Multiple sequence alignment - TraesCS7D01G506000
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 | TraesCS7D01G506000 | chr7D | 100.000 | 2654 | 0 | 0 | 1 | 2654 | 611134689 | 611137342 | 0.000000e+00 | 4902.0 |
1 | TraesCS7D01G506000 | chr7D | 82.099 | 324 | 34 | 6 | 5 | 326 | 581657778 | 581658079 | 3.390000e-64 | 255.0 |
2 | TraesCS7D01G506000 | chr7D | 79.825 | 228 | 32 | 13 | 984 | 1204 | 91143783 | 91143563 | 1.270000e-33 | 154.0 |
3 | TraesCS7D01G506000 | chr7B | 84.718 | 2022 | 130 | 70 | 139 | 2094 | 700183337 | 700185245 | 0.000000e+00 | 1857.0 |
4 | TraesCS7D01G506000 | chr7B | 78.119 | 489 | 88 | 12 | 2174 | 2651 | 700185329 | 700185809 | 2.580000e-75 | 292.0 |
5 | TraesCS7D01G506000 | chr7B | 79.149 | 235 | 37 | 11 | 976 | 1204 | 43754635 | 43754407 | 4.580000e-33 | 152.0 |
6 | TraesCS7D01G506000 | chr7A | 86.933 | 1454 | 100 | 40 | 465 | 1891 | 701148937 | 701150327 | 0.000000e+00 | 1550.0 |
7 | TraesCS7D01G506000 | chr7A | 80.903 | 775 | 102 | 18 | 1914 | 2651 | 701150503 | 701151268 | 1.070000e-158 | 569.0 |
8 | TraesCS7D01G506000 | chr7A | 79.158 | 499 | 40 | 30 | 115 | 588 | 701126192 | 701126651 | 1.200000e-73 | 287.0 |
9 | TraesCS7D01G506000 | chr7A | 79.221 | 231 | 36 | 11 | 980 | 1204 | 93081885 | 93082109 | 1.650000e-32 | 150.0 |
10 | TraesCS7D01G506000 | chr7A | 87.500 | 96 | 8 | 2 | 654 | 745 | 701127862 | 701127957 | 1.000000e-19 | 108.0 |
11 | TraesCS7D01G506000 | chr2B | 82.822 | 326 | 29 | 9 | 5 | 326 | 779962851 | 779963153 | 1.570000e-67 | 267.0 |
12 | TraesCS7D01G506000 | chr2B | 82.258 | 186 | 25 | 8 | 1001 | 1182 | 744058437 | 744058256 | 1.270000e-33 | 154.0 |
13 | TraesCS7D01G506000 | chr6D | 82.569 | 327 | 27 | 10 | 5 | 326 | 450543111 | 450542810 | 7.290000e-66 | 261.0 |
14 | TraesCS7D01G506000 | chr6D | 81.595 | 326 | 30 | 13 | 5 | 326 | 58715961 | 58715662 | 2.640000e-60 | 243.0 |
15 | TraesCS7D01G506000 | chr5A | 81.846 | 325 | 33 | 10 | 5 | 326 | 501461698 | 501461999 | 1.580000e-62 | 250.0 |
16 | TraesCS7D01G506000 | chr6A | 81.651 | 327 | 31 | 10 | 5 | 326 | 308850913 | 308850611 | 7.340000e-61 | 244.0 |
17 | TraesCS7D01G506000 | chr5D | 87.209 | 172 | 13 | 3 | 157 | 326 | 121680670 | 121680506 | 1.250000e-43 | 187.0 |
18 | TraesCS7D01G506000 | chr2D | 82.609 | 184 | 28 | 4 | 1001 | 1182 | 609515761 | 609515580 | 2.730000e-35 | 159.0 |
19 | TraesCS7D01G506000 | chr2A | 82.609 | 184 | 28 | 4 | 1001 | 1182 | 742293582 | 742293401 | 2.730000e-35 | 159.0 |
20 | TraesCS7D01G506000 | chr1A | 100.000 | 28 | 0 | 0 | 1525 | 1552 | 95833389 | 95833416 | 5.000000e-03 | 52.8 |
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 | TraesCS7D01G506000 | chr7D | 611134689 | 611137342 | 2653 | False | 4902.0 | 4902 | 100.0000 | 1 | 2654 | 1 | chr7D.!!$F2 | 2653 |
1 | TraesCS7D01G506000 | chr7B | 700183337 | 700185809 | 2472 | False | 1074.5 | 1857 | 81.4185 | 139 | 2651 | 2 | chr7B.!!$F1 | 2512 |
2 | TraesCS7D01G506000 | chr7A | 701148937 | 701151268 | 2331 | False | 1059.5 | 1550 | 83.9180 | 465 | 2651 | 2 | chr7A.!!$F3 | 2186 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
511 | 539 | 0.036732 | TTGTCGATTTCCTGCTGGCT | 59.963 | 50.0 | 4.42 | 0.0 | 0.0 | 4.75 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1819 | 1919 | 0.026803 | GTGCGCAGATCAATCGTTCC | 59.973 | 55.0 | 12.22 | 0.0 | 0.0 | 3.62 | 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 |
---|---|---|---|---|---|---|---|---|---|
77 | 78 | 8.924691 | TCTTACATTTGCATAAACATTTTGAGC | 58.075 | 29.630 | 0.00 | 0.00 | 0.00 | 4.26 |
78 | 79 | 8.599055 | TTACATTTGCATAAACATTTTGAGCA | 57.401 | 26.923 | 0.00 | 0.00 | 0.00 | 4.26 |
79 | 80 | 7.675962 | ACATTTGCATAAACATTTTGAGCAT | 57.324 | 28.000 | 0.00 | 0.00 | 0.00 | 3.79 |
80 | 81 | 7.523219 | ACATTTGCATAAACATTTTGAGCATG | 58.477 | 30.769 | 0.00 | 0.00 | 0.00 | 4.06 |
81 | 82 | 5.533533 | TTGCATAAACATTTTGAGCATGC | 57.466 | 34.783 | 10.51 | 10.51 | 38.19 | 4.06 |
82 | 83 | 4.566987 | TGCATAAACATTTTGAGCATGCA | 58.433 | 34.783 | 21.98 | 7.36 | 43.48 | 3.96 |
83 | 84 | 4.627900 | TGCATAAACATTTTGAGCATGCAG | 59.372 | 37.500 | 21.98 | 2.86 | 41.53 | 4.41 |
84 | 85 | 4.033587 | GCATAAACATTTTGAGCATGCAGG | 59.966 | 41.667 | 21.98 | 2.36 | 37.74 | 4.85 |
85 | 86 | 5.412640 | CATAAACATTTTGAGCATGCAGGA | 58.587 | 37.500 | 21.98 | 1.14 | 0.00 | 3.86 |
86 | 87 | 4.339872 | AAACATTTTGAGCATGCAGGAA | 57.660 | 36.364 | 21.98 | 9.24 | 0.00 | 3.36 |
87 | 88 | 3.587797 | ACATTTTGAGCATGCAGGAAG | 57.412 | 42.857 | 21.98 | 5.78 | 0.00 | 3.46 |
88 | 89 | 2.268298 | CATTTTGAGCATGCAGGAAGC | 58.732 | 47.619 | 21.98 | 0.00 | 45.96 | 3.86 |
112 | 113 | 2.037871 | CTCCCTAGAGCCGAAGAGC | 58.962 | 63.158 | 0.00 | 0.00 | 32.13 | 4.09 |
113 | 114 | 1.791103 | CTCCCTAGAGCCGAAGAGCG | 61.791 | 65.000 | 0.00 | 0.00 | 38.01 | 5.03 |
133 | 134 | 2.704572 | GGGAGCCGAATTGGATATCTG | 58.295 | 52.381 | 2.05 | 0.00 | 42.00 | 2.90 |
134 | 135 | 2.616510 | GGGAGCCGAATTGGATATCTGG | 60.617 | 54.545 | 2.05 | 0.00 | 42.00 | 3.86 |
135 | 136 | 2.039084 | GGAGCCGAATTGGATATCTGGT | 59.961 | 50.000 | 2.05 | 0.00 | 42.00 | 4.00 |
136 | 137 | 3.070018 | GAGCCGAATTGGATATCTGGTG | 58.930 | 50.000 | 2.05 | 0.00 | 42.00 | 4.17 |
137 | 138 | 1.537202 | GCCGAATTGGATATCTGGTGC | 59.463 | 52.381 | 2.05 | 0.00 | 42.00 | 5.01 |
153 | 155 | 2.927028 | GGTGCCTACCATCCGTTTAAT | 58.073 | 47.619 | 0.00 | 0.00 | 46.71 | 1.40 |
161 | 163 | 6.316890 | GCCTACCATCCGTTTAATAAAGTTCA | 59.683 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
180 | 182 | 8.887264 | AAGTTCATATAGTAGGATGGGACTAG | 57.113 | 38.462 | 0.00 | 0.00 | 31.87 | 2.57 |
191 | 193 | 6.380079 | AGGATGGGACTAGCTATAAAATGG | 57.620 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
230 | 232 | 1.071699 | GCTCACTCAACTACCAACCCA | 59.928 | 52.381 | 0.00 | 0.00 | 0.00 | 4.51 |
232 | 234 | 3.815809 | CTCACTCAACTACCAACCCAAA | 58.184 | 45.455 | 0.00 | 0.00 | 0.00 | 3.28 |
278 | 280 | 0.392998 | CCGACCCCTGAACCTGAATG | 60.393 | 60.000 | 0.00 | 0.00 | 0.00 | 2.67 |
297 | 299 | 0.807496 | GATGAAAGGCCAGCACACTC | 59.193 | 55.000 | 5.01 | 0.00 | 0.00 | 3.51 |
331 | 340 | 3.966979 | TGACTTAACATCCCATGCACAT | 58.033 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
385 | 394 | 3.731728 | GGGGCAGGCATGTGAGGA | 61.732 | 66.667 | 0.00 | 0.00 | 0.00 | 3.71 |
388 | 397 | 2.271497 | GCAGGCATGTGAGGAGCT | 59.729 | 61.111 | 0.00 | 0.00 | 0.00 | 4.09 |
437 | 459 | 0.177604 | GCCTCAGATCACCCTGACAG | 59.822 | 60.000 | 0.00 | 0.00 | 38.18 | 3.51 |
441 | 463 | 1.277273 | TCAGATCACCCTGACAGCTTG | 59.723 | 52.381 | 0.00 | 0.00 | 38.18 | 4.01 |
456 | 478 | 1.625315 | AGCTTGGCATTTCTTTTCCCC | 59.375 | 47.619 | 0.00 | 0.00 | 0.00 | 4.81 |
457 | 479 | 1.672737 | GCTTGGCATTTCTTTTCCCCG | 60.673 | 52.381 | 0.00 | 0.00 | 0.00 | 5.73 |
458 | 480 | 0.972883 | TTGGCATTTCTTTTCCCCGG | 59.027 | 50.000 | 0.00 | 0.00 | 0.00 | 5.73 |
460 | 482 | 1.257750 | GGCATTTCTTTTCCCCGGCT | 61.258 | 55.000 | 0.00 | 0.00 | 0.00 | 5.52 |
476 | 500 | 2.363172 | GCTCTCTCCCCGCCTTTCT | 61.363 | 63.158 | 0.00 | 0.00 | 0.00 | 2.52 |
493 | 517 | 4.427312 | CTTTCTGCTTGCACTTTTGTCTT | 58.573 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
496 | 520 | 3.111098 | CTGCTTGCACTTTTGTCTTGTC | 58.889 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
501 | 525 | 4.630894 | TGCACTTTTGTCTTGTCGATTT | 57.369 | 36.364 | 0.00 | 0.00 | 0.00 | 2.17 |
502 | 526 | 4.597079 | TGCACTTTTGTCTTGTCGATTTC | 58.403 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
511 | 539 | 0.036732 | TTGTCGATTTCCTGCTGGCT | 59.963 | 50.000 | 4.42 | 0.00 | 0.00 | 4.75 |
542 | 570 | 2.221169 | TCTGTACTTGGTACGTCGTGT | 58.779 | 47.619 | 8.47 | 0.00 | 41.41 | 4.49 |
569 | 597 | 1.071228 | TCAATCCAGCATCCAGATCCG | 59.929 | 52.381 | 0.00 | 0.00 | 0.00 | 4.18 |
597 | 625 | 1.348008 | ACTGCATCCACGGGATCCAT | 61.348 | 55.000 | 15.23 | 0.00 | 40.98 | 3.41 |
598 | 626 | 0.179009 | CTGCATCCACGGGATCCATT | 60.179 | 55.000 | 15.23 | 0.00 | 40.98 | 3.16 |
599 | 627 | 0.258484 | TGCATCCACGGGATCCATTT | 59.742 | 50.000 | 15.23 | 0.00 | 40.98 | 2.32 |
600 | 628 | 1.492599 | TGCATCCACGGGATCCATTTA | 59.507 | 47.619 | 15.23 | 0.00 | 40.98 | 1.40 |
609 | 637 | 2.250924 | GGGATCCATTTAAGCCCCATG | 58.749 | 52.381 | 15.23 | 0.00 | 34.10 | 3.66 |
613 | 641 | 4.039609 | GGATCCATTTAAGCCCCATGAAAG | 59.960 | 45.833 | 6.95 | 0.00 | 0.00 | 2.62 |
618 | 646 | 5.012354 | CCATTTAAGCCCCATGAAAGCATAT | 59.988 | 40.000 | 0.00 | 0.00 | 32.27 | 1.78 |
619 | 647 | 6.211184 | CCATTTAAGCCCCATGAAAGCATATA | 59.789 | 38.462 | 0.00 | 0.00 | 32.27 | 0.86 |
620 | 648 | 6.648879 | TTTAAGCCCCATGAAAGCATATAC | 57.351 | 37.500 | 0.00 | 0.00 | 32.27 | 1.47 |
621 | 649 | 2.783135 | AGCCCCATGAAAGCATATACG | 58.217 | 47.619 | 0.00 | 0.00 | 32.27 | 3.06 |
622 | 650 | 2.371841 | AGCCCCATGAAAGCATATACGA | 59.628 | 45.455 | 0.00 | 0.00 | 32.27 | 3.43 |
623 | 651 | 3.146066 | GCCCCATGAAAGCATATACGAA | 58.854 | 45.455 | 0.00 | 0.00 | 32.27 | 3.85 |
624 | 652 | 3.568007 | GCCCCATGAAAGCATATACGAAA | 59.432 | 43.478 | 0.00 | 0.00 | 32.27 | 3.46 |
625 | 653 | 4.556699 | GCCCCATGAAAGCATATACGAAAC | 60.557 | 45.833 | 0.00 | 0.00 | 32.27 | 2.78 |
644 | 675 | 5.389935 | CGAAACAACACTTCAAGATAGGAGC | 60.390 | 44.000 | 0.00 | 0.00 | 0.00 | 4.70 |
647 | 678 | 3.238108 | ACACTTCAAGATAGGAGCGTG | 57.762 | 47.619 | 0.00 | 0.00 | 0.00 | 5.34 |
648 | 679 | 2.563179 | ACACTTCAAGATAGGAGCGTGT | 59.437 | 45.455 | 0.00 | 0.00 | 0.00 | 4.49 |
649 | 680 | 3.762288 | ACACTTCAAGATAGGAGCGTGTA | 59.238 | 43.478 | 0.00 | 0.00 | 32.58 | 2.90 |
650 | 681 | 4.106197 | CACTTCAAGATAGGAGCGTGTAC | 58.894 | 47.826 | 0.00 | 0.00 | 0.00 | 2.90 |
651 | 682 | 3.762288 | ACTTCAAGATAGGAGCGTGTACA | 59.238 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
652 | 683 | 3.777465 | TCAAGATAGGAGCGTGTACAC | 57.223 | 47.619 | 16.32 | 16.32 | 0.00 | 2.90 |
653 | 684 | 3.353557 | TCAAGATAGGAGCGTGTACACT | 58.646 | 45.455 | 23.01 | 5.92 | 0.00 | 3.55 |
654 | 685 | 4.520179 | TCAAGATAGGAGCGTGTACACTA | 58.480 | 43.478 | 23.01 | 9.18 | 0.00 | 2.74 |
655 | 686 | 4.334759 | TCAAGATAGGAGCGTGTACACTAC | 59.665 | 45.833 | 23.01 | 14.94 | 0.00 | 2.73 |
656 | 687 | 3.882444 | AGATAGGAGCGTGTACACTACA | 58.118 | 45.455 | 23.01 | 3.63 | 36.08 | 2.74 |
750 | 787 | 3.230134 | CAGCTAGCAGGAGTAATCCTCT | 58.770 | 50.000 | 18.83 | 11.85 | 40.30 | 3.69 |
795 | 832 | 3.595758 | GCAACCAACTGCGTGCCT | 61.596 | 61.111 | 0.00 | 0.00 | 31.50 | 4.75 |
801 | 839 | 2.358003 | AACTGCGTGCCTCTCTGC | 60.358 | 61.111 | 0.00 | 0.00 | 0.00 | 4.26 |
810 | 848 | 2.187424 | CCTCTCTGCTCTGGCTGC | 59.813 | 66.667 | 0.00 | 0.00 | 39.59 | 5.25 |
813 | 851 | 2.187424 | CTCTGCTCTGGCTGCCTC | 59.813 | 66.667 | 21.03 | 7.02 | 39.59 | 4.70 |
814 | 852 | 3.719883 | CTCTGCTCTGGCTGCCTCG | 62.720 | 68.421 | 21.03 | 11.06 | 39.59 | 4.63 |
848 | 886 | 2.779755 | ATAAAGATCCCACACGCACA | 57.220 | 45.000 | 0.00 | 0.00 | 0.00 | 4.57 |
859 | 897 | 0.523072 | ACACGCACAAATCATGAGCC | 59.477 | 50.000 | 0.09 | 0.00 | 41.96 | 4.70 |
878 | 923 | 1.301401 | AGCCGCGCTTACAAGTGAA | 60.301 | 52.632 | 5.56 | 0.00 | 38.80 | 3.18 |
879 | 924 | 0.673644 | AGCCGCGCTTACAAGTGAAT | 60.674 | 50.000 | 5.56 | 0.00 | 38.80 | 2.57 |
880 | 925 | 0.521242 | GCCGCGCTTACAAGTGAATG | 60.521 | 55.000 | 5.56 | 0.00 | 38.80 | 2.67 |
881 | 926 | 1.075542 | CCGCGCTTACAAGTGAATGA | 58.924 | 50.000 | 5.56 | 0.00 | 38.80 | 2.57 |
896 | 941 | 3.069443 | GTGAATGAGAGTGGGAGGAGATC | 59.931 | 52.174 | 0.00 | 0.00 | 0.00 | 2.75 |
901 | 946 | 3.303938 | GAGAGTGGGAGGAGATCATTCA | 58.696 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
903 | 948 | 3.052262 | AGAGTGGGAGGAGATCATTCAGA | 60.052 | 47.826 | 0.00 | 0.00 | 0.00 | 3.27 |
904 | 949 | 3.903090 | GAGTGGGAGGAGATCATTCAGAT | 59.097 | 47.826 | 0.00 | 0.00 | 40.48 | 2.90 |
905 | 950 | 4.305524 | AGTGGGAGGAGATCATTCAGATT | 58.694 | 43.478 | 0.00 | 0.00 | 37.00 | 2.40 |
906 | 951 | 4.725810 | AGTGGGAGGAGATCATTCAGATTT | 59.274 | 41.667 | 0.00 | 0.00 | 37.00 | 2.17 |
907 | 952 | 5.062528 | GTGGGAGGAGATCATTCAGATTTC | 58.937 | 45.833 | 0.00 | 0.00 | 37.00 | 2.17 |
908 | 953 | 4.723285 | TGGGAGGAGATCATTCAGATTTCA | 59.277 | 41.667 | 0.00 | 0.00 | 39.10 | 2.69 |
909 | 954 | 5.062528 | GGGAGGAGATCATTCAGATTTCAC | 58.937 | 45.833 | 0.00 | 0.00 | 39.10 | 3.18 |
910 | 955 | 5.397221 | GGGAGGAGATCATTCAGATTTCACA | 60.397 | 44.000 | 0.00 | 0.00 | 39.10 | 3.58 |
911 | 956 | 6.297582 | GGAGGAGATCATTCAGATTTCACAT | 58.702 | 40.000 | 0.00 | 0.00 | 39.10 | 3.21 |
912 | 957 | 6.771749 | GGAGGAGATCATTCAGATTTCACATT | 59.228 | 38.462 | 0.00 | 0.00 | 39.10 | 2.71 |
913 | 958 | 7.284944 | GGAGGAGATCATTCAGATTTCACATTT | 59.715 | 37.037 | 0.00 | 0.00 | 39.10 | 2.32 |
914 | 959 | 8.223177 | AGGAGATCATTCAGATTTCACATTTC | 57.777 | 34.615 | 0.00 | 0.00 | 39.10 | 2.17 |
915 | 960 | 7.832685 | AGGAGATCATTCAGATTTCACATTTCA | 59.167 | 33.333 | 0.00 | 0.00 | 39.10 | 2.69 |
916 | 961 | 8.129840 | GGAGATCATTCAGATTTCACATTTCAG | 58.870 | 37.037 | 0.00 | 0.00 | 39.10 | 3.02 |
917 | 962 | 8.803397 | AGATCATTCAGATTTCACATTTCAGA | 57.197 | 30.769 | 0.00 | 0.00 | 37.00 | 3.27 |
925 | 970 | 7.389884 | TCAGATTTCACATTTCAGAGAAGAAGG | 59.610 | 37.037 | 0.00 | 0.00 | 0.00 | 3.46 |
936 | 981 | 1.476488 | GAGAAGAAGGAGAAGCTCGCT | 59.524 | 52.381 | 0.00 | 0.00 | 0.00 | 4.93 |
938 | 983 | 1.203523 | GAAGAAGGAGAAGCTCGCTGA | 59.796 | 52.381 | 0.00 | 0.00 | 0.00 | 4.26 |
970 | 1015 | 4.717778 | AGGTCTAGCTAGAGTGTGTAGAGA | 59.282 | 45.833 | 23.87 | 0.00 | 32.01 | 3.10 |
994 | 1039 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
996 | 1041 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
998 | 1043 | 5.103728 | AGAGAGAGAGAGAGAGAGAGAGAGA | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
1180 | 1237 | 1.068921 | GAGATCCTCAAGCTCGCCC | 59.931 | 63.158 | 0.00 | 0.00 | 29.25 | 6.13 |
1539 | 1614 | 4.450122 | TGCGCGTACGAGGACGAC | 62.450 | 66.667 | 21.65 | 9.50 | 45.82 | 4.34 |
1542 | 1617 | 2.276306 | GCGTACGAGGACGACGAC | 60.276 | 66.667 | 21.65 | 0.00 | 45.82 | 4.34 |
1545 | 1620 | 1.343147 | GTACGAGGACGACGACGAG | 59.657 | 63.158 | 15.32 | 0.00 | 42.66 | 4.18 |
1632 | 1707 | 3.331889 | AGATCAAGTGGGACTCCATGTTT | 59.668 | 43.478 | 0.00 | 0.00 | 46.09 | 2.83 |
1681 | 1764 | 4.753877 | CGACGACGCCGAGCAGAA | 62.754 | 66.667 | 0.00 | 0.00 | 39.50 | 3.02 |
1743 | 1836 | 5.185056 | AGTTTACTGTTTTCTTGGTGTGCTT | 59.815 | 36.000 | 0.00 | 0.00 | 0.00 | 3.91 |
1749 | 1842 | 1.165907 | TTCTTGGTGTGCTTGCGAGG | 61.166 | 55.000 | 2.37 | 0.00 | 0.00 | 4.63 |
1750 | 1843 | 1.597854 | CTTGGTGTGCTTGCGAGGA | 60.598 | 57.895 | 2.37 | 0.00 | 0.00 | 3.71 |
1770 | 1863 | 0.467290 | TGTGGCCTCTGGTTTTGTCC | 60.467 | 55.000 | 3.32 | 0.00 | 0.00 | 4.02 |
1783 | 1883 | 6.831353 | TCTGGTTTTGTCCTCTGTAAAATGAA | 59.169 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
1786 | 1886 | 6.868339 | GGTTTTGTCCTCTGTAAAATGAATGG | 59.132 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
1879 | 1983 | 0.329931 | ACCACACCAACAGACCAACA | 59.670 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
1898 | 2005 | 5.382618 | AACAGCATGGTGAATTTCTCTTC | 57.617 | 39.130 | 30.46 | 0.00 | 43.62 | 2.87 |
1915 | 2175 | 6.928979 | TCTCTTCAGAAATCTAGTACCGAG | 57.071 | 41.667 | 0.00 | 0.00 | 0.00 | 4.63 |
1928 | 2188 | 2.761208 | AGTACCGAGACTAGCTGCAATT | 59.239 | 45.455 | 1.02 | 0.00 | 0.00 | 2.32 |
2048 | 2312 | 3.340337 | AAGAGCGCACAACTTCTTTTC | 57.660 | 42.857 | 11.47 | 0.00 | 0.00 | 2.29 |
2050 | 2314 | 3.728845 | AGAGCGCACAACTTCTTTTCTA | 58.271 | 40.909 | 11.47 | 0.00 | 0.00 | 2.10 |
2094 | 2360 | 1.069978 | TGATGAGAAGCGACAACCACA | 59.930 | 47.619 | 0.00 | 0.00 | 0.00 | 4.17 |
2095 | 2361 | 2.289631 | TGATGAGAAGCGACAACCACAT | 60.290 | 45.455 | 0.00 | 0.00 | 0.00 | 3.21 |
2096 | 2362 | 1.795768 | TGAGAAGCGACAACCACATC | 58.204 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
2098 | 2364 | 2.143122 | GAGAAGCGACAACCACATCAA | 58.857 | 47.619 | 0.00 | 0.00 | 0.00 | 2.57 |
2100 | 2366 | 1.873591 | GAAGCGACAACCACATCAACT | 59.126 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
2120 | 2415 | 2.357327 | TCTATCCCGTGTGTTCAACG | 57.643 | 50.000 | 0.00 | 0.00 | 0.00 | 4.10 |
2163 | 2458 | 8.677148 | TGCTCCTTTATAATTGTGTCCTATTC | 57.323 | 34.615 | 0.00 | 0.00 | 0.00 | 1.75 |
2164 | 2459 | 7.719633 | TGCTCCTTTATAATTGTGTCCTATTCC | 59.280 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
2165 | 2460 | 7.939588 | GCTCCTTTATAATTGTGTCCTATTCCT | 59.060 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
2166 | 2461 | 9.495572 | CTCCTTTATAATTGTGTCCTATTCCTC | 57.504 | 37.037 | 0.00 | 0.00 | 0.00 | 3.71 |
2167 | 2462 | 8.437575 | TCCTTTATAATTGTGTCCTATTCCTCC | 58.562 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
2168 | 2463 | 8.217799 | CCTTTATAATTGTGTCCTATTCCTCCA | 58.782 | 37.037 | 0.00 | 0.00 | 0.00 | 3.86 |
2169 | 2464 | 9.627123 | CTTTATAATTGTGTCCTATTCCTCCAA | 57.373 | 33.333 | 0.00 | 0.00 | 0.00 | 3.53 |
2170 | 2465 | 9.983024 | TTTATAATTGTGTCCTATTCCTCCAAA | 57.017 | 29.630 | 0.00 | 0.00 | 0.00 | 3.28 |
2171 | 2466 | 9.983024 | TTATAATTGTGTCCTATTCCTCCAAAA | 57.017 | 29.630 | 0.00 | 0.00 | 0.00 | 2.44 |
2173 | 2468 | 7.797121 | AATTGTGTCCTATTCCTCCAAAATT | 57.203 | 32.000 | 0.00 | 0.00 | 0.00 | 1.82 |
2174 | 2469 | 8.893563 | AATTGTGTCCTATTCCTCCAAAATTA | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
2175 | 2470 | 8.893563 | ATTGTGTCCTATTCCTCCAAAATTAA | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
2176 | 2471 | 8.893563 | TTGTGTCCTATTCCTCCAAAATTAAT | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
2177 | 2472 | 8.893563 | TGTGTCCTATTCCTCCAAAATTAATT | 57.106 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
2178 | 2473 | 8.748412 | TGTGTCCTATTCCTCCAAAATTAATTG | 58.252 | 33.333 | 0.39 | 0.00 | 0.00 | 2.32 |
2179 | 2474 | 8.749354 | GTGTCCTATTCCTCCAAAATTAATTGT | 58.251 | 33.333 | 0.39 | 0.00 | 0.00 | 2.71 |
2180 | 2475 | 8.966868 | TGTCCTATTCCTCCAAAATTAATTGTC | 58.033 | 33.333 | 0.39 | 0.00 | 0.00 | 3.18 |
2181 | 2476 | 9.190317 | GTCCTATTCCTCCAAAATTAATTGTCT | 57.810 | 33.333 | 0.39 | 0.00 | 0.00 | 3.41 |
2238 | 2560 | 1.548719 | TCCATCCGTACACAAGGACAG | 59.451 | 52.381 | 0.00 | 0.00 | 39.66 | 3.51 |
2250 | 2572 | 1.129058 | AAGGACAGGGACGTCAAAGT | 58.871 | 50.000 | 18.91 | 11.68 | 37.66 | 2.66 |
2264 | 2586 | 7.019418 | GGACGTCAAAGTCATTTATACAAACC | 58.981 | 38.462 | 18.91 | 0.00 | 42.62 | 3.27 |
2265 | 2587 | 7.094933 | GGACGTCAAAGTCATTTATACAAACCT | 60.095 | 37.037 | 18.91 | 0.00 | 42.62 | 3.50 |
2289 | 2611 | 8.345565 | CCTTTTCTTTGATTTACGGGATATCTG | 58.654 | 37.037 | 2.05 | 0.00 | 0.00 | 2.90 |
2293 | 2615 | 8.018537 | TCTTTGATTTACGGGATATCTGAGAA | 57.981 | 34.615 | 2.05 | 0.00 | 0.00 | 2.87 |
2297 | 2619 | 6.323996 | TGATTTACGGGATATCTGAGAACAGT | 59.676 | 38.462 | 2.05 | 0.00 | 43.81 | 3.55 |
2346 | 2668 | 5.755409 | TTCCTTACAATTACTCAGCTCCA | 57.245 | 39.130 | 0.00 | 0.00 | 0.00 | 3.86 |
2347 | 2669 | 5.755409 | TCCTTACAATTACTCAGCTCCAA | 57.245 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
2364 | 2702 | 3.521727 | TCCAAAGGAGAGCTCTAAAGGT | 58.478 | 45.455 | 18.25 | 0.00 | 35.46 | 3.50 |
2365 | 2703 | 3.910627 | TCCAAAGGAGAGCTCTAAAGGTT | 59.089 | 43.478 | 18.25 | 4.05 | 32.07 | 3.50 |
2392 | 2730 | 2.036733 | TCTTCGAAATGGACACCGTCTT | 59.963 | 45.455 | 0.00 | 0.00 | 32.47 | 3.01 |
2394 | 2732 | 3.663995 | TCGAAATGGACACCGTCTTTA | 57.336 | 42.857 | 0.00 | 0.00 | 32.47 | 1.85 |
2395 | 2733 | 3.992643 | TCGAAATGGACACCGTCTTTAA | 58.007 | 40.909 | 0.00 | 0.00 | 32.47 | 1.52 |
2403 | 2741 | 2.298163 | GACACCGTCTTTAAGGGTCTGA | 59.702 | 50.000 | 0.00 | 0.00 | 44.34 | 3.27 |
2406 | 2744 | 2.165845 | ACCGTCTTTAAGGGTCTGATCG | 59.834 | 50.000 | 0.00 | 0.00 | 42.54 | 3.69 |
2411 | 2749 | 4.099573 | GTCTTTAAGGGTCTGATCGGATCA | 59.900 | 45.833 | 18.96 | 18.96 | 37.76 | 2.92 |
2418 | 2756 | 1.001406 | GTCTGATCGGATCATGGGTCC | 59.999 | 57.143 | 20.21 | 7.71 | 38.85 | 4.46 |
2422 | 2760 | 3.550431 | CGGATCATGGGTCCCGCT | 61.550 | 66.667 | 2.65 | 0.00 | 35.29 | 5.52 |
2428 | 2766 | 1.303236 | CATGGGTCCCGCTTGACAA | 60.303 | 57.895 | 2.65 | 0.00 | 36.97 | 3.18 |
2429 | 2767 | 1.002134 | ATGGGTCCCGCTTGACAAG | 60.002 | 57.895 | 11.02 | 11.02 | 36.97 | 3.16 |
2440 | 2778 | 2.414481 | CGCTTGACAAGATCAGAACCAG | 59.586 | 50.000 | 19.51 | 0.00 | 38.99 | 4.00 |
2451 | 2789 | 8.049117 | ACAAGATCAGAACCAGCATTCTATTAA | 58.951 | 33.333 | 0.00 | 0.00 | 36.78 | 1.40 |
2457 | 2795 | 7.665559 | TCAGAACCAGCATTCTATTAAAACACT | 59.334 | 33.333 | 0.00 | 0.00 | 36.78 | 3.55 |
2460 | 2800 | 8.816640 | AACCAGCATTCTATTAAAACACTTTG | 57.183 | 30.769 | 0.00 | 0.00 | 0.00 | 2.77 |
2504 | 2846 | 7.439955 | ACAAATTTACGTTTTCCTGAATTTCCC | 59.560 | 33.333 | 0.00 | 0.00 | 0.00 | 3.97 |
2505 | 2847 | 6.658188 | ATTTACGTTTTCCTGAATTTCCCA | 57.342 | 33.333 | 0.00 | 0.00 | 0.00 | 4.37 |
2509 | 2851 | 5.924356 | ACGTTTTCCTGAATTTCCCAAAAT | 58.076 | 33.333 | 0.00 | 0.00 | 36.64 | 1.82 |
2512 | 2854 | 6.295249 | GTTTTCCTGAATTTCCCAAAATGGA | 58.705 | 36.000 | 0.00 | 0.00 | 40.96 | 3.41 |
2513 | 2855 | 5.743636 | TTCCTGAATTTCCCAAAATGGAG | 57.256 | 39.130 | 0.00 | 0.00 | 40.96 | 3.86 |
2515 | 2857 | 5.018809 | TCCTGAATTTCCCAAAATGGAGAG | 58.981 | 41.667 | 0.00 | 0.00 | 40.96 | 3.20 |
2519 | 2861 | 7.310858 | CCTGAATTTCCCAAAATGGAGAGAAAT | 60.311 | 37.037 | 0.00 | 2.69 | 40.96 | 2.17 |
2521 | 2863 | 8.484641 | GAATTTCCCAAAATGGAGAGAAATTC | 57.515 | 34.615 | 22.25 | 22.25 | 44.88 | 2.17 |
2529 | 2871 | 8.146412 | CCAAAATGGAGAGAAATTCTGAAAACT | 58.854 | 33.333 | 0.00 | 0.00 | 40.96 | 2.66 |
2532 | 2874 | 9.755804 | AAATGGAGAGAAATTCTGAAAACTTTC | 57.244 | 29.630 | 0.00 | 6.79 | 35.87 | 2.62 |
2535 | 2877 | 7.557719 | TGGAGAGAAATTCTGAAAACTTTCACT | 59.442 | 33.333 | 0.00 | 12.99 | 41.88 | 3.41 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
51 | 52 | 8.924691 | GCTCAAAATGTTTATGCAAATGTAAGA | 58.075 | 29.630 | 0.00 | 0.00 | 0.00 | 2.10 |
52 | 53 | 8.710551 | TGCTCAAAATGTTTATGCAAATGTAAG | 58.289 | 29.630 | 0.00 | 0.00 | 0.00 | 2.34 |
53 | 54 | 8.599055 | TGCTCAAAATGTTTATGCAAATGTAA | 57.401 | 26.923 | 0.00 | 0.00 | 0.00 | 2.41 |
54 | 55 | 8.657729 | CATGCTCAAAATGTTTATGCAAATGTA | 58.342 | 29.630 | 0.00 | 0.00 | 32.66 | 2.29 |
55 | 56 | 7.523219 | CATGCTCAAAATGTTTATGCAAATGT | 58.477 | 30.769 | 0.00 | 0.00 | 32.66 | 2.71 |
56 | 57 | 6.467682 | GCATGCTCAAAATGTTTATGCAAATG | 59.532 | 34.615 | 11.37 | 0.00 | 39.25 | 2.32 |
57 | 58 | 6.149640 | TGCATGCTCAAAATGTTTATGCAAAT | 59.850 | 30.769 | 20.33 | 0.00 | 44.22 | 2.32 |
58 | 59 | 5.469084 | TGCATGCTCAAAATGTTTATGCAAA | 59.531 | 32.000 | 20.33 | 0.00 | 44.22 | 3.68 |
59 | 60 | 4.995487 | TGCATGCTCAAAATGTTTATGCAA | 59.005 | 33.333 | 20.33 | 0.00 | 44.22 | 4.08 |
60 | 61 | 4.566987 | TGCATGCTCAAAATGTTTATGCA | 58.433 | 34.783 | 20.33 | 0.00 | 44.76 | 3.96 |
61 | 62 | 4.033587 | CCTGCATGCTCAAAATGTTTATGC | 59.966 | 41.667 | 20.33 | 0.00 | 39.72 | 3.14 |
62 | 63 | 5.412640 | TCCTGCATGCTCAAAATGTTTATG | 58.587 | 37.500 | 20.33 | 0.00 | 0.00 | 1.90 |
63 | 64 | 5.664294 | TCCTGCATGCTCAAAATGTTTAT | 57.336 | 34.783 | 20.33 | 0.00 | 0.00 | 1.40 |
64 | 65 | 5.465532 | TTCCTGCATGCTCAAAATGTTTA | 57.534 | 34.783 | 20.33 | 0.00 | 0.00 | 2.01 |
65 | 66 | 4.312443 | CTTCCTGCATGCTCAAAATGTTT | 58.688 | 39.130 | 20.33 | 0.00 | 0.00 | 2.83 |
66 | 67 | 3.863400 | GCTTCCTGCATGCTCAAAATGTT | 60.863 | 43.478 | 20.33 | 0.00 | 42.31 | 2.71 |
67 | 68 | 2.353406 | GCTTCCTGCATGCTCAAAATGT | 60.353 | 45.455 | 20.33 | 0.00 | 42.31 | 2.71 |
68 | 69 | 2.268298 | GCTTCCTGCATGCTCAAAATG | 58.732 | 47.619 | 20.33 | 4.46 | 42.31 | 2.32 |
69 | 70 | 2.667473 | GCTTCCTGCATGCTCAAAAT | 57.333 | 45.000 | 20.33 | 0.00 | 42.31 | 1.82 |
94 | 95 | 1.791103 | CGCTCTTCGGCTCTAGGGAG | 61.791 | 65.000 | 0.00 | 0.00 | 42.18 | 4.30 |
95 | 96 | 1.824329 | CGCTCTTCGGCTCTAGGGA | 60.824 | 63.158 | 0.00 | 0.00 | 33.78 | 4.20 |
96 | 97 | 2.725008 | CGCTCTTCGGCTCTAGGG | 59.275 | 66.667 | 0.00 | 0.00 | 33.78 | 3.53 |
113 | 114 | 2.616510 | CCAGATATCCAATTCGGCTCCC | 60.617 | 54.545 | 0.00 | 0.00 | 33.14 | 4.30 |
114 | 115 | 2.039084 | ACCAGATATCCAATTCGGCTCC | 59.961 | 50.000 | 0.00 | 0.00 | 33.14 | 4.70 |
115 | 116 | 3.070018 | CACCAGATATCCAATTCGGCTC | 58.930 | 50.000 | 0.00 | 0.00 | 33.14 | 4.70 |
116 | 117 | 2.811873 | GCACCAGATATCCAATTCGGCT | 60.812 | 50.000 | 0.00 | 0.00 | 33.14 | 5.52 |
117 | 118 | 1.537202 | GCACCAGATATCCAATTCGGC | 59.463 | 52.381 | 0.00 | 0.00 | 33.14 | 5.54 |
118 | 119 | 2.154462 | GGCACCAGATATCCAATTCGG | 58.846 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
119 | 120 | 3.131709 | AGGCACCAGATATCCAATTCG | 57.868 | 47.619 | 0.00 | 0.00 | 0.00 | 3.34 |
120 | 121 | 4.327680 | GGTAGGCACCAGATATCCAATTC | 58.672 | 47.826 | 0.00 | 0.00 | 45.04 | 2.17 |
121 | 122 | 4.373156 | GGTAGGCACCAGATATCCAATT | 57.627 | 45.455 | 0.00 | 0.00 | 45.04 | 2.32 |
133 | 134 | 2.406596 | TTAAACGGATGGTAGGCACC | 57.593 | 50.000 | 0.00 | 0.00 | 46.00 | 5.01 |
134 | 135 | 5.587443 | ACTTTATTAAACGGATGGTAGGCAC | 59.413 | 40.000 | 0.00 | 0.00 | 0.00 | 5.01 |
135 | 136 | 5.747342 | ACTTTATTAAACGGATGGTAGGCA | 58.253 | 37.500 | 0.00 | 0.00 | 0.00 | 4.75 |
136 | 137 | 6.316890 | TGAACTTTATTAAACGGATGGTAGGC | 59.683 | 38.462 | 0.00 | 0.00 | 0.00 | 3.93 |
137 | 138 | 7.852971 | TGAACTTTATTAAACGGATGGTAGG | 57.147 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
169 | 171 | 5.501156 | CCCATTTTATAGCTAGTCCCATCC | 58.499 | 45.833 | 0.00 | 0.00 | 0.00 | 3.51 |
172 | 174 | 3.073946 | GCCCCATTTTATAGCTAGTCCCA | 59.926 | 47.826 | 0.00 | 0.00 | 0.00 | 4.37 |
174 | 176 | 4.367039 | TGCCCCATTTTATAGCTAGTCC | 57.633 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
180 | 182 | 3.749665 | TGCATTGCCCCATTTTATAGC | 57.250 | 42.857 | 6.12 | 0.00 | 0.00 | 2.97 |
189 | 191 | 3.457484 | CACACTTGCATTGCCCCA | 58.543 | 55.556 | 6.12 | 0.00 | 0.00 | 4.96 |
278 | 280 | 0.807496 | GAGTGTGCTGGCCTTTCATC | 59.193 | 55.000 | 3.32 | 0.00 | 0.00 | 2.92 |
331 | 340 | 3.216800 | GGTTGATGGCTATCATTGCAGA | 58.783 | 45.455 | 14.04 | 0.00 | 42.60 | 4.26 |
368 | 377 | 3.711059 | CTCCTCACATGCCTGCCCC | 62.711 | 68.421 | 0.00 | 0.00 | 0.00 | 5.80 |
374 | 383 | 4.427394 | CGTAGCTCCTCACATGCC | 57.573 | 61.111 | 0.00 | 0.00 | 0.00 | 4.40 |
388 | 397 | 2.134933 | TATGTGGATGCCGGGCGTA | 61.135 | 57.895 | 14.95 | 0.00 | 0.00 | 4.42 |
428 | 450 | 0.178953 | AAATGCCAAGCTGTCAGGGT | 60.179 | 50.000 | 1.14 | 0.00 | 0.00 | 4.34 |
429 | 451 | 0.529378 | GAAATGCCAAGCTGTCAGGG | 59.471 | 55.000 | 1.14 | 0.00 | 0.00 | 4.45 |
437 | 459 | 1.672737 | CGGGGAAAAGAAATGCCAAGC | 60.673 | 52.381 | 0.00 | 0.00 | 0.00 | 4.01 |
441 | 463 | 1.218047 | GCCGGGGAAAAGAAATGCC | 59.782 | 57.895 | 2.18 | 0.00 | 0.00 | 4.40 |
458 | 480 | 2.188207 | GAAAGGCGGGGAGAGAGC | 59.812 | 66.667 | 0.00 | 0.00 | 0.00 | 4.09 |
460 | 482 | 2.660064 | GCAGAAAGGCGGGGAGAGA | 61.660 | 63.158 | 0.00 | 0.00 | 0.00 | 3.10 |
476 | 500 | 2.477694 | CGACAAGACAAAAGTGCAAGCA | 60.478 | 45.455 | 0.00 | 0.00 | 0.00 | 3.91 |
493 | 517 | 0.674581 | CAGCCAGCAGGAAATCGACA | 60.675 | 55.000 | 0.00 | 0.00 | 36.89 | 4.35 |
496 | 520 | 2.796651 | GCAGCCAGCAGGAAATCG | 59.203 | 61.111 | 0.00 | 0.00 | 44.79 | 3.34 |
522 | 550 | 2.221169 | ACACGACGTACCAAGTACAGA | 58.779 | 47.619 | 0.00 | 0.00 | 38.77 | 3.41 |
527 | 555 | 0.746063 | TCCAACACGACGTACCAAGT | 59.254 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
528 | 556 | 1.990563 | GATCCAACACGACGTACCAAG | 59.009 | 52.381 | 0.00 | 0.00 | 0.00 | 3.61 |
529 | 557 | 1.614903 | AGATCCAACACGACGTACCAA | 59.385 | 47.619 | 0.00 | 0.00 | 0.00 | 3.67 |
531 | 559 | 1.200716 | TGAGATCCAACACGACGTACC | 59.799 | 52.381 | 0.00 | 0.00 | 0.00 | 3.34 |
569 | 597 | 0.721718 | GTGGATGCAGTACAAGCGAC | 59.278 | 55.000 | 0.00 | 0.00 | 33.85 | 5.19 |
597 | 625 | 5.240623 | CGTATATGCTTTCATGGGGCTTAAA | 59.759 | 40.000 | 0.00 | 0.00 | 34.22 | 1.52 |
598 | 626 | 4.759693 | CGTATATGCTTTCATGGGGCTTAA | 59.240 | 41.667 | 0.00 | 0.00 | 34.22 | 1.85 |
599 | 627 | 4.041075 | TCGTATATGCTTTCATGGGGCTTA | 59.959 | 41.667 | 0.00 | 0.00 | 34.22 | 3.09 |
600 | 628 | 3.149196 | CGTATATGCTTTCATGGGGCTT | 58.851 | 45.455 | 0.00 | 0.00 | 34.22 | 4.35 |
609 | 637 | 7.295201 | TGAAGTGTTGTTTCGTATATGCTTTC | 58.705 | 34.615 | 0.00 | 0.00 | 0.00 | 2.62 |
613 | 641 | 6.827641 | TCTTGAAGTGTTGTTTCGTATATGC | 58.172 | 36.000 | 0.00 | 0.00 | 0.00 | 3.14 |
618 | 646 | 6.751157 | TCCTATCTTGAAGTGTTGTTTCGTA | 58.249 | 36.000 | 0.00 | 0.00 | 0.00 | 3.43 |
619 | 647 | 5.607477 | TCCTATCTTGAAGTGTTGTTTCGT | 58.393 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
620 | 648 | 5.389935 | GCTCCTATCTTGAAGTGTTGTTTCG | 60.390 | 44.000 | 0.00 | 0.00 | 0.00 | 3.46 |
621 | 649 | 5.389935 | CGCTCCTATCTTGAAGTGTTGTTTC | 60.390 | 44.000 | 0.00 | 0.00 | 0.00 | 2.78 |
622 | 650 | 4.452455 | CGCTCCTATCTTGAAGTGTTGTTT | 59.548 | 41.667 | 0.00 | 0.00 | 0.00 | 2.83 |
623 | 651 | 3.997021 | CGCTCCTATCTTGAAGTGTTGTT | 59.003 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
624 | 652 | 3.006967 | ACGCTCCTATCTTGAAGTGTTGT | 59.993 | 43.478 | 0.00 | 0.00 | 0.00 | 3.32 |
625 | 653 | 3.369147 | CACGCTCCTATCTTGAAGTGTTG | 59.631 | 47.826 | 0.00 | 0.00 | 0.00 | 3.33 |
647 | 678 | 0.662374 | AGCGCGTGTGTGTAGTGTAC | 60.662 | 55.000 | 8.43 | 0.00 | 0.00 | 2.90 |
648 | 679 | 0.386352 | GAGCGCGTGTGTGTAGTGTA | 60.386 | 55.000 | 8.43 | 0.00 | 0.00 | 2.90 |
649 | 680 | 1.660575 | GAGCGCGTGTGTGTAGTGT | 60.661 | 57.895 | 8.43 | 0.00 | 0.00 | 3.55 |
650 | 681 | 1.371758 | AGAGCGCGTGTGTGTAGTG | 60.372 | 57.895 | 8.43 | 0.00 | 0.00 | 2.74 |
651 | 682 | 1.371758 | CAGAGCGCGTGTGTGTAGT | 60.372 | 57.895 | 8.43 | 0.00 | 0.00 | 2.73 |
652 | 683 | 2.088763 | CCAGAGCGCGTGTGTGTAG | 61.089 | 63.158 | 8.43 | 0.00 | 0.00 | 2.74 |
653 | 684 | 2.049526 | CCAGAGCGCGTGTGTGTA | 60.050 | 61.111 | 8.43 | 0.00 | 0.00 | 2.90 |
654 | 685 | 4.969196 | CCCAGAGCGCGTGTGTGT | 62.969 | 66.667 | 8.43 | 0.00 | 0.00 | 3.72 |
655 | 686 | 4.969196 | ACCCAGAGCGCGTGTGTG | 62.969 | 66.667 | 8.43 | 4.24 | 0.00 | 3.82 |
656 | 687 | 4.969196 | CACCCAGAGCGCGTGTGT | 62.969 | 66.667 | 8.43 | 0.00 | 0.00 | 3.72 |
688 | 719 | 3.122948 | CACATTAGTTGCAGTGGTCGTAC | 59.877 | 47.826 | 0.00 | 0.00 | 0.00 | 3.67 |
795 | 832 | 2.284478 | AGGCAGCCAGAGCAGAGA | 60.284 | 61.111 | 15.80 | 0.00 | 43.56 | 3.10 |
801 | 839 | 2.511145 | GAAGCGAGGCAGCCAGAG | 60.511 | 66.667 | 15.80 | 5.26 | 38.01 | 3.35 |
810 | 848 | 3.828875 | ATAGAAAGGAAGGAAGCGAGG | 57.171 | 47.619 | 0.00 | 0.00 | 0.00 | 4.63 |
813 | 851 | 6.425417 | GGATCTTTATAGAAAGGAAGGAAGCG | 59.575 | 42.308 | 9.85 | 0.00 | 42.13 | 4.68 |
814 | 852 | 6.712998 | GGGATCTTTATAGAAAGGAAGGAAGC | 59.287 | 42.308 | 9.85 | 0.00 | 42.13 | 3.86 |
848 | 886 | 2.475466 | CGCGGCTGGCTCATGATTT | 61.475 | 57.895 | 0.00 | 0.00 | 40.44 | 2.17 |
859 | 897 | 1.565156 | TTCACTTGTAAGCGCGGCTG | 61.565 | 55.000 | 8.83 | 0.00 | 39.62 | 4.85 |
878 | 923 | 3.634218 | ATGATCTCCTCCCACTCTCAT | 57.366 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
879 | 924 | 3.303938 | GAATGATCTCCTCCCACTCTCA | 58.696 | 50.000 | 0.00 | 0.00 | 0.00 | 3.27 |
880 | 925 | 3.303938 | TGAATGATCTCCTCCCACTCTC | 58.696 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
881 | 926 | 3.052262 | TCTGAATGATCTCCTCCCACTCT | 60.052 | 47.826 | 0.00 | 0.00 | 0.00 | 3.24 |
896 | 941 | 8.727910 | TCTTCTCTGAAATGTGAAATCTGAATG | 58.272 | 33.333 | 0.00 | 0.00 | 0.00 | 2.67 |
901 | 946 | 7.456725 | TCCTTCTTCTCTGAAATGTGAAATCT | 58.543 | 34.615 | 0.00 | 0.00 | 0.00 | 2.40 |
903 | 948 | 7.456725 | TCTCCTTCTTCTCTGAAATGTGAAAT | 58.543 | 34.615 | 0.00 | 0.00 | 0.00 | 2.17 |
904 | 949 | 6.830912 | TCTCCTTCTTCTCTGAAATGTGAAA | 58.169 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
905 | 950 | 6.425210 | TCTCCTTCTTCTCTGAAATGTGAA | 57.575 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
906 | 951 | 6.425210 | TTCTCCTTCTTCTCTGAAATGTGA | 57.575 | 37.500 | 0.00 | 0.00 | 0.00 | 3.58 |
907 | 952 | 5.122082 | GCTTCTCCTTCTTCTCTGAAATGTG | 59.878 | 44.000 | 0.00 | 0.00 | 0.00 | 3.21 |
908 | 953 | 5.012975 | AGCTTCTCCTTCTTCTCTGAAATGT | 59.987 | 40.000 | 0.00 | 0.00 | 0.00 | 2.71 |
909 | 954 | 5.490159 | AGCTTCTCCTTCTTCTCTGAAATG | 58.510 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
910 | 955 | 5.624281 | CGAGCTTCTCCTTCTTCTCTGAAAT | 60.624 | 44.000 | 0.00 | 0.00 | 0.00 | 2.17 |
911 | 956 | 4.321601 | CGAGCTTCTCCTTCTTCTCTGAAA | 60.322 | 45.833 | 0.00 | 0.00 | 0.00 | 2.69 |
912 | 957 | 3.192422 | CGAGCTTCTCCTTCTTCTCTGAA | 59.808 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
913 | 958 | 2.752354 | CGAGCTTCTCCTTCTTCTCTGA | 59.248 | 50.000 | 0.00 | 0.00 | 0.00 | 3.27 |
914 | 959 | 2.735126 | GCGAGCTTCTCCTTCTTCTCTG | 60.735 | 54.545 | 0.00 | 0.00 | 0.00 | 3.35 |
915 | 960 | 1.476488 | GCGAGCTTCTCCTTCTTCTCT | 59.524 | 52.381 | 0.00 | 0.00 | 0.00 | 3.10 |
916 | 961 | 1.476488 | AGCGAGCTTCTCCTTCTTCTC | 59.524 | 52.381 | 0.00 | 0.00 | 0.00 | 2.87 |
917 | 962 | 1.204467 | CAGCGAGCTTCTCCTTCTTCT | 59.796 | 52.381 | 0.00 | 0.00 | 0.00 | 2.85 |
925 | 970 | 0.381801 | CTCCTCTCAGCGAGCTTCTC | 59.618 | 60.000 | 0.00 | 0.00 | 38.49 | 2.87 |
936 | 981 | 2.487775 | AGCTAGACCTCTCTCCTCTCA | 58.512 | 52.381 | 0.00 | 0.00 | 0.00 | 3.27 |
938 | 983 | 3.904339 | CTCTAGCTAGACCTCTCTCCTCT | 59.096 | 52.174 | 19.72 | 0.00 | 0.00 | 3.69 |
970 | 1015 | 5.103728 | TCTCTCTCTCTCTCTCTCTCTCTCT | 60.104 | 48.000 | 0.00 | 0.00 | 0.00 | 3.10 |
994 | 1039 | 1.394618 | GCGTACCAGTCCATCTCTCT | 58.605 | 55.000 | 0.00 | 0.00 | 0.00 | 3.10 |
996 | 1041 | 0.680280 | ACGCGTACCAGTCCATCTCT | 60.680 | 55.000 | 11.67 | 0.00 | 0.00 | 3.10 |
998 | 1043 | 1.511305 | CACGCGTACCAGTCCATCT | 59.489 | 57.895 | 13.44 | 0.00 | 0.00 | 2.90 |
1204 | 1261 | 2.212794 | GAGGAGGAGGACTGGGACGA | 62.213 | 65.000 | 0.00 | 0.00 | 0.00 | 4.20 |
1413 | 1476 | 4.272991 | GTGATCATGAGCACCATCTTCTTC | 59.727 | 45.833 | 29.45 | 4.11 | 41.49 | 2.87 |
1555 | 1630 | 3.578272 | CTCCTCGTCCTCCTCGCG | 61.578 | 72.222 | 0.00 | 0.00 | 0.00 | 5.87 |
1599 | 1674 | 1.299773 | CTTGATCTCGCTCTCGCCC | 60.300 | 63.158 | 0.00 | 0.00 | 35.26 | 6.13 |
1632 | 1707 | 2.636412 | CGTCGGCTTGAGGTCCTGA | 61.636 | 63.158 | 0.00 | 0.00 | 0.00 | 3.86 |
1679 | 1762 | 3.013219 | GAGGGAGCAAGAGGAAATGTTC | 58.987 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1680 | 1763 | 2.616510 | CGAGGGAGCAAGAGGAAATGTT | 60.617 | 50.000 | 0.00 | 0.00 | 0.00 | 2.71 |
1681 | 1764 | 1.065854 | CGAGGGAGCAAGAGGAAATGT | 60.066 | 52.381 | 0.00 | 0.00 | 0.00 | 2.71 |
1721 | 1809 | 5.406649 | CAAGCACACCAAGAAAACAGTAAA | 58.593 | 37.500 | 0.00 | 0.00 | 0.00 | 2.01 |
1749 | 1842 | 1.541588 | GACAAAACCAGAGGCCACATC | 59.458 | 52.381 | 5.01 | 0.00 | 0.00 | 3.06 |
1750 | 1843 | 1.620822 | GACAAAACCAGAGGCCACAT | 58.379 | 50.000 | 5.01 | 0.00 | 0.00 | 3.21 |
1770 | 1863 | 7.596248 | CACTCCAAAACCATTCATTTTACAGAG | 59.404 | 37.037 | 0.00 | 0.00 | 32.05 | 3.35 |
1783 | 1883 | 4.371624 | TCACTCATCACTCCAAAACCAT | 57.628 | 40.909 | 0.00 | 0.00 | 0.00 | 3.55 |
1786 | 1886 | 5.529060 | AGTTCTTCACTCATCACTCCAAAAC | 59.471 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
1819 | 1919 | 0.026803 | GTGCGCAGATCAATCGTTCC | 59.973 | 55.000 | 12.22 | 0.00 | 0.00 | 3.62 |
1879 | 1983 | 4.914983 | TCTGAAGAGAAATTCACCATGCT | 58.085 | 39.130 | 0.00 | 0.00 | 35.40 | 3.79 |
1906 | 2013 | 2.704464 | TGCAGCTAGTCTCGGTACTA | 57.296 | 50.000 | 0.00 | 0.00 | 0.00 | 1.82 |
1908 | 2015 | 2.873133 | ATTGCAGCTAGTCTCGGTAC | 57.127 | 50.000 | 0.00 | 0.00 | 0.00 | 3.34 |
1910 | 2017 | 2.496070 | TGTAATTGCAGCTAGTCTCGGT | 59.504 | 45.455 | 0.00 | 0.00 | 0.00 | 4.69 |
1912 | 2172 | 3.549471 | CACTGTAATTGCAGCTAGTCTCG | 59.451 | 47.826 | 21.76 | 0.00 | 39.96 | 4.04 |
1915 | 2175 | 3.861840 | TCCACTGTAATTGCAGCTAGTC | 58.138 | 45.455 | 21.76 | 0.00 | 39.96 | 2.59 |
1928 | 2188 | 1.751351 | CTCTGAAGCGGATCCACTGTA | 59.249 | 52.381 | 13.41 | 0.00 | 0.00 | 2.74 |
2094 | 2360 | 4.020573 | TGAACACACGGGATAGAAGTTGAT | 60.021 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
2095 | 2361 | 3.322541 | TGAACACACGGGATAGAAGTTGA | 59.677 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
2096 | 2362 | 3.659786 | TGAACACACGGGATAGAAGTTG | 58.340 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
2098 | 2364 | 3.660865 | GTTGAACACACGGGATAGAAGT | 58.339 | 45.455 | 0.00 | 0.00 | 0.00 | 3.01 |
2100 | 2366 | 2.610976 | CCGTTGAACACACGGGATAGAA | 60.611 | 50.000 | 15.28 | 0.00 | 42.70 | 2.10 |
2138 | 2433 | 7.719633 | GGAATAGGACACAATTATAAAGGAGCA | 59.280 | 37.037 | 0.00 | 0.00 | 0.00 | 4.26 |
2174 | 2469 | 9.886132 | ATTTTTGGACGACTATAGTAGACAATT | 57.114 | 29.630 | 18.55 | 8.85 | 0.00 | 2.32 |
2182 | 2477 | 9.444600 | ACACAATTATTTTTGGACGACTATAGT | 57.555 | 29.630 | 4.68 | 4.68 | 0.00 | 2.12 |
2183 | 2478 | 9.916397 | GACACAATTATTTTTGGACGACTATAG | 57.084 | 33.333 | 0.00 | 0.00 | 0.00 | 1.31 |
2184 | 2479 | 8.885722 | GGACACAATTATTTTTGGACGACTATA | 58.114 | 33.333 | 0.00 | 0.00 | 0.00 | 1.31 |
2185 | 2480 | 7.610305 | AGGACACAATTATTTTTGGACGACTAT | 59.390 | 33.333 | 0.00 | 0.00 | 0.00 | 2.12 |
2186 | 2481 | 6.938030 | AGGACACAATTATTTTTGGACGACTA | 59.062 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
2187 | 2482 | 5.768164 | AGGACACAATTATTTTTGGACGACT | 59.232 | 36.000 | 0.00 | 0.00 | 0.00 | 4.18 |
2188 | 2483 | 6.009115 | AGGACACAATTATTTTTGGACGAC | 57.991 | 37.500 | 0.00 | 0.00 | 0.00 | 4.34 |
2191 | 2486 | 5.988561 | TGCAAGGACACAATTATTTTTGGAC | 59.011 | 36.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2238 | 2560 | 6.730960 | TTGTATAAATGACTTTGACGTCCC | 57.269 | 37.500 | 14.12 | 0.00 | 32.97 | 4.46 |
2264 | 2586 | 9.109393 | TCAGATATCCCGTAAATCAAAGAAAAG | 57.891 | 33.333 | 0.00 | 0.00 | 0.00 | 2.27 |
2265 | 2587 | 9.109393 | CTCAGATATCCCGTAAATCAAAGAAAA | 57.891 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
2272 | 2594 | 6.323996 | ACTGTTCTCAGATATCCCGTAAATCA | 59.676 | 38.462 | 0.00 | 0.00 | 43.76 | 2.57 |
2273 | 2595 | 6.642950 | CACTGTTCTCAGATATCCCGTAAATC | 59.357 | 42.308 | 0.00 | 0.00 | 43.76 | 2.17 |
2289 | 2611 | 4.870991 | GGCTCTACAATTACCACTGTTCTC | 59.129 | 45.833 | 0.00 | 0.00 | 0.00 | 2.87 |
2293 | 2615 | 4.225042 | TGATGGCTCTACAATTACCACTGT | 59.775 | 41.667 | 0.00 | 0.00 | 32.13 | 3.55 |
2297 | 2619 | 5.185454 | CAACTGATGGCTCTACAATTACCA | 58.815 | 41.667 | 0.00 | 0.00 | 34.28 | 3.25 |
2324 | 2646 | 5.755409 | TGGAGCTGAGTAATTGTAAGGAA | 57.245 | 39.130 | 0.00 | 0.00 | 0.00 | 3.36 |
2330 | 2652 | 4.583871 | CTCCTTTGGAGCTGAGTAATTGT | 58.416 | 43.478 | 0.00 | 0.00 | 43.29 | 2.71 |
2379 | 2717 | 1.982958 | ACCCTTAAAGACGGTGTCCAT | 59.017 | 47.619 | 0.00 | 0.00 | 32.18 | 3.41 |
2392 | 2730 | 3.324846 | CCATGATCCGATCAGACCCTTAA | 59.675 | 47.826 | 16.07 | 0.00 | 43.53 | 1.85 |
2394 | 2732 | 1.696336 | CCATGATCCGATCAGACCCTT | 59.304 | 52.381 | 16.07 | 0.00 | 43.53 | 3.95 |
2395 | 2733 | 1.346062 | CCATGATCCGATCAGACCCT | 58.654 | 55.000 | 16.07 | 0.00 | 43.53 | 4.34 |
2403 | 2741 | 2.883828 | GCGGGACCCATGATCCGAT | 61.884 | 63.158 | 12.15 | 0.00 | 44.69 | 4.18 |
2406 | 2744 | 1.526917 | CAAGCGGGACCCATGATCC | 60.527 | 63.158 | 12.15 | 7.30 | 35.28 | 3.36 |
2411 | 2749 | 1.002134 | CTTGTCAAGCGGGACCCAT | 60.002 | 57.895 | 12.15 | 0.00 | 36.97 | 4.00 |
2418 | 2756 | 1.734465 | GGTTCTGATCTTGTCAAGCGG | 59.266 | 52.381 | 7.78 | 0.56 | 36.14 | 5.52 |
2422 | 2760 | 3.490439 | TGCTGGTTCTGATCTTGTCAA | 57.510 | 42.857 | 0.00 | 0.00 | 36.14 | 3.18 |
2428 | 2766 | 8.897752 | GTTTTAATAGAATGCTGGTTCTGATCT | 58.102 | 33.333 | 9.02 | 0.00 | 38.79 | 2.75 |
2429 | 2767 | 8.677300 | TGTTTTAATAGAATGCTGGTTCTGATC | 58.323 | 33.333 | 9.02 | 0.00 | 38.79 | 2.92 |
2478 | 2820 | 7.439955 | GGGAAATTCAGGAAAACGTAAATTTGT | 59.560 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
2479 | 2821 | 7.439655 | TGGGAAATTCAGGAAAACGTAAATTTG | 59.560 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
2482 | 2824 | 6.658188 | TGGGAAATTCAGGAAAACGTAAAT | 57.342 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
2488 | 2830 | 6.295249 | TCCATTTTGGGAAATTCAGGAAAAC | 58.705 | 36.000 | 0.00 | 0.00 | 38.32 | 2.43 |
2493 | 2835 | 5.018809 | TCTCTCCATTTTGGGAAATTCAGG | 58.981 | 41.667 | 0.00 | 0.00 | 38.32 | 3.86 |
2494 | 2836 | 6.594788 | TTCTCTCCATTTTGGGAAATTCAG | 57.405 | 37.500 | 0.00 | 0.00 | 38.32 | 3.02 |
2504 | 2846 | 9.538508 | AAGTTTTCAGAATTTCTCTCCATTTTG | 57.461 | 29.630 | 0.00 | 0.00 | 29.07 | 2.44 |
2509 | 2851 | 7.557719 | AGTGAAAGTTTTCAGAATTTCTCTCCA | 59.442 | 33.333 | 7.51 | 0.00 | 46.80 | 3.86 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.