Multiple sequence alignment - TraesCS7A01G385700
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 | TraesCS7A01G385700 | chr7A | 100.000 | 2579 | 0 | 0 | 1 | 2579 | 561701858 | 561704436 | 0.000000e+00 | 4763 |
1 | TraesCS7A01G385700 | chr7A | 86.029 | 544 | 69 | 4 | 156 | 694 | 305530272 | 305530813 | 6.190000e-161 | 577 |
2 | TraesCS7A01G385700 | chr7A | 85.688 | 545 | 74 | 3 | 154 | 695 | 269096284 | 269096827 | 2.880000e-159 | 571 |
3 | TraesCS7A01G385700 | chr7A | 85.688 | 545 | 72 | 4 | 154 | 695 | 496821080 | 496821621 | 1.040000e-158 | 569 |
4 | TraesCS7A01G385700 | chr7A | 76.866 | 402 | 56 | 19 | 1 | 368 | 709417368 | 709417766 | 2.620000e-45 | 193 |
5 | TraesCS7A01G385700 | chr7A | 80.000 | 175 | 35 | 0 | 525 | 699 | 644038495 | 644038321 | 2.080000e-26 | 130 |
6 | TraesCS7A01G385700 | chr7B | 94.035 | 1710 | 79 | 11 | 795 | 2494 | 524515641 | 524517337 | 0.000000e+00 | 2571 |
7 | TraesCS7A01G385700 | chr7B | 76.884 | 398 | 57 | 17 | 4 | 368 | 692827087 | 692827482 | 2.620000e-45 | 193 |
8 | TraesCS7A01G385700 | chr7B | 76.559 | 401 | 59 | 18 | 1 | 368 | 226424104 | 226424502 | 1.220000e-43 | 187 |
9 | TraesCS7A01G385700 | chr7D | 92.776 | 1758 | 82 | 17 | 795 | 2519 | 496094371 | 496096116 | 0.000000e+00 | 2501 |
10 | TraesCS7A01G385700 | chr2A | 84.294 | 694 | 90 | 7 | 6 | 695 | 760426817 | 760426139 | 0.000000e+00 | 660 |
11 | TraesCS7A01G385700 | chr2A | 75.735 | 272 | 48 | 12 | 7 | 271 | 685754671 | 685754411 | 1.250000e-23 | 121 |
12 | TraesCS7A01G385700 | chr1A | 85.748 | 428 | 48 | 6 | 273 | 695 | 570116544 | 570116125 | 8.470000e-120 | 440 |
13 | TraesCS7A01G385700 | chr1A | 83.617 | 470 | 65 | 7 | 232 | 697 | 254989109 | 254988648 | 5.100000e-117 | 431 |
14 | TraesCS7A01G385700 | chr1A | 85.926 | 135 | 17 | 2 | 1 | 135 | 32854724 | 32854592 | 2.680000e-30 | 143 |
15 | TraesCS7A01G385700 | chr3A | 79.365 | 504 | 51 | 27 | 1 | 470 | 705255658 | 705255174 | 3.220000e-79 | 305 |
16 | TraesCS7A01G385700 | chr3A | 77.273 | 396 | 54 | 17 | 7 | 368 | 617439324 | 617439717 | 1.570000e-47 | 200 |
17 | TraesCS7A01G385700 | chr3B | 77.556 | 401 | 55 | 20 | 1 | 368 | 77702620 | 77703018 | 2.600000e-50 | 209 |
18 | TraesCS7A01G385700 | chr5A | 76.309 | 401 | 60 | 17 | 1 | 368 | 33170580 | 33170978 | 5.670000e-42 | 182 |
19 | TraesCS7A01G385700 | chr5B | 77.301 | 326 | 57 | 11 | 382 | 695 | 375425315 | 375424995 | 2.640000e-40 | 176 |
20 | TraesCS7A01G385700 | chr6A | 76.825 | 315 | 54 | 17 | 393 | 696 | 184738037 | 184738343 | 2.660000e-35 | 159 |
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 | TraesCS7A01G385700 | chr7A | 561701858 | 561704436 | 2578 | False | 4763 | 4763 | 100.000 | 1 | 2579 | 1 | chr7A.!!$F4 | 2578 |
1 | TraesCS7A01G385700 | chr7A | 305530272 | 305530813 | 541 | False | 577 | 577 | 86.029 | 156 | 694 | 1 | chr7A.!!$F2 | 538 |
2 | TraesCS7A01G385700 | chr7A | 269096284 | 269096827 | 543 | False | 571 | 571 | 85.688 | 154 | 695 | 1 | chr7A.!!$F1 | 541 |
3 | TraesCS7A01G385700 | chr7A | 496821080 | 496821621 | 541 | False | 569 | 569 | 85.688 | 154 | 695 | 1 | chr7A.!!$F3 | 541 |
4 | TraesCS7A01G385700 | chr7B | 524515641 | 524517337 | 1696 | False | 2571 | 2571 | 94.035 | 795 | 2494 | 1 | chr7B.!!$F2 | 1699 |
5 | TraesCS7A01G385700 | chr7D | 496094371 | 496096116 | 1745 | False | 2501 | 2501 | 92.776 | 795 | 2519 | 1 | chr7D.!!$F1 | 1724 |
6 | TraesCS7A01G385700 | chr2A | 760426139 | 760426817 | 678 | True | 660 | 660 | 84.294 | 6 | 695 | 1 | chr2A.!!$R2 | 689 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
34 | 35 | 0.253044 | TGCAGAGCCCAGAATACCAC | 59.747 | 55.0 | 0.0 | 0.0 | 0.0 | 4.16 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1613 | 1619 | 0.106066 | TCCCTTATCTTACCCGCCGA | 60.106 | 55.0 | 0.0 | 0.0 | 0.0 | 5.54 | 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 |
---|---|---|---|---|---|---|---|---|---|
26 | 27 | 2.634815 | ATTAGTCATGCAGAGCCCAG | 57.365 | 50.000 | 0.00 | 0.00 | 0.00 | 4.45 |
30 | 31 | 2.121948 | AGTCATGCAGAGCCCAGAATA | 58.878 | 47.619 | 0.00 | 0.00 | 0.00 | 1.75 |
33 | 34 | 1.134007 | CATGCAGAGCCCAGAATACCA | 60.134 | 52.381 | 0.00 | 0.00 | 0.00 | 3.25 |
34 | 35 | 0.253044 | TGCAGAGCCCAGAATACCAC | 59.747 | 55.000 | 0.00 | 0.00 | 0.00 | 4.16 |
83 | 85 | 9.904198 | TGATTGATTTGTGATAGACCTTTGATA | 57.096 | 29.630 | 0.00 | 0.00 | 0.00 | 2.15 |
112 | 114 | 1.475682 | GGTGTACGTAGGGAGAACTGG | 59.524 | 57.143 | 0.00 | 0.00 | 0.00 | 4.00 |
135 | 137 | 3.706373 | GTCCTCGAAGGCCCAGCA | 61.706 | 66.667 | 0.00 | 0.00 | 34.61 | 4.41 |
136 | 138 | 2.927856 | TCCTCGAAGGCCCAGCAA | 60.928 | 61.111 | 0.00 | 0.00 | 34.61 | 3.91 |
142 | 144 | 0.962356 | CGAAGGCCCAGCAAGACAAT | 60.962 | 55.000 | 0.00 | 0.00 | 0.00 | 2.71 |
143 | 145 | 0.529378 | GAAGGCCCAGCAAGACAATG | 59.471 | 55.000 | 0.00 | 0.00 | 0.00 | 2.82 |
151 | 153 | 0.403271 | AGCAAGACAATGGCACCTCT | 59.597 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
152 | 154 | 1.630369 | AGCAAGACAATGGCACCTCTA | 59.370 | 47.619 | 0.00 | 0.00 | 0.00 | 2.43 |
162 | 164 | 2.261671 | CACCTCTAGCGCCACGTT | 59.738 | 61.111 | 2.29 | 0.00 | 0.00 | 3.99 |
167 | 169 | 2.579787 | CTAGCGCCACGTTCGAGG | 60.580 | 66.667 | 2.29 | 4.45 | 0.00 | 4.63 |
306 | 309 | 1.202627 | GCTCTGGATGTGGATGGAGTC | 60.203 | 57.143 | 0.00 | 0.00 | 0.00 | 3.36 |
307 | 310 | 2.396608 | CTCTGGATGTGGATGGAGTCT | 58.603 | 52.381 | 0.00 | 0.00 | 0.00 | 3.24 |
319 | 322 | 0.965866 | TGGAGTCTTCGCACTCGGAT | 60.966 | 55.000 | 0.00 | 0.00 | 43.43 | 4.18 |
320 | 323 | 1.022735 | GGAGTCTTCGCACTCGGATA | 58.977 | 55.000 | 0.00 | 0.00 | 43.43 | 2.59 |
334 | 337 | 1.522569 | GGATACAAGAGCGCCCTGT | 59.477 | 57.895 | 2.29 | 7.90 | 0.00 | 4.00 |
355 | 358 | 0.820226 | CTCCAGGCAGAAGACGATGA | 59.180 | 55.000 | 0.00 | 0.00 | 0.00 | 2.92 |
356 | 359 | 1.411977 | CTCCAGGCAGAAGACGATGAT | 59.588 | 52.381 | 0.00 | 0.00 | 0.00 | 2.45 |
357 | 360 | 2.625314 | CTCCAGGCAGAAGACGATGATA | 59.375 | 50.000 | 0.00 | 0.00 | 0.00 | 2.15 |
367 | 370 | 2.798680 | AGACGATGATAGCGACAACAC | 58.201 | 47.619 | 0.00 | 0.00 | 0.00 | 3.32 |
383 | 386 | 6.183360 | GCGACAACACTACATATAATATGCCC | 60.183 | 42.308 | 0.00 | 0.00 | 0.00 | 5.36 |
429 | 432 | 4.019411 | TGGATGCACCTCTGATTAGTTTCA | 60.019 | 41.667 | 0.00 | 0.00 | 39.86 | 2.69 |
473 | 478 | 4.530094 | TTGTTTCCTAATAGAATGCGCG | 57.470 | 40.909 | 0.00 | 0.00 | 0.00 | 6.86 |
485 | 491 | 4.928661 | AGAATGCGCGGTGATTATATTC | 57.071 | 40.909 | 8.83 | 2.93 | 0.00 | 1.75 |
494 | 500 | 6.755141 | GCGCGGTGATTATATTCTCCTAATTA | 59.245 | 38.462 | 8.83 | 0.00 | 0.00 | 1.40 |
505 | 511 | 0.903942 | TCCTAATTAACCGGGCGTGT | 59.096 | 50.000 | 6.32 | 0.00 | 0.00 | 4.49 |
506 | 512 | 1.278699 | TCCTAATTAACCGGGCGTGTT | 59.721 | 47.619 | 6.32 | 0.00 | 0.00 | 3.32 |
522 | 528 | 3.435327 | GCGTGTTATTTCATCTGTGGTGA | 59.565 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
523 | 529 | 4.094887 | GCGTGTTATTTCATCTGTGGTGAT | 59.905 | 41.667 | 0.00 | 0.00 | 0.00 | 3.06 |
531 | 537 | 4.842531 | TCATCTGTGGTGATGTATGGTT | 57.157 | 40.909 | 0.00 | 0.00 | 43.03 | 3.67 |
533 | 539 | 6.499106 | TCATCTGTGGTGATGTATGGTTAT | 57.501 | 37.500 | 0.00 | 0.00 | 43.03 | 1.89 |
581 | 587 | 8.903820 | ACACATAAAATGAGTTAGATTAAGGCC | 58.096 | 33.333 | 0.00 | 0.00 | 29.63 | 5.19 |
582 | 588 | 8.070171 | CACATAAAATGAGTTAGATTAAGGCCG | 58.930 | 37.037 | 0.00 | 0.00 | 0.00 | 6.13 |
584 | 590 | 4.772886 | AATGAGTTAGATTAAGGCCGGT | 57.227 | 40.909 | 1.90 | 0.00 | 0.00 | 5.28 |
586 | 592 | 3.101437 | TGAGTTAGATTAAGGCCGGTCA | 58.899 | 45.455 | 9.71 | 0.00 | 0.00 | 4.02 |
629 | 635 | 0.823356 | ATCATGCGGTGGTAATGGGC | 60.823 | 55.000 | 0.00 | 0.00 | 0.00 | 5.36 |
646 | 652 | 1.406180 | GGGCCTGTGTTTGTTTTACGT | 59.594 | 47.619 | 0.84 | 0.00 | 0.00 | 3.57 |
648 | 654 | 2.097791 | GGCCTGTGTTTGTTTTACGTGA | 59.902 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
650 | 656 | 4.023878 | GGCCTGTGTTTGTTTTACGTGATA | 60.024 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
651 | 657 | 5.335348 | GGCCTGTGTTTGTTTTACGTGATAT | 60.335 | 40.000 | 0.00 | 0.00 | 0.00 | 1.63 |
657 | 663 | 9.999009 | TGTGTTTGTTTTACGTGATATGTTTAA | 57.001 | 25.926 | 0.00 | 0.00 | 0.00 | 1.52 |
709 | 715 | 9.927668 | AGTAGTAGAGATTCGTCTAGTATTACC | 57.072 | 37.037 | 9.19 | 0.00 | 37.31 | 2.85 |
710 | 716 | 7.887996 | AGTAGAGATTCGTCTAGTATTACCG | 57.112 | 40.000 | 0.00 | 0.00 | 31.94 | 4.02 |
711 | 717 | 7.441017 | AGTAGAGATTCGTCTAGTATTACCGT | 58.559 | 38.462 | 0.00 | 0.00 | 31.94 | 4.83 |
712 | 718 | 8.580720 | AGTAGAGATTCGTCTAGTATTACCGTA | 58.419 | 37.037 | 0.00 | 0.00 | 31.94 | 4.02 |
713 | 719 | 7.887996 | AGAGATTCGTCTAGTATTACCGTAG | 57.112 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
714 | 720 | 7.665690 | AGAGATTCGTCTAGTATTACCGTAGA | 58.334 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
715 | 721 | 7.598493 | AGAGATTCGTCTAGTATTACCGTAGAC | 59.402 | 40.741 | 10.88 | 10.88 | 39.46 | 2.59 |
716 | 722 | 6.648725 | AGATTCGTCTAGTATTACCGTAGACC | 59.351 | 42.308 | 13.51 | 4.61 | 39.62 | 3.85 |
717 | 723 | 5.537300 | TCGTCTAGTATTACCGTAGACCT | 57.463 | 43.478 | 13.51 | 0.00 | 39.62 | 3.85 |
718 | 724 | 6.650427 | TCGTCTAGTATTACCGTAGACCTA | 57.350 | 41.667 | 13.51 | 4.50 | 39.62 | 3.08 |
719 | 725 | 7.050970 | TCGTCTAGTATTACCGTAGACCTAA | 57.949 | 40.000 | 13.51 | 2.86 | 39.62 | 2.69 |
720 | 726 | 7.671302 | TCGTCTAGTATTACCGTAGACCTAAT | 58.329 | 38.462 | 13.51 | 0.00 | 39.62 | 1.73 |
721 | 727 | 8.150945 | TCGTCTAGTATTACCGTAGACCTAATT | 58.849 | 37.037 | 13.51 | 0.00 | 39.62 | 1.40 |
722 | 728 | 8.778358 | CGTCTAGTATTACCGTAGACCTAATTT | 58.222 | 37.037 | 13.51 | 0.00 | 39.62 | 1.82 |
758 | 764 | 9.871238 | GAATAGTAGAGTTAAATGGACAGTTCA | 57.129 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
759 | 765 | 9.877178 | AATAGTAGAGTTAAATGGACAGTTCAG | 57.123 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
760 | 766 | 6.166982 | AGTAGAGTTAAATGGACAGTTCAGC | 58.833 | 40.000 | 0.00 | 0.00 | 0.00 | 4.26 |
761 | 767 | 4.327680 | AGAGTTAAATGGACAGTTCAGCC | 58.672 | 43.478 | 0.00 | 0.00 | 0.00 | 4.85 |
762 | 768 | 4.042187 | AGAGTTAAATGGACAGTTCAGCCT | 59.958 | 41.667 | 0.00 | 0.00 | 0.00 | 4.58 |
763 | 769 | 4.729868 | AGTTAAATGGACAGTTCAGCCTT | 58.270 | 39.130 | 0.00 | 0.00 | 0.00 | 4.35 |
764 | 770 | 5.140454 | AGTTAAATGGACAGTTCAGCCTTT | 58.860 | 37.500 | 0.00 | 0.00 | 0.00 | 3.11 |
765 | 771 | 5.598417 | AGTTAAATGGACAGTTCAGCCTTTT | 59.402 | 36.000 | 0.00 | 0.00 | 34.61 | 2.27 |
766 | 772 | 4.590850 | AAATGGACAGTTCAGCCTTTTC | 57.409 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
767 | 773 | 2.727123 | TGGACAGTTCAGCCTTTTCA | 57.273 | 45.000 | 0.00 | 0.00 | 0.00 | 2.69 |
768 | 774 | 3.011566 | TGGACAGTTCAGCCTTTTCAA | 57.988 | 42.857 | 0.00 | 0.00 | 0.00 | 2.69 |
769 | 775 | 2.687935 | TGGACAGTTCAGCCTTTTCAAC | 59.312 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
770 | 776 | 2.952310 | GGACAGTTCAGCCTTTTCAACT | 59.048 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
771 | 777 | 3.003793 | GGACAGTTCAGCCTTTTCAACTC | 59.996 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
772 | 778 | 3.879892 | GACAGTTCAGCCTTTTCAACTCT | 59.120 | 43.478 | 0.00 | 0.00 | 0.00 | 3.24 |
773 | 779 | 5.036117 | ACAGTTCAGCCTTTTCAACTCTA | 57.964 | 39.130 | 0.00 | 0.00 | 0.00 | 2.43 |
774 | 780 | 4.816925 | ACAGTTCAGCCTTTTCAACTCTAC | 59.183 | 41.667 | 0.00 | 0.00 | 0.00 | 2.59 |
775 | 781 | 4.816385 | CAGTTCAGCCTTTTCAACTCTACA | 59.184 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
776 | 782 | 5.049818 | CAGTTCAGCCTTTTCAACTCTACAG | 60.050 | 44.000 | 0.00 | 0.00 | 0.00 | 2.74 |
777 | 783 | 4.955811 | TCAGCCTTTTCAACTCTACAGA | 57.044 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
778 | 784 | 5.290493 | TCAGCCTTTTCAACTCTACAGAA | 57.710 | 39.130 | 0.00 | 0.00 | 0.00 | 3.02 |
779 | 785 | 5.869579 | TCAGCCTTTTCAACTCTACAGAAT | 58.130 | 37.500 | 0.00 | 0.00 | 0.00 | 2.40 |
780 | 786 | 6.299141 | TCAGCCTTTTCAACTCTACAGAATT | 58.701 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
781 | 787 | 6.772716 | TCAGCCTTTTCAACTCTACAGAATTT | 59.227 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
782 | 788 | 7.041098 | TCAGCCTTTTCAACTCTACAGAATTTC | 60.041 | 37.037 | 0.00 | 0.00 | 0.00 | 2.17 |
783 | 789 | 7.001073 | AGCCTTTTCAACTCTACAGAATTTCT | 58.999 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
784 | 790 | 8.157476 | AGCCTTTTCAACTCTACAGAATTTCTA | 58.843 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
785 | 791 | 8.231161 | GCCTTTTCAACTCTACAGAATTTCTAC | 58.769 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
786 | 792 | 8.436200 | CCTTTTCAACTCTACAGAATTTCTACG | 58.564 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
787 | 793 | 8.882415 | TTTTCAACTCTACAGAATTTCTACGT | 57.118 | 30.769 | 0.00 | 0.00 | 0.00 | 3.57 |
788 | 794 | 9.970395 | TTTTCAACTCTACAGAATTTCTACGTA | 57.030 | 29.630 | 0.00 | 0.00 | 0.00 | 3.57 |
789 | 795 | 9.970395 | TTTCAACTCTACAGAATTTCTACGTAA | 57.030 | 29.630 | 0.00 | 0.00 | 0.00 | 3.18 |
790 | 796 | 9.970395 | TTCAACTCTACAGAATTTCTACGTAAA | 57.030 | 29.630 | 0.00 | 0.00 | 0.00 | 2.01 |
791 | 797 | 9.970395 | TCAACTCTACAGAATTTCTACGTAAAA | 57.030 | 29.630 | 0.00 | 1.35 | 0.00 | 1.52 |
923 | 929 | 2.437359 | GCGCAGTTGATCAGCCCT | 60.437 | 61.111 | 0.30 | 0.00 | 0.00 | 5.19 |
1025 | 1031 | 3.368501 | CCTCCTCCTCCCCTCCCA | 61.369 | 72.222 | 0.00 | 0.00 | 0.00 | 4.37 |
1076 | 1082 | 3.851128 | GCCCCTACTCCTCCACGC | 61.851 | 72.222 | 0.00 | 0.00 | 0.00 | 5.34 |
1428 | 1434 | 2.757099 | TACGTCGGGGAGAAGGGC | 60.757 | 66.667 | 0.00 | 0.00 | 32.45 | 5.19 |
1613 | 1619 | 5.841237 | TGCCTAGGTTTCTTGATAGATAGCT | 59.159 | 40.000 | 11.31 | 0.00 | 41.20 | 3.32 |
1639 | 1645 | 3.323775 | GGGTAAGATAAGGGATGGGTGA | 58.676 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1654 | 1660 | 2.357075 | GGGTGACCGGAAAAGAAGATC | 58.643 | 52.381 | 9.46 | 0.00 | 43.64 | 2.75 |
1659 | 1665 | 2.866762 | GACCGGAAAAGAAGATCGATGG | 59.133 | 50.000 | 9.46 | 0.00 | 0.00 | 3.51 |
1741 | 1753 | 9.533253 | TTATCGTAGATGGATGCATGTATATTG | 57.467 | 33.333 | 2.46 | 0.00 | 45.12 | 1.90 |
1742 | 1754 | 6.935167 | TCGTAGATGGATGCATGTATATTGT | 58.065 | 36.000 | 2.46 | 0.00 | 0.00 | 2.71 |
1743 | 1755 | 8.062065 | TCGTAGATGGATGCATGTATATTGTA | 57.938 | 34.615 | 2.46 | 0.00 | 0.00 | 2.41 |
1744 | 1756 | 8.695456 | TCGTAGATGGATGCATGTATATTGTAT | 58.305 | 33.333 | 2.46 | 0.00 | 0.00 | 2.29 |
1786 | 1798 | 6.433093 | GGAGCTAAAGTTTTCACCCTGAATTA | 59.567 | 38.462 | 0.00 | 0.00 | 36.11 | 1.40 |
1806 | 1818 | 8.132362 | TGAATTACTGAACAATTTACACACCAC | 58.868 | 33.333 | 0.00 | 0.00 | 0.00 | 4.16 |
1827 | 1839 | 3.744426 | ACGGAACTCTGTTTCGTTAATGG | 59.256 | 43.478 | 10.53 | 0.00 | 29.59 | 3.16 |
1920 | 1938 | 6.713903 | AGTTGAAGATCATGATGTCAACAACT | 59.286 | 34.615 | 35.56 | 31.39 | 38.58 | 3.16 |
1922 | 1940 | 5.999600 | TGAAGATCATGATGTCAACAACTGT | 59.000 | 36.000 | 14.30 | 0.00 | 0.00 | 3.55 |
2026 | 2070 | 1.564818 | ACGGTGATCTCCCTACTGAGA | 59.435 | 52.381 | 8.22 | 0.00 | 45.01 | 3.27 |
2028 | 2072 | 3.024547 | CGGTGATCTCCCTACTGAGAAA | 58.975 | 50.000 | 8.22 | 0.00 | 44.16 | 2.52 |
2039 | 2083 | 5.721480 | TCCCTACTGAGAAATGACTGATCAA | 59.279 | 40.000 | 0.00 | 0.00 | 38.69 | 2.57 |
2089 | 2133 | 3.305813 | GGACCACGAGTTGATCTACACAA | 60.306 | 47.826 | 9.96 | 0.00 | 0.00 | 3.33 |
2164 | 2208 | 3.112709 | GACAAGGACTGCGCGACC | 61.113 | 66.667 | 12.10 | 7.16 | 0.00 | 4.79 |
2182 | 2226 | 2.766400 | CGAGGACGTGGAGAGGAGC | 61.766 | 68.421 | 0.00 | 0.00 | 34.56 | 4.70 |
2498 | 2542 | 3.489059 | CCATTGCCAAACATACATCGGTC | 60.489 | 47.826 | 0.00 | 0.00 | 0.00 | 4.79 |
2504 | 2548 | 3.546020 | CCAAACATACATCGGTCGCATTC | 60.546 | 47.826 | 0.00 | 0.00 | 0.00 | 2.67 |
2510 | 2554 | 1.227380 | ATCGGTCGCATTCTCAGGC | 60.227 | 57.895 | 0.00 | 0.00 | 0.00 | 4.85 |
2519 | 2563 | 2.641305 | GCATTCTCAGGCTCTGACAAT | 58.359 | 47.619 | 1.25 | 1.47 | 35.39 | 2.71 |
2520 | 2564 | 2.613133 | GCATTCTCAGGCTCTGACAATC | 59.387 | 50.000 | 1.25 | 0.00 | 35.39 | 2.67 |
2521 | 2565 | 3.682155 | GCATTCTCAGGCTCTGACAATCT | 60.682 | 47.826 | 1.25 | 0.00 | 35.39 | 2.40 |
2522 | 2566 | 3.606595 | TTCTCAGGCTCTGACAATCTG | 57.393 | 47.619 | 1.25 | 0.00 | 35.39 | 2.90 |
2523 | 2567 | 2.812658 | TCTCAGGCTCTGACAATCTGA | 58.187 | 47.619 | 1.25 | 0.00 | 35.39 | 3.27 |
2524 | 2568 | 2.495270 | TCTCAGGCTCTGACAATCTGAC | 59.505 | 50.000 | 1.25 | 0.00 | 35.39 | 3.51 |
2525 | 2569 | 2.496871 | CTCAGGCTCTGACAATCTGACT | 59.503 | 50.000 | 1.25 | 0.00 | 35.39 | 3.41 |
2526 | 2570 | 2.233186 | TCAGGCTCTGACAATCTGACTG | 59.767 | 50.000 | 1.25 | 0.00 | 35.39 | 3.51 |
2527 | 2571 | 2.233186 | CAGGCTCTGACAATCTGACTGA | 59.767 | 50.000 | 0.00 | 0.00 | 32.44 | 3.41 |
2528 | 2572 | 2.902486 | AGGCTCTGACAATCTGACTGAA | 59.098 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
2529 | 2573 | 3.055963 | AGGCTCTGACAATCTGACTGAAG | 60.056 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
2530 | 2574 | 3.056250 | GGCTCTGACAATCTGACTGAAGA | 60.056 | 47.826 | 0.00 | 0.00 | 0.00 | 2.87 |
2531 | 2575 | 4.562347 | GGCTCTGACAATCTGACTGAAGAA | 60.562 | 45.833 | 0.00 | 0.00 | 0.00 | 2.52 |
2532 | 2576 | 4.993584 | GCTCTGACAATCTGACTGAAGAAA | 59.006 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
2533 | 2577 | 5.642919 | GCTCTGACAATCTGACTGAAGAAAT | 59.357 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
2534 | 2578 | 6.815641 | GCTCTGACAATCTGACTGAAGAAATA | 59.184 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
2535 | 2579 | 7.201513 | GCTCTGACAATCTGACTGAAGAAATAC | 60.202 | 40.741 | 0.00 | 0.00 | 0.00 | 1.89 |
2536 | 2580 | 7.901029 | TCTGACAATCTGACTGAAGAAATACT | 58.099 | 34.615 | 0.00 | 0.00 | 0.00 | 2.12 |
2537 | 2581 | 8.031864 | TCTGACAATCTGACTGAAGAAATACTC | 58.968 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
2538 | 2582 | 7.901029 | TGACAATCTGACTGAAGAAATACTCT | 58.099 | 34.615 | 0.00 | 0.00 | 35.13 | 3.24 |
2539 | 2583 | 7.816513 | TGACAATCTGACTGAAGAAATACTCTG | 59.183 | 37.037 | 0.00 | 0.00 | 33.37 | 3.35 |
2540 | 2584 | 7.102346 | ACAATCTGACTGAAGAAATACTCTGG | 58.898 | 38.462 | 0.00 | 0.00 | 33.37 | 3.86 |
2541 | 2585 | 7.038729 | ACAATCTGACTGAAGAAATACTCTGGA | 60.039 | 37.037 | 0.00 | 0.00 | 33.37 | 3.86 |
2542 | 2586 | 6.918067 | TCTGACTGAAGAAATACTCTGGAA | 57.082 | 37.500 | 0.00 | 0.00 | 33.37 | 3.53 |
2543 | 2587 | 7.303182 | TCTGACTGAAGAAATACTCTGGAAA | 57.697 | 36.000 | 0.00 | 0.00 | 33.37 | 3.13 |
2544 | 2588 | 7.382110 | TCTGACTGAAGAAATACTCTGGAAAG | 58.618 | 38.462 | 0.00 | 0.00 | 33.37 | 2.62 |
2545 | 2589 | 7.015682 | TCTGACTGAAGAAATACTCTGGAAAGT | 59.984 | 37.037 | 0.00 | 0.00 | 33.37 | 2.66 |
2546 | 2590 | 6.931281 | TGACTGAAGAAATACTCTGGAAAGTG | 59.069 | 38.462 | 0.00 | 0.00 | 33.37 | 3.16 |
2547 | 2591 | 5.703130 | ACTGAAGAAATACTCTGGAAAGTGC | 59.297 | 40.000 | 0.00 | 0.00 | 33.37 | 4.40 |
2548 | 2592 | 5.620206 | TGAAGAAATACTCTGGAAAGTGCA | 58.380 | 37.500 | 0.00 | 0.00 | 33.37 | 4.57 |
2549 | 2593 | 5.470098 | TGAAGAAATACTCTGGAAAGTGCAC | 59.530 | 40.000 | 9.40 | 9.40 | 33.37 | 4.57 |
2550 | 2594 | 5.234466 | AGAAATACTCTGGAAAGTGCACT | 57.766 | 39.130 | 15.25 | 15.25 | 31.12 | 4.40 |
2551 | 2595 | 4.999950 | AGAAATACTCTGGAAAGTGCACTG | 59.000 | 41.667 | 22.49 | 7.53 | 31.12 | 3.66 |
2552 | 2596 | 4.623932 | AATACTCTGGAAAGTGCACTGA | 57.376 | 40.909 | 22.49 | 11.91 | 0.00 | 3.41 |
2553 | 2597 | 2.246719 | ACTCTGGAAAGTGCACTGAC | 57.753 | 50.000 | 22.49 | 16.81 | 0.00 | 3.51 |
2554 | 2598 | 1.486310 | ACTCTGGAAAGTGCACTGACA | 59.514 | 47.619 | 22.49 | 17.87 | 0.00 | 3.58 |
2555 | 2599 | 2.105477 | ACTCTGGAAAGTGCACTGACAT | 59.895 | 45.455 | 22.49 | 7.30 | 0.00 | 3.06 |
2556 | 2600 | 3.324846 | ACTCTGGAAAGTGCACTGACATA | 59.675 | 43.478 | 22.49 | 11.21 | 0.00 | 2.29 |
2557 | 2601 | 3.930336 | TCTGGAAAGTGCACTGACATAG | 58.070 | 45.455 | 22.49 | 17.22 | 0.00 | 2.23 |
2558 | 2602 | 2.417933 | CTGGAAAGTGCACTGACATAGC | 59.582 | 50.000 | 22.49 | 4.81 | 0.00 | 2.97 |
2559 | 2603 | 1.740025 | GGAAAGTGCACTGACATAGCC | 59.260 | 52.381 | 22.49 | 10.23 | 0.00 | 3.93 |
2560 | 2604 | 2.426522 | GAAAGTGCACTGACATAGCCA | 58.573 | 47.619 | 22.49 | 0.00 | 0.00 | 4.75 |
2561 | 2605 | 2.795231 | AAGTGCACTGACATAGCCAT | 57.205 | 45.000 | 22.49 | 0.00 | 0.00 | 4.40 |
2562 | 2606 | 2.795231 | AGTGCACTGACATAGCCATT | 57.205 | 45.000 | 20.97 | 0.00 | 0.00 | 3.16 |
2563 | 2607 | 3.077484 | AGTGCACTGACATAGCCATTT | 57.923 | 42.857 | 20.97 | 0.00 | 0.00 | 2.32 |
2564 | 2608 | 3.012518 | AGTGCACTGACATAGCCATTTC | 58.987 | 45.455 | 20.97 | 0.00 | 0.00 | 2.17 |
2565 | 2609 | 3.012518 | GTGCACTGACATAGCCATTTCT | 58.987 | 45.455 | 10.32 | 0.00 | 0.00 | 2.52 |
2566 | 2610 | 3.064545 | GTGCACTGACATAGCCATTTCTC | 59.935 | 47.826 | 10.32 | 0.00 | 0.00 | 2.87 |
2567 | 2611 | 3.054875 | TGCACTGACATAGCCATTTCTCT | 60.055 | 43.478 | 0.00 | 0.00 | 0.00 | 3.10 |
2568 | 2612 | 3.311871 | GCACTGACATAGCCATTTCTCTG | 59.688 | 47.826 | 0.00 | 0.00 | 0.00 | 3.35 |
2569 | 2613 | 4.763073 | CACTGACATAGCCATTTCTCTGA | 58.237 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
2570 | 2614 | 5.181009 | CACTGACATAGCCATTTCTCTGAA | 58.819 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
2571 | 2615 | 5.064452 | CACTGACATAGCCATTTCTCTGAAC | 59.936 | 44.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2572 | 2616 | 4.183865 | TGACATAGCCATTTCTCTGAACG | 58.816 | 43.478 | 0.00 | 0.00 | 0.00 | 3.95 |
2573 | 2617 | 4.081697 | TGACATAGCCATTTCTCTGAACGA | 60.082 | 41.667 | 0.00 | 0.00 | 0.00 | 3.85 |
2574 | 2618 | 5.028549 | ACATAGCCATTTCTCTGAACGAT | 57.971 | 39.130 | 0.00 | 0.00 | 0.00 | 3.73 |
2575 | 2619 | 5.431765 | ACATAGCCATTTCTCTGAACGATT | 58.568 | 37.500 | 0.00 | 0.00 | 0.00 | 3.34 |
2576 | 2620 | 5.882557 | ACATAGCCATTTCTCTGAACGATTT | 59.117 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
2577 | 2621 | 4.954092 | AGCCATTTCTCTGAACGATTTC | 57.046 | 40.909 | 0.00 | 0.00 | 0.00 | 2.17 |
2578 | 2622 | 4.583871 | AGCCATTTCTCTGAACGATTTCT | 58.416 | 39.130 | 0.00 | 0.00 | 32.36 | 2.52 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 5.409826 | GGGCTCTGCATGACTAATATTGTAC | 59.590 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1 | 2 | 5.071653 | TGGGCTCTGCATGACTAATATTGTA | 59.928 | 40.000 | 0.00 | 0.00 | 0.00 | 2.41 |
2 | 3 | 4.141413 | TGGGCTCTGCATGACTAATATTGT | 60.141 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
3 | 4 | 4.392047 | TGGGCTCTGCATGACTAATATTG | 58.608 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
4 | 5 | 4.349048 | TCTGGGCTCTGCATGACTAATATT | 59.651 | 41.667 | 0.00 | 0.00 | 0.00 | 1.28 |
16 | 17 | 0.464554 | GGTGGTATTCTGGGCTCTGC | 60.465 | 60.000 | 0.00 | 0.00 | 0.00 | 4.26 |
17 | 18 | 0.911769 | TGGTGGTATTCTGGGCTCTG | 59.088 | 55.000 | 0.00 | 0.00 | 0.00 | 3.35 |
19 | 20 | 2.507407 | TTTGGTGGTATTCTGGGCTC | 57.493 | 50.000 | 0.00 | 0.00 | 0.00 | 4.70 |
30 | 31 | 9.665719 | GGTGAATATTTAATTTGATTTGGTGGT | 57.334 | 29.630 | 0.00 | 0.00 | 0.00 | 4.16 |
65 | 67 | 5.163447 | CGAGGGTATCAAAGGTCTATCACAA | 60.163 | 44.000 | 0.00 | 0.00 | 0.00 | 3.33 |
67 | 69 | 4.583489 | TCGAGGGTATCAAAGGTCTATCAC | 59.417 | 45.833 | 0.00 | 0.00 | 0.00 | 3.06 |
104 | 106 | 3.701800 | AGGACCTCCTCCAGTTCTC | 57.298 | 57.895 | 0.00 | 0.00 | 44.77 | 2.87 |
126 | 128 | 1.304713 | CCATTGTCTTGCTGGGCCT | 60.305 | 57.895 | 4.53 | 0.00 | 0.00 | 5.19 |
135 | 137 | 1.406069 | CGCTAGAGGTGCCATTGTCTT | 60.406 | 52.381 | 0.00 | 0.00 | 0.00 | 3.01 |
136 | 138 | 0.176680 | CGCTAGAGGTGCCATTGTCT | 59.823 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
151 | 153 | 4.789075 | GCCTCGAACGTGGCGCTA | 62.789 | 66.667 | 20.91 | 0.00 | 43.44 | 4.26 |
174 | 176 | 2.687200 | CCATCGTCCCCAGGGTGA | 60.687 | 66.667 | 4.22 | 4.11 | 36.47 | 4.02 |
254 | 257 | 1.134694 | GTGTCGGCTTCATTTCCGC | 59.865 | 57.895 | 0.00 | 0.00 | 44.91 | 5.54 |
259 | 262 | 2.034879 | CGGCAGTGTCGGCTTCATT | 61.035 | 57.895 | 9.85 | 0.00 | 0.00 | 2.57 |
260 | 263 | 2.434884 | CGGCAGTGTCGGCTTCAT | 60.435 | 61.111 | 9.85 | 0.00 | 0.00 | 2.57 |
306 | 309 | 2.455032 | CTCTTGTATCCGAGTGCGAAG | 58.545 | 52.381 | 0.00 | 0.00 | 40.82 | 3.79 |
307 | 310 | 1.469251 | GCTCTTGTATCCGAGTGCGAA | 60.469 | 52.381 | 0.00 | 0.00 | 40.82 | 4.70 |
319 | 322 | 1.605058 | GAGGACAGGGCGCTCTTGTA | 61.605 | 60.000 | 7.32 | 0.00 | 0.00 | 2.41 |
320 | 323 | 2.925170 | AGGACAGGGCGCTCTTGT | 60.925 | 61.111 | 7.32 | 9.96 | 0.00 | 3.16 |
334 | 337 | 0.324738 | ATCGTCTTCTGCCTGGAGGA | 60.325 | 55.000 | 0.00 | 0.00 | 37.39 | 3.71 |
355 | 358 | 9.302345 | GCATATTATATGTAGTGTTGTCGCTAT | 57.698 | 33.333 | 13.03 | 0.00 | 38.63 | 2.97 |
356 | 359 | 7.758076 | GGCATATTATATGTAGTGTTGTCGCTA | 59.242 | 37.037 | 13.03 | 0.00 | 35.84 | 4.26 |
357 | 360 | 6.590292 | GGCATATTATATGTAGTGTTGTCGCT | 59.410 | 38.462 | 13.03 | 0.00 | 38.10 | 4.93 |
367 | 370 | 9.817809 | ACTAAATCACGGGCATATTATATGTAG | 57.182 | 33.333 | 13.03 | 7.76 | 0.00 | 2.74 |
429 | 432 | 4.888038 | TCACGCGCGTCCTATTATATAT | 57.112 | 40.909 | 35.61 | 3.05 | 0.00 | 0.86 |
473 | 478 | 9.379791 | CCGGTTAATTAGGAGAATATAATCACC | 57.620 | 37.037 | 0.00 | 0.00 | 0.00 | 4.02 |
485 | 491 | 1.134610 | ACACGCCCGGTTAATTAGGAG | 60.135 | 52.381 | 0.00 | 0.00 | 0.00 | 3.69 |
494 | 500 | 1.741145 | GATGAAATAACACGCCCGGTT | 59.259 | 47.619 | 0.00 | 0.00 | 0.00 | 4.44 |
505 | 511 | 7.345691 | ACCATACATCACCACAGATGAAATAA | 58.654 | 34.615 | 10.59 | 0.00 | 46.51 | 1.40 |
506 | 512 | 6.899089 | ACCATACATCACCACAGATGAAATA | 58.101 | 36.000 | 10.59 | 0.00 | 46.51 | 1.40 |
560 | 566 | 6.655930 | ACCGGCCTTAATCTAACTCATTTTA | 58.344 | 36.000 | 0.00 | 0.00 | 0.00 | 1.52 |
581 | 587 | 5.523916 | CCCACTAAACTCAATCTAATGACCG | 59.476 | 44.000 | 0.00 | 0.00 | 0.00 | 4.79 |
582 | 588 | 5.297029 | GCCCACTAAACTCAATCTAATGACC | 59.703 | 44.000 | 0.00 | 0.00 | 0.00 | 4.02 |
584 | 590 | 5.191722 | AGGCCCACTAAACTCAATCTAATGA | 59.808 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
586 | 592 | 5.717119 | AGGCCCACTAAACTCAATCTAAT | 57.283 | 39.130 | 0.00 | 0.00 | 0.00 | 1.73 |
629 | 635 | 6.664515 | ACATATCACGTAAAACAAACACAGG | 58.335 | 36.000 | 0.00 | 0.00 | 0.00 | 4.00 |
695 | 701 | 5.537300 | AGGTCTACGGTAATACTAGACGA | 57.463 | 43.478 | 11.33 | 0.00 | 38.08 | 4.20 |
696 | 702 | 7.897575 | ATTAGGTCTACGGTAATACTAGACG | 57.102 | 40.000 | 11.33 | 1.00 | 38.08 | 4.18 |
732 | 738 | 9.871238 | TGAACTGTCCATTTAACTCTACTATTC | 57.129 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
733 | 739 | 9.877178 | CTGAACTGTCCATTTAACTCTACTATT | 57.123 | 33.333 | 0.00 | 0.00 | 0.00 | 1.73 |
734 | 740 | 7.982354 | GCTGAACTGTCCATTTAACTCTACTAT | 59.018 | 37.037 | 0.00 | 0.00 | 0.00 | 2.12 |
735 | 741 | 7.321153 | GCTGAACTGTCCATTTAACTCTACTA | 58.679 | 38.462 | 0.00 | 0.00 | 0.00 | 1.82 |
736 | 742 | 6.166982 | GCTGAACTGTCCATTTAACTCTACT | 58.833 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
737 | 743 | 5.351740 | GGCTGAACTGTCCATTTAACTCTAC | 59.648 | 44.000 | 0.00 | 0.00 | 0.00 | 2.59 |
738 | 744 | 5.248477 | AGGCTGAACTGTCCATTTAACTCTA | 59.752 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
739 | 745 | 4.042187 | AGGCTGAACTGTCCATTTAACTCT | 59.958 | 41.667 | 0.00 | 0.00 | 0.00 | 3.24 |
740 | 746 | 4.327680 | AGGCTGAACTGTCCATTTAACTC | 58.672 | 43.478 | 0.00 | 0.00 | 0.00 | 3.01 |
741 | 747 | 4.373156 | AGGCTGAACTGTCCATTTAACT | 57.627 | 40.909 | 0.00 | 0.00 | 0.00 | 2.24 |
742 | 748 | 5.453567 | AAAGGCTGAACTGTCCATTTAAC | 57.546 | 39.130 | 0.00 | 0.00 | 0.00 | 2.01 |
743 | 749 | 5.596361 | TGAAAAGGCTGAACTGTCCATTTAA | 59.404 | 36.000 | 0.00 | 0.00 | 0.00 | 1.52 |
744 | 750 | 5.136828 | TGAAAAGGCTGAACTGTCCATTTA | 58.863 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
745 | 751 | 3.960102 | TGAAAAGGCTGAACTGTCCATTT | 59.040 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
746 | 752 | 3.565307 | TGAAAAGGCTGAACTGTCCATT | 58.435 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
747 | 753 | 3.228188 | TGAAAAGGCTGAACTGTCCAT | 57.772 | 42.857 | 0.00 | 0.00 | 0.00 | 3.41 |
748 | 754 | 2.687935 | GTTGAAAAGGCTGAACTGTCCA | 59.312 | 45.455 | 0.00 | 0.00 | 0.00 | 4.02 |
749 | 755 | 2.952310 | AGTTGAAAAGGCTGAACTGTCC | 59.048 | 45.455 | 0.00 | 0.00 | 0.00 | 4.02 |
750 | 756 | 3.879892 | AGAGTTGAAAAGGCTGAACTGTC | 59.120 | 43.478 | 6.29 | 0.00 | 0.00 | 3.51 |
751 | 757 | 3.891049 | AGAGTTGAAAAGGCTGAACTGT | 58.109 | 40.909 | 6.29 | 1.03 | 0.00 | 3.55 |
752 | 758 | 4.816385 | TGTAGAGTTGAAAAGGCTGAACTG | 59.184 | 41.667 | 6.29 | 0.00 | 0.00 | 3.16 |
753 | 759 | 5.036117 | TGTAGAGTTGAAAAGGCTGAACT | 57.964 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
754 | 760 | 5.057149 | TCTGTAGAGTTGAAAAGGCTGAAC | 58.943 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
755 | 761 | 5.290493 | TCTGTAGAGTTGAAAAGGCTGAA | 57.710 | 39.130 | 0.00 | 0.00 | 0.00 | 3.02 |
756 | 762 | 4.955811 | TCTGTAGAGTTGAAAAGGCTGA | 57.044 | 40.909 | 0.00 | 0.00 | 0.00 | 4.26 |
757 | 763 | 6.566197 | AATTCTGTAGAGTTGAAAAGGCTG | 57.434 | 37.500 | 0.00 | 0.00 | 0.00 | 4.85 |
758 | 764 | 7.001073 | AGAAATTCTGTAGAGTTGAAAAGGCT | 58.999 | 34.615 | 0.00 | 0.00 | 0.00 | 4.58 |
759 | 765 | 7.208225 | AGAAATTCTGTAGAGTTGAAAAGGC | 57.792 | 36.000 | 0.00 | 0.00 | 0.00 | 4.35 |
760 | 766 | 8.436200 | CGTAGAAATTCTGTAGAGTTGAAAAGG | 58.564 | 37.037 | 5.64 | 0.00 | 0.00 | 3.11 |
761 | 767 | 8.979574 | ACGTAGAAATTCTGTAGAGTTGAAAAG | 58.020 | 33.333 | 5.64 | 0.00 | 0.00 | 2.27 |
762 | 768 | 8.882415 | ACGTAGAAATTCTGTAGAGTTGAAAA | 57.118 | 30.769 | 5.64 | 0.00 | 0.00 | 2.29 |
763 | 769 | 9.970395 | TTACGTAGAAATTCTGTAGAGTTGAAA | 57.030 | 29.630 | 5.64 | 0.00 | 0.00 | 2.69 |
764 | 770 | 9.970395 | TTTACGTAGAAATTCTGTAGAGTTGAA | 57.030 | 29.630 | 5.64 | 0.00 | 0.00 | 2.69 |
765 | 771 | 9.970395 | TTTTACGTAGAAATTCTGTAGAGTTGA | 57.030 | 29.630 | 5.64 | 0.00 | 0.00 | 3.18 |
768 | 774 | 9.754382 | TGTTTTTACGTAGAAATTCTGTAGAGT | 57.246 | 29.630 | 13.65 | 1.57 | 0.00 | 3.24 |
773 | 779 | 8.340443 | GGAGTTGTTTTTACGTAGAAATTCTGT | 58.660 | 33.333 | 13.65 | 0.00 | 0.00 | 3.41 |
774 | 780 | 8.339714 | TGGAGTTGTTTTTACGTAGAAATTCTG | 58.660 | 33.333 | 13.65 | 0.00 | 0.00 | 3.02 |
775 | 781 | 8.340443 | GTGGAGTTGTTTTTACGTAGAAATTCT | 58.660 | 33.333 | 13.65 | 11.75 | 0.00 | 2.40 |
776 | 782 | 8.124199 | TGTGGAGTTGTTTTTACGTAGAAATTC | 58.876 | 33.333 | 13.65 | 9.50 | 0.00 | 2.17 |
777 | 783 | 7.987649 | TGTGGAGTTGTTTTTACGTAGAAATT | 58.012 | 30.769 | 13.65 | 2.14 | 0.00 | 1.82 |
778 | 784 | 7.496591 | TCTGTGGAGTTGTTTTTACGTAGAAAT | 59.503 | 33.333 | 13.65 | 0.00 | 0.00 | 2.17 |
779 | 785 | 6.817641 | TCTGTGGAGTTGTTTTTACGTAGAAA | 59.182 | 34.615 | 7.16 | 7.16 | 0.00 | 2.52 |
780 | 786 | 6.339730 | TCTGTGGAGTTGTTTTTACGTAGAA | 58.660 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
781 | 787 | 5.904941 | TCTGTGGAGTTGTTTTTACGTAGA | 58.095 | 37.500 | 0.00 | 0.00 | 0.00 | 2.59 |
782 | 788 | 6.592798 | TTCTGTGGAGTTGTTTTTACGTAG | 57.407 | 37.500 | 0.00 | 0.00 | 0.00 | 3.51 |
783 | 789 | 7.556733 | AATTCTGTGGAGTTGTTTTTACGTA | 57.443 | 32.000 | 0.00 | 0.00 | 0.00 | 3.57 |
784 | 790 | 6.445357 | AATTCTGTGGAGTTGTTTTTACGT | 57.555 | 33.333 | 0.00 | 0.00 | 0.00 | 3.57 |
785 | 791 | 7.193595 | AGAAATTCTGTGGAGTTGTTTTTACG | 58.806 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
788 | 794 | 9.533253 | CAATAGAAATTCTGTGGAGTTGTTTTT | 57.467 | 29.630 | 5.64 | 0.00 | 0.00 | 1.94 |
789 | 795 | 8.143835 | CCAATAGAAATTCTGTGGAGTTGTTTT | 58.856 | 33.333 | 17.63 | 0.00 | 35.95 | 2.43 |
790 | 796 | 7.255942 | CCCAATAGAAATTCTGTGGAGTTGTTT | 60.256 | 37.037 | 21.85 | 0.00 | 35.95 | 2.83 |
791 | 797 | 6.209391 | CCCAATAGAAATTCTGTGGAGTTGTT | 59.791 | 38.462 | 21.85 | 0.00 | 35.95 | 2.83 |
792 | 798 | 5.711976 | CCCAATAGAAATTCTGTGGAGTTGT | 59.288 | 40.000 | 21.85 | 0.00 | 35.95 | 3.32 |
793 | 799 | 5.393461 | GCCCAATAGAAATTCTGTGGAGTTG | 60.393 | 44.000 | 21.85 | 10.93 | 35.95 | 3.16 |
829 | 835 | 8.989653 | TGGAAACAAAAAGAAAAATTCTACGT | 57.010 | 26.923 | 0.00 | 0.00 | 36.66 | 3.57 |
830 | 836 | 9.083080 | ACTGGAAACAAAAAGAAAAATTCTACG | 57.917 | 29.630 | 0.00 | 0.00 | 42.06 | 3.51 |
873 | 879 | 3.545703 | GGTCCGATGGAGAATTCAATGT | 58.454 | 45.455 | 8.44 | 0.00 | 29.39 | 2.71 |
881 | 887 | 1.377594 | TCGACGGTCCGATGGAGAA | 60.378 | 57.895 | 20.51 | 0.00 | 33.14 | 2.87 |
923 | 929 | 1.461461 | GCTGGGGATACTAGGGGCA | 60.461 | 63.158 | 0.00 | 0.00 | 0.00 | 5.36 |
1025 | 1031 | 1.938596 | TGGAGGAGGAGAGGGAGCT | 60.939 | 63.158 | 0.00 | 0.00 | 0.00 | 4.09 |
1579 | 1585 | 1.658686 | AACCTAGGCACTCGCTCTCG | 61.659 | 60.000 | 9.30 | 0.00 | 41.75 | 4.04 |
1613 | 1619 | 0.106066 | TCCCTTATCTTACCCGCCGA | 60.106 | 55.000 | 0.00 | 0.00 | 0.00 | 5.54 |
1639 | 1645 | 2.500098 | TCCATCGATCTTCTTTTCCGGT | 59.500 | 45.455 | 0.00 | 0.00 | 0.00 | 5.28 |
1654 | 1660 | 5.422666 | TTGTAAGCAGCAATTATCCATCG | 57.577 | 39.130 | 0.00 | 0.00 | 0.00 | 3.84 |
1659 | 1665 | 5.192327 | AGCCATTGTAAGCAGCAATTATC | 57.808 | 39.130 | 0.00 | 0.00 | 34.68 | 1.75 |
1710 | 1722 | 6.936335 | ACATGCATCCATCTACGATAATTTCA | 59.064 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
1738 | 1750 | 8.442660 | TCCAAAAATTACCCAGGAAATACAAT | 57.557 | 30.769 | 0.00 | 0.00 | 0.00 | 2.71 |
1740 | 1752 | 6.071051 | GCTCCAAAAATTACCCAGGAAATACA | 60.071 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
1741 | 1753 | 6.154534 | AGCTCCAAAAATTACCCAGGAAATAC | 59.845 | 38.462 | 0.00 | 0.00 | 0.00 | 1.89 |
1742 | 1754 | 6.260663 | AGCTCCAAAAATTACCCAGGAAATA | 58.739 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
1743 | 1755 | 5.093677 | AGCTCCAAAAATTACCCAGGAAAT | 58.906 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
1744 | 1756 | 4.488770 | AGCTCCAAAAATTACCCAGGAAA | 58.511 | 39.130 | 0.00 | 0.00 | 0.00 | 3.13 |
1746 | 1758 | 3.825908 | AGCTCCAAAAATTACCCAGGA | 57.174 | 42.857 | 0.00 | 0.00 | 0.00 | 3.86 |
1786 | 1798 | 3.314080 | CCGTGGTGTGTAAATTGTTCAGT | 59.686 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
1806 | 1818 | 3.124636 | CCCATTAACGAAACAGAGTTCCG | 59.875 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
1827 | 1839 | 7.222999 | TCGAATTTTACATGACAACAAAAACCC | 59.777 | 33.333 | 0.00 | 0.00 | 0.00 | 4.11 |
1883 | 1901 | 8.415553 | TCATGATCTTCAACTTCAAATTGTTGT | 58.584 | 29.630 | 0.00 | 0.00 | 42.71 | 3.32 |
1899 | 1917 | 6.492007 | ACAGTTGTTGACATCATGATCTTC | 57.508 | 37.500 | 4.86 | 6.08 | 0.00 | 2.87 |
1920 | 1938 | 7.731054 | AGGAATTTTGTTTGCTTGGTAATACA | 58.269 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
1922 | 1940 | 9.921637 | CTTAGGAATTTTGTTTGCTTGGTAATA | 57.078 | 29.630 | 0.00 | 0.00 | 0.00 | 0.98 |
2056 | 2100 | 1.546029 | CTCGTGGTCCATCTGAGTTGA | 59.454 | 52.381 | 0.00 | 0.00 | 0.00 | 3.18 |
2060 | 2104 | 1.546029 | TCAACTCGTGGTCCATCTGAG | 59.454 | 52.381 | 14.05 | 14.05 | 0.00 | 3.35 |
2089 | 2133 | 4.703897 | TGTTAACTGCTAGCTGACTGTTT | 58.296 | 39.130 | 26.29 | 12.87 | 31.51 | 2.83 |
2145 | 2189 | 3.666253 | TCGCGCAGTCCTTGTCGA | 61.666 | 61.111 | 8.75 | 0.00 | 33.72 | 4.20 |
2164 | 2208 | 2.766400 | GCTCCTCTCCACGTCCTCG | 61.766 | 68.421 | 0.00 | 0.00 | 43.34 | 4.63 |
2175 | 2219 | 3.024356 | TCCTCTCCGGGCTCCTCT | 61.024 | 66.667 | 0.00 | 0.00 | 0.00 | 3.69 |
2498 | 2542 | 0.108472 | TGTCAGAGCCTGAGAATGCG | 60.108 | 55.000 | 5.28 | 0.00 | 41.46 | 4.73 |
2504 | 2548 | 2.496871 | AGTCAGATTGTCAGAGCCTGAG | 59.503 | 50.000 | 5.28 | 0.00 | 41.46 | 3.35 |
2510 | 2554 | 8.034215 | AGTATTTCTTCAGTCAGATTGTCAGAG | 58.966 | 37.037 | 0.00 | 0.00 | 0.00 | 3.35 |
2519 | 2563 | 6.918067 | TTCCAGAGTATTTCTTCAGTCAGA | 57.082 | 37.500 | 0.00 | 0.00 | 32.41 | 3.27 |
2520 | 2564 | 7.117523 | CACTTTCCAGAGTATTTCTTCAGTCAG | 59.882 | 40.741 | 0.00 | 0.00 | 32.41 | 3.51 |
2521 | 2565 | 6.931281 | CACTTTCCAGAGTATTTCTTCAGTCA | 59.069 | 38.462 | 0.00 | 0.00 | 32.41 | 3.41 |
2522 | 2566 | 6.128418 | GCACTTTCCAGAGTATTTCTTCAGTC | 60.128 | 42.308 | 0.00 | 0.00 | 32.41 | 3.51 |
2523 | 2567 | 5.703130 | GCACTTTCCAGAGTATTTCTTCAGT | 59.297 | 40.000 | 0.00 | 0.00 | 32.41 | 3.41 |
2524 | 2568 | 5.702670 | TGCACTTTCCAGAGTATTTCTTCAG | 59.297 | 40.000 | 0.00 | 0.00 | 32.41 | 3.02 |
2525 | 2569 | 5.470098 | GTGCACTTTCCAGAGTATTTCTTCA | 59.530 | 40.000 | 10.32 | 0.00 | 32.41 | 3.02 |
2526 | 2570 | 5.703130 | AGTGCACTTTCCAGAGTATTTCTTC | 59.297 | 40.000 | 15.25 | 0.00 | 32.41 | 2.87 |
2527 | 2571 | 5.471456 | CAGTGCACTTTCCAGAGTATTTCTT | 59.529 | 40.000 | 18.94 | 0.00 | 32.41 | 2.52 |
2528 | 2572 | 4.999950 | CAGTGCACTTTCCAGAGTATTTCT | 59.000 | 41.667 | 18.94 | 0.00 | 36.25 | 2.52 |
2529 | 2573 | 4.997395 | TCAGTGCACTTTCCAGAGTATTTC | 59.003 | 41.667 | 18.94 | 0.00 | 0.00 | 2.17 |
2530 | 2574 | 4.757149 | GTCAGTGCACTTTCCAGAGTATTT | 59.243 | 41.667 | 18.94 | 0.00 | 0.00 | 1.40 |
2531 | 2575 | 4.202357 | TGTCAGTGCACTTTCCAGAGTATT | 60.202 | 41.667 | 18.94 | 0.00 | 0.00 | 1.89 |
2532 | 2576 | 3.324846 | TGTCAGTGCACTTTCCAGAGTAT | 59.675 | 43.478 | 18.94 | 0.00 | 0.00 | 2.12 |
2533 | 2577 | 2.698274 | TGTCAGTGCACTTTCCAGAGTA | 59.302 | 45.455 | 18.94 | 0.44 | 0.00 | 2.59 |
2534 | 2578 | 1.486310 | TGTCAGTGCACTTTCCAGAGT | 59.514 | 47.619 | 18.94 | 0.00 | 0.00 | 3.24 |
2535 | 2579 | 2.245159 | TGTCAGTGCACTTTCCAGAG | 57.755 | 50.000 | 18.94 | 3.94 | 0.00 | 3.35 |
2536 | 2580 | 2.936919 | ATGTCAGTGCACTTTCCAGA | 57.063 | 45.000 | 18.94 | 8.31 | 0.00 | 3.86 |
2537 | 2581 | 2.417933 | GCTATGTCAGTGCACTTTCCAG | 59.582 | 50.000 | 18.94 | 11.78 | 0.00 | 3.86 |
2538 | 2582 | 2.426522 | GCTATGTCAGTGCACTTTCCA | 58.573 | 47.619 | 18.94 | 14.18 | 0.00 | 3.53 |
2539 | 2583 | 1.740025 | GGCTATGTCAGTGCACTTTCC | 59.260 | 52.381 | 18.94 | 8.43 | 0.00 | 3.13 |
2540 | 2584 | 2.426522 | TGGCTATGTCAGTGCACTTTC | 58.573 | 47.619 | 18.94 | 13.57 | 0.00 | 2.62 |
2541 | 2585 | 2.566833 | TGGCTATGTCAGTGCACTTT | 57.433 | 45.000 | 18.94 | 5.10 | 0.00 | 2.66 |
2542 | 2586 | 2.795231 | ATGGCTATGTCAGTGCACTT | 57.205 | 45.000 | 18.94 | 5.14 | 0.00 | 3.16 |
2543 | 2587 | 2.795231 | AATGGCTATGTCAGTGCACT | 57.205 | 45.000 | 15.25 | 15.25 | 0.00 | 4.40 |
2544 | 2588 | 3.012518 | AGAAATGGCTATGTCAGTGCAC | 58.987 | 45.455 | 9.40 | 9.40 | 0.00 | 4.57 |
2545 | 2589 | 3.054875 | AGAGAAATGGCTATGTCAGTGCA | 60.055 | 43.478 | 2.74 | 0.00 | 0.00 | 4.57 |
2546 | 2590 | 3.311871 | CAGAGAAATGGCTATGTCAGTGC | 59.688 | 47.826 | 2.74 | 0.00 | 0.00 | 4.40 |
2547 | 2591 | 4.763073 | TCAGAGAAATGGCTATGTCAGTG | 58.237 | 43.478 | 2.74 | 0.00 | 0.00 | 3.66 |
2548 | 2592 | 5.181748 | GTTCAGAGAAATGGCTATGTCAGT | 58.818 | 41.667 | 2.74 | 0.00 | 0.00 | 3.41 |
2549 | 2593 | 4.269603 | CGTTCAGAGAAATGGCTATGTCAG | 59.730 | 45.833 | 2.74 | 0.00 | 0.00 | 3.51 |
2550 | 2594 | 4.081697 | TCGTTCAGAGAAATGGCTATGTCA | 60.082 | 41.667 | 2.74 | 0.00 | 0.00 | 3.58 |
2551 | 2595 | 4.433615 | TCGTTCAGAGAAATGGCTATGTC | 58.566 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
2552 | 2596 | 4.471904 | TCGTTCAGAGAAATGGCTATGT | 57.528 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
2553 | 2597 | 5.998454 | AATCGTTCAGAGAAATGGCTATG | 57.002 | 39.130 | 0.00 | 0.00 | 0.00 | 2.23 |
2554 | 2598 | 6.352516 | AGAAATCGTTCAGAGAAATGGCTAT | 58.647 | 36.000 | 0.00 | 0.00 | 36.09 | 2.97 |
2555 | 2599 | 5.734720 | AGAAATCGTTCAGAGAAATGGCTA | 58.265 | 37.500 | 0.00 | 0.00 | 36.09 | 3.93 |
2556 | 2600 | 4.583871 | AGAAATCGTTCAGAGAAATGGCT | 58.416 | 39.130 | 0.00 | 0.00 | 36.09 | 4.75 |
2557 | 2601 | 4.954092 | AGAAATCGTTCAGAGAAATGGC | 57.046 | 40.909 | 0.00 | 0.00 | 36.09 | 4.40 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.