Multiple sequence alignment - TraesCS1D01G121300
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 | TraesCS1D01G121300 | chr1D | 100.000 | 3566 | 0 | 0 | 1 | 3566 | 121236225 | 121239790 | 0.000000e+00 | 6586.0 |
1 | TraesCS1D01G121300 | chr1D | 78.879 | 232 | 39 | 9 | 3301 | 3527 | 487198135 | 487197909 | 7.980000e-32 | 148.0 |
2 | TraesCS1D01G121300 | chr1B | 95.447 | 2416 | 76 | 15 | 412 | 2798 | 184193728 | 184196138 | 0.000000e+00 | 3821.0 |
3 | TraesCS1D01G121300 | chr1B | 91.429 | 140 | 11 | 1 | 65 | 203 | 184193336 | 184193475 | 1.310000e-44 | 191.0 |
4 | TraesCS1D01G121300 | chr1B | 95.789 | 95 | 4 | 0 | 607 | 701 | 376074230 | 376074324 | 1.710000e-33 | 154.0 |
5 | TraesCS1D01G121300 | chr1B | 92.784 | 97 | 7 | 0 | 318 | 414 | 184193564 | 184193660 | 1.330000e-29 | 141.0 |
6 | TraesCS1D01G121300 | chr1B | 89.231 | 65 | 6 | 1 | 108 | 171 | 211317046 | 211316982 | 2.950000e-11 | 80.5 |
7 | TraesCS1D01G121300 | chr1B | 90.323 | 62 | 5 | 1 | 110 | 171 | 470989950 | 470989890 | 2.950000e-11 | 80.5 |
8 | TraesCS1D01G121300 | chr1A | 93.707 | 2495 | 92 | 16 | 446 | 2913 | 132795288 | 132797744 | 0.000000e+00 | 3677.0 |
9 | TraesCS1D01G121300 | chr1A | 86.517 | 178 | 11 | 7 | 72 | 245 | 132795113 | 132795281 | 2.190000e-42 | 183.0 |
10 | TraesCS1D01G121300 | chr1A | 95.745 | 94 | 2 | 2 | 611 | 704 | 490796265 | 490796174 | 2.220000e-32 | 150.0 |
11 | TraesCS1D01G121300 | chr1A | 95.699 | 93 | 2 | 2 | 619 | 710 | 256826579 | 256826488 | 7.980000e-32 | 148.0 |
12 | TraesCS1D01G121300 | chr1A | 92.857 | 98 | 7 | 0 | 607 | 704 | 349361914 | 349362011 | 3.710000e-30 | 143.0 |
13 | TraesCS1D01G121300 | chr1A | 96.226 | 53 | 1 | 1 | 449 | 500 | 132795228 | 132795280 | 6.340000e-13 | 86.1 |
14 | TraesCS1D01G121300 | chr1A | 97.727 | 44 | 1 | 0 | 3523 | 3566 | 132797746 | 132797789 | 3.820000e-10 | 76.8 |
15 | TraesCS1D01G121300 | chr6A | 83.555 | 602 | 62 | 25 | 2930 | 3511 | 272121783 | 272122367 | 2.440000e-146 | 529.0 |
16 | TraesCS1D01G121300 | chr6A | 86.408 | 206 | 16 | 3 | 2726 | 2931 | 272121522 | 272121715 | 7.750000e-52 | 215.0 |
17 | TraesCS1D01G121300 | chr6A | 90.361 | 83 | 5 | 2 | 92 | 172 | 327429216 | 327429297 | 4.870000e-19 | 106.0 |
18 | TraesCS1D01G121300 | chr6A | 85.526 | 76 | 9 | 2 | 173 | 246 | 485349470 | 485349395 | 1.060000e-10 | 78.7 |
19 | TraesCS1D01G121300 | chr6D | 84.074 | 540 | 55 | 16 | 2930 | 3456 | 209917514 | 209918035 | 3.200000e-135 | 492.0 |
20 | TraesCS1D01G121300 | chr6D | 85.644 | 202 | 17 | 3 | 2726 | 2927 | 209917253 | 209917442 | 6.040000e-48 | 202.0 |
21 | TraesCS1D01G121300 | chr6B | 82.687 | 387 | 35 | 16 | 2928 | 3309 | 399738123 | 399738482 | 7.430000e-82 | 315.0 |
22 | TraesCS1D01G121300 | chr6B | 85.507 | 207 | 16 | 8 | 2725 | 2931 | 399737865 | 399738057 | 1.680000e-48 | 204.0 |
23 | TraesCS1D01G121300 | chrUn | 92.079 | 202 | 15 | 1 | 242 | 443 | 46202503 | 46202303 | 2.100000e-72 | 283.0 |
24 | TraesCS1D01G121300 | chr5D | 90.404 | 198 | 16 | 3 | 254 | 448 | 287300588 | 287300391 | 1.270000e-64 | 257.0 |
25 | TraesCS1D01G121300 | chr5D | 81.860 | 215 | 35 | 4 | 3312 | 3522 | 540230779 | 540230565 | 1.020000e-40 | 178.0 |
26 | TraesCS1D01G121300 | chr4A | 89.447 | 199 | 20 | 1 | 251 | 448 | 229496234 | 229496432 | 2.130000e-62 | 250.0 |
27 | TraesCS1D01G121300 | chr4A | 81.132 | 212 | 33 | 6 | 3318 | 3524 | 321899366 | 321899575 | 2.850000e-36 | 163.0 |
28 | TraesCS1D01G121300 | chr4A | 80.365 | 219 | 39 | 4 | 3309 | 3524 | 368567342 | 368567559 | 2.850000e-36 | 163.0 |
29 | TraesCS1D01G121300 | chr4A | 91.000 | 100 | 9 | 0 | 254 | 353 | 684658673 | 684658574 | 6.210000e-28 | 135.0 |
30 | TraesCS1D01G121300 | chr2D | 83.784 | 185 | 27 | 2 | 3341 | 3522 | 332335317 | 332335133 | 4.730000e-39 | 172.0 |
31 | TraesCS1D01G121300 | chr2D | 80.569 | 211 | 30 | 10 | 3328 | 3531 | 618309908 | 618309702 | 6.170000e-33 | 152.0 |
32 | TraesCS1D01G121300 | chr3B | 83.243 | 185 | 28 | 2 | 3341 | 3522 | 812616894 | 812616710 | 2.200000e-37 | 167.0 |
33 | TraesCS1D01G121300 | chr3B | 87.692 | 65 | 8 | 0 | 378 | 442 | 794989120 | 794989056 | 3.820000e-10 | 76.8 |
34 | TraesCS1D01G121300 | chr4D | 96.739 | 92 | 2 | 1 | 614 | 704 | 6267158 | 6267067 | 6.170000e-33 | 152.0 |
35 | TraesCS1D01G121300 | chr2A | 95.789 | 95 | 2 | 2 | 611 | 704 | 42482112 | 42482205 | 6.170000e-33 | 152.0 |
36 | TraesCS1D01G121300 | chr4B | 93.939 | 99 | 3 | 3 | 608 | 704 | 631578851 | 631578948 | 2.870000e-31 | 147.0 |
37 | TraesCS1D01G121300 | chr2B | 77.586 | 116 | 22 | 3 | 2724 | 2837 | 69202627 | 69202514 | 2.300000e-07 | 67.6 |
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 | TraesCS1D01G121300 | chr1D | 121236225 | 121239790 | 3565 | False | 6586.000000 | 6586 | 100.00000 | 1 | 3566 | 1 | chr1D.!!$F1 | 3565 |
1 | TraesCS1D01G121300 | chr1B | 184193336 | 184196138 | 2802 | False | 1384.333333 | 3821 | 93.22000 | 65 | 2798 | 3 | chr1B.!!$F2 | 2733 |
2 | TraesCS1D01G121300 | chr1A | 132795113 | 132797789 | 2676 | False | 1005.725000 | 3677 | 93.54425 | 72 | 3566 | 4 | chr1A.!!$F2 | 3494 |
3 | TraesCS1D01G121300 | chr6A | 272121522 | 272122367 | 845 | False | 372.000000 | 529 | 84.98150 | 2726 | 3511 | 2 | chr6A.!!$F2 | 785 |
4 | TraesCS1D01G121300 | chr6D | 209917253 | 209918035 | 782 | False | 347.000000 | 492 | 84.85900 | 2726 | 3456 | 2 | chr6D.!!$F1 | 730 |
5 | TraesCS1D01G121300 | chr6B | 399737865 | 399738482 | 617 | False | 259.500000 | 315 | 84.09700 | 2725 | 3309 | 2 | chr6B.!!$F1 | 584 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
908 | 1003 | 0.458543 | CGTGAATCTCACCACTCCCG | 60.459 | 60.000 | 1.34 | 0.0 | 44.2 | 5.14 | F |
1615 | 1717 | 2.691771 | GCTGACCTCGACTCGCTGA | 61.692 | 63.158 | 0.00 | 0.0 | 0.0 | 4.26 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2420 | 2522 | 1.447838 | GCGGCGATCTTGAGGTTGA | 60.448 | 57.895 | 12.98 | 0.0 | 0.00 | 3.18 | R |
3262 | 3469 | 0.100325 | TGGCTGTTTGCAACAACTCG | 59.900 | 50.000 | 0.00 | 0.0 | 45.15 | 4.18 | 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 |
---|---|---|---|---|---|---|---|---|---|
29 | 30 | 9.929180 | ATTCAAAAGCCTAAAATCTCTTAAACC | 57.071 | 29.630 | 0.00 | 0.00 | 0.00 | 3.27 |
30 | 31 | 8.472007 | TCAAAAGCCTAAAATCTCTTAAACCA | 57.528 | 30.769 | 0.00 | 0.00 | 0.00 | 3.67 |
31 | 32 | 8.919145 | TCAAAAGCCTAAAATCTCTTAAACCAA | 58.081 | 29.630 | 0.00 | 0.00 | 0.00 | 3.67 |
32 | 33 | 9.710900 | CAAAAGCCTAAAATCTCTTAAACCAAT | 57.289 | 29.630 | 0.00 | 0.00 | 0.00 | 3.16 |
34 | 35 | 9.929180 | AAAGCCTAAAATCTCTTAAACCAATTC | 57.071 | 29.630 | 0.00 | 0.00 | 0.00 | 2.17 |
35 | 36 | 8.067751 | AGCCTAAAATCTCTTAAACCAATTCC | 57.932 | 34.615 | 0.00 | 0.00 | 0.00 | 3.01 |
36 | 37 | 7.895962 | AGCCTAAAATCTCTTAAACCAATTCCT | 59.104 | 33.333 | 0.00 | 0.00 | 0.00 | 3.36 |
37 | 38 | 8.191446 | GCCTAAAATCTCTTAAACCAATTCCTC | 58.809 | 37.037 | 0.00 | 0.00 | 0.00 | 3.71 |
38 | 39 | 8.687242 | CCTAAAATCTCTTAAACCAATTCCTCC | 58.313 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
39 | 40 | 7.482169 | AAAATCTCTTAAACCAATTCCTCCC | 57.518 | 36.000 | 0.00 | 0.00 | 0.00 | 4.30 |
40 | 41 | 5.796502 | ATCTCTTAAACCAATTCCTCCCA | 57.203 | 39.130 | 0.00 | 0.00 | 0.00 | 4.37 |
41 | 42 | 5.796502 | TCTCTTAAACCAATTCCTCCCAT | 57.203 | 39.130 | 0.00 | 0.00 | 0.00 | 4.00 |
42 | 43 | 6.901615 | TCTCTTAAACCAATTCCTCCCATA | 57.098 | 37.500 | 0.00 | 0.00 | 0.00 | 2.74 |
43 | 44 | 7.465900 | TCTCTTAAACCAATTCCTCCCATAT | 57.534 | 36.000 | 0.00 | 0.00 | 0.00 | 1.78 |
44 | 45 | 7.882755 | TCTCTTAAACCAATTCCTCCCATATT | 58.117 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
45 | 46 | 8.343787 | TCTCTTAAACCAATTCCTCCCATATTT | 58.656 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
46 | 47 | 8.909423 | TCTTAAACCAATTCCTCCCATATTTT | 57.091 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
47 | 48 | 9.332713 | TCTTAAACCAATTCCTCCCATATTTTT | 57.667 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
81 | 82 | 1.777878 | TGGTCCCAAGCTTAACTTCCA | 59.222 | 47.619 | 0.00 | 2.06 | 36.04 | 3.53 |
90 | 91 | 7.939039 | TCCCAAGCTTAACTTCCAATCATATAG | 59.061 | 37.037 | 0.00 | 0.00 | 36.04 | 1.31 |
171 | 173 | 3.505386 | AGCACACCCCATATTTCAACAA | 58.495 | 40.909 | 0.00 | 0.00 | 0.00 | 2.83 |
176 | 178 | 4.160252 | ACACCCCATATTTCAACAAGATGC | 59.840 | 41.667 | 0.00 | 0.00 | 0.00 | 3.91 |
212 | 214 | 3.449632 | ACGTGTGGGTTTGTAATTTTGC | 58.550 | 40.909 | 0.00 | 0.00 | 0.00 | 3.68 |
229 | 233 | 9.090692 | GTAATTTTGCTAAGAATGAATGCACAT | 57.909 | 29.630 | 0.00 | 0.00 | 33.13 | 3.21 |
285 | 289 | 7.989416 | ACGGGAAGACAAACTTTATTAATCA | 57.011 | 32.000 | 0.00 | 0.00 | 39.13 | 2.57 |
286 | 290 | 8.575649 | ACGGGAAGACAAACTTTATTAATCAT | 57.424 | 30.769 | 0.00 | 0.00 | 39.13 | 2.45 |
287 | 291 | 9.675464 | ACGGGAAGACAAACTTTATTAATCATA | 57.325 | 29.630 | 0.00 | 0.00 | 39.13 | 2.15 |
304 | 308 | 8.771920 | TTAATCATATGACCGTTACATCATCC | 57.228 | 34.615 | 7.78 | 0.00 | 36.87 | 3.51 |
305 | 309 | 5.799827 | TCATATGACCGTTACATCATCCA | 57.200 | 39.130 | 0.00 | 0.00 | 36.87 | 3.41 |
306 | 310 | 5.538118 | TCATATGACCGTTACATCATCCAC | 58.462 | 41.667 | 0.00 | 0.00 | 36.87 | 4.02 |
307 | 311 | 5.304357 | TCATATGACCGTTACATCATCCACT | 59.696 | 40.000 | 0.00 | 0.00 | 36.87 | 4.00 |
308 | 312 | 6.492087 | TCATATGACCGTTACATCATCCACTA | 59.508 | 38.462 | 0.00 | 0.00 | 36.87 | 2.74 |
313 | 317 | 4.222145 | ACCGTTACATCATCCACTAACAGT | 59.778 | 41.667 | 0.00 | 0.00 | 0.00 | 3.55 |
314 | 318 | 5.175859 | CCGTTACATCATCCACTAACAGTT | 58.824 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
316 | 320 | 6.148811 | CCGTTACATCATCCACTAACAGTTTT | 59.851 | 38.462 | 0.00 | 0.00 | 0.00 | 2.43 |
327 | 331 | 6.987992 | TCCACTAACAGTTTTACGATGAACTT | 59.012 | 34.615 | 0.00 | 0.00 | 34.04 | 2.66 |
336 | 340 | 1.521681 | CGATGAACTTCGGAGGGGC | 60.522 | 63.158 | 0.00 | 0.00 | 35.50 | 5.80 |
342 | 346 | 0.625849 | AACTTCGGAGGGGCATCAAT | 59.374 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
353 | 357 | 4.106324 | AGGGGCATCAATCCAAAAAGATT | 58.894 | 39.130 | 0.00 | 0.00 | 36.92 | 2.40 |
382 | 386 | 2.307768 | TCACGTCCCCATCTAGCTAAG | 58.692 | 52.381 | 0.00 | 0.00 | 0.00 | 2.18 |
407 | 411 | 7.118971 | AGTCATGAGCTACAAAATTTGACTCTC | 59.881 | 37.037 | 13.19 | 13.68 | 38.60 | 3.20 |
409 | 413 | 8.314021 | TCATGAGCTACAAAATTTGACTCTCTA | 58.686 | 33.333 | 13.19 | 6.60 | 33.26 | 2.43 |
414 | 418 | 9.944376 | AGCTACAAAATTTGACTCTCTAATACA | 57.056 | 29.630 | 13.19 | 0.00 | 0.00 | 2.29 |
418 | 422 | 9.846248 | ACAAAATTTGACTCTCTAATACAATGC | 57.154 | 29.630 | 13.19 | 0.00 | 0.00 | 3.56 |
422 | 426 | 9.453572 | AATTTGACTCTCTAATACAATGCTCAA | 57.546 | 29.630 | 0.00 | 0.00 | 0.00 | 3.02 |
423 | 427 | 7.834068 | TTGACTCTCTAATACAATGCTCAAC | 57.166 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
424 | 428 | 6.935167 | TGACTCTCTAATACAATGCTCAACA | 58.065 | 36.000 | 0.00 | 0.00 | 0.00 | 3.33 |
430 | 503 | 6.701340 | TCTAATACAATGCTCAACAGTCACT | 58.299 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
433 | 506 | 4.558538 | ACAATGCTCAACAGTCACTTTC | 57.441 | 40.909 | 0.00 | 0.00 | 0.00 | 2.62 |
458 | 531 | 6.492087 | CCCAAAATCTAGAAAGTGTGGGTTTA | 59.508 | 38.462 | 16.61 | 0.00 | 39.74 | 2.01 |
868 | 963 | 1.137675 | TCCATCTCACATCAGCCGAAG | 59.862 | 52.381 | 0.00 | 0.00 | 0.00 | 3.79 |
889 | 984 | 2.040544 | CCAGGCCCACACAATCGTC | 61.041 | 63.158 | 0.00 | 0.00 | 0.00 | 4.20 |
908 | 1003 | 0.458543 | CGTGAATCTCACCACTCCCG | 60.459 | 60.000 | 1.34 | 0.00 | 44.20 | 5.14 |
939 | 1038 | 6.941218 | GTAACAAGTGCCAGTTACTACTAC | 57.059 | 41.667 | 7.90 | 0.00 | 44.04 | 2.73 |
941 | 1040 | 5.135508 | ACAAGTGCCAGTTACTACTACTG | 57.864 | 43.478 | 0.00 | 0.00 | 42.06 | 2.74 |
1062 | 1164 | 2.841988 | GAGATCCTCCTGGCCGCT | 60.842 | 66.667 | 0.00 | 0.00 | 0.00 | 5.52 |
1504 | 1606 | 4.704833 | GGCTCCTGCTGCCGTTCA | 62.705 | 66.667 | 0.00 | 0.00 | 41.03 | 3.18 |
1615 | 1717 | 2.691771 | GCTGACCTCGACTCGCTGA | 61.692 | 63.158 | 0.00 | 0.00 | 0.00 | 4.26 |
2420 | 2522 | 2.988839 | GCAAGGACCTGGGGCTCAT | 61.989 | 63.158 | 0.00 | 0.00 | 0.00 | 2.90 |
2542 | 2644 | 0.733150 | GAACGGCCTCATGGTTAAGC | 59.267 | 55.000 | 0.00 | 0.00 | 35.27 | 3.09 |
2556 | 2658 | 3.650942 | TGGTTAAGCTCAAGAGAAGGGAA | 59.349 | 43.478 | 6.19 | 0.00 | 0.00 | 3.97 |
2558 | 2660 | 4.263112 | GGTTAAGCTCAAGAGAAGGGAAGT | 60.263 | 45.833 | 0.32 | 0.00 | 0.00 | 3.01 |
2580 | 2682 | 5.357314 | AGTGGCTTGATGAAGATGAATGAAG | 59.643 | 40.000 | 0.00 | 0.00 | 0.00 | 3.02 |
2593 | 2695 | 3.738982 | TGAATGAAGTCAGGCTTTTCGA | 58.261 | 40.909 | 0.00 | 0.00 | 37.59 | 3.71 |
2705 | 2807 | 8.593492 | TGTTTGTCGATCTGGATTTATCATAG | 57.407 | 34.615 | 0.00 | 0.00 | 0.00 | 2.23 |
2981 | 3176 | 1.927174 | GCTCAGCAACACGGTGTATAG | 59.073 | 52.381 | 15.11 | 8.87 | 43.83 | 1.31 |
2982 | 3177 | 2.674177 | GCTCAGCAACACGGTGTATAGT | 60.674 | 50.000 | 15.11 | 0.00 | 43.83 | 2.12 |
2983 | 3178 | 3.428452 | GCTCAGCAACACGGTGTATAGTA | 60.428 | 47.826 | 15.11 | 0.08 | 43.83 | 1.82 |
2984 | 3179 | 4.352039 | CTCAGCAACACGGTGTATAGTAG | 58.648 | 47.826 | 15.11 | 6.36 | 43.83 | 2.57 |
3003 | 3198 | 1.718757 | GGCGTCTTGATCACCATGGC | 61.719 | 60.000 | 13.04 | 0.00 | 0.00 | 4.40 |
3004 | 3199 | 1.718757 | GCGTCTTGATCACCATGGCC | 61.719 | 60.000 | 13.04 | 0.00 | 0.00 | 5.36 |
3068 | 3263 | 5.300286 | GGTCACTTCCTTCCAATAATCCATG | 59.700 | 44.000 | 0.00 | 0.00 | 0.00 | 3.66 |
3073 | 3271 | 6.389869 | ACTTCCTTCCAATAATCCATGGTCTA | 59.610 | 38.462 | 12.58 | 4.81 | 37.94 | 2.59 |
3096 | 3294 | 1.022735 | CTTAGAGTAGCTTCCGCCGA | 58.977 | 55.000 | 0.00 | 0.00 | 36.60 | 5.54 |
3098 | 3296 | 1.434622 | TAGAGTAGCTTCCGCCGACG | 61.435 | 60.000 | 0.00 | 0.00 | 36.60 | 5.12 |
3099 | 3297 | 3.048941 | GAGTAGCTTCCGCCGACGT | 62.049 | 63.158 | 0.00 | 0.00 | 37.70 | 4.34 |
3100 | 3298 | 2.879462 | GTAGCTTCCGCCGACGTG | 60.879 | 66.667 | 0.00 | 0.00 | 37.70 | 4.49 |
3119 | 3317 | 1.679898 | GTGGCCAGGCAAGAGTACT | 59.320 | 57.895 | 15.19 | 0.00 | 0.00 | 2.73 |
3126 | 3324 | 0.461961 | AGGCAAGAGTACTGATCGGC | 59.538 | 55.000 | 0.00 | 0.00 | 0.00 | 5.54 |
3129 | 3327 | 0.179137 | CAAGAGTACTGATCGGCGCA | 60.179 | 55.000 | 10.83 | 0.00 | 0.00 | 6.09 |
3130 | 3328 | 0.101399 | AAGAGTACTGATCGGCGCAG | 59.899 | 55.000 | 10.83 | 5.07 | 39.26 | 5.18 |
3196 | 3403 | 2.466846 | GAGAAGAAGAAGAGGGAGGCT | 58.533 | 52.381 | 0.00 | 0.00 | 0.00 | 4.58 |
3203 | 3410 | 1.203364 | AGAAGAGGGAGGCTCCTTTGA | 60.203 | 52.381 | 31.39 | 0.00 | 37.25 | 2.69 |
3213 | 3420 | 1.005340 | GCTCCTTTGATCTCGCTGTG | 58.995 | 55.000 | 0.00 | 0.00 | 0.00 | 3.66 |
3217 | 3424 | 0.994995 | CTTTGATCTCGCTGTGGTCG | 59.005 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
3290 | 3497 | 1.536766 | TGCAAACAGCCATCGAAGAAG | 59.463 | 47.619 | 0.00 | 0.00 | 42.00 | 2.85 |
3292 | 3499 | 2.421424 | GCAAACAGCCATCGAAGAAGAT | 59.579 | 45.455 | 0.00 | 0.00 | 37.41 | 2.40 |
3295 | 3502 | 5.391950 | GCAAACAGCCATCGAAGAAGATAAA | 60.392 | 40.000 | 0.00 | 0.00 | 37.41 | 1.40 |
3296 | 3503 | 5.803020 | AACAGCCATCGAAGAAGATAAAC | 57.197 | 39.130 | 0.00 | 0.00 | 43.58 | 2.01 |
3297 | 3504 | 3.865745 | ACAGCCATCGAAGAAGATAAACG | 59.134 | 43.478 | 0.00 | 0.00 | 43.58 | 3.60 |
3299 | 3506 | 3.865745 | AGCCATCGAAGAAGATAAACGTG | 59.134 | 43.478 | 0.00 | 0.00 | 43.58 | 4.49 |
3316 | 3523 | 2.131067 | TGGACGTGTGACCAGCTCA | 61.131 | 57.895 | 0.00 | 0.00 | 34.93 | 4.26 |
3317 | 3524 | 1.293498 | GGACGTGTGACCAGCTCAT | 59.707 | 57.895 | 0.00 | 0.00 | 0.00 | 2.90 |
3397 | 3607 | 8.971073 | CAGAGAATACTTTGGTTTTGGGAATAT | 58.029 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
3406 | 3616 | 9.423061 | CTTTGGTTTTGGGAATATTCTAGTTTG | 57.577 | 33.333 | 14.95 | 0.00 | 0.00 | 2.93 |
3517 | 3729 | 9.474920 | TTTGAAAATACTTTGCTATCAAACAGG | 57.525 | 29.630 | 0.00 | 0.00 | 37.28 | 4.00 |
3518 | 3730 | 7.601856 | TGAAAATACTTTGCTATCAAACAGGG | 58.398 | 34.615 | 0.00 | 0.00 | 37.28 | 4.45 |
3519 | 3731 | 5.582689 | AATACTTTGCTATCAAACAGGGC | 57.417 | 39.130 | 0.00 | 0.00 | 37.28 | 5.19 |
3520 | 3732 | 2.171003 | ACTTTGCTATCAAACAGGGCC | 58.829 | 47.619 | 0.00 | 0.00 | 37.28 | 5.80 |
3521 | 3733 | 2.225117 | ACTTTGCTATCAAACAGGGCCT | 60.225 | 45.455 | 0.00 | 0.00 | 37.28 | 5.19 |
3533 | 3745 | 4.524802 | AACAGGGCCTAATTGATGATGA | 57.475 | 40.909 | 5.28 | 0.00 | 0.00 | 2.92 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
3 | 4 | 9.929180 | GGTTTAAGAGATTTTAGGCTTTTGAAT | 57.071 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
4 | 5 | 8.919145 | TGGTTTAAGAGATTTTAGGCTTTTGAA | 58.081 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
5 | 6 | 8.472007 | TGGTTTAAGAGATTTTAGGCTTTTGA | 57.528 | 30.769 | 0.00 | 0.00 | 0.00 | 2.69 |
6 | 7 | 9.710900 | ATTGGTTTAAGAGATTTTAGGCTTTTG | 57.289 | 29.630 | 0.00 | 0.00 | 0.00 | 2.44 |
8 | 9 | 9.929180 | GAATTGGTTTAAGAGATTTTAGGCTTT | 57.071 | 29.630 | 0.00 | 0.00 | 0.00 | 3.51 |
9 | 10 | 8.531982 | GGAATTGGTTTAAGAGATTTTAGGCTT | 58.468 | 33.333 | 0.00 | 0.00 | 0.00 | 4.35 |
10 | 11 | 7.895962 | AGGAATTGGTTTAAGAGATTTTAGGCT | 59.104 | 33.333 | 0.00 | 0.00 | 0.00 | 4.58 |
11 | 12 | 8.067751 | AGGAATTGGTTTAAGAGATTTTAGGC | 57.932 | 34.615 | 0.00 | 0.00 | 0.00 | 3.93 |
12 | 13 | 8.687242 | GGAGGAATTGGTTTAAGAGATTTTAGG | 58.313 | 37.037 | 0.00 | 0.00 | 0.00 | 2.69 |
13 | 14 | 8.687242 | GGGAGGAATTGGTTTAAGAGATTTTAG | 58.313 | 37.037 | 0.00 | 0.00 | 0.00 | 1.85 |
14 | 15 | 8.174085 | TGGGAGGAATTGGTTTAAGAGATTTTA | 58.826 | 33.333 | 0.00 | 0.00 | 0.00 | 1.52 |
15 | 16 | 7.016296 | TGGGAGGAATTGGTTTAAGAGATTTT | 58.984 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
16 | 17 | 6.561294 | TGGGAGGAATTGGTTTAAGAGATTT | 58.439 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
17 | 18 | 6.152638 | TGGGAGGAATTGGTTTAAGAGATT | 57.847 | 37.500 | 0.00 | 0.00 | 0.00 | 2.40 |
18 | 19 | 5.796502 | TGGGAGGAATTGGTTTAAGAGAT | 57.203 | 39.130 | 0.00 | 0.00 | 0.00 | 2.75 |
19 | 20 | 5.796502 | ATGGGAGGAATTGGTTTAAGAGA | 57.203 | 39.130 | 0.00 | 0.00 | 0.00 | 3.10 |
20 | 21 | 8.539117 | AAATATGGGAGGAATTGGTTTAAGAG | 57.461 | 34.615 | 0.00 | 0.00 | 0.00 | 2.85 |
21 | 22 | 8.909423 | AAAATATGGGAGGAATTGGTTTAAGA | 57.091 | 30.769 | 0.00 | 0.00 | 0.00 | 2.10 |
44 | 45 | 4.836175 | GGGACCATCTCCTAAAACCAAAAA | 59.164 | 41.667 | 0.00 | 0.00 | 39.39 | 1.94 |
45 | 46 | 4.140900 | TGGGACCATCTCCTAAAACCAAAA | 60.141 | 41.667 | 0.00 | 0.00 | 39.39 | 2.44 |
46 | 47 | 3.399644 | TGGGACCATCTCCTAAAACCAAA | 59.600 | 43.478 | 0.00 | 0.00 | 39.39 | 3.28 |
47 | 48 | 2.990284 | TGGGACCATCTCCTAAAACCAA | 59.010 | 45.455 | 0.00 | 0.00 | 39.39 | 3.67 |
48 | 49 | 2.638325 | TGGGACCATCTCCTAAAACCA | 58.362 | 47.619 | 0.00 | 0.00 | 39.39 | 3.67 |
49 | 50 | 3.621558 | CTTGGGACCATCTCCTAAAACC | 58.378 | 50.000 | 0.00 | 0.00 | 38.97 | 3.27 |
50 | 51 | 3.017442 | GCTTGGGACCATCTCCTAAAAC | 58.983 | 50.000 | 0.00 | 0.00 | 38.97 | 2.43 |
51 | 52 | 2.919602 | AGCTTGGGACCATCTCCTAAAA | 59.080 | 45.455 | 0.00 | 0.00 | 38.97 | 1.52 |
52 | 53 | 2.562296 | AGCTTGGGACCATCTCCTAAA | 58.438 | 47.619 | 0.00 | 0.00 | 38.97 | 1.85 |
53 | 54 | 2.270434 | AGCTTGGGACCATCTCCTAA | 57.730 | 50.000 | 0.00 | 0.00 | 39.39 | 2.69 |
54 | 55 | 2.270434 | AAGCTTGGGACCATCTCCTA | 57.730 | 50.000 | 0.00 | 0.00 | 39.39 | 2.94 |
55 | 56 | 2.239907 | GTTAAGCTTGGGACCATCTCCT | 59.760 | 50.000 | 9.86 | 0.00 | 39.39 | 3.69 |
56 | 57 | 2.239907 | AGTTAAGCTTGGGACCATCTCC | 59.760 | 50.000 | 9.86 | 0.00 | 38.55 | 3.71 |
57 | 58 | 3.636153 | AGTTAAGCTTGGGACCATCTC | 57.364 | 47.619 | 9.86 | 0.00 | 0.00 | 2.75 |
58 | 59 | 3.308473 | GGAAGTTAAGCTTGGGACCATCT | 60.308 | 47.826 | 9.86 | 0.00 | 37.59 | 2.90 |
59 | 60 | 3.017442 | GGAAGTTAAGCTTGGGACCATC | 58.983 | 50.000 | 9.86 | 6.73 | 37.59 | 3.51 |
60 | 61 | 2.378547 | TGGAAGTTAAGCTTGGGACCAT | 59.621 | 45.455 | 9.86 | 0.00 | 37.59 | 3.55 |
61 | 62 | 1.777878 | TGGAAGTTAAGCTTGGGACCA | 59.222 | 47.619 | 9.86 | 9.39 | 37.59 | 4.02 |
62 | 63 | 2.579410 | TGGAAGTTAAGCTTGGGACC | 57.421 | 50.000 | 9.86 | 6.87 | 37.59 | 4.46 |
63 | 64 | 4.079253 | TGATTGGAAGTTAAGCTTGGGAC | 58.921 | 43.478 | 9.86 | 5.30 | 37.59 | 4.46 |
90 | 91 | 4.456911 | CCCATGTATGGTATCATGACAAGC | 59.543 | 45.833 | 9.87 | 0.00 | 46.65 | 4.01 |
127 | 128 | 7.147915 | TGCTTTAGGCCCATCTAACAATTTTAG | 60.148 | 37.037 | 0.00 | 2.70 | 40.92 | 1.85 |
171 | 173 | 2.053618 | GCCACGATCTAGGGCATCT | 58.946 | 57.895 | 12.59 | 0.00 | 46.92 | 2.90 |
212 | 214 | 7.537715 | TGTAAACCATGTGCATTCATTCTTAG | 58.462 | 34.615 | 0.00 | 0.00 | 0.00 | 2.18 |
259 | 263 | 9.504708 | TGATTAATAAAGTTTGTCTTCCCGTAA | 57.495 | 29.630 | 0.00 | 0.00 | 35.02 | 3.18 |
260 | 264 | 9.675464 | ATGATTAATAAAGTTTGTCTTCCCGTA | 57.325 | 29.630 | 0.00 | 0.00 | 35.02 | 4.02 |
279 | 283 | 8.371699 | TGGATGATGTAACGGTCATATGATTAA | 58.628 | 33.333 | 9.02 | 0.00 | 35.33 | 1.40 |
281 | 285 | 6.650807 | GTGGATGATGTAACGGTCATATGATT | 59.349 | 38.462 | 9.02 | 1.94 | 35.33 | 2.57 |
282 | 286 | 6.014242 | AGTGGATGATGTAACGGTCATATGAT | 60.014 | 38.462 | 9.02 | 0.00 | 35.33 | 2.45 |
283 | 287 | 5.304357 | AGTGGATGATGTAACGGTCATATGA | 59.696 | 40.000 | 0.00 | 0.00 | 35.33 | 2.15 |
284 | 288 | 5.541845 | AGTGGATGATGTAACGGTCATATG | 58.458 | 41.667 | 0.00 | 0.00 | 35.33 | 1.78 |
285 | 289 | 5.808366 | AGTGGATGATGTAACGGTCATAT | 57.192 | 39.130 | 0.00 | 0.00 | 35.33 | 1.78 |
286 | 290 | 6.097129 | TGTTAGTGGATGATGTAACGGTCATA | 59.903 | 38.462 | 0.00 | 0.00 | 35.33 | 2.15 |
287 | 291 | 5.105106 | TGTTAGTGGATGATGTAACGGTCAT | 60.105 | 40.000 | 0.00 | 0.00 | 37.76 | 3.06 |
288 | 292 | 4.221041 | TGTTAGTGGATGATGTAACGGTCA | 59.779 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
289 | 293 | 4.751060 | TGTTAGTGGATGATGTAACGGTC | 58.249 | 43.478 | 0.00 | 0.00 | 0.00 | 4.79 |
290 | 294 | 4.222145 | ACTGTTAGTGGATGATGTAACGGT | 59.778 | 41.667 | 0.00 | 0.00 | 39.21 | 4.83 |
291 | 295 | 4.755411 | ACTGTTAGTGGATGATGTAACGG | 58.245 | 43.478 | 0.00 | 0.00 | 37.64 | 4.44 |
292 | 296 | 6.721571 | AAACTGTTAGTGGATGATGTAACG | 57.278 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
293 | 297 | 8.166706 | CGTAAAACTGTTAGTGGATGATGTAAC | 58.833 | 37.037 | 0.00 | 0.00 | 0.00 | 2.50 |
294 | 298 | 8.089597 | TCGTAAAACTGTTAGTGGATGATGTAA | 58.910 | 33.333 | 0.00 | 0.00 | 0.00 | 2.41 |
295 | 299 | 7.604549 | TCGTAAAACTGTTAGTGGATGATGTA | 58.395 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
296 | 300 | 6.460781 | TCGTAAAACTGTTAGTGGATGATGT | 58.539 | 36.000 | 0.00 | 0.00 | 0.00 | 3.06 |
297 | 301 | 6.961359 | TCGTAAAACTGTTAGTGGATGATG | 57.039 | 37.500 | 0.00 | 0.00 | 0.00 | 3.07 |
298 | 302 | 7.327975 | TCATCGTAAAACTGTTAGTGGATGAT | 58.672 | 34.615 | 16.47 | 6.25 | 34.52 | 2.45 |
299 | 303 | 6.693466 | TCATCGTAAAACTGTTAGTGGATGA | 58.307 | 36.000 | 16.47 | 16.47 | 36.40 | 2.92 |
300 | 304 | 6.961359 | TCATCGTAAAACTGTTAGTGGATG | 57.039 | 37.500 | 13.71 | 13.71 | 0.00 | 3.51 |
301 | 305 | 7.159372 | AGTTCATCGTAAAACTGTTAGTGGAT | 58.841 | 34.615 | 0.00 | 0.00 | 34.52 | 3.41 |
302 | 306 | 6.518493 | AGTTCATCGTAAAACTGTTAGTGGA | 58.482 | 36.000 | 0.00 | 0.00 | 34.52 | 4.02 |
303 | 307 | 6.780706 | AGTTCATCGTAAAACTGTTAGTGG | 57.219 | 37.500 | 0.00 | 0.00 | 34.52 | 4.00 |
304 | 308 | 7.001922 | CGAAGTTCATCGTAAAACTGTTAGTG | 58.998 | 38.462 | 3.32 | 0.00 | 35.93 | 2.74 |
305 | 309 | 6.145048 | CCGAAGTTCATCGTAAAACTGTTAGT | 59.855 | 38.462 | 3.32 | 0.00 | 41.16 | 2.24 |
306 | 310 | 6.364165 | TCCGAAGTTCATCGTAAAACTGTTAG | 59.636 | 38.462 | 3.32 | 0.00 | 41.16 | 2.34 |
307 | 311 | 6.215121 | TCCGAAGTTCATCGTAAAACTGTTA | 58.785 | 36.000 | 3.32 | 0.00 | 41.16 | 2.41 |
308 | 312 | 5.051816 | TCCGAAGTTCATCGTAAAACTGTT | 58.948 | 37.500 | 3.32 | 0.00 | 41.16 | 3.16 |
313 | 317 | 3.592059 | CCCTCCGAAGTTCATCGTAAAA | 58.408 | 45.455 | 3.32 | 0.00 | 41.16 | 1.52 |
314 | 318 | 2.093869 | CCCCTCCGAAGTTCATCGTAAA | 60.094 | 50.000 | 3.32 | 0.00 | 41.16 | 2.01 |
316 | 320 | 1.108776 | CCCCTCCGAAGTTCATCGTA | 58.891 | 55.000 | 3.32 | 0.00 | 41.16 | 3.43 |
327 | 331 | 1.278302 | TTGGATTGATGCCCCTCCGA | 61.278 | 55.000 | 0.00 | 0.00 | 0.00 | 4.55 |
342 | 346 | 9.405587 | GACGTGATAAAAATCAATCTTTTTGGA | 57.594 | 29.630 | 0.00 | 0.00 | 38.44 | 3.53 |
353 | 357 | 5.110814 | AGATGGGGACGTGATAAAAATCA | 57.889 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
382 | 386 | 7.118971 | AGAGAGTCAAATTTTGTAGCTCATGAC | 59.881 | 37.037 | 21.00 | 0.00 | 36.95 | 3.06 |
407 | 411 | 6.974932 | AGTGACTGTTGAGCATTGTATTAG | 57.025 | 37.500 | 0.00 | 0.00 | 0.00 | 1.73 |
409 | 413 | 6.294176 | GGAAAGTGACTGTTGAGCATTGTATT | 60.294 | 38.462 | 0.00 | 0.00 | 0.00 | 1.89 |
414 | 418 | 2.887152 | GGGAAAGTGACTGTTGAGCATT | 59.113 | 45.455 | 0.00 | 0.00 | 0.00 | 3.56 |
415 | 419 | 2.158623 | TGGGAAAGTGACTGTTGAGCAT | 60.159 | 45.455 | 0.00 | 0.00 | 0.00 | 3.79 |
416 | 420 | 1.211703 | TGGGAAAGTGACTGTTGAGCA | 59.788 | 47.619 | 0.00 | 0.00 | 0.00 | 4.26 |
417 | 421 | 1.967319 | TGGGAAAGTGACTGTTGAGC | 58.033 | 50.000 | 0.00 | 0.00 | 0.00 | 4.26 |
418 | 422 | 4.981806 | TTTTGGGAAAGTGACTGTTGAG | 57.018 | 40.909 | 0.00 | 0.00 | 0.00 | 3.02 |
419 | 423 | 5.200483 | AGATTTTGGGAAAGTGACTGTTGA | 58.800 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
422 | 426 | 6.187727 | TCTAGATTTTGGGAAAGTGACTGT | 57.812 | 37.500 | 0.00 | 0.00 | 0.00 | 3.55 |
423 | 427 | 7.510549 | TTTCTAGATTTTGGGAAAGTGACTG | 57.489 | 36.000 | 0.00 | 0.00 | 0.00 | 3.51 |
424 | 428 | 7.751768 | CTTTCTAGATTTTGGGAAAGTGACT | 57.248 | 36.000 | 0.00 | 0.00 | 39.50 | 3.41 |
430 | 503 | 5.538433 | CCCACACTTTCTAGATTTTGGGAAA | 59.462 | 40.000 | 15.55 | 0.00 | 34.99 | 3.13 |
433 | 506 | 4.407365 | ACCCACACTTTCTAGATTTTGGG | 58.593 | 43.478 | 17.66 | 17.66 | 38.71 | 4.12 |
458 | 531 | 9.656040 | TGTGCATTCATTCTTAAGCAAAATTAT | 57.344 | 25.926 | 0.00 | 0.00 | 33.37 | 1.28 |
500 | 575 | 7.369551 | ACAAAGGTATTCCAGACCGATATAA | 57.630 | 36.000 | 0.00 | 0.00 | 42.21 | 0.98 |
511 | 586 | 6.928492 | GCATTCTTTTGAACAAAGGTATTCCA | 59.072 | 34.615 | 8.72 | 0.00 | 41.77 | 3.53 |
594 | 669 | 6.405538 | TCCTGCTCATTTTCAAACAACTTTT | 58.594 | 32.000 | 0.00 | 0.00 | 0.00 | 2.27 |
611 | 686 | 1.673665 | CCACTGGTGCTTCCTGCTC | 60.674 | 63.158 | 0.00 | 0.00 | 43.37 | 4.26 |
613 | 688 | 1.968540 | GACCACTGGTGCTTCCTGC | 60.969 | 63.158 | 5.10 | 0.00 | 35.25 | 4.85 |
616 | 691 | 0.977395 | ACTAGACCACTGGTGCTTCC | 59.023 | 55.000 | 5.10 | 0.00 | 36.51 | 3.46 |
706 | 783 | 0.528901 | CTCCAACCGTGTCGTGTTCA | 60.529 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
709 | 786 | 2.279918 | GCTCCAACCGTGTCGTGT | 60.280 | 61.111 | 0.00 | 0.00 | 0.00 | 4.49 |
716 | 793 | 1.048601 | TTTCTCTGAGCTCCAACCGT | 58.951 | 50.000 | 12.15 | 0.00 | 0.00 | 4.83 |
868 | 963 | 1.678970 | GATTGTGTGGGCCTGGGAC | 60.679 | 63.158 | 4.53 | 0.00 | 0.00 | 4.46 |
908 | 1003 | 0.881796 | GGCACTTGTTACTTCCCTGC | 59.118 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
916 | 1011 | 6.585322 | CAGTAGTAGTAACTGGCACTTGTTAC | 59.415 | 42.308 | 16.29 | 16.29 | 43.40 | 2.50 |
939 | 1038 | 6.419116 | CCGACAGTTAATGTACTGATGATCAG | 59.581 | 42.308 | 20.24 | 20.24 | 46.72 | 2.90 |
941 | 1040 | 5.175856 | GCCGACAGTTAATGTACTGATGATC | 59.824 | 44.000 | 12.90 | 0.00 | 46.72 | 2.92 |
1062 | 1164 | 0.325110 | CCAGGGAGAGGAAGCAGAGA | 60.325 | 60.000 | 0.00 | 0.00 | 0.00 | 3.10 |
1495 | 1597 | 2.390599 | CGTGGTCCATGAACGGCAG | 61.391 | 63.158 | 4.96 | 0.00 | 33.77 | 4.85 |
1599 | 1701 | 2.333417 | GGTCAGCGAGTCGAGGTCA | 61.333 | 63.158 | 18.61 | 0.00 | 0.00 | 4.02 |
1881 | 1983 | 3.728373 | GTCATGGCGGGGTCCCTT | 61.728 | 66.667 | 8.15 | 0.00 | 0.00 | 3.95 |
2079 | 2181 | 3.177883 | GTCGAACACGACCGGTTTA | 57.822 | 52.632 | 9.42 | 0.00 | 46.91 | 2.01 |
2420 | 2522 | 1.447838 | GCGGCGATCTTGAGGTTGA | 60.448 | 57.895 | 12.98 | 0.00 | 0.00 | 3.18 |
2542 | 2644 | 1.627834 | AGCCACTTCCCTTCTCTTGAG | 59.372 | 52.381 | 0.00 | 0.00 | 0.00 | 3.02 |
2556 | 2658 | 4.851843 | TCATTCATCTTCATCAAGCCACT | 58.148 | 39.130 | 0.00 | 0.00 | 0.00 | 4.00 |
2558 | 2660 | 5.258841 | ACTTCATTCATCTTCATCAAGCCA | 58.741 | 37.500 | 0.00 | 0.00 | 0.00 | 4.75 |
2580 | 2682 | 4.274459 | AGAATATGCATCGAAAAGCCTGAC | 59.726 | 41.667 | 0.19 | 0.00 | 0.00 | 3.51 |
2746 | 2869 | 7.853299 | TCTTGCACCAACAGGTTAATATACTA | 58.147 | 34.615 | 0.00 | 0.00 | 31.84 | 1.82 |
2981 | 3176 | 2.205074 | CATGGTGATCAAGACGCCTAC | 58.795 | 52.381 | 0.00 | 0.00 | 38.55 | 3.18 |
2982 | 3177 | 1.138859 | CCATGGTGATCAAGACGCCTA | 59.861 | 52.381 | 2.57 | 0.00 | 38.55 | 3.93 |
2983 | 3178 | 0.107508 | CCATGGTGATCAAGACGCCT | 60.108 | 55.000 | 2.57 | 0.00 | 38.55 | 5.52 |
2984 | 3179 | 1.718757 | GCCATGGTGATCAAGACGCC | 61.719 | 60.000 | 14.67 | 0.00 | 38.27 | 5.68 |
3046 | 3241 | 5.044179 | ACCATGGATTATTGGAAGGAAGTGA | 60.044 | 40.000 | 21.47 | 0.00 | 0.00 | 3.41 |
3096 | 3294 | 4.954970 | CTTGCCTGGCCACCACGT | 62.955 | 66.667 | 17.53 | 0.00 | 0.00 | 4.49 |
3098 | 3296 | 2.124507 | TACTCTTGCCTGGCCACCAC | 62.125 | 60.000 | 17.53 | 0.00 | 0.00 | 4.16 |
3099 | 3297 | 1.845664 | TACTCTTGCCTGGCCACCA | 60.846 | 57.895 | 17.53 | 0.00 | 0.00 | 4.17 |
3100 | 3298 | 1.377333 | GTACTCTTGCCTGGCCACC | 60.377 | 63.158 | 17.53 | 0.00 | 0.00 | 4.61 |
3131 | 3329 | 3.123620 | GACTTCTGCGGCTGCTGG | 61.124 | 66.667 | 22.51 | 13.62 | 43.34 | 4.85 |
3132 | 3330 | 1.909141 | CTTGACTTCTGCGGCTGCTG | 61.909 | 60.000 | 20.27 | 18.90 | 43.34 | 4.41 |
3133 | 3331 | 1.670406 | CTTGACTTCTGCGGCTGCT | 60.670 | 57.895 | 20.27 | 0.00 | 43.34 | 4.24 |
3134 | 3332 | 2.684843 | CCTTGACTTCTGCGGCTGC | 61.685 | 63.158 | 11.65 | 11.65 | 43.20 | 5.25 |
3135 | 3333 | 2.684843 | GCCTTGACTTCTGCGGCTG | 61.685 | 63.158 | 0.00 | 0.00 | 37.76 | 4.85 |
3136 | 3334 | 2.359230 | GCCTTGACTTCTGCGGCT | 60.359 | 61.111 | 0.00 | 0.00 | 37.76 | 5.52 |
3196 | 3403 | 0.976641 | ACCACAGCGAGATCAAAGGA | 59.023 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
3203 | 3410 | 1.977009 | TGGACGACCACAGCGAGAT | 60.977 | 57.895 | 1.37 | 0.00 | 41.77 | 2.75 |
3217 | 3424 | 2.338500 | GAGATGTTTCTGTCGGTGGAC | 58.662 | 52.381 | 0.00 | 0.00 | 43.71 | 4.02 |
3227 | 3434 | 0.984230 | TTGCCTCCGGAGATGTTTCT | 59.016 | 50.000 | 33.39 | 0.00 | 33.88 | 2.52 |
3230 | 3437 | 1.202533 | CGTATTGCCTCCGGAGATGTT | 60.203 | 52.381 | 33.39 | 16.37 | 0.00 | 2.71 |
3262 | 3469 | 0.100325 | TGGCTGTTTGCAACAACTCG | 59.900 | 50.000 | 0.00 | 0.00 | 45.15 | 4.18 |
3296 | 3503 | 3.036084 | GCTGGTCACACGTCCACG | 61.036 | 66.667 | 0.00 | 0.00 | 46.33 | 4.94 |
3297 | 3504 | 1.664965 | GAGCTGGTCACACGTCCAC | 60.665 | 63.158 | 1.28 | 0.00 | 0.00 | 4.02 |
3299 | 3506 | 0.320771 | AATGAGCTGGTCACACGTCC | 60.321 | 55.000 | 12.27 | 0.00 | 38.28 | 4.79 |
3366 | 3576 | 7.447238 | CCCAAAACCAAAGTATTCTCTGTCTAA | 59.553 | 37.037 | 0.00 | 0.00 | 0.00 | 2.10 |
3367 | 3577 | 6.940298 | CCCAAAACCAAAGTATTCTCTGTCTA | 59.060 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
3369 | 3579 | 5.768164 | TCCCAAAACCAAAGTATTCTCTGTC | 59.232 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
3371 | 3581 | 6.648879 | TTCCCAAAACCAAAGTATTCTCTG | 57.351 | 37.500 | 0.00 | 0.00 | 0.00 | 3.35 |
3406 | 3616 | 8.519526 | TGGTCACCAATAAAAACTGTGATATTC | 58.480 | 33.333 | 0.00 | 0.00 | 38.14 | 1.75 |
3413 | 3623 | 6.287589 | TGTTTGGTCACCAATAAAAACTGT | 57.712 | 33.333 | 10.97 | 0.00 | 43.55 | 3.55 |
3511 | 3723 | 4.870636 | TCATCATCAATTAGGCCCTGTTT | 58.129 | 39.130 | 0.00 | 0.00 | 0.00 | 2.83 |
3512 | 3724 | 4.524802 | TCATCATCAATTAGGCCCTGTT | 57.475 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
3513 | 3725 | 4.467769 | CTTCATCATCAATTAGGCCCTGT | 58.532 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
3514 | 3726 | 3.825014 | CCTTCATCATCAATTAGGCCCTG | 59.175 | 47.826 | 0.00 | 0.00 | 0.00 | 4.45 |
3515 | 3727 | 3.753193 | GCCTTCATCATCAATTAGGCCCT | 60.753 | 47.826 | 0.00 | 0.00 | 41.74 | 5.19 |
3516 | 3728 | 2.560105 | GCCTTCATCATCAATTAGGCCC | 59.440 | 50.000 | 0.00 | 0.00 | 41.74 | 5.80 |
3517 | 3729 | 3.930634 | GCCTTCATCATCAATTAGGCC | 57.069 | 47.619 | 0.00 | 0.00 | 41.74 | 5.19 |
3518 | 3730 | 5.555017 | TCTAGCCTTCATCATCAATTAGGC | 58.445 | 41.667 | 0.00 | 0.00 | 46.57 | 3.93 |
3519 | 3731 | 8.632906 | AAATCTAGCCTTCATCATCAATTAGG | 57.367 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.