Multiple sequence alignment - TraesCS3A01G500100
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 | TraesCS3A01G500100 | chr3A | 100.000 | 3551 | 0 | 0 | 1 | 3551 | 724696140 | 724699690 | 0.000000e+00 | 6558.0 |
1 | TraesCS3A01G500100 | chr3A | 85.053 | 2636 | 306 | 39 | 2 | 2556 | 724559766 | 724562394 | 0.000000e+00 | 2604.0 |
2 | TraesCS3A01G500100 | chr3A | 82.788 | 947 | 132 | 15 | 1630 | 2556 | 724542974 | 724543909 | 0.000000e+00 | 817.0 |
3 | TraesCS3A01G500100 | chr3A | 76.190 | 1323 | 238 | 36 | 4 | 1271 | 724541398 | 724542698 | 8.370000e-176 | 627.0 |
4 | TraesCS3A01G500100 | chr3D | 94.899 | 2568 | 126 | 2 | 2 | 2567 | 593706463 | 593709027 | 0.000000e+00 | 4012.0 |
5 | TraesCS3A01G500100 | chr3D | 94.684 | 696 | 27 | 2 | 2662 | 3357 | 593709390 | 593710075 | 0.000000e+00 | 1072.0 |
6 | TraesCS3A01G500100 | chr3D | 81.833 | 1233 | 196 | 20 | 1355 | 2567 | 593654814 | 593653590 | 0.000000e+00 | 1011.0 |
7 | TraesCS3A01G500100 | chr3D | 80.885 | 1266 | 191 | 30 | 1324 | 2550 | 593689299 | 593690552 | 0.000000e+00 | 950.0 |
8 | TraesCS3A01G500100 | chr3D | 77.519 | 1330 | 219 | 42 | 4 | 1280 | 593687995 | 593689297 | 0.000000e+00 | 726.0 |
9 | TraesCS3A01G500100 | chr3D | 95.238 | 84 | 4 | 0 | 2580 | 2663 | 593709080 | 593709163 | 2.220000e-27 | 134.0 |
10 | TraesCS3A01G500100 | chr3D | 96.970 | 66 | 2 | 0 | 1 | 66 | 593683834 | 593683899 | 1.040000e-20 | 111.0 |
11 | TraesCS3A01G500100 | chrUn | 92.766 | 2585 | 165 | 9 | 1 | 2567 | 41910552 | 41907972 | 0.000000e+00 | 3718.0 |
12 | TraesCS3A01G500100 | chrUn | 82.157 | 1233 | 192 | 16 | 1355 | 2567 | 41926539 | 41927763 | 0.000000e+00 | 1033.0 |
13 | TraesCS3A01G500100 | chrUn | 77.091 | 1279 | 211 | 39 | 4 | 1224 | 41925196 | 41926450 | 0.000000e+00 | 664.0 |
14 | TraesCS3A01G500100 | chrUn | 92.457 | 464 | 26 | 6 | 3059 | 3521 | 41900177 | 41899722 | 0.000000e+00 | 654.0 |
15 | TraesCS3A01G500100 | chrUn | 94.704 | 321 | 14 | 2 | 2750 | 3069 | 41907422 | 41907104 | 2.460000e-136 | 496.0 |
16 | TraesCS3A01G500100 | chrUn | 93.182 | 88 | 6 | 0 | 2665 | 2752 | 41907592 | 41907505 | 2.880000e-26 | 130.0 |
17 | TraesCS3A01G500100 | chrUn | 91.667 | 84 | 6 | 1 | 2580 | 2663 | 41907916 | 41907834 | 8.060000e-22 | 115.0 |
18 | TraesCS3A01G500100 | chr7B | 74.368 | 1147 | 226 | 40 | 1460 | 2552 | 518676753 | 518675621 | 9.110000e-116 | 427.0 |
19 | TraesCS3A01G500100 | chr4B | 85.366 | 82 | 12 | 0 | 3371 | 3452 | 13988091 | 13988172 | 6.320000e-13 | 86.1 |
20 | TraesCS3A01G500100 | chr4B | 85.366 | 82 | 8 | 2 | 3371 | 3452 | 29333068 | 29332991 | 8.170000e-12 | 82.4 |
21 | TraesCS3A01G500100 | chr1B | 84.507 | 71 | 9 | 2 | 3370 | 3439 | 677026445 | 677026376 | 6.360000e-08 | 69.4 |
22 | TraesCS3A01G500100 | chr5D | 93.182 | 44 | 3 | 0 | 3409 | 3452 | 218641679 | 218641636 | 8.230000e-07 | 65.8 |
23 | TraesCS3A01G500100 | chr2D | 95.000 | 40 | 2 | 0 | 3413 | 3452 | 119845018 | 119845057 | 2.960000e-06 | 63.9 |
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 | TraesCS3A01G500100 | chr3A | 724696140 | 724699690 | 3550 | False | 6558.000000 | 6558 | 100.000000 | 1 | 3551 | 1 | chr3A.!!$F2 | 3550 |
1 | TraesCS3A01G500100 | chr3A | 724559766 | 724562394 | 2628 | False | 2604.000000 | 2604 | 85.053000 | 2 | 2556 | 1 | chr3A.!!$F1 | 2554 |
2 | TraesCS3A01G500100 | chr3A | 724541398 | 724543909 | 2511 | False | 722.000000 | 817 | 79.489000 | 4 | 2556 | 2 | chr3A.!!$F3 | 2552 |
3 | TraesCS3A01G500100 | chr3D | 593706463 | 593710075 | 3612 | False | 1739.333333 | 4012 | 94.940333 | 2 | 3357 | 3 | chr3D.!!$F3 | 3355 |
4 | TraesCS3A01G500100 | chr3D | 593653590 | 593654814 | 1224 | True | 1011.000000 | 1011 | 81.833000 | 1355 | 2567 | 1 | chr3D.!!$R1 | 1212 |
5 | TraesCS3A01G500100 | chr3D | 593687995 | 593690552 | 2557 | False | 838.000000 | 950 | 79.202000 | 4 | 2550 | 2 | chr3D.!!$F2 | 2546 |
6 | TraesCS3A01G500100 | chrUn | 41907104 | 41910552 | 3448 | True | 1114.750000 | 3718 | 93.079750 | 1 | 3069 | 4 | chrUn.!!$R2 | 3068 |
7 | TraesCS3A01G500100 | chrUn | 41925196 | 41927763 | 2567 | False | 848.500000 | 1033 | 79.624000 | 4 | 2567 | 2 | chrUn.!!$F1 | 2563 |
8 | TraesCS3A01G500100 | chr7B | 518675621 | 518676753 | 1132 | True | 427.000000 | 427 | 74.368000 | 1460 | 2552 | 1 | chr7B.!!$R1 | 1092 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
130 | 136 | 0.108945 | GTCGACGACCCCTACAAAGG | 60.109 | 60.0 | 17.25 | 0.0 | 43.25 | 3.11 | F |
921 | 981 | 0.602372 | GATCGGGATGAGCTTCTGGC | 60.602 | 60.0 | 0.00 | 0.0 | 42.19 | 4.85 | F |
1393 | 1509 | 0.039978 | CATACGCTACTCCGCTCCAG | 60.040 | 60.0 | 0.00 | 0.0 | 0.00 | 3.86 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1393 | 1509 | 1.021390 | CGCACCCTGATCTTGTCACC | 61.021 | 60.000 | 0.00 | 0.00 | 32.22 | 4.02 | R |
2324 | 2571 | 1.000955 | GGGCCCTGACTACATCATACG | 59.999 | 57.143 | 17.04 | 0.00 | 36.48 | 3.06 | R |
3360 | 3980 | 0.108329 | GAGTTGCCCTTGTAGCGCTA | 60.108 | 55.000 | 14.45 | 14.45 | 0.00 | 4.26 | R |
All possible primersListed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
112 | 115 | 4.653888 | CGGCCTGTTTTCCCCCGT | 62.654 | 66.667 | 0.00 | 0.00 | 34.56 | 5.28 |
130 | 136 | 0.108945 | GTCGACGACCCCTACAAAGG | 60.109 | 60.000 | 17.25 | 0.00 | 43.25 | 3.11 |
379 | 400 | 0.721718 | GTCAAGCAGTACCATGACGC | 59.278 | 55.000 | 0.00 | 0.00 | 33.62 | 5.19 |
513 | 534 | 1.874562 | CGACCACTACAAGTACGACG | 58.125 | 55.000 | 0.00 | 0.00 | 0.00 | 5.12 |
514 | 535 | 1.460743 | CGACCACTACAAGTACGACGA | 59.539 | 52.381 | 0.00 | 0.00 | 0.00 | 4.20 |
515 | 536 | 2.723010 | CGACCACTACAAGTACGACGAC | 60.723 | 54.545 | 0.00 | 0.00 | 0.00 | 4.34 |
520 | 541 | 1.061711 | CTACAAGTACGACGACTCCGG | 59.938 | 57.143 | 0.00 | 0.00 | 40.78 | 5.14 |
861 | 909 | 3.883744 | CTCAGAGCGTGCCGGGTTT | 62.884 | 63.158 | 2.18 | 0.00 | 0.00 | 3.27 |
921 | 981 | 0.602372 | GATCGGGATGAGCTTCTGGC | 60.602 | 60.000 | 0.00 | 0.00 | 42.19 | 4.85 |
948 | 1008 | 0.762418 | AGTGTGGACGATGTGGGAAA | 59.238 | 50.000 | 0.00 | 0.00 | 0.00 | 3.13 |
949 | 1009 | 1.142060 | AGTGTGGACGATGTGGGAAAA | 59.858 | 47.619 | 0.00 | 0.00 | 0.00 | 2.29 |
991 | 1059 | 1.295423 | GGAACTAGCCAAGCCGACA | 59.705 | 57.895 | 0.00 | 0.00 | 0.00 | 4.35 |
1068 | 1166 | 3.317149 | TGAAGTACAGCTACAACGACACT | 59.683 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
1110 | 1208 | 4.232188 | ACATCACCAGAAGATCAGCAAT | 57.768 | 40.909 | 0.00 | 0.00 | 0.00 | 3.56 |
1185 | 1286 | 3.184581 | GTGACGCTGAGTTTAGTTTCCAG | 59.815 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
1203 | 1307 | 2.423446 | GCGCTAGACATCAGGGGG | 59.577 | 66.667 | 0.00 | 0.00 | 0.00 | 5.40 |
1224 | 1328 | 1.004745 | CAGGCCTACCCAGTCACAATT | 59.995 | 52.381 | 3.98 | 0.00 | 36.11 | 2.32 |
1292 | 1396 | 4.636435 | CCGGCGTTGGGTGGTCTT | 62.636 | 66.667 | 6.01 | 0.00 | 0.00 | 3.01 |
1393 | 1509 | 0.039978 | CATACGCTACTCCGCTCCAG | 60.040 | 60.000 | 0.00 | 0.00 | 0.00 | 3.86 |
1853 | 2037 | 3.770040 | CGCCGTCCTCACCATGGA | 61.770 | 66.667 | 21.47 | 0.00 | 0.00 | 3.41 |
1915 | 2099 | 1.268283 | AAGCAGGAGGAGCCAGTACC | 61.268 | 60.000 | 0.00 | 0.00 | 40.02 | 3.34 |
2324 | 2571 | 1.783031 | CTCCGCTTGATGCCTCATGC | 61.783 | 60.000 | 16.63 | 16.63 | 44.80 | 4.06 |
2441 | 2688 | 1.339644 | ATGGTTATACCGTGCGGGGT | 61.340 | 55.000 | 15.44 | 3.80 | 42.58 | 4.95 |
2514 | 2764 | 0.739112 | CACTTCCTTCGCAGAGGAGC | 60.739 | 60.000 | 5.32 | 0.00 | 38.43 | 4.70 |
2530 | 2780 | 3.088532 | AGGAGCAGATCGAGTGGATATC | 58.911 | 50.000 | 0.00 | 0.00 | 34.82 | 1.63 |
2538 | 2788 | 4.462132 | AGATCGAGTGGATATCAGATGGTG | 59.538 | 45.833 | 4.83 | 0.00 | 34.82 | 4.17 |
2608 | 2901 | 9.515226 | TGTACCTTACTAGCATTTCTTTTTCAT | 57.485 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
2642 | 2935 | 7.380536 | TCTGGTTACGTTTGTATACTTCACAT | 58.619 | 34.615 | 4.17 | 0.00 | 0.00 | 3.21 |
2663 | 2956 | 7.011773 | CACATCTTCTATGTCAGTGAAAAACG | 58.988 | 38.462 | 0.00 | 0.00 | 0.00 | 3.60 |
2687 | 3221 | 5.491982 | GAGGAATTCCAAGACAGTGTATGT | 58.508 | 41.667 | 26.22 | 0.00 | 41.51 | 2.29 |
2738 | 3272 | 7.578310 | AATACAGTAGCAAAGCATTGATGAT | 57.422 | 32.000 | 5.73 | 0.00 | 38.94 | 2.45 |
2743 | 3277 | 7.972277 | ACAGTAGCAAAGCATTGATGATTAAAG | 59.028 | 33.333 | 5.73 | 0.00 | 38.94 | 1.85 |
2808 | 3427 | 4.328983 | CACAAATCCACAGTACGTCCATAC | 59.671 | 45.833 | 0.00 | 0.00 | 0.00 | 2.39 |
2809 | 3428 | 4.020928 | ACAAATCCACAGTACGTCCATACA | 60.021 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
2819 | 3438 | 7.972277 | CACAGTACGTCCATACAAAACTACTAT | 59.028 | 37.037 | 0.00 | 0.00 | 0.00 | 2.12 |
2823 | 3442 | 6.032094 | ACGTCCATACAAAACTACTATGACG | 58.968 | 40.000 | 0.00 | 0.00 | 33.05 | 4.35 |
2932 | 3551 | 7.620880 | TGATTATATACTTGGCCTCCACATAC | 58.379 | 38.462 | 3.32 | 0.00 | 30.78 | 2.39 |
2957 | 3576 | 2.501881 | CTGCAACCGTAAATACAACGC | 58.498 | 47.619 | 0.00 | 0.00 | 39.00 | 4.84 |
3035 | 3654 | 0.722799 | GCAAGCAAACGAAGAGCGAC | 60.723 | 55.000 | 0.00 | 0.00 | 44.57 | 5.19 |
3079 | 3699 | 7.735917 | TCTCTTTTACAGGTTGATGAGAGAAA | 58.264 | 34.615 | 0.00 | 0.00 | 36.43 | 2.52 |
3156 | 3776 | 1.005097 | TGTGGAGGATTCTGCAATGCT | 59.995 | 47.619 | 6.82 | 0.00 | 42.92 | 3.79 |
3162 | 3782 | 2.948840 | GATTCTGCAATGCTGGCGGC | 62.949 | 60.000 | 12.43 | 12.43 | 37.56 | 6.53 |
3214 | 3834 | 5.030874 | AGATGCTTTGCGTTAGTTACAAC | 57.969 | 39.130 | 0.00 | 0.00 | 0.00 | 3.32 |
3254 | 3874 | 8.165239 | AGATTTGTGTTTATTACAAGCAGTGA | 57.835 | 30.769 | 0.00 | 0.00 | 39.03 | 3.41 |
3255 | 3875 | 8.292448 | AGATTTGTGTTTATTACAAGCAGTGAG | 58.708 | 33.333 | 0.00 | 0.00 | 39.03 | 3.51 |
3256 | 3876 | 5.356882 | TGTGTTTATTACAAGCAGTGAGC | 57.643 | 39.130 | 0.00 | 0.00 | 46.19 | 4.26 |
3326 | 3946 | 4.531332 | GTGACAGCACAAAGAATCTTGAC | 58.469 | 43.478 | 0.00 | 0.00 | 44.51 | 3.18 |
3366 | 3986 | 9.855021 | ATTAAAAATTTACAATCAGTTAGCGCT | 57.145 | 25.926 | 17.26 | 17.26 | 0.00 | 5.92 |
3368 | 3988 | 8.669394 | AAAAATTTACAATCAGTTAGCGCTAC | 57.331 | 30.769 | 18.63 | 12.48 | 0.00 | 3.58 |
3369 | 3989 | 6.978343 | AATTTACAATCAGTTAGCGCTACA | 57.022 | 33.333 | 18.63 | 5.91 | 0.00 | 2.74 |
3370 | 3990 | 6.978343 | ATTTACAATCAGTTAGCGCTACAA | 57.022 | 33.333 | 18.63 | 1.65 | 0.00 | 2.41 |
3371 | 3991 | 6.403333 | TTTACAATCAGTTAGCGCTACAAG | 57.597 | 37.500 | 18.63 | 9.69 | 0.00 | 3.16 |
3372 | 3992 | 3.262420 | ACAATCAGTTAGCGCTACAAGG | 58.738 | 45.455 | 18.63 | 7.42 | 0.00 | 3.61 |
3373 | 3993 | 2.604046 | ATCAGTTAGCGCTACAAGGG | 57.396 | 50.000 | 18.63 | 5.55 | 0.00 | 3.95 |
3382 | 4002 | 2.380084 | CGCTACAAGGGCAACTCTAA | 57.620 | 50.000 | 0.00 | 0.00 | 0.00 | 2.10 |
3383 | 4003 | 2.000447 | CGCTACAAGGGCAACTCTAAC | 59.000 | 52.381 | 0.00 | 0.00 | 0.00 | 2.34 |
3384 | 4004 | 2.357075 | GCTACAAGGGCAACTCTAACC | 58.643 | 52.381 | 0.00 | 0.00 | 0.00 | 2.85 |
3385 | 4005 | 2.618053 | CTACAAGGGCAACTCTAACCG | 58.382 | 52.381 | 0.00 | 0.00 | 0.00 | 4.44 |
3386 | 4006 | 1.053424 | ACAAGGGCAACTCTAACCGA | 58.947 | 50.000 | 0.00 | 0.00 | 0.00 | 4.69 |
3387 | 4007 | 1.628846 | ACAAGGGCAACTCTAACCGAT | 59.371 | 47.619 | 0.00 | 0.00 | 0.00 | 4.18 |
3388 | 4008 | 2.039879 | ACAAGGGCAACTCTAACCGATT | 59.960 | 45.455 | 0.00 | 0.00 | 0.00 | 3.34 |
3389 | 4009 | 3.081804 | CAAGGGCAACTCTAACCGATTT | 58.918 | 45.455 | 0.00 | 0.00 | 0.00 | 2.17 |
3390 | 4010 | 2.987232 | AGGGCAACTCTAACCGATTTC | 58.013 | 47.619 | 0.00 | 0.00 | 0.00 | 2.17 |
3391 | 4011 | 2.014857 | GGGCAACTCTAACCGATTTCC | 58.985 | 52.381 | 0.00 | 0.00 | 0.00 | 3.13 |
3392 | 4012 | 2.355818 | GGGCAACTCTAACCGATTTCCT | 60.356 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
3393 | 4013 | 3.118519 | GGGCAACTCTAACCGATTTCCTA | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 2.94 |
3394 | 4014 | 4.510571 | GGCAACTCTAACCGATTTCCTAA | 58.489 | 43.478 | 0.00 | 0.00 | 0.00 | 2.69 |
3395 | 4015 | 4.939439 | GGCAACTCTAACCGATTTCCTAAA | 59.061 | 41.667 | 0.00 | 0.00 | 0.00 | 1.85 |
3396 | 4016 | 5.413523 | GGCAACTCTAACCGATTTCCTAAAA | 59.586 | 40.000 | 0.00 | 0.00 | 0.00 | 1.52 |
3397 | 4017 | 6.403309 | GGCAACTCTAACCGATTTCCTAAAAG | 60.403 | 42.308 | 0.00 | 0.00 | 0.00 | 2.27 |
3398 | 4018 | 6.148976 | GCAACTCTAACCGATTTCCTAAAAGT | 59.851 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
3399 | 4019 | 7.308408 | GCAACTCTAACCGATTTCCTAAAAGTT | 60.308 | 37.037 | 0.00 | 0.00 | 0.00 | 2.66 |
3400 | 4020 | 9.211485 | CAACTCTAACCGATTTCCTAAAAGTTA | 57.789 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
3401 | 4021 | 9.783081 | AACTCTAACCGATTTCCTAAAAGTTAA | 57.217 | 29.630 | 0.00 | 0.00 | 0.00 | 2.01 |
3402 | 4022 | 9.783081 | ACTCTAACCGATTTCCTAAAAGTTAAA | 57.217 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
3407 | 4027 | 8.107399 | ACCGATTTCCTAAAAGTTAAAGAAGG | 57.893 | 34.615 | 0.00 | 0.00 | 0.00 | 3.46 |
3408 | 4028 | 7.940688 | ACCGATTTCCTAAAAGTTAAAGAAGGA | 59.059 | 33.333 | 0.00 | 0.00 | 0.00 | 3.36 |
3409 | 4029 | 8.957466 | CCGATTTCCTAAAAGTTAAAGAAGGAT | 58.043 | 33.333 | 0.00 | 0.00 | 33.33 | 3.24 |
3410 | 4030 | 9.989869 | CGATTTCCTAAAAGTTAAAGAAGGATC | 57.010 | 33.333 | 0.00 | 0.00 | 33.33 | 3.36 |
3412 | 4032 | 7.916914 | TTCCTAAAAGTTAAAGAAGGATCCG | 57.083 | 36.000 | 5.98 | 0.00 | 33.33 | 4.18 |
3413 | 4033 | 6.412214 | TCCTAAAAGTTAAAGAAGGATCCGG | 58.588 | 40.000 | 5.98 | 0.00 | 0.00 | 5.14 |
3414 | 4034 | 5.066117 | CCTAAAAGTTAAAGAAGGATCCGGC | 59.934 | 44.000 | 5.98 | 2.12 | 0.00 | 6.13 |
3415 | 4035 | 2.711978 | AGTTAAAGAAGGATCCGGCC | 57.288 | 50.000 | 5.98 | 0.00 | 0.00 | 6.13 |
3416 | 4036 | 1.134491 | AGTTAAAGAAGGATCCGGCCG | 60.134 | 52.381 | 21.04 | 21.04 | 0.00 | 6.13 |
3417 | 4037 | 1.134610 | GTTAAAGAAGGATCCGGCCGA | 60.135 | 52.381 | 30.73 | 13.82 | 0.00 | 5.54 |
3418 | 4038 | 0.750850 | TAAAGAAGGATCCGGCCGAG | 59.249 | 55.000 | 30.73 | 17.53 | 0.00 | 4.63 |
3419 | 4039 | 1.265454 | AAAGAAGGATCCGGCCGAGT | 61.265 | 55.000 | 30.73 | 15.27 | 0.00 | 4.18 |
3420 | 4040 | 0.396695 | AAGAAGGATCCGGCCGAGTA | 60.397 | 55.000 | 30.73 | 12.51 | 0.00 | 2.59 |
3421 | 4041 | 0.396695 | AGAAGGATCCGGCCGAGTAA | 60.397 | 55.000 | 30.73 | 9.56 | 0.00 | 2.24 |
3422 | 4042 | 0.462789 | GAAGGATCCGGCCGAGTAAA | 59.537 | 55.000 | 30.73 | 6.66 | 0.00 | 2.01 |
3423 | 4043 | 0.464452 | AAGGATCCGGCCGAGTAAAG | 59.536 | 55.000 | 30.73 | 8.93 | 0.00 | 1.85 |
3424 | 4044 | 0.686769 | AGGATCCGGCCGAGTAAAGT | 60.687 | 55.000 | 30.73 | 3.41 | 0.00 | 2.66 |
3425 | 4045 | 0.177373 | GGATCCGGCCGAGTAAAGTT | 59.823 | 55.000 | 30.73 | 2.96 | 0.00 | 2.66 |
3426 | 4046 | 1.410153 | GGATCCGGCCGAGTAAAGTTA | 59.590 | 52.381 | 30.73 | 0.00 | 0.00 | 2.24 |
3427 | 4047 | 2.545322 | GGATCCGGCCGAGTAAAGTTAG | 60.545 | 54.545 | 30.73 | 5.39 | 0.00 | 2.34 |
3428 | 4048 | 1.549203 | TCCGGCCGAGTAAAGTTAGT | 58.451 | 50.000 | 30.73 | 0.00 | 0.00 | 2.24 |
3429 | 4049 | 1.203052 | TCCGGCCGAGTAAAGTTAGTG | 59.797 | 52.381 | 30.73 | 4.53 | 0.00 | 2.74 |
3430 | 4050 | 1.636988 | CGGCCGAGTAAAGTTAGTGG | 58.363 | 55.000 | 24.07 | 0.00 | 0.00 | 4.00 |
3431 | 4051 | 1.203052 | CGGCCGAGTAAAGTTAGTGGA | 59.797 | 52.381 | 24.07 | 0.00 | 0.00 | 4.02 |
3432 | 4052 | 2.734492 | CGGCCGAGTAAAGTTAGTGGAG | 60.734 | 54.545 | 24.07 | 0.00 | 0.00 | 3.86 |
3433 | 4053 | 2.233186 | GGCCGAGTAAAGTTAGTGGAGT | 59.767 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3434 | 4054 | 3.445096 | GGCCGAGTAAAGTTAGTGGAGTA | 59.555 | 47.826 | 0.00 | 0.00 | 0.00 | 2.59 |
3435 | 4055 | 4.082026 | GGCCGAGTAAAGTTAGTGGAGTAA | 60.082 | 45.833 | 0.00 | 0.00 | 0.00 | 2.24 |
3436 | 4056 | 5.473039 | GCCGAGTAAAGTTAGTGGAGTAAA | 58.527 | 41.667 | 0.00 | 0.00 | 0.00 | 2.01 |
3437 | 4057 | 6.104665 | GCCGAGTAAAGTTAGTGGAGTAAAT | 58.895 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3438 | 4058 | 6.592994 | GCCGAGTAAAGTTAGTGGAGTAAATT | 59.407 | 38.462 | 0.00 | 0.00 | 0.00 | 1.82 |
3439 | 4059 | 7.118825 | GCCGAGTAAAGTTAGTGGAGTAAATTT | 59.881 | 37.037 | 0.00 | 0.00 | 35.16 | 1.82 |
3440 | 4060 | 8.996271 | CCGAGTAAAGTTAGTGGAGTAAATTTT | 58.004 | 33.333 | 0.00 | 0.00 | 33.50 | 1.82 |
3446 | 4066 | 7.997773 | AGTTAGTGGAGTAAATTTTTCCTCC | 57.002 | 36.000 | 17.77 | 17.77 | 43.13 | 4.30 |
3447 | 4067 | 7.756614 | AGTTAGTGGAGTAAATTTTTCCTCCT | 58.243 | 34.615 | 21.91 | 17.47 | 43.21 | 3.69 |
3448 | 4068 | 7.883833 | AGTTAGTGGAGTAAATTTTTCCTCCTC | 59.116 | 37.037 | 21.91 | 19.50 | 43.21 | 3.71 |
3449 | 4069 | 6.455690 | AGTGGAGTAAATTTTTCCTCCTCT | 57.544 | 37.500 | 21.91 | 20.72 | 43.21 | 3.69 |
3450 | 4070 | 7.569599 | AGTGGAGTAAATTTTTCCTCCTCTA | 57.430 | 36.000 | 21.76 | 8.60 | 42.87 | 2.43 |
3451 | 4071 | 8.164057 | AGTGGAGTAAATTTTTCCTCCTCTAT | 57.836 | 34.615 | 21.76 | 9.52 | 42.87 | 1.98 |
3452 | 4072 | 8.615705 | AGTGGAGTAAATTTTTCCTCCTCTATT | 58.384 | 33.333 | 21.76 | 9.08 | 42.87 | 1.73 |
3453 | 4073 | 9.901172 | GTGGAGTAAATTTTTCCTCCTCTATTA | 57.099 | 33.333 | 21.91 | 7.30 | 43.21 | 0.98 |
3459 | 4079 | 8.950007 | AAATTTTTCCTCCTCTATTAACCACA | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 4.17 |
3460 | 4080 | 8.950007 | AATTTTTCCTCCTCTATTAACCACAA | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 3.33 |
3461 | 4081 | 8.950007 | ATTTTTCCTCCTCTATTAACCACAAA | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 2.83 |
3462 | 4082 | 8.770010 | TTTTTCCTCCTCTATTAACCACAAAA | 57.230 | 30.769 | 0.00 | 0.00 | 0.00 | 2.44 |
3463 | 4083 | 7.996098 | TTTCCTCCTCTATTAACCACAAAAG | 57.004 | 36.000 | 0.00 | 0.00 | 0.00 | 2.27 |
3464 | 4084 | 6.062258 | TCCTCCTCTATTAACCACAAAAGG | 57.938 | 41.667 | 0.00 | 0.00 | 0.00 | 3.11 |
3465 | 4085 | 5.788533 | TCCTCCTCTATTAACCACAAAAGGA | 59.211 | 40.000 | 0.00 | 0.00 | 0.00 | 3.36 |
3466 | 4086 | 6.070194 | TCCTCCTCTATTAACCACAAAAGGAG | 60.070 | 42.308 | 7.89 | 7.89 | 45.34 | 3.69 |
3467 | 4087 | 6.062258 | TCCTCTATTAACCACAAAAGGAGG | 57.938 | 41.667 | 0.00 | 0.00 | 39.12 | 4.30 |
3468 | 4088 | 5.788533 | TCCTCTATTAACCACAAAAGGAGGA | 59.211 | 40.000 | 0.00 | 0.00 | 42.73 | 3.71 |
3469 | 4089 | 6.447084 | TCCTCTATTAACCACAAAAGGAGGAT | 59.553 | 38.462 | 0.00 | 0.00 | 40.93 | 3.24 |
3470 | 4090 | 6.768381 | CCTCTATTAACCACAAAAGGAGGATC | 59.232 | 42.308 | 0.00 | 0.00 | 39.87 | 3.36 |
3471 | 4091 | 7.265599 | TCTATTAACCACAAAAGGAGGATCA | 57.734 | 36.000 | 0.00 | 0.00 | 36.25 | 2.92 |
3472 | 4092 | 7.872138 | TCTATTAACCACAAAAGGAGGATCAT | 58.128 | 34.615 | 0.00 | 0.00 | 36.25 | 2.45 |
3473 | 4093 | 6.780457 | ATTAACCACAAAAGGAGGATCATG | 57.220 | 37.500 | 0.00 | 0.00 | 36.25 | 3.07 |
3474 | 4094 | 2.450476 | ACCACAAAAGGAGGATCATGC | 58.550 | 47.619 | 0.00 | 0.00 | 36.25 | 4.06 |
3475 | 4095 | 1.753073 | CCACAAAAGGAGGATCATGCC | 59.247 | 52.381 | 0.00 | 0.00 | 36.25 | 4.40 |
3476 | 4096 | 2.449464 | CACAAAAGGAGGATCATGCCA | 58.551 | 47.619 | 0.00 | 0.00 | 36.25 | 4.92 |
3477 | 4097 | 2.165030 | CACAAAAGGAGGATCATGCCAC | 59.835 | 50.000 | 0.00 | 0.00 | 36.25 | 5.01 |
3478 | 4098 | 2.042162 | ACAAAAGGAGGATCATGCCACT | 59.958 | 45.455 | 0.00 | 0.00 | 36.25 | 4.00 |
3479 | 4099 | 3.266772 | ACAAAAGGAGGATCATGCCACTA | 59.733 | 43.478 | 0.00 | 0.00 | 36.25 | 2.74 |
3480 | 4100 | 3.853355 | AAAGGAGGATCATGCCACTAG | 57.147 | 47.619 | 0.00 | 0.00 | 36.25 | 2.57 |
3481 | 4101 | 1.055040 | AGGAGGATCATGCCACTAGC | 58.945 | 55.000 | 0.00 | 0.00 | 38.70 | 3.42 |
3491 | 4111 | 3.688553 | GCCACTAGCACCATAGTCC | 57.311 | 57.895 | 0.00 | 0.00 | 42.97 | 3.85 |
3492 | 4112 | 1.123928 | GCCACTAGCACCATAGTCCT | 58.876 | 55.000 | 0.00 | 0.00 | 42.97 | 3.85 |
3493 | 4113 | 1.069358 | GCCACTAGCACCATAGTCCTC | 59.931 | 57.143 | 0.00 | 0.00 | 42.97 | 3.71 |
3494 | 4114 | 2.672098 | CCACTAGCACCATAGTCCTCT | 58.328 | 52.381 | 0.00 | 0.00 | 33.68 | 3.69 |
3495 | 4115 | 2.625790 | CCACTAGCACCATAGTCCTCTC | 59.374 | 54.545 | 0.00 | 0.00 | 33.68 | 3.20 |
3496 | 4116 | 2.292016 | CACTAGCACCATAGTCCTCTCG | 59.708 | 54.545 | 0.00 | 0.00 | 33.68 | 4.04 |
3497 | 4117 | 1.883275 | CTAGCACCATAGTCCTCTCGG | 59.117 | 57.143 | 0.00 | 0.00 | 0.00 | 4.63 |
3498 | 4118 | 1.068250 | GCACCATAGTCCTCTCGGC | 59.932 | 63.158 | 0.00 | 0.00 | 0.00 | 5.54 |
3499 | 4119 | 1.742768 | CACCATAGTCCTCTCGGCC | 59.257 | 63.158 | 0.00 | 0.00 | 0.00 | 6.13 |
3500 | 4120 | 1.457831 | ACCATAGTCCTCTCGGCCC | 60.458 | 63.158 | 0.00 | 0.00 | 0.00 | 5.80 |
3501 | 4121 | 2.210711 | CCATAGTCCTCTCGGCCCC | 61.211 | 68.421 | 0.00 | 0.00 | 0.00 | 5.80 |
3502 | 4122 | 1.457643 | CATAGTCCTCTCGGCCCCA | 60.458 | 63.158 | 0.00 | 0.00 | 0.00 | 4.96 |
3503 | 4123 | 1.457831 | ATAGTCCTCTCGGCCCCAC | 60.458 | 63.158 | 0.00 | 0.00 | 0.00 | 4.61 |
3504 | 4124 | 2.948801 | ATAGTCCTCTCGGCCCCACC | 62.949 | 65.000 | 0.00 | 0.00 | 0.00 | 4.61 |
3521 | 4141 | 4.659172 | CGCCACCACCACCACCAT | 62.659 | 66.667 | 0.00 | 0.00 | 0.00 | 3.55 |
3522 | 4142 | 2.676471 | GCCACCACCACCACCATC | 60.676 | 66.667 | 0.00 | 0.00 | 0.00 | 3.51 |
3523 | 4143 | 2.035626 | CCACCACCACCACCATCC | 59.964 | 66.667 | 0.00 | 0.00 | 0.00 | 3.51 |
3524 | 4144 | 2.538141 | CCACCACCACCACCATCCT | 61.538 | 63.158 | 0.00 | 0.00 | 0.00 | 3.24 |
3525 | 4145 | 1.002134 | CACCACCACCACCATCCTC | 60.002 | 63.158 | 0.00 | 0.00 | 0.00 | 3.71 |
3526 | 4146 | 1.151810 | ACCACCACCACCATCCTCT | 60.152 | 57.895 | 0.00 | 0.00 | 0.00 | 3.69 |
3527 | 4147 | 1.201429 | ACCACCACCACCATCCTCTC | 61.201 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
3528 | 4148 | 1.219124 | CACCACCACCATCCTCTCG | 59.781 | 63.158 | 0.00 | 0.00 | 0.00 | 4.04 |
3529 | 4149 | 2.187946 | CCACCACCATCCTCTCGC | 59.812 | 66.667 | 0.00 | 0.00 | 0.00 | 5.03 |
3530 | 4150 | 2.187946 | CACCACCATCCTCTCGCC | 59.812 | 66.667 | 0.00 | 0.00 | 0.00 | 5.54 |
3531 | 4151 | 3.083997 | ACCACCATCCTCTCGCCC | 61.084 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
3532 | 4152 | 4.227134 | CCACCATCCTCTCGCCCG | 62.227 | 72.222 | 0.00 | 0.00 | 0.00 | 6.13 |
3533 | 4153 | 4.899239 | CACCATCCTCTCGCCCGC | 62.899 | 72.222 | 0.00 | 0.00 | 0.00 | 6.13 |
3536 | 4156 | 4.899239 | CATCCTCTCGCCCGCCAC | 62.899 | 72.222 | 0.00 | 0.00 | 0.00 | 5.01 |
3547 | 4167 | 4.885270 | CCGCCACCACCAACACCA | 62.885 | 66.667 | 0.00 | 0.00 | 0.00 | 4.17 |
3548 | 4168 | 2.830827 | CGCCACCACCAACACCAA | 60.831 | 61.111 | 0.00 | 0.00 | 0.00 | 3.67 |
3549 | 4169 | 2.811799 | GCCACCACCAACACCAAC | 59.188 | 61.111 | 0.00 | 0.00 | 0.00 | 3.77 |
3550 | 4170 | 2.055042 | GCCACCACCAACACCAACA | 61.055 | 57.895 | 0.00 | 0.00 | 0.00 | 3.33 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
112 | 115 | 1.880819 | GCCTTTGTAGGGGTCGTCGA | 61.881 | 60.000 | 0.00 | 0.00 | 42.25 | 4.20 |
349 | 370 | 1.737201 | TGCTTGACAGAACCGTCGA | 59.263 | 52.632 | 0.00 | 0.00 | 38.84 | 4.20 |
360 | 381 | 0.721718 | GCGTCATGGTACTGCTTGAC | 59.278 | 55.000 | 0.00 | 7.61 | 36.09 | 3.18 |
379 | 400 | 4.227134 | CATGGAGGCGGAGGACGG | 62.227 | 72.222 | 0.00 | 0.00 | 44.51 | 4.79 |
490 | 511 | 0.108472 | GTACTTGTAGTGGTCGCCCC | 60.108 | 60.000 | 0.00 | 0.00 | 0.00 | 5.80 |
822 | 870 | 2.959071 | GAGCATGCGCCGAGACTC | 60.959 | 66.667 | 13.01 | 0.67 | 39.83 | 3.36 |
921 | 981 | 1.892819 | ATCGTCCACACTGCTGGGAG | 61.893 | 60.000 | 0.00 | 0.00 | 31.41 | 4.30 |
991 | 1059 | 3.085443 | GATGATCGACATCGGTTCAGT | 57.915 | 47.619 | 10.73 | 0.00 | 44.46 | 3.41 |
1068 | 1166 | 3.976593 | CTGGCCTCCTCCAGCATA | 58.023 | 61.111 | 3.32 | 0.00 | 46.11 | 3.14 |
1110 | 1208 | 3.969976 | CTGACCCTATCATCTTCTTCCCA | 59.030 | 47.826 | 0.00 | 0.00 | 36.48 | 4.37 |
1185 | 1286 | 2.423446 | CCCCTGATGTCTAGCGCC | 59.577 | 66.667 | 2.29 | 0.00 | 0.00 | 6.53 |
1203 | 1307 | 2.124507 | TTGTGACTGGGTAGGCCTGC | 62.125 | 60.000 | 17.99 | 15.51 | 34.45 | 4.85 |
1224 | 1328 | 2.580276 | GCGACCATCCGTAACCCA | 59.420 | 61.111 | 0.00 | 0.00 | 0.00 | 4.51 |
1227 | 1331 | 1.875364 | GTCGGCGACCATCCGTAAC | 60.875 | 63.158 | 28.72 | 0.00 | 46.49 | 2.50 |
1229 | 1333 | 1.669049 | ATTGTCGGCGACCATCCGTA | 61.669 | 55.000 | 34.28 | 13.56 | 46.49 | 4.02 |
1230 | 1334 | 1.669049 | TATTGTCGGCGACCATCCGT | 61.669 | 55.000 | 34.28 | 16.87 | 46.49 | 4.69 |
1393 | 1509 | 1.021390 | CGCACCCTGATCTTGTCACC | 61.021 | 60.000 | 0.00 | 0.00 | 32.22 | 4.02 |
1542 | 1682 | 1.758280 | ACCGTTACCAGTGTCTGACAA | 59.242 | 47.619 | 12.81 | 0.00 | 32.44 | 3.18 |
1608 | 1792 | 2.588314 | CTGAGGCTGCTGATCGCC | 60.588 | 66.667 | 0.00 | 1.37 | 46.65 | 5.54 |
1915 | 2099 | 3.129502 | CGTGGGGTGCAGCTCATG | 61.130 | 66.667 | 23.32 | 22.95 | 0.00 | 3.07 |
2324 | 2571 | 1.000955 | GGGCCCTGACTACATCATACG | 59.999 | 57.143 | 17.04 | 0.00 | 36.48 | 3.06 |
2411 | 2658 | 2.218603 | GTATAACCATGTCCCAAGCGG | 58.781 | 52.381 | 0.00 | 0.00 | 0.00 | 5.52 |
2514 | 2764 | 4.462132 | ACCATCTGATATCCACTCGATCTG | 59.538 | 45.833 | 0.00 | 0.00 | 31.92 | 2.90 |
2538 | 2788 | 9.871238 | TCTCCAGTCTTATGTTAAATGTTAGAC | 57.129 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
2608 | 2901 | 5.180271 | ACAAACGTAACCAGAGTCTTGAAA | 58.820 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
2613 | 2906 | 6.830873 | AGTATACAAACGTAACCAGAGTCT | 57.169 | 37.500 | 5.50 | 0.00 | 0.00 | 3.24 |
2642 | 2935 | 5.849510 | TCCGTTTTTCACTGACATAGAAGA | 58.150 | 37.500 | 0.00 | 0.00 | 0.00 | 2.87 |
2663 | 2956 | 3.425162 | ACACTGTCTTGGAATTCCTCC | 57.575 | 47.619 | 24.73 | 10.47 | 45.64 | 4.30 |
2687 | 3221 | 5.784578 | ATGTGTCCACGCTTATATAGTGA | 57.215 | 39.130 | 2.92 | 0.00 | 38.06 | 3.41 |
2743 | 3277 | 9.891828 | TGTGATGATGATTGTTTTGTAGTTTAC | 57.108 | 29.630 | 0.00 | 0.00 | 0.00 | 2.01 |
2819 | 3438 | 8.035165 | TGCTTTATGAAGTAAAATTAGCGTCA | 57.965 | 30.769 | 0.00 | 0.00 | 35.25 | 4.35 |
2932 | 3551 | 1.400494 | GTATTTACGGTTGCAGGCCTG | 59.600 | 52.381 | 29.34 | 29.34 | 0.00 | 4.85 |
2957 | 3576 | 3.757745 | AATGAAATTAACACTCGGCGG | 57.242 | 42.857 | 7.21 | 0.00 | 32.46 | 6.13 |
3085 | 3705 | 8.268605 | TCACCATGGTATACACTAATTTTAGCA | 58.731 | 33.333 | 19.28 | 0.00 | 34.09 | 3.49 |
3357 | 3977 | 0.323629 | TTGCCCTTGTAGCGCTAACT | 59.676 | 50.000 | 20.73 | 0.00 | 0.00 | 2.24 |
3358 | 3978 | 0.446616 | GTTGCCCTTGTAGCGCTAAC | 59.553 | 55.000 | 20.73 | 13.83 | 0.00 | 2.34 |
3359 | 3979 | 0.323629 | AGTTGCCCTTGTAGCGCTAA | 59.676 | 50.000 | 20.73 | 5.43 | 0.00 | 3.09 |
3360 | 3980 | 0.108329 | GAGTTGCCCTTGTAGCGCTA | 60.108 | 55.000 | 14.45 | 14.45 | 0.00 | 4.26 |
3361 | 3981 | 1.376037 | GAGTTGCCCTTGTAGCGCT | 60.376 | 57.895 | 17.26 | 17.26 | 0.00 | 5.92 |
3362 | 3982 | 0.108329 | TAGAGTTGCCCTTGTAGCGC | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 5.92 |
3363 | 3983 | 2.000447 | GTTAGAGTTGCCCTTGTAGCG | 59.000 | 52.381 | 0.00 | 0.00 | 0.00 | 4.26 |
3364 | 3984 | 2.357075 | GGTTAGAGTTGCCCTTGTAGC | 58.643 | 52.381 | 0.00 | 0.00 | 0.00 | 3.58 |
3365 | 3985 | 2.232941 | TCGGTTAGAGTTGCCCTTGTAG | 59.767 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
3366 | 3986 | 2.250031 | TCGGTTAGAGTTGCCCTTGTA | 58.750 | 47.619 | 0.00 | 0.00 | 0.00 | 2.41 |
3367 | 3987 | 1.053424 | TCGGTTAGAGTTGCCCTTGT | 58.947 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
3368 | 3988 | 2.403252 | ATCGGTTAGAGTTGCCCTTG | 57.597 | 50.000 | 0.00 | 0.00 | 0.00 | 3.61 |
3369 | 3989 | 3.344515 | GAAATCGGTTAGAGTTGCCCTT | 58.655 | 45.455 | 0.00 | 0.00 | 37.28 | 3.95 |
3370 | 3990 | 2.355818 | GGAAATCGGTTAGAGTTGCCCT | 60.356 | 50.000 | 0.00 | 0.00 | 38.96 | 5.19 |
3371 | 3991 | 2.014857 | GGAAATCGGTTAGAGTTGCCC | 58.985 | 52.381 | 0.00 | 0.00 | 38.96 | 5.36 |
3372 | 3992 | 2.987232 | AGGAAATCGGTTAGAGTTGCC | 58.013 | 47.619 | 0.00 | 0.00 | 44.55 | 4.52 |
3373 | 3993 | 6.148976 | ACTTTTAGGAAATCGGTTAGAGTTGC | 59.851 | 38.462 | 0.00 | 0.00 | 43.95 | 4.17 |
3374 | 3994 | 7.668525 | ACTTTTAGGAAATCGGTTAGAGTTG | 57.331 | 36.000 | 0.00 | 0.00 | 37.28 | 3.16 |
3375 | 3995 | 9.783081 | TTAACTTTTAGGAAATCGGTTAGAGTT | 57.217 | 29.630 | 0.00 | 0.00 | 40.18 | 3.01 |
3376 | 3996 | 9.783081 | TTTAACTTTTAGGAAATCGGTTAGAGT | 57.217 | 29.630 | 0.00 | 0.00 | 0.00 | 3.24 |
3381 | 4001 | 8.573885 | CCTTCTTTAACTTTTAGGAAATCGGTT | 58.426 | 33.333 | 0.00 | 0.00 | 0.00 | 4.44 |
3382 | 4002 | 7.940688 | TCCTTCTTTAACTTTTAGGAAATCGGT | 59.059 | 33.333 | 0.00 | 0.00 | 0.00 | 4.69 |
3383 | 4003 | 8.331730 | TCCTTCTTTAACTTTTAGGAAATCGG | 57.668 | 34.615 | 0.00 | 0.00 | 0.00 | 4.18 |
3384 | 4004 | 9.989869 | GATCCTTCTTTAACTTTTAGGAAATCG | 57.010 | 33.333 | 0.00 | 0.00 | 35.58 | 3.34 |
3386 | 4006 | 8.957466 | CGGATCCTTCTTTAACTTTTAGGAAAT | 58.043 | 33.333 | 10.75 | 0.00 | 35.58 | 2.17 |
3387 | 4007 | 7.392393 | CCGGATCCTTCTTTAACTTTTAGGAAA | 59.608 | 37.037 | 10.75 | 0.00 | 35.58 | 3.13 |
3388 | 4008 | 6.882678 | CCGGATCCTTCTTTAACTTTTAGGAA | 59.117 | 38.462 | 10.75 | 0.00 | 35.58 | 3.36 |
3389 | 4009 | 6.412214 | CCGGATCCTTCTTTAACTTTTAGGA | 58.588 | 40.000 | 10.75 | 0.00 | 36.33 | 2.94 |
3390 | 4010 | 5.066117 | GCCGGATCCTTCTTTAACTTTTAGG | 59.934 | 44.000 | 5.05 | 0.00 | 0.00 | 2.69 |
3391 | 4011 | 5.066117 | GGCCGGATCCTTCTTTAACTTTTAG | 59.934 | 44.000 | 5.05 | 0.00 | 0.00 | 1.85 |
3392 | 4012 | 4.945543 | GGCCGGATCCTTCTTTAACTTTTA | 59.054 | 41.667 | 5.05 | 0.00 | 0.00 | 1.52 |
3393 | 4013 | 3.762288 | GGCCGGATCCTTCTTTAACTTTT | 59.238 | 43.478 | 5.05 | 0.00 | 0.00 | 2.27 |
3394 | 4014 | 3.353557 | GGCCGGATCCTTCTTTAACTTT | 58.646 | 45.455 | 5.05 | 0.00 | 0.00 | 2.66 |
3395 | 4015 | 2.679930 | CGGCCGGATCCTTCTTTAACTT | 60.680 | 50.000 | 20.10 | 0.00 | 0.00 | 2.66 |
3396 | 4016 | 1.134491 | CGGCCGGATCCTTCTTTAACT | 60.134 | 52.381 | 20.10 | 0.00 | 0.00 | 2.24 |
3397 | 4017 | 1.134610 | TCGGCCGGATCCTTCTTTAAC | 60.135 | 52.381 | 27.83 | 0.00 | 0.00 | 2.01 |
3398 | 4018 | 1.138266 | CTCGGCCGGATCCTTCTTTAA | 59.862 | 52.381 | 27.83 | 0.00 | 0.00 | 1.52 |
3399 | 4019 | 0.750850 | CTCGGCCGGATCCTTCTTTA | 59.249 | 55.000 | 27.83 | 0.00 | 0.00 | 1.85 |
3400 | 4020 | 1.265454 | ACTCGGCCGGATCCTTCTTT | 61.265 | 55.000 | 27.83 | 0.00 | 0.00 | 2.52 |
3401 | 4021 | 0.396695 | TACTCGGCCGGATCCTTCTT | 60.397 | 55.000 | 27.83 | 1.52 | 0.00 | 2.52 |
3402 | 4022 | 0.396695 | TTACTCGGCCGGATCCTTCT | 60.397 | 55.000 | 27.83 | 0.65 | 0.00 | 2.85 |
3403 | 4023 | 0.462789 | TTTACTCGGCCGGATCCTTC | 59.537 | 55.000 | 27.83 | 0.56 | 0.00 | 3.46 |
3404 | 4024 | 0.464452 | CTTTACTCGGCCGGATCCTT | 59.536 | 55.000 | 27.83 | 5.81 | 0.00 | 3.36 |
3405 | 4025 | 0.686769 | ACTTTACTCGGCCGGATCCT | 60.687 | 55.000 | 27.83 | 5.74 | 0.00 | 3.24 |
3406 | 4026 | 0.177373 | AACTTTACTCGGCCGGATCC | 59.823 | 55.000 | 27.83 | 0.00 | 0.00 | 3.36 |
3407 | 4027 | 2.100418 | ACTAACTTTACTCGGCCGGATC | 59.900 | 50.000 | 27.83 | 0.00 | 0.00 | 3.36 |
3408 | 4028 | 2.105766 | ACTAACTTTACTCGGCCGGAT | 58.894 | 47.619 | 27.83 | 16.52 | 0.00 | 4.18 |
3409 | 4029 | 1.203052 | CACTAACTTTACTCGGCCGGA | 59.797 | 52.381 | 27.83 | 11.38 | 0.00 | 5.14 |
3410 | 4030 | 1.636988 | CACTAACTTTACTCGGCCGG | 58.363 | 55.000 | 27.83 | 18.67 | 0.00 | 6.13 |
3411 | 4031 | 1.203052 | TCCACTAACTTTACTCGGCCG | 59.797 | 52.381 | 22.12 | 22.12 | 0.00 | 6.13 |
3412 | 4032 | 2.233186 | ACTCCACTAACTTTACTCGGCC | 59.767 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
3413 | 4033 | 3.589495 | ACTCCACTAACTTTACTCGGC | 57.411 | 47.619 | 0.00 | 0.00 | 0.00 | 5.54 |
3414 | 4034 | 8.543862 | AAATTTACTCCACTAACTTTACTCGG | 57.456 | 34.615 | 0.00 | 0.00 | 0.00 | 4.63 |
3434 | 4054 | 8.950007 | TGTGGTTAATAGAGGAGGAAAAATTT | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
3435 | 4055 | 8.950007 | TTGTGGTTAATAGAGGAGGAAAAATT | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
3436 | 4056 | 8.950007 | TTTGTGGTTAATAGAGGAGGAAAAAT | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
3437 | 4057 | 8.770010 | TTTTGTGGTTAATAGAGGAGGAAAAA | 57.230 | 30.769 | 0.00 | 0.00 | 0.00 | 1.94 |
3438 | 4058 | 7.450323 | CCTTTTGTGGTTAATAGAGGAGGAAAA | 59.550 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
3439 | 4059 | 6.946009 | CCTTTTGTGGTTAATAGAGGAGGAAA | 59.054 | 38.462 | 0.00 | 0.00 | 0.00 | 3.13 |
3440 | 4060 | 6.273730 | TCCTTTTGTGGTTAATAGAGGAGGAA | 59.726 | 38.462 | 0.00 | 0.00 | 0.00 | 3.36 |
3441 | 4061 | 5.788533 | TCCTTTTGTGGTTAATAGAGGAGGA | 59.211 | 40.000 | 0.00 | 0.00 | 0.00 | 3.71 |
3442 | 4062 | 6.062258 | TCCTTTTGTGGTTAATAGAGGAGG | 57.938 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
3443 | 4063 | 6.070194 | TCCTCCTTTTGTGGTTAATAGAGGAG | 60.070 | 42.308 | 8.70 | 8.70 | 45.41 | 3.69 |
3444 | 4064 | 5.788533 | TCCTCCTTTTGTGGTTAATAGAGGA | 59.211 | 40.000 | 0.00 | 0.00 | 0.00 | 3.71 |
3445 | 4065 | 6.062258 | TCCTCCTTTTGTGGTTAATAGAGG | 57.938 | 41.667 | 0.00 | 0.00 | 0.00 | 3.69 |
3446 | 4066 | 7.338710 | TGATCCTCCTTTTGTGGTTAATAGAG | 58.661 | 38.462 | 0.00 | 0.00 | 0.00 | 2.43 |
3447 | 4067 | 7.265599 | TGATCCTCCTTTTGTGGTTAATAGA | 57.734 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
3448 | 4068 | 7.469181 | GCATGATCCTCCTTTTGTGGTTAATAG | 60.469 | 40.741 | 0.00 | 0.00 | 0.00 | 1.73 |
3449 | 4069 | 6.321181 | GCATGATCCTCCTTTTGTGGTTAATA | 59.679 | 38.462 | 0.00 | 0.00 | 0.00 | 0.98 |
3450 | 4070 | 5.127682 | GCATGATCCTCCTTTTGTGGTTAAT | 59.872 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3451 | 4071 | 4.462483 | GCATGATCCTCCTTTTGTGGTTAA | 59.538 | 41.667 | 0.00 | 0.00 | 0.00 | 2.01 |
3452 | 4072 | 4.016444 | GCATGATCCTCCTTTTGTGGTTA | 58.984 | 43.478 | 0.00 | 0.00 | 0.00 | 2.85 |
3453 | 4073 | 2.827921 | GCATGATCCTCCTTTTGTGGTT | 59.172 | 45.455 | 0.00 | 0.00 | 0.00 | 3.67 |
3454 | 4074 | 2.450476 | GCATGATCCTCCTTTTGTGGT | 58.550 | 47.619 | 0.00 | 0.00 | 0.00 | 4.16 |
3455 | 4075 | 1.753073 | GGCATGATCCTCCTTTTGTGG | 59.247 | 52.381 | 0.00 | 0.00 | 0.00 | 4.17 |
3456 | 4076 | 2.165030 | GTGGCATGATCCTCCTTTTGTG | 59.835 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
3457 | 4077 | 2.042162 | AGTGGCATGATCCTCCTTTTGT | 59.958 | 45.455 | 0.00 | 0.00 | 0.00 | 2.83 |
3458 | 4078 | 2.731572 | AGTGGCATGATCCTCCTTTTG | 58.268 | 47.619 | 0.00 | 0.00 | 0.00 | 2.44 |
3459 | 4079 | 3.686691 | GCTAGTGGCATGATCCTCCTTTT | 60.687 | 47.826 | 0.00 | 0.00 | 41.35 | 2.27 |
3460 | 4080 | 2.158696 | GCTAGTGGCATGATCCTCCTTT | 60.159 | 50.000 | 0.00 | 0.00 | 41.35 | 3.11 |
3461 | 4081 | 1.419387 | GCTAGTGGCATGATCCTCCTT | 59.581 | 52.381 | 0.00 | 0.00 | 41.35 | 3.36 |
3462 | 4082 | 1.055040 | GCTAGTGGCATGATCCTCCT | 58.945 | 55.000 | 0.00 | 0.00 | 41.35 | 3.69 |
3463 | 4083 | 3.621953 | GCTAGTGGCATGATCCTCC | 57.378 | 57.895 | 0.00 | 0.00 | 41.35 | 4.30 |
3473 | 4093 | 1.069358 | GAGGACTATGGTGCTAGTGGC | 59.931 | 57.143 | 2.49 | 0.00 | 44.07 | 5.01 |
3474 | 4094 | 2.625790 | GAGAGGACTATGGTGCTAGTGG | 59.374 | 54.545 | 2.49 | 0.00 | 44.07 | 4.00 |
3475 | 4095 | 2.292016 | CGAGAGGACTATGGTGCTAGTG | 59.708 | 54.545 | 2.49 | 0.00 | 44.07 | 2.74 |
3476 | 4096 | 2.577700 | CGAGAGGACTATGGTGCTAGT | 58.422 | 52.381 | 2.49 | 0.00 | 44.07 | 2.57 |
3504 | 4124 | 4.659172 | ATGGTGGTGGTGGTGGCG | 62.659 | 66.667 | 0.00 | 0.00 | 0.00 | 5.69 |
3505 | 4125 | 2.676471 | GATGGTGGTGGTGGTGGC | 60.676 | 66.667 | 0.00 | 0.00 | 0.00 | 5.01 |
3506 | 4126 | 2.035626 | GGATGGTGGTGGTGGTGG | 59.964 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
3507 | 4127 | 1.002134 | GAGGATGGTGGTGGTGGTG | 60.002 | 63.158 | 0.00 | 0.00 | 0.00 | 4.17 |
3508 | 4128 | 1.151810 | AGAGGATGGTGGTGGTGGT | 60.152 | 57.895 | 0.00 | 0.00 | 0.00 | 4.16 |
3509 | 4129 | 1.604378 | GAGAGGATGGTGGTGGTGG | 59.396 | 63.158 | 0.00 | 0.00 | 0.00 | 4.61 |
3510 | 4130 | 1.219124 | CGAGAGGATGGTGGTGGTG | 59.781 | 63.158 | 0.00 | 0.00 | 0.00 | 4.17 |
3511 | 4131 | 2.660064 | GCGAGAGGATGGTGGTGGT | 61.660 | 63.158 | 0.00 | 0.00 | 0.00 | 4.16 |
3512 | 4132 | 2.187946 | GCGAGAGGATGGTGGTGG | 59.812 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
3513 | 4133 | 2.187946 | GGCGAGAGGATGGTGGTG | 59.812 | 66.667 | 0.00 | 0.00 | 0.00 | 4.17 |
3514 | 4134 | 3.083997 | GGGCGAGAGGATGGTGGT | 61.084 | 66.667 | 0.00 | 0.00 | 0.00 | 4.16 |
3515 | 4135 | 4.227134 | CGGGCGAGAGGATGGTGG | 62.227 | 72.222 | 0.00 | 0.00 | 0.00 | 4.61 |
3516 | 4136 | 4.899239 | GCGGGCGAGAGGATGGTG | 62.899 | 72.222 | 0.00 | 0.00 | 0.00 | 4.17 |
3519 | 4139 | 4.899239 | GTGGCGGGCGAGAGGATG | 62.899 | 72.222 | 0.00 | 0.00 | 0.00 | 3.51 |
3530 | 4150 | 4.885270 | TGGTGTTGGTGGTGGCGG | 62.885 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
3531 | 4151 | 2.830827 | TTGGTGTTGGTGGTGGCG | 60.831 | 61.111 | 0.00 | 0.00 | 0.00 | 5.69 |
3532 | 4152 | 2.055042 | TGTTGGTGTTGGTGGTGGC | 61.055 | 57.895 | 0.00 | 0.00 | 0.00 | 5.01 |
3533 | 4153 | 4.346049 | TGTTGGTGTTGGTGGTGG | 57.654 | 55.556 | 0.00 | 0.00 | 0.00 | 4.61 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.