Multiple sequence alignment - TraesCS6A01G272200
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 | TraesCS6A01G272200 | chr6A | 100.000 | 4860 | 0 | 0 | 1 | 4860 | 499002622 | 499007481 | 0.000000e+00 | 8975.0 |
1 | TraesCS6A01G272200 | chr6D | 96.068 | 2747 | 78 | 11 | 1546 | 4279 | 356594567 | 356597296 | 0.000000e+00 | 4447.0 |
2 | TraesCS6A01G272200 | chr6D | 97.340 | 639 | 15 | 2 | 910 | 1548 | 356593427 | 356594063 | 0.000000e+00 | 1085.0 |
3 | TraesCS6A01G272200 | chr6D | 94.265 | 558 | 29 | 1 | 21 | 578 | 356555292 | 356555846 | 0.000000e+00 | 850.0 |
4 | TraesCS6A01G272200 | chr6D | 90.353 | 425 | 22 | 6 | 4444 | 4860 | 356597442 | 356597855 | 1.540000e-149 | 540.0 |
5 | TraesCS6A01G272200 | chr6D | 81.211 | 644 | 91 | 16 | 24 | 643 | 78251264 | 78250627 | 4.370000e-135 | 492.0 |
6 | TraesCS6A01G272200 | chr6D | 83.065 | 496 | 79 | 5 | 21 | 515 | 163143289 | 163143780 | 3.450000e-121 | 446.0 |
7 | TraesCS6A01G272200 | chr6D | 76.396 | 394 | 66 | 14 | 311 | 677 | 368731324 | 368731717 | 2.310000e-43 | 187.0 |
8 | TraesCS6A01G272200 | chr6B | 96.258 | 2699 | 88 | 6 | 1546 | 4234 | 537554302 | 537556997 | 0.000000e+00 | 4412.0 |
9 | TraesCS6A01G272200 | chr6B | 95.659 | 645 | 24 | 2 | 907 | 1548 | 537553193 | 537553836 | 0.000000e+00 | 1033.0 |
10 | TraesCS6A01G272200 | chr6B | 84.241 | 863 | 95 | 15 | 30 | 860 | 537551806 | 537552659 | 0.000000e+00 | 802.0 |
11 | TraesCS6A01G272200 | chr6B | 88.947 | 380 | 23 | 8 | 4497 | 4860 | 537578067 | 537578443 | 7.420000e-123 | 451.0 |
12 | TraesCS6A01G272200 | chr6B | 95.349 | 43 | 2 | 0 | 862 | 904 | 537553125 | 537553167 | 8.730000e-08 | 69.4 |
13 | TraesCS6A01G272200 | chr1B | 80.910 | 681 | 101 | 14 | 25 | 682 | 579967007 | 579967681 | 1.210000e-140 | 510.0 |
14 | TraesCS6A01G272200 | chr5D | 80.556 | 648 | 91 | 13 | 25 | 644 | 526037600 | 526038240 | 2.650000e-127 | 466.0 |
15 | TraesCS6A01G272200 | chr5D | 83.333 | 492 | 74 | 5 | 26 | 514 | 392068492 | 392068006 | 9.600000e-122 | 448.0 |
16 | TraesCS6A01G272200 | chr1A | 79.624 | 692 | 106 | 12 | 21 | 682 | 524386625 | 524387311 | 9.530000e-127 | 464.0 |
17 | TraesCS6A01G272200 | chr1A | 74.216 | 287 | 59 | 11 | 4348 | 4624 | 481687138 | 481686857 | 6.650000e-19 | 106.0 |
18 | TraesCS6A01G272200 | chr3B | 79.678 | 684 | 105 | 17 | 26 | 683 | 383837609 | 383838284 | 3.430000e-126 | 462.0 |
19 | TraesCS6A01G272200 | chr3B | 75.901 | 527 | 99 | 20 | 156 | 666 | 771397083 | 771396569 | 1.350000e-60 | 244.0 |
20 | TraesCS6A01G272200 | chr7D | 83.773 | 493 | 70 | 7 | 26 | 515 | 424105933 | 424105448 | 4.430000e-125 | 459.0 |
21 | TraesCS6A01G272200 | chr2B | 83.164 | 493 | 76 | 5 | 26 | 515 | 412750518 | 412751006 | 1.240000e-120 | 444.0 |
22 | TraesCS6A01G272200 | chr2B | 80.791 | 177 | 25 | 2 | 510 | 683 | 506573981 | 506573811 | 3.950000e-26 | 130.0 |
23 | TraesCS6A01G272200 | chr7A | 75.660 | 682 | 104 | 32 | 35 | 682 | 701595983 | 701595330 | 2.860000e-72 | 283.0 |
24 | TraesCS6A01G272200 | chr4D | 84.186 | 215 | 32 | 2 | 267 | 480 | 443223206 | 443222993 | 1.770000e-49 | 207.0 |
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 | TraesCS6A01G272200 | chr6A | 499002622 | 499007481 | 4859 | False | 8975.0 | 8975 | 100.00000 | 1 | 4860 | 1 | chr6A.!!$F1 | 4859 |
1 | TraesCS6A01G272200 | chr6D | 356593427 | 356597855 | 4428 | False | 2024.0 | 4447 | 94.58700 | 910 | 4860 | 3 | chr6D.!!$F4 | 3950 |
2 | TraesCS6A01G272200 | chr6D | 356555292 | 356555846 | 554 | False | 850.0 | 850 | 94.26500 | 21 | 578 | 1 | chr6D.!!$F2 | 557 |
3 | TraesCS6A01G272200 | chr6D | 78250627 | 78251264 | 637 | True | 492.0 | 492 | 81.21100 | 24 | 643 | 1 | chr6D.!!$R1 | 619 |
4 | TraesCS6A01G272200 | chr6B | 537551806 | 537556997 | 5191 | False | 1579.1 | 4412 | 92.87675 | 30 | 4234 | 4 | chr6B.!!$F2 | 4204 |
5 | TraesCS6A01G272200 | chr1B | 579967007 | 579967681 | 674 | False | 510.0 | 510 | 80.91000 | 25 | 682 | 1 | chr1B.!!$F1 | 657 |
6 | TraesCS6A01G272200 | chr5D | 526037600 | 526038240 | 640 | False | 466.0 | 466 | 80.55600 | 25 | 644 | 1 | chr5D.!!$F1 | 619 |
7 | TraesCS6A01G272200 | chr1A | 524386625 | 524387311 | 686 | False | 464.0 | 464 | 79.62400 | 21 | 682 | 1 | chr1A.!!$F1 | 661 |
8 | TraesCS6A01G272200 | chr3B | 383837609 | 383838284 | 675 | False | 462.0 | 462 | 79.67800 | 26 | 683 | 1 | chr3B.!!$F1 | 657 |
9 | TraesCS6A01G272200 | chr3B | 771396569 | 771397083 | 514 | True | 244.0 | 244 | 75.90100 | 156 | 666 | 1 | chr3B.!!$R1 | 510 |
10 | TraesCS6A01G272200 | chr7A | 701595330 | 701595983 | 653 | True | 283.0 | 283 | 75.66000 | 35 | 682 | 1 | chr7A.!!$R1 | 647 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
700 | 747 | 0.037326 | TGATCCACGTCTGCAAGGAC | 60.037 | 55.0 | 0.0 | 0.0 | 32.04 | 3.85 | F |
715 | 762 | 0.179045 | AGGACCGCCAGTATCATTGC | 60.179 | 55.0 | 0.0 | 0.0 | 36.29 | 3.56 | F |
905 | 1419 | 0.395312 | ACGAGGACAAAATGGACCGT | 59.605 | 50.0 | 0.0 | 0.0 | 0.00 | 4.83 | F |
2505 | 3555 | 0.178909 | TGATGTTTGGGGTTGGGCAT | 60.179 | 50.0 | 0.0 | 0.0 | 0.00 | 4.40 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1873 | 2922 | 1.298859 | ATTGACGGCTTGGCGAAGAC | 61.299 | 55.000 | 22.62 | 8.69 | 33.25 | 3.01 | R |
2505 | 3555 | 3.066621 | GGATTGTGTGCAAGTGAGTTCAA | 59.933 | 43.478 | 0.00 | 0.00 | 38.10 | 2.69 | R |
2753 | 3804 | 2.034812 | GGTGTTTTCAATACGCCCAACA | 59.965 | 45.455 | 0.00 | 0.00 | 39.68 | 3.33 | R |
4001 | 5054 | 0.033504 | AACGAGGCTTTTCTGCTCGA | 59.966 | 50.000 | 12.26 | 0.00 | 37.20 | 4.04 | 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 |
---|---|---|---|---|---|---|---|---|---|
347 | 360 | 3.186702 | TGCCCTTGTAAAACTTTTGGC | 57.813 | 42.857 | 5.85 | 5.85 | 38.13 | 4.52 |
421 | 434 | 5.551233 | TCAACCTCTTACTTCAGACATTGG | 58.449 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
608 | 643 | 5.073144 | TGGTAACTGGAGAACTCAATCCTTT | 59.927 | 40.000 | 4.23 | 0.00 | 36.50 | 3.11 |
630 | 671 | 7.093596 | CCTTTCCAAGGCATTCTTCTTTAAGAT | 60.094 | 37.037 | 0.00 | 0.00 | 42.78 | 2.40 |
687 | 734 | 9.912634 | GAAACAATAGAAGACATTTTTGATCCA | 57.087 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
689 | 736 | 7.530010 | ACAATAGAAGACATTTTTGATCCACG | 58.470 | 34.615 | 0.00 | 0.00 | 0.00 | 4.94 |
700 | 747 | 0.037326 | TGATCCACGTCTGCAAGGAC | 60.037 | 55.000 | 0.00 | 0.00 | 32.04 | 3.85 |
703 | 750 | 3.414700 | CACGTCTGCAAGGACCGC | 61.415 | 66.667 | 0.86 | 0.00 | 33.07 | 5.68 |
707 | 754 | 3.241530 | TCTGCAAGGACCGCCAGT | 61.242 | 61.111 | 8.34 | 0.00 | 36.29 | 4.00 |
714 | 761 | 1.942657 | CAAGGACCGCCAGTATCATTG | 59.057 | 52.381 | 0.00 | 0.00 | 36.29 | 2.82 |
715 | 762 | 0.179045 | AGGACCGCCAGTATCATTGC | 60.179 | 55.000 | 0.00 | 0.00 | 36.29 | 3.56 |
717 | 764 | 1.498865 | GACCGCCAGTATCATTGCCG | 61.499 | 60.000 | 0.00 | 0.00 | 0.00 | 5.69 |
725 | 772 | 3.062763 | CAGTATCATTGCCGTCTCATCC | 58.937 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
734 | 781 | 1.403780 | GCCGTCTCATCCGTGTAGTTT | 60.404 | 52.381 | 0.00 | 0.00 | 0.00 | 2.66 |
736 | 783 | 3.323243 | CCGTCTCATCCGTGTAGTTTTT | 58.677 | 45.455 | 0.00 | 0.00 | 0.00 | 1.94 |
739 | 786 | 4.684703 | CGTCTCATCCGTGTAGTTTTTCTT | 59.315 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
754 | 801 | 9.366513 | GTAGTTTTTCTTATCAAACGACTCAAC | 57.633 | 33.333 | 0.00 | 0.00 | 37.85 | 3.18 |
758 | 805 | 8.835467 | TTTTCTTATCAAACGACTCAACAAAG | 57.165 | 30.769 | 0.00 | 0.00 | 0.00 | 2.77 |
767 | 814 | 4.569943 | ACGACTCAACAAAGTGCTCATAT | 58.430 | 39.130 | 0.00 | 0.00 | 0.00 | 1.78 |
769 | 816 | 6.341316 | ACGACTCAACAAAGTGCTCATATAT | 58.659 | 36.000 | 0.00 | 0.00 | 0.00 | 0.86 |
770 | 817 | 6.256539 | ACGACTCAACAAAGTGCTCATATATG | 59.743 | 38.462 | 6.36 | 6.36 | 0.00 | 1.78 |
771 | 818 | 6.256539 | CGACTCAACAAAGTGCTCATATATGT | 59.743 | 38.462 | 12.42 | 0.00 | 0.00 | 2.29 |
772 | 819 | 7.435192 | CGACTCAACAAAGTGCTCATATATGTA | 59.565 | 37.037 | 12.42 | 0.00 | 0.00 | 2.29 |
773 | 820 | 9.265901 | GACTCAACAAAGTGCTCATATATGTAT | 57.734 | 33.333 | 12.42 | 0.00 | 0.00 | 2.29 |
799 | 846 | 8.687292 | TGTACTACATATCCGAATCAGTTACT | 57.313 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
803 | 850 | 8.692710 | ACTACATATCCGAATCAGTTACTTCAA | 58.307 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
807 | 854 | 9.098355 | CATATCCGAATCAGTTACTTCAAAGAA | 57.902 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
809 | 856 | 5.932303 | TCCGAATCAGTTACTTCAAAGAAGG | 59.068 | 40.000 | 11.08 | 0.00 | 0.00 | 3.46 |
810 | 857 | 5.122396 | CCGAATCAGTTACTTCAAAGAAGGG | 59.878 | 44.000 | 11.08 | 0.00 | 0.00 | 3.95 |
811 | 858 | 5.932303 | CGAATCAGTTACTTCAAAGAAGGGA | 59.068 | 40.000 | 11.08 | 2.07 | 0.00 | 4.20 |
812 | 859 | 6.426937 | CGAATCAGTTACTTCAAAGAAGGGAA | 59.573 | 38.462 | 11.08 | 2.79 | 0.00 | 3.97 |
813 | 860 | 7.041372 | CGAATCAGTTACTTCAAAGAAGGGAAA | 60.041 | 37.037 | 11.08 | 0.83 | 0.00 | 3.13 |
845 | 895 | 0.611618 | AACATTTCAGCCGGGCATGA | 60.612 | 50.000 | 23.09 | 18.04 | 0.00 | 3.07 |
852 | 902 | 0.882042 | CAGCCGGGCATGATGAGTAC | 60.882 | 60.000 | 23.09 | 0.00 | 0.00 | 2.73 |
872 | 1386 | 1.823899 | GTAAGGGGGCGCATTGAGG | 60.824 | 63.158 | 10.83 | 0.00 | 0.00 | 3.86 |
904 | 1418 | 2.373540 | TACGAGGACAAAATGGACCG | 57.626 | 50.000 | 0.00 | 0.00 | 0.00 | 4.79 |
905 | 1419 | 0.395312 | ACGAGGACAAAATGGACCGT | 59.605 | 50.000 | 0.00 | 0.00 | 0.00 | 4.83 |
948 | 1485 | 4.215613 | GGGCGAAGTGTAACAAAATTCTCT | 59.784 | 41.667 | 0.00 | 0.00 | 41.43 | 3.10 |
1444 | 1981 | 8.005466 | CGAAATTGATTTGACAAACAGGAAATG | 58.995 | 33.333 | 1.94 | 0.00 | 33.44 | 2.32 |
1466 | 2006 | 6.860790 | TGATAAGTTGTGACATGGTACCTA | 57.139 | 37.500 | 14.36 | 0.00 | 0.00 | 3.08 |
1483 | 2023 | 4.942761 | ACCTACCGTGAAACTTGAGTAA | 57.057 | 40.909 | 0.00 | 0.00 | 31.75 | 2.24 |
1647 | 2696 | 6.042143 | ACTTAGGTGTGCATTTCAAAAGTTG | 58.958 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1725 | 2774 | 4.099266 | ACAACACTAAATTTCCTTGCAGCA | 59.901 | 37.500 | 0.00 | 0.00 | 0.00 | 4.41 |
1873 | 2922 | 1.755179 | AGGAAAGTCGATGGCAATGG | 58.245 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1908 | 2957 | 0.796312 | CAATGAGGACCCGTGTTTCG | 59.204 | 55.000 | 0.00 | 0.00 | 39.52 | 3.46 |
2189 | 3238 | 9.119329 | GTAACGATTGCTATCTAGACATAACTG | 57.881 | 37.037 | 6.58 | 0.00 | 0.00 | 3.16 |
2433 | 3483 | 2.682856 | TGTTGTGGCAGTTTTCTCTGAC | 59.317 | 45.455 | 0.00 | 0.00 | 43.20 | 3.51 |
2505 | 3555 | 0.178909 | TGATGTTTGGGGTTGGGCAT | 60.179 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2632 | 3683 | 6.366061 | TCACATTGTCTTTCTAACATCTCGTG | 59.634 | 38.462 | 0.00 | 0.00 | 0.00 | 4.35 |
2753 | 3804 | 1.667724 | GCGCTCACTATGCTTGAACAT | 59.332 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 |
2759 | 3810 | 3.758023 | TCACTATGCTTGAACATGTTGGG | 59.242 | 43.478 | 17.58 | 6.74 | 0.00 | 4.12 |
2829 | 3880 | 1.622312 | GTGGTTTCTTCTACGGGGACT | 59.378 | 52.381 | 0.00 | 0.00 | 0.00 | 3.85 |
3000 | 4051 | 0.671251 | GTGGAGATCGCTAGGAGTGG | 59.329 | 60.000 | 0.00 | 0.00 | 0.00 | 4.00 |
3173 | 4224 | 9.741168 | CTCTTGTTTTATACTGTCATTTACACG | 57.259 | 33.333 | 0.00 | 0.00 | 33.45 | 4.49 |
3372 | 4423 | 5.927281 | TTACTAGAAGTTGCCCGATAACT | 57.073 | 39.130 | 0.00 | 0.00 | 39.92 | 2.24 |
3383 | 4434 | 3.635373 | TGCCCGATAACTAGTCCTTGTAG | 59.365 | 47.826 | 0.00 | 0.00 | 0.00 | 2.74 |
3395 | 4446 | 7.907389 | ACTAGTCCTTGTAGTTCAATCATTCA | 58.093 | 34.615 | 0.00 | 0.00 | 35.35 | 2.57 |
3409 | 4460 | 6.997655 | TCAATCATTCACAGTCAGTAGTCTT | 58.002 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
3413 | 4464 | 2.316108 | TCACAGTCAGTAGTCTTGGCA | 58.684 | 47.619 | 0.00 | 0.00 | 0.00 | 4.92 |
3506 | 4558 | 1.539157 | CTGGTCCAAAAGCCTTCCTC | 58.461 | 55.000 | 0.00 | 0.00 | 0.00 | 3.71 |
3548 | 4600 | 1.366435 | AGAGGGGTGGAGGTAACAGAT | 59.634 | 52.381 | 0.00 | 0.00 | 41.41 | 2.90 |
3824 | 4877 | 1.079127 | AGCATGCGGTACTGTGTCC | 60.079 | 57.895 | 13.01 | 0.00 | 0.00 | 4.02 |
3913 | 4966 | 3.379372 | CGGATCTCCATGTTTCAAGCAAT | 59.621 | 43.478 | 0.00 | 0.00 | 35.14 | 3.56 |
3951 | 5004 | 0.904649 | TCATCTCCAATCACCGTGCT | 59.095 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
4001 | 5054 | 2.282391 | TCCAGCAATGCGGCTTGT | 60.282 | 55.556 | 10.43 | 0.00 | 42.71 | 3.16 |
4100 | 5153 | 6.981559 | GGTGCAAGAAAGGTATTTTTAACACA | 59.018 | 34.615 | 0.00 | 0.00 | 0.00 | 3.72 |
4161 | 5215 | 4.829492 | GGGCAGGAAATGTAGCTAATCAAT | 59.171 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
4197 | 5257 | 3.204597 | ACTCTTCTTAGAACGACGCTG | 57.795 | 47.619 | 0.00 | 0.00 | 0.00 | 5.18 |
4207 | 5267 | 3.112075 | CGACGCTGTTCGCCACAT | 61.112 | 61.111 | 0.00 | 0.00 | 43.23 | 3.21 |
4217 | 5277 | 3.941483 | CTGTTCGCCACATTAAGAGGATT | 59.059 | 43.478 | 0.00 | 0.00 | 33.76 | 3.01 |
4279 | 5341 | 0.693049 | ATCCAGGAGTGAGGCGTTTT | 59.307 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
4282 | 5361 | 0.868406 | CAGGAGTGAGGCGTTTTGAC | 59.132 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
4293 | 5372 | 5.169836 | AGGCGTTTTGACTGACTAAAAAG | 57.830 | 39.130 | 0.00 | 0.00 | 31.20 | 2.27 |
4362 | 5453 | 1.626654 | GAAGTGCGTGATGTCCGTGG | 61.627 | 60.000 | 0.00 | 0.00 | 0.00 | 4.94 |
4383 | 5474 | 4.020039 | TGGCAAATTTCAGAGCATTTGGAT | 60.020 | 37.500 | 14.67 | 0.00 | 39.71 | 3.41 |
4386 | 5477 | 5.063060 | GCAAATTTCAGAGCATTTGGATGTC | 59.937 | 40.000 | 14.67 | 0.66 | 39.71 | 3.06 |
4387 | 5478 | 4.996788 | ATTTCAGAGCATTTGGATGTCC | 57.003 | 40.909 | 0.00 | 0.00 | 35.63 | 4.02 |
4388 | 5479 | 3.438216 | TTCAGAGCATTTGGATGTCCA | 57.562 | 42.857 | 0.00 | 0.00 | 45.94 | 4.02 |
4401 | 5492 | 3.133003 | TGGATGTCCAAGTAGCTCTTAGC | 59.867 | 47.826 | 0.00 | 0.00 | 44.35 | 3.09 |
4402 | 5493 | 3.133003 | GGATGTCCAAGTAGCTCTTAGCA | 59.867 | 47.826 | 0.00 | 0.00 | 38.85 | 3.49 |
4403 | 5494 | 4.383118 | GGATGTCCAAGTAGCTCTTAGCAA | 60.383 | 45.833 | 0.00 | 0.00 | 38.85 | 3.91 |
4404 | 5495 | 4.617253 | TGTCCAAGTAGCTCTTAGCAAA | 57.383 | 40.909 | 0.00 | 0.00 | 45.56 | 3.68 |
4405 | 5496 | 4.968259 | TGTCCAAGTAGCTCTTAGCAAAA | 58.032 | 39.130 | 0.00 | 0.00 | 45.56 | 2.44 |
4406 | 5497 | 4.997395 | TGTCCAAGTAGCTCTTAGCAAAAG | 59.003 | 41.667 | 0.00 | 0.00 | 45.56 | 2.27 |
4407 | 5498 | 5.221641 | TGTCCAAGTAGCTCTTAGCAAAAGA | 60.222 | 40.000 | 0.00 | 2.04 | 45.56 | 2.52 |
4408 | 5499 | 5.350091 | GTCCAAGTAGCTCTTAGCAAAAGAG | 59.650 | 44.000 | 19.35 | 19.35 | 45.56 | 2.85 |
4409 | 5500 | 5.246203 | TCCAAGTAGCTCTTAGCAAAAGAGA | 59.754 | 40.000 | 25.01 | 8.82 | 45.56 | 3.10 |
4410 | 5501 | 6.070538 | TCCAAGTAGCTCTTAGCAAAAGAGAT | 60.071 | 38.462 | 25.01 | 22.20 | 45.56 | 2.75 |
4411 | 5502 | 7.124298 | TCCAAGTAGCTCTTAGCAAAAGAGATA | 59.876 | 37.037 | 25.01 | 21.37 | 45.56 | 1.98 |
4412 | 5503 | 7.766278 | CCAAGTAGCTCTTAGCAAAAGAGATAA | 59.234 | 37.037 | 25.01 | 11.36 | 43.99 | 1.75 |
4413 | 5504 | 9.155975 | CAAGTAGCTCTTAGCAAAAGAGATAAA | 57.844 | 33.333 | 25.01 | 8.59 | 43.99 | 1.40 |
4414 | 5505 | 9.898152 | AAGTAGCTCTTAGCAAAAGAGATAAAT | 57.102 | 29.630 | 25.01 | 15.43 | 43.99 | 1.40 |
4415 | 5506 | 9.898152 | AGTAGCTCTTAGCAAAAGAGATAAATT | 57.102 | 29.630 | 25.01 | 13.37 | 43.99 | 1.82 |
4418 | 5509 | 9.236006 | AGCTCTTAGCAAAAGAGATAAATTTGA | 57.764 | 29.630 | 25.01 | 0.00 | 45.56 | 2.69 |
4419 | 5510 | 9.500864 | GCTCTTAGCAAAAGAGATAAATTTGAG | 57.499 | 33.333 | 25.01 | 3.57 | 44.96 | 3.02 |
4421 | 5512 | 9.520515 | TCTTAGCAAAAGAGATAAATTTGAGGT | 57.479 | 29.630 | 0.00 | 0.00 | 0.00 | 3.85 |
4422 | 5513 | 9.780413 | CTTAGCAAAAGAGATAAATTTGAGGTC | 57.220 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
4423 | 5514 | 7.163001 | AGCAAAAGAGATAAATTTGAGGTCC | 57.837 | 36.000 | 0.00 | 0.00 | 0.00 | 4.46 |
4424 | 5515 | 6.030228 | GCAAAAGAGATAAATTTGAGGTCCG | 58.970 | 40.000 | 0.00 | 0.00 | 0.00 | 4.79 |
4425 | 5516 | 6.349363 | GCAAAAGAGATAAATTTGAGGTCCGT | 60.349 | 38.462 | 0.00 | 0.00 | 0.00 | 4.69 |
4426 | 5517 | 6.743575 | AAAGAGATAAATTTGAGGTCCGTG | 57.256 | 37.500 | 0.00 | 0.00 | 0.00 | 4.94 |
4427 | 5518 | 5.677319 | AGAGATAAATTTGAGGTCCGTGA | 57.323 | 39.130 | 0.00 | 0.00 | 0.00 | 4.35 |
4428 | 5519 | 6.049955 | AGAGATAAATTTGAGGTCCGTGAA | 57.950 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
4429 | 5520 | 6.472887 | AGAGATAAATTTGAGGTCCGTGAAA | 58.527 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
4430 | 5521 | 6.940298 | AGAGATAAATTTGAGGTCCGTGAAAA | 59.060 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
4431 | 5522 | 7.447238 | AGAGATAAATTTGAGGTCCGTGAAAAA | 59.553 | 33.333 | 0.00 | 0.00 | 0.00 | 1.94 |
4432 | 5523 | 7.368059 | AGATAAATTTGAGGTCCGTGAAAAAC | 58.632 | 34.615 | 0.00 | 0.00 | 0.00 | 2.43 |
4433 | 5524 | 5.592104 | AAATTTGAGGTCCGTGAAAAACT | 57.408 | 34.783 | 0.00 | 0.00 | 0.00 | 2.66 |
4434 | 5525 | 5.592104 | AATTTGAGGTCCGTGAAAAACTT | 57.408 | 34.783 | 0.00 | 0.00 | 0.00 | 2.66 |
4435 | 5526 | 5.592104 | ATTTGAGGTCCGTGAAAAACTTT | 57.408 | 34.783 | 0.00 | 0.00 | 0.00 | 2.66 |
4436 | 5527 | 6.702716 | ATTTGAGGTCCGTGAAAAACTTTA | 57.297 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
4437 | 5528 | 5.488645 | TTGAGGTCCGTGAAAAACTTTAC | 57.511 | 39.130 | 0.00 | 0.00 | 0.00 | 2.01 |
4438 | 5529 | 4.773013 | TGAGGTCCGTGAAAAACTTTACT | 58.227 | 39.130 | 0.00 | 0.00 | 0.00 | 2.24 |
4439 | 5530 | 4.573201 | TGAGGTCCGTGAAAAACTTTACTG | 59.427 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
4440 | 5531 | 3.314357 | AGGTCCGTGAAAAACTTTACTGC | 59.686 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
4441 | 5532 | 3.314357 | GGTCCGTGAAAAACTTTACTGCT | 59.686 | 43.478 | 0.00 | 0.00 | 0.00 | 4.24 |
4442 | 5533 | 4.201980 | GGTCCGTGAAAAACTTTACTGCTT | 60.202 | 41.667 | 0.00 | 0.00 | 0.00 | 3.91 |
4457 | 5548 | 0.109153 | TGCTTGTGCACTGTCTGGAT | 59.891 | 50.000 | 19.41 | 0.00 | 45.31 | 3.41 |
4459 | 5550 | 1.446907 | CTTGTGCACTGTCTGGATCC | 58.553 | 55.000 | 19.41 | 4.20 | 0.00 | 3.36 |
4478 | 5569 | 6.589523 | TGGATCCGATTTTGTTTATTTTGCTG | 59.410 | 34.615 | 7.39 | 0.00 | 0.00 | 4.41 |
4485 | 5576 | 8.755018 | CGATTTTGTTTATTTTGCTGAGAACTT | 58.245 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
4488 | 5579 | 8.856490 | TTTGTTTATTTTGCTGAGAACTTCTC | 57.144 | 30.769 | 11.37 | 11.37 | 43.65 | 2.87 |
4520 | 5611 | 8.309163 | TCAAATGCTTTGAAATTTGACATACC | 57.691 | 30.769 | 0.00 | 0.00 | 45.94 | 2.73 |
4521 | 5612 | 8.149647 | TCAAATGCTTTGAAATTTGACATACCT | 58.850 | 29.630 | 0.00 | 0.00 | 45.94 | 3.08 |
4522 | 5613 | 8.437742 | CAAATGCTTTGAAATTTGACATACCTC | 58.562 | 33.333 | 0.00 | 0.00 | 43.41 | 3.85 |
4544 | 5635 | 4.218635 | TCACGCACTAAGTCATCTTTCTCT | 59.781 | 41.667 | 0.00 | 0.00 | 35.36 | 3.10 |
4607 | 5700 | 0.250038 | CATCAGGTGTAGATGCCCGG | 60.250 | 60.000 | 0.00 | 0.00 | 36.77 | 5.73 |
4647 | 5746 | 5.243060 | TCATCCAGAGACTCTAAACGTGAAA | 59.757 | 40.000 | 4.22 | 0.00 | 0.00 | 2.69 |
4684 | 5783 | 1.226773 | GCGTGATGCAAAGGGATGC | 60.227 | 57.895 | 0.00 | 0.00 | 46.58 | 3.91 |
4685 | 5784 | 1.434696 | CGTGATGCAAAGGGATGCC | 59.565 | 57.895 | 0.00 | 0.00 | 45.83 | 4.40 |
4717 | 5816 | 9.985730 | GATGAATAGAGAGAGAAAACTGATGAT | 57.014 | 33.333 | 0.00 | 0.00 | 0.00 | 2.45 |
4803 | 5902 | 2.062971 | ACACAGGATTCCATGATGGC | 57.937 | 50.000 | 6.59 | 0.00 | 37.47 | 4.40 |
4814 | 5913 | 1.655484 | CATGATGGCGACAACAGCTA | 58.345 | 50.000 | 7.48 | 0.00 | 46.89 | 3.32 |
4815 | 5914 | 1.328680 | CATGATGGCGACAACAGCTAC | 59.671 | 52.381 | 7.48 | 0.00 | 46.89 | 3.58 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
154 | 157 | 3.973472 | AAGGGAAAACTCCTCCTTGTT | 57.027 | 42.857 | 0.00 | 0.00 | 38.11 | 2.83 |
347 | 360 | 2.686915 | GCATTGGAGATGGAAGAACTGG | 59.313 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
442 | 455 | 0.393077 | CCCGAGAGAACCAACTGTGT | 59.607 | 55.000 | 0.00 | 0.00 | 0.00 | 3.72 |
562 | 597 | 3.035727 | TGCACGACAGCACTACGA | 58.964 | 55.556 | 0.00 | 0.00 | 40.11 | 3.43 |
608 | 643 | 6.248433 | ACATCTTAAAGAAGAATGCCTTGGA | 58.752 | 36.000 | 0.00 | 0.00 | 44.85 | 3.53 |
630 | 671 | 3.064207 | GTCCGTTGCTTTGATGACTACA | 58.936 | 45.455 | 0.00 | 0.00 | 0.00 | 2.74 |
687 | 734 | 4.681978 | GGCGGTCCTTGCAGACGT | 62.682 | 66.667 | 0.00 | 0.00 | 37.66 | 4.34 |
689 | 736 | 2.167398 | TACTGGCGGTCCTTGCAGAC | 62.167 | 60.000 | 0.06 | 0.00 | 35.95 | 3.51 |
703 | 750 | 2.602257 | TGAGACGGCAATGATACTGG | 57.398 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
707 | 754 | 1.686587 | ACGGATGAGACGGCAATGATA | 59.313 | 47.619 | 0.00 | 0.00 | 35.23 | 2.15 |
714 | 761 | 0.172803 | AACTACACGGATGAGACGGC | 59.827 | 55.000 | 0.00 | 0.00 | 35.23 | 5.68 |
715 | 762 | 2.649331 | AAACTACACGGATGAGACGG | 57.351 | 50.000 | 0.00 | 0.00 | 35.23 | 4.79 |
717 | 764 | 7.544566 | TGATAAGAAAAACTACACGGATGAGAC | 59.455 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
725 | 772 | 7.561556 | AGTCGTTTGATAAGAAAAACTACACG | 58.438 | 34.615 | 5.95 | 0.00 | 35.53 | 4.49 |
734 | 781 | 7.908082 | CACTTTGTTGAGTCGTTTGATAAGAAA | 59.092 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
736 | 783 | 6.511121 | GCACTTTGTTGAGTCGTTTGATAAGA | 60.511 | 38.462 | 0.00 | 0.00 | 0.00 | 2.10 |
739 | 786 | 4.814234 | AGCACTTTGTTGAGTCGTTTGATA | 59.186 | 37.500 | 0.00 | 0.00 | 0.00 | 2.15 |
769 | 816 | 9.074576 | ACTGATTCGGATATGTAGTACAATACA | 57.925 | 33.333 | 7.16 | 0.00 | 39.85 | 2.29 |
770 | 817 | 9.909644 | AACTGATTCGGATATGTAGTACAATAC | 57.090 | 33.333 | 7.16 | 2.82 | 0.00 | 1.89 |
772 | 819 | 9.909644 | GTAACTGATTCGGATATGTAGTACAAT | 57.090 | 33.333 | 7.16 | 2.64 | 0.00 | 2.71 |
773 | 820 | 9.128404 | AGTAACTGATTCGGATATGTAGTACAA | 57.872 | 33.333 | 7.16 | 0.00 | 0.00 | 2.41 |
780 | 827 | 8.258007 | TCTTTGAAGTAACTGATTCGGATATGT | 58.742 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
813 | 860 | 6.074569 | CGGCTGAAATGTTCGTGTTAATTTTT | 60.075 | 34.615 | 0.00 | 0.00 | 0.00 | 1.94 |
816 | 863 | 4.472286 | CGGCTGAAATGTTCGTGTTAATT | 58.528 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
817 | 864 | 3.119990 | CCGGCTGAAATGTTCGTGTTAAT | 60.120 | 43.478 | 0.00 | 0.00 | 0.00 | 1.40 |
825 | 875 | 0.179129 | CATGCCCGGCTGAAATGTTC | 60.179 | 55.000 | 11.61 | 0.00 | 0.00 | 3.18 |
826 | 876 | 0.611618 | TCATGCCCGGCTGAAATGTT | 60.612 | 50.000 | 11.61 | 0.00 | 0.00 | 2.71 |
835 | 885 | 1.598130 | GGTACTCATCATGCCCGGC | 60.598 | 63.158 | 1.04 | 1.04 | 0.00 | 6.13 |
836 | 886 | 1.300931 | CGGTACTCATCATGCCCGG | 60.301 | 63.158 | 0.00 | 0.00 | 0.00 | 5.73 |
845 | 895 | 1.397390 | CGCCCCCTTACGGTACTCAT | 61.397 | 60.000 | 0.00 | 0.00 | 0.00 | 2.90 |
852 | 902 | 3.209097 | CAATGCGCCCCCTTACGG | 61.209 | 66.667 | 4.18 | 0.00 | 0.00 | 4.02 |
860 | 910 | 3.207669 | CTCAGCCTCAATGCGCCC | 61.208 | 66.667 | 4.18 | 0.00 | 36.02 | 6.13 |
861 | 911 | 1.308069 | TTTCTCAGCCTCAATGCGCC | 61.308 | 55.000 | 4.18 | 0.00 | 36.02 | 6.53 |
862 | 912 | 0.523072 | TTTTCTCAGCCTCAATGCGC | 59.477 | 50.000 | 0.00 | 0.00 | 36.02 | 6.09 |
863 | 913 | 2.995466 | TTTTTCTCAGCCTCAATGCG | 57.005 | 45.000 | 0.00 | 0.00 | 36.02 | 4.73 |
864 | 914 | 6.017934 | TCGTATATTTTTCTCAGCCTCAATGC | 60.018 | 38.462 | 0.00 | 0.00 | 0.00 | 3.56 |
872 | 1386 | 6.903883 | TTGTCCTCGTATATTTTTCTCAGC | 57.096 | 37.500 | 0.00 | 0.00 | 0.00 | 4.26 |
948 | 1485 | 2.816718 | GGCGAGGGGCGTATGTAA | 59.183 | 61.111 | 0.00 | 0.00 | 44.92 | 2.41 |
1086 | 1623 | 1.852626 | AGGGTGGAAGAAGGGGGTG | 60.853 | 63.158 | 0.00 | 0.00 | 0.00 | 4.61 |
1088 | 1625 | 2.309504 | GGAGGGTGGAAGAAGGGGG | 61.310 | 68.421 | 0.00 | 0.00 | 0.00 | 5.40 |
1444 | 1981 | 6.047231 | GGTAGGTACCATGTCACAACTTATC | 58.953 | 44.000 | 15.94 | 0.00 | 45.73 | 1.75 |
1466 | 2006 | 4.124970 | GGAAGTTACTCAAGTTTCACGGT | 58.875 | 43.478 | 0.00 | 0.00 | 0.00 | 4.83 |
1483 | 2023 | 2.208349 | ACTGGGAGCCCTGGAAGT | 59.792 | 61.111 | 15.71 | 4.18 | 39.05 | 3.01 |
1647 | 2696 | 2.227149 | TCAACATTGCTCTGATGCACAC | 59.773 | 45.455 | 0.00 | 0.00 | 43.20 | 3.82 |
1697 | 2746 | 9.906660 | CTGCAAGGAAATTTAGTGTTGTTATTA | 57.093 | 29.630 | 0.00 | 0.00 | 0.00 | 0.98 |
1698 | 2747 | 7.384932 | GCTGCAAGGAAATTTAGTGTTGTTATT | 59.615 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
1699 | 2748 | 6.868339 | GCTGCAAGGAAATTTAGTGTTGTTAT | 59.132 | 34.615 | 0.00 | 0.00 | 0.00 | 1.89 |
1725 | 2774 | 7.287696 | TGAAGAAAATCCTTAGGAAGCTGTTTT | 59.712 | 33.333 | 4.56 | 7.14 | 34.34 | 2.43 |
1873 | 2922 | 1.298859 | ATTGACGGCTTGGCGAAGAC | 61.299 | 55.000 | 22.62 | 8.69 | 33.25 | 3.01 |
1908 | 2957 | 5.836347 | AGCAAGAAGAATCCTGTTTCAAAC | 58.164 | 37.500 | 0.00 | 0.00 | 0.00 | 2.93 |
2189 | 3238 | 4.102649 | GCACCACAGAAACAACAACTTAC | 58.897 | 43.478 | 0.00 | 0.00 | 0.00 | 2.34 |
2427 | 3477 | 3.496130 | ACAAATGAAGAAGCACGTCAGAG | 59.504 | 43.478 | 0.00 | 2.12 | 39.96 | 3.35 |
2433 | 3483 | 6.573617 | AAGAAAAACAAATGAAGAAGCACG | 57.426 | 33.333 | 0.00 | 0.00 | 0.00 | 5.34 |
2505 | 3555 | 3.066621 | GGATTGTGTGCAAGTGAGTTCAA | 59.933 | 43.478 | 0.00 | 0.00 | 38.10 | 2.69 |
2632 | 3683 | 8.306761 | AGTCCAAAATATCCTGTCAAAAATCAC | 58.693 | 33.333 | 0.00 | 0.00 | 0.00 | 3.06 |
2753 | 3804 | 2.034812 | GGTGTTTTCAATACGCCCAACA | 59.965 | 45.455 | 0.00 | 0.00 | 39.68 | 3.33 |
2759 | 3810 | 3.636282 | ACCTTGGTGTTTTCAATACGC | 57.364 | 42.857 | 0.00 | 0.00 | 0.00 | 4.42 |
3173 | 4224 | 6.748333 | TGAGATGTCCACAGATCAAAATTC | 57.252 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
3372 | 4423 | 7.676004 | TGTGAATGATTGAACTACAAGGACTA | 58.324 | 34.615 | 0.00 | 0.00 | 42.02 | 2.59 |
3383 | 4434 | 6.870965 | AGACTACTGACTGTGAATGATTGAAC | 59.129 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
3395 | 4446 | 2.039418 | TGTGCCAAGACTACTGACTGT | 58.961 | 47.619 | 0.00 | 0.00 | 0.00 | 3.55 |
3448 | 4500 | 1.434513 | ATCCACCTGCAGGGACCAAA | 61.435 | 55.000 | 35.42 | 15.28 | 40.27 | 3.28 |
3635 | 4687 | 5.132648 | ACAATGATAGGGTAATCAAGCTCCA | 59.867 | 40.000 | 0.00 | 0.00 | 39.25 | 3.86 |
3824 | 4877 | 9.489084 | TCATATTTATTCAAGATTACCAGACCG | 57.511 | 33.333 | 0.00 | 0.00 | 0.00 | 4.79 |
3913 | 4966 | 7.418368 | GGAGATGATGATTCTAAGAGAACACCA | 60.418 | 40.741 | 0.00 | 0.00 | 37.00 | 4.17 |
3951 | 5004 | 7.819415 | CAGTAGATTACAACTCTGATTCAACCA | 59.181 | 37.037 | 0.00 | 0.00 | 0.00 | 3.67 |
4001 | 5054 | 0.033504 | AACGAGGCTTTTCTGCTCGA | 59.966 | 50.000 | 12.26 | 0.00 | 37.20 | 4.04 |
4100 | 5153 | 6.665992 | TCTGTAATACAGTGAAAGACCACT | 57.334 | 37.500 | 18.71 | 0.00 | 46.03 | 4.00 |
4127 | 5180 | 5.490159 | ACATTTCCTGCCCAATTGTTATTG | 58.510 | 37.500 | 4.43 | 0.00 | 40.70 | 1.90 |
4161 | 5215 | 6.235231 | AGAAGAGTTTGTTCTGTTGAGGTA | 57.765 | 37.500 | 0.00 | 0.00 | 32.86 | 3.08 |
4197 | 5257 | 3.938963 | TGAATCCTCTTAATGTGGCGAAC | 59.061 | 43.478 | 0.00 | 0.00 | 0.00 | 3.95 |
4217 | 5277 | 8.595362 | TTAATCTCTAGTCTCTTGGATTGTGA | 57.405 | 34.615 | 0.00 | 0.00 | 0.00 | 3.58 |
4253 | 5315 | 1.306997 | TCACTCCTGGATGGTCCCC | 60.307 | 63.158 | 0.00 | 0.00 | 35.03 | 4.81 |
4255 | 5317 | 1.977293 | GCCTCACTCCTGGATGGTCC | 61.977 | 65.000 | 0.00 | 0.00 | 36.96 | 4.46 |
4325 | 5404 | 4.692625 | CACTTCGTCATCTTTCTCCACAAT | 59.307 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
4342 | 5433 | 1.733041 | ACGGACATCACGCACTTCG | 60.733 | 57.895 | 0.00 | 0.00 | 45.38 | 3.79 |
4347 | 5438 | 3.816367 | TTGCCACGGACATCACGCA | 62.816 | 57.895 | 0.00 | 0.00 | 34.00 | 5.24 |
4357 | 5448 | 0.597568 | TGCTCTGAAATTTGCCACGG | 59.402 | 50.000 | 0.00 | 0.00 | 0.00 | 4.94 |
4362 | 5453 | 4.933400 | ACATCCAAATGCTCTGAAATTTGC | 59.067 | 37.500 | 15.14 | 0.00 | 40.74 | 3.68 |
4383 | 5474 | 4.617253 | TTTGCTAAGAGCTACTTGGACA | 57.383 | 40.909 | 11.55 | 7.43 | 42.97 | 4.02 |
4386 | 5477 | 5.482908 | TCTCTTTTGCTAAGAGCTACTTGG | 58.517 | 41.667 | 18.62 | 6.75 | 42.97 | 3.61 |
4387 | 5478 | 8.709386 | TTATCTCTTTTGCTAAGAGCTACTTG | 57.291 | 34.615 | 18.62 | 1.96 | 42.97 | 3.16 |
4388 | 5479 | 9.898152 | ATTTATCTCTTTTGCTAAGAGCTACTT | 57.102 | 29.630 | 18.62 | 0.00 | 42.97 | 2.24 |
4389 | 5480 | 9.898152 | AATTTATCTCTTTTGCTAAGAGCTACT | 57.102 | 29.630 | 18.62 | 9.59 | 42.97 | 2.57 |
4392 | 5483 | 9.236006 | TCAAATTTATCTCTTTTGCTAAGAGCT | 57.764 | 29.630 | 18.62 | 13.99 | 42.97 | 4.09 |
4393 | 5484 | 9.500864 | CTCAAATTTATCTCTTTTGCTAAGAGC | 57.499 | 33.333 | 18.62 | 0.00 | 42.58 | 4.09 |
4395 | 5486 | 9.520515 | ACCTCAAATTTATCTCTTTTGCTAAGA | 57.479 | 29.630 | 0.00 | 2.59 | 31.88 | 2.10 |
4396 | 5487 | 9.780413 | GACCTCAAATTTATCTCTTTTGCTAAG | 57.220 | 33.333 | 0.00 | 0.00 | 31.88 | 2.18 |
4397 | 5488 | 8.739972 | GGACCTCAAATTTATCTCTTTTGCTAA | 58.260 | 33.333 | 0.00 | 0.00 | 31.88 | 3.09 |
4398 | 5489 | 7.065803 | CGGACCTCAAATTTATCTCTTTTGCTA | 59.934 | 37.037 | 0.00 | 0.00 | 31.88 | 3.49 |
4399 | 5490 | 6.127897 | CGGACCTCAAATTTATCTCTTTTGCT | 60.128 | 38.462 | 0.00 | 0.00 | 31.88 | 3.91 |
4400 | 5491 | 6.030228 | CGGACCTCAAATTTATCTCTTTTGC | 58.970 | 40.000 | 0.00 | 0.00 | 31.88 | 3.68 |
4401 | 5492 | 7.023575 | CACGGACCTCAAATTTATCTCTTTTG | 58.976 | 38.462 | 0.00 | 0.00 | 0.00 | 2.44 |
4402 | 5493 | 6.940298 | TCACGGACCTCAAATTTATCTCTTTT | 59.060 | 34.615 | 0.00 | 0.00 | 0.00 | 2.27 |
4403 | 5494 | 6.472887 | TCACGGACCTCAAATTTATCTCTTT | 58.527 | 36.000 | 0.00 | 0.00 | 0.00 | 2.52 |
4404 | 5495 | 6.049955 | TCACGGACCTCAAATTTATCTCTT | 57.950 | 37.500 | 0.00 | 0.00 | 0.00 | 2.85 |
4405 | 5496 | 5.677319 | TCACGGACCTCAAATTTATCTCT | 57.323 | 39.130 | 0.00 | 0.00 | 0.00 | 3.10 |
4406 | 5497 | 6.737254 | TTTCACGGACCTCAAATTTATCTC | 57.263 | 37.500 | 0.00 | 0.00 | 0.00 | 2.75 |
4407 | 5498 | 7.230712 | AGTTTTTCACGGACCTCAAATTTATCT | 59.769 | 33.333 | 0.00 | 0.00 | 0.00 | 1.98 |
4408 | 5499 | 7.368059 | AGTTTTTCACGGACCTCAAATTTATC | 58.632 | 34.615 | 0.00 | 0.00 | 0.00 | 1.75 |
4409 | 5500 | 7.284919 | AGTTTTTCACGGACCTCAAATTTAT | 57.715 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
4410 | 5501 | 6.702716 | AGTTTTTCACGGACCTCAAATTTA | 57.297 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
4411 | 5502 | 5.592104 | AGTTTTTCACGGACCTCAAATTT | 57.408 | 34.783 | 0.00 | 0.00 | 0.00 | 1.82 |
4412 | 5503 | 5.592104 | AAGTTTTTCACGGACCTCAAATT | 57.408 | 34.783 | 0.00 | 0.00 | 0.00 | 1.82 |
4413 | 5504 | 5.592104 | AAAGTTTTTCACGGACCTCAAAT | 57.408 | 34.783 | 0.00 | 0.00 | 0.00 | 2.32 |
4414 | 5505 | 5.648960 | AGTAAAGTTTTTCACGGACCTCAAA | 59.351 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
4415 | 5506 | 5.065474 | CAGTAAAGTTTTTCACGGACCTCAA | 59.935 | 40.000 | 0.00 | 0.00 | 0.00 | 3.02 |
4416 | 5507 | 4.573201 | CAGTAAAGTTTTTCACGGACCTCA | 59.427 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
4417 | 5508 | 4.554134 | GCAGTAAAGTTTTTCACGGACCTC | 60.554 | 45.833 | 0.00 | 0.00 | 0.00 | 3.85 |
4418 | 5509 | 3.314357 | GCAGTAAAGTTTTTCACGGACCT | 59.686 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
4419 | 5510 | 3.314357 | AGCAGTAAAGTTTTTCACGGACC | 59.686 | 43.478 | 0.00 | 0.00 | 0.00 | 4.46 |
4420 | 5511 | 4.547406 | AGCAGTAAAGTTTTTCACGGAC | 57.453 | 40.909 | 0.00 | 0.00 | 0.00 | 4.79 |
4421 | 5512 | 4.396790 | ACAAGCAGTAAAGTTTTTCACGGA | 59.603 | 37.500 | 0.00 | 0.00 | 0.00 | 4.69 |
4422 | 5513 | 4.499040 | CACAAGCAGTAAAGTTTTTCACGG | 59.501 | 41.667 | 0.00 | 0.00 | 0.00 | 4.94 |
4423 | 5514 | 4.027702 | GCACAAGCAGTAAAGTTTTTCACG | 60.028 | 41.667 | 0.00 | 0.00 | 41.58 | 4.35 |
4424 | 5515 | 5.375544 | GCACAAGCAGTAAAGTTTTTCAC | 57.624 | 39.130 | 0.00 | 0.00 | 41.58 | 3.18 |
4439 | 5530 | 0.801251 | GATCCAGACAGTGCACAAGC | 59.199 | 55.000 | 21.04 | 7.18 | 42.57 | 4.01 |
4440 | 5531 | 1.446907 | GGATCCAGACAGTGCACAAG | 58.553 | 55.000 | 21.04 | 13.67 | 0.00 | 3.16 |
4441 | 5532 | 0.320683 | CGGATCCAGACAGTGCACAA | 60.321 | 55.000 | 21.04 | 0.00 | 0.00 | 3.33 |
4442 | 5533 | 1.184970 | TCGGATCCAGACAGTGCACA | 61.185 | 55.000 | 21.04 | 0.00 | 0.00 | 4.57 |
4457 | 5548 | 6.976088 | TCTCAGCAAAATAAACAAAATCGGA | 58.024 | 32.000 | 0.00 | 0.00 | 0.00 | 4.55 |
4459 | 5550 | 8.285776 | AGTTCTCAGCAAAATAAACAAAATCG | 57.714 | 30.769 | 0.00 | 0.00 | 0.00 | 3.34 |
4478 | 5569 | 7.144000 | AGCATTTGAACATTTGAGAAGTTCTC | 58.856 | 34.615 | 23.53 | 23.53 | 43.65 | 2.87 |
4515 | 5606 | 3.503827 | TGACTTAGTGCGTGAGGTATG | 57.496 | 47.619 | 0.00 | 0.00 | 0.00 | 2.39 |
4516 | 5607 | 3.954904 | AGATGACTTAGTGCGTGAGGTAT | 59.045 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
4517 | 5608 | 3.353557 | AGATGACTTAGTGCGTGAGGTA | 58.646 | 45.455 | 0.00 | 0.00 | 0.00 | 3.08 |
4518 | 5609 | 2.171840 | AGATGACTTAGTGCGTGAGGT | 58.828 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
4519 | 5610 | 2.949451 | AGATGACTTAGTGCGTGAGG | 57.051 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
4520 | 5611 | 4.489810 | AGAAAGATGACTTAGTGCGTGAG | 58.510 | 43.478 | 0.00 | 0.00 | 35.05 | 3.51 |
4521 | 5612 | 4.218635 | AGAGAAAGATGACTTAGTGCGTGA | 59.781 | 41.667 | 0.00 | 0.00 | 35.05 | 4.35 |
4522 | 5613 | 4.489810 | AGAGAAAGATGACTTAGTGCGTG | 58.510 | 43.478 | 0.00 | 0.00 | 35.05 | 5.34 |
4607 | 5700 | 3.754188 | GATGATATCCAATTCTGCGCC | 57.246 | 47.619 | 4.18 | 0.00 | 0.00 | 6.53 |
4634 | 5733 | 6.764877 | TGCTAGTTTCTTTCACGTTTAGAG | 57.235 | 37.500 | 0.00 | 0.00 | 0.00 | 2.43 |
4647 | 5746 | 1.672881 | GCCATCGCATTGCTAGTTTCT | 59.327 | 47.619 | 7.12 | 0.00 | 34.03 | 2.52 |
4684 | 5783 | 4.071423 | TCTCTCTCTATTCATCTCAGCGG | 58.929 | 47.826 | 0.00 | 0.00 | 0.00 | 5.52 |
4685 | 5784 | 5.687770 | TTCTCTCTCTATTCATCTCAGCG | 57.312 | 43.478 | 0.00 | 0.00 | 0.00 | 5.18 |
4725 | 5824 | 3.793060 | AGGAACGTCCTCACCTGG | 58.207 | 61.111 | 0.00 | 0.00 | 45.66 | 4.45 |
4803 | 5902 | 0.662374 | AACGTCCGTAGCTGTTGTCG | 60.662 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
4814 | 5913 | 2.304751 | AGTTTTCTGTGAACGTCCGT | 57.695 | 45.000 | 0.00 | 0.00 | 32.38 | 4.69 |
4815 | 5914 | 4.377022 | CCATTAGTTTTCTGTGAACGTCCG | 60.377 | 45.833 | 0.00 | 0.00 | 32.38 | 4.79 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.