Multiple sequence alignment - TraesCS6D01G140200
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 | TraesCS6D01G140200 | chr6D | 100.000 | 4446 | 0 | 0 | 1 | 4446 | 109898320 | 109893875 | 0.000000e+00 | 8211.0 |
1 | TraesCS6D01G140200 | chr2B | 93.367 | 2970 | 152 | 13 | 693 | 3638 | 34065527 | 34062579 | 0.000000e+00 | 4351.0 |
2 | TraesCS6D01G140200 | chr2B | 88.988 | 563 | 51 | 6 | 3790 | 4348 | 34042647 | 34042092 | 0.000000e+00 | 686.0 |
3 | TraesCS6D01G140200 | chr2B | 84.515 | 691 | 64 | 24 | 1 | 659 | 34066204 | 34065525 | 1.040000e-180 | 643.0 |
4 | TraesCS6D01G140200 | chr2B | 89.579 | 499 | 48 | 3 | 3141 | 3638 | 34043229 | 34042734 | 8.120000e-177 | 630.0 |
5 | TraesCS6D01G140200 | chr2B | 86.505 | 578 | 66 | 7 | 2975 | 3548 | 33966484 | 33965915 | 3.780000e-175 | 625.0 |
6 | TraesCS6D01G140200 | chr2B | 83.877 | 521 | 62 | 11 | 2103 | 2617 | 33976906 | 33976402 | 1.120000e-130 | 477.0 |
7 | TraesCS6D01G140200 | chr2B | 83.877 | 521 | 62 | 11 | 2103 | 2617 | 33986159 | 33985655 | 1.120000e-130 | 477.0 |
8 | TraesCS6D01G140200 | chr2B | 83.685 | 521 | 63 | 11 | 2103 | 2617 | 33967653 | 33967149 | 5.210000e-129 | 472.0 |
9 | TraesCS6D01G140200 | chr2B | 83.685 | 521 | 63 | 11 | 2103 | 2617 | 33995412 | 33994908 | 5.210000e-129 | 472.0 |
10 | TraesCS6D01G140200 | chr2B | 83.685 | 521 | 63 | 11 | 2103 | 2617 | 34014021 | 34013517 | 5.210000e-129 | 472.0 |
11 | TraesCS6D01G140200 | chr2B | 87.164 | 335 | 39 | 4 | 2975 | 3308 | 34003600 | 34003269 | 1.170000e-100 | 377.0 |
12 | TraesCS6D01G140200 | chr2B | 86.866 | 335 | 40 | 4 | 2975 | 3308 | 33975737 | 33975406 | 5.430000e-99 | 372.0 |
13 | TraesCS6D01G140200 | chr2B | 86.866 | 335 | 40 | 4 | 2975 | 3308 | 33994243 | 33993912 | 5.430000e-99 | 372.0 |
14 | TraesCS6D01G140200 | chr2B | 86.866 | 335 | 40 | 4 | 2975 | 3308 | 34028995 | 34028664 | 5.430000e-99 | 372.0 |
15 | TraesCS6D01G140200 | chr2B | 84.672 | 274 | 35 | 4 | 2613 | 2886 | 33976002 | 33975736 | 2.640000e-67 | 267.0 |
16 | TraesCS6D01G140200 | chr2B | 84.672 | 274 | 35 | 4 | 2613 | 2886 | 34013118 | 34012852 | 2.640000e-67 | 267.0 |
17 | TraesCS6D01G140200 | chr2B | 84.962 | 266 | 33 | 4 | 2613 | 2877 | 34003865 | 34003606 | 3.410000e-66 | 263.0 |
18 | TraesCS6D01G140200 | chr2B | 84.307 | 274 | 36 | 4 | 2613 | 2886 | 33985255 | 33984989 | 1.230000e-65 | 261.0 |
19 | TraesCS6D01G140200 | chr2B | 87.665 | 227 | 17 | 2 | 3670 | 3886 | 34062584 | 34062359 | 2.050000e-63 | 254.0 |
20 | TraesCS6D01G140200 | chr2B | 87.778 | 90 | 9 | 2 | 4357 | 4445 | 34042043 | 34041955 | 2.190000e-18 | 104.0 |
21 | TraesCS6D01G140200 | chr2B | 100.000 | 29 | 0 | 0 | 674 | 702 | 550399708 | 550399680 | 2.000000e-03 | 54.7 |
22 | TraesCS6D01G140200 | chr2A | 93.177 | 2477 | 122 | 10 | 694 | 3151 | 21534682 | 21532234 | 0.000000e+00 | 3594.0 |
23 | TraesCS6D01G140200 | chr2A | 89.786 | 793 | 55 | 11 | 3670 | 4445 | 21531718 | 21530935 | 0.000000e+00 | 992.0 |
24 | TraesCS6D01G140200 | chr2A | 95.635 | 504 | 18 | 3 | 3139 | 3638 | 21532216 | 21531713 | 0.000000e+00 | 806.0 |
25 | TraesCS6D01G140200 | chr2A | 86.324 | 680 | 61 | 13 | 1 | 659 | 21535349 | 21534681 | 0.000000e+00 | 712.0 |
26 | TraesCS6D01G140200 | chr6B | 76.527 | 1572 | 252 | 71 | 832 | 2337 | 214872578 | 214874098 | 0.000000e+00 | 750.0 |
27 | TraesCS6D01G140200 | chrUn | 84.069 | 521 | 61 | 11 | 2103 | 2617 | 359919340 | 359918836 | 2.400000e-132 | 483.0 |
28 | TraesCS6D01G140200 | chrUn | 86.038 | 265 | 20 | 7 | 2357 | 2617 | 431614509 | 431614258 | 7.330000e-68 | 268.0 |
29 | TraesCS6D01G140200 | chrUn | 84.672 | 274 | 35 | 4 | 2613 | 2886 | 371490515 | 371490781 | 2.640000e-67 | 267.0 |
30 | TraesCS6D01G140200 | chrUn | 84.672 | 274 | 35 | 4 | 2613 | 2886 | 431613858 | 431613592 | 2.640000e-67 | 267.0 |
31 | TraesCS6D01G140200 | chrUn | 84.307 | 274 | 36 | 4 | 2613 | 2886 | 322599149 | 322598883 | 1.230000e-65 | 261.0 |
32 | TraesCS6D01G140200 | chr4D | 88.991 | 109 | 11 | 1 | 1930 | 2038 | 440257139 | 440257032 | 2.790000e-27 | 134.0 |
33 | TraesCS6D01G140200 | chr4D | 100.000 | 41 | 0 | 0 | 4405 | 4445 | 453661 | 453701 | 4.770000e-10 | 76.8 |
34 | TraesCS6D01G140200 | chr4D | 95.745 | 47 | 0 | 2 | 4401 | 4445 | 482703437 | 482703483 | 1.720000e-09 | 75.0 |
35 | TraesCS6D01G140200 | chr4A | 88.991 | 109 | 10 | 2 | 1930 | 2038 | 242675583 | 242675689 | 2.790000e-27 | 134.0 |
36 | TraesCS6D01G140200 | chr3B | 87.850 | 107 | 11 | 2 | 1932 | 2038 | 379944177 | 379944073 | 1.680000e-24 | 124.0 |
37 | TraesCS6D01G140200 | chr3B | 85.849 | 106 | 13 | 2 | 1930 | 2035 | 151853196 | 151853299 | 1.310000e-20 | 111.0 |
38 | TraesCS6D01G140200 | chr3B | 90.244 | 82 | 8 | 0 | 1957 | 2038 | 347916354 | 347916273 | 1.690000e-19 | 108.0 |
39 | TraesCS6D01G140200 | chr4B | 93.671 | 79 | 5 | 0 | 1957 | 2035 | 340785901 | 340785979 | 7.810000e-23 | 119.0 |
40 | TraesCS6D01G140200 | chr7D | 90.588 | 85 | 2 | 2 | 4361 | 4445 | 120586355 | 120586277 | 1.690000e-19 | 108.0 |
41 | TraesCS6D01G140200 | chr7D | 86.458 | 96 | 8 | 2 | 4054 | 4145 | 120586458 | 120586364 | 2.830000e-17 | 100.0 |
42 | TraesCS6D01G140200 | chr7D | 100.000 | 42 | 0 | 0 | 4404 | 4445 | 320290904 | 320290945 | 1.330000e-10 | 78.7 |
43 | TraesCS6D01G140200 | chr5B | 90.244 | 82 | 8 | 0 | 1957 | 2038 | 344200354 | 344200435 | 1.690000e-19 | 108.0 |
44 | TraesCS6D01G140200 | chr1D | 100.000 | 42 | 0 | 0 | 4404 | 4445 | 194462617 | 194462658 | 1.330000e-10 | 78.7 |
45 | TraesCS6D01G140200 | chr1A | 100.000 | 42 | 0 | 0 | 4404 | 4445 | 202099440 | 202099399 | 1.330000e-10 | 78.7 |
46 | TraesCS6D01G140200 | chr1A | 100.000 | 42 | 0 | 0 | 4404 | 4445 | 241997707 | 241997748 | 1.330000e-10 | 78.7 |
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 | TraesCS6D01G140200 | chr6D | 109893875 | 109898320 | 4445 | True | 8211.000000 | 8211 | 100.000000 | 1 | 4446 | 1 | chr6D.!!$R1 | 4445 |
1 | TraesCS6D01G140200 | chr2B | 34062359 | 34066204 | 3845 | True | 1749.333333 | 4351 | 88.515667 | 1 | 3886 | 3 | chr2B.!!$R10 | 3885 |
2 | TraesCS6D01G140200 | chr2B | 33965915 | 33967653 | 1738 | True | 548.500000 | 625 | 85.095000 | 2103 | 3548 | 2 | chr2B.!!$R3 | 1445 |
3 | TraesCS6D01G140200 | chr2B | 34041955 | 34043229 | 1274 | True | 473.333333 | 686 | 88.781667 | 3141 | 4445 | 3 | chr2B.!!$R9 | 1304 |
4 | TraesCS6D01G140200 | chr2B | 33993912 | 33995412 | 1500 | True | 422.000000 | 472 | 85.275500 | 2103 | 3308 | 2 | chr2B.!!$R6 | 1205 |
5 | TraesCS6D01G140200 | chr2B | 33975406 | 33976906 | 1500 | True | 372.000000 | 477 | 85.138333 | 2103 | 3308 | 3 | chr2B.!!$R4 | 1205 |
6 | TraesCS6D01G140200 | chr2B | 34012852 | 34014021 | 1169 | True | 369.500000 | 472 | 84.178500 | 2103 | 2886 | 2 | chr2B.!!$R8 | 783 |
7 | TraesCS6D01G140200 | chr2B | 33984989 | 33986159 | 1170 | True | 369.000000 | 477 | 84.092000 | 2103 | 2886 | 2 | chr2B.!!$R5 | 783 |
8 | TraesCS6D01G140200 | chr2B | 34003269 | 34003865 | 596 | True | 320.000000 | 377 | 86.063000 | 2613 | 3308 | 2 | chr2B.!!$R7 | 695 |
9 | TraesCS6D01G140200 | chr2A | 21530935 | 21535349 | 4414 | True | 1526.000000 | 3594 | 91.230500 | 1 | 4445 | 4 | chr2A.!!$R1 | 4444 |
10 | TraesCS6D01G140200 | chr6B | 214872578 | 214874098 | 1520 | False | 750.000000 | 750 | 76.527000 | 832 | 2337 | 1 | chr6B.!!$F1 | 1505 |
11 | TraesCS6D01G140200 | chrUn | 359918836 | 359919340 | 504 | True | 483.000000 | 483 | 84.069000 | 2103 | 2617 | 1 | chrUn.!!$R2 | 514 |
12 | TraesCS6D01G140200 | chrUn | 431613592 | 431614509 | 917 | True | 267.500000 | 268 | 85.355000 | 2357 | 2886 | 2 | chrUn.!!$R3 | 529 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
519 | 551 | 0.033208 | AGCCTCTCTGTCCCTCTGAG | 60.033 | 60.000 | 0.0 | 0.0 | 41.48 | 3.35 | F |
1871 | 1952 | 1.340308 | CCAGGGTTGATGACTGATGCA | 60.340 | 52.381 | 0.0 | 0.0 | 34.21 | 3.96 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2188 | 2281 | 2.210644 | TCCCGGGGAACTATTTTCCAT | 58.789 | 47.619 | 23.5 | 0.0 | 40.32 | 3.41 | R |
3809 | 4368 | 0.036388 | TCACGAATGAGAGGGGTTGC | 60.036 | 55.000 | 0.0 | 0.0 | 0.00 | 4.17 | 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 |
---|---|---|---|---|---|---|---|---|---|
21 | 22 | 2.359011 | GGTTCAGGGGCGGGATTT | 59.641 | 61.111 | 0.00 | 0.00 | 0.00 | 2.17 |
25 | 26 | 0.254747 | TTCAGGGGCGGGATTTGTAG | 59.745 | 55.000 | 0.00 | 0.00 | 0.00 | 2.74 |
52 | 57 | 4.717629 | CTTCGGCGGCGAGTGTCA | 62.718 | 66.667 | 32.72 | 17.87 | 0.00 | 3.58 |
143 | 155 | 2.592308 | GGCGATTCTTGGCTCCCT | 59.408 | 61.111 | 0.00 | 0.00 | 0.00 | 4.20 |
185 | 198 | 4.778143 | AGCGGCGCCCTTCGATTT | 62.778 | 61.111 | 30.40 | 2.85 | 41.67 | 2.17 |
187 | 200 | 3.876198 | CGGCGCCCTTCGATTTGG | 61.876 | 66.667 | 23.46 | 0.00 | 41.67 | 3.28 |
196 | 209 | 0.871722 | CTTCGATTTGGGCGTGTTCA | 59.128 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
198 | 211 | 1.083489 | TCGATTTGGGCGTGTTCATC | 58.917 | 50.000 | 0.00 | 0.00 | 0.00 | 2.92 |
210 | 236 | 1.467342 | GTGTTCATCCGTAGGGTTTGC | 59.533 | 52.381 | 0.53 | 0.00 | 39.56 | 3.68 |
213 | 239 | 0.539986 | TCATCCGTAGGGTTTGCCTC | 59.460 | 55.000 | 0.53 | 0.00 | 39.56 | 4.70 |
214 | 240 | 0.463833 | CATCCGTAGGGTTTGCCTCC | 60.464 | 60.000 | 0.53 | 0.00 | 39.56 | 4.30 |
347 | 376 | 1.068083 | GAATGGCTCGCTCGGATGA | 59.932 | 57.895 | 0.00 | 0.00 | 0.00 | 2.92 |
373 | 402 | 2.328099 | GCGTTCTTGGACCTGCTGG | 61.328 | 63.158 | 8.29 | 8.29 | 39.83 | 4.85 |
374 | 403 | 2.328099 | CGTTCTTGGACCTGCTGGC | 61.328 | 63.158 | 9.95 | 2.57 | 36.63 | 4.85 |
384 | 413 | 1.123861 | ACCTGCTGGCTGTTCTCTGA | 61.124 | 55.000 | 9.95 | 0.00 | 36.63 | 3.27 |
399 | 428 | 5.635280 | TGTTCTCTGAATGTCTGATTTCGTC | 59.365 | 40.000 | 0.00 | 0.00 | 0.00 | 4.20 |
400 | 429 | 4.748892 | TCTCTGAATGTCTGATTTCGTCC | 58.251 | 43.478 | 0.00 | 0.00 | 0.00 | 4.79 |
409 | 438 | 0.787787 | TGATTTCGTCCGTCTTTGCG | 59.212 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
422 | 451 | 3.809832 | CGTCTTTGCGGAAGGATCATAAT | 59.190 | 43.478 | 4.50 | 0.00 | 35.98 | 1.28 |
424 | 453 | 5.514279 | GTCTTTGCGGAAGGATCATAATTG | 58.486 | 41.667 | 4.50 | 0.00 | 35.98 | 2.32 |
425 | 454 | 5.066505 | GTCTTTGCGGAAGGATCATAATTGT | 59.933 | 40.000 | 4.50 | 0.00 | 35.98 | 2.71 |
426 | 455 | 6.260050 | GTCTTTGCGGAAGGATCATAATTGTA | 59.740 | 38.462 | 4.50 | 0.00 | 35.98 | 2.41 |
458 | 490 | 3.192001 | TCTTCTCCGCGTAAATGTACTGT | 59.808 | 43.478 | 4.92 | 0.00 | 0.00 | 3.55 |
459 | 491 | 2.871133 | TCTCCGCGTAAATGTACTGTG | 58.129 | 47.619 | 4.92 | 0.00 | 0.00 | 3.66 |
460 | 492 | 2.488937 | TCTCCGCGTAAATGTACTGTGA | 59.511 | 45.455 | 4.92 | 0.00 | 0.00 | 3.58 |
502 | 534 | 0.667487 | TGTGCGTGCTCTGTTCTAGC | 60.667 | 55.000 | 0.00 | 0.00 | 40.50 | 3.42 |
519 | 551 | 0.033208 | AGCCTCTCTGTCCCTCTGAG | 60.033 | 60.000 | 0.00 | 0.00 | 41.48 | 3.35 |
525 | 557 | 4.340617 | CTCTCTGTCCCTCTGAGTTTACT | 58.659 | 47.826 | 3.66 | 0.00 | 41.09 | 2.24 |
562 | 594 | 3.355378 | TCCCATGAATGCTGTAGGTTTG | 58.645 | 45.455 | 0.00 | 0.00 | 0.00 | 2.93 |
597 | 629 | 1.897133 | TGCAGTACGGGTGTAGATTGT | 59.103 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 |
613 | 645 | 6.650807 | TGTAGATTGTTCTGTCACCTTTCATC | 59.349 | 38.462 | 0.00 | 0.00 | 33.17 | 2.92 |
622 | 654 | 3.840078 | TGTCACCTTTCATCTCAGGATCA | 59.160 | 43.478 | 0.00 | 0.00 | 33.90 | 2.92 |
623 | 655 | 4.187694 | GTCACCTTTCATCTCAGGATCAC | 58.812 | 47.826 | 0.00 | 0.00 | 33.90 | 3.06 |
624 | 656 | 4.081198 | GTCACCTTTCATCTCAGGATCACT | 60.081 | 45.833 | 0.00 | 0.00 | 33.90 | 3.41 |
659 | 695 | 6.554334 | TCTGCTACCAAAGTTGAATTGTAC | 57.446 | 37.500 | 0.00 | 0.00 | 0.00 | 2.90 |
660 | 696 | 6.296026 | TCTGCTACCAAAGTTGAATTGTACT | 58.704 | 36.000 | 0.00 | 0.00 | 0.00 | 2.73 |
661 | 697 | 6.426937 | TCTGCTACCAAAGTTGAATTGTACTC | 59.573 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
662 | 698 | 5.472137 | TGCTACCAAAGTTGAATTGTACTCC | 59.528 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
663 | 699 | 5.106277 | GCTACCAAAGTTGAATTGTACTCCC | 60.106 | 44.000 | 0.00 | 0.00 | 0.00 | 4.30 |
664 | 700 | 5.061721 | ACCAAAGTTGAATTGTACTCCCT | 57.938 | 39.130 | 0.00 | 0.00 | 0.00 | 4.20 |
665 | 701 | 5.070685 | ACCAAAGTTGAATTGTACTCCCTC | 58.929 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
666 | 702 | 4.459337 | CCAAAGTTGAATTGTACTCCCTCC | 59.541 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
667 | 703 | 3.611766 | AGTTGAATTGTACTCCCTCCG | 57.388 | 47.619 | 0.00 | 0.00 | 0.00 | 4.63 |
668 | 704 | 2.904434 | AGTTGAATTGTACTCCCTCCGT | 59.096 | 45.455 | 0.00 | 0.00 | 0.00 | 4.69 |
669 | 705 | 4.091549 | AGTTGAATTGTACTCCCTCCGTA | 58.908 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
670 | 706 | 4.715297 | AGTTGAATTGTACTCCCTCCGTAT | 59.285 | 41.667 | 0.00 | 0.00 | 0.00 | 3.06 |
671 | 707 | 5.189145 | AGTTGAATTGTACTCCCTCCGTATT | 59.811 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
672 | 708 | 6.381994 | AGTTGAATTGTACTCCCTCCGTATTA | 59.618 | 38.462 | 0.00 | 0.00 | 0.00 | 0.98 |
673 | 709 | 6.795144 | TGAATTGTACTCCCTCCGTATTAA | 57.205 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
674 | 710 | 7.369551 | TGAATTGTACTCCCTCCGTATTAAT | 57.630 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
675 | 711 | 8.481492 | TGAATTGTACTCCCTCCGTATTAATA | 57.519 | 34.615 | 0.00 | 0.00 | 0.00 | 0.98 |
676 | 712 | 9.096823 | TGAATTGTACTCCCTCCGTATTAATAT | 57.903 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
677 | 713 | 9.939802 | GAATTGTACTCCCTCCGTATTAATATT | 57.060 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
679 | 715 | 9.939802 | ATTGTACTCCCTCCGTATTAATATTTC | 57.060 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
680 | 716 | 8.716674 | TGTACTCCCTCCGTATTAATATTTCT | 57.283 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
681 | 717 | 9.151177 | TGTACTCCCTCCGTATTAATATTTCTT | 57.849 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
682 | 718 | 9.993454 | GTACTCCCTCCGTATTAATATTTCTTT | 57.007 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
684 | 720 | 9.993454 | ACTCCCTCCGTATTAATATTTCTTTAC | 57.007 | 33.333 | 0.00 | 0.00 | 0.00 | 2.01 |
685 | 721 | 9.991906 | CTCCCTCCGTATTAATATTTCTTTACA | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 2.41 |
686 | 722 | 9.991906 | TCCCTCCGTATTAATATTTCTTTACAG | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
687 | 723 | 9.991906 | CCCTCCGTATTAATATTTCTTTACAGA | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
690 | 726 | 9.991906 | TCCGTATTAATATTTCTTTACAGAGGG | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 4.30 |
691 | 727 | 9.991906 | CCGTATTAATATTTCTTTACAGAGGGA | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 4.20 |
726 | 762 | 4.183865 | GCCCTGATAAATGAAACCTTTGC | 58.816 | 43.478 | 0.00 | 0.00 | 0.00 | 3.68 |
728 | 764 | 5.413499 | CCCTGATAAATGAAACCTTTGCTG | 58.587 | 41.667 | 0.00 | 0.00 | 0.00 | 4.41 |
765 | 801 | 6.942891 | ACTTTGTGAGTTTGTGTTTGTTTTG | 58.057 | 32.000 | 0.00 | 0.00 | 33.92 | 2.44 |
773 | 809 | 7.967854 | TGAGTTTGTGTTTGTTTTGACTGATAG | 59.032 | 33.333 | 0.00 | 0.00 | 0.00 | 2.08 |
829 | 865 | 4.462508 | TGTTCACACTTTTGCAATGGAA | 57.537 | 36.364 | 0.00 | 0.00 | 0.00 | 3.53 |
942 | 981 | 4.329801 | CACATTGCGTGTTTGCTAGAGATA | 59.670 | 41.667 | 0.00 | 0.00 | 39.62 | 1.98 |
943 | 982 | 4.568359 | ACATTGCGTGTTTGCTAGAGATAG | 59.432 | 41.667 | 0.00 | 0.00 | 38.01 | 2.08 |
1047 | 1086 | 7.413438 | CCAACAGAAATGAACTACAGTATCAGC | 60.413 | 40.741 | 0.00 | 0.00 | 0.00 | 4.26 |
1157 | 1196 | 4.363999 | GACCTTACTCTCATTCATCCACG | 58.636 | 47.826 | 0.00 | 0.00 | 0.00 | 4.94 |
1161 | 1200 | 2.402564 | ACTCTCATTCATCCACGGGAT | 58.597 | 47.619 | 0.00 | 0.00 | 44.21 | 3.85 |
1223 | 1277 | 2.939103 | GGTGCTGTAAATACTCCTGCAG | 59.061 | 50.000 | 6.78 | 6.78 | 0.00 | 4.41 |
1237 | 1291 | 2.306805 | TCCTGCAGGTCTGAATTCATGT | 59.693 | 45.455 | 31.58 | 0.00 | 36.34 | 3.21 |
1336 | 1400 | 7.496591 | AGTCGTTTTAGACACTTGTGGATAAAA | 59.503 | 33.333 | 15.13 | 15.13 | 43.24 | 1.52 |
1444 | 1518 | 3.118075 | TGGTGAATTCTCTGGTTGTGTGA | 60.118 | 43.478 | 7.05 | 0.00 | 0.00 | 3.58 |
1785 | 1863 | 9.941325 | GAATATCAGGTAGAACAGAATGATGAT | 57.059 | 33.333 | 0.00 | 0.00 | 39.69 | 2.45 |
1835 | 1916 | 5.063204 | TCCCTGATCAAAAGTTACACACAG | 58.937 | 41.667 | 0.00 | 0.00 | 0.00 | 3.66 |
1836 | 1917 | 5.063204 | CCCTGATCAAAAGTTACACACAGA | 58.937 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
1871 | 1952 | 1.340308 | CCAGGGTTGATGACTGATGCA | 60.340 | 52.381 | 0.00 | 0.00 | 34.21 | 3.96 |
1878 | 1959 | 2.989909 | TGATGACTGATGCATTCGGTT | 58.010 | 42.857 | 0.00 | 0.00 | 44.24 | 4.44 |
2183 | 2276 | 4.311816 | ACTCTTTGCTGGTTTGTCATTG | 57.688 | 40.909 | 0.00 | 0.00 | 0.00 | 2.82 |
2188 | 2281 | 6.634805 | TCTTTGCTGGTTTGTCATTGTAAAA | 58.365 | 32.000 | 0.00 | 0.00 | 0.00 | 1.52 |
2224 | 2317 | 4.505039 | CCCCGGGATCCTCTTATTGTAAAG | 60.505 | 50.000 | 26.32 | 0.00 | 0.00 | 1.85 |
2231 | 2324 | 5.099042 | TCCTCTTATTGTAAAGCACCTCC | 57.901 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
2274 | 2372 | 7.601130 | TCTTGCAAATTCTTGGATTCATTCAAG | 59.399 | 33.333 | 0.00 | 1.73 | 41.06 | 3.02 |
2282 | 2380 | 7.870509 | TCTTGGATTCATTCAAGAACCATAG | 57.129 | 36.000 | 7.93 | 0.00 | 44.14 | 2.23 |
2355 | 2456 | 4.944930 | ACTAGTTTGCGGCAATATAAACCA | 59.055 | 37.500 | 17.19 | 0.00 | 34.46 | 3.67 |
2437 | 2541 | 3.954200 | TGCCAGATTGTATCTTCAAGCA | 58.046 | 40.909 | 0.00 | 0.00 | 37.58 | 3.91 |
2637 | 3146 | 4.397481 | TGACTCTGATGCATTACTGAGG | 57.603 | 45.455 | 19.69 | 7.94 | 36.75 | 3.86 |
2671 | 3180 | 6.867662 | ATGACCAAAACACAACTAGAGAAG | 57.132 | 37.500 | 0.00 | 0.00 | 0.00 | 2.85 |
2688 | 3197 | 4.469227 | AGAGAAGTACATCAGGACTGCAAT | 59.531 | 41.667 | 0.31 | 0.00 | 0.00 | 3.56 |
2722 | 3231 | 5.674525 | CTGGACCTACTAAATCTGATTGCA | 58.325 | 41.667 | 3.22 | 0.00 | 0.00 | 4.08 |
2810 | 3319 | 5.496133 | TGCTTTAGATCCTCGTGTAGTAC | 57.504 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
2827 | 3336 | 6.257630 | GTGTAGTACGTTCCCAAAACTTTGTA | 59.742 | 38.462 | 0.00 | 0.00 | 36.45 | 2.41 |
2840 | 3349 | 6.460953 | CCAAAACTTTGTAAGTGTAGCCACAT | 60.461 | 38.462 | 1.76 | 0.00 | 41.91 | 3.21 |
3004 | 3513 | 3.732849 | CTGGGAGGGCTGGGGTTC | 61.733 | 72.222 | 0.00 | 0.00 | 0.00 | 3.62 |
3069 | 3578 | 5.845103 | TGTAACTGGATGTTCGTTAACTCA | 58.155 | 37.500 | 3.71 | 1.14 | 39.89 | 3.41 |
3234 | 3774 | 2.664402 | ACATCACTGGAAAAGGCAGT | 57.336 | 45.000 | 0.00 | 0.00 | 0.00 | 4.40 |
3310 | 3850 | 0.734253 | CCGCGTCTTCCTGTTCTCAG | 60.734 | 60.000 | 4.92 | 0.00 | 41.01 | 3.35 |
3347 | 3887 | 7.373493 | AGAACAAAGCCATTCAAATAGTTCTG | 58.627 | 34.615 | 0.00 | 0.00 | 40.90 | 3.02 |
3465 | 4010 | 1.678101 | GTCCCCTGCATAGCATTTCAC | 59.322 | 52.381 | 0.00 | 0.00 | 38.13 | 3.18 |
3606 | 4153 | 1.841302 | TTCTGGCAGAACGAGGGCAT | 61.841 | 55.000 | 25.38 | 0.00 | 38.99 | 4.40 |
3632 | 4179 | 3.243636 | CCAAAGCAGCATGAGAAAACACT | 60.244 | 43.478 | 0.00 | 0.00 | 39.69 | 3.55 |
3633 | 4180 | 4.365723 | CAAAGCAGCATGAGAAAACACTT | 58.634 | 39.130 | 0.00 | 0.00 | 39.69 | 3.16 |
3634 | 4181 | 3.911661 | AGCAGCATGAGAAAACACTTC | 57.088 | 42.857 | 0.00 | 0.00 | 39.69 | 3.01 |
3635 | 4182 | 3.216800 | AGCAGCATGAGAAAACACTTCA | 58.783 | 40.909 | 0.00 | 0.00 | 39.69 | 3.02 |
3636 | 4183 | 3.825014 | AGCAGCATGAGAAAACACTTCAT | 59.175 | 39.130 | 0.00 | 0.00 | 39.69 | 2.57 |
3637 | 4184 | 5.005740 | AGCAGCATGAGAAAACACTTCATA | 58.994 | 37.500 | 0.00 | 0.00 | 39.69 | 2.15 |
3638 | 4185 | 5.091431 | GCAGCATGAGAAAACACTTCATAC | 58.909 | 41.667 | 0.00 | 0.00 | 39.69 | 2.39 |
3639 | 4186 | 5.319139 | CAGCATGAGAAAACACTTCATACG | 58.681 | 41.667 | 0.00 | 0.00 | 39.69 | 3.06 |
3640 | 4187 | 5.120674 | CAGCATGAGAAAACACTTCATACGA | 59.879 | 40.000 | 0.00 | 0.00 | 39.69 | 3.43 |
3641 | 4188 | 5.700832 | AGCATGAGAAAACACTTCATACGAA | 59.299 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3642 | 4189 | 5.790495 | GCATGAGAAAACACTTCATACGAAC | 59.210 | 40.000 | 0.00 | 0.00 | 0.00 | 3.95 |
3643 | 4190 | 6.347725 | GCATGAGAAAACACTTCATACGAACT | 60.348 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
3644 | 4191 | 6.764877 | TGAGAAAACACTTCATACGAACTC | 57.235 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
3645 | 4192 | 6.513180 | TGAGAAAACACTTCATACGAACTCT | 58.487 | 36.000 | 0.00 | 0.00 | 0.00 | 3.24 |
3646 | 4193 | 6.420903 | TGAGAAAACACTTCATACGAACTCTG | 59.579 | 38.462 | 0.00 | 0.00 | 0.00 | 3.35 |
3647 | 4194 | 5.696724 | AGAAAACACTTCATACGAACTCTGG | 59.303 | 40.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3648 | 4195 | 4.866508 | AACACTTCATACGAACTCTGGA | 57.133 | 40.909 | 0.00 | 0.00 | 0.00 | 3.86 |
3649 | 4196 | 4.866508 | ACACTTCATACGAACTCTGGAA | 57.133 | 40.909 | 0.00 | 0.00 | 0.00 | 3.53 |
3650 | 4197 | 5.209818 | ACACTTCATACGAACTCTGGAAA | 57.790 | 39.130 | 0.00 | 0.00 | 0.00 | 3.13 |
3651 | 4198 | 5.794894 | ACACTTCATACGAACTCTGGAAAT | 58.205 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
3652 | 4199 | 6.231211 | ACACTTCATACGAACTCTGGAAATT | 58.769 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
3653 | 4200 | 6.710744 | ACACTTCATACGAACTCTGGAAATTT | 59.289 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
3654 | 4201 | 7.228706 | ACACTTCATACGAACTCTGGAAATTTT | 59.771 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
3655 | 4202 | 8.076178 | CACTTCATACGAACTCTGGAAATTTTT | 58.924 | 33.333 | 0.00 | 0.00 | 0.00 | 1.94 |
3717 | 4274 | 3.999001 | TGACACTGATGATTCTGTTCAGC | 59.001 | 43.478 | 10.03 | 0.00 | 40.40 | 4.26 |
3756 | 4315 | 6.992123 | TGATCGATAATGCCAGTTCTGTTATT | 59.008 | 34.615 | 0.00 | 2.62 | 0.00 | 1.40 |
3787 | 4346 | 6.882610 | ATCTTTGTTCAGTGCAATGAGTTA | 57.117 | 33.333 | 17.22 | 5.05 | 34.84 | 2.24 |
3788 | 4347 | 6.304356 | TCTTTGTTCAGTGCAATGAGTTAG | 57.696 | 37.500 | 17.22 | 12.73 | 0.00 | 2.34 |
3803 | 4362 | 3.244422 | TGAGTTAGGTTGCAGTTTCCGAT | 60.244 | 43.478 | 0.00 | 0.00 | 0.00 | 4.18 |
3809 | 4368 | 2.160417 | GGTTGCAGTTTCCGATTCTCAG | 59.840 | 50.000 | 0.00 | 0.00 | 0.00 | 3.35 |
3834 | 4393 | 3.201290 | CCCCTCTCATTCGTGAATTCTG | 58.799 | 50.000 | 7.05 | 0.00 | 0.00 | 3.02 |
3869 | 4428 | 8.729805 | TTTGAGCAATGTAATTTCACCTTTTT | 57.270 | 26.923 | 0.00 | 0.00 | 31.22 | 1.94 |
3870 | 4429 | 9.823647 | TTTGAGCAATGTAATTTCACCTTTTTA | 57.176 | 25.926 | 0.00 | 0.00 | 31.22 | 1.52 |
3871 | 4430 | 8.810652 | TGAGCAATGTAATTTCACCTTTTTAC | 57.189 | 30.769 | 0.00 | 0.00 | 31.22 | 2.01 |
3986 | 4550 | 2.417787 | GGTTTCAGCAGGAATCATTGCC | 60.418 | 50.000 | 5.54 | 0.00 | 41.17 | 4.52 |
4081 | 4645 | 4.007644 | CTGTCGTGCTGGCCCTCA | 62.008 | 66.667 | 0.00 | 0.00 | 0.00 | 3.86 |
4119 | 4683 | 0.104855 | GTGTCAGGCCGATGATGCTA | 59.895 | 55.000 | 0.00 | 0.00 | 0.00 | 3.49 |
4136 | 4700 | 3.601435 | TGCTAGCACGGTAAAGCAAATA | 58.399 | 40.909 | 14.93 | 0.00 | 41.74 | 1.40 |
4192 | 4756 | 5.063204 | CACATAGTCACCTCCAAAAAGACA | 58.937 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
4196 | 4760 | 7.287696 | ACATAGTCACCTCCAAAAAGACATTTT | 59.712 | 33.333 | 0.00 | 0.00 | 41.93 | 1.82 |
4267 | 4831 | 1.490910 | GCAAAGGTAGGCTCCATAGGT | 59.509 | 52.381 | 0.00 | 0.00 | 0.00 | 3.08 |
4283 | 4847 | 0.108329 | AGGTAGGTCGGCATTGAACG | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 3.95 |
4377 | 4984 | 2.806945 | TTCTGGCCTTGAACCTATGG | 57.193 | 50.000 | 3.32 | 0.00 | 0.00 | 2.74 |
4381 | 4988 | 3.589735 | TCTGGCCTTGAACCTATGGTTTA | 59.410 | 43.478 | 3.32 | 0.00 | 46.95 | 2.01 |
4445 | 5053 | 2.147958 | CGGTAAAGCTGTTGCCTTGTA | 58.852 | 47.619 | 11.70 | 0.00 | 40.80 | 2.41 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
21 | 22 | 3.766691 | GAAGCCGCCCCGACTACA | 61.767 | 66.667 | 0.00 | 0.00 | 0.00 | 2.74 |
80 | 92 | 1.017177 | CGCCGAATCAAGAACCCGAA | 61.017 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
170 | 183 | 3.876198 | CCAAATCGAAGGGCGCCG | 61.876 | 66.667 | 22.54 | 9.16 | 40.61 | 6.46 |
171 | 184 | 3.518068 | CCCAAATCGAAGGGCGCC | 61.518 | 66.667 | 21.18 | 21.18 | 38.44 | 6.53 |
177 | 190 | 0.871722 | TGAACACGCCCAAATCGAAG | 59.128 | 50.000 | 0.00 | 0.00 | 0.00 | 3.79 |
178 | 191 | 1.466950 | GATGAACACGCCCAAATCGAA | 59.533 | 47.619 | 0.00 | 0.00 | 0.00 | 3.71 |
185 | 198 | 1.216977 | CTACGGATGAACACGCCCA | 59.783 | 57.895 | 0.00 | 0.00 | 0.00 | 5.36 |
187 | 200 | 1.520787 | CCCTACGGATGAACACGCC | 60.521 | 63.158 | 0.00 | 0.00 | 0.00 | 5.68 |
196 | 209 | 1.912971 | GGAGGCAAACCCTACGGAT | 59.087 | 57.895 | 0.00 | 0.00 | 46.60 | 4.18 |
218 | 244 | 1.459592 | CTCCTCTAAACAAACCGTGCG | 59.540 | 52.381 | 0.00 | 0.00 | 0.00 | 5.34 |
262 | 288 | 2.353109 | GCAAAATGGCCCTGTTCTCTTC | 60.353 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
263 | 289 | 1.620323 | GCAAAATGGCCCTGTTCTCTT | 59.380 | 47.619 | 0.00 | 0.00 | 0.00 | 2.85 |
264 | 290 | 1.203100 | AGCAAAATGGCCCTGTTCTCT | 60.203 | 47.619 | 0.00 | 0.00 | 0.00 | 3.10 |
265 | 291 | 1.203287 | GAGCAAAATGGCCCTGTTCTC | 59.797 | 52.381 | 0.00 | 0.00 | 0.00 | 2.87 |
266 | 292 | 1.203100 | AGAGCAAAATGGCCCTGTTCT | 60.203 | 47.619 | 0.00 | 2.44 | 0.00 | 3.01 |
347 | 376 | 1.534729 | GTCCAAGAACGCCCAAGAAT | 58.465 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
373 | 402 | 5.445673 | CGAAATCAGACATTCAGAGAACAGC | 60.446 | 44.000 | 0.13 | 0.00 | 0.00 | 4.40 |
374 | 403 | 5.636965 | ACGAAATCAGACATTCAGAGAACAG | 59.363 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
384 | 413 | 3.594603 | AGACGGACGAAATCAGACATT | 57.405 | 42.857 | 0.00 | 0.00 | 0.00 | 2.71 |
400 | 429 | 1.656652 | ATGATCCTTCCGCAAAGACG | 58.343 | 50.000 | 0.00 | 0.00 | 37.12 | 4.18 |
422 | 451 | 5.119588 | CGCGGAGAAGAAACAAATACTACAA | 59.880 | 40.000 | 0.00 | 0.00 | 0.00 | 2.41 |
424 | 453 | 4.624452 | ACGCGGAGAAGAAACAAATACTAC | 59.376 | 41.667 | 12.47 | 0.00 | 0.00 | 2.73 |
425 | 454 | 4.813027 | ACGCGGAGAAGAAACAAATACTA | 58.187 | 39.130 | 12.47 | 0.00 | 0.00 | 1.82 |
426 | 455 | 3.660865 | ACGCGGAGAAGAAACAAATACT | 58.339 | 40.909 | 12.47 | 0.00 | 0.00 | 2.12 |
458 | 490 | 7.760794 | CAGGCATGCACTTTATTTTCTTTATCA | 59.239 | 33.333 | 21.36 | 0.00 | 0.00 | 2.15 |
459 | 491 | 7.761249 | ACAGGCATGCACTTTATTTTCTTTATC | 59.239 | 33.333 | 21.36 | 0.00 | 0.00 | 1.75 |
460 | 492 | 7.546667 | CACAGGCATGCACTTTATTTTCTTTAT | 59.453 | 33.333 | 21.36 | 0.00 | 0.00 | 1.40 |
502 | 534 | 2.230130 | AACTCAGAGGGACAGAGAGG | 57.770 | 55.000 | 1.53 | 0.00 | 35.99 | 3.69 |
519 | 551 | 2.034179 | GCCAGTGTTGGTTGGAGTAAAC | 59.966 | 50.000 | 0.00 | 0.00 | 46.80 | 2.01 |
525 | 557 | 1.150536 | GGAGCCAGTGTTGGTTGGA | 59.849 | 57.895 | 0.00 | 0.00 | 46.80 | 3.53 |
597 | 629 | 3.903714 | TCCTGAGATGAAAGGTGACAGAA | 59.096 | 43.478 | 0.00 | 0.00 | 34.94 | 3.02 |
613 | 645 | 7.438757 | CAGAAATATTCAGACAGTGATCCTGAG | 59.561 | 40.741 | 15.51 | 7.19 | 44.49 | 3.35 |
622 | 654 | 6.299805 | TGGTAGCAGAAATATTCAGACAGT | 57.700 | 37.500 | 0.00 | 0.00 | 0.00 | 3.55 |
623 | 655 | 7.335422 | ACTTTGGTAGCAGAAATATTCAGACAG | 59.665 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
624 | 656 | 7.168219 | ACTTTGGTAGCAGAAATATTCAGACA | 58.832 | 34.615 | 0.00 | 0.00 | 0.00 | 3.41 |
625 | 657 | 7.617041 | ACTTTGGTAGCAGAAATATTCAGAC | 57.383 | 36.000 | 0.00 | 0.00 | 0.00 | 3.51 |
626 | 658 | 7.882791 | TCAACTTTGGTAGCAGAAATATTCAGA | 59.117 | 33.333 | 0.00 | 0.00 | 0.00 | 3.27 |
627 | 659 | 8.044060 | TCAACTTTGGTAGCAGAAATATTCAG | 57.956 | 34.615 | 0.00 | 0.00 | 0.00 | 3.02 |
633 | 669 | 7.054491 | ACAATTCAACTTTGGTAGCAGAAAT | 57.946 | 32.000 | 0.00 | 0.00 | 0.00 | 2.17 |
659 | 695 | 9.991906 | TGTAAAGAAATATTAATACGGAGGGAG | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 4.30 |
660 | 696 | 9.991906 | CTGTAAAGAAATATTAATACGGAGGGA | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 4.20 |
661 | 697 | 9.991906 | TCTGTAAAGAAATATTAATACGGAGGG | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 4.30 |
664 | 700 | 9.991906 | CCCTCTGTAAAGAAATATTAATACGGA | 57.008 | 33.333 | 0.00 | 0.79 | 0.00 | 4.69 |
665 | 701 | 9.991906 | TCCCTCTGTAAAGAAATATTAATACGG | 57.008 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
675 | 711 | 9.495382 | AGAGTAATACTCCCTCTGTAAAGAAAT | 57.505 | 33.333 | 16.12 | 0.00 | 46.18 | 2.17 |
676 | 712 | 8.750298 | CAGAGTAATACTCCCTCTGTAAAGAAA | 58.250 | 37.037 | 16.12 | 0.00 | 46.18 | 2.52 |
677 | 713 | 7.342284 | CCAGAGTAATACTCCCTCTGTAAAGAA | 59.658 | 40.741 | 16.12 | 0.00 | 46.18 | 2.52 |
678 | 714 | 6.834451 | CCAGAGTAATACTCCCTCTGTAAAGA | 59.166 | 42.308 | 16.12 | 0.00 | 46.18 | 2.52 |
679 | 715 | 6.041069 | CCCAGAGTAATACTCCCTCTGTAAAG | 59.959 | 46.154 | 16.12 | 0.00 | 46.18 | 1.85 |
680 | 716 | 5.897824 | CCCAGAGTAATACTCCCTCTGTAAA | 59.102 | 44.000 | 16.12 | 0.00 | 46.18 | 2.01 |
681 | 717 | 5.455872 | CCCAGAGTAATACTCCCTCTGTAA | 58.544 | 45.833 | 16.12 | 0.00 | 46.18 | 2.41 |
682 | 718 | 4.691935 | GCCCAGAGTAATACTCCCTCTGTA | 60.692 | 50.000 | 16.12 | 0.00 | 46.18 | 2.74 |
683 | 719 | 3.917300 | CCCAGAGTAATACTCCCTCTGT | 58.083 | 50.000 | 16.12 | 0.00 | 46.18 | 3.41 |
684 | 720 | 2.630580 | GCCCAGAGTAATACTCCCTCTG | 59.369 | 54.545 | 16.12 | 8.32 | 46.18 | 3.35 |
685 | 721 | 2.426561 | GGCCCAGAGTAATACTCCCTCT | 60.427 | 54.545 | 16.12 | 0.00 | 46.18 | 3.69 |
686 | 722 | 1.972075 | GGCCCAGAGTAATACTCCCTC | 59.028 | 57.143 | 16.12 | 4.36 | 46.18 | 4.30 |
687 | 723 | 1.414685 | GGGCCCAGAGTAATACTCCCT | 60.415 | 57.143 | 19.95 | 0.00 | 46.18 | 4.20 |
688 | 724 | 1.057471 | GGGCCCAGAGTAATACTCCC | 58.943 | 60.000 | 19.95 | 10.21 | 46.18 | 4.30 |
689 | 725 | 1.694696 | CAGGGCCCAGAGTAATACTCC | 59.305 | 57.143 | 27.56 | 1.93 | 46.18 | 3.85 |
690 | 726 | 2.679082 | TCAGGGCCCAGAGTAATACTC | 58.321 | 52.381 | 27.56 | 12.26 | 45.38 | 2.59 |
691 | 727 | 2.868964 | TCAGGGCCCAGAGTAATACT | 57.131 | 50.000 | 27.56 | 0.00 | 0.00 | 2.12 |
692 | 728 | 5.562298 | TTTATCAGGGCCCAGAGTAATAC | 57.438 | 43.478 | 27.56 | 0.00 | 0.00 | 1.89 |
693 | 729 | 5.849475 | TCATTTATCAGGGCCCAGAGTAATA | 59.151 | 40.000 | 27.56 | 7.93 | 0.00 | 0.98 |
694 | 730 | 4.665009 | TCATTTATCAGGGCCCAGAGTAAT | 59.335 | 41.667 | 27.56 | 20.54 | 0.00 | 1.89 |
697 | 733 | 2.492025 | TCATTTATCAGGGCCCAGAGT | 58.508 | 47.619 | 27.56 | 13.88 | 0.00 | 3.24 |
703 | 739 | 4.758688 | CAAAGGTTTCATTTATCAGGGCC | 58.241 | 43.478 | 0.00 | 0.00 | 0.00 | 5.80 |
726 | 762 | 1.538512 | CAAAGTCCAGCACCATCACAG | 59.461 | 52.381 | 0.00 | 0.00 | 0.00 | 3.66 |
728 | 764 | 1.267806 | CACAAAGTCCAGCACCATCAC | 59.732 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
765 | 801 | 6.148480 | AGTGAGCAAATTGAACACTATCAGTC | 59.852 | 38.462 | 18.23 | 0.00 | 39.52 | 3.51 |
773 | 809 | 4.285292 | CAGTGAGTGAGCAAATTGAACAC | 58.715 | 43.478 | 12.41 | 12.41 | 0.00 | 3.32 |
829 | 865 | 7.949690 | TTTCCTTCAGATGAAATGATGATGT | 57.050 | 32.000 | 0.00 | 0.00 | 33.07 | 3.06 |
841 | 877 | 3.264947 | TCGCTCACATTTCCTTCAGATG | 58.735 | 45.455 | 0.00 | 0.00 | 0.00 | 2.90 |
942 | 981 | 6.660949 | AGGAGCTATAAAAAGAAACACATGCT | 59.339 | 34.615 | 0.00 | 0.00 | 0.00 | 3.79 |
943 | 982 | 6.856895 | AGGAGCTATAAAAAGAAACACATGC | 58.143 | 36.000 | 0.00 | 0.00 | 0.00 | 4.06 |
1047 | 1086 | 1.067669 | TCCTCATCGCTCCAAGAATCG | 59.932 | 52.381 | 0.00 | 0.00 | 0.00 | 3.34 |
1161 | 1200 | 5.492565 | TTATCTACTAACCAGGGGAGGAA | 57.507 | 43.478 | 0.00 | 0.00 | 0.00 | 3.36 |
1198 | 1252 | 4.323417 | CAGGAGTATTTACAGCACCACAA | 58.677 | 43.478 | 0.00 | 0.00 | 0.00 | 3.33 |
1200 | 1254 | 2.678336 | GCAGGAGTATTTACAGCACCAC | 59.322 | 50.000 | 0.00 | 0.00 | 0.00 | 4.16 |
1223 | 1277 | 7.396540 | AGGAATAACAACATGAATTCAGACC | 57.603 | 36.000 | 14.54 | 5.06 | 30.54 | 3.85 |
1299 | 1363 | 7.929785 | AGTGTCTAAAACGACTGGATTAAGAAA | 59.070 | 33.333 | 0.00 | 0.00 | 35.00 | 2.52 |
1300 | 1364 | 7.439381 | AGTGTCTAAAACGACTGGATTAAGAA | 58.561 | 34.615 | 0.00 | 0.00 | 35.00 | 2.52 |
1336 | 1400 | 5.804944 | AGAGACTTATCAGCTATGTGCAT | 57.195 | 39.130 | 0.00 | 0.00 | 45.94 | 3.96 |
1433 | 1497 | 5.407407 | AATACCTAGTCTCACACAACCAG | 57.593 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
1444 | 1518 | 7.849904 | TCAGAAAGGGGAAATAATACCTAGTCT | 59.150 | 37.037 | 0.00 | 0.00 | 31.41 | 3.24 |
1835 | 1916 | 4.490706 | ACCCTGGTTGATAGGTAGGTATC | 58.509 | 47.826 | 0.00 | 0.00 | 33.31 | 2.24 |
1836 | 1917 | 4.571366 | ACCCTGGTTGATAGGTAGGTAT | 57.429 | 45.455 | 0.00 | 0.00 | 33.31 | 2.73 |
1871 | 1952 | 2.372172 | ACTCCTGTCAGGAAAACCGAAT | 59.628 | 45.455 | 22.08 | 0.00 | 45.28 | 3.34 |
1878 | 1959 | 4.223953 | AGACTTGTACTCCTGTCAGGAAA | 58.776 | 43.478 | 22.08 | 12.46 | 45.28 | 3.13 |
2082 | 2167 | 2.963432 | ACTGCAAATGCTAAACATGGC | 58.037 | 42.857 | 6.97 | 0.00 | 39.60 | 4.40 |
2084 | 2169 | 4.858692 | GTGGTACTGCAAATGCTAAACATG | 59.141 | 41.667 | 6.97 | 0.00 | 39.60 | 3.21 |
2183 | 2276 | 5.163488 | CCCGGGGAACTATTTTCCATTTTAC | 60.163 | 44.000 | 14.71 | 0.00 | 40.32 | 2.01 |
2188 | 2281 | 2.210644 | TCCCGGGGAACTATTTTCCAT | 58.789 | 47.619 | 23.50 | 0.00 | 40.32 | 3.41 |
2224 | 2317 | 5.649831 | ACTGATTCTTCAAATAAGGAGGTGC | 59.350 | 40.000 | 0.00 | 0.00 | 0.00 | 5.01 |
2231 | 2324 | 9.635520 | ATTTGCAAGACTGATTCTTCAAATAAG | 57.364 | 29.630 | 14.73 | 0.00 | 43.23 | 1.73 |
2304 | 2404 | 7.609146 | AGCAGTGAATGACAAGAAGATGAATAA | 59.391 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
2311 | 2411 | 5.858381 | AGTAAGCAGTGAATGACAAGAAGA | 58.142 | 37.500 | 0.00 | 0.00 | 0.00 | 2.87 |
2466 | 2570 | 8.997323 | GCAGCACTATAATCTTCATAAATGTCT | 58.003 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
2637 | 3146 | 4.507756 | GTGTTTTGGTCATTCAAAAGCTCC | 59.492 | 41.667 | 3.40 | 0.00 | 44.22 | 4.70 |
2671 | 3180 | 5.817296 | TGTTATGATTGCAGTCCTGATGTAC | 59.183 | 40.000 | 6.77 | 0.00 | 0.00 | 2.90 |
2688 | 3197 | 7.907841 | TTTAGTAGGTCCAGCTATGTTATGA | 57.092 | 36.000 | 0.00 | 0.00 | 0.00 | 2.15 |
2722 | 3231 | 3.587061 | TGTTCTGGTGGACTGATAACCAT | 59.413 | 43.478 | 0.00 | 0.00 | 42.89 | 3.55 |
2810 | 3319 | 4.989044 | ACACTTACAAAGTTTTGGGAACG | 58.011 | 39.130 | 9.22 | 0.00 | 40.46 | 3.95 |
2840 | 3349 | 7.777910 | TGTTCTAGGTTTCCAAAAGATTCTTCA | 59.222 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
2986 | 3495 | 4.617595 | AACCCCAGCCCTCCCAGT | 62.618 | 66.667 | 0.00 | 0.00 | 0.00 | 4.00 |
3110 | 3619 | 4.993705 | TGTACAGACAGGGGAAAGAAAT | 57.006 | 40.909 | 0.00 | 0.00 | 0.00 | 2.17 |
3234 | 3774 | 6.762333 | TGTTGATCTCTTTCAGAATCTGACA | 58.238 | 36.000 | 13.17 | 5.63 | 40.46 | 3.58 |
3310 | 3850 | 3.366374 | GGCTTTGTTCTACATGGCTGTTC | 60.366 | 47.826 | 0.00 | 0.00 | 36.79 | 3.18 |
3347 | 3887 | 3.885521 | GCTTCCATGCGAGCTGCC | 61.886 | 66.667 | 10.31 | 0.00 | 45.60 | 4.85 |
3465 | 4010 | 5.110814 | TGTCCCATCCTGTACAAAATAGG | 57.889 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
3566 | 4112 | 7.301054 | CAGAAGATCCATAACAGTTTGTTCAC | 58.699 | 38.462 | 0.00 | 0.00 | 40.22 | 3.18 |
3606 | 4153 | 2.275134 | TCTCATGCTGCTTTGGAACA | 57.725 | 45.000 | 0.00 | 0.00 | 0.00 | 3.18 |
3655 | 4202 | 9.750125 | CACACTATATGAACAACTATAGCTGAA | 57.250 | 33.333 | 10.11 | 0.00 | 33.20 | 3.02 |
3656 | 4203 | 9.131791 | TCACACTATATGAACAACTATAGCTGA | 57.868 | 33.333 | 10.11 | 0.00 | 33.20 | 4.26 |
3657 | 4204 | 9.404348 | CTCACACTATATGAACAACTATAGCTG | 57.596 | 37.037 | 0.00 | 0.00 | 33.20 | 4.24 |
3658 | 4205 | 8.580720 | CCTCACACTATATGAACAACTATAGCT | 58.419 | 37.037 | 0.00 | 0.00 | 33.20 | 3.32 |
3659 | 4206 | 7.329717 | GCCTCACACTATATGAACAACTATAGC | 59.670 | 40.741 | 0.00 | 0.00 | 33.20 | 2.97 |
3660 | 4207 | 8.360390 | TGCCTCACACTATATGAACAACTATAG | 58.640 | 37.037 | 0.00 | 0.00 | 35.15 | 1.31 |
3661 | 4208 | 8.141909 | GTGCCTCACACTATATGAACAACTATA | 58.858 | 37.037 | 0.00 | 0.00 | 46.41 | 1.31 |
3662 | 4209 | 6.986817 | GTGCCTCACACTATATGAACAACTAT | 59.013 | 38.462 | 0.00 | 0.00 | 46.41 | 2.12 |
3663 | 4210 | 6.338146 | GTGCCTCACACTATATGAACAACTA | 58.662 | 40.000 | 0.00 | 0.00 | 46.41 | 2.24 |
3664 | 4211 | 5.178797 | GTGCCTCACACTATATGAACAACT | 58.821 | 41.667 | 0.00 | 0.00 | 46.41 | 3.16 |
3665 | 4212 | 5.470845 | GTGCCTCACACTATATGAACAAC | 57.529 | 43.478 | 0.00 | 0.00 | 46.41 | 3.32 |
3717 | 4274 | 9.546909 | GCATTATCGATCAAACAATATAAGTGG | 57.453 | 33.333 | 0.00 | 0.00 | 0.00 | 4.00 |
3756 | 4315 | 7.509141 | TTGCACTGAACAAAGATAAGAATCA | 57.491 | 32.000 | 0.00 | 0.00 | 34.28 | 2.57 |
3787 | 4346 | 2.224523 | TGAGAATCGGAAACTGCAACCT | 60.225 | 45.455 | 0.00 | 0.00 | 38.61 | 3.50 |
3788 | 4347 | 2.151202 | TGAGAATCGGAAACTGCAACC | 58.849 | 47.619 | 0.00 | 0.00 | 38.61 | 3.77 |
3803 | 4362 | 1.661463 | ATGAGAGGGGTTGCTGAGAA | 58.339 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
3809 | 4368 | 0.036388 | TCACGAATGAGAGGGGTTGC | 60.036 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
3842 | 4401 | 7.951530 | AAGGTGAAATTACATTGCTCAAAAG | 57.048 | 32.000 | 0.00 | 0.00 | 0.00 | 2.27 |
3986 | 4550 | 5.538053 | TCCATAGAGCTAACAGATTCAGGAG | 59.462 | 44.000 | 0.00 | 0.00 | 0.00 | 3.69 |
4106 | 4670 | 2.313172 | CGTGCTAGCATCATCGGCC | 61.313 | 63.158 | 22.51 | 4.04 | 0.00 | 6.13 |
4119 | 4683 | 4.261801 | ACAGATATTTGCTTTACCGTGCT | 58.738 | 39.130 | 0.00 | 0.00 | 0.00 | 4.40 |
4146 | 4710 | 1.625818 | ACCACTAGGAACTGCAGGAAG | 59.374 | 52.381 | 19.93 | 9.76 | 41.52 | 3.46 |
4156 | 4720 | 2.500098 | GACTATGTGGCACCACTAGGAA | 59.500 | 50.000 | 20.02 | 0.32 | 46.30 | 3.36 |
4267 | 4831 | 1.470285 | GCTACGTTCAATGCCGACCTA | 60.470 | 52.381 | 0.00 | 0.00 | 0.00 | 3.08 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.