Multiple sequence alignment - TraesCS1D01G425500
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 | TraesCS1D01G425500 | chr1D | 100.000 | 4439 | 0 | 0 | 1 | 4439 | 479223111 | 479227549 | 0.000000e+00 | 8198.0 |
1 | TraesCS1D01G425500 | chr1D | 83.694 | 509 | 50 | 15 | 349 | 836 | 379462949 | 379462453 | 2.440000e-122 | 449.0 |
2 | TraesCS1D01G425500 | chr1A | 93.127 | 1586 | 64 | 22 | 921 | 2476 | 575590350 | 575591920 | 0.000000e+00 | 2283.0 |
3 | TraesCS1D01G425500 | chr1A | 92.596 | 959 | 61 | 7 | 3490 | 4439 | 575593117 | 575594074 | 0.000000e+00 | 1369.0 |
4 | TraesCS1D01G425500 | chr1A | 95.522 | 804 | 30 | 3 | 2643 | 3445 | 575592318 | 575593116 | 0.000000e+00 | 1280.0 |
5 | TraesCS1D01G425500 | chr1A | 90.000 | 180 | 11 | 3 | 2472 | 2644 | 575591980 | 575592159 | 4.470000e-55 | 226.0 |
6 | TraesCS1D01G425500 | chr1B | 89.888 | 1602 | 102 | 36 | 926 | 2476 | 667487728 | 667489320 | 0.000000e+00 | 2006.0 |
7 | TraesCS1D01G425500 | chr1B | 95.072 | 974 | 42 | 3 | 2473 | 3442 | 667489381 | 667490352 | 0.000000e+00 | 1528.0 |
8 | TraesCS1D01G425500 | chr1B | 88.006 | 642 | 45 | 18 | 973 | 1614 | 667471889 | 667472498 | 0.000000e+00 | 730.0 |
9 | TraesCS1D01G425500 | chr1B | 90.676 | 547 | 44 | 5 | 995 | 1541 | 667444502 | 667445041 | 0.000000e+00 | 721.0 |
10 | TraesCS1D01G425500 | chr1B | 92.500 | 40 | 2 | 1 | 940 | 978 | 667443593 | 667443632 | 6.200000e-04 | 56.5 |
11 | TraesCS1D01G425500 | chr1B | 100.000 | 28 | 0 | 0 | 877 | 904 | 667440440 | 667440467 | 8.000000e-03 | 52.8 |
12 | TraesCS1D01G425500 | chr2D | 86.570 | 901 | 88 | 14 | 5 | 882 | 587269907 | 587269017 | 0.000000e+00 | 963.0 |
13 | TraesCS1D01G425500 | chr2D | 84.972 | 905 | 97 | 18 | 1 | 882 | 479318906 | 479318018 | 0.000000e+00 | 881.0 |
14 | TraesCS1D01G425500 | chr2D | 86.928 | 765 | 60 | 7 | 1 | 745 | 388514180 | 388514924 | 0.000000e+00 | 822.0 |
15 | TraesCS1D01G425500 | chr2D | 84.127 | 189 | 16 | 5 | 3970 | 4144 | 132065764 | 132065952 | 2.120000e-38 | 171.0 |
16 | TraesCS1D01G425500 | chr6A | 86.263 | 859 | 81 | 19 | 2 | 836 | 115035810 | 115034965 | 0.000000e+00 | 898.0 |
17 | TraesCS1D01G425500 | chr6A | 90.929 | 452 | 36 | 2 | 1 | 451 | 600724368 | 600723921 | 1.770000e-168 | 603.0 |
18 | TraesCS1D01G425500 | chr5D | 86.098 | 856 | 91 | 8 | 2 | 836 | 458001413 | 458000565 | 0.000000e+00 | 896.0 |
19 | TraesCS1D01G425500 | chr3B | 86.131 | 858 | 87 | 13 | 1 | 836 | 182466422 | 182467269 | 0.000000e+00 | 896.0 |
20 | TraesCS1D01G425500 | chr2A | 85.206 | 899 | 103 | 12 | 2 | 878 | 381712894 | 381712004 | 0.000000e+00 | 896.0 |
21 | TraesCS1D01G425500 | chr2A | 85.714 | 588 | 70 | 9 | 3 | 582 | 565253979 | 565253398 | 3.800000e-170 | 608.0 |
22 | TraesCS1D01G425500 | chr2A | 84.127 | 189 | 16 | 5 | 3970 | 4144 | 138916543 | 138916731 | 2.120000e-38 | 171.0 |
23 | TraesCS1D01G425500 | chr2A | 82.270 | 141 | 12 | 6 | 4169 | 4302 | 138916812 | 138916946 | 4.690000e-20 | 110.0 |
24 | TraesCS1D01G425500 | chr7D | 86.524 | 794 | 70 | 14 | 1 | 769 | 363052521 | 363051740 | 0.000000e+00 | 839.0 |
25 | TraesCS1D01G425500 | chr6D | 86.340 | 754 | 76 | 7 | 1 | 734 | 438271708 | 438272454 | 0.000000e+00 | 797.0 |
26 | TraesCS1D01G425500 | chr6D | 89.744 | 78 | 6 | 2 | 804 | 880 | 409507159 | 409507235 | 1.020000e-16 | 99.0 |
27 | TraesCS1D01G425500 | chr3D | 83.463 | 901 | 101 | 20 | 1 | 876 | 579374491 | 579373614 | 0.000000e+00 | 795.0 |
28 | TraesCS1D01G425500 | chr3D | 81.283 | 561 | 88 | 12 | 281 | 836 | 484284569 | 484285117 | 5.270000e-119 | 438.0 |
29 | TraesCS1D01G425500 | chr4B | 83.315 | 899 | 101 | 12 | 1 | 878 | 180905366 | 180904496 | 0.000000e+00 | 784.0 |
30 | TraesCS1D01G425500 | chr4B | 91.071 | 56 | 5 | 0 | 826 | 881 | 100953194 | 100953139 | 4.760000e-10 | 76.8 |
31 | TraesCS1D01G425500 | chr2B | 84.938 | 644 | 63 | 15 | 1 | 639 | 379789305 | 379788691 | 4.880000e-174 | 621.0 |
32 | TraesCS1D01G425500 | chr2B | 83.069 | 189 | 18 | 6 | 3970 | 4144 | 186286678 | 186286490 | 4.600000e-35 | 159.0 |
33 | TraesCS1D01G425500 | chr2B | 81.560 | 141 | 13 | 8 | 4169 | 4302 | 186286409 | 186286275 | 2.180000e-18 | 104.0 |
34 | TraesCS1D01G425500 | chr5A | 84.729 | 406 | 59 | 3 | 474 | 878 | 708589748 | 708589345 | 1.920000e-108 | 403.0 |
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.
query | scaffold | start | end | length | rev.comp | avg.bitscore | max.bitscore | avg.percent.identical | query.start | query.end | num_hsp | groupid | homo_length | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS1D01G425500 | chr1D | 479223111 | 479227549 | 4438 | False | 8198.000000 | 8198 | 100.00000 | 1 | 4439 | 1 | chr1D.!!$F1 | 4438 |
1 | TraesCS1D01G425500 | chr1A | 575590350 | 575594074 | 3724 | False | 1289.500000 | 2283 | 92.81125 | 921 | 4439 | 4 | chr1A.!!$F1 | 3518 |
2 | TraesCS1D01G425500 | chr1B | 667487728 | 667490352 | 2624 | False | 1767.000000 | 2006 | 92.48000 | 926 | 3442 | 2 | chr1B.!!$F3 | 2516 |
3 | TraesCS1D01G425500 | chr1B | 667471889 | 667472498 | 609 | False | 730.000000 | 730 | 88.00600 | 973 | 1614 | 1 | chr1B.!!$F1 | 641 |
4 | TraesCS1D01G425500 | chr1B | 667440440 | 667445041 | 4601 | False | 276.766667 | 721 | 94.39200 | 877 | 1541 | 3 | chr1B.!!$F2 | 664 |
5 | TraesCS1D01G425500 | chr2D | 587269017 | 587269907 | 890 | True | 963.000000 | 963 | 86.57000 | 5 | 882 | 1 | chr2D.!!$R2 | 877 |
6 | TraesCS1D01G425500 | chr2D | 479318018 | 479318906 | 888 | True | 881.000000 | 881 | 84.97200 | 1 | 882 | 1 | chr2D.!!$R1 | 881 |
7 | TraesCS1D01G425500 | chr2D | 388514180 | 388514924 | 744 | False | 822.000000 | 822 | 86.92800 | 1 | 745 | 1 | chr2D.!!$F2 | 744 |
8 | TraesCS1D01G425500 | chr6A | 115034965 | 115035810 | 845 | True | 898.000000 | 898 | 86.26300 | 2 | 836 | 1 | chr6A.!!$R1 | 834 |
9 | TraesCS1D01G425500 | chr5D | 458000565 | 458001413 | 848 | True | 896.000000 | 896 | 86.09800 | 2 | 836 | 1 | chr5D.!!$R1 | 834 |
10 | TraesCS1D01G425500 | chr3B | 182466422 | 182467269 | 847 | False | 896.000000 | 896 | 86.13100 | 1 | 836 | 1 | chr3B.!!$F1 | 835 |
11 | TraesCS1D01G425500 | chr2A | 381712004 | 381712894 | 890 | True | 896.000000 | 896 | 85.20600 | 2 | 878 | 1 | chr2A.!!$R1 | 876 |
12 | TraesCS1D01G425500 | chr2A | 565253398 | 565253979 | 581 | True | 608.000000 | 608 | 85.71400 | 3 | 582 | 1 | chr2A.!!$R2 | 579 |
13 | TraesCS1D01G425500 | chr7D | 363051740 | 363052521 | 781 | True | 839.000000 | 839 | 86.52400 | 1 | 769 | 1 | chr7D.!!$R1 | 768 |
14 | TraesCS1D01G425500 | chr6D | 438271708 | 438272454 | 746 | False | 797.000000 | 797 | 86.34000 | 1 | 734 | 1 | chr6D.!!$F2 | 733 |
15 | TraesCS1D01G425500 | chr3D | 579373614 | 579374491 | 877 | True | 795.000000 | 795 | 83.46300 | 1 | 876 | 1 | chr3D.!!$R1 | 875 |
16 | TraesCS1D01G425500 | chr3D | 484284569 | 484285117 | 548 | False | 438.000000 | 438 | 81.28300 | 281 | 836 | 1 | chr3D.!!$F1 | 555 |
17 | TraesCS1D01G425500 | chr4B | 180904496 | 180905366 | 870 | True | 784.000000 | 784 | 83.31500 | 1 | 878 | 1 | chr4B.!!$R2 | 877 |
18 | TraesCS1D01G425500 | chr2B | 379788691 | 379789305 | 614 | True | 621.000000 | 621 | 84.93800 | 1 | 639 | 1 | chr2B.!!$R1 | 638 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
992 | 4993 | 0.179029 | ACCTTACACACACCACTGGC | 60.179 | 55.0 | 0.00 | 0.0 | 0.00 | 4.85 | F |
993 | 4994 | 0.179032 | CCTTACACACACCACTGGCA | 60.179 | 55.0 | 0.00 | 0.0 | 0.00 | 4.92 | F |
2063 | 6111 | 0.100325 | TTGCCGTGTTTGCTCACTTG | 59.900 | 50.0 | 5.93 | 0.2 | 36.33 | 3.16 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2044 | 6092 | 0.100325 | CAAGTGAGCAAACACGGCAA | 59.900 | 50.0 | 0.00 | 0.0 | 44.35 | 4.52 | R |
2174 | 6222 | 0.686789 | CATCCCGTGGATCATAGCCA | 59.313 | 55.0 | 2.76 | 0.0 | 40.98 | 4.75 | R |
4026 | 8311 | 0.622136 | ATCACTCCAGCCAATGAGCA | 59.378 | 50.0 | 0.00 | 0.0 | 34.23 | 4.26 | 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 |
---|---|---|---|---|---|---|---|---|---|
45 | 46 | 2.107204 | AGGGCAATATCAGGGTCATGTC | 59.893 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
77 | 78 | 5.707298 | CCACCATCATTCTTGAAGTAGTTGT | 59.293 | 40.000 | 0.00 | 0.00 | 34.96 | 3.32 |
118 | 121 | 1.001378 | GACACGCTTTCTTTGGCATGT | 60.001 | 47.619 | 0.00 | 0.00 | 37.58 | 3.21 |
128 | 134 | 2.796483 | TTTGGCATGTCCGGGTCTCG | 62.796 | 60.000 | 0.00 | 0.00 | 37.80 | 4.04 |
182 | 188 | 0.392706 | TTTGCGAGGCTGACTGAAGA | 59.607 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
232 | 238 | 6.709846 | TGTCAATGAACATGAGTACAACATGA | 59.290 | 34.615 | 27.51 | 13.87 | 45.22 | 3.07 |
234 | 240 | 6.372381 | TCAATGAACATGAGTACAACATGAGG | 59.628 | 38.462 | 27.51 | 15.29 | 45.22 | 3.86 |
359 | 368 | 4.220821 | AGCAGTTAGAAAGGATGTCGAGAA | 59.779 | 41.667 | 0.00 | 0.00 | 0.00 | 2.87 |
373 | 382 | 3.007506 | TGTCGAGAAGGCATTTGGAGTTA | 59.992 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
374 | 383 | 3.619038 | GTCGAGAAGGCATTTGGAGTTAG | 59.381 | 47.826 | 0.00 | 0.00 | 0.00 | 2.34 |
375 | 384 | 3.260884 | TCGAGAAGGCATTTGGAGTTAGT | 59.739 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
376 | 385 | 4.003648 | CGAGAAGGCATTTGGAGTTAGTT | 58.996 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
389 | 398 | 1.002087 | AGTTAGTTCTTCAGGCCCGTG | 59.998 | 52.381 | 0.00 | 0.00 | 0.00 | 4.94 |
409 | 419 | 0.393132 | TTGCAGTTGTTCGTGGACCA | 60.393 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
456 | 468 | 2.290260 | TGTGGGAGGTGATGACATGTTC | 60.290 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
481 | 512 | 2.242926 | TCGAGGATGAGGGTGATGATC | 58.757 | 52.381 | 0.00 | 0.00 | 0.00 | 2.92 |
497 | 528 | 3.382803 | ATCCTGTCGCAGCTCTGGC | 62.383 | 63.158 | 0.00 | 0.00 | 39.06 | 4.85 |
554 | 590 | 1.176527 | CAGAATCCGGCCACATTTGT | 58.823 | 50.000 | 2.24 | 0.00 | 0.00 | 2.83 |
578 | 614 | 6.033831 | GTGGAGTTTATTCAAATGCATCAACG | 59.966 | 38.462 | 0.00 | 0.00 | 0.00 | 4.10 |
588 | 624 | 0.877743 | TGCATCAACGAATTCGGCAA | 59.122 | 45.000 | 29.79 | 15.43 | 44.95 | 4.52 |
667 | 703 | 7.286546 | TGAAAGAGGACAACAATGTTGGATTTA | 59.713 | 33.333 | 27.15 | 8.86 | 40.74 | 1.40 |
668 | 704 | 7.595819 | AAGAGGACAACAATGTTGGATTTAA | 57.404 | 32.000 | 27.15 | 0.00 | 40.74 | 1.52 |
741 | 784 | 6.491745 | TGAACTTTTGTGCCCTTTACATATGA | 59.508 | 34.615 | 10.38 | 0.00 | 0.00 | 2.15 |
758 | 801 | 3.795623 | ATGACTACTTAATCGTGCGGT | 57.204 | 42.857 | 0.00 | 0.00 | 0.00 | 5.68 |
828 | 876 | 2.264794 | GTCTCCCGCATCCGTGTT | 59.735 | 61.111 | 0.00 | 0.00 | 0.00 | 3.32 |
912 | 4049 | 6.237901 | TGTAAACCAAATGCTAGATCACTGT | 58.762 | 36.000 | 0.00 | 0.00 | 0.00 | 3.55 |
919 | 4056 | 4.576216 | ATGCTAGATCACTGTTACTCCG | 57.424 | 45.455 | 0.00 | 0.00 | 0.00 | 4.63 |
921 | 4058 | 3.762288 | TGCTAGATCACTGTTACTCCGTT | 59.238 | 43.478 | 0.00 | 0.00 | 0.00 | 4.44 |
923 | 4060 | 5.416639 | TGCTAGATCACTGTTACTCCGTTTA | 59.583 | 40.000 | 0.00 | 0.00 | 0.00 | 2.01 |
938 | 4075 | 2.483013 | CCGTTTATGGGATCTGCGAGAA | 60.483 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
969 | 4107 | 5.021033 | ACCATTTCATTGCAAAGTCAACA | 57.979 | 34.783 | 1.71 | 0.00 | 0.00 | 3.33 |
992 | 4993 | 0.179029 | ACCTTACACACACCACTGGC | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
993 | 4994 | 0.179032 | CCTTACACACACCACTGGCA | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.92 |
994 | 4995 | 1.674359 | CTTACACACACCACTGGCAA | 58.326 | 50.000 | 0.00 | 0.00 | 0.00 | 4.52 |
995 | 4996 | 2.229792 | CTTACACACACCACTGGCAAT | 58.770 | 47.619 | 0.00 | 0.00 | 0.00 | 3.56 |
996 | 4997 | 1.603456 | TACACACACCACTGGCAATG | 58.397 | 50.000 | 0.00 | 0.00 | 0.00 | 2.82 |
997 | 4998 | 1.007038 | CACACACCACTGGCAATGC | 60.007 | 57.895 | 0.00 | 0.00 | 0.00 | 3.56 |
1479 | 5480 | 2.364324 | TCTCAGCGAGTGGTGTAACTTT | 59.636 | 45.455 | 5.66 | 0.00 | 43.99 | 2.66 |
1489 | 5490 | 3.493440 | GTAACTTTCGCGCCCCCG | 61.493 | 66.667 | 0.00 | 0.00 | 37.57 | 5.73 |
1629 | 5631 | 2.079925 | AGCAACTTGATTTCCTCGAGC | 58.920 | 47.619 | 6.99 | 0.00 | 38.78 | 5.03 |
1900 | 5919 | 4.202212 | ACACAATTGGGTAAAACTGAAGCC | 60.202 | 41.667 | 12.79 | 0.00 | 0.00 | 4.35 |
1916 | 5935 | 4.602995 | TGAAGCCGACAAAATGTTTACAC | 58.397 | 39.130 | 0.00 | 0.00 | 0.00 | 2.90 |
1957 | 5992 | 5.705441 | GGTGTGATTTTACTGTCTGGATCAA | 59.295 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1978 | 6024 | 9.760660 | GATCAACATCACACTTAACTGAATTAC | 57.239 | 33.333 | 0.00 | 0.00 | 0.00 | 1.89 |
2024 | 6072 | 2.231215 | ATGTCGAGTAATCCAGCAGC | 57.769 | 50.000 | 0.00 | 0.00 | 0.00 | 5.25 |
2063 | 6111 | 0.100325 | TTGCCGTGTTTGCTCACTTG | 59.900 | 50.000 | 5.93 | 0.20 | 36.33 | 3.16 |
2081 | 6129 | 4.034858 | CACTTGCATTTATCTGATGACGCT | 59.965 | 41.667 | 0.00 | 0.00 | 0.00 | 5.07 |
2168 | 6216 | 1.200020 | GCAGTACATGTGTTGGAAGCC | 59.800 | 52.381 | 9.11 | 0.00 | 0.00 | 4.35 |
2174 | 6222 | 1.619827 | CATGTGTTGGAAGCCATGGTT | 59.380 | 47.619 | 14.67 | 3.81 | 31.53 | 3.67 |
2476 | 6524 | 6.149129 | ACGCTTATGATAAGTCAGACATCA | 57.851 | 37.500 | 13.26 | 4.72 | 37.87 | 3.07 |
2477 | 6525 | 6.212235 | ACGCTTATGATAAGTCAGACATCAG | 58.788 | 40.000 | 13.26 | 0.00 | 37.87 | 2.90 |
2478 | 6526 | 5.632764 | CGCTTATGATAAGTCAGACATCAGG | 59.367 | 44.000 | 13.26 | 1.38 | 37.87 | 3.86 |
2479 | 6527 | 5.931146 | GCTTATGATAAGTCAGACATCAGGG | 59.069 | 44.000 | 13.26 | 1.07 | 37.87 | 4.45 |
2480 | 6528 | 6.239430 | GCTTATGATAAGTCAGACATCAGGGA | 60.239 | 42.308 | 13.26 | 0.00 | 37.87 | 4.20 |
2540 | 6658 | 5.296813 | AGCAAGAGTTACAAATTAAGGCG | 57.703 | 39.130 | 0.00 | 0.00 | 0.00 | 5.52 |
2562 | 6680 | 4.674306 | TGCCACTGCAAGGTTTGA | 57.326 | 50.000 | 6.71 | 0.00 | 46.66 | 2.69 |
2631 | 6750 | 8.016801 | CACATCCTAAATGCCATTTTTCAAAAC | 58.983 | 33.333 | 8.15 | 0.00 | 33.82 | 2.43 |
2633 | 6752 | 9.434420 | CATCCTAAATGCCATTTTTCAAAACTA | 57.566 | 29.630 | 8.15 | 0.00 | 33.82 | 2.24 |
2671 | 6950 | 6.266330 | TGAGAATATCAACATCAGAGGACGAT | 59.734 | 38.462 | 0.00 | 0.00 | 34.02 | 3.73 |
2681 | 6960 | 7.921786 | ACATCAGAGGACGATTTGAATTAAA | 57.078 | 32.000 | 0.00 | 0.00 | 0.00 | 1.52 |
2682 | 6961 | 8.335532 | ACATCAGAGGACGATTTGAATTAAAA | 57.664 | 30.769 | 0.00 | 0.00 | 0.00 | 1.52 |
2683 | 6962 | 8.792633 | ACATCAGAGGACGATTTGAATTAAAAA | 58.207 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
2932 | 7211 | 4.101741 | ACTCTTACTTGTCTGAACTGGCTT | 59.898 | 41.667 | 0.00 | 0.00 | 0.00 | 4.35 |
3393 | 7673 | 1.212616 | CTTATTCCTTCGAGCAGGCG | 58.787 | 55.000 | 0.00 | 0.00 | 33.35 | 5.52 |
3445 | 7725 | 6.263344 | CAGCATTCTGTCATTTGATTGTAGG | 58.737 | 40.000 | 0.00 | 0.00 | 35.61 | 3.18 |
3446 | 7726 | 5.948162 | AGCATTCTGTCATTTGATTGTAGGT | 59.052 | 36.000 | 0.00 | 0.00 | 0.00 | 3.08 |
3447 | 7727 | 6.094603 | AGCATTCTGTCATTTGATTGTAGGTC | 59.905 | 38.462 | 0.00 | 0.00 | 0.00 | 3.85 |
3448 | 7728 | 6.094603 | GCATTCTGTCATTTGATTGTAGGTCT | 59.905 | 38.462 | 0.00 | 0.00 | 0.00 | 3.85 |
3449 | 7729 | 7.280876 | GCATTCTGTCATTTGATTGTAGGTCTA | 59.719 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
3450 | 7730 | 8.824781 | CATTCTGTCATTTGATTGTAGGTCTAG | 58.175 | 37.037 | 0.00 | 0.00 | 0.00 | 2.43 |
3451 | 7731 | 6.341316 | TCTGTCATTTGATTGTAGGTCTAGC | 58.659 | 40.000 | 0.00 | 0.00 | 0.00 | 3.42 |
3452 | 7732 | 6.155221 | TCTGTCATTTGATTGTAGGTCTAGCT | 59.845 | 38.462 | 0.00 | 0.00 | 0.00 | 3.32 |
3453 | 7733 | 7.342026 | TCTGTCATTTGATTGTAGGTCTAGCTA | 59.658 | 37.037 | 0.00 | 0.00 | 0.00 | 3.32 |
3454 | 7734 | 7.265673 | TGTCATTTGATTGTAGGTCTAGCTAC | 58.734 | 38.462 | 11.49 | 11.49 | 0.00 | 3.58 |
3455 | 7735 | 7.093509 | TGTCATTTGATTGTAGGTCTAGCTACA | 60.094 | 37.037 | 15.99 | 15.99 | 34.66 | 2.74 |
3456 | 7736 | 7.928706 | GTCATTTGATTGTAGGTCTAGCTACAT | 59.071 | 37.037 | 19.48 | 11.52 | 36.17 | 2.29 |
3457 | 7737 | 9.143155 | TCATTTGATTGTAGGTCTAGCTACATA | 57.857 | 33.333 | 19.48 | 12.36 | 36.17 | 2.29 |
3458 | 7738 | 9.935241 | CATTTGATTGTAGGTCTAGCTACATAT | 57.065 | 33.333 | 19.48 | 15.50 | 36.17 | 1.78 |
3459 | 7739 | 9.935241 | ATTTGATTGTAGGTCTAGCTACATATG | 57.065 | 33.333 | 19.48 | 0.00 | 36.17 | 1.78 |
3460 | 7740 | 8.478775 | TTGATTGTAGGTCTAGCTACATATGT | 57.521 | 34.615 | 19.48 | 13.93 | 36.17 | 2.29 |
3461 | 7741 | 8.478775 | TGATTGTAGGTCTAGCTACATATGTT | 57.521 | 34.615 | 19.48 | 0.00 | 36.17 | 2.71 |
3462 | 7742 | 8.924303 | TGATTGTAGGTCTAGCTACATATGTTT | 58.076 | 33.333 | 19.48 | 3.21 | 36.17 | 2.83 |
3463 | 7743 | 9.413048 | GATTGTAGGTCTAGCTACATATGTTTC | 57.587 | 37.037 | 19.48 | 6.31 | 36.17 | 2.78 |
3464 | 7744 | 7.286215 | TGTAGGTCTAGCTACATATGTTTCC | 57.714 | 40.000 | 14.77 | 2.97 | 31.91 | 3.13 |
3465 | 7745 | 6.837048 | TGTAGGTCTAGCTACATATGTTTCCA | 59.163 | 38.462 | 14.77 | 0.00 | 31.91 | 3.53 |
3466 | 7746 | 6.412362 | AGGTCTAGCTACATATGTTTCCAG | 57.588 | 41.667 | 14.77 | 6.33 | 0.00 | 3.86 |
3467 | 7747 | 5.305644 | AGGTCTAGCTACATATGTTTCCAGG | 59.694 | 44.000 | 14.77 | 1.36 | 0.00 | 4.45 |
3468 | 7748 | 5.304614 | GGTCTAGCTACATATGTTTCCAGGA | 59.695 | 44.000 | 14.77 | 3.68 | 0.00 | 3.86 |
3469 | 7749 | 6.183360 | GGTCTAGCTACATATGTTTCCAGGAA | 60.183 | 42.308 | 14.77 | 0.00 | 0.00 | 3.36 |
3470 | 7750 | 7.445945 | GTCTAGCTACATATGTTTCCAGGAAT | 58.554 | 38.462 | 14.77 | 0.00 | 0.00 | 3.01 |
3471 | 7751 | 7.600752 | GTCTAGCTACATATGTTTCCAGGAATC | 59.399 | 40.741 | 14.77 | 2.70 | 0.00 | 2.52 |
3472 | 7752 | 6.252599 | AGCTACATATGTTTCCAGGAATCA | 57.747 | 37.500 | 14.77 | 14.27 | 0.00 | 2.57 |
3473 | 7753 | 6.058183 | AGCTACATATGTTTCCAGGAATCAC | 58.942 | 40.000 | 14.77 | 6.13 | 0.00 | 3.06 |
3474 | 7754 | 5.050091 | GCTACATATGTTTCCAGGAATCACG | 60.050 | 44.000 | 14.77 | 9.10 | 0.00 | 4.35 |
3475 | 7755 | 3.627577 | ACATATGTTTCCAGGAATCACGC | 59.372 | 43.478 | 14.21 | 0.00 | 0.00 | 5.34 |
3476 | 7756 | 2.496899 | ATGTTTCCAGGAATCACGCT | 57.503 | 45.000 | 14.21 | 0.00 | 0.00 | 5.07 |
3477 | 7757 | 3.627395 | ATGTTTCCAGGAATCACGCTA | 57.373 | 42.857 | 14.21 | 0.00 | 0.00 | 4.26 |
3478 | 7758 | 3.627395 | TGTTTCCAGGAATCACGCTAT | 57.373 | 42.857 | 8.68 | 0.00 | 0.00 | 2.97 |
3479 | 7759 | 3.950397 | TGTTTCCAGGAATCACGCTATT | 58.050 | 40.909 | 8.68 | 0.00 | 0.00 | 1.73 |
3480 | 7760 | 5.092554 | TGTTTCCAGGAATCACGCTATTA | 57.907 | 39.130 | 8.68 | 0.00 | 0.00 | 0.98 |
3481 | 7761 | 5.680619 | TGTTTCCAGGAATCACGCTATTAT | 58.319 | 37.500 | 8.68 | 0.00 | 0.00 | 1.28 |
3482 | 7762 | 6.822442 | TGTTTCCAGGAATCACGCTATTATA | 58.178 | 36.000 | 8.68 | 0.00 | 0.00 | 0.98 |
3483 | 7763 | 7.276658 | TGTTTCCAGGAATCACGCTATTATAA | 58.723 | 34.615 | 8.68 | 0.00 | 0.00 | 0.98 |
3484 | 7764 | 7.771361 | TGTTTCCAGGAATCACGCTATTATAAA | 59.229 | 33.333 | 8.68 | 0.00 | 0.00 | 1.40 |
3485 | 7765 | 8.617809 | GTTTCCAGGAATCACGCTATTATAAAA | 58.382 | 33.333 | 1.58 | 0.00 | 0.00 | 1.52 |
3486 | 7766 | 8.918202 | TTCCAGGAATCACGCTATTATAAAAT | 57.082 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
3487 | 7767 | 8.322906 | TCCAGGAATCACGCTATTATAAAATG | 57.677 | 34.615 | 0.00 | 0.00 | 0.00 | 2.32 |
3488 | 7768 | 7.023575 | CCAGGAATCACGCTATTATAAAATGC | 58.976 | 38.462 | 0.00 | 0.00 | 0.00 | 3.56 |
3492 | 7772 | 8.853345 | GGAATCACGCTATTATAAAATGCAATG | 58.147 | 33.333 | 0.00 | 0.00 | 0.00 | 2.82 |
3506 | 7786 | 3.226346 | TGCAATGCATCTGCTTCTTTC | 57.774 | 42.857 | 24.42 | 5.16 | 42.66 | 2.62 |
3518 | 7798 | 7.640852 | CATCTGCTTCTTTCTATCTGAAATGG | 58.359 | 38.462 | 0.00 | 0.00 | 42.96 | 3.16 |
3526 | 7806 | 9.561069 | TTCTTTCTATCTGAAATGGGTAATAGC | 57.439 | 33.333 | 0.00 | 0.00 | 42.96 | 2.97 |
3528 | 7808 | 6.665992 | TCTATCTGAAATGGGTAATAGCGT | 57.334 | 37.500 | 0.00 | 0.00 | 0.00 | 5.07 |
3572 | 7852 | 2.286872 | GCAGATCCTGAACACCAGATG | 58.713 | 52.381 | 0.00 | 0.00 | 45.78 | 2.90 |
3604 | 7884 | 8.328146 | GCTTTGTTACCTTTTTCTGTTTGATTC | 58.672 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
3710 | 7990 | 7.576477 | GCTTATTTCATCAAGCAAAGGAACTCT | 60.576 | 37.037 | 1.62 | 0.00 | 45.20 | 3.24 |
3711 | 7991 | 8.862325 | TTATTTCATCAAGCAAAGGAACTCTA | 57.138 | 30.769 | 0.00 | 0.00 | 38.49 | 2.43 |
3714 | 7994 | 8.862325 | TTTCATCAAGCAAAGGAACTCTATTA | 57.138 | 30.769 | 0.00 | 0.00 | 38.49 | 0.98 |
3735 | 8015 | 3.815856 | TTTTGGCAAGCATGTGAAGAA | 57.184 | 38.095 | 0.00 | 0.00 | 0.00 | 2.52 |
3737 | 8017 | 4.339872 | TTTGGCAAGCATGTGAAGAAAT | 57.660 | 36.364 | 0.00 | 0.00 | 0.00 | 2.17 |
3738 | 8018 | 4.339872 | TTGGCAAGCATGTGAAGAAATT | 57.660 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
3739 | 8019 | 3.916761 | TGGCAAGCATGTGAAGAAATTC | 58.083 | 40.909 | 0.00 | 0.00 | 0.00 | 2.17 |
3790 | 8075 | 6.817765 | TCTCAGTTATGTGGAACCAAAATC | 57.182 | 37.500 | 0.00 | 0.00 | 34.36 | 2.17 |
3803 | 8088 | 5.420739 | GGAACCAAAATCTAAGCCACCATTA | 59.579 | 40.000 | 0.00 | 0.00 | 0.00 | 1.90 |
3804 | 8089 | 6.405842 | GGAACCAAAATCTAAGCCACCATTAG | 60.406 | 42.308 | 0.00 | 0.00 | 0.00 | 1.73 |
3808 | 8093 | 6.322201 | CCAAAATCTAAGCCACCATTAGACAT | 59.678 | 38.462 | 0.00 | 0.00 | 40.94 | 3.06 |
3809 | 8094 | 6.949352 | AAATCTAAGCCACCATTAGACATG | 57.051 | 37.500 | 0.00 | 0.00 | 40.94 | 3.21 |
3814 | 8099 | 1.678101 | GCCACCATTAGACATGAAGGC | 59.322 | 52.381 | 0.00 | 0.00 | 33.87 | 4.35 |
3815 | 8100 | 1.942657 | CCACCATTAGACATGAAGGCG | 59.057 | 52.381 | 0.00 | 0.00 | 0.00 | 5.52 |
3843 | 8128 | 4.873746 | TTTCTGAGTGAGGTAAGGTCAG | 57.126 | 45.455 | 0.00 | 0.00 | 36.73 | 3.51 |
3868 | 8153 | 8.311109 | AGTACACCTTTATTTTTATTTGCCTGG | 58.689 | 33.333 | 0.00 | 0.00 | 0.00 | 4.45 |
4001 | 8286 | 2.438434 | GGCGTGTCCTTGATGGGG | 60.438 | 66.667 | 0.00 | 0.00 | 36.20 | 4.96 |
4026 | 8311 | 1.065418 | GTTCTCCGGTGGGAATCATGT | 60.065 | 52.381 | 0.00 | 0.00 | 43.27 | 3.21 |
4027 | 8312 | 0.541392 | TCTCCGGTGGGAATCATGTG | 59.459 | 55.000 | 0.00 | 0.00 | 43.27 | 3.21 |
4043 | 8328 | 0.607217 | TGTGCTCATTGGCTGGAGTG | 60.607 | 55.000 | 0.00 | 0.00 | 33.66 | 3.51 |
4075 | 8360 | 0.392193 | CAGACCCAAGGTGCTGCTAG | 60.392 | 60.000 | 0.00 | 0.00 | 35.25 | 3.42 |
4129 | 8415 | 0.107508 | TGCCAAGCTGATAGGAGTGC | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 4.40 |
4142 | 8428 | 1.211457 | AGGAGTGCCTTTGATAGCTGG | 59.789 | 52.381 | 0.00 | 0.00 | 43.90 | 4.85 |
4143 | 8429 | 1.065126 | GGAGTGCCTTTGATAGCTGGT | 60.065 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
4144 | 8430 | 2.012673 | GAGTGCCTTTGATAGCTGGTG | 58.987 | 52.381 | 0.00 | 0.00 | 0.00 | 4.17 |
4159 | 8445 | 0.537143 | TGGTGCACTGCCAGGTTAAG | 60.537 | 55.000 | 17.98 | 0.00 | 0.00 | 1.85 |
4166 | 8452 | 1.699634 | ACTGCCAGGTTAAGCTGAAGA | 59.300 | 47.619 | 31.19 | 15.54 | 0.00 | 2.87 |
4263 | 8552 | 1.676916 | CCTTCGCCATCTTTGCTCTCA | 60.677 | 52.381 | 0.00 | 0.00 | 0.00 | 3.27 |
4297 | 8586 | 6.353404 | TGATTGATAGGTATGTAATCGCCA | 57.647 | 37.500 | 0.00 | 0.00 | 32.01 | 5.69 |
4300 | 8589 | 6.605471 | TTGATAGGTATGTAATCGCCATCT | 57.395 | 37.500 | 0.00 | 0.00 | 0.00 | 2.90 |
4304 | 8593 | 4.632153 | AGGTATGTAATCGCCATCTTGTC | 58.368 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
4310 | 8599 | 3.575965 | AATCGCCATCTTGTCAAAACC | 57.424 | 42.857 | 0.00 | 0.00 | 0.00 | 3.27 |
4330 | 8619 | 2.094752 | CCCTTTAATCACCCGCAGTTTG | 60.095 | 50.000 | 0.00 | 0.00 | 0.00 | 2.93 |
4337 | 8626 | 0.665835 | CACCCGCAGTTTGCACTTTA | 59.334 | 50.000 | 1.69 | 0.00 | 45.36 | 1.85 |
4346 | 8635 | 4.438744 | GCAGTTTGCACTTTACAGTTCAGT | 60.439 | 41.667 | 0.00 | 0.00 | 44.26 | 3.41 |
4380 | 8669 | 5.826601 | TTATGTTTTGCAGTCAAGTCACA | 57.173 | 34.783 | 0.00 | 0.00 | 33.12 | 3.58 |
4386 | 8675 | 1.866601 | TGCAGTCAAGTCACATCAACG | 59.133 | 47.619 | 0.00 | 0.00 | 0.00 | 4.10 |
4387 | 8676 | 1.195448 | GCAGTCAAGTCACATCAACGG | 59.805 | 52.381 | 0.00 | 0.00 | 0.00 | 4.44 |
4425 | 8714 | 7.977904 | TGTGATGAATTAAATGTAGAGCACTG | 58.022 | 34.615 | 0.00 | 0.00 | 0.00 | 3.66 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
45 | 46 | 2.731572 | AGAATGATGGTGGGCTTCTTG | 58.268 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
77 | 78 | 7.201635 | CGTGTCAAATCCAAAGATCATGTGATA | 60.202 | 37.037 | 0.00 | 0.00 | 34.37 | 2.15 |
118 | 121 | 1.613317 | ATGTCATTGCGAGACCCGGA | 61.613 | 55.000 | 0.73 | 0.00 | 39.04 | 5.14 |
128 | 134 | 1.924524 | GCAGCACATTGATGTCATTGC | 59.075 | 47.619 | 5.15 | 0.00 | 39.39 | 3.56 |
182 | 188 | 2.601905 | AGTGGCAAGGATGAGCTTTTT | 58.398 | 42.857 | 0.00 | 0.00 | 0.00 | 1.94 |
232 | 238 | 3.097342 | ACCGTCAACCAGATAGTACCT | 57.903 | 47.619 | 0.00 | 0.00 | 0.00 | 3.08 |
234 | 240 | 7.684937 | ATAGATACCGTCAACCAGATAGTAC | 57.315 | 40.000 | 0.00 | 0.00 | 0.00 | 2.73 |
323 | 331 | 3.815401 | TCTAACTGCTTCTTGTCTTTGGC | 59.185 | 43.478 | 0.00 | 0.00 | 0.00 | 4.52 |
359 | 368 | 4.985538 | TGAAGAACTAACTCCAAATGCCT | 58.014 | 39.130 | 0.00 | 0.00 | 0.00 | 4.75 |
373 | 382 | 0.535102 | CAACACGGGCCTGAAGAACT | 60.535 | 55.000 | 21.41 | 0.00 | 0.00 | 3.01 |
374 | 383 | 1.949257 | CAACACGGGCCTGAAGAAC | 59.051 | 57.895 | 21.41 | 0.00 | 0.00 | 3.01 |
375 | 384 | 1.896660 | GCAACACGGGCCTGAAGAA | 60.897 | 57.895 | 21.41 | 0.00 | 0.00 | 2.52 |
376 | 385 | 2.281484 | GCAACACGGGCCTGAAGA | 60.281 | 61.111 | 21.41 | 0.00 | 0.00 | 2.87 |
389 | 398 | 0.028902 | GGTCCACGAACAACTGCAAC | 59.971 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
409 | 419 | 3.094572 | CTCTGGATCCCATTGTTTTGCT | 58.905 | 45.455 | 9.90 | 0.00 | 30.82 | 3.91 |
456 | 468 | 1.966354 | TCACCCTCATCCTCGATGATG | 59.034 | 52.381 | 20.82 | 20.82 | 46.16 | 3.07 |
481 | 512 | 3.677284 | ATGCCAGAGCTGCGACAGG | 62.677 | 63.158 | 0.00 | 0.53 | 40.80 | 4.00 |
497 | 528 | 4.275810 | AGGATCACCCATGTTCTCAAATG | 58.724 | 43.478 | 0.00 | 0.00 | 37.41 | 2.32 |
554 | 590 | 6.072230 | TCGTTGATGCATTTGAATAAACTCCA | 60.072 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
588 | 624 | 0.734253 | GCTGCTCGTGAGTTGATCGT | 60.734 | 55.000 | 0.00 | 0.00 | 0.00 | 3.73 |
592 | 628 | 0.389025 | TTGAGCTGCTCGTGAGTTGA | 59.611 | 50.000 | 23.35 | 1.58 | 32.35 | 3.18 |
698 | 741 | 1.750206 | TCAAATAGCCGCATGCAACAT | 59.250 | 42.857 | 19.57 | 2.60 | 44.83 | 2.71 |
741 | 784 | 2.159282 | CCAGACCGCACGATTAAGTAGT | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 2.73 |
773 | 817 | 2.434336 | CCCCATACATCCTGTCTTTCGA | 59.566 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
782 | 829 | 0.702356 | ACCATGGCCCCATACATCCT | 60.702 | 55.000 | 13.04 | 0.00 | 34.91 | 3.24 |
796 | 843 | 1.386533 | GAGACAGCCATCCAACCATG | 58.613 | 55.000 | 0.00 | 0.00 | 0.00 | 3.66 |
864 | 912 | 2.425143 | TGCTTTAGGGCATCTCCAAG | 57.575 | 50.000 | 0.00 | 0.00 | 37.29 | 3.61 |
904 | 952 | 4.809426 | CCCATAAACGGAGTAACAGTGATC | 59.191 | 45.833 | 0.00 | 0.00 | 45.00 | 2.92 |
905 | 953 | 4.468510 | TCCCATAAACGGAGTAACAGTGAT | 59.531 | 41.667 | 0.00 | 0.00 | 45.00 | 3.06 |
912 | 4049 | 3.491964 | CGCAGATCCCATAAACGGAGTAA | 60.492 | 47.826 | 0.00 | 0.00 | 45.00 | 2.24 |
919 | 4056 | 5.559035 | CGAATTTCTCGCAGATCCCATAAAC | 60.559 | 44.000 | 0.00 | 0.00 | 41.49 | 2.01 |
921 | 4058 | 4.058124 | CGAATTTCTCGCAGATCCCATAA | 58.942 | 43.478 | 0.00 | 0.00 | 41.49 | 1.90 |
923 | 4060 | 2.487934 | CGAATTTCTCGCAGATCCCAT | 58.512 | 47.619 | 0.00 | 0.00 | 41.49 | 4.00 |
938 | 4075 | 7.818930 | ACTTTGCAATGAAATGGTATTCGAATT | 59.181 | 29.630 | 17.19 | 0.00 | 31.80 | 2.17 |
992 | 4993 | 2.105528 | GAGGCGGCATTGGCATTG | 59.894 | 61.111 | 13.08 | 5.04 | 43.71 | 2.82 |
993 | 4994 | 3.149648 | GGAGGCGGCATTGGCATT | 61.150 | 61.111 | 13.08 | 0.00 | 43.71 | 3.56 |
1458 | 5459 | 1.617322 | AGTTACACCACTCGCTGAGA | 58.383 | 50.000 | 11.64 | 0.00 | 33.32 | 3.27 |
1629 | 5631 | 3.008375 | TCAGAGTCAGAATTCACCCCTTG | 59.992 | 47.826 | 8.44 | 0.00 | 0.00 | 3.61 |
1776 | 5795 | 1.819632 | GGACGGGCACATGATGGAC | 60.820 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
1916 | 5935 | 6.208988 | TCACACCACTCTGCTTAACTATAG | 57.791 | 41.667 | 0.00 | 0.00 | 0.00 | 1.31 |
1957 | 5992 | 9.561069 | AAGAAGTAATTCAGTTAAGTGTGATGT | 57.439 | 29.630 | 10.08 | 0.00 | 0.00 | 3.06 |
1978 | 6024 | 5.848880 | GTGGATGCCATGTTTCTGAAAGAAG | 60.849 | 44.000 | 2.48 | 0.00 | 45.14 | 2.85 |
2043 | 6091 | 0.381801 | AAGTGAGCAAACACGGCAAG | 59.618 | 50.000 | 0.00 | 0.00 | 44.35 | 4.01 |
2044 | 6092 | 0.100325 | CAAGTGAGCAAACACGGCAA | 59.900 | 50.000 | 0.00 | 0.00 | 44.35 | 4.52 |
2063 | 6111 | 5.354054 | AATCAGCGTCATCAGATAAATGC | 57.646 | 39.130 | 2.24 | 2.24 | 0.00 | 3.56 |
2168 | 6216 | 1.875514 | CGTGGATCATAGCCAACCATG | 59.124 | 52.381 | 0.00 | 0.00 | 37.12 | 3.66 |
2174 | 6222 | 0.686789 | CATCCCGTGGATCATAGCCA | 59.313 | 55.000 | 2.76 | 0.00 | 40.98 | 4.75 |
2476 | 6524 | 7.184067 | AGTTTCGAGAGTATAATGTTTCCCT | 57.816 | 36.000 | 0.00 | 0.00 | 0.00 | 4.20 |
2477 | 6525 | 9.543783 | AATAGTTTCGAGAGTATAATGTTTCCC | 57.456 | 33.333 | 3.89 | 0.00 | 0.00 | 3.97 |
2562 | 6680 | 3.299503 | ACCAGTGGCATTTTCAGAACTT | 58.700 | 40.909 | 9.78 | 0.00 | 0.00 | 2.66 |
2649 | 6928 | 7.439356 | TCAAATCGTCCTCTGATGTTGATATTC | 59.561 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
2681 | 6960 | 4.590222 | ACAAGTCATGATTCAGCCCTTTTT | 59.410 | 37.500 | 0.00 | 0.00 | 0.00 | 1.94 |
2682 | 6961 | 4.154942 | ACAAGTCATGATTCAGCCCTTTT | 58.845 | 39.130 | 0.00 | 0.00 | 0.00 | 2.27 |
2683 | 6962 | 3.771216 | ACAAGTCATGATTCAGCCCTTT | 58.229 | 40.909 | 0.00 | 0.00 | 0.00 | 3.11 |
2689 | 6968 | 6.432607 | AGCACATAACAAGTCATGATTCAG | 57.567 | 37.500 | 0.00 | 0.00 | 0.00 | 3.02 |
2695 | 6974 | 6.801367 | GCAATAAGCACATAACAAGTCATG | 57.199 | 37.500 | 0.00 | 0.00 | 44.79 | 3.07 |
2754 | 7033 | 5.163195 | ACAACATGAAGGAGTTAGGAACAGT | 60.163 | 40.000 | 0.00 | 0.00 | 0.00 | 3.55 |
2932 | 7211 | 7.014711 | GTCTGATAATGATCTAACAGGTGAGGA | 59.985 | 40.741 | 0.00 | 0.00 | 32.79 | 3.71 |
3240 | 7519 | 1.814634 | GCAAGCAGGCTATGAGCAGAT | 60.815 | 52.381 | 0.21 | 0.00 | 44.75 | 2.90 |
3393 | 7673 | 3.999046 | TGGAGGTTTCCTAACTTTCGTC | 58.001 | 45.455 | 0.00 | 0.00 | 44.36 | 4.20 |
3445 | 7725 | 6.406692 | TCCTGGAAACATATGTAGCTAGAC | 57.593 | 41.667 | 9.21 | 0.00 | 41.51 | 2.59 |
3446 | 7726 | 7.290014 | TGATTCCTGGAAACATATGTAGCTAGA | 59.710 | 37.037 | 14.03 | 0.00 | 41.51 | 2.43 |
3447 | 7727 | 7.386299 | GTGATTCCTGGAAACATATGTAGCTAG | 59.614 | 40.741 | 20.34 | 10.87 | 41.51 | 3.42 |
3448 | 7728 | 7.217200 | GTGATTCCTGGAAACATATGTAGCTA | 58.783 | 38.462 | 20.34 | 1.45 | 41.51 | 3.32 |
3449 | 7729 | 6.058183 | GTGATTCCTGGAAACATATGTAGCT | 58.942 | 40.000 | 20.34 | 0.00 | 41.51 | 3.32 |
3450 | 7730 | 5.050091 | CGTGATTCCTGGAAACATATGTAGC | 60.050 | 44.000 | 20.34 | 4.08 | 41.51 | 3.58 |
3451 | 7731 | 5.050091 | GCGTGATTCCTGGAAACATATGTAG | 60.050 | 44.000 | 20.34 | 2.47 | 41.51 | 2.74 |
3452 | 7732 | 4.814234 | GCGTGATTCCTGGAAACATATGTA | 59.186 | 41.667 | 20.34 | 0.00 | 41.51 | 2.29 |
3453 | 7733 | 3.627577 | GCGTGATTCCTGGAAACATATGT | 59.372 | 43.478 | 20.34 | 1.41 | 41.51 | 2.29 |
3454 | 7734 | 3.879295 | AGCGTGATTCCTGGAAACATATG | 59.121 | 43.478 | 20.34 | 14.59 | 41.51 | 1.78 |
3455 | 7735 | 4.156455 | AGCGTGATTCCTGGAAACATAT | 57.844 | 40.909 | 20.34 | 8.56 | 41.51 | 1.78 |
3456 | 7736 | 3.627395 | AGCGTGATTCCTGGAAACATA | 57.373 | 42.857 | 20.34 | 2.51 | 41.51 | 2.29 |
3457 | 7737 | 2.496899 | AGCGTGATTCCTGGAAACAT | 57.503 | 45.000 | 20.34 | 4.33 | 41.51 | 2.71 |
3458 | 7738 | 3.627395 | ATAGCGTGATTCCTGGAAACA | 57.373 | 42.857 | 14.03 | 14.33 | 39.59 | 2.83 |
3459 | 7739 | 7.724305 | TTATAATAGCGTGATTCCTGGAAAC | 57.276 | 36.000 | 14.03 | 11.59 | 0.00 | 2.78 |
3460 | 7740 | 8.740123 | TTTTATAATAGCGTGATTCCTGGAAA | 57.260 | 30.769 | 14.03 | 0.00 | 0.00 | 3.13 |
3461 | 7741 | 8.783093 | CATTTTATAATAGCGTGATTCCTGGAA | 58.217 | 33.333 | 12.26 | 12.26 | 0.00 | 3.53 |
3462 | 7742 | 7.094805 | GCATTTTATAATAGCGTGATTCCTGGA | 60.095 | 37.037 | 0.00 | 0.00 | 0.00 | 3.86 |
3463 | 7743 | 7.023575 | GCATTTTATAATAGCGTGATTCCTGG | 58.976 | 38.462 | 0.00 | 0.00 | 0.00 | 4.45 |
3464 | 7744 | 7.584108 | TGCATTTTATAATAGCGTGATTCCTG | 58.416 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
3465 | 7745 | 7.744087 | TGCATTTTATAATAGCGTGATTCCT | 57.256 | 32.000 | 0.00 | 0.00 | 0.00 | 3.36 |
3466 | 7746 | 8.853345 | CATTGCATTTTATAATAGCGTGATTCC | 58.147 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
3467 | 7747 | 8.368126 | GCATTGCATTTTATAATAGCGTGATTC | 58.632 | 33.333 | 3.15 | 0.00 | 0.00 | 2.52 |
3468 | 7748 | 7.866898 | TGCATTGCATTTTATAATAGCGTGATT | 59.133 | 29.630 | 7.38 | 0.00 | 31.71 | 2.57 |
3469 | 7749 | 7.369607 | TGCATTGCATTTTATAATAGCGTGAT | 58.630 | 30.769 | 7.38 | 1.18 | 31.71 | 3.06 |
3470 | 7750 | 6.733145 | TGCATTGCATTTTATAATAGCGTGA | 58.267 | 32.000 | 7.38 | 0.00 | 31.71 | 4.35 |
3471 | 7751 | 6.989796 | TGCATTGCATTTTATAATAGCGTG | 57.010 | 33.333 | 7.38 | 0.00 | 31.71 | 5.34 |
3486 | 7766 | 2.823747 | AGAAAGAAGCAGATGCATTGCA | 59.176 | 40.909 | 25.39 | 14.72 | 43.92 | 4.08 |
3487 | 7767 | 3.505464 | AGAAAGAAGCAGATGCATTGC | 57.495 | 42.857 | 19.73 | 19.73 | 45.16 | 3.56 |
3488 | 7768 | 6.260271 | TCAGATAGAAAGAAGCAGATGCATTG | 59.740 | 38.462 | 0.00 | 2.50 | 45.16 | 2.82 |
3492 | 7772 | 6.674694 | TTTCAGATAGAAAGAAGCAGATGC | 57.325 | 37.500 | 0.00 | 0.00 | 41.17 | 3.91 |
3506 | 7786 | 5.120830 | GCACGCTATTACCCATTTCAGATAG | 59.879 | 44.000 | 0.00 | 0.00 | 0.00 | 2.08 |
3518 | 7798 | 2.351726 | CAGTCCTTTGCACGCTATTACC | 59.648 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
3526 | 7806 | 4.111916 | ACAAAAATTCAGTCCTTTGCACG | 58.888 | 39.130 | 0.00 | 0.00 | 33.08 | 5.34 |
3528 | 7808 | 6.202570 | GCATAACAAAAATTCAGTCCTTTGCA | 59.797 | 34.615 | 0.00 | 0.00 | 33.08 | 4.08 |
3572 | 7852 | 6.811665 | ACAGAAAAAGGTAACAAAGCTGAAAC | 59.188 | 34.615 | 0.00 | 0.00 | 35.65 | 2.78 |
3637 | 7917 | 3.617540 | TGCACAAAACAACGTATCAGG | 57.382 | 42.857 | 0.00 | 0.00 | 0.00 | 3.86 |
3642 | 7922 | 5.161358 | TGTCATTTTGCACAAAACAACGTA | 58.839 | 33.333 | 10.53 | 0.00 | 42.32 | 3.57 |
3686 | 7966 | 7.765695 | AGAGTTCCTTTGCTTGATGAAATAA | 57.234 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3710 | 7990 | 7.167924 | TCTTCACATGCTTGCCAAAATAATA | 57.832 | 32.000 | 0.00 | 0.00 | 0.00 | 0.98 |
3711 | 7991 | 6.040209 | TCTTCACATGCTTGCCAAAATAAT | 57.960 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
3714 | 7994 | 4.339872 | TTCTTCACATGCTTGCCAAAAT | 57.660 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
3757 | 8041 | 8.734386 | GTTCCACATAACTGAGAAGAATTTCAT | 58.266 | 33.333 | 0.00 | 0.00 | 35.70 | 2.57 |
3758 | 8042 | 7.174946 | GGTTCCACATAACTGAGAAGAATTTCA | 59.825 | 37.037 | 0.00 | 0.00 | 35.70 | 2.69 |
3759 | 8043 | 7.174946 | TGGTTCCACATAACTGAGAAGAATTTC | 59.825 | 37.037 | 0.00 | 0.00 | 0.00 | 2.17 |
3760 | 8044 | 7.004086 | TGGTTCCACATAACTGAGAAGAATTT | 58.996 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
3763 | 8047 | 5.560722 | TGGTTCCACATAACTGAGAAGAA | 57.439 | 39.130 | 0.00 | 0.00 | 0.00 | 2.52 |
3778 | 8063 | 3.161866 | GGTGGCTTAGATTTTGGTTCCA | 58.838 | 45.455 | 0.00 | 0.00 | 0.00 | 3.53 |
3780 | 8065 | 5.405935 | AATGGTGGCTTAGATTTTGGTTC | 57.594 | 39.130 | 0.00 | 0.00 | 0.00 | 3.62 |
3790 | 8075 | 4.818546 | CCTTCATGTCTAATGGTGGCTTAG | 59.181 | 45.833 | 0.00 | 0.00 | 0.00 | 2.18 |
3803 | 8088 | 4.641989 | AGAAAATAATGCGCCTTCATGTCT | 59.358 | 37.500 | 4.18 | 1.06 | 0.00 | 3.41 |
3804 | 8089 | 4.736793 | CAGAAAATAATGCGCCTTCATGTC | 59.263 | 41.667 | 4.18 | 0.00 | 0.00 | 3.06 |
3808 | 8093 | 4.009675 | ACTCAGAAAATAATGCGCCTTCA | 58.990 | 39.130 | 4.18 | 0.00 | 0.00 | 3.02 |
3809 | 8094 | 4.094887 | TCACTCAGAAAATAATGCGCCTTC | 59.905 | 41.667 | 4.18 | 0.00 | 0.00 | 3.46 |
3814 | 8099 | 6.238211 | CCTTACCTCACTCAGAAAATAATGCG | 60.238 | 42.308 | 0.00 | 0.00 | 0.00 | 4.73 |
3815 | 8100 | 6.599638 | ACCTTACCTCACTCAGAAAATAATGC | 59.400 | 38.462 | 0.00 | 0.00 | 0.00 | 3.56 |
3843 | 8128 | 7.064134 | GCCAGGCAAATAAAAATAAAGGTGTAC | 59.936 | 37.037 | 6.55 | 0.00 | 0.00 | 2.90 |
3861 | 8146 | 1.757731 | AAGTTGCAGTGCCAGGCAA | 60.758 | 52.632 | 18.28 | 0.00 | 46.84 | 4.52 |
3868 | 8153 | 3.427161 | AAAGAAGTCAAGTTGCAGTGC | 57.573 | 42.857 | 8.58 | 8.58 | 0.00 | 4.40 |
3923 | 8208 | 4.560513 | GCTTAAACCAAATGGCTGCAACTA | 60.561 | 41.667 | 0.50 | 0.00 | 39.32 | 2.24 |
3936 | 8221 | 0.961019 | CTGCCAGCAGCTTAAACCAA | 59.039 | 50.000 | 6.72 | 0.00 | 44.23 | 3.67 |
3997 | 8282 | 1.200519 | CACCGGAGAACTAATCCCCA | 58.799 | 55.000 | 9.46 | 0.00 | 32.86 | 4.96 |
4001 | 8286 | 3.134081 | TGATTCCCACCGGAGAACTAATC | 59.866 | 47.826 | 9.46 | 9.93 | 40.10 | 1.75 |
4026 | 8311 | 0.622136 | ATCACTCCAGCCAATGAGCA | 59.378 | 50.000 | 0.00 | 0.00 | 34.23 | 4.26 |
4027 | 8312 | 1.022735 | CATCACTCCAGCCAATGAGC | 58.977 | 55.000 | 0.00 | 0.00 | 31.65 | 4.26 |
4043 | 8328 | 1.203001 | TGGGTCTGGGGAAAACACATC | 60.203 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
4075 | 8360 | 1.109323 | AACCTTGCAGGCCACAACTC | 61.109 | 55.000 | 5.01 | 0.00 | 39.63 | 3.01 |
4129 | 8415 | 1.741706 | CAGTGCACCAGCTATCAAAGG | 59.258 | 52.381 | 14.63 | 0.00 | 42.74 | 3.11 |
4142 | 8428 | 0.890996 | AGCTTAACCTGGCAGTGCAC | 60.891 | 55.000 | 18.61 | 9.40 | 0.00 | 4.57 |
4143 | 8429 | 0.890542 | CAGCTTAACCTGGCAGTGCA | 60.891 | 55.000 | 18.61 | 2.11 | 0.00 | 4.57 |
4144 | 8430 | 0.606401 | TCAGCTTAACCTGGCAGTGC | 60.606 | 55.000 | 14.43 | 6.55 | 33.64 | 4.40 |
4159 | 8445 | 3.809832 | TGAACTGCTTTACACTCTTCAGC | 59.190 | 43.478 | 0.00 | 0.00 | 0.00 | 4.26 |
4235 | 8521 | 0.179018 | AGATGGCGAAGGTAATGGCC | 60.179 | 55.000 | 0.00 | 0.00 | 45.76 | 5.36 |
4236 | 8522 | 1.680338 | AAGATGGCGAAGGTAATGGC | 58.320 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
4297 | 8586 | 6.014584 | GGGTGATTAAAGGGTTTTGACAAGAT | 60.015 | 38.462 | 0.00 | 0.00 | 0.00 | 2.40 |
4300 | 8589 | 4.038162 | CGGGTGATTAAAGGGTTTTGACAA | 59.962 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
4304 | 8593 | 2.297597 | TGCGGGTGATTAAAGGGTTTTG | 59.702 | 45.455 | 0.00 | 0.00 | 0.00 | 2.44 |
4310 | 8599 | 2.671070 | GCAAACTGCGGGTGATTAAAGG | 60.671 | 50.000 | 0.00 | 0.00 | 31.71 | 3.11 |
4380 | 8669 | 6.061441 | TCACATTATAATTGGCTCCGTTGAT | 58.939 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.