Multiple sequence alignment - TraesCS4D01G124700
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 | TraesCS4D01G124700 | chr4D | 100.000 | 2825 | 0 | 0 | 1 | 2825 | 109074335 | 109071511 | 0.000000e+00 | 5217.0 |
1 | TraesCS4D01G124700 | chr4D | 90.426 | 188 | 11 | 4 | 2459 | 2640 | 109026801 | 109026615 | 1.010000e-59 | 241.0 |
2 | TraesCS4D01G124700 | chr4D | 97.872 | 47 | 1 | 0 | 2284 | 2330 | 109071648 | 109071602 | 6.490000e-12 | 82.4 |
3 | TraesCS4D01G124700 | chr4D | 97.872 | 47 | 1 | 0 | 2688 | 2734 | 109072052 | 109072006 | 6.490000e-12 | 82.4 |
4 | TraesCS4D01G124700 | chrUn | 91.061 | 1969 | 77 | 35 | 718 | 2640 | 47069145 | 47067230 | 0.000000e+00 | 2569.0 |
5 | TraesCS4D01G124700 | chrUn | 91.061 | 1969 | 77 | 35 | 718 | 2640 | 288708375 | 288710290 | 0.000000e+00 | 2569.0 |
6 | TraesCS4D01G124700 | chrUn | 91.543 | 473 | 26 | 5 | 2152 | 2614 | 47066261 | 47065793 | 8.530000e-180 | 640.0 |
7 | TraesCS4D01G124700 | chrUn | 91.543 | 473 | 26 | 5 | 2152 | 2614 | 288711259 | 288711727 | 8.530000e-180 | 640.0 |
8 | TraesCS4D01G124700 | chrUn | 91.543 | 473 | 26 | 5 | 2152 | 2614 | 409127584 | 409127116 | 8.530000e-180 | 640.0 |
9 | TraesCS4D01G124700 | chrUn | 82.432 | 370 | 25 | 21 | 1 | 339 | 47069648 | 47069288 | 1.280000e-73 | 287.0 |
10 | TraesCS4D01G124700 | chrUn | 82.432 | 370 | 25 | 21 | 1 | 339 | 288707872 | 288708232 | 1.280000e-73 | 287.0 |
11 | TraesCS4D01G124700 | chr4B | 92.884 | 1602 | 58 | 22 | 669 | 2241 | 167586773 | 167588347 | 0.000000e+00 | 2276.0 |
12 | TraesCS4D01G124700 | chr4B | 86.339 | 366 | 19 | 12 | 192 | 530 | 167586339 | 167586700 | 1.240000e-98 | 370.0 |
13 | TraesCS4D01G124700 | chr4B | 98.413 | 63 | 1 | 0 | 128 | 190 | 167586244 | 167586306 | 8.270000e-21 | 111.0 |
14 | TraesCS4D01G124700 | chr2A | 89.040 | 1250 | 60 | 31 | 669 | 1880 | 723236650 | 723237860 | 0.000000e+00 | 1478.0 |
15 | TraesCS4D01G124700 | chr2A | 90.721 | 1013 | 51 | 18 | 876 | 1880 | 723225861 | 723226838 | 0.000000e+00 | 1310.0 |
16 | TraesCS4D01G124700 | chr2A | 91.071 | 168 | 8 | 2 | 2479 | 2640 | 723228127 | 723228293 | 1.320000e-53 | 220.0 |
17 | TraesCS4D01G124700 | chr2A | 85.075 | 201 | 18 | 4 | 128 | 321 | 723224981 | 723225176 | 7.990000e-46 | 195.0 |
18 | TraesCS4D01G124700 | chr2A | 85.427 | 199 | 15 | 9 | 128 | 318 | 723234819 | 723235011 | 7.990000e-46 | 195.0 |
19 | TraesCS4D01G124700 | chr2A | 84.043 | 188 | 13 | 8 | 662 | 834 | 723225669 | 723225854 | 6.260000e-37 | 165.0 |
20 | TraesCS4D01G124700 | chr5A | 78.590 | 780 | 120 | 32 | 1076 | 1824 | 313314005 | 313314768 | 3.290000e-129 | 472.0 |
21 | TraesCS4D01G124700 | chr5B | 77.850 | 772 | 131 | 30 | 1076 | 1824 | 263220962 | 263221716 | 2.580000e-120 | 442.0 |
22 | TraesCS4D01G124700 | chr5B | 85.333 | 75 | 7 | 1 | 2731 | 2801 | 528993656 | 528993730 | 1.090000e-09 | 75.0 |
23 | TraesCS4D01G124700 | chr5D | 77.665 | 788 | 124 | 36 | 1071 | 1824 | 240502982 | 240502213 | 1.550000e-117 | 433.0 |
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 | TraesCS4D01G124700 | chr4D | 109071511 | 109074335 | 2824 | True | 1793.933333 | 5217 | 98.581333 | 1 | 2825 | 3 | chr4D.!!$R2 | 2824 |
1 | TraesCS4D01G124700 | chrUn | 47065793 | 47069648 | 3855 | True | 1165.333333 | 2569 | 88.345333 | 1 | 2640 | 3 | chrUn.!!$R2 | 2639 |
2 | TraesCS4D01G124700 | chrUn | 288707872 | 288711727 | 3855 | False | 1165.333333 | 2569 | 88.345333 | 1 | 2640 | 3 | chrUn.!!$F1 | 2639 |
3 | TraesCS4D01G124700 | chr4B | 167586244 | 167588347 | 2103 | False | 919.000000 | 2276 | 92.545333 | 128 | 2241 | 3 | chr4B.!!$F1 | 2113 |
4 | TraesCS4D01G124700 | chr2A | 723234819 | 723237860 | 3041 | False | 836.500000 | 1478 | 87.233500 | 128 | 1880 | 2 | chr2A.!!$F2 | 1752 |
5 | TraesCS4D01G124700 | chr2A | 723224981 | 723228293 | 3312 | False | 472.500000 | 1310 | 87.727500 | 128 | 2640 | 4 | chr2A.!!$F1 | 2512 |
6 | TraesCS4D01G124700 | chr5A | 313314005 | 313314768 | 763 | False | 472.000000 | 472 | 78.590000 | 1076 | 1824 | 1 | chr5A.!!$F1 | 748 |
7 | TraesCS4D01G124700 | chr5B | 263220962 | 263221716 | 754 | False | 442.000000 | 442 | 77.850000 | 1076 | 1824 | 1 | chr5B.!!$F1 | 748 |
8 | TraesCS4D01G124700 | chr5D | 240502213 | 240502982 | 769 | True | 433.000000 | 433 | 77.665000 | 1071 | 1824 | 1 | chr5D.!!$R1 | 753 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
202 | 256 | 0.04109 | TGGCCCTCCCCTTTTGATTC | 59.959 | 55.0 | 0.0 | 0.0 | 0.0 | 2.52 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2103 | 4471 | 0.39206 | AGCCCCAACCGTAATCGTTC | 60.392 | 55.0 | 0.0 | 0.0 | 35.01 | 3.95 | 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 |
---|---|---|---|---|---|---|---|---|---|
22 | 23 | 1.674764 | CCTGCTGTTGGTTTGGTGCA | 61.675 | 55.000 | 0.00 | 0.00 | 0.00 | 4.57 |
23 | 24 | 0.175302 | CTGCTGTTGGTTTGGTGCAA | 59.825 | 50.000 | 0.00 | 0.00 | 0.00 | 4.08 |
48 | 49 | 3.043999 | GCAACCCCGGATAGGCAGT | 62.044 | 63.158 | 0.73 | 0.00 | 39.21 | 4.40 |
59 | 60 | 3.678806 | CGGATAGGCAGTTAGTCAAAGCA | 60.679 | 47.826 | 0.00 | 0.00 | 0.00 | 3.91 |
91 | 92 | 9.438228 | CTATATATCGACCATCATCCTACGTAT | 57.562 | 37.037 | 0.00 | 0.00 | 0.00 | 3.06 |
93 | 94 | 9.961264 | ATATATCGACCATCATCCTACGTATAT | 57.039 | 33.333 | 0.00 | 0.00 | 0.00 | 0.86 |
95 | 96 | 6.915544 | TCGACCATCATCCTACGTATATAC | 57.084 | 41.667 | 2.53 | 2.53 | 0.00 | 1.47 |
96 | 97 | 5.819379 | TCGACCATCATCCTACGTATATACC | 59.181 | 44.000 | 7.30 | 0.00 | 0.00 | 2.73 |
97 | 98 | 5.587443 | CGACCATCATCCTACGTATATACCA | 59.413 | 44.000 | 7.30 | 0.00 | 0.00 | 3.25 |
98 | 99 | 6.238402 | CGACCATCATCCTACGTATATACCAG | 60.238 | 46.154 | 7.30 | 4.98 | 0.00 | 4.00 |
99 | 100 | 6.728411 | ACCATCATCCTACGTATATACCAGA | 58.272 | 40.000 | 7.30 | 0.12 | 0.00 | 3.86 |
100 | 101 | 6.829298 | ACCATCATCCTACGTATATACCAGAG | 59.171 | 42.308 | 7.30 | 2.49 | 0.00 | 3.35 |
101 | 102 | 6.238786 | CCATCATCCTACGTATATACCAGAGC | 60.239 | 46.154 | 7.30 | 0.00 | 0.00 | 4.09 |
102 | 103 | 6.063496 | TCATCCTACGTATATACCAGAGCT | 57.937 | 41.667 | 7.30 | 0.00 | 0.00 | 4.09 |
103 | 104 | 7.191593 | TCATCCTACGTATATACCAGAGCTA | 57.808 | 40.000 | 7.30 | 0.00 | 0.00 | 3.32 |
104 | 105 | 7.627311 | TCATCCTACGTATATACCAGAGCTAA | 58.373 | 38.462 | 7.30 | 0.00 | 0.00 | 3.09 |
107 | 108 | 8.696043 | TCCTACGTATATACCAGAGCTAAAAA | 57.304 | 34.615 | 7.30 | 0.00 | 0.00 | 1.94 |
108 | 109 | 8.571336 | TCCTACGTATATACCAGAGCTAAAAAC | 58.429 | 37.037 | 7.30 | 0.00 | 0.00 | 2.43 |
110 | 111 | 9.740239 | CTACGTATATACCAGAGCTAAAAACAA | 57.260 | 33.333 | 7.30 | 0.00 | 0.00 | 2.83 |
177 | 200 | 3.564225 | CCTCACACGCTTTTCCTACTTTT | 59.436 | 43.478 | 0.00 | 0.00 | 0.00 | 2.27 |
202 | 256 | 0.041090 | TGGCCCTCCCCTTTTGATTC | 59.959 | 55.000 | 0.00 | 0.00 | 0.00 | 2.52 |
256 | 316 | 7.646314 | AGTACTAACTACGTACATTGCCTATG | 58.354 | 38.462 | 0.00 | 0.00 | 39.66 | 2.23 |
296 | 364 | 2.223377 | GTGGTTGCGTTTCCTTGTCTAG | 59.777 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
372 | 651 | 8.630054 | ACTGAAAACCTGTATTACAAGCATTA | 57.370 | 30.769 | 0.00 | 0.00 | 0.00 | 1.90 |
386 | 665 | 4.449068 | ACAAGCATTACAAGACAAGACGAG | 59.551 | 41.667 | 0.00 | 0.00 | 0.00 | 4.18 |
422 | 718 | 0.602905 | AGTAGAGGCACCGTTGTTGC | 60.603 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
455 | 752 | 9.784531 | AAGATATTCGTTCATTATTCCACAGAT | 57.215 | 29.630 | 0.00 | 0.00 | 0.00 | 2.90 |
461 | 759 | 7.207383 | TCGTTCATTATTCCACAGATAATCGT | 58.793 | 34.615 | 0.00 | 0.00 | 0.00 | 3.73 |
467 | 765 | 4.335082 | TTCCACAGATAATCGTTTTGCG | 57.665 | 40.909 | 0.00 | 0.00 | 43.01 | 4.85 |
486 | 784 | 1.278238 | GTCTGGAACCGCGAGTAATG | 58.722 | 55.000 | 8.23 | 0.00 | 0.00 | 1.90 |
518 | 816 | 0.884514 | TCAGGTCTCTGTCAAGCTCG | 59.115 | 55.000 | 0.00 | 0.00 | 41.59 | 5.03 |
519 | 817 | 0.108898 | CAGGTCTCTGTCAAGCTCGG | 60.109 | 60.000 | 0.00 | 0.00 | 36.30 | 4.63 |
521 | 819 | 0.820871 | GGTCTCTGTCAAGCTCGGAT | 59.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.18 |
524 | 822 | 1.895798 | TCTCTGTCAAGCTCGGATGTT | 59.104 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 |
526 | 824 | 3.119459 | TCTCTGTCAAGCTCGGATGTTAC | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 2.50 |
527 | 825 | 2.094182 | TCTGTCAAGCTCGGATGTTACC | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
528 | 826 | 1.066430 | TGTCAAGCTCGGATGTTACCC | 60.066 | 52.381 | 0.00 | 0.00 | 0.00 | 3.69 |
530 | 828 | 1.153429 | AAGCTCGGATGTTACCCGC | 60.153 | 57.895 | 0.00 | 0.00 | 46.10 | 6.13 |
531 | 829 | 1.895020 | AAGCTCGGATGTTACCCGCA | 61.895 | 55.000 | 0.00 | 0.00 | 46.10 | 5.69 |
532 | 830 | 1.448893 | GCTCGGATGTTACCCGCAA | 60.449 | 57.895 | 0.00 | 0.00 | 46.10 | 4.85 |
533 | 831 | 1.022451 | GCTCGGATGTTACCCGCAAA | 61.022 | 55.000 | 0.00 | 0.00 | 46.10 | 3.68 |
534 | 832 | 1.444836 | CTCGGATGTTACCCGCAAAA | 58.555 | 50.000 | 0.00 | 0.00 | 46.10 | 2.44 |
535 | 833 | 1.807742 | CTCGGATGTTACCCGCAAAAA | 59.192 | 47.619 | 0.00 | 0.00 | 46.10 | 1.94 |
561 | 859 | 2.224354 | ACTCGGATGTTAACCCGTGTTT | 60.224 | 45.455 | 18.97 | 4.71 | 46.37 | 2.83 |
600 | 902 | 1.452399 | GACGACTTGCTTTCGAGACAC | 59.548 | 52.381 | 8.81 | 0.00 | 39.83 | 3.67 |
619 | 2090 | 4.088421 | CGACGGCGTTTGAGCTAT | 57.912 | 55.556 | 16.19 | 0.00 | 37.29 | 2.97 |
620 | 2091 | 1.631072 | CGACGGCGTTTGAGCTATG | 59.369 | 57.895 | 16.19 | 0.00 | 37.29 | 2.23 |
621 | 2092 | 0.800683 | CGACGGCGTTTGAGCTATGA | 60.801 | 55.000 | 16.19 | 0.00 | 37.29 | 2.15 |
622 | 2093 | 0.924090 | GACGGCGTTTGAGCTATGAG | 59.076 | 55.000 | 16.19 | 0.00 | 37.29 | 2.90 |
623 | 2094 | 0.246635 | ACGGCGTTTGAGCTATGAGT | 59.753 | 50.000 | 6.77 | 0.00 | 37.29 | 3.41 |
624 | 2095 | 1.337823 | ACGGCGTTTGAGCTATGAGTT | 60.338 | 47.619 | 6.77 | 0.00 | 37.29 | 3.01 |
625 | 2096 | 1.732259 | CGGCGTTTGAGCTATGAGTTT | 59.268 | 47.619 | 0.00 | 0.00 | 37.29 | 2.66 |
626 | 2097 | 2.927477 | CGGCGTTTGAGCTATGAGTTTA | 59.073 | 45.455 | 0.00 | 0.00 | 37.29 | 2.01 |
627 | 2098 | 3.555956 | CGGCGTTTGAGCTATGAGTTTAT | 59.444 | 43.478 | 0.00 | 0.00 | 37.29 | 1.40 |
628 | 2099 | 4.550831 | CGGCGTTTGAGCTATGAGTTTATG | 60.551 | 45.833 | 0.00 | 0.00 | 37.29 | 1.90 |
629 | 2100 | 4.332819 | GGCGTTTGAGCTATGAGTTTATGT | 59.667 | 41.667 | 0.00 | 0.00 | 37.29 | 2.29 |
630 | 2101 | 5.163754 | GGCGTTTGAGCTATGAGTTTATGTT | 60.164 | 40.000 | 0.00 | 0.00 | 37.29 | 2.71 |
631 | 2102 | 6.036735 | GGCGTTTGAGCTATGAGTTTATGTTA | 59.963 | 38.462 | 0.00 | 0.00 | 37.29 | 2.41 |
632 | 2103 | 7.119997 | GCGTTTGAGCTATGAGTTTATGTTAG | 58.880 | 38.462 | 0.00 | 0.00 | 0.00 | 2.34 |
633 | 2104 | 7.621991 | CGTTTGAGCTATGAGTTTATGTTAGG | 58.378 | 38.462 | 0.00 | 0.00 | 0.00 | 2.69 |
634 | 2105 | 7.277981 | CGTTTGAGCTATGAGTTTATGTTAGGT | 59.722 | 37.037 | 0.00 | 0.00 | 0.00 | 3.08 |
635 | 2106 | 8.947115 | GTTTGAGCTATGAGTTTATGTTAGGTT | 58.053 | 33.333 | 0.00 | 0.00 | 0.00 | 3.50 |
636 | 2107 | 9.515226 | TTTGAGCTATGAGTTTATGTTAGGTTT | 57.485 | 29.630 | 0.00 | 0.00 | 0.00 | 3.27 |
637 | 2108 | 9.515226 | TTGAGCTATGAGTTTATGTTAGGTTTT | 57.485 | 29.630 | 0.00 | 0.00 | 0.00 | 2.43 |
638 | 2109 | 9.515226 | TGAGCTATGAGTTTATGTTAGGTTTTT | 57.485 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
660 | 2131 | 4.314740 | TTTTTGCGGTTGAGTTTATGCT | 57.685 | 36.364 | 0.00 | 0.00 | 0.00 | 3.79 |
661 | 2132 | 5.440234 | TTTTTGCGGTTGAGTTTATGCTA | 57.560 | 34.783 | 0.00 | 0.00 | 0.00 | 3.49 |
662 | 2133 | 4.678509 | TTTGCGGTTGAGTTTATGCTAG | 57.321 | 40.909 | 0.00 | 0.00 | 0.00 | 3.42 |
663 | 2134 | 2.006888 | TGCGGTTGAGTTTATGCTAGC | 58.993 | 47.619 | 8.10 | 8.10 | 0.00 | 3.42 |
664 | 2135 | 2.280628 | GCGGTTGAGTTTATGCTAGCT | 58.719 | 47.619 | 17.23 | 4.07 | 0.00 | 3.32 |
665 | 2136 | 2.678336 | GCGGTTGAGTTTATGCTAGCTT | 59.322 | 45.455 | 17.23 | 12.56 | 0.00 | 3.74 |
666 | 2137 | 3.869246 | GCGGTTGAGTTTATGCTAGCTTA | 59.131 | 43.478 | 17.23 | 11.41 | 0.00 | 3.09 |
775 | 2265 | 4.838486 | CCGACTCGACTCGCAGCC | 62.838 | 72.222 | 8.72 | 0.00 | 31.98 | 4.85 |
776 | 2266 | 3.805307 | CGACTCGACTCGCAGCCT | 61.805 | 66.667 | 1.53 | 0.00 | 0.00 | 4.58 |
777 | 2267 | 2.101380 | GACTCGACTCGCAGCCTC | 59.899 | 66.667 | 0.00 | 0.00 | 0.00 | 4.70 |
778 | 2268 | 2.673341 | ACTCGACTCGCAGCCTCA | 60.673 | 61.111 | 0.00 | 0.00 | 0.00 | 3.86 |
779 | 2269 | 1.999071 | GACTCGACTCGCAGCCTCAT | 61.999 | 60.000 | 0.00 | 0.00 | 0.00 | 2.90 |
889 | 2408 | 2.231478 | CGCTCCCCCAGTGTATACATAG | 59.769 | 54.545 | 9.18 | 4.78 | 0.00 | 2.23 |
890 | 2409 | 3.507411 | GCTCCCCCAGTGTATACATAGA | 58.493 | 50.000 | 9.18 | 0.00 | 0.00 | 1.98 |
891 | 2410 | 3.258622 | GCTCCCCCAGTGTATACATAGAC | 59.741 | 52.174 | 9.18 | 0.00 | 0.00 | 2.59 |
892 | 2411 | 3.833070 | CTCCCCCAGTGTATACATAGACC | 59.167 | 52.174 | 9.18 | 0.00 | 0.00 | 3.85 |
893 | 2412 | 2.904434 | CCCCCAGTGTATACATAGACCC | 59.096 | 54.545 | 9.18 | 0.00 | 0.00 | 4.46 |
895 | 2414 | 3.578716 | CCCCAGTGTATACATAGACCCAG | 59.421 | 52.174 | 9.18 | 0.00 | 0.00 | 4.45 |
1111 | 2647 | 2.528743 | CCGCTGCGCTCCACAATAG | 61.529 | 63.158 | 18.00 | 0.00 | 0.00 | 1.73 |
1498 | 3052 | 2.829458 | GCGTCTCCTACTCCGGCT | 60.829 | 66.667 | 0.00 | 0.00 | 0.00 | 5.52 |
1713 | 3273 | 4.664677 | GTGCTGCGGACGTGGACT | 62.665 | 66.667 | 0.00 | 0.00 | 0.00 | 3.85 |
1881 | 3441 | 2.545946 | GGCTCTTTGATAAGATCACGCC | 59.454 | 50.000 | 0.00 | 0.00 | 39.40 | 5.68 |
1913 | 3473 | 3.364889 | TCGATTATTACTGCCGGTGAG | 57.635 | 47.619 | 1.90 | 1.59 | 0.00 | 3.51 |
1997 | 4361 | 1.600013 | CAGCAGAGCATTCTGATCAGC | 59.400 | 52.381 | 18.36 | 7.22 | 46.66 | 4.26 |
2000 | 4364 | 1.956297 | AGAGCATTCTGATCAGCTGC | 58.044 | 50.000 | 28.64 | 28.64 | 34.77 | 5.25 |
2036 | 4404 | 7.350110 | TGCTTCTGCTTGCATAAAAATAAAC | 57.650 | 32.000 | 0.00 | 0.00 | 40.48 | 2.01 |
2037 | 4405 | 7.153985 | TGCTTCTGCTTGCATAAAAATAAACT | 58.846 | 30.769 | 0.00 | 0.00 | 40.48 | 2.66 |
2038 | 4406 | 7.656948 | TGCTTCTGCTTGCATAAAAATAAACTT | 59.343 | 29.630 | 0.00 | 0.00 | 40.48 | 2.66 |
2039 | 4407 | 7.953710 | GCTTCTGCTTGCATAAAAATAAACTTG | 59.046 | 33.333 | 0.00 | 0.00 | 36.03 | 3.16 |
2040 | 4408 | 8.885494 | TTCTGCTTGCATAAAAATAAACTTGT | 57.115 | 26.923 | 0.00 | 0.00 | 0.00 | 3.16 |
2041 | 4409 | 8.296799 | TCTGCTTGCATAAAAATAAACTTGTG | 57.703 | 30.769 | 0.00 | 0.00 | 0.00 | 3.33 |
2042 | 4410 | 7.925483 | TCTGCTTGCATAAAAATAAACTTGTGT | 59.075 | 29.630 | 0.00 | 0.00 | 0.00 | 3.72 |
2043 | 4411 | 8.071122 | TGCTTGCATAAAAATAAACTTGTGTC | 57.929 | 30.769 | 0.00 | 0.00 | 0.00 | 3.67 |
2044 | 4412 | 7.708322 | TGCTTGCATAAAAATAAACTTGTGTCA | 59.292 | 29.630 | 0.00 | 0.00 | 0.00 | 3.58 |
2045 | 4413 | 8.216453 | GCTTGCATAAAAATAAACTTGTGTCAG | 58.784 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
2046 | 4414 | 8.586570 | TTGCATAAAAATAAACTTGTGTCAGG | 57.413 | 30.769 | 0.00 | 0.00 | 0.00 | 3.86 |
2047 | 4415 | 7.946207 | TGCATAAAAATAAACTTGTGTCAGGA | 58.054 | 30.769 | 0.00 | 0.00 | 0.00 | 3.86 |
2049 | 4417 | 8.863049 | GCATAAAAATAAACTTGTGTCAGGATG | 58.137 | 33.333 | 0.00 | 0.00 | 37.54 | 3.51 |
2050 | 4418 | 9.357652 | CATAAAAATAAACTTGTGTCAGGATGG | 57.642 | 33.333 | 0.00 | 0.00 | 36.16 | 3.51 |
2103 | 4471 | 6.263516 | ACCAGTCATTTCTCATTGTCATTG | 57.736 | 37.500 | 0.00 | 0.00 | 0.00 | 2.82 |
2107 | 4505 | 6.522165 | CAGTCATTTCTCATTGTCATTGAACG | 59.478 | 38.462 | 0.00 | 0.00 | 0.00 | 3.95 |
2203 | 4601 | 2.666989 | CGAAAGCCTCCTTCGTAGC | 58.333 | 57.895 | 0.00 | 0.00 | 0.00 | 3.58 |
2265 | 4663 | 3.090952 | TGCTCCGTTGTTTGGAAAATG | 57.909 | 42.857 | 0.00 | 0.00 | 34.44 | 2.32 |
2281 | 4679 | 1.067295 | AATGGTGGAGCCTGAGTTGA | 58.933 | 50.000 | 0.00 | 0.00 | 38.35 | 3.18 |
2282 | 4680 | 0.617413 | ATGGTGGAGCCTGAGTTGAG | 59.383 | 55.000 | 0.00 | 0.00 | 38.35 | 3.02 |
2283 | 4681 | 0.764369 | TGGTGGAGCCTGAGTTGAGT | 60.764 | 55.000 | 0.00 | 0.00 | 38.35 | 3.41 |
2466 | 4875 | 8.690840 | GTTTTCTTTTCGTCACAATAATGGAAG | 58.309 | 33.333 | 0.00 | 0.00 | 0.00 | 3.46 |
2537 | 4947 | 4.035441 | CCGACCAAAAACCTTTCGAACTTA | 59.965 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
2569 | 4985 | 1.997606 | GCATCAGCAAGTGAAAATGCC | 59.002 | 47.619 | 0.00 | 0.00 | 43.57 | 4.40 |
2578 | 4994 | 2.026641 | AGTGAAAATGCCGATCATGGG | 58.973 | 47.619 | 0.00 | 0.00 | 35.13 | 4.00 |
2645 | 5084 | 9.886132 | ACGACATATATTAAATATTGACCTCCC | 57.114 | 33.333 | 0.00 | 0.00 | 0.00 | 4.30 |
2658 | 5097 | 6.652205 | ATTGACCTCCCTTCTGGTTTATAA | 57.348 | 37.500 | 0.00 | 0.00 | 36.59 | 0.98 |
2660 | 5099 | 4.080526 | TGACCTCCCTTCTGGTTTATAAGC | 60.081 | 45.833 | 0.00 | 0.00 | 36.59 | 3.09 |
2662 | 5101 | 4.540502 | ACCTCCCTTCTGGTTTATAAGCTT | 59.459 | 41.667 | 3.48 | 3.48 | 31.62 | 3.74 |
2667 | 5106 | 9.190317 | CTCCCTTCTGGTTTATAAGCTTAATTT | 57.810 | 33.333 | 10.85 | 0.00 | 34.77 | 1.82 |
2668 | 5107 | 9.541884 | TCCCTTCTGGTTTATAAGCTTAATTTT | 57.458 | 29.630 | 10.85 | 0.00 | 34.77 | 1.82 |
2681 | 5120 | 9.958180 | ATAAGCTTAATTTTTGTTTATGGGCTT | 57.042 | 25.926 | 10.85 | 0.00 | 38.42 | 4.35 |
2697 | 6164 | 5.379732 | TGGGCTTAAATTTTTGGTCGTAG | 57.620 | 39.130 | 0.00 | 0.00 | 0.00 | 3.51 |
2708 | 6175 | 4.896870 | TTTTGGTCGTAGGCGAAAAGAGC | 61.897 | 47.826 | 0.00 | 0.00 | 44.23 | 4.09 |
2736 | 6203 | 4.741321 | ATTTAACCATTGCCCACATCTG | 57.259 | 40.909 | 0.00 | 0.00 | 0.00 | 2.90 |
2737 | 6204 | 1.473258 | TAACCATTGCCCACATCTGC | 58.527 | 50.000 | 0.00 | 0.00 | 0.00 | 4.26 |
2739 | 6206 | 1.252904 | ACCATTGCCCACATCTGCAC | 61.253 | 55.000 | 0.00 | 0.00 | 37.18 | 4.57 |
2741 | 6208 | 0.968901 | CATTGCCCACATCTGCACCT | 60.969 | 55.000 | 0.00 | 0.00 | 37.18 | 4.00 |
2742 | 6209 | 0.968901 | ATTGCCCACATCTGCACCTG | 60.969 | 55.000 | 0.00 | 0.00 | 37.18 | 4.00 |
2743 | 6210 | 2.753043 | GCCCACATCTGCACCTGG | 60.753 | 66.667 | 0.00 | 0.00 | 0.00 | 4.45 |
2744 | 6211 | 3.080641 | CCCACATCTGCACCTGGA | 58.919 | 61.111 | 0.00 | 0.00 | 0.00 | 3.86 |
2745 | 6212 | 1.377725 | CCCACATCTGCACCTGGAC | 60.378 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
2746 | 6213 | 1.377725 | CCACATCTGCACCTGGACC | 60.378 | 63.158 | 0.00 | 0.00 | 0.00 | 4.46 |
2748 | 6215 | 1.847506 | ACATCTGCACCTGGACCCA | 60.848 | 57.895 | 0.00 | 0.00 | 0.00 | 4.51 |
2749 | 6216 | 1.077930 | CATCTGCACCTGGACCCAG | 60.078 | 63.158 | 9.06 | 9.06 | 43.26 | 4.45 |
2750 | 6217 | 1.229625 | ATCTGCACCTGGACCCAGA | 60.230 | 57.895 | 17.19 | 9.25 | 46.30 | 3.86 |
2753 | 6220 | 1.770110 | TGCACCTGGACCCAGAACT | 60.770 | 57.895 | 17.19 | 0.00 | 46.30 | 3.01 |
2754 | 6221 | 1.003233 | GCACCTGGACCCAGAACTC | 60.003 | 63.158 | 17.19 | 0.66 | 46.30 | 3.01 |
2755 | 6222 | 1.293498 | CACCTGGACCCAGAACTCG | 59.707 | 63.158 | 17.19 | 3.00 | 46.30 | 4.18 |
2756 | 6223 | 1.152312 | ACCTGGACCCAGAACTCGT | 60.152 | 57.895 | 17.19 | 3.62 | 46.30 | 4.18 |
2757 | 6224 | 0.113776 | ACCTGGACCCAGAACTCGTA | 59.886 | 55.000 | 17.19 | 0.00 | 46.30 | 3.43 |
2758 | 6225 | 1.273098 | ACCTGGACCCAGAACTCGTAT | 60.273 | 52.381 | 17.19 | 0.00 | 46.30 | 3.06 |
2759 | 6226 | 1.409427 | CCTGGACCCAGAACTCGTATC | 59.591 | 57.143 | 17.19 | 0.00 | 46.30 | 2.24 |
2760 | 6227 | 2.100197 | CTGGACCCAGAACTCGTATCA | 58.900 | 52.381 | 10.47 | 0.00 | 46.30 | 2.15 |
2762 | 6229 | 3.104512 | TGGACCCAGAACTCGTATCATT | 58.895 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
2763 | 6230 | 3.118775 | TGGACCCAGAACTCGTATCATTG | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 2.82 |
2764 | 6231 | 3.458189 | GACCCAGAACTCGTATCATTGG | 58.542 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2765 | 6232 | 2.213499 | CCCAGAACTCGTATCATTGGC | 58.787 | 52.381 | 0.00 | 0.00 | 0.00 | 4.52 |
2766 | 6233 | 1.860950 | CCAGAACTCGTATCATTGGCG | 59.139 | 52.381 | 0.00 | 0.00 | 0.00 | 5.69 |
2767 | 6234 | 1.860950 | CAGAACTCGTATCATTGGCGG | 59.139 | 52.381 | 0.00 | 0.00 | 0.00 | 6.13 |
2768 | 6235 | 1.754803 | AGAACTCGTATCATTGGCGGA | 59.245 | 47.619 | 0.00 | 0.00 | 0.00 | 5.54 |
2769 | 6236 | 2.128035 | GAACTCGTATCATTGGCGGAG | 58.872 | 52.381 | 0.00 | 0.00 | 0.00 | 4.63 |
2770 | 6237 | 1.399714 | ACTCGTATCATTGGCGGAGA | 58.600 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
2771 | 6238 | 1.338337 | ACTCGTATCATTGGCGGAGAG | 59.662 | 52.381 | 0.00 | 0.00 | 0.00 | 3.20 |
2772 | 6239 | 0.673985 | TCGTATCATTGGCGGAGAGG | 59.326 | 55.000 | 0.00 | 0.00 | 0.00 | 3.69 |
2773 | 6240 | 0.946221 | CGTATCATTGGCGGAGAGGC | 60.946 | 60.000 | 0.00 | 0.00 | 46.95 | 4.70 |
2774 | 6241 | 0.394565 | GTATCATTGGCGGAGAGGCT | 59.605 | 55.000 | 0.00 | 0.00 | 46.88 | 4.58 |
2775 | 6242 | 0.394192 | TATCATTGGCGGAGAGGCTG | 59.606 | 55.000 | 0.00 | 0.00 | 46.88 | 4.85 |
2776 | 6243 | 1.340399 | ATCATTGGCGGAGAGGCTGA | 61.340 | 55.000 | 0.00 | 0.00 | 46.88 | 4.26 |
2778 | 6245 | 3.376935 | ATTGGCGGAGAGGCTGACG | 62.377 | 63.158 | 0.00 | 0.00 | 46.88 | 4.35 |
2780 | 6247 | 4.500116 | GGCGGAGAGGCTGACGAC | 62.500 | 72.222 | 0.00 | 0.00 | 42.90 | 4.34 |
2782 | 6249 | 4.838486 | CGGAGAGGCTGACGACGC | 62.838 | 72.222 | 0.00 | 0.00 | 0.00 | 5.19 |
2783 | 6250 | 4.838486 | GGAGAGGCTGACGACGCG | 62.838 | 72.222 | 3.53 | 3.53 | 0.00 | 6.01 |
2784 | 6251 | 3.800863 | GAGAGGCTGACGACGCGA | 61.801 | 66.667 | 15.93 | 0.00 | 0.00 | 5.87 |
2785 | 6252 | 3.726631 | GAGAGGCTGACGACGCGAG | 62.727 | 68.421 | 15.93 | 9.24 | 0.00 | 5.03 |
2812 | 6279 | 2.672651 | TGACCAGCCATTGCACCG | 60.673 | 61.111 | 0.00 | 0.00 | 41.13 | 4.94 |
2813 | 6280 | 3.443045 | GACCAGCCATTGCACCGG | 61.443 | 66.667 | 0.00 | 0.00 | 41.13 | 5.28 |
2819 | 6286 | 2.676121 | CCATTGCACCGGCCTGAA | 60.676 | 61.111 | 0.00 | 0.00 | 40.13 | 3.02 |
2820 | 6287 | 2.703798 | CCATTGCACCGGCCTGAAG | 61.704 | 63.158 | 0.00 | 0.00 | 40.13 | 3.02 |
2821 | 6288 | 2.361610 | ATTGCACCGGCCTGAAGG | 60.362 | 61.111 | 0.00 | 0.00 | 40.13 | 3.46 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
7 | 8 | 1.219646 | GCATTGCACCAAACCAACAG | 58.780 | 50.000 | 3.15 | 0.00 | 0.00 | 3.16 |
22 | 23 | 0.977108 | ATCCGGGGTTGCATTGCATT | 60.977 | 50.000 | 12.95 | 0.00 | 38.76 | 3.56 |
23 | 24 | 0.106268 | TATCCGGGGTTGCATTGCAT | 60.106 | 50.000 | 12.95 | 0.00 | 38.76 | 3.96 |
59 | 60 | 4.200092 | TGATGGTCGATATATAGCTCGCT | 58.800 | 43.478 | 0.00 | 0.00 | 34.94 | 4.93 |
67 | 68 | 9.961264 | ATATACGTAGGATGATGGTCGATATAT | 57.039 | 33.333 | 0.08 | 0.00 | 0.00 | 0.86 |
72 | 73 | 5.819379 | GGTATATACGTAGGATGATGGTCGA | 59.181 | 44.000 | 6.79 | 0.00 | 0.00 | 4.20 |
76 | 77 | 6.238786 | GCTCTGGTATATACGTAGGATGATGG | 60.239 | 46.154 | 6.79 | 0.00 | 0.00 | 3.51 |
91 | 92 | 8.889717 | GCTACAATTGTTTTTAGCTCTGGTATA | 58.110 | 33.333 | 17.78 | 0.00 | 37.87 | 1.47 |
92 | 93 | 7.393234 | TGCTACAATTGTTTTTAGCTCTGGTAT | 59.607 | 33.333 | 24.31 | 0.00 | 40.32 | 2.73 |
93 | 94 | 6.712998 | TGCTACAATTGTTTTTAGCTCTGGTA | 59.287 | 34.615 | 24.31 | 7.30 | 40.32 | 3.25 |
94 | 95 | 5.534654 | TGCTACAATTGTTTTTAGCTCTGGT | 59.465 | 36.000 | 24.31 | 0.00 | 40.32 | 4.00 |
95 | 96 | 6.012658 | TGCTACAATTGTTTTTAGCTCTGG | 57.987 | 37.500 | 24.31 | 0.00 | 40.32 | 3.86 |
96 | 97 | 6.467047 | CGATGCTACAATTGTTTTTAGCTCTG | 59.533 | 38.462 | 24.31 | 13.85 | 40.32 | 3.35 |
97 | 98 | 6.149474 | ACGATGCTACAATTGTTTTTAGCTCT | 59.851 | 34.615 | 24.31 | 15.37 | 40.32 | 4.09 |
98 | 99 | 6.314784 | ACGATGCTACAATTGTTTTTAGCTC | 58.685 | 36.000 | 24.31 | 18.75 | 40.32 | 4.09 |
99 | 100 | 6.254281 | ACGATGCTACAATTGTTTTTAGCT | 57.746 | 33.333 | 24.31 | 14.13 | 40.32 | 3.32 |
100 | 101 | 6.927933 | AACGATGCTACAATTGTTTTTAGC | 57.072 | 33.333 | 17.78 | 18.91 | 40.16 | 3.09 |
116 | 117 | 9.670180 | GCTACAATTGTTTTTATTAAACGATGC | 57.330 | 29.630 | 17.78 | 0.00 | 35.16 | 3.91 |
120 | 121 | 9.459276 | GCATGCTACAATTGTTTTTATTAAACG | 57.541 | 29.630 | 17.78 | 0.00 | 33.05 | 3.60 |
121 | 122 | 9.459276 | CGCATGCTACAATTGTTTTTATTAAAC | 57.541 | 29.630 | 17.78 | 0.00 | 0.00 | 2.01 |
124 | 125 | 7.810282 | ACACGCATGCTACAATTGTTTTTATTA | 59.190 | 29.630 | 17.78 | 0.00 | 0.00 | 0.98 |
125 | 126 | 6.644592 | ACACGCATGCTACAATTGTTTTTATT | 59.355 | 30.769 | 17.78 | 0.00 | 0.00 | 1.40 |
126 | 127 | 6.089283 | CACACGCATGCTACAATTGTTTTTAT | 59.911 | 34.615 | 17.78 | 4.14 | 0.00 | 1.40 |
177 | 200 | 2.716424 | CAAAAGGGGAGGGCCATCTATA | 59.284 | 50.000 | 18.35 | 0.00 | 35.15 | 1.31 |
202 | 256 | 2.733218 | TGCAAGTCTCGCGTTCCG | 60.733 | 61.111 | 5.77 | 0.00 | 38.61 | 4.30 |
256 | 316 | 3.814283 | CCACCCTGACTACGACTAGATAC | 59.186 | 52.174 | 0.00 | 0.00 | 0.00 | 2.24 |
296 | 364 | 3.379688 | GCACCAGATGAGGATTTTCTTCC | 59.620 | 47.826 | 0.00 | 0.00 | 35.90 | 3.46 |
372 | 651 | 0.314302 | CCGGTCTCGTCTTGTCTTGT | 59.686 | 55.000 | 0.00 | 0.00 | 33.95 | 3.16 |
386 | 665 | 0.394625 | ACTCTACTCTGCTCCCGGTC | 60.395 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
467 | 765 | 1.278238 | CATTACTCGCGGTTCCAGAC | 58.722 | 55.000 | 6.13 | 0.00 | 0.00 | 3.51 |
486 | 784 | 1.694696 | AGACCTGAATATTCGGAGGGC | 59.305 | 52.381 | 23.36 | 19.80 | 35.56 | 5.19 |
537 | 835 | 3.745163 | ACACGGGTTAACATCCGAGTTTT | 60.745 | 43.478 | 24.39 | 4.43 | 45.24 | 2.43 |
538 | 836 | 2.224354 | ACACGGGTTAACATCCGAGTTT | 60.224 | 45.455 | 24.39 | 4.74 | 45.24 | 2.66 |
539 | 837 | 1.345415 | ACACGGGTTAACATCCGAGTT | 59.655 | 47.619 | 24.39 | 9.27 | 45.24 | 3.01 |
544 | 842 | 3.816523 | TCAGAAAACACGGGTTAACATCC | 59.183 | 43.478 | 1.98 | 0.00 | 35.82 | 3.51 |
545 | 843 | 4.609783 | CGTCAGAAAACACGGGTTAACATC | 60.610 | 45.833 | 1.98 | 0.13 | 35.82 | 3.06 |
546 | 844 | 3.249080 | CGTCAGAAAACACGGGTTAACAT | 59.751 | 43.478 | 1.98 | 0.00 | 35.82 | 2.71 |
547 | 845 | 2.608546 | CGTCAGAAAACACGGGTTAACA | 59.391 | 45.455 | 1.98 | 0.00 | 35.82 | 2.41 |
548 | 846 | 2.600556 | GCGTCAGAAAACACGGGTTAAC | 60.601 | 50.000 | 1.98 | 0.50 | 35.82 | 2.01 |
549 | 847 | 1.598601 | GCGTCAGAAAACACGGGTTAA | 59.401 | 47.619 | 1.98 | 0.00 | 35.82 | 2.01 |
550 | 848 | 1.202557 | AGCGTCAGAAAACACGGGTTA | 60.203 | 47.619 | 1.98 | 0.00 | 35.82 | 2.85 |
551 | 849 | 0.463116 | AGCGTCAGAAAACACGGGTT | 60.463 | 50.000 | 0.00 | 0.00 | 39.43 | 4.11 |
552 | 850 | 0.463116 | AAGCGTCAGAAAACACGGGT | 60.463 | 50.000 | 0.00 | 0.00 | 36.50 | 5.28 |
553 | 851 | 0.661020 | AAAGCGTCAGAAAACACGGG | 59.339 | 50.000 | 0.00 | 0.00 | 36.50 | 5.28 |
554 | 852 | 1.597663 | AGAAAGCGTCAGAAAACACGG | 59.402 | 47.619 | 0.00 | 0.00 | 36.50 | 4.94 |
561 | 859 | 1.067974 | TCGTGGAAGAAAGCGTCAGAA | 59.932 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
639 | 2110 | 4.314740 | AGCATAAACTCAACCGCAAAAA | 57.685 | 36.364 | 0.00 | 0.00 | 0.00 | 1.94 |
640 | 2111 | 4.614993 | GCTAGCATAAACTCAACCGCAAAA | 60.615 | 41.667 | 10.63 | 0.00 | 0.00 | 2.44 |
641 | 2112 | 3.119990 | GCTAGCATAAACTCAACCGCAAA | 60.120 | 43.478 | 10.63 | 0.00 | 0.00 | 3.68 |
642 | 2113 | 2.418628 | GCTAGCATAAACTCAACCGCAA | 59.581 | 45.455 | 10.63 | 0.00 | 0.00 | 4.85 |
643 | 2114 | 2.006888 | GCTAGCATAAACTCAACCGCA | 58.993 | 47.619 | 10.63 | 0.00 | 0.00 | 5.69 |
644 | 2115 | 2.280628 | AGCTAGCATAAACTCAACCGC | 58.719 | 47.619 | 18.83 | 0.00 | 0.00 | 5.68 |
645 | 2116 | 6.604735 | ATTAAGCTAGCATAAACTCAACCG | 57.395 | 37.500 | 18.83 | 0.00 | 0.00 | 4.44 |
649 | 2120 | 9.758651 | TCGATTAATTAAGCTAGCATAAACTCA | 57.241 | 29.630 | 18.83 | 2.48 | 0.00 | 3.41 |
657 | 2128 | 8.506437 | CCATTTGATCGATTAATTAAGCTAGCA | 58.494 | 33.333 | 18.83 | 6.84 | 0.00 | 3.49 |
658 | 2129 | 8.507249 | ACCATTTGATCGATTAATTAAGCTAGC | 58.493 | 33.333 | 6.62 | 6.62 | 0.00 | 3.42 |
659 | 2130 | 9.817365 | CACCATTTGATCGATTAATTAAGCTAG | 57.183 | 33.333 | 11.41 | 0.00 | 0.00 | 3.42 |
660 | 2131 | 8.289618 | GCACCATTTGATCGATTAATTAAGCTA | 58.710 | 33.333 | 11.41 | 1.11 | 0.00 | 3.32 |
661 | 2132 | 7.141363 | GCACCATTTGATCGATTAATTAAGCT | 58.859 | 34.615 | 11.41 | 0.00 | 0.00 | 3.74 |
662 | 2133 | 6.917477 | TGCACCATTTGATCGATTAATTAAGC | 59.083 | 34.615 | 3.18 | 3.31 | 0.00 | 3.09 |
663 | 2134 | 8.854979 | TTGCACCATTTGATCGATTAATTAAG | 57.145 | 30.769 | 3.18 | 0.00 | 0.00 | 1.85 |
664 | 2135 | 8.465999 | ACTTGCACCATTTGATCGATTAATTAA | 58.534 | 29.630 | 3.18 | 0.00 | 0.00 | 1.40 |
665 | 2136 | 7.995289 | ACTTGCACCATTTGATCGATTAATTA | 58.005 | 30.769 | 3.18 | 0.00 | 0.00 | 1.40 |
666 | 2137 | 6.866480 | ACTTGCACCATTTGATCGATTAATT | 58.134 | 32.000 | 3.18 | 0.00 | 0.00 | 1.40 |
721 | 2196 | 4.967575 | TGATTTCGTTTCTTTTTCTCGTGC | 59.032 | 37.500 | 0.00 | 0.00 | 0.00 | 5.34 |
775 | 2265 | 2.348059 | GCTGCTTTTGAGACGAGATGAG | 59.652 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
776 | 2266 | 2.289010 | TGCTGCTTTTGAGACGAGATGA | 60.289 | 45.455 | 0.00 | 0.00 | 0.00 | 2.92 |
777 | 2267 | 2.071540 | TGCTGCTTTTGAGACGAGATG | 58.928 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
778 | 2268 | 2.072298 | GTGCTGCTTTTGAGACGAGAT | 58.928 | 47.619 | 0.00 | 0.00 | 0.00 | 2.75 |
779 | 2269 | 1.502231 | GTGCTGCTTTTGAGACGAGA | 58.498 | 50.000 | 0.00 | 0.00 | 0.00 | 4.04 |
874 | 2384 | 3.006967 | GCTGGGTCTATGTATACACTGGG | 59.993 | 52.174 | 7.96 | 0.00 | 0.00 | 4.45 |
880 | 2392 | 2.028020 | GCTGGGCTGGGTCTATGTATAC | 60.028 | 54.545 | 0.00 | 0.00 | 0.00 | 1.47 |
889 | 2408 | 3.397613 | CTGCTAGCTGGGCTGGGTC | 62.398 | 68.421 | 17.23 | 0.00 | 40.10 | 4.46 |
890 | 2409 | 3.406200 | CTGCTAGCTGGGCTGGGT | 61.406 | 66.667 | 17.23 | 0.00 | 40.10 | 4.51 |
891 | 2410 | 4.871910 | GCTGCTAGCTGGGCTGGG | 62.872 | 72.222 | 21.46 | 8.76 | 40.10 | 4.45 |
1539 | 3093 | 3.264866 | GAGCGTCACGTTCCTCGGT | 62.265 | 63.158 | 2.00 | 0.00 | 44.69 | 4.69 |
1881 | 3441 | 6.857964 | GCAGTAATAATCGAATTGATTGGGTG | 59.142 | 38.462 | 5.99 | 0.00 | 46.72 | 4.61 |
1913 | 3473 | 4.273480 | CCAGATCACACGAATTAATCCACC | 59.727 | 45.833 | 0.00 | 0.00 | 0.00 | 4.61 |
1948 | 3545 | 2.761786 | ACTATTTGCATGCATCCCCT | 57.238 | 45.000 | 23.37 | 7.18 | 0.00 | 4.79 |
2019 | 4387 | 8.071122 | TGACACAAGTTTATTTTTATGCAAGC | 57.929 | 30.769 | 0.00 | 0.00 | 0.00 | 4.01 |
2036 | 4404 | 2.768253 | TGTAGCCATCCTGACACAAG | 57.232 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2037 | 4405 | 2.305635 | ACATGTAGCCATCCTGACACAA | 59.694 | 45.455 | 0.00 | 0.00 | 0.00 | 3.33 |
2038 | 4406 | 1.908619 | ACATGTAGCCATCCTGACACA | 59.091 | 47.619 | 0.00 | 0.00 | 0.00 | 3.72 |
2039 | 4407 | 2.555199 | GACATGTAGCCATCCTGACAC | 58.445 | 52.381 | 0.00 | 0.00 | 0.00 | 3.67 |
2040 | 4408 | 1.136891 | CGACATGTAGCCATCCTGACA | 59.863 | 52.381 | 0.00 | 0.00 | 0.00 | 3.58 |
2041 | 4409 | 1.409064 | TCGACATGTAGCCATCCTGAC | 59.591 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
2042 | 4410 | 1.775385 | TCGACATGTAGCCATCCTGA | 58.225 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2043 | 4411 | 2.036346 | TCATCGACATGTAGCCATCCTG | 59.964 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2044 | 4412 | 2.319844 | TCATCGACATGTAGCCATCCT | 58.680 | 47.619 | 0.00 | 0.00 | 0.00 | 3.24 |
2045 | 4413 | 2.820059 | TCATCGACATGTAGCCATCC | 57.180 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2046 | 4414 | 3.681897 | GGATTCATCGACATGTAGCCATC | 59.318 | 47.826 | 0.00 | 0.00 | 36.22 | 3.51 |
2047 | 4415 | 3.557898 | GGGATTCATCGACATGTAGCCAT | 60.558 | 47.826 | 0.00 | 0.00 | 37.54 | 4.40 |
2049 | 4417 | 2.037772 | AGGGATTCATCGACATGTAGCC | 59.962 | 50.000 | 0.00 | 0.00 | 35.62 | 3.93 |
2050 | 4418 | 3.062763 | CAGGGATTCATCGACATGTAGC | 58.937 | 50.000 | 0.00 | 0.00 | 0.00 | 3.58 |
2091 | 4459 | 5.063438 | ACCGTAATCGTTCAATGACAATGAG | 59.937 | 40.000 | 0.00 | 0.00 | 35.01 | 2.90 |
2103 | 4471 | 0.392060 | AGCCCCAACCGTAATCGTTC | 60.392 | 55.000 | 0.00 | 0.00 | 35.01 | 3.95 |
2107 | 4505 | 0.746923 | GGACAGCCCCAACCGTAATC | 60.747 | 60.000 | 0.00 | 0.00 | 0.00 | 1.75 |
2201 | 4599 | 1.414919 | TGGTGAGGTTTAAGTCGTGCT | 59.585 | 47.619 | 0.00 | 0.00 | 0.00 | 4.40 |
2202 | 4600 | 1.873698 | TGGTGAGGTTTAAGTCGTGC | 58.126 | 50.000 | 0.00 | 0.00 | 0.00 | 5.34 |
2203 | 4601 | 3.199677 | TGTTGGTGAGGTTTAAGTCGTG | 58.800 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
2265 | 4663 | 0.398318 | AACTCAACTCAGGCTCCACC | 59.602 | 55.000 | 0.00 | 0.00 | 39.61 | 4.61 |
2331 | 4729 | 7.555087 | ACTTTGAGAAGAAGTCAGATGATAGG | 58.445 | 38.462 | 0.00 | 0.00 | 36.69 | 2.57 |
2466 | 4875 | 3.249080 | CCCGAGTTCGAGAGAGTATTCTC | 59.751 | 52.174 | 7.14 | 7.14 | 43.69 | 2.87 |
2516 | 4926 | 5.882553 | TGTAAGTTCGAAAGGTTTTTGGTC | 58.117 | 37.500 | 0.00 | 0.00 | 0.00 | 4.02 |
2518 | 4928 | 4.738252 | GCTGTAAGTTCGAAAGGTTTTTGG | 59.262 | 41.667 | 0.00 | 0.00 | 35.30 | 3.28 |
2520 | 4930 | 5.578776 | CAGCTGTAAGTTCGAAAGGTTTTT | 58.421 | 37.500 | 5.25 | 0.00 | 35.30 | 1.94 |
2569 | 4985 | 1.595382 | GGCTTCGTCCCCATGATCG | 60.595 | 63.158 | 0.00 | 0.00 | 0.00 | 3.69 |
2578 | 4994 | 2.356069 | GAGATTTTGGATGGCTTCGTCC | 59.644 | 50.000 | 0.00 | 0.00 | 44.82 | 4.79 |
2641 | 5080 | 8.753497 | AATTAAGCTTATAAACCAGAAGGGAG | 57.247 | 34.615 | 7.08 | 0.00 | 41.15 | 4.30 |
2658 | 5097 | 9.785982 | TTTAAGCCCATAAACAAAAATTAAGCT | 57.214 | 25.926 | 0.00 | 0.00 | 0.00 | 3.74 |
2667 | 5106 | 8.753497 | ACCAAAAATTTAAGCCCATAAACAAA | 57.247 | 26.923 | 0.00 | 0.00 | 0.00 | 2.83 |
2668 | 5107 | 7.171678 | CGACCAAAAATTTAAGCCCATAAACAA | 59.828 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
2669 | 5108 | 6.647067 | CGACCAAAAATTTAAGCCCATAAACA | 59.353 | 34.615 | 0.00 | 0.00 | 0.00 | 2.83 |
2670 | 5109 | 6.647481 | ACGACCAAAAATTTAAGCCCATAAAC | 59.353 | 34.615 | 0.00 | 0.00 | 0.00 | 2.01 |
2671 | 5110 | 6.760291 | ACGACCAAAAATTTAAGCCCATAAA | 58.240 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
2673 | 5112 | 5.986501 | ACGACCAAAAATTTAAGCCCATA | 57.013 | 34.783 | 0.00 | 0.00 | 0.00 | 2.74 |
2674 | 5113 | 4.882842 | ACGACCAAAAATTTAAGCCCAT | 57.117 | 36.364 | 0.00 | 0.00 | 0.00 | 4.00 |
2675 | 5114 | 4.218852 | CCTACGACCAAAAATTTAAGCCCA | 59.781 | 41.667 | 0.00 | 0.00 | 0.00 | 5.36 |
2676 | 5115 | 4.740268 | CCTACGACCAAAAATTTAAGCCC | 58.260 | 43.478 | 0.00 | 0.00 | 0.00 | 5.19 |
2677 | 5116 | 4.171005 | GCCTACGACCAAAAATTTAAGCC | 58.829 | 43.478 | 0.00 | 0.00 | 0.00 | 4.35 |
2678 | 5117 | 3.849708 | CGCCTACGACCAAAAATTTAAGC | 59.150 | 43.478 | 0.00 | 0.00 | 43.93 | 3.09 |
2679 | 5118 | 5.285798 | TCGCCTACGACCAAAAATTTAAG | 57.714 | 39.130 | 0.00 | 0.00 | 45.12 | 1.85 |
2705 | 6172 | 2.825086 | ATGGTTAAATTGCGACGCTC | 57.175 | 45.000 | 22.08 | 2.87 | 0.00 | 5.03 |
2716 | 6183 | 2.233431 | GCAGATGTGGGCAATGGTTAAA | 59.767 | 45.455 | 0.00 | 0.00 | 0.00 | 1.52 |
2734 | 6201 | 1.302832 | GTTCTGGGTCCAGGTGCAG | 60.303 | 63.158 | 16.15 | 2.37 | 43.75 | 4.41 |
2736 | 6203 | 1.003233 | GAGTTCTGGGTCCAGGTGC | 60.003 | 63.158 | 16.15 | 7.50 | 43.75 | 5.01 |
2737 | 6204 | 1.293498 | CGAGTTCTGGGTCCAGGTG | 59.707 | 63.158 | 16.15 | 0.11 | 43.75 | 4.00 |
2739 | 6206 | 1.409427 | GATACGAGTTCTGGGTCCAGG | 59.591 | 57.143 | 16.15 | 3.35 | 43.75 | 4.45 |
2741 | 6208 | 2.225382 | TGATACGAGTTCTGGGTCCA | 57.775 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2742 | 6209 | 3.458189 | CAATGATACGAGTTCTGGGTCC | 58.542 | 50.000 | 0.00 | 0.00 | 0.00 | 4.46 |
2743 | 6210 | 3.458189 | CCAATGATACGAGTTCTGGGTC | 58.542 | 50.000 | 0.00 | 0.00 | 0.00 | 4.46 |
2744 | 6211 | 2.420129 | GCCAATGATACGAGTTCTGGGT | 60.420 | 50.000 | 0.00 | 0.00 | 0.00 | 4.51 |
2745 | 6212 | 2.213499 | GCCAATGATACGAGTTCTGGG | 58.787 | 52.381 | 0.00 | 0.00 | 0.00 | 4.45 |
2746 | 6213 | 1.860950 | CGCCAATGATACGAGTTCTGG | 59.139 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
2748 | 6215 | 1.754803 | TCCGCCAATGATACGAGTTCT | 59.245 | 47.619 | 0.00 | 0.00 | 0.00 | 3.01 |
2749 | 6216 | 2.128035 | CTCCGCCAATGATACGAGTTC | 58.872 | 52.381 | 0.00 | 0.00 | 0.00 | 3.01 |
2750 | 6217 | 1.754803 | TCTCCGCCAATGATACGAGTT | 59.245 | 47.619 | 0.00 | 0.00 | 0.00 | 3.01 |
2753 | 6220 | 0.673985 | CCTCTCCGCCAATGATACGA | 59.326 | 55.000 | 0.00 | 0.00 | 0.00 | 3.43 |
2754 | 6221 | 0.946221 | GCCTCTCCGCCAATGATACG | 60.946 | 60.000 | 0.00 | 0.00 | 0.00 | 3.06 |
2755 | 6222 | 0.394565 | AGCCTCTCCGCCAATGATAC | 59.605 | 55.000 | 0.00 | 0.00 | 0.00 | 2.24 |
2756 | 6223 | 0.394192 | CAGCCTCTCCGCCAATGATA | 59.606 | 55.000 | 0.00 | 0.00 | 0.00 | 2.15 |
2757 | 6224 | 1.147824 | CAGCCTCTCCGCCAATGAT | 59.852 | 57.895 | 0.00 | 0.00 | 0.00 | 2.45 |
2758 | 6225 | 1.989508 | TCAGCCTCTCCGCCAATGA | 60.990 | 57.895 | 0.00 | 0.00 | 0.00 | 2.57 |
2759 | 6226 | 1.817099 | GTCAGCCTCTCCGCCAATG | 60.817 | 63.158 | 0.00 | 0.00 | 0.00 | 2.82 |
2760 | 6227 | 2.586792 | GTCAGCCTCTCCGCCAAT | 59.413 | 61.111 | 0.00 | 0.00 | 0.00 | 3.16 |
2763 | 6230 | 4.500116 | GTCGTCAGCCTCTCCGCC | 62.500 | 72.222 | 0.00 | 0.00 | 0.00 | 6.13 |
2764 | 6231 | 4.838486 | CGTCGTCAGCCTCTCCGC | 62.838 | 72.222 | 0.00 | 0.00 | 0.00 | 5.54 |
2765 | 6232 | 4.838486 | GCGTCGTCAGCCTCTCCG | 62.838 | 72.222 | 0.00 | 0.00 | 0.00 | 4.63 |
2766 | 6233 | 4.838486 | CGCGTCGTCAGCCTCTCC | 62.838 | 72.222 | 0.00 | 0.00 | 0.00 | 3.71 |
2767 | 6234 | 3.726631 | CTCGCGTCGTCAGCCTCTC | 62.727 | 68.421 | 5.77 | 0.00 | 0.00 | 3.20 |
2768 | 6235 | 3.805307 | CTCGCGTCGTCAGCCTCT | 61.805 | 66.667 | 5.77 | 0.00 | 0.00 | 3.69 |
2769 | 6236 | 4.838486 | CCTCGCGTCGTCAGCCTC | 62.838 | 72.222 | 5.77 | 0.00 | 0.00 | 4.70 |
2773 | 6240 | 4.778415 | CCCACCTCGCGTCGTCAG | 62.778 | 72.222 | 5.77 | 0.00 | 0.00 | 3.51 |
2795 | 6262 | 2.672651 | CGGTGCAATGGCTGGTCA | 60.673 | 61.111 | 0.00 | 0.00 | 41.91 | 4.02 |
2802 | 6269 | 2.676121 | TTCAGGCCGGTGCAATGG | 60.676 | 61.111 | 1.90 | 1.07 | 40.13 | 3.16 |
2803 | 6270 | 2.703798 | CCTTCAGGCCGGTGCAATG | 61.704 | 63.158 | 1.90 | 0.00 | 40.13 | 2.82 |
2804 | 6271 | 2.361610 | CCTTCAGGCCGGTGCAAT | 60.362 | 61.111 | 1.90 | 0.00 | 40.13 | 3.56 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.