 3.678548 | GGGTACTCTGCAGTTTAGTTTCG | 59.321 | 47.826 | 14.67 | 0.00 | 33.62 | 3.46 |
1802 | 4023 | 4.699925 | TTGGGTACTCTGCAGTTTAGTT | 57.300 | 40.909 | 14.67 | 0.00 | 33.62 | 2.24 |
1803 | 4024 | 4.347000 | TCTTTGGGTACTCTGCAGTTTAGT | 59.653 | 41.667 | 14.67 | 12.53 | 33.62 | 2.24 |
1805 | 4026 | 4.967084 | TCTTTGGGTACTCTGCAGTTTA | 57.033 | 40.909 | 14.67 | 3.21 | 33.62 | 2.01 |
1811 | 4032 | 1.813178 | GCCTTTCTTTGGGTACTCTGC | 59.187 | 52.381 | 0.00 | 0.00 | 0.00 | 4.26 |
1816 | 4037 | 2.225727 | CGAACTGCCTTTCTTTGGGTAC | 59.774 | 50.000 | 0.00 | 0.00 | 0.00 | 3.34 |
1821 | 4042 | 2.490328 | TTGCGAACTGCCTTTCTTTG | 57.510 | 45.000 | 0.00 | 0.00 | 45.60 | 2.77 |
1829 | 4051 | 1.009829 | CTGGTCTATTGCGAACTGCC | 58.990 | 55.000 | 0.00 | 0.00 | 45.60 | 4.85 |
1841 | 4096 | 4.150897 | ACTTGTTTTGCTGTCTGGTCTA | 57.849 | 40.909 | 0.00 | 0.00 | 0.00 | 2.59 |
1862 | 4117 | 2.294791 | CGTGTGGCCCTTATGTTGAAAA | 59.705 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
1863 | 4118 | 1.883275 | CGTGTGGCCCTTATGTTGAAA | 59.117 | 47.619 | 0.00 | 0.00 | 0.00 | 2.69 |
1864 | 4119 | 1.529226 | CGTGTGGCCCTTATGTTGAA | 58.471 | 50.000 | 0.00 | 0.00 | 0.00 | 2.69 |
1866 | 4121 | 1.506262 | GCGTGTGGCCCTTATGTTG | 59.494 | 57.895 | 0.00 | 0.00 | 34.80 | 3.33 |
1867 | 4122 | 2.038269 | CGCGTGTGGCCCTTATGTT | 61.038 | 57.895 | 0.00 | 0.00 | 38.94 | 2.71 |
1868 | 4123 | 2.435938 | CGCGTGTGGCCCTTATGT | 60.436 | 61.111 | 0.00 | 0.00 | 38.94 | 2.29 |
1869 | 4124 | 3.202001 | CCGCGTGTGGCCCTTATG | 61.202 | 66.667 | 4.92 | 0.00 | 38.94 | 1.90 |
1871 | 4126 | 4.382320 | GTCCGCGTGTGGCCCTTA | 62.382 | 66.667 | 4.92 | 0.00 | 38.94 | 2.69 |
1882 | 4157 | 1.394917 | CCTCTTGATCTTTTGTCCGCG | 59.605 | 52.381 | 0.00 | 0.00 | 0.00 | 6.46 |
1887 | 4162 | 1.168714 | GCGGCCTCTTGATCTTTTGT | 58.831 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
1903 | 4178 | 2.818714 | CTTCTGCTGAGGCTGCGG | 60.819 | 66.667 | 0.00 | 0.00 | 39.59 | 5.69 |
1920 | 4195 | 9.323985 | ACATCATCTATCTTTAGTTTCTCTTGC | 57.676 | 33.333 | 0.00 | 0.00 | 0.00 | 4.01 |
1924 | 4200 | 8.138712 | ACCGACATCATCTATCTTTAGTTTCTC | 58.861 | 37.037 | 0.00 | 0.00 | 0.00 | 2.87 |
1936 | 4214 | 5.048364 | GCTGAACTAGACCGACATCATCTAT | 60.048 | 44.000 | 0.00 | 0.00 | 0.00 | 1.98 |
1941 | 4219 | 1.476891 | GGCTGAACTAGACCGACATCA | 59.523 | 52.381 | 0.00 | 0.00 | 0.00 | 3.07 |
1944 | 4222 | 1.880894 | CGGCTGAACTAGACCGACA | 59.119 | 57.895 | 0.00 | 0.00 | 43.92 | 4.35 |
1950 | 4228 | 1.079819 | GTGCTGCGGCTGAACTAGA | 60.080 | 57.895 | 20.27 | 0.00 | 39.59 | 2.43 |
2020 | 4303 | 2.595558 | GCTTGGGGCAAGGCTAATT | 58.404 | 52.632 | 0.00 | 0.00 | 41.31 | 1.40 |
2035 | 4318 | 4.520492 | CCAGAACAAAACCTACTGATGCTT | 59.480 | 41.667 | 0.00 | 0.00 | 0.00 | 3.91 |
2182 | 4466 | 4.513318 | GCTAGTTGGGATTTCTGCTATCAC | 59.487 | 45.833 | 0.00 | 0.00 | 0.00 | 3.06 |
2193 | 4477 | 5.763876 | AAAGACTAGTGCTAGTTGGGATT | 57.236 | 39.130 | 12.51 | 3.02 | 45.63 | 3.01 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.