Multiple sequence alignment - TraesCS2B01G301400
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 | TraesCS2B01G301400 | chr2B | 100.000 | 4892 | 0 | 0 | 1 | 4892 | 424325637 | 424330528 | 0.000000e+00 | 9034 |
1 | TraesCS2B01G301400 | chr2B | 100.000 | 2640 | 0 | 0 | 5216 | 7855 | 424330852 | 424333491 | 0.000000e+00 | 4876 |
2 | TraesCS2B01G301400 | chr2B | 78.429 | 1451 | 281 | 22 | 1108 | 2539 | 54545157 | 54546594 | 0.000000e+00 | 917 |
3 | TraesCS2B01G301400 | chr2B | 88.060 | 134 | 16 | 0 | 5592 | 5725 | 54548848 | 54548981 | 8.160000e-35 | 159 |
4 | TraesCS2B01G301400 | chr2A | 95.574 | 4293 | 130 | 19 | 632 | 4892 | 477002624 | 477006888 | 0.000000e+00 | 6820 |
5 | TraesCS2B01G301400 | chr2A | 92.769 | 2434 | 90 | 28 | 5231 | 7593 | 477007023 | 477009441 | 0.000000e+00 | 3441 |
6 | TraesCS2B01G301400 | chr2A | 92.171 | 281 | 15 | 5 | 7573 | 7852 | 477009453 | 477009727 | 2.660000e-104 | 390 |
7 | TraesCS2B01G301400 | chr2A | 88.806 | 134 | 15 | 0 | 5592 | 5725 | 36051539 | 36051672 | 1.750000e-36 | 165 |
8 | TraesCS2B01G301400 | chr2D | 95.469 | 4282 | 109 | 24 | 650 | 4892 | 356526442 | 356530677 | 0.000000e+00 | 6754 |
9 | TraesCS2B01G301400 | chr2D | 93.210 | 2327 | 92 | 27 | 5231 | 7508 | 356530812 | 356533121 | 0.000000e+00 | 3362 |
10 | TraesCS2B01G301400 | chr2D | 96.486 | 626 | 22 | 0 | 1 | 626 | 453734538 | 453735163 | 0.000000e+00 | 1035 |
11 | TraesCS2B01G301400 | chr2D | 92.476 | 319 | 12 | 6 | 7537 | 7852 | 356533117 | 356533426 | 5.590000e-121 | 446 |
12 | TraesCS2B01G301400 | chr2D | 87.313 | 134 | 17 | 0 | 5592 | 5725 | 32802255 | 32802388 | 3.800000e-33 | 154 |
13 | TraesCS2B01G301400 | chr6B | 96.486 | 626 | 22 | 0 | 1 | 626 | 143645631 | 143646256 | 0.000000e+00 | 1035 |
14 | TraesCS2B01G301400 | chr6B | 96.486 | 626 | 22 | 0 | 1 | 626 | 273229499 | 273230124 | 0.000000e+00 | 1035 |
15 | TraesCS2B01G301400 | chr6B | 96.486 | 626 | 22 | 0 | 1 | 626 | 455421903 | 455421278 | 0.000000e+00 | 1035 |
16 | TraesCS2B01G301400 | chr6A | 96.486 | 626 | 22 | 0 | 1 | 626 | 234188240 | 234188865 | 0.000000e+00 | 1035 |
17 | TraesCS2B01G301400 | chr5B | 96.326 | 626 | 23 | 0 | 1 | 626 | 287777145 | 287776520 | 0.000000e+00 | 1029 |
18 | TraesCS2B01G301400 | chr4B | 96.326 | 626 | 23 | 0 | 1 | 626 | 669601905 | 669602530 | 0.000000e+00 | 1029 |
19 | TraesCS2B01G301400 | chr4A | 96.326 | 626 | 23 | 0 | 1 | 626 | 624980534 | 624981159 | 0.000000e+00 | 1029 |
20 | TraesCS2B01G301400 | chr3B | 96.326 | 626 | 23 | 0 | 1 | 626 | 588665970 | 588665345 | 0.000000e+00 | 1029 |
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 | TraesCS2B01G301400 | chr2B | 424325637 | 424333491 | 7854 | False | 6955.000000 | 9034 | 100.000000 | 1 | 7855 | 2 | chr2B.!!$F2 | 7854 |
1 | TraesCS2B01G301400 | chr2B | 54545157 | 54548981 | 3824 | False | 538.000000 | 917 | 83.244500 | 1108 | 5725 | 2 | chr2B.!!$F1 | 4617 |
2 | TraesCS2B01G301400 | chr2A | 477002624 | 477009727 | 7103 | False | 3550.333333 | 6820 | 93.504667 | 632 | 7852 | 3 | chr2A.!!$F2 | 7220 |
3 | TraesCS2B01G301400 | chr2D | 356526442 | 356533426 | 6984 | False | 3520.666667 | 6754 | 93.718333 | 650 | 7852 | 3 | chr2D.!!$F3 | 7202 |
4 | TraesCS2B01G301400 | chr2D | 453734538 | 453735163 | 625 | False | 1035.000000 | 1035 | 96.486000 | 1 | 626 | 1 | chr2D.!!$F2 | 625 |
5 | TraesCS2B01G301400 | chr6B | 143645631 | 143646256 | 625 | False | 1035.000000 | 1035 | 96.486000 | 1 | 626 | 1 | chr6B.!!$F1 | 625 |
6 | TraesCS2B01G301400 | chr6B | 273229499 | 273230124 | 625 | False | 1035.000000 | 1035 | 96.486000 | 1 | 626 | 1 | chr6B.!!$F2 | 625 |
7 | TraesCS2B01G301400 | chr6B | 455421278 | 455421903 | 625 | True | 1035.000000 | 1035 | 96.486000 | 1 | 626 | 1 | chr6B.!!$R1 | 625 |
8 | TraesCS2B01G301400 | chr6A | 234188240 | 234188865 | 625 | False | 1035.000000 | 1035 | 96.486000 | 1 | 626 | 1 | chr6A.!!$F1 | 625 |
9 | TraesCS2B01G301400 | chr5B | 287776520 | 287777145 | 625 | True | 1029.000000 | 1029 | 96.326000 | 1 | 626 | 1 | chr5B.!!$R1 | 625 |
10 | TraesCS2B01G301400 | chr4B | 669601905 | 669602530 | 625 | False | 1029.000000 | 1029 | 96.326000 | 1 | 626 | 1 | chr4B.!!$F1 | 625 |
11 | TraesCS2B01G301400 | chr4A | 624980534 | 624981159 | 625 | False | 1029.000000 | 1029 | 96.326000 | 1 | 626 | 1 | chr4A.!!$F1 | 625 |
12 | TraesCS2B01G301400 | chr3B | 588665345 | 588665970 | 625 | True | 1029.000000 | 1029 | 96.326000 | 1 | 626 | 1 | chr3B.!!$R1 | 625 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
589 | 590 | 0.756903 | TAGCTTGAAGCCGGTATCCC | 59.243 | 55.000 | 14.45 | 0.00 | 43.77 | 3.85 | F |
616 | 617 | 1.181786 | CTTCGCCTTCTGTCCTCTCT | 58.818 | 55.000 | 0.00 | 0.00 | 0.00 | 3.10 | F |
758 | 759 | 2.624846 | TATCCCCATCCTCCCCTTTT | 57.375 | 50.000 | 0.00 | 0.00 | 0.00 | 2.27 | F |
2202 | 2210 | 0.700564 | ATGGAAGCTTCTCAGGGCAA | 59.299 | 50.000 | 25.05 | 2.89 | 0.00 | 4.52 | F |
2551 | 2559 | 0.762418 | CAAGGTACTGTCCACACCCA | 59.238 | 55.000 | 0.00 | 0.00 | 40.86 | 4.51 | F |
3231 | 3405 | 1.956477 | GGTGAAGCCATGACAACACTT | 59.044 | 47.619 | 0.00 | 0.00 | 37.17 | 3.16 | F |
4736 | 5114 | 0.244721 | GCCCAGGTTGCAAAGATGTC | 59.755 | 55.000 | 0.00 | 0.00 | 0.00 | 3.06 | F |
6523 | 6974 | 1.003118 | TGATCCAGTACACTTGTGGGC | 59.997 | 52.381 | 5.72 | 0.00 | 31.70 | 5.36 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2079 | 2087 | 1.066573 | ACAGGATCGACTGCTTCCAAG | 60.067 | 52.381 | 4.88 | 0.00 | 42.21 | 3.61 | R |
2202 | 2210 | 2.303022 | CAGGGTCTCATACACAACACCT | 59.697 | 50.000 | 0.00 | 0.00 | 31.97 | 4.00 | R |
2415 | 2423 | 3.123620 | CTCCACTCCGCAGCAAGC | 61.124 | 66.667 | 0.00 | 0.00 | 40.87 | 4.01 | R |
3881 | 4065 | 2.176045 | TGGCTAAGGACGAATGTCTGA | 58.824 | 47.619 | 0.00 | 0.00 | 44.83 | 3.27 | R |
3994 | 4178 | 2.294979 | CATGTCTGCTACACATGCCAT | 58.705 | 47.619 | 9.38 | 0.00 | 43.48 | 4.40 | R |
4810 | 5189 | 3.914312 | TGTGTAAGAGCTACTTCACAGC | 58.086 | 45.455 | 16.94 | 0.00 | 39.34 | 4.40 | R |
6734 | 7207 | 0.772124 | ATGGGGCCCTTCCGACATAT | 60.772 | 55.000 | 25.93 | 1.65 | 33.20 | 1.78 | R |
7437 | 7939 | 0.109532 | TTCTCGTTGTTGGATGCCCA | 59.890 | 50.000 | 0.00 | 0.00 | 41.64 | 5.36 | 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 |
---|---|---|---|---|---|---|---|---|---|
103 | 104 | 1.686052 | CTTCCCTTCTCGAGAGGATGG | 59.314 | 57.143 | 24.81 | 17.82 | 0.00 | 3.51 |
256 | 257 | 1.799258 | GATGCCATAGCCAAAGCCCG | 61.799 | 60.000 | 0.00 | 0.00 | 41.25 | 6.13 |
331 | 332 | 2.955660 | CCTCCTACGAAGAGCTTCTCAT | 59.044 | 50.000 | 8.44 | 0.00 | 37.44 | 2.90 |
360 | 361 | 3.594603 | ACACTCCTAACCATGTCTTCG | 57.405 | 47.619 | 0.00 | 0.00 | 0.00 | 3.79 |
384 | 385 | 1.988846 | CCTTCCCAGAACTCCCTCTTT | 59.011 | 52.381 | 0.00 | 0.00 | 0.00 | 2.52 |
418 | 419 | 1.524961 | CCTACTTGCGGGGCATACA | 59.475 | 57.895 | 0.00 | 0.00 | 38.76 | 2.29 |
438 | 439 | 7.413000 | GCATACACGTTGATAACATTGAGAACT | 60.413 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
441 | 442 | 8.373048 | ACACGTTGATAACATTGAGAACTAAA | 57.627 | 30.769 | 0.00 | 0.00 | 0.00 | 1.85 |
452 | 453 | 9.793259 | AACATTGAGAACTAAATCCTCAACTAA | 57.207 | 29.630 | 0.00 | 0.00 | 45.92 | 2.24 |
528 | 529 | 4.660168 | ACTTGAGGCTCTTGTTGATCAAT | 58.340 | 39.130 | 16.72 | 0.00 | 35.35 | 2.57 |
560 | 561 | 2.057137 | TTTCTGTTTGCAGCTGTCCT | 57.943 | 45.000 | 16.64 | 0.00 | 42.29 | 3.85 |
563 | 564 | 2.180131 | CTGTTTGCAGCTGTCCTCGC | 62.180 | 60.000 | 16.64 | 0.00 | 35.77 | 5.03 |
564 | 565 | 2.110835 | TTTGCAGCTGTCCTCGCA | 59.889 | 55.556 | 16.64 | 2.29 | 0.00 | 5.10 |
589 | 590 | 0.756903 | TAGCTTGAAGCCGGTATCCC | 59.243 | 55.000 | 14.45 | 0.00 | 43.77 | 3.85 |
616 | 617 | 1.181786 | CTTCGCCTTCTGTCCTCTCT | 58.818 | 55.000 | 0.00 | 0.00 | 0.00 | 3.10 |
626 | 627 | 6.576442 | GCCTTCTGTCCTCTCTATTTGGTTTA | 60.576 | 42.308 | 0.00 | 0.00 | 0.00 | 2.01 |
627 | 628 | 6.819146 | CCTTCTGTCCTCTCTATTTGGTTTAC | 59.181 | 42.308 | 0.00 | 0.00 | 0.00 | 2.01 |
628 | 629 | 7.310734 | CCTTCTGTCCTCTCTATTTGGTTTACT | 60.311 | 40.741 | 0.00 | 0.00 | 0.00 | 2.24 |
629 | 630 | 8.660295 | TTCTGTCCTCTCTATTTGGTTTACTA | 57.340 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
630 | 631 | 8.294954 | TCTGTCCTCTCTATTTGGTTTACTAG | 57.705 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
631 | 632 | 7.894364 | TCTGTCCTCTCTATTTGGTTTACTAGT | 59.106 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
632 | 633 | 8.064336 | TGTCCTCTCTATTTGGTTTACTAGTC | 57.936 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
633 | 634 | 7.123847 | TGTCCTCTCTATTTGGTTTACTAGTCC | 59.876 | 40.741 | 0.00 | 0.00 | 0.00 | 3.85 |
634 | 635 | 7.123847 | GTCCTCTCTATTTGGTTTACTAGTCCA | 59.876 | 40.741 | 0.00 | 0.00 | 0.00 | 4.02 |
635 | 636 | 7.123847 | TCCTCTCTATTTGGTTTACTAGTCCAC | 59.876 | 40.741 | 0.00 | 0.00 | 0.00 | 4.02 |
636 | 637 | 6.860080 | TCTCTATTTGGTTTACTAGTCCACG | 58.140 | 40.000 | 0.00 | 0.00 | 0.00 | 4.94 |
637 | 638 | 6.435277 | TCTCTATTTGGTTTACTAGTCCACGT | 59.565 | 38.462 | 0.00 | 0.00 | 0.00 | 4.49 |
638 | 639 | 7.611467 | TCTCTATTTGGTTTACTAGTCCACGTA | 59.389 | 37.037 | 0.00 | 0.00 | 0.00 | 3.57 |
639 | 640 | 8.121305 | TCTATTTGGTTTACTAGTCCACGTAA | 57.879 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
641 | 642 | 6.403866 | TTTGGTTTACTAGTCCACGTAAGA | 57.596 | 37.500 | 0.00 | 0.00 | 43.62 | 2.10 |
642 | 643 | 5.633830 | TGGTTTACTAGTCCACGTAAGAG | 57.366 | 43.478 | 0.00 | 0.00 | 43.62 | 2.85 |
643 | 644 | 5.316167 | TGGTTTACTAGTCCACGTAAGAGA | 58.684 | 41.667 | 0.00 | 0.00 | 43.62 | 3.10 |
644 | 645 | 5.769662 | TGGTTTACTAGTCCACGTAAGAGAA | 59.230 | 40.000 | 0.00 | 0.00 | 43.62 | 2.87 |
645 | 646 | 6.072286 | TGGTTTACTAGTCCACGTAAGAGAAG | 60.072 | 42.308 | 0.00 | 0.00 | 43.62 | 2.85 |
646 | 647 | 6.072230 | GGTTTACTAGTCCACGTAAGAGAAGT | 60.072 | 42.308 | 0.00 | 0.00 | 43.62 | 3.01 |
647 | 648 | 7.119846 | GGTTTACTAGTCCACGTAAGAGAAGTA | 59.880 | 40.741 | 0.00 | 0.00 | 43.62 | 2.24 |
648 | 649 | 8.672815 | GTTTACTAGTCCACGTAAGAGAAGTAT | 58.327 | 37.037 | 0.00 | 0.00 | 43.62 | 2.12 |
665 | 666 | 7.497249 | AGAGAAGTATGATGAACAATTAGCACC | 59.503 | 37.037 | 0.00 | 0.00 | 0.00 | 5.01 |
754 | 755 | 2.706190 | CGAATATATCCCCATCCTCCCC | 59.294 | 54.545 | 0.00 | 0.00 | 0.00 | 4.81 |
758 | 759 | 2.624846 | TATCCCCATCCTCCCCTTTT | 57.375 | 50.000 | 0.00 | 0.00 | 0.00 | 2.27 |
776 | 777 | 5.163652 | CCCTTTTATCCACGTCCATCTTTTC | 60.164 | 44.000 | 0.00 | 0.00 | 0.00 | 2.29 |
886 | 887 | 4.517832 | ACGAACCCTAACTTGTTTGGATTC | 59.482 | 41.667 | 13.89 | 11.81 | 31.42 | 2.52 |
934 | 935 | 7.560368 | TCTAATTCTCTGTTTCTCTTGGATCC | 58.440 | 38.462 | 4.20 | 4.20 | 0.00 | 3.36 |
962 | 964 | 2.663852 | CCGTCCAGTTTTCCGCGT | 60.664 | 61.111 | 4.92 | 0.00 | 0.00 | 6.01 |
1008 | 1010 | 6.096282 | GGAAATTCGATCTGAAAATGGGGTTA | 59.904 | 38.462 | 4.52 | 0.00 | 40.71 | 2.85 |
2079 | 2087 | 3.123050 | GTTGGTTGCAAATCCAAGTCAC | 58.877 | 45.455 | 18.96 | 7.19 | 43.16 | 3.67 |
2202 | 2210 | 0.700564 | ATGGAAGCTTCTCAGGGCAA | 59.299 | 50.000 | 25.05 | 2.89 | 0.00 | 4.52 |
2292 | 2300 | 2.746904 | TGTGGTCAATAATCAGGTTGCG | 59.253 | 45.455 | 0.00 | 0.00 | 0.00 | 4.85 |
2415 | 2423 | 2.744202 | GGCTGTGGTTCATACTTGTGAG | 59.256 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2551 | 2559 | 0.762418 | CAAGGTACTGTCCACACCCA | 59.238 | 55.000 | 0.00 | 0.00 | 40.86 | 4.51 |
2708 | 2848 | 9.866655 | TTGGAACTCTGGCTAATTATCATTTAT | 57.133 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
2731 | 2881 | 9.595823 | TTATTAGACATAACTGTGAGCCTTAAC | 57.404 | 33.333 | 0.00 | 0.00 | 35.14 | 2.01 |
3231 | 3405 | 1.956477 | GGTGAAGCCATGACAACACTT | 59.044 | 47.619 | 0.00 | 0.00 | 37.17 | 3.16 |
3583 | 3757 | 8.164070 | ACATGGGTTACTTCAGTTAGATTTCTT | 58.836 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
3584 | 3758 | 9.667107 | CATGGGTTACTTCAGTTAGATTTCTTA | 57.333 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
3659 | 3833 | 8.433421 | TCAGCTAGTTTAGTTATAATGTTGGC | 57.567 | 34.615 | 0.00 | 0.00 | 0.00 | 4.52 |
3679 | 3853 | 7.119116 | TGTTGGCTTTATGTTGTACATAGTGAG | 59.881 | 37.037 | 0.00 | 0.00 | 41.56 | 3.51 |
3753 | 3927 | 4.996758 | TCAGTATTTGACAGTGGACACATG | 59.003 | 41.667 | 5.14 | 0.00 | 0.00 | 3.21 |
3818 | 4002 | 8.107196 | AGAATTGACAATACCCTAAGGAGAAT | 57.893 | 34.615 | 0.00 | 0.00 | 36.73 | 2.40 |
3870 | 4054 | 8.970859 | AGTATTACTGAAGATGCAATTTAGCT | 57.029 | 30.769 | 0.00 | 0.00 | 34.99 | 3.32 |
3884 | 4068 | 5.574443 | GCAATTTAGCTTGCTAAGGTTTCAG | 59.426 | 40.000 | 13.72 | 5.25 | 46.32 | 3.02 |
3886 | 4070 | 5.941948 | TTTAGCTTGCTAAGGTTTCAGAC | 57.058 | 39.130 | 13.72 | 0.00 | 40.27 | 3.51 |
3890 | 4074 | 4.457257 | AGCTTGCTAAGGTTTCAGACATTC | 59.543 | 41.667 | 0.00 | 0.00 | 35.27 | 2.67 |
3953 | 4137 | 5.114780 | GTCATGATCTTTTAGCAGCTGAGA | 58.885 | 41.667 | 20.43 | 11.45 | 0.00 | 3.27 |
3994 | 4178 | 1.002576 | CGTTGAATTGAGCAGCACACA | 60.003 | 47.619 | 0.00 | 0.00 | 0.00 | 3.72 |
4030 | 4214 | 1.064906 | ACATGTTGCTCAGGGATGGAG | 60.065 | 52.381 | 0.00 | 0.00 | 35.47 | 3.86 |
4042 | 4226 | 2.173569 | AGGGATGGAGTCATGGCTAAAC | 59.826 | 50.000 | 0.00 | 0.00 | 32.98 | 2.01 |
4184 | 4371 | 9.793252 | GTTGATTTCTACATGCTCATAATTGTT | 57.207 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
4303 | 4490 | 1.880027 | GACTACTTGGGGTGCACTTTG | 59.120 | 52.381 | 17.98 | 5.65 | 0.00 | 2.77 |
4736 | 5114 | 0.244721 | GCCCAGGTTGCAAAGATGTC | 59.755 | 55.000 | 0.00 | 0.00 | 0.00 | 3.06 |
4741 | 5119 | 2.485426 | CAGGTTGCAAAGATGTCGACAT | 59.515 | 45.455 | 30.37 | 30.37 | 39.70 | 3.06 |
4750 | 5128 | 7.041721 | TGCAAAGATGTCGACATAAGTATCTT | 58.958 | 34.615 | 30.04 | 23.88 | 36.57 | 2.40 |
4755 | 5133 | 6.918569 | AGATGTCGACATAAGTATCTTTTCCG | 59.081 | 38.462 | 30.04 | 0.00 | 36.57 | 4.30 |
4810 | 5189 | 4.125703 | GGAACATATGAGGAGAGCACTTG | 58.874 | 47.826 | 10.38 | 0.00 | 0.00 | 3.16 |
4883 | 5262 | 2.325583 | ACTGCCATAACCATACACCG | 57.674 | 50.000 | 0.00 | 0.00 | 0.00 | 4.94 |
5267 | 5718 | 4.386652 | GCAACATTTGTATTGTGCTTCCTG | 59.613 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
5283 | 5734 | 4.021894 | GCTTCCTGTACTTCTGAGTTCTGA | 60.022 | 45.833 | 0.00 | 0.00 | 37.33 | 3.27 |
5408 | 5859 | 6.655078 | AGTATTGGTGAAGCATTTTGAAGT | 57.345 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
5602 | 6053 | 4.877823 | TGTCCATTATTGCAGATGAGTGAC | 59.122 | 41.667 | 7.99 | 7.56 | 0.00 | 3.67 |
5756 | 6207 | 2.285144 | AACCTCCCTACCCCCACG | 60.285 | 66.667 | 0.00 | 0.00 | 0.00 | 4.94 |
5774 | 6225 | 2.606587 | GCCTTCCTCCTGCCCTTCA | 61.607 | 63.158 | 0.00 | 0.00 | 0.00 | 3.02 |
5775 | 6226 | 1.931007 | GCCTTCCTCCTGCCCTTCAT | 61.931 | 60.000 | 0.00 | 0.00 | 0.00 | 2.57 |
5788 | 6239 | 3.054728 | TGCCCTTCATAACCATCTTTCGA | 60.055 | 43.478 | 0.00 | 0.00 | 0.00 | 3.71 |
6079 | 6530 | 4.501071 | GGAAGCTATACGTCCAACAAAGA | 58.499 | 43.478 | 0.00 | 0.00 | 45.49 | 2.52 |
6088 | 6539 | 3.130340 | ACGTCCAACAAAGATGCAAACTT | 59.870 | 39.130 | 0.00 | 0.00 | 0.00 | 2.66 |
6185 | 6636 | 4.848357 | AGAAGTCGGATTCCAATGATGTT | 58.152 | 39.130 | 3.09 | 0.00 | 0.00 | 2.71 |
6262 | 6713 | 6.212955 | GTGAGCTGAAGAGATATCCAAGTAC | 58.787 | 44.000 | 0.00 | 0.00 | 0.00 | 2.73 |
6301 | 6752 | 4.671377 | TGCTCAAATATTTCCATTGCGTC | 58.329 | 39.130 | 0.00 | 0.00 | 0.00 | 5.19 |
6375 | 6826 | 7.418483 | GCATGTAGGGAGAGAAACTCTTCTATT | 60.418 | 40.741 | 6.96 | 0.00 | 42.19 | 1.73 |
6427 | 6878 | 5.407407 | ACAGAACAATAGGAAGTGATCGT | 57.593 | 39.130 | 0.00 | 0.00 | 28.96 | 3.73 |
6430 | 6881 | 6.102663 | CAGAACAATAGGAAGTGATCGTTCT | 58.897 | 40.000 | 7.38 | 0.00 | 41.75 | 3.01 |
6438 | 6889 | 4.641094 | AGGAAGTGATCGTTCTAGTAGTGG | 59.359 | 45.833 | 7.38 | 0.00 | 0.00 | 4.00 |
6448 | 6899 | 4.023878 | CGTTCTAGTAGTGGAGGACTATGC | 60.024 | 50.000 | 0.00 | 0.00 | 39.44 | 3.14 |
6482 | 6933 | 7.138054 | ACCAGGATACCTATTTCTAGTTTGG | 57.862 | 40.000 | 0.00 | 0.00 | 29.64 | 3.28 |
6483 | 6934 | 6.906901 | ACCAGGATACCTATTTCTAGTTTGGA | 59.093 | 38.462 | 0.00 | 0.00 | 29.64 | 3.53 |
6484 | 6935 | 7.404980 | ACCAGGATACCTATTTCTAGTTTGGAA | 59.595 | 37.037 | 0.00 | 0.00 | 29.64 | 3.53 |
6485 | 6936 | 8.272173 | CCAGGATACCTATTTCTAGTTTGGAAA | 58.728 | 37.037 | 0.00 | 0.00 | 35.57 | 3.13 |
6521 | 6972 | 3.738982 | TGTTGATCCAGTACACTTGTGG | 58.261 | 45.455 | 5.72 | 0.00 | 0.00 | 4.17 |
6523 | 6974 | 1.003118 | TGATCCAGTACACTTGTGGGC | 59.997 | 52.381 | 5.72 | 0.00 | 31.70 | 5.36 |
6530 | 6982 | 2.371841 | AGTACACTTGTGGGCATGAGAA | 59.628 | 45.455 | 0.00 | 0.00 | 0.00 | 2.87 |
6734 | 7207 | 4.692155 | CGTGGCAGCATAGATGATATCAAA | 59.308 | 41.667 | 9.99 | 0.00 | 0.00 | 2.69 |
6809 | 7282 | 2.684843 | GCAGGAGCAAACCGAGCTG | 61.685 | 63.158 | 0.00 | 0.00 | 43.58 | 4.24 |
6849 | 7322 | 0.252284 | AGACCCCATCAAGTCTCCGT | 60.252 | 55.000 | 0.00 | 0.00 | 39.08 | 4.69 |
6851 | 7324 | 1.003233 | GACCCCATCAAGTCTCCGTTT | 59.997 | 52.381 | 0.00 | 0.00 | 0.00 | 3.60 |
6882 | 7355 | 6.301486 | TGTAGATTCTTTGCATAGCCATCAT | 58.699 | 36.000 | 14.33 | 6.34 | 0.00 | 2.45 |
6918 | 7391 | 4.278170 | CCTACCATGCAGAAAAACAACAGA | 59.722 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
6961 | 7435 | 5.583061 | AGCATTTGGTGAATAATCGTTACGA | 59.417 | 36.000 | 10.62 | 10.62 | 41.13 | 3.43 |
6974 | 7448 | 2.295629 | TCGTTACGAATGTGTGGTACCA | 59.704 | 45.455 | 11.60 | 11.60 | 31.06 | 3.25 |
7001 | 7475 | 3.938289 | GTTAGAAACGGTCTGAGGTCT | 57.062 | 47.619 | 1.40 | 0.00 | 37.12 | 3.85 |
7098 | 7572 | 3.238108 | ACAAGCTGTATCCAGTTCTCG | 57.762 | 47.619 | 0.00 | 0.00 | 41.02 | 4.04 |
7099 | 7573 | 2.563179 | ACAAGCTGTATCCAGTTCTCGT | 59.437 | 45.455 | 0.00 | 0.00 | 41.02 | 4.18 |
7155 | 7629 | 3.541996 | TGTATGTCCTACGAGACGGTA | 57.458 | 47.619 | 0.00 | 0.00 | 39.77 | 4.02 |
7157 | 7631 | 2.408271 | ATGTCCTACGAGACGGTACA | 57.592 | 50.000 | 0.00 | 0.00 | 39.77 | 2.90 |
7160 | 7634 | 2.093288 | TGTCCTACGAGACGGTACATCT | 60.093 | 50.000 | 0.00 | 0.00 | 39.77 | 2.90 |
7207 | 7682 | 5.325239 | TCCAGTCTGTCTCTCTGAAATACA | 58.675 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
7223 | 7724 | 7.448161 | TCTGAAATACATGGAAAGAAGAAGCAA | 59.552 | 33.333 | 0.00 | 0.00 | 0.00 | 3.91 |
7250 | 7751 | 5.044919 | CACCATCTCCCAGGCCAATTATATA | 60.045 | 44.000 | 5.01 | 0.00 | 0.00 | 0.86 |
7426 | 7928 | 7.839680 | AAATTTCAATCTTGTAACCCTCACT | 57.160 | 32.000 | 0.00 | 0.00 | 0.00 | 3.41 |
7427 | 7929 | 6.824305 | ATTTCAATCTTGTAACCCTCACTG | 57.176 | 37.500 | 0.00 | 0.00 | 0.00 | 3.66 |
7437 | 7939 | 3.710722 | CCTCACTGGGAGCGCCTT | 61.711 | 66.667 | 2.29 | 0.00 | 42.62 | 4.35 |
7514 | 8027 | 1.227973 | GCCATAGCACTACCAGGCC | 60.228 | 63.158 | 0.00 | 0.00 | 39.53 | 5.19 |
7542 | 8063 | 0.721483 | GAACGCGCACTTACACAAGC | 60.721 | 55.000 | 5.73 | 0.00 | 34.94 | 4.01 |
7555 | 8076 | 7.856459 | ACTTACACAAGCAAAAGGACACCCT | 62.856 | 44.000 | 0.00 | 0.00 | 38.85 | 4.34 |
7556 | 8077 | 1.338020 | CACAAGCAAAAGGACACCCTC | 59.662 | 52.381 | 0.00 | 0.00 | 43.48 | 4.30 |
7557 | 8078 | 1.064017 | ACAAGCAAAAGGACACCCTCA | 60.064 | 47.619 | 0.00 | 0.00 | 43.48 | 3.86 |
7559 | 8080 | 1.986882 | AGCAAAAGGACACCCTCAAG | 58.013 | 50.000 | 0.00 | 0.00 | 43.48 | 3.02 |
7577 | 8134 | 5.221521 | CCTCAAGGGAAAAGAAAGGGAAAAG | 60.222 | 44.000 | 0.00 | 0.00 | 37.23 | 2.27 |
7599 | 8156 | 1.227002 | GATCCCACGCTTCGACTCC | 60.227 | 63.158 | 0.00 | 0.00 | 0.00 | 3.85 |
7600 | 8157 | 2.630592 | GATCCCACGCTTCGACTCCC | 62.631 | 65.000 | 0.00 | 0.00 | 0.00 | 4.30 |
7845 | 8402 | 2.045926 | GCTCCGTGGGTGCATCTT | 60.046 | 61.111 | 0.00 | 0.00 | 41.27 | 2.40 |
7852 | 8409 | 2.086869 | CGTGGGTGCATCTTCAGATTT | 58.913 | 47.619 | 0.00 | 0.00 | 31.21 | 2.17 |
7853 | 8410 | 3.270027 | CGTGGGTGCATCTTCAGATTTA | 58.730 | 45.455 | 0.00 | 0.00 | 31.21 | 1.40 |
7854 | 8411 | 3.310774 | CGTGGGTGCATCTTCAGATTTAG | 59.689 | 47.826 | 0.00 | 0.00 | 31.21 | 1.85 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
103 | 104 | 5.506982 | GCCAACATTCTAGCCAGATTGATTC | 60.507 | 44.000 | 10.40 | 0.00 | 36.23 | 2.52 |
120 | 121 | 4.760204 | GTGACTTTTAGTAGTGGCCAACAT | 59.240 | 41.667 | 7.24 | 0.00 | 0.00 | 2.71 |
256 | 257 | 1.737735 | GTTTTGAAGGGGCGCATGC | 60.738 | 57.895 | 10.83 | 7.91 | 41.71 | 4.06 |
317 | 318 | 2.793790 | CCGATTGATGAGAAGCTCTTCG | 59.206 | 50.000 | 4.19 | 0.00 | 43.97 | 3.79 |
331 | 332 | 3.433343 | TGGTTAGGAGTGTACCGATTGA | 58.567 | 45.455 | 0.00 | 0.00 | 34.62 | 2.57 |
360 | 361 | 1.604915 | GGAGTTCTGGGAAGGCCTC | 59.395 | 63.158 | 5.23 | 0.00 | 0.00 | 4.70 |
384 | 385 | 2.371841 | AGTAGGCCACAATGAGAACACA | 59.628 | 45.455 | 5.01 | 0.00 | 0.00 | 3.72 |
418 | 419 | 8.665685 | GGATTTAGTTCTCAATGTTATCAACGT | 58.334 | 33.333 | 0.00 | 0.00 | 0.00 | 3.99 |
438 | 439 | 5.938125 | GGTCAAGCTGTTAGTTGAGGATTTA | 59.062 | 40.000 | 0.00 | 0.00 | 33.37 | 1.40 |
441 | 442 | 3.327757 | TGGTCAAGCTGTTAGTTGAGGAT | 59.672 | 43.478 | 0.00 | 0.00 | 33.37 | 3.24 |
452 | 453 | 2.158900 | CGGATTATCCTGGTCAAGCTGT | 60.159 | 50.000 | 9.78 | 0.00 | 33.30 | 4.40 |
560 | 561 | 2.483876 | GCTTCAAGCTATGGTATGCGA | 58.516 | 47.619 | 0.71 | 0.00 | 38.45 | 5.10 |
563 | 564 | 2.146342 | CCGGCTTCAAGCTATGGTATG | 58.854 | 52.381 | 9.83 | 0.00 | 41.99 | 2.39 |
564 | 565 | 1.768870 | ACCGGCTTCAAGCTATGGTAT | 59.231 | 47.619 | 16.66 | 0.00 | 41.99 | 2.73 |
589 | 590 | 2.269241 | GAAGGCGAAGGAGGTGGG | 59.731 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
616 | 617 | 8.121305 | TCTTACGTGGACTAGTAAACCAAATA | 57.879 | 34.615 | 0.00 | 0.00 | 35.40 | 1.40 |
626 | 627 | 6.413052 | TCATACTTCTCTTACGTGGACTAGT | 58.587 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
627 | 628 | 6.922247 | TCATACTTCTCTTACGTGGACTAG | 57.078 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
628 | 629 | 7.052248 | TCATCATACTTCTCTTACGTGGACTA | 58.948 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
629 | 630 | 5.886474 | TCATCATACTTCTCTTACGTGGACT | 59.114 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
630 | 631 | 6.132791 | TCATCATACTTCTCTTACGTGGAC | 57.867 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
631 | 632 | 6.152154 | TGTTCATCATACTTCTCTTACGTGGA | 59.848 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
632 | 633 | 6.330278 | TGTTCATCATACTTCTCTTACGTGG | 58.670 | 40.000 | 0.00 | 0.00 | 0.00 | 4.94 |
633 | 634 | 7.812309 | TTGTTCATCATACTTCTCTTACGTG | 57.188 | 36.000 | 0.00 | 0.00 | 0.00 | 4.49 |
638 | 639 | 8.887717 | GTGCTAATTGTTCATCATACTTCTCTT | 58.112 | 33.333 | 0.00 | 0.00 | 0.00 | 2.85 |
639 | 640 | 7.497249 | GGTGCTAATTGTTCATCATACTTCTCT | 59.503 | 37.037 | 0.00 | 0.00 | 0.00 | 3.10 |
640 | 641 | 7.517417 | CGGTGCTAATTGTTCATCATACTTCTC | 60.517 | 40.741 | 0.00 | 0.00 | 0.00 | 2.87 |
641 | 642 | 6.258727 | CGGTGCTAATTGTTCATCATACTTCT | 59.741 | 38.462 | 0.00 | 0.00 | 0.00 | 2.85 |
642 | 643 | 6.422223 | CGGTGCTAATTGTTCATCATACTTC | 58.578 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
643 | 644 | 5.296780 | CCGGTGCTAATTGTTCATCATACTT | 59.703 | 40.000 | 0.00 | 0.00 | 0.00 | 2.24 |
644 | 645 | 4.816385 | CCGGTGCTAATTGTTCATCATACT | 59.184 | 41.667 | 0.00 | 0.00 | 0.00 | 2.12 |
645 | 646 | 4.814234 | TCCGGTGCTAATTGTTCATCATAC | 59.186 | 41.667 | 0.00 | 0.00 | 0.00 | 2.39 |
646 | 647 | 5.029807 | TCCGGTGCTAATTGTTCATCATA | 57.970 | 39.130 | 0.00 | 0.00 | 0.00 | 2.15 |
647 | 648 | 3.884895 | TCCGGTGCTAATTGTTCATCAT | 58.115 | 40.909 | 0.00 | 0.00 | 0.00 | 2.45 |
648 | 649 | 3.342377 | TCCGGTGCTAATTGTTCATCA | 57.658 | 42.857 | 0.00 | 0.00 | 0.00 | 3.07 |
665 | 666 | 5.681639 | AGAATACTATTTTGGGTCCTTCCG | 58.318 | 41.667 | 0.00 | 0.00 | 37.00 | 4.30 |
754 | 755 | 5.163652 | GGGAAAAGATGGACGTGGATAAAAG | 60.164 | 44.000 | 0.00 | 0.00 | 0.00 | 2.27 |
758 | 759 | 3.112263 | AGGGAAAAGATGGACGTGGATA | 58.888 | 45.455 | 0.00 | 0.00 | 0.00 | 2.59 |
847 | 848 | 6.776744 | AGGGTTCGTTACCTAGAAAAGAAAT | 58.223 | 36.000 | 8.88 | 0.00 | 46.86 | 2.17 |
848 | 849 | 6.178607 | AGGGTTCGTTACCTAGAAAAGAAA | 57.821 | 37.500 | 8.88 | 0.00 | 46.86 | 2.52 |
849 | 850 | 5.813513 | AGGGTTCGTTACCTAGAAAAGAA | 57.186 | 39.130 | 8.88 | 0.00 | 46.86 | 2.52 |
850 | 851 | 6.494835 | AGTTAGGGTTCGTTACCTAGAAAAGA | 59.505 | 38.462 | 8.88 | 0.00 | 46.86 | 2.52 |
851 | 852 | 6.695429 | AGTTAGGGTTCGTTACCTAGAAAAG | 58.305 | 40.000 | 8.88 | 0.00 | 46.86 | 2.27 |
852 | 853 | 6.670695 | AGTTAGGGTTCGTTACCTAGAAAA | 57.329 | 37.500 | 8.88 | 0.00 | 46.86 | 2.29 |
853 | 854 | 6.041979 | ACAAGTTAGGGTTCGTTACCTAGAAA | 59.958 | 38.462 | 8.88 | 0.00 | 46.86 | 2.52 |
854 | 855 | 5.539955 | ACAAGTTAGGGTTCGTTACCTAGAA | 59.460 | 40.000 | 8.88 | 0.49 | 46.86 | 2.10 |
855 | 856 | 5.079643 | ACAAGTTAGGGTTCGTTACCTAGA | 58.920 | 41.667 | 8.88 | 0.00 | 46.86 | 2.43 |
856 | 857 | 5.397142 | ACAAGTTAGGGTTCGTTACCTAG | 57.603 | 43.478 | 8.88 | 0.00 | 46.86 | 3.02 |
886 | 887 | 3.386078 | TCATCAGGAGAAAAGATCGGAGG | 59.614 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
934 | 935 | 3.305177 | CTGGACGGGTTGGGGTACG | 62.305 | 68.421 | 0.00 | 0.00 | 0.00 | 3.67 |
962 | 964 | 0.744874 | CTCCCGACGCCAAATCTAGA | 59.255 | 55.000 | 0.00 | 0.00 | 0.00 | 2.43 |
1455 | 1463 | 4.803088 | CGATCCAAATCAGACTCAGAGAAC | 59.197 | 45.833 | 3.79 | 0.00 | 31.76 | 3.01 |
2079 | 2087 | 1.066573 | ACAGGATCGACTGCTTCCAAG | 60.067 | 52.381 | 4.88 | 0.00 | 42.21 | 3.61 |
2202 | 2210 | 2.303022 | CAGGGTCTCATACACAACACCT | 59.697 | 50.000 | 0.00 | 0.00 | 31.97 | 4.00 |
2292 | 2300 | 4.355437 | CTGACATCGGATCAGTAGTGAAC | 58.645 | 47.826 | 3.93 | 1.39 | 39.04 | 3.18 |
2415 | 2423 | 3.123620 | CTCCACTCCGCAGCAAGC | 61.124 | 66.667 | 0.00 | 0.00 | 40.87 | 4.01 |
2551 | 2559 | 3.966543 | CCTTTGGGAGCGGGGTGT | 61.967 | 66.667 | 0.00 | 0.00 | 33.58 | 4.16 |
2681 | 2821 | 7.573968 | AATGATAATTAGCCAGAGTTCCAAC | 57.426 | 36.000 | 0.00 | 0.00 | 0.00 | 3.77 |
2708 | 2848 | 7.241042 | AGTTAAGGCTCACAGTTATGTCTAA | 57.759 | 36.000 | 0.00 | 0.00 | 37.65 | 2.10 |
2854 | 3004 | 9.163894 | TCCTAATCACCTGATTCAGATAGAAAT | 57.836 | 33.333 | 15.36 | 6.20 | 43.17 | 2.17 |
3231 | 3405 | 4.594970 | TGTGAGGTTTGAAAGTTTCTGGA | 58.405 | 39.130 | 16.33 | 0.63 | 0.00 | 3.86 |
3593 | 3767 | 7.230849 | TCTGCTTATGGTGATTTCATGTTTT | 57.769 | 32.000 | 0.00 | 0.00 | 0.00 | 2.43 |
3818 | 4002 | 6.519213 | GCCCCAATTTGTTTATGTTCTAACCA | 60.519 | 38.462 | 0.00 | 0.00 | 0.00 | 3.67 |
3867 | 4051 | 3.492102 | TGTCTGAAACCTTAGCAAGCT | 57.508 | 42.857 | 0.00 | 0.00 | 0.00 | 3.74 |
3870 | 4054 | 4.385825 | ACGAATGTCTGAAACCTTAGCAA | 58.614 | 39.130 | 0.00 | 0.00 | 0.00 | 3.91 |
3879 | 4063 | 3.007506 | TGGCTAAGGACGAATGTCTGAAA | 59.992 | 43.478 | 0.00 | 0.00 | 44.83 | 2.69 |
3881 | 4065 | 2.176045 | TGGCTAAGGACGAATGTCTGA | 58.824 | 47.619 | 0.00 | 0.00 | 44.83 | 3.27 |
3884 | 4068 | 6.619801 | ATTATTTGGCTAAGGACGAATGTC | 57.380 | 37.500 | 0.00 | 0.00 | 44.72 | 3.06 |
3886 | 4070 | 6.208644 | CCAATTATTTGGCTAAGGACGAATG | 58.791 | 40.000 | 3.53 | 0.00 | 45.71 | 2.67 |
3938 | 4122 | 5.065602 | TGTTGCATATCTCAGCTGCTAAAAG | 59.934 | 40.000 | 9.47 | 0.15 | 36.84 | 2.27 |
3953 | 4137 | 3.442273 | CGGGTACAAACCTTGTTGCATAT | 59.558 | 43.478 | 0.00 | 0.00 | 45.95 | 1.78 |
3994 | 4178 | 2.294979 | CATGTCTGCTACACATGCCAT | 58.705 | 47.619 | 9.38 | 0.00 | 43.48 | 4.40 |
4030 | 4214 | 4.503741 | ACAACATGTGTTTAGCCATGAC | 57.496 | 40.909 | 0.00 | 0.00 | 40.70 | 3.06 |
4042 | 4226 | 7.795431 | ATGCTACGAAATTAAACAACATGTG | 57.205 | 32.000 | 0.00 | 0.00 | 0.00 | 3.21 |
4061 | 4245 | 8.384693 | AGATCATCCCAGAACATATAATGCTA | 57.615 | 34.615 | 0.00 | 0.00 | 0.00 | 3.49 |
4113 | 4300 | 6.697641 | GGGTCTACCAATTATTCCAGGATA | 57.302 | 41.667 | 0.81 | 0.00 | 39.85 | 2.59 |
4184 | 4371 | 7.425606 | GCTTCAGATTTTCTTAACAGTTCCAA | 58.574 | 34.615 | 0.00 | 0.00 | 0.00 | 3.53 |
4303 | 4490 | 4.033358 | CAGATGACAAGGTTATGACTTCGC | 59.967 | 45.833 | 0.00 | 0.00 | 0.00 | 4.70 |
4380 | 4738 | 6.599244 | GGAAACACATCAGGAGATAACATCAA | 59.401 | 38.462 | 0.00 | 0.00 | 31.88 | 2.57 |
4393 | 4751 | 7.885297 | TCAATTAAGAAAGGGAAACACATCAG | 58.115 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
4400 | 4758 | 7.468141 | ACCAGATCAATTAAGAAAGGGAAAC | 57.532 | 36.000 | 0.00 | 0.00 | 0.00 | 2.78 |
4730 | 5108 | 6.918569 | CGGAAAAGATACTTATGTCGACATCT | 59.081 | 38.462 | 33.11 | 21.12 | 37.76 | 2.90 |
4736 | 5114 | 9.685005 | CTTTAAACGGAAAAGATACTTATGTCG | 57.315 | 33.333 | 1.45 | 0.00 | 36.27 | 4.35 |
4810 | 5189 | 3.914312 | TGTGTAAGAGCTACTTCACAGC | 58.086 | 45.455 | 16.94 | 0.00 | 39.34 | 4.40 |
5243 | 5694 | 4.039004 | AGGAAGCACAATACAAATGTTGCA | 59.961 | 37.500 | 9.77 | 0.00 | 30.35 | 4.08 |
5267 | 5718 | 7.878036 | ACTTTCTAGTCAGAACTCAGAAGTAC | 58.122 | 38.462 | 0.00 | 0.00 | 40.54 | 2.73 |
5283 | 5734 | 5.031066 | TGGTGTAGTTGCAACTTTCTAGT | 57.969 | 39.130 | 35.20 | 13.57 | 40.37 | 2.57 |
5368 | 5819 | 5.010012 | CCAATACTACATGGATTTTGGCTCC | 59.990 | 44.000 | 0.00 | 0.00 | 39.12 | 4.70 |
5467 | 5918 | 3.518634 | TTTGTTGGTTCTGCAGGTTTC | 57.481 | 42.857 | 15.13 | 2.19 | 0.00 | 2.78 |
5586 | 6037 | 5.289595 | GGTTATCGTCACTCATCTGCAATA | 58.710 | 41.667 | 0.00 | 0.00 | 0.00 | 1.90 |
5602 | 6053 | 6.662234 | TCTCAGGTATAACATAGGGGTTATCG | 59.338 | 42.308 | 2.15 | 0.00 | 41.68 | 2.92 |
5756 | 6207 | 1.931007 | ATGAAGGGCAGGAGGAAGGC | 61.931 | 60.000 | 0.00 | 0.00 | 0.00 | 4.35 |
5788 | 6239 | 4.406003 | AGAGGAAGATACAGGTTAACGCAT | 59.594 | 41.667 | 0.00 | 0.00 | 0.00 | 4.73 |
6079 | 6530 | 4.401925 | AGGTGAAGAAGCTAAGTTTGCAT | 58.598 | 39.130 | 11.84 | 0.00 | 33.90 | 3.96 |
6185 | 6636 | 3.796844 | GCTGCTCAACTCTACATATCGCA | 60.797 | 47.826 | 0.00 | 0.00 | 0.00 | 5.10 |
6301 | 6752 | 6.670233 | AGAAAAAGGACTACTCGATATAGCG | 58.330 | 40.000 | 3.47 | 3.47 | 0.00 | 4.26 |
6427 | 6878 | 5.125367 | TGCATAGTCCTCCACTACTAGAA | 57.875 | 43.478 | 0.00 | 0.00 | 40.60 | 2.10 |
6430 | 6881 | 6.808321 | AAAATGCATAGTCCTCCACTACTA | 57.192 | 37.500 | 0.00 | 0.00 | 40.60 | 1.82 |
6438 | 6889 | 7.719633 | TCCTGGTTAATAAAATGCATAGTCCTC | 59.280 | 37.037 | 0.00 | 0.00 | 0.00 | 3.71 |
6492 | 6943 | 6.738114 | AGTGTACTGGATCAACAAAAATGTG | 58.262 | 36.000 | 0.00 | 0.00 | 0.00 | 3.21 |
6530 | 6982 | 4.215109 | GGTGGGCAAACAATATGAGGTAT | 58.785 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
6734 | 7207 | 0.772124 | ATGGGGCCCTTCCGACATAT | 60.772 | 55.000 | 25.93 | 1.65 | 33.20 | 1.78 |
6809 | 7282 | 2.669569 | TGCAGCGCCTTCTTCACC | 60.670 | 61.111 | 2.29 | 0.00 | 0.00 | 4.02 |
6849 | 7322 | 9.844790 | CTATGCAAAGAATCTACATGTTCAAAA | 57.155 | 29.630 | 2.30 | 0.00 | 0.00 | 2.44 |
6851 | 7324 | 7.415541 | GGCTATGCAAAGAATCTACATGTTCAA | 60.416 | 37.037 | 2.30 | 0.00 | 0.00 | 2.69 |
6882 | 7355 | 4.962362 | TGCATGGTAGGAGATCAGAAGTTA | 59.038 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
6918 | 7391 | 8.680903 | CAAATGCTGAAGAGGTGTAATTTAGAT | 58.319 | 33.333 | 0.00 | 0.00 | 0.00 | 1.98 |
6981 | 7455 | 3.938289 | AGACCTCAGACCGTTTCTAAC | 57.062 | 47.619 | 0.00 | 0.00 | 31.12 | 2.34 |
7098 | 7572 | 5.924254 | GGGTACACTTCTTTATTGGCAAAAC | 59.076 | 40.000 | 3.01 | 0.00 | 0.00 | 2.43 |
7099 | 7573 | 5.598830 | TGGGTACACTTCTTTATTGGCAAAA | 59.401 | 36.000 | 3.01 | 0.00 | 0.00 | 2.44 |
7157 | 7631 | 1.833630 | TGCTAGGCACAGCAGTAAGAT | 59.166 | 47.619 | 9.45 | 0.00 | 46.41 | 2.40 |
7207 | 7682 | 3.319122 | GGTGTGTTGCTTCTTCTTTCCAT | 59.681 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
7223 | 7724 | 2.606587 | GGCCTGGGAGATGGTGTGT | 61.607 | 63.158 | 0.00 | 0.00 | 0.00 | 3.72 |
7250 | 7751 | 0.523072 | GACGAAAGCATGTGCCACAT | 59.477 | 50.000 | 4.03 | 4.03 | 43.38 | 3.21 |
7362 | 7863 | 3.827008 | TGGATCTATCAGGCAAGTCAC | 57.173 | 47.619 | 0.00 | 0.00 | 0.00 | 3.67 |
7437 | 7939 | 0.109532 | TTCTCGTTGTTGGATGCCCA | 59.890 | 50.000 | 0.00 | 0.00 | 41.64 | 5.36 |
7555 | 8076 | 4.653801 | CCTTTTCCCTTTCTTTTCCCTTGA | 59.346 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
7556 | 8077 | 4.653801 | TCCTTTTCCCTTTCTTTTCCCTTG | 59.346 | 41.667 | 0.00 | 0.00 | 0.00 | 3.61 |
7557 | 8078 | 4.654262 | GTCCTTTTCCCTTTCTTTTCCCTT | 59.346 | 41.667 | 0.00 | 0.00 | 0.00 | 3.95 |
7559 | 8080 | 3.005472 | CGTCCTTTTCCCTTTCTTTTCCC | 59.995 | 47.826 | 0.00 | 0.00 | 0.00 | 3.97 |
7562 | 8083 | 4.523173 | GGATCGTCCTTTTCCCTTTCTTTT | 59.477 | 41.667 | 0.00 | 0.00 | 32.53 | 2.27 |
7563 | 8084 | 4.079970 | GGATCGTCCTTTTCCCTTTCTTT | 58.920 | 43.478 | 0.00 | 0.00 | 32.53 | 2.52 |
7564 | 8085 | 3.561528 | GGGATCGTCCTTTTCCCTTTCTT | 60.562 | 47.826 | 0.00 | 0.00 | 44.86 | 2.52 |
7565 | 8086 | 2.026169 | GGGATCGTCCTTTTCCCTTTCT | 60.026 | 50.000 | 0.00 | 0.00 | 44.86 | 2.52 |
7577 | 8134 | 2.582498 | CGAAGCGTGGGATCGTCC | 60.582 | 66.667 | 0.00 | 0.00 | 35.23 | 4.79 |
7586 | 8143 | 0.941542 | TTTTTGGGAGTCGAAGCGTG | 59.058 | 50.000 | 0.00 | 0.00 | 0.00 | 5.34 |
7614 | 8171 | 1.323412 | TCAAGCGGCTTTTTAGGCAA | 58.677 | 45.000 | 13.53 | 0.00 | 0.00 | 4.52 |
7615 | 8172 | 1.202114 | CATCAAGCGGCTTTTTAGGCA | 59.798 | 47.619 | 13.53 | 0.00 | 0.00 | 4.75 |
7616 | 8173 | 1.202348 | ACATCAAGCGGCTTTTTAGGC | 59.798 | 47.619 | 13.53 | 0.00 | 0.00 | 3.93 |
7617 | 8174 | 3.575965 | AACATCAAGCGGCTTTTTAGG | 57.424 | 42.857 | 13.53 | 6.08 | 0.00 | 2.69 |
7618 | 8175 | 6.378582 | TCTTAAACATCAAGCGGCTTTTTAG | 58.621 | 36.000 | 13.53 | 7.98 | 0.00 | 1.85 |
7619 | 8176 | 6.320494 | TCTTAAACATCAAGCGGCTTTTTA | 57.680 | 33.333 | 13.53 | 12.19 | 0.00 | 1.52 |
7623 | 8180 | 3.568007 | TGTTCTTAAACATCAAGCGGCTT | 59.432 | 39.130 | 9.94 | 9.94 | 40.45 | 4.35 |
7625 | 8182 | 3.492313 | CTGTTCTTAAACATCAAGCGGC | 58.508 | 45.455 | 0.00 | 0.00 | 44.18 | 6.53 |
7626 | 8183 | 3.751175 | TCCTGTTCTTAAACATCAAGCGG | 59.249 | 43.478 | 0.00 | 0.00 | 44.18 | 5.52 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.