Multiple sequence alignment - TraesCS6D01G139200
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 | TraesCS6D01G139200 | chr6D | 100.000 | 5738 | 0 | 0 | 931 | 6668 | 108452126 | 108446389 | 0.000000e+00 | 10597.0 |
1 | TraesCS6D01G139200 | chr6D | 100.000 | 369 | 0 | 0 | 1 | 369 | 108453056 | 108452688 | 0.000000e+00 | 682.0 |
2 | TraesCS6D01G139200 | chr6D | 80.745 | 161 | 17 | 10 | 6255 | 6408 | 106970548 | 106970395 | 5.470000e-21 | 113.0 |
3 | TraesCS6D01G139200 | chr6D | 80.247 | 162 | 18 | 10 | 6254 | 6408 | 408177285 | 408177131 | 7.070000e-20 | 110.0 |
4 | TraesCS6D01G139200 | chr6A | 92.299 | 5558 | 277 | 51 | 1192 | 6668 | 133418841 | 133413354 | 0.000000e+00 | 7753.0 |
5 | TraesCS6D01G139200 | chr6A | 91.620 | 358 | 7 | 7 | 18 | 369 | 133419543 | 133419203 | 2.180000e-129 | 473.0 |
6 | TraesCS6D01G139200 | chr6A | 95.122 | 246 | 10 | 1 | 931 | 1174 | 133419079 | 133418834 | 2.920000e-103 | 387.0 |
7 | TraesCS6D01G139200 | chr6A | 94.068 | 118 | 7 | 0 | 6549 | 6666 | 133412916 | 133412799 | 5.310000e-41 | 180.0 |
8 | TraesCS6D01G139200 | chr6B | 92.702 | 3220 | 168 | 32 | 931 | 4117 | 195810347 | 195807162 | 0.000000e+00 | 4582.0 |
9 | TraesCS6D01G139200 | chr6B | 89.957 | 2071 | 141 | 30 | 4163 | 6217 | 195806929 | 195804910 | 0.000000e+00 | 2610.0 |
10 | TraesCS6D01G139200 | chr6B | 91.304 | 322 | 21 | 6 | 6347 | 6664 | 195787772 | 195787454 | 3.690000e-117 | 433.0 |
11 | TraesCS6D01G139200 | chr6B | 92.035 | 113 | 7 | 2 | 6229 | 6341 | 195799391 | 195799281 | 2.490000e-34 | 158.0 |
12 | TraesCS6D01G139200 | chr6B | 100.000 | 74 | 0 | 0 | 296 | 369 | 195810544 | 195810471 | 3.240000e-28 | 137.0 |
13 | TraesCS6D01G139200 | chr6B | 85.185 | 108 | 11 | 4 | 2624 | 2730 | 553053350 | 553053453 | 9.150000e-19 | 106.0 |
14 | TraesCS6D01G139200 | chr3D | 81.699 | 153 | 15 | 10 | 6254 | 6399 | 35715832 | 35715978 | 1.520000e-21 | 115.0 |
15 | TraesCS6D01G139200 | chr3D | 90.909 | 44 | 4 | 0 | 3667 | 3710 | 29879960 | 29879917 | 7.220000e-05 | 60.2 |
16 | TraesCS6D01G139200 | chr2B | 81.699 | 153 | 14 | 10 | 6254 | 6399 | 794641895 | 794642040 | 1.520000e-21 | 115.0 |
17 | TraesCS6D01G139200 | chr2B | 81.699 | 153 | 14 | 10 | 6254 | 6399 | 794731470 | 794731615 | 1.520000e-21 | 115.0 |
18 | TraesCS6D01G139200 | chr4D | 86.735 | 98 | 9 | 3 | 6254 | 6349 | 35385299 | 35385204 | 9.150000e-19 | 106.0 |
19 | TraesCS6D01G139200 | chr4A | 86.735 | 98 | 9 | 4 | 6254 | 6349 | 659137350 | 659137445 | 9.150000e-19 | 106.0 |
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 | TraesCS6D01G139200 | chr6D | 108446389 | 108453056 | 6667 | True | 5639.50 | 10597 | 100.000000 | 1 | 6668 | 2 | chr6D.!!$R3 | 6667 |
1 | TraesCS6D01G139200 | chr6A | 133412799 | 133419543 | 6744 | True | 2198.25 | 7753 | 93.277250 | 18 | 6668 | 4 | chr6A.!!$R1 | 6650 |
2 | TraesCS6D01G139200 | chr6B | 195804910 | 195810544 | 5634 | True | 2443.00 | 4582 | 94.219667 | 296 | 6217 | 3 | chr6B.!!$R3 | 5921 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
66 | 69 | 0.458543 | CACAACGACGGAGCAGCTAT | 60.459 | 55.000 | 0.00 | 0.00 | 0.00 | 2.97 | F |
101 | 104 | 0.966920 | ATCCACCAGACGAAACGACT | 59.033 | 50.000 | 0.00 | 0.00 | 31.64 | 4.18 | F |
103 | 106 | 1.002250 | CCACCAGACGAAACGACTCG | 61.002 | 60.000 | 8.91 | 8.91 | 44.50 | 4.18 | F |
1467 | 1476 | 1.279025 | AAGGCCACATACACCGGGAT | 61.279 | 55.000 | 6.32 | 0.00 | 0.00 | 3.85 | F |
2943 | 2979 | 0.333312 | AGAGAGAGGGGACGTGATGT | 59.667 | 55.000 | 0.00 | 0.00 | 0.00 | 3.06 | F |
3110 | 3148 | 0.108520 | GCGGGTGATTTGAGGTACGA | 60.109 | 55.000 | 0.00 | 0.00 | 0.00 | 3.43 | F |
3180 | 3220 | 3.572682 | TCTTCACTAGGCACTCGAAGAAA | 59.427 | 43.478 | 6.89 | 0.00 | 41.85 | 2.52 | F |
4207 | 4447 | 1.789464 | GATAGATTTGCACCGCGAGAG | 59.211 | 52.381 | 8.23 | 0.00 | 0.00 | 3.20 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1281 | 1290 | 0.250295 | CGTCTTGGGTGAAGGAGCAA | 60.250 | 55.000 | 0.00 | 0.00 | 31.85 | 3.91 | R |
1598 | 1610 | 0.521291 | TTCCGAAATCCGCAAGCTTG | 59.479 | 50.000 | 22.44 | 22.44 | 36.84 | 4.01 | R |
1631 | 1643 | 3.312697 | TCCTGTTGATCATCGAGTCGTAG | 59.687 | 47.826 | 13.12 | 6.54 | 0.00 | 3.51 | R |
3077 | 3113 | 0.031449 | ACCCGCAAACATTCAAACCG | 59.969 | 50.000 | 0.00 | 0.00 | 0.00 | 4.44 | R |
4186 | 4426 | 0.504384 | CTCGCGGTGCAAATCTATCG | 59.496 | 55.000 | 6.13 | 0.00 | 0.00 | 2.92 | R |
4201 | 4441 | 1.066908 | AGATGTTGAGCTAGCTCTCGC | 59.933 | 52.381 | 37.42 | 27.61 | 43.12 | 5.03 | R |
4473 | 4719 | 1.338020 | CTCAAGTTGTTTCCCACTGGC | 59.662 | 52.381 | 2.11 | 0.00 | 0.00 | 4.85 | R |
5962 | 6227 | 1.295020 | AAGGAAATCGGGATCCACCA | 58.705 | 50.000 | 15.23 | 0.00 | 41.20 | 4.17 | R |
All possible primersListed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
37 | 38 | 5.490159 | CCTAATTACAACTTCCACCCGTAA | 58.510 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
65 | 68 | 1.080772 | CACAACGACGGAGCAGCTA | 60.081 | 57.895 | 0.00 | 0.00 | 0.00 | 3.32 |
66 | 69 | 0.458543 | CACAACGACGGAGCAGCTAT | 60.459 | 55.000 | 0.00 | 0.00 | 0.00 | 2.97 |
91 | 94 | 1.386550 | TGGACTCCGATCCACCAGA | 59.613 | 57.895 | 0.00 | 0.00 | 44.14 | 3.86 |
101 | 104 | 0.966920 | ATCCACCAGACGAAACGACT | 59.033 | 50.000 | 0.00 | 0.00 | 31.64 | 4.18 |
103 | 106 | 1.002250 | CCACCAGACGAAACGACTCG | 61.002 | 60.000 | 8.91 | 8.91 | 44.50 | 4.18 |
156 | 159 | 2.732619 | GGAATCGACCGGAAGCCCT | 61.733 | 63.158 | 9.46 | 0.00 | 0.00 | 5.19 |
258 | 261 | 3.576356 | CGCCAGCCAACCATAGCG | 61.576 | 66.667 | 0.00 | 0.00 | 37.39 | 4.26 |
261 | 264 | 3.211963 | CAGCCAACCATAGCGCCC | 61.212 | 66.667 | 2.29 | 0.00 | 0.00 | 6.13 |
280 | 283 | 2.863988 | CCACCCCCTCCCACCTTT | 60.864 | 66.667 | 0.00 | 0.00 | 0.00 | 3.11 |
281 | 284 | 2.763902 | CACCCCCTCCCACCTTTC | 59.236 | 66.667 | 0.00 | 0.00 | 0.00 | 2.62 |
282 | 285 | 2.534533 | ACCCCCTCCCACCTTTCC | 60.535 | 66.667 | 0.00 | 0.00 | 0.00 | 3.13 |
283 | 286 | 3.347590 | CCCCCTCCCACCTTTCCC | 61.348 | 72.222 | 0.00 | 0.00 | 0.00 | 3.97 |
1113 | 1120 | 4.761058 | TCCCTCCGCTCCGAAGCT | 62.761 | 66.667 | 0.00 | 0.00 | 46.91 | 3.74 |
1162 | 1171 | 7.607607 | TCCACTCAATATATCAATCAATTCCCG | 59.392 | 37.037 | 0.00 | 0.00 | 0.00 | 5.14 |
1281 | 1290 | 1.690219 | CCAACCTCCTCAGCGCCTAT | 61.690 | 60.000 | 2.29 | 0.00 | 0.00 | 2.57 |
1467 | 1476 | 1.279025 | AAGGCCACATACACCGGGAT | 61.279 | 55.000 | 6.32 | 0.00 | 0.00 | 3.85 |
1529 | 1541 | 8.281194 | TGAAGATTACGTCACTTCGTATATCTC | 58.719 | 37.037 | 17.75 | 12.54 | 43.96 | 2.75 |
1531 | 1543 | 9.486497 | AAGATTACGTCACTTCGTATATCTCTA | 57.514 | 33.333 | 15.93 | 0.00 | 43.96 | 2.43 |
1537 | 1549 | 6.246748 | CGTCACTTCGTATATCTCTAAATCGC | 59.753 | 42.308 | 0.00 | 0.00 | 0.00 | 4.58 |
1542 | 1554 | 7.534578 | ACTTCGTATATCTCTAAATCGCTTTCG | 59.465 | 37.037 | 0.00 | 0.00 | 0.00 | 3.46 |
1682 | 1694 | 3.268603 | CACACGCTTGTCGGCACA | 61.269 | 61.111 | 0.00 | 0.00 | 43.86 | 4.57 |
1725 | 1737 | 9.628746 | TTAAAAGTTGTTGTTTTTAGGACTGTC | 57.371 | 29.630 | 0.00 | 0.00 | 32.27 | 3.51 |
1801 | 1814 | 5.174395 | ACTGACATTCTACTGATTCAGTGC | 58.826 | 41.667 | 26.01 | 9.27 | 45.01 | 4.40 |
1809 | 1822 | 5.473931 | TCTACTGATTCAGTGCTCTGTTTC | 58.526 | 41.667 | 26.01 | 12.84 | 45.01 | 2.78 |
2464 | 2483 | 6.375455 | ACGACATTCATTTGCCTTCTCTATTT | 59.625 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
2598 | 2617 | 9.950496 | AAAGAGAAGACATCACATGTTAGTATT | 57.050 | 29.630 | 0.00 | 0.00 | 45.03 | 1.89 |
2602 | 2621 | 9.950496 | AGAAGACATCACATGTTAGTATTTCTT | 57.050 | 29.630 | 0.00 | 2.36 | 45.03 | 2.52 |
2644 | 2663 | 0.833287 | AGCATCTCCATTACCGTGCT | 59.167 | 50.000 | 0.00 | 0.00 | 38.03 | 4.40 |
2646 | 2665 | 1.743772 | GCATCTCCATTACCGTGCTGT | 60.744 | 52.381 | 0.00 | 0.00 | 0.00 | 4.40 |
2677 | 2696 | 1.444895 | CTAAACGTCCGTGGACCCG | 60.445 | 63.158 | 13.24 | 5.48 | 41.76 | 5.28 |
2694 | 2713 | 2.029221 | GAATACGGGAGCTCGCCC | 59.971 | 66.667 | 23.61 | 12.70 | 45.10 | 6.13 |
2710 | 2729 | 1.133792 | CGCCCTCCAAATCCATACCTT | 60.134 | 52.381 | 0.00 | 0.00 | 0.00 | 3.50 |
2836 | 2855 | 6.537301 | CCGTCAAATAAGAACCACTAGCAATA | 59.463 | 38.462 | 0.00 | 0.00 | 0.00 | 1.90 |
2894 | 2913 | 2.912956 | TGGTCTCCTTCTGCCAAATAGT | 59.087 | 45.455 | 0.00 | 0.00 | 0.00 | 2.12 |
2900 | 2919 | 2.420129 | CCTTCTGCCAAATAGTAGCGGT | 60.420 | 50.000 | 0.00 | 0.00 | 34.43 | 5.68 |
2916 | 2935 | 2.268920 | GTCTTCCGCCATCCTGCA | 59.731 | 61.111 | 0.00 | 0.00 | 0.00 | 4.41 |
2928 | 2947 | 1.000359 | TCCTGCACGGATGGAGAGA | 60.000 | 57.895 | 0.00 | 0.00 | 46.84 | 3.10 |
2929 | 2948 | 1.039785 | TCCTGCACGGATGGAGAGAG | 61.040 | 60.000 | 0.00 | 0.00 | 46.84 | 3.20 |
2930 | 2949 | 1.039785 | CCTGCACGGATGGAGAGAGA | 61.040 | 60.000 | 0.00 | 0.00 | 46.84 | 3.10 |
2934 | 2970 | 1.112315 | CACGGATGGAGAGAGAGGGG | 61.112 | 65.000 | 0.00 | 0.00 | 0.00 | 4.79 |
2943 | 2979 | 0.333312 | AGAGAGAGGGGACGTGATGT | 59.667 | 55.000 | 0.00 | 0.00 | 0.00 | 3.06 |
3014 | 3050 | 4.933400 | TCTAGTTTAGTGAAATTCGGCCAC | 59.067 | 41.667 | 2.24 | 0.00 | 0.00 | 5.01 |
3054 | 3090 | 1.948104 | TATGCGGCACTATGTTGGAC | 58.052 | 50.000 | 4.03 | 0.00 | 0.00 | 4.02 |
3076 | 3112 | 3.628017 | GACAAAAATGGTCCGAACACTG | 58.372 | 45.455 | 0.00 | 0.00 | 0.00 | 3.66 |
3077 | 3113 | 2.223711 | ACAAAAATGGTCCGAACACTGC | 60.224 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
3084 | 3122 | 3.725819 | CCGAACACTGCGGTTTGA | 58.274 | 55.556 | 0.00 | 0.00 | 43.66 | 2.69 |
3110 | 3148 | 0.108520 | GCGGGTGATTTGAGGTACGA | 60.109 | 55.000 | 0.00 | 0.00 | 0.00 | 3.43 |
3180 | 3220 | 3.572682 | TCTTCACTAGGCACTCGAAGAAA | 59.427 | 43.478 | 6.89 | 0.00 | 41.85 | 2.52 |
3182 | 3222 | 4.537135 | TCACTAGGCACTCGAAGAAATT | 57.463 | 40.909 | 0.00 | 0.00 | 41.75 | 1.82 |
3183 | 3223 | 5.654603 | TCACTAGGCACTCGAAGAAATTA | 57.345 | 39.130 | 0.00 | 0.00 | 41.75 | 1.40 |
3184 | 3224 | 6.222038 | TCACTAGGCACTCGAAGAAATTAT | 57.778 | 37.500 | 0.00 | 0.00 | 41.75 | 1.28 |
3185 | 3225 | 7.342769 | TCACTAGGCACTCGAAGAAATTATA | 57.657 | 36.000 | 0.00 | 0.00 | 41.75 | 0.98 |
3186 | 3226 | 7.952671 | TCACTAGGCACTCGAAGAAATTATAT | 58.047 | 34.615 | 0.00 | 0.00 | 41.75 | 0.86 |
3187 | 3227 | 9.074576 | TCACTAGGCACTCGAAGAAATTATATA | 57.925 | 33.333 | 0.00 | 0.00 | 41.75 | 0.86 |
3188 | 3228 | 9.130312 | CACTAGGCACTCGAAGAAATTATATAC | 57.870 | 37.037 | 0.00 | 0.00 | 41.75 | 1.47 |
3855 | 3903 | 8.630037 | CCTCAAAGGTTGGGATGTTTAATATAC | 58.370 | 37.037 | 0.00 | 0.00 | 30.85 | 1.47 |
3857 | 3905 | 9.762381 | TCAAAGGTTGGGATGTTTAATATACTT | 57.238 | 29.630 | 0.00 | 0.00 | 0.00 | 2.24 |
3921 | 3970 | 9.691362 | GACAAATTCACAACCATAAACAAGTAT | 57.309 | 29.630 | 0.00 | 0.00 | 0.00 | 2.12 |
4051 | 4103 | 5.471556 | TTCTACGGGAGTTAAACATGTCA | 57.528 | 39.130 | 0.00 | 0.00 | 43.33 | 3.58 |
4206 | 4446 | 1.852942 | GATAGATTTGCACCGCGAGA | 58.147 | 50.000 | 8.23 | 0.00 | 0.00 | 4.04 |
4207 | 4447 | 1.789464 | GATAGATTTGCACCGCGAGAG | 59.211 | 52.381 | 8.23 | 0.00 | 0.00 | 3.20 |
4225 | 4465 | 4.274705 | CGAGAGCTAGCTCAACATCTTCTA | 59.725 | 45.833 | 38.86 | 0.00 | 44.99 | 2.10 |
4311 | 4553 | 8.206189 | TCTATGTTGCATCTGATCTACAAATGA | 58.794 | 33.333 | 0.00 | 5.42 | 29.19 | 2.57 |
4336 | 4578 | 7.271511 | ACTCTTCAAGGAAATCTAGCATACAG | 58.728 | 38.462 | 0.00 | 0.00 | 0.00 | 2.74 |
4398 | 4644 | 2.008242 | ATGCTACCTTTTTGGGTGCA | 57.992 | 45.000 | 11.01 | 11.01 | 42.59 | 4.57 |
4473 | 4719 | 8.925161 | TTGTTTTCTGACATAAGGTTTTTCTG | 57.075 | 30.769 | 0.00 | 0.00 | 0.00 | 3.02 |
4544 | 4790 | 4.645667 | TGAGTCATTTGAACGACATTCG | 57.354 | 40.909 | 0.00 | 0.00 | 46.93 | 3.34 |
4568 | 4814 | 4.017177 | AGTACCTACCAAGCAACTTTCC | 57.983 | 45.455 | 0.00 | 0.00 | 0.00 | 3.13 |
4579 | 4825 | 1.542492 | CAACTTTCCAGAGCAGGCAT | 58.458 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
4619 | 4865 | 4.710423 | ATGTCTATAGCTAGGATGCACG | 57.290 | 45.455 | 0.00 | 0.00 | 34.99 | 5.34 |
4768 | 5019 | 5.583061 | TCCAATGTTACGTGTATGGATGAAC | 59.417 | 40.000 | 0.00 | 0.00 | 32.28 | 3.18 |
4771 | 5022 | 7.225734 | CCAATGTTACGTGTATGGATGAACATA | 59.774 | 37.037 | 0.00 | 0.00 | 35.56 | 2.29 |
4800 | 5051 | 1.241315 | CGGCCATTCAAAAGGGTCGT | 61.241 | 55.000 | 9.02 | 0.00 | 44.32 | 4.34 |
4931 | 5182 | 8.682710 | TGGCACTATCATTTCTTATTTGGTTAC | 58.317 | 33.333 | 0.00 | 0.00 | 0.00 | 2.50 |
5109 | 5361 | 1.973281 | CAATCCTGTGCACCGCCTT | 60.973 | 57.895 | 15.69 | 1.09 | 0.00 | 4.35 |
5153 | 5408 | 5.587043 | TGGGACCGAAACATATTTGTACATC | 59.413 | 40.000 | 0.00 | 0.00 | 34.06 | 3.06 |
5207 | 5462 | 9.487442 | TCTACATGTCCTACATATGCCATATTA | 57.513 | 33.333 | 0.00 | 0.00 | 36.53 | 0.98 |
5213 | 5468 | 8.601546 | TGTCCTACATATGCCATATTAACATCA | 58.398 | 33.333 | 1.58 | 0.00 | 0.00 | 3.07 |
5658 | 5918 | 6.320494 | TGCGTCCAACAAAATAAAGTACAT | 57.680 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
5670 | 5930 | 9.950680 | CAAAATAAAGTACATGGGCTATAGTTG | 57.049 | 33.333 | 0.84 | 0.00 | 0.00 | 3.16 |
5923 | 6187 | 9.643693 | TTTTCCTAGTAATTTAGTACTCCAACG | 57.356 | 33.333 | 0.00 | 0.00 | 35.85 | 4.10 |
5945 | 6209 | 8.328864 | CAACGCACTAATAGATTCTTTACCTTC | 58.671 | 37.037 | 0.00 | 0.00 | 0.00 | 3.46 |
6005 | 6270 | 9.634163 | CTTTAGTAGAAACCAAAACAAAACTGT | 57.366 | 29.630 | 0.00 | 0.00 | 0.00 | 3.55 |
6026 | 6292 | 3.845781 | ACCATCTCACACATCATACCC | 57.154 | 47.619 | 0.00 | 0.00 | 0.00 | 3.69 |
6085 | 6351 | 7.041721 | CGATGTAATATAGCAAAGAGGCCATA | 58.958 | 38.462 | 5.01 | 0.00 | 0.00 | 2.74 |
6093 | 6363 | 3.118223 | AGCAAAGAGGCCATACTAGGAAC | 60.118 | 47.826 | 5.01 | 0.00 | 0.00 | 3.62 |
6094 | 6364 | 3.809905 | CAAAGAGGCCATACTAGGAACC | 58.190 | 50.000 | 5.01 | 0.00 | 0.00 | 3.62 |
6095 | 6365 | 1.705873 | AGAGGCCATACTAGGAACCG | 58.294 | 55.000 | 5.01 | 0.00 | 0.00 | 4.44 |
6135 | 6405 | 1.204704 | CGGTGAGCTGAACATAGGACA | 59.795 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
6157 | 6427 | 6.725246 | ACACACAATAAAAGGAAAGAAGACG | 58.275 | 36.000 | 0.00 | 0.00 | 0.00 | 4.18 |
6201 | 6471 | 4.040461 | TCTCGTTCCTCAGTTTTGGAATCT | 59.960 | 41.667 | 0.00 | 0.00 | 43.25 | 2.40 |
6217 | 6487 | 4.080356 | TGGAATCTATGGGGTTCACTTCTG | 60.080 | 45.833 | 0.00 | 0.00 | 0.00 | 3.02 |
6220 | 6490 | 4.061131 | TCTATGGGGTTCACTTCTGAGA | 57.939 | 45.455 | 0.00 | 0.00 | 0.00 | 3.27 |
6221 | 6491 | 4.624913 | TCTATGGGGTTCACTTCTGAGAT | 58.375 | 43.478 | 0.00 | 0.00 | 0.00 | 2.75 |
6222 | 6492 | 3.641434 | ATGGGGTTCACTTCTGAGATG | 57.359 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
6223 | 6493 | 1.630369 | TGGGGTTCACTTCTGAGATGG | 59.370 | 52.381 | 0.29 | 0.00 | 0.00 | 3.51 |
6224 | 6494 | 1.065126 | GGGGTTCACTTCTGAGATGGG | 60.065 | 57.143 | 0.29 | 0.00 | 0.00 | 4.00 |
6234 | 6528 | 3.340814 | TCTGAGATGGGAGCAAAAGAC | 57.659 | 47.619 | 0.00 | 0.00 | 0.00 | 3.01 |
6248 | 6542 | 0.657840 | AAAGACGTGTCTGTTGCTGC | 59.342 | 50.000 | 2.78 | 0.00 | 40.36 | 5.25 |
6258 | 6552 | 1.680735 | TCTGTTGCTGCGTGGAAAATT | 59.319 | 42.857 | 0.00 | 0.00 | 0.00 | 1.82 |
6264 | 6558 | 1.269448 | GCTGCGTGGAAAATTTGAGGA | 59.731 | 47.619 | 0.00 | 0.00 | 0.00 | 3.71 |
6281 | 6575 | 9.584008 | AATTTGAGGAGTGATATTTGATATGCT | 57.416 | 29.630 | 0.00 | 0.00 | 0.00 | 3.79 |
6282 | 6576 | 7.974482 | TTGAGGAGTGATATTTGATATGCTG | 57.026 | 36.000 | 0.00 | 0.00 | 0.00 | 4.41 |
6409 | 6704 | 4.216902 | AGGAAAAACCCATACGTTAGTTGC | 59.783 | 41.667 | 0.00 | 0.00 | 40.05 | 4.17 |
6422 | 6717 | 5.642686 | ACGTTAGTTGCTTTTTGCTTTGTA | 58.357 | 33.333 | 0.00 | 0.00 | 43.37 | 2.41 |
6432 | 6727 | 7.145323 | TGCTTTTTGCTTTGTATACTTCCTTC | 58.855 | 34.615 | 4.17 | 0.00 | 43.37 | 3.46 |
6470 | 6765 | 5.028549 | ACACCATATGATCCTGTGAAGAC | 57.971 | 43.478 | 13.79 | 0.00 | 0.00 | 3.01 |
6519 | 6816 | 8.511321 | TGATGCAAAACCACATAGTAAACTTAG | 58.489 | 33.333 | 0.00 | 0.00 | 0.00 | 2.18 |
6523 | 6820 | 7.361799 | GCAAAACCACATAGTAAACTTAGAGGG | 60.362 | 40.741 | 0.00 | 0.00 | 0.00 | 4.30 |
6524 | 6821 | 5.952347 | ACCACATAGTAAACTTAGAGGGG | 57.048 | 43.478 | 0.00 | 0.00 | 0.00 | 4.79 |
6527 | 6824 | 6.502863 | ACCACATAGTAAACTTAGAGGGGAAA | 59.497 | 38.462 | 0.00 | 0.00 | 0.00 | 3.13 |
6599 | 7453 | 1.801178 | CTTGCAAACCTCGAAGTCCTC | 59.199 | 52.381 | 0.00 | 0.00 | 0.00 | 3.71 |
6607 | 7461 | 4.853507 | CGAAGTCCTCGCGTACAA | 57.146 | 55.556 | 5.77 | 0.00 | 41.49 | 2.41 |
6666 | 7520 | 7.272244 | TGGCAAAGACTTTGAGAATATATCGA | 58.728 | 34.615 | 28.15 | 4.89 | 43.26 | 3.59 |
6667 | 7521 | 7.224753 | TGGCAAAGACTTTGAGAATATATCGAC | 59.775 | 37.037 | 28.15 | 8.13 | 43.26 | 4.20 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 7.822822 | AGTTGTAATTAGGCACGTCTTATCTTT | 59.177 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
1 | 2 | 7.328737 | AGTTGTAATTAGGCACGTCTTATCTT | 58.671 | 34.615 | 0.00 | 0.00 | 0.00 | 2.40 |
2 | 3 | 6.875076 | AGTTGTAATTAGGCACGTCTTATCT | 58.125 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
3 | 4 | 7.254353 | GGAAGTTGTAATTAGGCACGTCTTATC | 60.254 | 40.741 | 0.00 | 0.00 | 0.00 | 1.75 |
4 | 5 | 6.537660 | GGAAGTTGTAATTAGGCACGTCTTAT | 59.462 | 38.462 | 0.00 | 0.00 | 0.00 | 1.73 |
5 | 6 | 5.870978 | GGAAGTTGTAATTAGGCACGTCTTA | 59.129 | 40.000 | 0.00 | 0.00 | 0.00 | 2.10 |
6 | 7 | 4.694037 | GGAAGTTGTAATTAGGCACGTCTT | 59.306 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
7 | 8 | 4.251268 | GGAAGTTGTAATTAGGCACGTCT | 58.749 | 43.478 | 0.00 | 0.00 | 0.00 | 4.18 |
8 | 9 | 3.998341 | TGGAAGTTGTAATTAGGCACGTC | 59.002 | 43.478 | 0.00 | 0.00 | 0.00 | 4.34 |
9 | 10 | 3.749609 | GTGGAAGTTGTAATTAGGCACGT | 59.250 | 43.478 | 0.00 | 0.00 | 0.00 | 4.49 |
10 | 11 | 3.126343 | GGTGGAAGTTGTAATTAGGCACG | 59.874 | 47.826 | 0.00 | 0.00 | 0.00 | 5.34 |
11 | 12 | 3.442625 | GGGTGGAAGTTGTAATTAGGCAC | 59.557 | 47.826 | 0.00 | 0.00 | 0.00 | 5.01 |
12 | 13 | 3.692690 | GGGTGGAAGTTGTAATTAGGCA | 58.307 | 45.455 | 0.00 | 0.00 | 0.00 | 4.75 |
13 | 14 | 2.681344 | CGGGTGGAAGTTGTAATTAGGC | 59.319 | 50.000 | 0.00 | 0.00 | 0.00 | 3.93 |
14 | 15 | 3.946606 | ACGGGTGGAAGTTGTAATTAGG | 58.053 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
15 | 16 | 6.168389 | ACTTACGGGTGGAAGTTGTAATTAG | 58.832 | 40.000 | 0.00 | 0.00 | 31.83 | 1.73 |
16 | 17 | 6.112927 | ACTTACGGGTGGAAGTTGTAATTA | 57.887 | 37.500 | 0.00 | 0.00 | 31.83 | 1.40 |
37 | 38 | 0.168348 | CGTCGTTGTGATCGAGGACT | 59.832 | 55.000 | 11.83 | 0.00 | 42.95 | 3.85 |
65 | 68 | 1.486726 | GGATCGGAGTCCAACCAAGAT | 59.513 | 52.381 | 10.49 | 2.18 | 38.20 | 2.40 |
66 | 69 | 0.902531 | GGATCGGAGTCCAACCAAGA | 59.097 | 55.000 | 10.49 | 0.00 | 38.20 | 3.02 |
91 | 94 | 0.950116 | AAGAGTCCGAGTCGTTTCGT | 59.050 | 50.000 | 12.31 | 1.62 | 38.88 | 3.85 |
119 | 122 | 1.266989 | CCGTTTCTGTTTTGCCTCCTC | 59.733 | 52.381 | 0.00 | 0.00 | 0.00 | 3.71 |
120 | 123 | 1.133915 | TCCGTTTCTGTTTTGCCTCCT | 60.134 | 47.619 | 0.00 | 0.00 | 0.00 | 3.69 |
121 | 124 | 1.314730 | TCCGTTTCTGTTTTGCCTCC | 58.685 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
156 | 159 | 0.033920 | CGGATCCGGATCTCATGCAA | 59.966 | 55.000 | 36.72 | 0.00 | 37.92 | 4.08 |
268 | 271 | 3.347590 | GGGGGAAAGGTGGGAGGG | 61.348 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
283 | 286 | 2.125512 | CGCTTTCTCGTGAGGGGG | 60.126 | 66.667 | 0.00 | 0.00 | 0.00 | 5.40 |
1188 | 1197 | 1.204941 | AGAGACGCCGATTAGTGCTTT | 59.795 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
1281 | 1290 | 0.250295 | CGTCTTGGGTGAAGGAGCAA | 60.250 | 55.000 | 0.00 | 0.00 | 31.85 | 3.91 |
1467 | 1476 | 4.081420 | GGAGAGAGCTCAATTACCTTGACA | 60.081 | 45.833 | 17.77 | 0.00 | 43.14 | 3.58 |
1484 | 1493 | 3.437213 | TCAAATTCAGTACCGGGAGAGA | 58.563 | 45.455 | 6.32 | 0.00 | 0.00 | 3.10 |
1529 | 1541 | 3.404564 | CCGAAACACGAAAGCGATTTAG | 58.595 | 45.455 | 0.00 | 0.70 | 45.77 | 1.85 |
1531 | 1543 | 1.069500 | CCCGAAACACGAAAGCGATTT | 60.069 | 47.619 | 0.00 | 0.00 | 45.77 | 2.17 |
1537 | 1549 | 1.083015 | CACGCCCGAAACACGAAAG | 60.083 | 57.895 | 0.00 | 0.00 | 45.77 | 2.62 |
1542 | 1554 | 1.010462 | GTGTTCACGCCCGAAACAC | 60.010 | 57.895 | 19.32 | 19.32 | 0.00 | 3.32 |
1598 | 1610 | 0.521291 | TTCCGAAATCCGCAAGCTTG | 59.479 | 50.000 | 22.44 | 22.44 | 36.84 | 4.01 |
1631 | 1643 | 3.312697 | TCCTGTTGATCATCGAGTCGTAG | 59.687 | 47.826 | 13.12 | 6.54 | 0.00 | 3.51 |
1696 | 1708 | 9.850628 | AGTCCTAAAAACAACAACTTTTAAGAC | 57.149 | 29.630 | 7.49 | 7.49 | 38.04 | 3.01 |
1701 | 1713 | 7.094631 | GGACAGTCCTAAAAACAACAACTTTT | 58.905 | 34.615 | 12.94 | 0.00 | 32.53 | 2.27 |
1725 | 1737 | 7.878547 | ACCCATTGGCAAAAATATTAATTGG | 57.121 | 32.000 | 3.01 | 2.94 | 33.59 | 3.16 |
1735 | 1747 | 4.637387 | ATCATCAACCCATTGGCAAAAA | 57.363 | 36.364 | 3.01 | 0.00 | 36.39 | 1.94 |
1801 | 1814 | 5.123027 | GTGCCATCCTTAAGAAGAAACAGAG | 59.877 | 44.000 | 3.36 | 0.00 | 0.00 | 3.35 |
1809 | 1822 | 3.634397 | TCAGGTGCCATCCTTAAGAAG | 57.366 | 47.619 | 3.36 | 0.00 | 35.37 | 2.85 |
2073 | 2092 | 4.279671 | ACCTCAGTAACTTCTCACAGACAG | 59.720 | 45.833 | 0.00 | 0.00 | 0.00 | 3.51 |
2368 | 2387 | 3.957671 | AGCATGCATCTTACGTGATTG | 57.042 | 42.857 | 21.98 | 0.00 | 0.00 | 2.67 |
2464 | 2483 | 3.682372 | TGCGCGCACATAAAAATGATA | 57.318 | 38.095 | 33.09 | 0.66 | 0.00 | 2.15 |
2476 | 2495 | 0.110688 | CACCACATATATGCGCGCAC | 60.111 | 55.000 | 39.05 | 6.30 | 0.00 | 5.34 |
2610 | 2629 | 5.130975 | TGGAGATGCTCTTAGCTATGGAAAA | 59.869 | 40.000 | 6.78 | 0.00 | 42.97 | 2.29 |
2632 | 2651 | 2.286833 | CCGATTTACAGCACGGTAATGG | 59.713 | 50.000 | 0.00 | 0.00 | 40.42 | 3.16 |
2635 | 2654 | 2.029200 | TGTCCGATTTACAGCACGGTAA | 60.029 | 45.455 | 0.00 | 0.00 | 44.72 | 2.85 |
2644 | 2663 | 4.619973 | ACGTTTAGTGTGTCCGATTTACA | 58.380 | 39.130 | 0.00 | 0.00 | 0.00 | 2.41 |
2646 | 2665 | 4.236935 | GGACGTTTAGTGTGTCCGATTTA | 58.763 | 43.478 | 0.00 | 0.00 | 42.42 | 1.40 |
2677 | 2696 | 2.029221 | GGGCGAGCTCCCGTATTC | 59.971 | 66.667 | 8.47 | 0.00 | 36.38 | 1.75 |
2694 | 2713 | 6.017109 | CGGACATTTAAGGTATGGATTTGGAG | 60.017 | 42.308 | 0.00 | 0.00 | 0.00 | 3.86 |
2734 | 2753 | 9.834628 | CGGAAGACATTGCTACTATTTTAAAAA | 57.165 | 29.630 | 4.44 | 0.00 | 0.00 | 1.94 |
2735 | 2754 | 7.966204 | GCGGAAGACATTGCTACTATTTTAAAA | 59.034 | 33.333 | 2.51 | 2.51 | 0.00 | 1.52 |
2736 | 2755 | 7.414762 | GGCGGAAGACATTGCTACTATTTTAAA | 60.415 | 37.037 | 0.00 | 0.00 | 40.66 | 1.52 |
2737 | 2756 | 6.037830 | GGCGGAAGACATTGCTACTATTTTAA | 59.962 | 38.462 | 0.00 | 0.00 | 40.66 | 1.52 |
2738 | 2757 | 5.526111 | GGCGGAAGACATTGCTACTATTTTA | 59.474 | 40.000 | 0.00 | 0.00 | 40.66 | 1.52 |
2865 | 2884 | 3.416156 | GCAGAAGGAGACCAACTTTGAT | 58.584 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
2900 | 2919 | 2.268920 | GTGCAGGATGGCGGAAGA | 59.731 | 61.111 | 0.00 | 0.00 | 35.86 | 2.87 |
2916 | 2935 | 1.231641 | CCCCTCTCTCTCCATCCGT | 59.768 | 63.158 | 0.00 | 0.00 | 0.00 | 4.69 |
2928 | 2947 | 1.645710 | AAAGACATCACGTCCCCTCT | 58.354 | 50.000 | 0.00 | 0.00 | 46.69 | 3.69 |
2929 | 2948 | 2.076863 | CAAAAGACATCACGTCCCCTC | 58.923 | 52.381 | 0.00 | 0.00 | 46.69 | 4.30 |
2930 | 2949 | 1.697432 | TCAAAAGACATCACGTCCCCT | 59.303 | 47.619 | 0.00 | 0.00 | 46.69 | 4.79 |
2934 | 2970 | 4.213270 | TGGACAATCAAAAGACATCACGTC | 59.787 | 41.667 | 0.00 | 0.00 | 45.77 | 4.34 |
2943 | 2979 | 1.073125 | TCCGCCTGGACAATCAAAAGA | 59.927 | 47.619 | 0.00 | 0.00 | 40.17 | 2.52 |
3054 | 3090 | 2.289547 | AGTGTTCGGACCATTTTTGTCG | 59.710 | 45.455 | 0.00 | 0.00 | 33.46 | 4.35 |
3076 | 3112 | 1.281566 | CCCGCAAACATTCAAACCGC | 61.282 | 55.000 | 0.00 | 0.00 | 0.00 | 5.68 |
3077 | 3113 | 0.031449 | ACCCGCAAACATTCAAACCG | 59.969 | 50.000 | 0.00 | 0.00 | 0.00 | 4.44 |
3084 | 3122 | 2.029110 | CCTCAAATCACCCGCAAACATT | 60.029 | 45.455 | 0.00 | 0.00 | 0.00 | 2.71 |
3110 | 3148 | 1.568504 | TCTTAGGGCATCTCCAACGT | 58.431 | 50.000 | 0.00 | 0.00 | 36.21 | 3.99 |
3437 | 3477 | 9.632807 | TTATTGCACAAGTAAAATCATACCAAC | 57.367 | 29.630 | 0.00 | 0.00 | 0.00 | 3.77 |
3513 | 3553 | 7.339721 | TCATTCTCTTCCGAGTACTAGAAATGT | 59.660 | 37.037 | 4.34 | 0.00 | 38.45 | 2.71 |
3801 | 3849 | 2.435372 | TTGGAGTTGTTGAGCTTGGT | 57.565 | 45.000 | 0.00 | 0.00 | 0.00 | 3.67 |
3857 | 3905 | 8.687242 | ACGAAGTGACTATCATTCTATCAAGAA | 58.313 | 33.333 | 0.00 | 0.00 | 42.98 | 2.52 |
3931 | 3980 | 4.852609 | ACGGTATAGTTTCACATTTCGC | 57.147 | 40.909 | 0.00 | 0.00 | 0.00 | 4.70 |
3983 | 4032 | 1.060409 | GCACGTTTTGCCAACAACTTG | 59.940 | 47.619 | 0.00 | 5.33 | 46.63 | 3.16 |
4067 | 4119 | 8.659925 | AGAACAATGCAATTTTGATGTAAACA | 57.340 | 26.923 | 5.55 | 0.00 | 31.22 | 2.83 |
4178 | 4418 | 4.569162 | CGGTGCAAATCTATCGAAACCTAA | 59.431 | 41.667 | 0.00 | 0.00 | 0.00 | 2.69 |
4186 | 4426 | 0.504384 | CTCGCGGTGCAAATCTATCG | 59.496 | 55.000 | 6.13 | 0.00 | 0.00 | 2.92 |
4201 | 4441 | 1.066908 | AGATGTTGAGCTAGCTCTCGC | 59.933 | 52.381 | 37.42 | 27.61 | 43.12 | 5.03 |
4206 | 4446 | 5.186797 | AGTGTTAGAAGATGTTGAGCTAGCT | 59.813 | 40.000 | 19.45 | 19.45 | 0.00 | 3.32 |
4207 | 4447 | 5.415221 | AGTGTTAGAAGATGTTGAGCTAGC | 58.585 | 41.667 | 6.62 | 6.62 | 0.00 | 3.42 |
4208 | 4448 | 6.625362 | TGAGTGTTAGAAGATGTTGAGCTAG | 58.375 | 40.000 | 0.00 | 0.00 | 0.00 | 3.42 |
4209 | 4449 | 6.590234 | TGAGTGTTAGAAGATGTTGAGCTA | 57.410 | 37.500 | 0.00 | 0.00 | 0.00 | 3.32 |
4294 | 4536 | 8.713737 | TTGAAGAGTCATTTGTAGATCAGATG | 57.286 | 34.615 | 0.00 | 0.00 | 39.20 | 2.90 |
4311 | 4553 | 7.093112 | ACTGTATGCTAGATTTCCTTGAAGAGT | 60.093 | 37.037 | 0.00 | 0.00 | 0.00 | 3.24 |
4473 | 4719 | 1.338020 | CTCAAGTTGTTTCCCACTGGC | 59.662 | 52.381 | 2.11 | 0.00 | 0.00 | 4.85 |
4544 | 4790 | 5.048921 | GGAAAGTTGCTTGGTAGGTACTTTC | 60.049 | 44.000 | 14.06 | 14.06 | 45.19 | 2.62 |
4568 | 4814 | 2.008329 | GAGAAGAACATGCCTGCTCTG | 58.992 | 52.381 | 13.73 | 0.00 | 34.24 | 3.35 |
4579 | 4825 | 9.793259 | ATAGACATTTTACTTTGGAGAAGAACA | 57.207 | 29.630 | 0.00 | 0.00 | 0.00 | 3.18 |
4607 | 4853 | 5.931441 | AAATATTCTTCGTGCATCCTAGC | 57.069 | 39.130 | 0.00 | 0.00 | 0.00 | 3.42 |
4800 | 5051 | 6.966066 | CCGTTTCTTCCGTTGTTACTTTAAAA | 59.034 | 34.615 | 0.00 | 0.00 | 0.00 | 1.52 |
5104 | 5356 | 6.992063 | AATATAGGCAAGATTATCAAGGCG | 57.008 | 37.500 | 0.00 | 0.00 | 0.00 | 5.52 |
5109 | 5361 | 7.669722 | GGTCCCAAAATATAGGCAAGATTATCA | 59.330 | 37.037 | 0.00 | 0.00 | 0.00 | 2.15 |
5175 | 5430 | 4.855715 | ATGTAGGACATGTAGATGACCG | 57.144 | 45.455 | 14.07 | 0.00 | 45.82 | 4.79 |
5557 | 5813 | 7.542130 | CCCTTTTGCATCTGTTAAACAACTATC | 59.458 | 37.037 | 0.00 | 0.00 | 0.00 | 2.08 |
5561 | 5817 | 5.356426 | ACCCTTTTGCATCTGTTAAACAAC | 58.644 | 37.500 | 0.00 | 0.00 | 0.00 | 3.32 |
5658 | 5918 | 3.118038 | CCACCTTAAGCAACTATAGCCCA | 60.118 | 47.826 | 0.00 | 0.00 | 0.00 | 5.36 |
5670 | 5930 | 5.416013 | AGCTATGAAAAGAACCACCTTAAGC | 59.584 | 40.000 | 0.00 | 0.00 | 0.00 | 3.09 |
5746 | 6007 | 4.563061 | ACTACTTTAAGTAAGTGGCACCG | 58.437 | 43.478 | 15.27 | 0.00 | 46.15 | 4.94 |
5781 | 6042 | 9.571810 | CAAAATAAATGAAGCTAATGCACTACA | 57.428 | 29.630 | 0.00 | 0.00 | 42.74 | 2.74 |
5806 | 6067 | 7.851228 | TCTTCTAGAAGCACAATCTATTTCCA | 58.149 | 34.615 | 25.04 | 1.88 | 38.28 | 3.53 |
5919 | 6183 | 7.772332 | AGGTAAAGAATCTATTAGTGCGTTG | 57.228 | 36.000 | 0.00 | 0.00 | 0.00 | 4.10 |
5923 | 6187 | 8.819643 | ATCGAAGGTAAAGAATCTATTAGTGC | 57.180 | 34.615 | 0.00 | 0.00 | 0.00 | 4.40 |
5962 | 6227 | 1.295020 | AAGGAAATCGGGATCCACCA | 58.705 | 50.000 | 15.23 | 0.00 | 41.20 | 4.17 |
6005 | 6270 | 3.320826 | CGGGTATGATGTGTGAGATGGTA | 59.679 | 47.826 | 0.00 | 0.00 | 0.00 | 3.25 |
6085 | 6351 | 5.198965 | TCTAGATAACTTGCGGTTCCTAGT | 58.801 | 41.667 | 18.89 | 0.00 | 39.53 | 2.57 |
6093 | 6363 | 5.276868 | CCGTTTTGATCTAGATAACTTGCGG | 60.277 | 44.000 | 4.89 | 11.55 | 0.00 | 5.69 |
6094 | 6364 | 5.291128 | ACCGTTTTGATCTAGATAACTTGCG | 59.709 | 40.000 | 4.89 | 6.65 | 0.00 | 4.85 |
6095 | 6365 | 6.312918 | TCACCGTTTTGATCTAGATAACTTGC | 59.687 | 38.462 | 4.89 | 0.00 | 0.00 | 4.01 |
6135 | 6405 | 5.298276 | TGCGTCTTCTTTCCTTTTATTGTGT | 59.702 | 36.000 | 0.00 | 0.00 | 0.00 | 3.72 |
6157 | 6427 | 1.454653 | GACGTTGGACGACTAGTTTGC | 59.545 | 52.381 | 7.54 | 0.00 | 46.05 | 3.68 |
6201 | 6471 | 3.455910 | CCATCTCAGAAGTGAACCCCATA | 59.544 | 47.826 | 0.00 | 0.00 | 30.14 | 2.74 |
6217 | 6487 | 1.734465 | CACGTCTTTTGCTCCCATCTC | 59.266 | 52.381 | 0.00 | 0.00 | 0.00 | 2.75 |
6220 | 6490 | 1.072331 | AGACACGTCTTTTGCTCCCAT | 59.928 | 47.619 | 0.00 | 0.00 | 36.31 | 4.00 |
6221 | 6491 | 0.468226 | AGACACGTCTTTTGCTCCCA | 59.532 | 50.000 | 0.00 | 0.00 | 36.31 | 4.37 |
6222 | 6492 | 0.868406 | CAGACACGTCTTTTGCTCCC | 59.132 | 55.000 | 0.00 | 0.00 | 37.98 | 4.30 |
6223 | 6493 | 1.583054 | ACAGACACGTCTTTTGCTCC | 58.417 | 50.000 | 0.00 | 0.00 | 37.98 | 4.70 |
6224 | 6494 | 2.974165 | CAACAGACACGTCTTTTGCTC | 58.026 | 47.619 | 11.87 | 0.00 | 39.54 | 4.26 |
6234 | 6528 | 2.246397 | CACGCAGCAACAGACACG | 59.754 | 61.111 | 0.00 | 0.00 | 0.00 | 4.49 |
6248 | 6542 | 6.683974 | ATATCACTCCTCAAATTTTCCACG | 57.316 | 37.500 | 0.00 | 0.00 | 0.00 | 4.94 |
6258 | 6552 | 6.429078 | GCAGCATATCAAATATCACTCCTCAA | 59.571 | 38.462 | 0.00 | 0.00 | 0.00 | 3.02 |
6281 | 6575 | 5.175859 | CCGAGTTTGAAGGAGTATTTAGCA | 58.824 | 41.667 | 0.00 | 0.00 | 0.00 | 3.49 |
6282 | 6576 | 5.063564 | CACCGAGTTTGAAGGAGTATTTAGC | 59.936 | 44.000 | 0.00 | 0.00 | 0.00 | 3.09 |
6422 | 6717 | 7.756614 | ACCCAAGACTTTTTAGAAGGAAGTAT | 58.243 | 34.615 | 0.00 | 0.00 | 34.02 | 2.12 |
6490 | 6785 | 7.230510 | AGTTTACTATGTGGTTTTGCATCAAGA | 59.769 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
6496 | 6793 | 7.174253 | CCTCTAAGTTTACTATGTGGTTTTGCA | 59.826 | 37.037 | 0.00 | 0.00 | 0.00 | 4.08 |
6504 | 6801 | 8.857694 | TTTTTCCCCTCTAAGTTTACTATGTG | 57.142 | 34.615 | 0.00 | 0.00 | 0.00 | 3.21 |
6506 | 6803 | 9.462606 | ACATTTTTCCCCTCTAAGTTTACTATG | 57.537 | 33.333 | 0.00 | 0.00 | 0.00 | 2.23 |
6508 | 6805 | 7.392393 | GCACATTTTTCCCCTCTAAGTTTACTA | 59.608 | 37.037 | 0.00 | 0.00 | 0.00 | 1.82 |
6519 | 6816 | 5.596836 | TCATATTGCACATTTTTCCCCTC | 57.403 | 39.130 | 0.00 | 0.00 | 0.00 | 4.30 |
6599 | 7453 | 6.711579 | AGTATGTTAATGGAATTTGTACGCG | 58.288 | 36.000 | 3.53 | 3.53 | 37.87 | 6.01 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.