Multiple sequence alignment - TraesCS2D01G058900
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 | TraesCS2D01G058900 | chr2D | 100.000 | 4264 | 0 | 0 | 1 | 4264 | 23414076 | 23418339 | 0.000000e+00 | 7875 |
1 | TraesCS2D01G058900 | chr2A | 92.838 | 1913 | 112 | 15 | 2369 | 4264 | 25349256 | 25347352 | 0.000000e+00 | 2750 |
2 | TraesCS2D01G058900 | chr2A | 93.798 | 1048 | 61 | 3 | 965 | 2012 | 25350563 | 25349520 | 0.000000e+00 | 1572 |
3 | TraesCS2D01G058900 | chr2A | 93.200 | 250 | 7 | 5 | 2087 | 2329 | 25349505 | 25349259 | 4.050000e-95 | 359 |
4 | TraesCS2D01G058900 | chr2A | 82.123 | 179 | 23 | 5 | 1729 | 1907 | 63605156 | 63604987 | 1.240000e-30 | 145 |
5 | TraesCS2D01G058900 | chr2B | 93.681 | 1266 | 71 | 3 | 758 | 2019 | 36851101 | 36849841 | 0.000000e+00 | 1886 |
6 | TraesCS2D01G058900 | chr2B | 91.653 | 1246 | 81 | 17 | 2442 | 3673 | 36845780 | 36844544 | 0.000000e+00 | 1703 |
7 | TraesCS2D01G058900 | chr2B | 87.045 | 687 | 57 | 16 | 3603 | 4264 | 36843953 | 36843274 | 0.000000e+00 | 747 |
8 | TraesCS2D01G058900 | chr2B | 92.708 | 96 | 7 | 0 | 2158 | 2253 | 36846446 | 36846351 | 5.750000e-29 | 139 |
9 | TraesCS2D01G058900 | chr2B | 96.429 | 84 | 1 | 1 | 2086 | 2167 | 36848968 | 36848885 | 2.070000e-28 | 137 |
10 | TraesCS2D01G058900 | chr3B | 94.767 | 707 | 21 | 5 | 1 | 691 | 740043778 | 740043072 | 0.000000e+00 | 1086 |
11 | TraesCS2D01G058900 | chr3B | 94.380 | 694 | 28 | 4 | 1 | 687 | 786716396 | 786717085 | 0.000000e+00 | 1055 |
12 | TraesCS2D01G058900 | chr7D | 91.465 | 703 | 40 | 7 | 1 | 685 | 549098176 | 549098876 | 0.000000e+00 | 948 |
13 | TraesCS2D01G058900 | chr7D | 77.143 | 210 | 37 | 11 | 3753 | 3954 | 370183771 | 370183977 | 1.250000e-20 | 111 |
14 | TraesCS2D01G058900 | chr7A | 91.193 | 704 | 40 | 6 | 1 | 689 | 20501218 | 20501914 | 0.000000e+00 | 937 |
15 | TraesCS2D01G058900 | chr7A | 96.573 | 321 | 4 | 1 | 1 | 314 | 472134532 | 472134852 | 3.780000e-145 | 525 |
16 | TraesCS2D01G058900 | chr7A | 77.251 | 211 | 35 | 13 | 3753 | 3954 | 409873010 | 409872804 | 1.250000e-20 | 111 |
17 | TraesCS2D01G058900 | chr4B | 90.300 | 701 | 48 | 6 | 1 | 686 | 91139837 | 91139142 | 0.000000e+00 | 900 |
18 | TraesCS2D01G058900 | chr4B | 92.157 | 612 | 34 | 6 | 87 | 686 | 634446103 | 634445494 | 0.000000e+00 | 852 |
19 | TraesCS2D01G058900 | chr4D | 90.014 | 701 | 52 | 6 | 1 | 686 | 61610376 | 61611073 | 0.000000e+00 | 891 |
20 | TraesCS2D01G058900 | chr3A | 96.552 | 348 | 11 | 1 | 341 | 688 | 746905175 | 746904829 | 3.700000e-160 | 575 |
21 | TraesCS2D01G058900 | chr3A | 95.427 | 328 | 6 | 3 | 1 | 321 | 746905495 | 746905170 | 8.180000e-142 | 514 |
22 | TraesCS2D01G058900 | chr5A | 96.542 | 347 | 9 | 2 | 341 | 687 | 4980939 | 4981282 | 4.780000e-159 | 571 |
23 | TraesCS2D01G058900 | chr5A | 97.508 | 321 | 1 | 1 | 1 | 314 | 4980619 | 4980939 | 3.750000e-150 | 542 |
24 | TraesCS2D01G058900 | chr6D | 77.419 | 310 | 50 | 19 | 1112 | 1411 | 397648211 | 397648510 | 2.640000e-37 | 167 |
25 | TraesCS2D01G058900 | chr3D | 80.374 | 214 | 37 | 5 | 3763 | 3973 | 354068961 | 354068750 | 1.590000e-34 | 158 |
26 | TraesCS2D01G058900 | chr6B | 76.699 | 309 | 54 | 17 | 1112 | 1411 | 594663776 | 594664075 | 5.710000e-34 | 156 |
27 | TraesCS2D01G058900 | chr1B | 82.222 | 180 | 22 | 9 | 3724 | 3900 | 587656537 | 587656365 | 3.440000e-31 | 147 |
28 | TraesCS2D01G058900 | chr7B | 76.812 | 207 | 36 | 12 | 3753 | 3951 | 317234587 | 317234789 | 5.830000e-19 | 106 |
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 | TraesCS2D01G058900 | chr2D | 23414076 | 23418339 | 4263 | False | 7875.000000 | 7875 | 100.000000 | 1 | 4264 | 1 | chr2D.!!$F1 | 4263 |
1 | TraesCS2D01G058900 | chr2A | 25347352 | 25350563 | 3211 | True | 1560.333333 | 2750 | 93.278667 | 965 | 4264 | 3 | chr2A.!!$R2 | 3299 |
2 | TraesCS2D01G058900 | chr2B | 36843274 | 36851101 | 7827 | True | 922.400000 | 1886 | 92.303200 | 758 | 4264 | 5 | chr2B.!!$R1 | 3506 |
3 | TraesCS2D01G058900 | chr3B | 740043072 | 740043778 | 706 | True | 1086.000000 | 1086 | 94.767000 | 1 | 691 | 1 | chr3B.!!$R1 | 690 |
4 | TraesCS2D01G058900 | chr3B | 786716396 | 786717085 | 689 | False | 1055.000000 | 1055 | 94.380000 | 1 | 687 | 1 | chr3B.!!$F1 | 686 |
5 | TraesCS2D01G058900 | chr7D | 549098176 | 549098876 | 700 | False | 948.000000 | 948 | 91.465000 | 1 | 685 | 1 | chr7D.!!$F2 | 684 |
6 | TraesCS2D01G058900 | chr7A | 20501218 | 20501914 | 696 | False | 937.000000 | 937 | 91.193000 | 1 | 689 | 1 | chr7A.!!$F1 | 688 |
7 | TraesCS2D01G058900 | chr4B | 91139142 | 91139837 | 695 | True | 900.000000 | 900 | 90.300000 | 1 | 686 | 1 | chr4B.!!$R1 | 685 |
8 | TraesCS2D01G058900 | chr4B | 634445494 | 634446103 | 609 | True | 852.000000 | 852 | 92.157000 | 87 | 686 | 1 | chr4B.!!$R2 | 599 |
9 | TraesCS2D01G058900 | chr4D | 61610376 | 61611073 | 697 | False | 891.000000 | 891 | 90.014000 | 1 | 686 | 1 | chr4D.!!$F1 | 685 |
10 | TraesCS2D01G058900 | chr3A | 746904829 | 746905495 | 666 | True | 544.500000 | 575 | 95.989500 | 1 | 688 | 2 | chr3A.!!$R1 | 687 |
11 | TraesCS2D01G058900 | chr5A | 4980619 | 4981282 | 663 | False | 556.500000 | 571 | 97.025000 | 1 | 687 | 2 | chr5A.!!$F1 | 686 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
678 | 701 | 0.687354 | TTGGTGCCTCTCTCTGTTCC | 59.313 | 55.000 | 0.00 | 0.0 | 0.00 | 3.62 | F |
1170 | 1193 | 0.250901 | TGCACCTCTTCAAGAAGCCC | 60.251 | 55.000 | 4.95 | 0.0 | 38.28 | 5.19 | F |
2020 | 2047 | 1.195448 | ACGAGCAAAGCATTCGTCAAG | 59.805 | 47.619 | 0.00 | 0.0 | 43.35 | 3.02 | F |
3101 | 6805 | 1.138859 | CTAGGCATGAACATGGTCGGA | 59.861 | 52.381 | 15.15 | 0.0 | 39.16 | 4.55 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2488 | 6168 | 1.583054 | AGCTGGTGAAACAGTTCGTC | 58.417 | 50.000 | 0.00 | 0.00 | 39.98 | 4.20 | R |
3029 | 6733 | 0.379669 | CGAATGGCAGCATCCACTTC | 59.620 | 55.000 | 0.00 | 4.83 | 39.25 | 3.01 | R |
3260 | 6964 | 0.107848 | CGCCCGTGTTCCTTTCCTAT | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 2.57 | R |
3924 | 8305 | 1.070601 | AGGGCATGGCAAAACAAACTC | 59.929 | 47.619 | 22.06 | 0.00 | 0.00 | 3.01 | 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 | 367 | 7.793927 | ATGTTCGAAGTTCTCTTTCTTCTTT | 57.206 | 32.000 | 0.00 | 0.00 | 38.20 | 2.52 |
678 | 701 | 0.687354 | TTGGTGCCTCTCTCTGTTCC | 59.313 | 55.000 | 0.00 | 0.00 | 0.00 | 3.62 |
707 | 730 | 5.975693 | AAAAAGCGTAGATGGAATTTGGA | 57.024 | 34.783 | 0.00 | 0.00 | 0.00 | 3.53 |
708 | 731 | 6.530019 | AAAAAGCGTAGATGGAATTTGGAT | 57.470 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
709 | 732 | 6.530019 | AAAAGCGTAGATGGAATTTGGATT | 57.470 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
710 | 733 | 6.530019 | AAAGCGTAGATGGAATTTGGATTT | 57.470 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
711 | 734 | 5.505173 | AGCGTAGATGGAATTTGGATTTG | 57.495 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
712 | 735 | 5.192927 | AGCGTAGATGGAATTTGGATTTGA | 58.807 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
713 | 736 | 5.297776 | AGCGTAGATGGAATTTGGATTTGAG | 59.702 | 40.000 | 0.00 | 0.00 | 0.00 | 3.02 |
714 | 737 | 5.506317 | GCGTAGATGGAATTTGGATTTGAGG | 60.506 | 44.000 | 0.00 | 0.00 | 0.00 | 3.86 |
715 | 738 | 5.590259 | CGTAGATGGAATTTGGATTTGAGGT | 59.410 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
716 | 739 | 6.238484 | CGTAGATGGAATTTGGATTTGAGGTC | 60.238 | 42.308 | 0.00 | 0.00 | 0.00 | 3.85 |
717 | 740 | 5.835582 | AGATGGAATTTGGATTTGAGGTCT | 58.164 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
718 | 741 | 6.259123 | AGATGGAATTTGGATTTGAGGTCTT | 58.741 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
719 | 742 | 7.413446 | AGATGGAATTTGGATTTGAGGTCTTA | 58.587 | 34.615 | 0.00 | 0.00 | 0.00 | 2.10 |
720 | 743 | 8.063770 | AGATGGAATTTGGATTTGAGGTCTTAT | 58.936 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
721 | 744 | 9.354673 | GATGGAATTTGGATTTGAGGTCTTATA | 57.645 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
722 | 745 | 8.752005 | TGGAATTTGGATTTGAGGTCTTATAG | 57.248 | 34.615 | 0.00 | 0.00 | 0.00 | 1.31 |
723 | 746 | 7.285401 | TGGAATTTGGATTTGAGGTCTTATAGC | 59.715 | 37.037 | 0.00 | 0.00 | 0.00 | 2.97 |
724 | 747 | 6.867662 | ATTTGGATTTGAGGTCTTATAGCG | 57.132 | 37.500 | 0.00 | 0.00 | 0.00 | 4.26 |
725 | 748 | 5.353394 | TTGGATTTGAGGTCTTATAGCGT | 57.647 | 39.130 | 0.00 | 0.00 | 0.00 | 5.07 |
726 | 749 | 4.693283 | TGGATTTGAGGTCTTATAGCGTG | 58.307 | 43.478 | 0.00 | 0.00 | 0.00 | 5.34 |
727 | 750 | 4.058817 | GGATTTGAGGTCTTATAGCGTGG | 58.941 | 47.826 | 0.00 | 0.00 | 0.00 | 4.94 |
728 | 751 | 4.443034 | GGATTTGAGGTCTTATAGCGTGGT | 60.443 | 45.833 | 0.00 | 0.00 | 0.00 | 4.16 |
729 | 752 | 5.221382 | GGATTTGAGGTCTTATAGCGTGGTA | 60.221 | 44.000 | 0.00 | 0.00 | 0.00 | 3.25 |
730 | 753 | 5.664294 | TTTGAGGTCTTATAGCGTGGTAA | 57.336 | 39.130 | 0.00 | 0.00 | 0.00 | 2.85 |
731 | 754 | 5.664294 | TTGAGGTCTTATAGCGTGGTAAA | 57.336 | 39.130 | 0.00 | 0.00 | 0.00 | 2.01 |
732 | 755 | 5.864418 | TGAGGTCTTATAGCGTGGTAAAT | 57.136 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
733 | 756 | 6.964807 | TGAGGTCTTATAGCGTGGTAAATA | 57.035 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
734 | 757 | 6.742109 | TGAGGTCTTATAGCGTGGTAAATAC | 58.258 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
735 | 758 | 6.321945 | TGAGGTCTTATAGCGTGGTAAATACA | 59.678 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
736 | 759 | 7.014905 | TGAGGTCTTATAGCGTGGTAAATACAT | 59.985 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
737 | 760 | 7.376615 | AGGTCTTATAGCGTGGTAAATACATC | 58.623 | 38.462 | 0.00 | 0.00 | 0.00 | 3.06 |
738 | 761 | 7.014905 | AGGTCTTATAGCGTGGTAAATACATCA | 59.985 | 37.037 | 0.00 | 0.00 | 0.00 | 3.07 |
739 | 762 | 7.817962 | GGTCTTATAGCGTGGTAAATACATCAT | 59.182 | 37.037 | 0.00 | 0.00 | 0.00 | 2.45 |
740 | 763 | 9.850628 | GTCTTATAGCGTGGTAAATACATCATA | 57.149 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
743 | 766 | 5.862924 | AGCGTGGTAAATACATCATATGC | 57.137 | 39.130 | 0.00 | 0.00 | 0.00 | 3.14 |
744 | 767 | 5.304778 | AGCGTGGTAAATACATCATATGCA | 58.695 | 37.500 | 0.00 | 0.00 | 0.00 | 3.96 |
745 | 768 | 5.939883 | AGCGTGGTAAATACATCATATGCAT | 59.060 | 36.000 | 3.79 | 3.79 | 0.00 | 3.96 |
746 | 769 | 6.092670 | AGCGTGGTAAATACATCATATGCATC | 59.907 | 38.462 | 0.19 | 0.00 | 0.00 | 3.91 |
747 | 770 | 6.128309 | GCGTGGTAAATACATCATATGCATCA | 60.128 | 38.462 | 0.19 | 0.00 | 0.00 | 3.07 |
748 | 771 | 7.414429 | GCGTGGTAAATACATCATATGCATCAT | 60.414 | 37.037 | 0.19 | 0.00 | 0.00 | 2.45 |
749 | 772 | 8.453320 | CGTGGTAAATACATCATATGCATCATT | 58.547 | 33.333 | 0.19 | 0.00 | 0.00 | 2.57 |
750 | 773 | 9.563898 | GTGGTAAATACATCATATGCATCATTG | 57.436 | 33.333 | 0.19 | 0.00 | 0.00 | 2.82 |
751 | 774 | 9.517868 | TGGTAAATACATCATATGCATCATTGA | 57.482 | 29.630 | 0.19 | 5.89 | 0.00 | 2.57 |
752 | 775 | 9.999009 | GGTAAATACATCATATGCATCATTGAG | 57.001 | 33.333 | 0.19 | 2.96 | 0.00 | 3.02 |
756 | 779 | 9.907229 | AATACATCATATGCATCATTGAGATCT | 57.093 | 29.630 | 0.19 | 0.00 | 33.72 | 2.75 |
768 | 791 | 8.136165 | GCATCATTGAGATCTTGATTTTTAGCT | 58.864 | 33.333 | 5.77 | 0.00 | 33.72 | 3.32 |
796 | 819 | 8.877864 | TTTACCTTGATGATGTCCAACTAATT | 57.122 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
797 | 820 | 9.967451 | TTTACCTTGATGATGTCCAACTAATTA | 57.033 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
798 | 821 | 9.967451 | TTACCTTGATGATGTCCAACTAATTAA | 57.033 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
799 | 822 | 8.511604 | ACCTTGATGATGTCCAACTAATTAAG | 57.488 | 34.615 | 0.00 | 0.00 | 0.00 | 1.85 |
803 | 826 | 9.613428 | TTGATGATGTCCAACTAATTAAGGTAG | 57.387 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
808 | 831 | 5.047164 | TGTCCAACTAATTAAGGTAGACGCA | 60.047 | 40.000 | 3.58 | 0.00 | 0.00 | 5.24 |
852 | 875 | 1.375396 | CAAATGGCCGTCCACGAGA | 60.375 | 57.895 | 0.00 | 0.00 | 46.92 | 4.04 |
855 | 878 | 2.311688 | AATGGCCGTCCACGAGATCC | 62.312 | 60.000 | 0.00 | 0.00 | 46.92 | 3.36 |
920 | 943 | 1.066430 | AGCGCGAGTGGATTTTTCCTA | 60.066 | 47.619 | 12.10 | 0.00 | 0.00 | 2.94 |
924 | 947 | 3.676324 | CGCGAGTGGATTTTTCCTACTCT | 60.676 | 47.826 | 0.00 | 3.04 | 36.59 | 3.24 |
926 | 949 | 5.044558 | GCGAGTGGATTTTTCCTACTCTAG | 58.955 | 45.833 | 15.86 | 0.00 | 36.59 | 2.43 |
975 | 998 | 2.279517 | CAGCCTATCGCGTCACCC | 60.280 | 66.667 | 5.77 | 0.00 | 44.76 | 4.61 |
995 | 1018 | 1.144936 | CGCTGACCTCCAAGATCCC | 59.855 | 63.158 | 0.00 | 0.00 | 0.00 | 3.85 |
1063 | 1086 | 1.074423 | ACGGTCCTCTTCGTCCTCA | 59.926 | 57.895 | 0.00 | 0.00 | 34.20 | 3.86 |
1170 | 1193 | 0.250901 | TGCACCTCTTCAAGAAGCCC | 60.251 | 55.000 | 4.95 | 0.00 | 38.28 | 5.19 |
1263 | 1286 | 2.954684 | GCTCCATGTCACCGACCCA | 61.955 | 63.158 | 0.00 | 0.00 | 0.00 | 4.51 |
1659 | 1682 | 3.673597 | TCGGAGGTGGAGGAGGCT | 61.674 | 66.667 | 0.00 | 0.00 | 0.00 | 4.58 |
1661 | 1684 | 3.086600 | GGAGGTGGAGGAGGCTGG | 61.087 | 72.222 | 0.00 | 0.00 | 0.00 | 4.85 |
1839 | 1862 | 2.125350 | GAGCACCTCGCCTCCTTG | 60.125 | 66.667 | 0.00 | 0.00 | 44.04 | 3.61 |
1847 | 1870 | 1.667154 | CTCGCCTCCTTGGACGATGA | 61.667 | 60.000 | 3.44 | 0.00 | 41.11 | 2.92 |
1856 | 1879 | 1.320344 | TTGGACGATGACGAGGGGAG | 61.320 | 60.000 | 0.00 | 0.00 | 42.66 | 4.30 |
1967 | 1990 | 2.828520 | TCTGCCTGGTGAGTAGAAGAAG | 59.171 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2020 | 2047 | 1.195448 | ACGAGCAAAGCATTCGTCAAG | 59.805 | 47.619 | 0.00 | 0.00 | 43.35 | 3.02 |
2028 | 2646 | 5.220098 | GCAAAGCATTCGTCAAGCTATTTTC | 60.220 | 40.000 | 0.00 | 0.00 | 37.70 | 2.29 |
2162 | 3001 | 2.489329 | CCACTGACTTGGTTGGCTATTG | 59.511 | 50.000 | 0.00 | 0.00 | 0.00 | 1.90 |
2171 | 5458 | 6.016555 | ACTTGGTTGGCTATTGAATTAGGTT | 58.983 | 36.000 | 0.00 | 0.00 | 0.00 | 3.50 |
2286 | 5811 | 2.695359 | TGCCGGACAGACTTTTATGTC | 58.305 | 47.619 | 5.05 | 0.00 | 44.10 | 3.06 |
2337 | 5863 | 1.335872 | ACTTTGCGGCAAATGCAGTAC | 60.336 | 47.619 | 26.56 | 0.00 | 44.28 | 2.73 |
2342 | 5868 | 3.536570 | TGCGGCAAATGCAGTACTATTA | 58.463 | 40.909 | 0.00 | 0.00 | 44.36 | 0.98 |
2343 | 5869 | 4.133820 | TGCGGCAAATGCAGTACTATTAT | 58.866 | 39.130 | 0.00 | 0.00 | 44.36 | 1.28 |
2345 | 5871 | 4.024048 | GCGGCAAATGCAGTACTATTATGT | 60.024 | 41.667 | 7.80 | 0.00 | 44.36 | 2.29 |
2346 | 5872 | 5.178623 | GCGGCAAATGCAGTACTATTATGTA | 59.821 | 40.000 | 7.80 | 0.00 | 44.36 | 2.29 |
2347 | 5873 | 6.618592 | GCGGCAAATGCAGTACTATTATGTAG | 60.619 | 42.308 | 7.80 | 0.00 | 44.36 | 2.74 |
2348 | 5874 | 6.423905 | CGGCAAATGCAGTACTATTATGTAGT | 59.576 | 38.462 | 7.80 | 0.00 | 44.36 | 2.73 |
2349 | 5875 | 7.359264 | CGGCAAATGCAGTACTATTATGTAGTC | 60.359 | 40.741 | 7.80 | 0.00 | 44.36 | 2.59 |
2350 | 5876 | 7.095187 | GGCAAATGCAGTACTATTATGTAGTCC | 60.095 | 40.741 | 7.80 | 0.00 | 44.36 | 3.85 |
2351 | 5877 | 7.441157 | GCAAATGCAGTACTATTATGTAGTCCA | 59.559 | 37.037 | 0.00 | 0.00 | 41.59 | 4.02 |
2352 | 5878 | 9.494271 | CAAATGCAGTACTATTATGTAGTCCAT | 57.506 | 33.333 | 0.00 | 0.00 | 37.58 | 3.41 |
2353 | 5879 | 9.494271 | AAATGCAGTACTATTATGTAGTCCATG | 57.506 | 33.333 | 0.00 | 0.00 | 34.86 | 3.66 |
2354 | 5880 | 7.597288 | TGCAGTACTATTATGTAGTCCATGT | 57.403 | 36.000 | 0.00 | 0.00 | 34.86 | 3.21 |
2355 | 5881 | 7.433680 | TGCAGTACTATTATGTAGTCCATGTG | 58.566 | 38.462 | 0.00 | 0.00 | 34.86 | 3.21 |
2356 | 5882 | 7.069455 | TGCAGTACTATTATGTAGTCCATGTGT | 59.931 | 37.037 | 0.00 | 0.00 | 34.86 | 3.72 |
2364 | 5890 | 8.752005 | ATTATGTAGTCCATGTGTTTTGCTAT | 57.248 | 30.769 | 0.00 | 0.00 | 34.86 | 2.97 |
2422 | 6073 | 3.193267 | GTGCATGACATGTGGGTAACAAT | 59.807 | 43.478 | 16.62 | 0.00 | 43.61 | 2.71 |
2538 | 6218 | 6.203723 | CGATTTCCCAGGACTTCTATTGATTC | 59.796 | 42.308 | 0.00 | 0.00 | 0.00 | 2.52 |
2542 | 6222 | 4.502259 | CCCAGGACTTCTATTGATTCCTCG | 60.502 | 50.000 | 5.26 | 0.82 | 34.58 | 4.63 |
2552 | 6232 | 2.315925 | TGATTCCTCGGAGCACATTC | 57.684 | 50.000 | 0.00 | 0.00 | 0.00 | 2.67 |
2576 | 6256 | 4.576216 | AAATCACATTGTGCCGTTACAA | 57.424 | 36.364 | 12.04 | 4.49 | 43.93 | 2.41 |
2610 | 6314 | 2.343101 | TCCTTAACGCACTGCACATAC | 58.657 | 47.619 | 1.11 | 0.00 | 0.00 | 2.39 |
2669 | 6373 | 1.523154 | GCATCCTTCAAACCGGCACA | 61.523 | 55.000 | 0.00 | 0.00 | 0.00 | 4.57 |
2867 | 6571 | 4.489771 | CCAATCGCCCCGCTCCTT | 62.490 | 66.667 | 0.00 | 0.00 | 0.00 | 3.36 |
3016 | 6720 | 1.301677 | CCAGAGAGGTTTGAAGGCGC | 61.302 | 60.000 | 0.00 | 0.00 | 0.00 | 6.53 |
3101 | 6805 | 1.138859 | CTAGGCATGAACATGGTCGGA | 59.861 | 52.381 | 15.15 | 0.00 | 39.16 | 4.55 |
3104 | 6808 | 1.453155 | GCATGAACATGGTCGGACTT | 58.547 | 50.000 | 15.15 | 0.00 | 39.16 | 3.01 |
3149 | 6853 | 2.037527 | GAGTGGAGGAGGGTCGGT | 59.962 | 66.667 | 0.00 | 0.00 | 0.00 | 4.69 |
3177 | 6881 | 1.598701 | GGTTGACATGGCTGAAGGGC | 61.599 | 60.000 | 0.00 | 0.00 | 41.27 | 5.19 |
3279 | 6983 | 0.107848 | ATAGGAAAGGAACACGGGCG | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
3324 | 7028 | 6.750039 | CACTAATAAAAACGCAATTTCGGGAT | 59.250 | 34.615 | 1.93 | 0.00 | 0.00 | 3.85 |
3378 | 7082 | 6.466812 | TCATCAACTGCTCTTAATCACAAGA | 58.533 | 36.000 | 0.00 | 0.00 | 33.55 | 3.02 |
3406 | 7110 | 6.270927 | ACCATGTAGAATGTATACTCCAGCAT | 59.729 | 38.462 | 4.17 | 0.00 | 0.00 | 3.79 |
3409 | 7113 | 7.360113 | TGTAGAATGTATACTCCAGCATGAA | 57.640 | 36.000 | 4.17 | 0.00 | 39.69 | 2.57 |
3492 | 7196 | 6.967767 | CAGTACTTCTTAGTTCGTACCAGATG | 59.032 | 42.308 | 0.00 | 0.00 | 35.78 | 2.90 |
3546 | 7250 | 1.550976 | AGGGAGAAGCGACGAAGAAAT | 59.449 | 47.619 | 0.00 | 0.00 | 0.00 | 2.17 |
3550 | 7254 | 3.548268 | GGAGAAGCGACGAAGAAATACTG | 59.452 | 47.826 | 0.00 | 0.00 | 0.00 | 2.74 |
3658 | 8035 | 6.806739 | GGAGCACCTAAACATGATACAAAAAC | 59.193 | 38.462 | 0.00 | 0.00 | 0.00 | 2.43 |
3673 | 8050 | 7.504238 | TGATACAAAAACAAAGTCAGGTATGGT | 59.496 | 33.333 | 0.00 | 0.00 | 0.00 | 3.55 |
3678 | 8055 | 7.891498 | AAAACAAAGTCAGGTATGGTTACTT | 57.109 | 32.000 | 0.00 | 0.00 | 31.94 | 2.24 |
3706 | 8086 | 6.201425 | GCATGTCCATGTTTTAATAGCAATGG | 59.799 | 38.462 | 8.91 | 0.00 | 40.80 | 3.16 |
3735 | 8115 | 6.719370 | ACTTCATAAGCAATAAACTTGGACCA | 59.281 | 34.615 | 0.00 | 0.00 | 0.00 | 4.02 |
3749 | 8129 | 0.173708 | GGACCACTAGAACCAGCGAG | 59.826 | 60.000 | 0.00 | 0.00 | 0.00 | 5.03 |
3751 | 8131 | 0.900647 | ACCACTAGAACCAGCGAGCT | 60.901 | 55.000 | 0.00 | 0.00 | 0.00 | 4.09 |
3789 | 8169 | 5.658468 | TGGCAAATGCGAATGATTTTCATA | 58.342 | 33.333 | 0.00 | 0.00 | 43.26 | 2.15 |
3839 | 8219 | 4.540359 | TTTCTTTAGCAAGCATGGCAAT | 57.460 | 36.364 | 0.00 | 0.00 | 37.68 | 3.56 |
3840 | 8220 | 3.788333 | TCTTTAGCAAGCATGGCAATC | 57.212 | 42.857 | 0.00 | 0.00 | 37.68 | 2.67 |
3841 | 8221 | 3.359033 | TCTTTAGCAAGCATGGCAATCT | 58.641 | 40.909 | 0.00 | 0.00 | 37.68 | 2.40 |
3842 | 8222 | 3.129813 | TCTTTAGCAAGCATGGCAATCTG | 59.870 | 43.478 | 0.00 | 0.00 | 37.68 | 2.90 |
3858 | 8239 | 4.301628 | CAATCTGCCCAGTTCAGTTTTTC | 58.698 | 43.478 | 0.00 | 0.00 | 33.48 | 2.29 |
3866 | 8247 | 4.495844 | CCCAGTTCAGTTTTTCGTCAGAAC | 60.496 | 45.833 | 0.00 | 0.00 | 35.86 | 3.01 |
3870 | 8251 | 5.642063 | AGTTCAGTTTTTCGTCAGAACTTGA | 59.358 | 36.000 | 0.00 | 0.00 | 41.90 | 3.02 |
3901 | 8282 | 4.397417 | CCTGAAGGAATTTGACATCCTCAC | 59.603 | 45.833 | 0.00 | 0.00 | 45.33 | 3.51 |
3902 | 8283 | 4.984295 | TGAAGGAATTTGACATCCTCACA | 58.016 | 39.130 | 0.00 | 0.00 | 45.33 | 3.58 |
3924 | 8305 | 8.986847 | TCACAACAACATAAATTGCCATAAAAG | 58.013 | 29.630 | 0.00 | 0.00 | 32.47 | 2.27 |
4039 | 8422 | 5.126545 | GGTAGTCTCTGGTTTGTTTGGTTTT | 59.873 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
4040 | 8423 | 5.072040 | AGTCTCTGGTTTGTTTGGTTTTG | 57.928 | 39.130 | 0.00 | 0.00 | 0.00 | 2.44 |
4041 | 8424 | 4.081697 | AGTCTCTGGTTTGTTTGGTTTTGG | 60.082 | 41.667 | 0.00 | 0.00 | 0.00 | 3.28 |
4042 | 8425 | 3.835395 | TCTCTGGTTTGTTTGGTTTTGGT | 59.165 | 39.130 | 0.00 | 0.00 | 0.00 | 3.67 |
4043 | 8426 | 4.284746 | TCTCTGGTTTGTTTGGTTTTGGTT | 59.715 | 37.500 | 0.00 | 0.00 | 0.00 | 3.67 |
4044 | 8427 | 4.974399 | TCTGGTTTGTTTGGTTTTGGTTT | 58.026 | 34.783 | 0.00 | 0.00 | 0.00 | 3.27 |
4085 | 8468 | 1.110518 | GGGCGGGACCTTGTTTTTCA | 61.111 | 55.000 | 0.00 | 0.00 | 39.10 | 2.69 |
4144 | 8544 | 5.305644 | AGTCACTCAACTGAGACCAATAAGT | 59.694 | 40.000 | 13.61 | 0.00 | 44.74 | 2.24 |
4225 | 8628 | 2.233431 | GCCACAAATATTGACAGCCCAA | 59.767 | 45.455 | 0.00 | 0.00 | 0.00 | 4.12 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
347 | 367 | 5.744171 | TCCAATAGCTTGCATCAAGTTCTA | 58.256 | 37.500 | 8.18 | 3.31 | 42.77 | 2.10 |
465 | 485 | 2.948315 | GGCAGCCTAAAGAAGAAGATGG | 59.052 | 50.000 | 3.29 | 0.00 | 0.00 | 3.51 |
690 | 713 | 5.499139 | TCAAATCCAAATTCCATCTACGC | 57.501 | 39.130 | 0.00 | 0.00 | 0.00 | 4.42 |
691 | 714 | 5.590259 | ACCTCAAATCCAAATTCCATCTACG | 59.410 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
692 | 715 | 6.830838 | AGACCTCAAATCCAAATTCCATCTAC | 59.169 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
693 | 716 | 6.973642 | AGACCTCAAATCCAAATTCCATCTA | 58.026 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
694 | 717 | 5.835582 | AGACCTCAAATCCAAATTCCATCT | 58.164 | 37.500 | 0.00 | 0.00 | 0.00 | 2.90 |
695 | 718 | 6.535963 | AAGACCTCAAATCCAAATTCCATC | 57.464 | 37.500 | 0.00 | 0.00 | 0.00 | 3.51 |
696 | 719 | 9.359653 | CTATAAGACCTCAAATCCAAATTCCAT | 57.640 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
697 | 720 | 7.285401 | GCTATAAGACCTCAAATCCAAATTCCA | 59.715 | 37.037 | 0.00 | 0.00 | 0.00 | 3.53 |
698 | 721 | 7.520614 | CGCTATAAGACCTCAAATCCAAATTCC | 60.521 | 40.741 | 0.00 | 0.00 | 0.00 | 3.01 |
699 | 722 | 7.012421 | ACGCTATAAGACCTCAAATCCAAATTC | 59.988 | 37.037 | 0.00 | 0.00 | 0.00 | 2.17 |
700 | 723 | 6.828785 | ACGCTATAAGACCTCAAATCCAAATT | 59.171 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
701 | 724 | 6.260936 | CACGCTATAAGACCTCAAATCCAAAT | 59.739 | 38.462 | 0.00 | 0.00 | 0.00 | 2.32 |
702 | 725 | 5.584649 | CACGCTATAAGACCTCAAATCCAAA | 59.415 | 40.000 | 0.00 | 0.00 | 0.00 | 3.28 |
703 | 726 | 5.116180 | CACGCTATAAGACCTCAAATCCAA | 58.884 | 41.667 | 0.00 | 0.00 | 0.00 | 3.53 |
704 | 727 | 4.442893 | CCACGCTATAAGACCTCAAATCCA | 60.443 | 45.833 | 0.00 | 0.00 | 0.00 | 3.41 |
705 | 728 | 4.058817 | CCACGCTATAAGACCTCAAATCC | 58.941 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
706 | 729 | 4.694339 | ACCACGCTATAAGACCTCAAATC | 58.306 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
707 | 730 | 4.755266 | ACCACGCTATAAGACCTCAAAT | 57.245 | 40.909 | 0.00 | 0.00 | 0.00 | 2.32 |
708 | 731 | 5.664294 | TTACCACGCTATAAGACCTCAAA | 57.336 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
709 | 732 | 5.664294 | TTTACCACGCTATAAGACCTCAA | 57.336 | 39.130 | 0.00 | 0.00 | 0.00 | 3.02 |
710 | 733 | 5.864418 | ATTTACCACGCTATAAGACCTCA | 57.136 | 39.130 | 0.00 | 0.00 | 0.00 | 3.86 |
711 | 734 | 6.742109 | TGTATTTACCACGCTATAAGACCTC | 58.258 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
712 | 735 | 6.720112 | TGTATTTACCACGCTATAAGACCT | 57.280 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
713 | 736 | 7.149973 | TGATGTATTTACCACGCTATAAGACC | 58.850 | 38.462 | 0.00 | 0.00 | 0.00 | 3.85 |
714 | 737 | 8.758633 | ATGATGTATTTACCACGCTATAAGAC | 57.241 | 34.615 | 0.00 | 0.00 | 0.00 | 3.01 |
717 | 740 | 9.093970 | GCATATGATGTATTTACCACGCTATAA | 57.906 | 33.333 | 6.97 | 0.00 | 0.00 | 0.98 |
718 | 741 | 8.254508 | TGCATATGATGTATTTACCACGCTATA | 58.745 | 33.333 | 6.97 | 0.00 | 0.00 | 1.31 |
719 | 742 | 7.102993 | TGCATATGATGTATTTACCACGCTAT | 58.897 | 34.615 | 6.97 | 0.00 | 0.00 | 2.97 |
720 | 743 | 6.459923 | TGCATATGATGTATTTACCACGCTA | 58.540 | 36.000 | 6.97 | 0.00 | 0.00 | 4.26 |
721 | 744 | 5.304778 | TGCATATGATGTATTTACCACGCT | 58.695 | 37.500 | 6.97 | 0.00 | 0.00 | 5.07 |
722 | 745 | 5.605564 | TGCATATGATGTATTTACCACGC | 57.394 | 39.130 | 6.97 | 0.00 | 0.00 | 5.34 |
723 | 746 | 7.363205 | TGATGCATATGATGTATTTACCACG | 57.637 | 36.000 | 6.97 | 0.00 | 35.68 | 4.94 |
724 | 747 | 9.563898 | CAATGATGCATATGATGTATTTACCAC | 57.436 | 33.333 | 6.97 | 0.00 | 35.68 | 4.16 |
725 | 748 | 9.517868 | TCAATGATGCATATGATGTATTTACCA | 57.482 | 29.630 | 6.97 | 0.00 | 35.68 | 3.25 |
726 | 749 | 9.999009 | CTCAATGATGCATATGATGTATTTACC | 57.001 | 33.333 | 6.97 | 0.00 | 35.68 | 2.85 |
730 | 753 | 9.907229 | AGATCTCAATGATGCATATGATGTATT | 57.093 | 29.630 | 6.97 | 0.00 | 35.68 | 1.89 |
731 | 754 | 9.907229 | AAGATCTCAATGATGCATATGATGTAT | 57.093 | 29.630 | 6.97 | 0.00 | 38.33 | 2.29 |
732 | 755 | 9.162764 | CAAGATCTCAATGATGCATATGATGTA | 57.837 | 33.333 | 6.97 | 0.00 | 35.14 | 2.29 |
733 | 756 | 7.883311 | TCAAGATCTCAATGATGCATATGATGT | 59.117 | 33.333 | 6.97 | 0.00 | 35.14 | 3.06 |
734 | 757 | 8.268850 | TCAAGATCTCAATGATGCATATGATG | 57.731 | 34.615 | 6.97 | 0.57 | 35.14 | 3.07 |
735 | 758 | 9.467796 | AATCAAGATCTCAATGATGCATATGAT | 57.532 | 29.630 | 6.97 | 1.41 | 35.14 | 2.45 |
736 | 759 | 8.863872 | AATCAAGATCTCAATGATGCATATGA | 57.136 | 30.769 | 6.97 | 4.12 | 35.14 | 2.15 |
737 | 760 | 9.914131 | AAAATCAAGATCTCAATGATGCATATG | 57.086 | 29.630 | 8.77 | 0.00 | 35.14 | 1.78 |
740 | 763 | 9.967346 | CTAAAAATCAAGATCTCAATGATGCAT | 57.033 | 29.630 | 8.77 | 0.00 | 35.14 | 3.96 |
741 | 764 | 7.919091 | GCTAAAAATCAAGATCTCAATGATGCA | 59.081 | 33.333 | 8.77 | 0.00 | 35.14 | 3.96 |
742 | 765 | 8.136165 | AGCTAAAAATCAAGATCTCAATGATGC | 58.864 | 33.333 | 8.77 | 7.71 | 35.14 | 3.91 |
768 | 791 | 9.967451 | TTAGTTGGACATCATCAAGGTAAATAA | 57.033 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
776 | 799 | 8.511604 | ACCTTAATTAGTTGGACATCATCAAG | 57.488 | 34.615 | 7.83 | 0.00 | 0.00 | 3.02 |
778 | 801 | 8.988060 | TCTACCTTAATTAGTTGGACATCATCA | 58.012 | 33.333 | 7.83 | 0.00 | 0.00 | 3.07 |
796 | 819 | 4.459390 | TGCTTTACATGCGTCTACCTTA | 57.541 | 40.909 | 0.00 | 0.00 | 0.00 | 2.69 |
797 | 820 | 3.328382 | TGCTTTACATGCGTCTACCTT | 57.672 | 42.857 | 0.00 | 0.00 | 0.00 | 3.50 |
798 | 821 | 3.328382 | TTGCTTTACATGCGTCTACCT | 57.672 | 42.857 | 0.00 | 0.00 | 0.00 | 3.08 |
799 | 822 | 4.094294 | TCATTTGCTTTACATGCGTCTACC | 59.906 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
803 | 826 | 4.340894 | TCTCATTTGCTTTACATGCGTC | 57.659 | 40.909 | 0.00 | 0.00 | 0.00 | 5.19 |
852 | 875 | 0.905357 | AACAAGAGGCTAGTGCGGAT | 59.095 | 50.000 | 0.00 | 0.00 | 40.82 | 4.18 |
855 | 878 | 3.932710 | TGATTAAACAAGAGGCTAGTGCG | 59.067 | 43.478 | 0.00 | 0.00 | 40.82 | 5.34 |
920 | 943 | 0.825840 | GGAGGAGATGCGCCTAGAGT | 60.826 | 60.000 | 4.18 | 0.00 | 32.83 | 3.24 |
924 | 947 | 1.381191 | TGTGGAGGAGATGCGCCTA | 60.381 | 57.895 | 4.18 | 0.00 | 32.83 | 3.93 |
926 | 949 | 2.512515 | GTGTGGAGGAGATGCGCC | 60.513 | 66.667 | 4.18 | 0.00 | 0.00 | 6.53 |
975 | 998 | 0.103937 | GGATCTTGGAGGTCAGCGAG | 59.896 | 60.000 | 0.00 | 0.00 | 0.00 | 5.03 |
1263 | 1286 | 4.749310 | CACTCTTCGGCTGCGGCT | 62.749 | 66.667 | 18.85 | 0.00 | 38.73 | 5.52 |
1269 | 1292 | 2.659610 | GTCAGGCACTCTTCGGCT | 59.340 | 61.111 | 0.00 | 0.00 | 34.60 | 5.52 |
1491 | 1514 | 3.141488 | GCGGCCTCGAGGAAGAGA | 61.141 | 66.667 | 35.69 | 0.00 | 40.57 | 3.10 |
1582 | 1605 | 2.281070 | GATCATCCGCGCCACCAT | 60.281 | 61.111 | 0.00 | 0.00 | 0.00 | 3.55 |
1649 | 1672 | 4.664267 | ACCTGCCAGCCTCCTCCA | 62.664 | 66.667 | 0.00 | 0.00 | 0.00 | 3.86 |
1659 | 1682 | 2.285368 | ATCTCCCGGAACCTGCCA | 60.285 | 61.111 | 0.73 | 0.00 | 0.00 | 4.92 |
1661 | 1684 | 2.190578 | CCATCTCCCGGAACCTGC | 59.809 | 66.667 | 0.73 | 0.00 | 0.00 | 4.85 |
1704 | 1727 | 4.329545 | TCCTGCAGGTTGGACGCC | 62.330 | 66.667 | 31.58 | 0.00 | 36.34 | 5.68 |
1740 | 1763 | 4.758251 | CCGCCGATGTCCAGCACA | 62.758 | 66.667 | 0.00 | 0.00 | 40.18 | 4.57 |
1783 | 1806 | 4.735132 | CTCGTTGCGCTTCCGGGA | 62.735 | 66.667 | 9.73 | 0.00 | 34.32 | 5.14 |
1829 | 1852 | 1.680989 | TCATCGTCCAAGGAGGCGA | 60.681 | 57.895 | 3.98 | 4.30 | 45.31 | 5.54 |
1839 | 1862 | 2.491022 | CCTCCCCTCGTCATCGTCC | 61.491 | 68.421 | 0.00 | 0.00 | 38.33 | 4.79 |
2020 | 2047 | 9.855021 | TTGTATAAAAAGCAAGGAGAAAATAGC | 57.145 | 29.630 | 0.00 | 0.00 | 0.00 | 2.97 |
2236 | 5523 | 4.547886 | ATTTGGATGTGGATGGGAAGAT | 57.452 | 40.909 | 0.00 | 0.00 | 0.00 | 2.40 |
2300 | 5825 | 7.570324 | GCCGCAAAGTATTTTAAAATTGCTTCA | 60.570 | 33.333 | 23.97 | 5.43 | 35.03 | 3.02 |
2301 | 5826 | 6.736405 | GCCGCAAAGTATTTTAAAATTGCTTC | 59.264 | 34.615 | 23.97 | 15.96 | 35.03 | 3.86 |
2302 | 5827 | 6.203723 | TGCCGCAAAGTATTTTAAAATTGCTT | 59.796 | 30.769 | 23.97 | 20.70 | 35.03 | 3.91 |
2337 | 5863 | 8.213518 | AGCAAAACACATGGACTACATAATAG | 57.786 | 34.615 | 0.00 | 0.00 | 37.84 | 1.73 |
2342 | 5868 | 6.658816 | TCAATAGCAAAACACATGGACTACAT | 59.341 | 34.615 | 0.00 | 0.00 | 41.57 | 2.29 |
2343 | 5869 | 6.000840 | TCAATAGCAAAACACATGGACTACA | 58.999 | 36.000 | 0.00 | 0.00 | 0.00 | 2.74 |
2345 | 5871 | 7.701539 | AATCAATAGCAAAACACATGGACTA | 57.298 | 32.000 | 0.00 | 0.00 | 0.00 | 2.59 |
2346 | 5872 | 6.594788 | AATCAATAGCAAAACACATGGACT | 57.405 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
2347 | 5873 | 7.656707 | AAAATCAATAGCAAAACACATGGAC | 57.343 | 32.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2422 | 6073 | 8.588472 | CATAATGTGGATAATCTGGTAGACTGA | 58.412 | 37.037 | 0.00 | 0.00 | 0.00 | 3.41 |
2488 | 6168 | 1.583054 | AGCTGGTGAAACAGTTCGTC | 58.417 | 50.000 | 0.00 | 0.00 | 39.98 | 4.20 |
2491 | 6171 | 3.793465 | GCAAGAAGCTGGTGAAACAGTTC | 60.793 | 47.826 | 0.00 | 0.83 | 40.59 | 3.01 |
2538 | 6218 | 4.024556 | GTGATTTATGAATGTGCTCCGAGG | 60.025 | 45.833 | 0.00 | 0.00 | 0.00 | 4.63 |
2542 | 6222 | 6.474427 | CACAATGTGATTTATGAATGTGCTCC | 59.526 | 38.462 | 7.78 | 0.00 | 35.23 | 4.70 |
2552 | 6232 | 5.635866 | TGTAACGGCACAATGTGATTTATG | 58.364 | 37.500 | 18.66 | 1.84 | 35.23 | 1.90 |
2594 | 6298 | 2.156343 | TGTGTATGTGCAGTGCGTTA | 57.844 | 45.000 | 11.20 | 0.00 | 0.00 | 3.18 |
2598 | 6302 | 2.226200 | TGTTGATGTGTATGTGCAGTGC | 59.774 | 45.455 | 8.58 | 8.58 | 0.00 | 4.40 |
2610 | 6314 | 3.687698 | TGACATGATGAGCTGTTGATGTG | 59.312 | 43.478 | 0.00 | 0.00 | 0.00 | 3.21 |
2746 | 6450 | 2.202492 | CGACCTCGTTGAGCTCCG | 60.202 | 66.667 | 12.15 | 8.74 | 34.11 | 4.63 |
2867 | 6571 | 3.311110 | GAGGACTCGTGTGGGGCA | 61.311 | 66.667 | 0.00 | 0.00 | 0.00 | 5.36 |
3029 | 6733 | 0.379669 | CGAATGGCAGCATCCACTTC | 59.620 | 55.000 | 0.00 | 4.83 | 39.25 | 3.01 |
3149 | 6853 | 1.279496 | CCATGTCAACCTCCTCCTCA | 58.721 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3260 | 6964 | 0.107848 | CGCCCGTGTTCCTTTCCTAT | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3310 | 7014 | 1.656818 | CCTGCATCCCGAAATTGCGT | 61.657 | 55.000 | 4.84 | 0.00 | 39.23 | 5.24 |
3324 | 7028 | 3.055094 | GGTAACTTCCTGATTCTCCTGCA | 60.055 | 47.826 | 0.00 | 0.00 | 0.00 | 4.41 |
3378 | 7082 | 7.472100 | GCTGGAGTATACATTCTACATGGTCTT | 60.472 | 40.741 | 5.50 | 0.00 | 0.00 | 3.01 |
3406 | 7110 | 7.252612 | TCTGGTATGAACTAAGAACCATTCA | 57.747 | 36.000 | 0.00 | 0.00 | 39.40 | 2.57 |
3409 | 7113 | 7.092891 | TGTGATCTGGTATGAACTAAGAACCAT | 60.093 | 37.037 | 0.00 | 0.00 | 39.40 | 3.55 |
3463 | 7167 | 6.656270 | TGGTACGAACTAAGAAGTACTGATGA | 59.344 | 38.462 | 0.00 | 0.00 | 39.33 | 2.92 |
3472 | 7176 | 4.744570 | TGCATCTGGTACGAACTAAGAAG | 58.255 | 43.478 | 0.00 | 0.00 | 0.00 | 2.85 |
3492 | 7196 | 6.569179 | TCTTCTTATGTAACAGGGTTTTGC | 57.431 | 37.500 | 0.00 | 0.00 | 0.00 | 3.68 |
3546 | 7250 | 4.776795 | TTCTTCATGCACGTCTACAGTA | 57.223 | 40.909 | 0.00 | 0.00 | 0.00 | 2.74 |
3658 | 8035 | 5.122396 | GCTCAAGTAACCATACCTGACTTTG | 59.878 | 44.000 | 0.00 | 0.00 | 30.98 | 2.77 |
3673 | 8050 | 7.517614 | TTAAAACATGGACATGCTCAAGTAA | 57.482 | 32.000 | 11.96 | 1.21 | 42.39 | 2.24 |
3678 | 8055 | 5.651576 | TGCTATTAAAACATGGACATGCTCA | 59.348 | 36.000 | 11.96 | 0.00 | 42.39 | 4.26 |
3706 | 8086 | 7.598493 | TCCAAGTTTATTGCTTATGAAGTTTGC | 59.402 | 33.333 | 0.00 | 0.00 | 0.00 | 3.68 |
3735 | 8115 | 1.402984 | CGAAAGCTCGCTGGTTCTAGT | 60.403 | 52.381 | 0.00 | 0.00 | 38.45 | 2.57 |
3751 | 8131 | 3.126879 | CCATGCCTCGCAGCGAAA | 61.127 | 61.111 | 20.04 | 7.97 | 43.65 | 3.46 |
3770 | 8150 | 8.428186 | AATTGCTATGAAAATCATTCGCATTT | 57.572 | 26.923 | 13.85 | 13.39 | 39.78 | 2.32 |
3789 | 8169 | 1.269206 | CCGCAGACAACACAAATTGCT | 60.269 | 47.619 | 0.00 | 0.00 | 32.47 | 3.91 |
3839 | 8219 | 1.946768 | CGAAAAACTGAACTGGGCAGA | 59.053 | 47.619 | 0.00 | 0.00 | 36.86 | 4.26 |
3840 | 8220 | 1.676006 | ACGAAAAACTGAACTGGGCAG | 59.324 | 47.619 | 0.00 | 0.00 | 39.26 | 4.85 |
3841 | 8221 | 1.673920 | GACGAAAAACTGAACTGGGCA | 59.326 | 47.619 | 0.00 | 0.00 | 0.00 | 5.36 |
3842 | 8222 | 1.673920 | TGACGAAAAACTGAACTGGGC | 59.326 | 47.619 | 0.00 | 0.00 | 0.00 | 5.36 |
3866 | 8247 | 3.063510 | TCCTTCAGGAAGCATGTCAAG | 57.936 | 47.619 | 3.48 | 0.00 | 42.18 | 3.02 |
3892 | 8273 | 6.158598 | GCAATTTATGTTGTTGTGAGGATGT | 58.841 | 36.000 | 0.00 | 0.00 | 0.00 | 3.06 |
3901 | 8282 | 9.206870 | ACTCTTTTATGGCAATTTATGTTGTTG | 57.793 | 29.630 | 0.00 | 0.00 | 0.00 | 3.33 |
3902 | 8283 | 9.777297 | AACTCTTTTATGGCAATTTATGTTGTT | 57.223 | 25.926 | 0.00 | 0.00 | 0.00 | 2.83 |
3924 | 8305 | 1.070601 | AGGGCATGGCAAAACAAACTC | 59.929 | 47.619 | 22.06 | 0.00 | 0.00 | 3.01 |
3954 | 8337 | 4.148079 | TGGGAAATGTTATTGTGCAGACA | 58.852 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
3995 | 8378 | 2.691526 | CCAGCCTGTGGTATACGAGTTA | 59.308 | 50.000 | 0.00 | 0.00 | 42.17 | 2.24 |
4023 | 8406 | 4.757149 | TGAAACCAAAACCAAACAAACCAG | 59.243 | 37.500 | 0.00 | 0.00 | 0.00 | 4.00 |
4039 | 8422 | 7.040755 | CGGCTCCACATTTTATATATGAAACCA | 60.041 | 37.037 | 4.91 | 0.00 | 0.00 | 3.67 |
4040 | 8423 | 7.305474 | CGGCTCCACATTTTATATATGAAACC | 58.695 | 38.462 | 4.91 | 0.54 | 0.00 | 3.27 |
4041 | 8424 | 7.305474 | CCGGCTCCACATTTTATATATGAAAC | 58.695 | 38.462 | 4.91 | 0.00 | 0.00 | 2.78 |
4042 | 8425 | 6.432783 | CCCGGCTCCACATTTTATATATGAAA | 59.567 | 38.462 | 5.25 | 5.25 | 0.00 | 2.69 |
4043 | 8426 | 5.943416 | CCCGGCTCCACATTTTATATATGAA | 59.057 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
4044 | 8427 | 5.496556 | CCCGGCTCCACATTTTATATATGA | 58.503 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
4191 | 8594 | 9.894783 | TCAATATTTGTGGCATTTGAAAAATTG | 57.105 | 25.926 | 0.00 | 0.00 | 0.00 | 2.32 |
4225 | 8628 | 6.018469 | TGATTGGATTGGAAATCCTCAAACT | 58.982 | 36.000 | 17.57 | 0.00 | 38.95 | 2.66 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.