Multiple sequence alignment - TraesCS2B01G266500
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 | TraesCS2B01G266500 | chr2B | 100.000 | 2237 | 0 | 0 | 1 | 2237 | 358775762 | 358773526 | 0.000000e+00 | 4132 |
1 | TraesCS2B01G266500 | chr2D | 92.982 | 1482 | 20 | 13 | 782 | 2237 | 300889840 | 300888417 | 0.000000e+00 | 2084 |
2 | TraesCS2B01G266500 | chr2A | 95.822 | 1149 | 21 | 7 | 782 | 1907 | 377136757 | 377135613 | 0.000000e+00 | 1831 |
3 | TraesCS2B01G266500 | chr2A | 96.407 | 334 | 5 | 5 | 1907 | 2237 | 377135521 | 377135192 | 5.430000e-151 | 544 |
4 | TraesCS2B01G266500 | chr6B | 92.179 | 780 | 22 | 13 | 1 | 741 | 36242893 | 36243672 | 0.000000e+00 | 1066 |
5 | TraesCS2B01G266500 | chr5D | 85.256 | 156 | 15 | 3 | 594 | 741 | 447313015 | 447312860 | 1.070000e-33 | 154 |
6 | TraesCS2B01G266500 | chr4D | 85.256 | 156 | 15 | 3 | 594 | 741 | 93447346 | 93447501 | 1.070000e-33 | 154 |
7 | TraesCS2B01G266500 | chr6A | 78.855 | 227 | 29 | 15 | 528 | 745 | 534662896 | 534662680 | 3.880000e-28 | 135 |
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 | TraesCS2B01G266500 | chr2B | 358773526 | 358775762 | 2236 | True | 4132.0 | 4132 | 100.0000 | 1 | 2237 | 1 | chr2B.!!$R1 | 2236 |
1 | TraesCS2B01G266500 | chr2D | 300888417 | 300889840 | 1423 | True | 2084.0 | 2084 | 92.9820 | 782 | 2237 | 1 | chr2D.!!$R1 | 1455 |
2 | TraesCS2B01G266500 | chr2A | 377135192 | 377136757 | 1565 | True | 1187.5 | 1831 | 96.1145 | 782 | 2237 | 2 | chr2A.!!$R1 | 1455 |
3 | TraesCS2B01G266500 | chr6B | 36242893 | 36243672 | 779 | False | 1066.0 | 1066 | 92.1790 | 1 | 741 | 1 | chr6B.!!$F1 | 740 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
556 | 562 | 0.036952 | CAGTGTCAGCCCAGAATCGT | 60.037 | 55.0 | 0.0 | 0.0 | 0.0 | 3.73 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1919 | 2106 | 1.887198 | ACAGACTGCAGTTAGCTACGT | 59.113 | 47.619 | 22.65 | 6.04 | 45.94 | 3.57 | 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 |
---|---|---|---|---|---|---|---|---|---|
111 | 117 | 2.095364 | GTGTCGACGTTGGAGTATCAGT | 60.095 | 50.000 | 11.62 | 0.00 | 36.25 | 3.41 |
138 | 144 | 4.608890 | CGCACCAAGCAAATGTTTGATTTC | 60.609 | 41.667 | 11.00 | 0.00 | 43.45 | 2.17 |
167 | 173 | 8.470040 | AGTTTTTACATCATGTTCATGCATTC | 57.530 | 30.769 | 0.00 | 0.00 | 0.00 | 2.67 |
207 | 213 | 8.904834 | ACTATGATCGTGTCTGTACTTCTAATT | 58.095 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
373 | 379 | 6.511767 | GCATGCAAGCTTGAGTACGTATTTAT | 60.512 | 38.462 | 30.39 | 3.41 | 0.00 | 1.40 |
399 | 405 | 4.051922 | GTGGTGTGTAAACTCTGTCTCTG | 58.948 | 47.826 | 0.00 | 0.00 | 0.00 | 3.35 |
471 | 477 | 2.026822 | AGGTGCGACATGGAGAAAGATT | 60.027 | 45.455 | 0.00 | 0.00 | 0.00 | 2.40 |
473 | 479 | 2.096496 | GTGCGACATGGAGAAAGATTGG | 59.904 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
556 | 562 | 0.036952 | CAGTGTCAGCCCAGAATCGT | 60.037 | 55.000 | 0.00 | 0.00 | 0.00 | 3.73 |
576 | 582 | 3.302344 | CCAAAACGGCCCACCCTG | 61.302 | 66.667 | 0.00 | 0.00 | 0.00 | 4.45 |
597 | 630 | 0.315251 | CTGTGGACGTCTGAGCAAGA | 59.685 | 55.000 | 16.46 | 0.00 | 0.00 | 3.02 |
640 | 674 | 4.606457 | CGGGAAACTGTTCATCAATCTC | 57.394 | 45.455 | 0.00 | 0.00 | 35.25 | 2.75 |
645 | 679 | 7.169982 | CGGGAAACTGTTCATCAATCTCTATAC | 59.830 | 40.741 | 0.00 | 0.00 | 35.25 | 1.47 |
668 | 702 | 3.205282 | GGGAATAATGCCTGGGCCTATAT | 59.795 | 47.826 | 4.53 | 2.69 | 41.09 | 0.86 |
669 | 703 | 4.210331 | GGAATAATGCCTGGGCCTATATG | 58.790 | 47.826 | 4.53 | 0.00 | 41.09 | 1.78 |
695 | 729 | 1.066430 | GTTTGTGGATCACGAGGCCTA | 60.066 | 52.381 | 4.42 | 0.00 | 37.14 | 3.93 |
752 | 792 | 5.209944 | GAAGATCACTTCCGAAACACATC | 57.790 | 43.478 | 0.00 | 0.00 | 44.60 | 3.06 |
753 | 793 | 4.543590 | AGATCACTTCCGAAACACATCT | 57.456 | 40.909 | 0.00 | 0.00 | 0.00 | 2.90 |
754 | 794 | 5.661056 | AGATCACTTCCGAAACACATCTA | 57.339 | 39.130 | 0.00 | 0.00 | 0.00 | 1.98 |
755 | 795 | 6.037786 | AGATCACTTCCGAAACACATCTAA | 57.962 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
756 | 796 | 5.869888 | AGATCACTTCCGAAACACATCTAAC | 59.130 | 40.000 | 0.00 | 0.00 | 0.00 | 2.34 |
757 | 797 | 5.209818 | TCACTTCCGAAACACATCTAACT | 57.790 | 39.130 | 0.00 | 0.00 | 0.00 | 2.24 |
758 | 798 | 5.607477 | TCACTTCCGAAACACATCTAACTT | 58.393 | 37.500 | 0.00 | 0.00 | 0.00 | 2.66 |
759 | 799 | 6.053005 | TCACTTCCGAAACACATCTAACTTT | 58.947 | 36.000 | 0.00 | 0.00 | 0.00 | 2.66 |
760 | 800 | 7.211573 | TCACTTCCGAAACACATCTAACTTTA | 58.788 | 34.615 | 0.00 | 0.00 | 0.00 | 1.85 |
761 | 801 | 7.876068 | TCACTTCCGAAACACATCTAACTTTAT | 59.124 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
762 | 802 | 8.504005 | CACTTCCGAAACACATCTAACTTTATT | 58.496 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
763 | 803 | 8.718734 | ACTTCCGAAACACATCTAACTTTATTC | 58.281 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
764 | 804 | 7.605410 | TCCGAAACACATCTAACTTTATTCC | 57.395 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
765 | 805 | 7.162761 | TCCGAAACACATCTAACTTTATTCCA | 58.837 | 34.615 | 0.00 | 0.00 | 0.00 | 3.53 |
766 | 806 | 7.827236 | TCCGAAACACATCTAACTTTATTCCAT | 59.173 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
767 | 807 | 8.122952 | CCGAAACACATCTAACTTTATTCCATC | 58.877 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
768 | 808 | 8.664798 | CGAAACACATCTAACTTTATTCCATCA | 58.335 | 33.333 | 0.00 | 0.00 | 0.00 | 3.07 |
772 | 812 | 9.125026 | ACACATCTAACTTTATTCCATCATTCC | 57.875 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
773 | 813 | 9.123902 | CACATCTAACTTTATTCCATCATTCCA | 57.876 | 33.333 | 0.00 | 0.00 | 0.00 | 3.53 |
774 | 814 | 9.699410 | ACATCTAACTTTATTCCATCATTCCAA | 57.301 | 29.630 | 0.00 | 0.00 | 0.00 | 3.53 |
775 | 815 | 9.956720 | CATCTAACTTTATTCCATCATTCCAAC | 57.043 | 33.333 | 0.00 | 0.00 | 0.00 | 3.77 |
776 | 816 | 9.927081 | ATCTAACTTTATTCCATCATTCCAACT | 57.073 | 29.630 | 0.00 | 0.00 | 0.00 | 3.16 |
777 | 817 | 9.177608 | TCTAACTTTATTCCATCATTCCAACTG | 57.822 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
778 | 818 | 7.781324 | AACTTTATTCCATCATTCCAACTGT | 57.219 | 32.000 | 0.00 | 0.00 | 0.00 | 3.55 |
779 | 819 | 8.877864 | AACTTTATTCCATCATTCCAACTGTA | 57.122 | 30.769 | 0.00 | 0.00 | 0.00 | 2.74 |
780 | 820 | 8.281212 | ACTTTATTCCATCATTCCAACTGTAC | 57.719 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
1145 | 1201 | 0.036388 | AACTACGACCCCGACGACTA | 60.036 | 55.000 | 0.00 | 0.00 | 39.50 | 2.59 |
1271 | 1327 | 2.964925 | GCGTCGTCAGTGCACCAA | 60.965 | 61.111 | 14.63 | 0.00 | 0.00 | 3.67 |
1355 | 1411 | 4.942852 | TGGTTCTTGTGGCTTTTGTTATG | 58.057 | 39.130 | 0.00 | 0.00 | 0.00 | 1.90 |
1434 | 1495 | 5.423290 | TGATCTGTATATAGGATGCCCTGTG | 59.577 | 44.000 | 0.00 | 0.00 | 44.15 | 3.66 |
1441 | 1502 | 1.893808 | GGATGCCCTGTGTATGCGG | 60.894 | 63.158 | 0.00 | 0.00 | 0.00 | 5.69 |
1499 | 1560 | 3.887716 | GCAAAGCAGATGATACCCTGATT | 59.112 | 43.478 | 0.00 | 0.00 | 40.27 | 2.57 |
1554 | 1642 | 4.970392 | CACGGTGTGCATTGCAAT | 57.030 | 50.000 | 13.94 | 5.99 | 41.47 | 3.56 |
1555 | 1643 | 2.436795 | CACGGTGTGCATTGCAATG | 58.563 | 52.632 | 30.92 | 30.92 | 41.47 | 2.82 |
1556 | 1644 | 0.318869 | CACGGTGTGCATTGCAATGT | 60.319 | 50.000 | 33.67 | 14.66 | 41.47 | 2.71 |
1557 | 1645 | 1.068679 | CACGGTGTGCATTGCAATGTA | 60.069 | 47.619 | 33.67 | 29.20 | 41.47 | 2.29 |
1564 | 1652 | 4.418013 | GTGCATTGCAATGTACTGTACA | 57.582 | 40.909 | 37.83 | 24.39 | 45.03 | 2.90 |
1760 | 1850 | 2.231964 | TCTTGTTCTGCATCATTTGGGC | 59.768 | 45.455 | 0.00 | 0.00 | 0.00 | 5.36 |
1836 | 1926 | 5.525378 | CCTTGTGCTTCAGATTACCTATCAC | 59.475 | 44.000 | 0.00 | 0.00 | 35.59 | 3.06 |
1910 | 2097 | 8.116651 | AGATATGGCTGATAGTGTTGTAGTAG | 57.883 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
1913 | 2100 | 6.446781 | TGGCTGATAGTGTTGTAGTAGTAC | 57.553 | 41.667 | 0.37 | 0.37 | 0.00 | 2.73 |
1914 | 2101 | 6.185511 | TGGCTGATAGTGTTGTAGTAGTACT | 58.814 | 40.000 | 8.14 | 8.14 | 0.00 | 2.73 |
1915 | 2102 | 7.341030 | TGGCTGATAGTGTTGTAGTAGTACTA | 58.659 | 38.462 | 5.90 | 5.90 | 0.00 | 1.82 |
1916 | 2103 | 7.830697 | TGGCTGATAGTGTTGTAGTAGTACTAA | 59.169 | 37.037 | 11.64 | 0.00 | 31.62 | 2.24 |
1917 | 2104 | 8.127954 | GGCTGATAGTGTTGTAGTAGTACTAAC | 58.872 | 40.741 | 11.64 | 9.83 | 31.62 | 2.34 |
1918 | 2105 | 8.891720 | GCTGATAGTGTTGTAGTAGTACTAACT | 58.108 | 37.037 | 11.64 | 13.09 | 39.91 | 2.24 |
1982 | 2169 | 6.864685 | TGTGAAGAAATTGCAAATCAGATCAC | 59.135 | 34.615 | 23.72 | 23.72 | 34.44 | 3.06 |
1983 | 2170 | 6.864685 | GTGAAGAAATTGCAAATCAGATCACA | 59.135 | 34.615 | 24.52 | 10.93 | 34.12 | 3.58 |
2215 | 2405 | 6.152831 | GTGCCTGGTGAGAATTAAAAGGTTAT | 59.847 | 38.462 | 0.00 | 0.00 | 0.00 | 1.89 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
111 | 117 | 0.743688 | ACATTTGCTTGGTGCGAACA | 59.256 | 45.000 | 0.00 | 0.00 | 46.72 | 3.18 |
138 | 144 | 6.468956 | GCATGAACATGATGTAAAAACTACGG | 59.531 | 38.462 | 17.40 | 0.00 | 41.20 | 4.02 |
167 | 173 | 4.680567 | CGATCATAGTGCTCACAGATTCAG | 59.319 | 45.833 | 2.63 | 0.00 | 0.00 | 3.02 |
313 | 319 | 4.142315 | CGACCAGGAATTCAGAATGCAATT | 60.142 | 41.667 | 7.93 | 0.00 | 40.93 | 2.32 |
373 | 379 | 0.466543 | AGAGTTTACACACCACGCCA | 59.533 | 50.000 | 0.00 | 0.00 | 0.00 | 5.69 |
399 | 405 | 8.274939 | TGCTCAATTTCGAATTTTGAATCAAAC | 58.725 | 29.630 | 18.87 | 0.00 | 32.79 | 2.93 |
471 | 477 | 4.097741 | CCACGATTCATTTAATCAAGCCCA | 59.902 | 41.667 | 0.00 | 0.00 | 43.68 | 5.36 |
473 | 479 | 5.499139 | TCCACGATTCATTTAATCAAGCC | 57.501 | 39.130 | 0.00 | 0.00 | 43.68 | 4.35 |
575 | 581 | 1.106944 | TGCTCAGACGTCCACAGACA | 61.107 | 55.000 | 13.01 | 5.65 | 43.73 | 3.41 |
576 | 582 | 0.032130 | TTGCTCAGACGTCCACAGAC | 59.968 | 55.000 | 13.01 | 3.26 | 39.83 | 3.51 |
621 | 655 | 7.169982 | CCGTATAGAGATTGATGAACAGTTTCC | 59.830 | 40.741 | 0.00 | 0.00 | 0.00 | 3.13 |
640 | 674 | 3.873910 | CCCAGGCATTATTCCCGTATAG | 58.126 | 50.000 | 0.00 | 0.00 | 0.00 | 1.31 |
645 | 679 | 1.903404 | GGCCCAGGCATTATTCCCG | 60.903 | 63.158 | 11.50 | 0.00 | 44.11 | 5.14 |
668 | 702 | 1.333308 | CGTGATCCACAAACACTTGCA | 59.667 | 47.619 | 0.00 | 0.00 | 35.84 | 4.08 |
669 | 703 | 1.601903 | TCGTGATCCACAAACACTTGC | 59.398 | 47.619 | 0.00 | 0.00 | 35.84 | 4.01 |
695 | 729 | 1.152943 | TGCTATCCTCTCCGCTCGT | 60.153 | 57.895 | 0.00 | 0.00 | 0.00 | 4.18 |
741 | 781 | 7.372451 | TGGAATAAAGTTAGATGTGTTTCGG | 57.628 | 36.000 | 0.00 | 0.00 | 0.00 | 4.30 |
742 | 782 | 8.664798 | TGATGGAATAAAGTTAGATGTGTTTCG | 58.335 | 33.333 | 0.00 | 0.00 | 0.00 | 3.46 |
746 | 786 | 9.125026 | GGAATGATGGAATAAAGTTAGATGTGT | 57.875 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
747 | 787 | 9.123902 | TGGAATGATGGAATAAAGTTAGATGTG | 57.876 | 33.333 | 0.00 | 0.00 | 0.00 | 3.21 |
748 | 788 | 9.699410 | TTGGAATGATGGAATAAAGTTAGATGT | 57.301 | 29.630 | 0.00 | 0.00 | 0.00 | 3.06 |
749 | 789 | 9.956720 | GTTGGAATGATGGAATAAAGTTAGATG | 57.043 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
750 | 790 | 9.927081 | AGTTGGAATGATGGAATAAAGTTAGAT | 57.073 | 29.630 | 0.00 | 0.00 | 0.00 | 1.98 |
751 | 791 | 9.177608 | CAGTTGGAATGATGGAATAAAGTTAGA | 57.822 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
752 | 792 | 8.960591 | ACAGTTGGAATGATGGAATAAAGTTAG | 58.039 | 33.333 | 0.00 | 0.00 | 0.00 | 2.34 |
753 | 793 | 8.877864 | ACAGTTGGAATGATGGAATAAAGTTA | 57.122 | 30.769 | 0.00 | 0.00 | 0.00 | 2.24 |
754 | 794 | 7.781324 | ACAGTTGGAATGATGGAATAAAGTT | 57.219 | 32.000 | 0.00 | 0.00 | 0.00 | 2.66 |
755 | 795 | 7.888021 | TGTACAGTTGGAATGATGGAATAAAGT | 59.112 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
756 | 796 | 8.279970 | TGTACAGTTGGAATGATGGAATAAAG | 57.720 | 34.615 | 0.00 | 0.00 | 0.00 | 1.85 |
757 | 797 | 8.642935 | TTGTACAGTTGGAATGATGGAATAAA | 57.357 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
758 | 798 | 8.821686 | ATTGTACAGTTGGAATGATGGAATAA | 57.178 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
759 | 799 | 9.337396 | GTATTGTACAGTTGGAATGATGGAATA | 57.663 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
760 | 800 | 7.285401 | GGTATTGTACAGTTGGAATGATGGAAT | 59.715 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
761 | 801 | 6.601613 | GGTATTGTACAGTTGGAATGATGGAA | 59.398 | 38.462 | 0.00 | 0.00 | 0.00 | 3.53 |
762 | 802 | 6.119536 | GGTATTGTACAGTTGGAATGATGGA | 58.880 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
763 | 803 | 5.885352 | TGGTATTGTACAGTTGGAATGATGG | 59.115 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
764 | 804 | 6.456853 | CGTGGTATTGTACAGTTGGAATGATG | 60.457 | 42.308 | 0.00 | 0.00 | 0.00 | 3.07 |
765 | 805 | 5.584649 | CGTGGTATTGTACAGTTGGAATGAT | 59.415 | 40.000 | 0.00 | 0.00 | 0.00 | 2.45 |
766 | 806 | 4.932799 | CGTGGTATTGTACAGTTGGAATGA | 59.067 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
767 | 807 | 4.094294 | CCGTGGTATTGTACAGTTGGAATG | 59.906 | 45.833 | 0.00 | 0.00 | 0.00 | 2.67 |
768 | 808 | 4.258543 | CCGTGGTATTGTACAGTTGGAAT | 58.741 | 43.478 | 0.00 | 0.00 | 0.00 | 3.01 |
769 | 809 | 3.666274 | CCGTGGTATTGTACAGTTGGAA | 58.334 | 45.455 | 0.00 | 0.00 | 0.00 | 3.53 |
770 | 810 | 2.613474 | GCCGTGGTATTGTACAGTTGGA | 60.613 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
771 | 811 | 1.735571 | GCCGTGGTATTGTACAGTTGG | 59.264 | 52.381 | 0.00 | 0.00 | 0.00 | 3.77 |
772 | 812 | 1.735571 | GGCCGTGGTATTGTACAGTTG | 59.264 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
773 | 813 | 1.339342 | GGGCCGTGGTATTGTACAGTT | 60.339 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
774 | 814 | 0.251073 | GGGCCGTGGTATTGTACAGT | 59.749 | 55.000 | 0.00 | 0.00 | 0.00 | 3.55 |
775 | 815 | 0.250793 | TGGGCCGTGGTATTGTACAG | 59.749 | 55.000 | 0.00 | 0.00 | 0.00 | 2.74 |
776 | 816 | 0.250793 | CTGGGCCGTGGTATTGTACA | 59.749 | 55.000 | 0.00 | 0.00 | 0.00 | 2.90 |
777 | 817 | 1.093496 | GCTGGGCCGTGGTATTGTAC | 61.093 | 60.000 | 0.00 | 0.00 | 0.00 | 2.90 |
778 | 818 | 1.222387 | GCTGGGCCGTGGTATTGTA | 59.778 | 57.895 | 0.00 | 0.00 | 0.00 | 2.41 |
779 | 819 | 2.045340 | GCTGGGCCGTGGTATTGT | 60.045 | 61.111 | 0.00 | 0.00 | 0.00 | 2.71 |
780 | 820 | 0.107410 | TAAGCTGGGCCGTGGTATTG | 60.107 | 55.000 | 0.00 | 0.00 | 0.00 | 1.90 |
1271 | 1327 | 2.158549 | GGATGAAAGGGAAGCCTAGCAT | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 3.79 |
1282 | 1338 | 2.422093 | GGCTGGAGTAAGGATGAAAGGG | 60.422 | 54.545 | 0.00 | 0.00 | 0.00 | 3.95 |
1355 | 1411 | 6.672147 | ACATAAAGCAAGTTCTTGTCACATC | 58.328 | 36.000 | 13.04 | 0.00 | 0.00 | 3.06 |
1434 | 1495 | 2.158957 | TCAGGAATTCAGGACCGCATAC | 60.159 | 50.000 | 7.93 | 0.00 | 0.00 | 2.39 |
1441 | 1502 | 5.096443 | AGTCTCAATCAGGAATTCAGGAC | 57.904 | 43.478 | 7.93 | 2.39 | 0.00 | 3.85 |
1545 | 1633 | 6.117911 | TGTATGTACAGTACATTGCAATGC | 57.882 | 37.500 | 33.94 | 21.10 | 46.69 | 3.56 |
1546 | 1634 | 7.696755 | ACATGTATGTACAGTACATTGCAATG | 58.303 | 34.615 | 32.74 | 32.74 | 46.69 | 2.82 |
1547 | 1635 | 7.552330 | TGACATGTATGTACAGTACATTGCAAT | 59.448 | 33.333 | 27.51 | 18.53 | 46.69 | 3.56 |
1548 | 1636 | 6.876257 | TGACATGTATGTACAGTACATTGCAA | 59.124 | 34.615 | 27.51 | 10.16 | 46.69 | 4.08 |
1549 | 1637 | 6.402222 | TGACATGTATGTACAGTACATTGCA | 58.598 | 36.000 | 27.51 | 24.47 | 46.69 | 4.08 |
1550 | 1638 | 6.902224 | TGACATGTATGTACAGTACATTGC | 57.098 | 37.500 | 27.51 | 20.69 | 46.69 | 3.56 |
1551 | 1639 | 8.702163 | TCTTGACATGTATGTACAGTACATTG | 57.298 | 34.615 | 27.51 | 21.78 | 46.69 | 2.82 |
1552 | 1640 | 8.531982 | ACTCTTGACATGTATGTACAGTACATT | 58.468 | 33.333 | 27.51 | 12.21 | 46.69 | 2.71 |
1554 | 1642 | 7.462571 | ACTCTTGACATGTATGTACAGTACA | 57.537 | 36.000 | 15.90 | 15.90 | 41.95 | 2.90 |
1555 | 1643 | 9.850628 | TTTACTCTTGACATGTATGTACAGTAC | 57.149 | 33.333 | 0.00 | 3.49 | 41.95 | 2.73 |
1557 | 1645 | 9.944376 | ATTTTACTCTTGACATGTATGTACAGT | 57.056 | 29.630 | 0.00 | 0.00 | 41.95 | 3.55 |
1562 | 1650 | 8.939929 | CACAGATTTTACTCTTGACATGTATGT | 58.060 | 33.333 | 0.00 | 0.00 | 45.16 | 2.29 |
1563 | 1651 | 8.393366 | CCACAGATTTTACTCTTGACATGTATG | 58.607 | 37.037 | 0.00 | 0.00 | 0.00 | 2.39 |
1564 | 1652 | 7.554118 | CCCACAGATTTTACTCTTGACATGTAT | 59.446 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
1565 | 1653 | 6.878923 | CCCACAGATTTTACTCTTGACATGTA | 59.121 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
1566 | 1654 | 5.707298 | CCCACAGATTTTACTCTTGACATGT | 59.293 | 40.000 | 0.00 | 0.00 | 0.00 | 3.21 |
1567 | 1655 | 5.939883 | TCCCACAGATTTTACTCTTGACATG | 59.060 | 40.000 | 0.00 | 0.00 | 0.00 | 3.21 |
1568 | 1656 | 5.940470 | GTCCCACAGATTTTACTCTTGACAT | 59.060 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1569 | 1657 | 5.163248 | TGTCCCACAGATTTTACTCTTGACA | 60.163 | 40.000 | 0.00 | 0.00 | 0.00 | 3.58 |
1570 | 1658 | 5.305585 | TGTCCCACAGATTTTACTCTTGAC | 58.694 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
1571 | 1659 | 5.560722 | TGTCCCACAGATTTTACTCTTGA | 57.439 | 39.130 | 0.00 | 0.00 | 0.00 | 3.02 |
1614 | 1702 | 3.306166 | CACGGTACCAATCTCGAAATGTC | 59.694 | 47.826 | 13.54 | 0.00 | 0.00 | 3.06 |
1777 | 1867 | 3.441101 | TGTGGTAAGCTCTCAGGTGTAT | 58.559 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
1836 | 1926 | 5.841810 | TGCCAACTACTTTTCTCCATTTTG | 58.158 | 37.500 | 0.00 | 0.00 | 0.00 | 2.44 |
1910 | 2097 | 6.111768 | TGCAGTTAGCTACGTAGTTAGTAC | 57.888 | 41.667 | 22.98 | 16.42 | 41.60 | 2.73 |
1913 | 2100 | 5.064962 | AGACTGCAGTTAGCTACGTAGTTAG | 59.935 | 44.000 | 22.65 | 12.67 | 41.60 | 2.34 |
1914 | 2101 | 4.940046 | AGACTGCAGTTAGCTACGTAGTTA | 59.060 | 41.667 | 22.65 | 18.67 | 41.60 | 2.24 |
1915 | 2102 | 3.757493 | AGACTGCAGTTAGCTACGTAGTT | 59.243 | 43.478 | 22.65 | 19.74 | 41.60 | 2.24 |
1916 | 2103 | 3.127203 | CAGACTGCAGTTAGCTACGTAGT | 59.873 | 47.826 | 22.65 | 12.59 | 45.94 | 2.73 |
1917 | 2104 | 3.127203 | ACAGACTGCAGTTAGCTACGTAG | 59.873 | 47.826 | 22.65 | 18.47 | 45.94 | 3.51 |
1918 | 2105 | 3.079578 | ACAGACTGCAGTTAGCTACGTA | 58.920 | 45.455 | 22.65 | 0.00 | 45.94 | 3.57 |
1919 | 2106 | 1.887198 | ACAGACTGCAGTTAGCTACGT | 59.113 | 47.619 | 22.65 | 6.04 | 45.94 | 3.57 |
1920 | 2107 | 2.254459 | CACAGACTGCAGTTAGCTACG | 58.746 | 52.381 | 22.65 | 5.40 | 45.94 | 3.51 |
1921 | 2108 | 3.305398 | ACACAGACTGCAGTTAGCTAC | 57.695 | 47.619 | 22.65 | 6.86 | 45.94 | 3.58 |
1982 | 2169 | 3.609175 | CGTTGCTGGATTGGTAAACACTG | 60.609 | 47.826 | 0.00 | 0.00 | 0.00 | 3.66 |
1983 | 2170 | 2.552315 | CGTTGCTGGATTGGTAAACACT | 59.448 | 45.455 | 0.00 | 0.00 | 0.00 | 3.55 |
2215 | 2405 | 3.347216 | GCAGAGGCAAAGGTAGAATTGA | 58.653 | 45.455 | 0.00 | 0.00 | 40.72 | 2.57 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.