Multiple sequence alignment - TraesCS4A01G091200
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 | TraesCS4A01G091200 | chr4A | 100.000 | 3442 | 0 | 0 | 950 | 4391 | 97870264 | 97873705 | 0.000000e+00 | 6357 |
1 | TraesCS4A01G091200 | chr4A | 100.000 | 578 | 0 | 0 | 1 | 578 | 97869315 | 97869892 | 0.000000e+00 | 1068 |
2 | TraesCS4A01G091200 | chr4D | 95.829 | 3500 | 77 | 25 | 950 | 4391 | 367048186 | 367044698 | 0.000000e+00 | 5590 |
3 | TraesCS4A01G091200 | chr4D | 92.213 | 488 | 27 | 5 | 98 | 578 | 367048768 | 367048285 | 0.000000e+00 | 680 |
4 | TraesCS4A01G091200 | chr4B | 96.397 | 3331 | 107 | 9 | 1070 | 4389 | 451910851 | 451907523 | 0.000000e+00 | 5474 |
5 | TraesCS4A01G091200 | chr4B | 93.883 | 376 | 14 | 4 | 210 | 578 | 451911676 | 451911303 | 3.840000e-155 | 558 |
6 | TraesCS4A01G091200 | chr4B | 94.853 | 136 | 7 | 0 | 4254 | 4389 | 451907465 | 451907330 | 3.440000e-51 | 213 |
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 | TraesCS4A01G091200 | chr4A | 97869315 | 97873705 | 4390 | False | 3712.500000 | 6357 | 100.000000 | 1 | 4391 | 2 | chr4A.!!$F1 | 4390 |
1 | TraesCS4A01G091200 | chr4D | 367044698 | 367048768 | 4070 | True | 3135.000000 | 5590 | 94.021000 | 98 | 4391 | 2 | chr4D.!!$R1 | 4293 |
2 | TraesCS4A01G091200 | chr4B | 451907330 | 451911676 | 4346 | True | 2081.666667 | 5474 | 95.044333 | 210 | 4389 | 3 | chr4B.!!$R1 | 4179 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
315 | 316 | 0.739813 | GCAGGCAGTGGTAACCGTAG | 60.740 | 60.000 | 0.0 | 0.0 | 0.0 | 3.51 | F |
574 | 581 | 0.926293 | TTCCCAGTTCCCATCCCATC | 59.074 | 55.000 | 0.0 | 0.0 | 0.0 | 3.51 | F |
2077 | 2329 | 3.624777 | AGAAAATGATGAATGGCTCCGT | 58.375 | 40.909 | 0.0 | 0.0 | 0.0 | 4.69 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1644 | 1895 | 1.006832 | CCATCTACCAACGCTTTCCG | 58.993 | 55.000 | 0.0 | 0.0 | 44.21 | 4.30 | R |
2150 | 2402 | 1.205655 | TCGCACAAGGAGGAGAAGATG | 59.794 | 52.381 | 0.0 | 0.0 | 0.00 | 2.90 | R |
3840 | 4119 | 0.398696 | ACAGCCCGTTCACCATACAA | 59.601 | 50.000 | 0.0 | 0.0 | 0.00 | 2.41 | 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 |
---|---|---|---|---|---|---|---|---|---|
44 | 45 | 3.815856 | AAATTGTTGCATGACACCACA | 57.184 | 38.095 | 0.00 | 0.00 | 0.00 | 4.17 |
45 | 46 | 2.798976 | ATTGTTGCATGACACCACAC | 57.201 | 45.000 | 0.00 | 0.00 | 0.00 | 3.82 |
46 | 47 | 1.467920 | TTGTTGCATGACACCACACA | 58.532 | 45.000 | 0.00 | 0.00 | 0.00 | 3.72 |
47 | 48 | 1.689984 | TGTTGCATGACACCACACAT | 58.310 | 45.000 | 0.00 | 0.00 | 0.00 | 3.21 |
48 | 49 | 2.856222 | TGTTGCATGACACCACACATA | 58.144 | 42.857 | 0.00 | 0.00 | 0.00 | 2.29 |
49 | 50 | 3.419943 | TGTTGCATGACACCACACATAT | 58.580 | 40.909 | 0.00 | 0.00 | 0.00 | 1.78 |
50 | 51 | 4.583871 | TGTTGCATGACACCACACATATA | 58.416 | 39.130 | 0.00 | 0.00 | 0.00 | 0.86 |
51 | 52 | 5.006386 | TGTTGCATGACACCACACATATAA | 58.994 | 37.500 | 0.00 | 0.00 | 0.00 | 0.98 |
52 | 53 | 5.651576 | TGTTGCATGACACCACACATATAAT | 59.348 | 36.000 | 0.00 | 0.00 | 0.00 | 1.28 |
53 | 54 | 6.825721 | TGTTGCATGACACCACACATATAATA | 59.174 | 34.615 | 0.00 | 0.00 | 0.00 | 0.98 |
54 | 55 | 6.859420 | TGCATGACACCACACATATAATAC | 57.141 | 37.500 | 0.00 | 0.00 | 0.00 | 1.89 |
55 | 56 | 6.591001 | TGCATGACACCACACATATAATACT | 58.409 | 36.000 | 0.00 | 0.00 | 0.00 | 2.12 |
56 | 57 | 6.705825 | TGCATGACACCACACATATAATACTC | 59.294 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
57 | 58 | 6.931281 | GCATGACACCACACATATAATACTCT | 59.069 | 38.462 | 0.00 | 0.00 | 0.00 | 3.24 |
58 | 59 | 7.442364 | GCATGACACCACACATATAATACTCTT | 59.558 | 37.037 | 0.00 | 0.00 | 0.00 | 2.85 |
59 | 60 | 9.330063 | CATGACACCACACATATAATACTCTTT | 57.670 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
82 | 83 | 9.978044 | CTTTATTGTAGAGGTAGTAACATACCC | 57.022 | 37.037 | 0.00 | 0.00 | 45.48 | 3.69 |
83 | 84 | 9.491406 | TTTATTGTAGAGGTAGTAACATACCCA | 57.509 | 33.333 | 0.00 | 0.00 | 45.48 | 4.51 |
84 | 85 | 9.664777 | TTATTGTAGAGGTAGTAACATACCCAT | 57.335 | 33.333 | 0.00 | 0.00 | 45.48 | 4.00 |
85 | 86 | 7.983166 | TTGTAGAGGTAGTAACATACCCATT | 57.017 | 36.000 | 0.00 | 0.00 | 45.48 | 3.16 |
86 | 87 | 7.356089 | TGTAGAGGTAGTAACATACCCATTG | 57.644 | 40.000 | 0.00 | 0.00 | 45.48 | 2.82 |
87 | 88 | 6.899075 | TGTAGAGGTAGTAACATACCCATTGT | 59.101 | 38.462 | 0.00 | 0.00 | 45.48 | 2.71 |
88 | 89 | 6.235231 | AGAGGTAGTAACATACCCATTGTG | 57.765 | 41.667 | 0.00 | 0.00 | 45.48 | 3.33 |
89 | 90 | 5.962031 | AGAGGTAGTAACATACCCATTGTGA | 59.038 | 40.000 | 0.00 | 0.00 | 45.48 | 3.58 |
90 | 91 | 5.985911 | AGGTAGTAACATACCCATTGTGAC | 58.014 | 41.667 | 0.00 | 0.00 | 45.48 | 3.67 |
91 | 92 | 5.724854 | AGGTAGTAACATACCCATTGTGACT | 59.275 | 40.000 | 0.00 | 0.00 | 45.48 | 3.41 |
92 | 93 | 6.899075 | AGGTAGTAACATACCCATTGTGACTA | 59.101 | 38.462 | 0.00 | 0.00 | 45.48 | 2.59 |
93 | 94 | 7.069578 | AGGTAGTAACATACCCATTGTGACTAG | 59.930 | 40.741 | 2.03 | 0.00 | 45.48 | 2.57 |
94 | 95 | 6.869206 | AGTAACATACCCATTGTGACTAGT | 57.131 | 37.500 | 0.00 | 0.00 | 37.08 | 2.57 |
95 | 96 | 6.875076 | AGTAACATACCCATTGTGACTAGTC | 58.125 | 40.000 | 16.32 | 16.32 | 37.08 | 2.59 |
96 | 97 | 6.668283 | AGTAACATACCCATTGTGACTAGTCT | 59.332 | 38.462 | 23.01 | 0.19 | 37.08 | 3.24 |
102 | 103 | 5.084519 | ACCCATTGTGACTAGTCTTAGTGA | 58.915 | 41.667 | 23.01 | 0.00 | 40.21 | 3.41 |
105 | 106 | 6.295349 | CCCATTGTGACTAGTCTTAGTGAGTT | 60.295 | 42.308 | 23.01 | 0.00 | 40.21 | 3.01 |
169 | 170 | 4.949856 | AGAAAATTGAGTCACACCACTGTT | 59.050 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
187 | 188 | 4.161001 | ACTGTTCGGACCTAATAACGGAAT | 59.839 | 41.667 | 10.10 | 0.00 | 33.42 | 3.01 |
252 | 253 | 6.055231 | TGCATAGATATTTGCCGTGTTTAC | 57.945 | 37.500 | 0.22 | 0.00 | 38.08 | 2.01 |
260 | 261 | 7.968405 | AGATATTTGCCGTGTTTACAAGATTTC | 59.032 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
315 | 316 | 0.739813 | GCAGGCAGTGGTAACCGTAG | 60.740 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
330 | 331 | 3.760738 | ACCGTAGAAGCCCTATACCTAC | 58.239 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
367 | 368 | 2.158370 | AGGAAGGAAAAACCCGACCAAT | 60.158 | 45.455 | 0.00 | 0.00 | 40.05 | 3.16 |
561 | 568 | 1.818674 | CGTCCCCTGAAAATTTCCCAG | 59.181 | 52.381 | 3.00 | 11.51 | 0.00 | 4.45 |
574 | 581 | 0.926293 | TTCCCAGTTCCCATCCCATC | 59.074 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
1528 | 1776 | 3.913548 | TGTTCCGGTTCACAAATGATG | 57.086 | 42.857 | 0.00 | 0.00 | 33.85 | 3.07 |
1587 | 1837 | 8.928270 | TCTCTTTCTTGTCCTACGAATTAATC | 57.072 | 34.615 | 0.00 | 0.00 | 0.00 | 1.75 |
1644 | 1895 | 9.950680 | TCTTCAGAATTGTGTTTTGTTCTATTC | 57.049 | 29.630 | 2.11 | 0.00 | 30.29 | 1.75 |
1651 | 1902 | 5.516090 | TGTGTTTTGTTCTATTCGGAAAGC | 58.484 | 37.500 | 0.00 | 0.00 | 0.00 | 3.51 |
1775 | 2026 | 6.611381 | TGTAAAACATCATGCTACTCTTTGC | 58.389 | 36.000 | 0.00 | 0.00 | 0.00 | 3.68 |
1931 | 2182 | 6.591062 | TGAAAAGCAGATTATCAAAATGGTGC | 59.409 | 34.615 | 0.00 | 0.00 | 0.00 | 5.01 |
2077 | 2329 | 3.624777 | AGAAAATGATGAATGGCTCCGT | 58.375 | 40.909 | 0.00 | 0.00 | 0.00 | 4.69 |
2337 | 2589 | 2.024176 | TTCCCTCCTTCAGTACAGCA | 57.976 | 50.000 | 0.00 | 0.00 | 0.00 | 4.41 |
2422 | 2674 | 4.451900 | TCAAGAAGTTGGACCTTCAGTTC | 58.548 | 43.478 | 3.99 | 0.00 | 42.68 | 3.01 |
2556 | 2808 | 7.147828 | CCTGTCTGGAAGTCTGATAGTGAATAA | 60.148 | 40.741 | 0.00 | 0.00 | 38.35 | 1.40 |
2635 | 2887 | 5.126699 | AGGAGATCGAGGGTTAGAAGTTA | 57.873 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
2685 | 2937 | 2.771943 | ACTCAGAGTCGAGAGAGGAGAT | 59.228 | 50.000 | 18.64 | 0.00 | 43.49 | 2.75 |
2820 | 3072 | 1.174783 | CAAATGCAGCTCTTGAGGCT | 58.825 | 50.000 | 0.00 | 0.00 | 41.07 | 4.58 |
2826 | 3078 | 1.307097 | CAGCTCTTGAGGCTATTGGC | 58.693 | 55.000 | 0.00 | 0.00 | 38.03 | 4.52 |
2829 | 3081 | 0.462581 | CTCTTGAGGCTATTGGCGCA | 60.463 | 55.000 | 10.83 | 2.89 | 45.59 | 6.09 |
3370 | 3622 | 2.436173 | CCTCAGTCAGTAATTCCCCTCC | 59.564 | 54.545 | 0.00 | 0.00 | 0.00 | 4.30 |
3381 | 3633 | 1.264749 | TTCCCCTCCATCCGTCAGTG | 61.265 | 60.000 | 0.00 | 0.00 | 0.00 | 3.66 |
3435 | 3687 | 3.788333 | ACATACATGTTTGATGCCAGC | 57.212 | 42.857 | 21.17 | 0.00 | 37.90 | 4.85 |
3436 | 3688 | 3.090790 | ACATACATGTTTGATGCCAGCA | 58.909 | 40.909 | 21.17 | 0.00 | 37.90 | 4.41 |
3445 | 3697 | 0.758310 | TGATGCCAGCAAAACCCACA | 60.758 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
3529 | 3782 | 0.109342 | ACCCACTCTGAACTGCCTTG | 59.891 | 55.000 | 0.00 | 0.00 | 0.00 | 3.61 |
3698 | 3951 | 4.069304 | GCCCACTGTATTGTTGTTCTACA | 58.931 | 43.478 | 0.00 | 0.00 | 0.00 | 2.74 |
3763 | 4042 | 6.210385 | TCTGCACAATGTTATGTTTAACCCAT | 59.790 | 34.615 | 0.00 | 0.00 | 37.49 | 4.00 |
3819 | 4098 | 7.201821 | CCTCAGTTTTACTGGTTGTGATTTTCT | 60.202 | 37.037 | 6.96 | 0.00 | 45.94 | 2.52 |
3988 | 4271 | 5.808042 | ACATGAGATTCTGCATAACACAC | 57.192 | 39.130 | 0.00 | 0.00 | 0.00 | 3.82 |
3989 | 4272 | 4.330894 | ACATGAGATTCTGCATAACACACG | 59.669 | 41.667 | 0.00 | 0.00 | 0.00 | 4.49 |
3999 | 4288 | 6.960468 | TCTGCATAACACACGAATTTTACAA | 58.040 | 32.000 | 0.00 | 0.00 | 0.00 | 2.41 |
4057 | 4347 | 7.143052 | AGGGGAGAAGGTAGAGAAAGATATTT | 58.857 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
4102 | 4392 | 3.190337 | GCTTTTGCACAGGAAGCAG | 57.810 | 52.632 | 14.76 | 0.00 | 43.89 | 4.24 |
4103 | 4393 | 0.942884 | GCTTTTGCACAGGAAGCAGC | 60.943 | 55.000 | 14.76 | 0.00 | 43.89 | 5.25 |
4167 | 4476 | 3.722555 | TTCGACAAATGATGTTCGAGC | 57.277 | 42.857 | 0.00 | 0.00 | 44.12 | 5.03 |
4347 | 4854 | 8.909708 | TGAAATAAAGGAAAATTGCAGTATCG | 57.090 | 30.769 | 0.00 | 0.00 | 0.00 | 2.92 |
4348 | 4855 | 8.735315 | TGAAATAAAGGAAAATTGCAGTATCGA | 58.265 | 29.630 | 0.00 | 0.00 | 0.00 | 3.59 |
4349 | 4856 | 9.567848 | GAAATAAAGGAAAATTGCAGTATCGAA | 57.432 | 29.630 | 0.00 | 0.00 | 0.00 | 3.71 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
28 | 29 | 1.689984 | ATGTGTGGTGTCATGCAACA | 58.310 | 45.000 | 4.08 | 4.08 | 43.58 | 3.33 |
29 | 30 | 5.559427 | TTATATGTGTGGTGTCATGCAAC | 57.441 | 39.130 | 0.00 | 0.00 | 34.76 | 4.17 |
30 | 31 | 7.053498 | AGTATTATATGTGTGGTGTCATGCAA | 58.947 | 34.615 | 0.00 | 0.00 | 0.00 | 4.08 |
31 | 32 | 6.591001 | AGTATTATATGTGTGGTGTCATGCA | 58.409 | 36.000 | 0.00 | 0.00 | 0.00 | 3.96 |
32 | 33 | 6.931281 | AGAGTATTATATGTGTGGTGTCATGC | 59.069 | 38.462 | 0.00 | 0.00 | 0.00 | 4.06 |
33 | 34 | 8.893219 | AAGAGTATTATATGTGTGGTGTCATG | 57.107 | 34.615 | 0.00 | 0.00 | 0.00 | 3.07 |
56 | 57 | 9.978044 | GGGTATGTTACTACCTCTACAATAAAG | 57.022 | 37.037 | 9.60 | 0.00 | 40.90 | 1.85 |
57 | 58 | 9.491406 | TGGGTATGTTACTACCTCTACAATAAA | 57.509 | 33.333 | 9.60 | 0.00 | 40.90 | 1.40 |
58 | 59 | 9.664777 | ATGGGTATGTTACTACCTCTACAATAA | 57.335 | 33.333 | 9.60 | 0.00 | 40.90 | 1.40 |
59 | 60 | 9.664777 | AATGGGTATGTTACTACCTCTACAATA | 57.335 | 33.333 | 9.60 | 0.00 | 40.90 | 1.90 |
60 | 61 | 8.429641 | CAATGGGTATGTTACTACCTCTACAAT | 58.570 | 37.037 | 9.60 | 0.00 | 40.90 | 2.71 |
61 | 62 | 7.400915 | ACAATGGGTATGTTACTACCTCTACAA | 59.599 | 37.037 | 9.60 | 0.00 | 40.90 | 2.41 |
62 | 63 | 6.899075 | ACAATGGGTATGTTACTACCTCTACA | 59.101 | 38.462 | 9.60 | 0.00 | 40.90 | 2.74 |
63 | 64 | 7.069085 | TCACAATGGGTATGTTACTACCTCTAC | 59.931 | 40.741 | 9.60 | 0.00 | 40.90 | 2.59 |
64 | 65 | 7.069085 | GTCACAATGGGTATGTTACTACCTCTA | 59.931 | 40.741 | 9.60 | 1.19 | 40.90 | 2.43 |
65 | 66 | 5.962031 | TCACAATGGGTATGTTACTACCTCT | 59.038 | 40.000 | 9.60 | 0.00 | 40.90 | 3.69 |
66 | 67 | 6.047231 | GTCACAATGGGTATGTTACTACCTC | 58.953 | 44.000 | 9.60 | 3.47 | 40.90 | 3.85 |
67 | 68 | 5.724854 | AGTCACAATGGGTATGTTACTACCT | 59.275 | 40.000 | 9.60 | 0.00 | 40.90 | 3.08 |
68 | 69 | 5.985911 | AGTCACAATGGGTATGTTACTACC | 58.014 | 41.667 | 3.49 | 3.49 | 40.46 | 3.18 |
69 | 70 | 7.779073 | ACTAGTCACAATGGGTATGTTACTAC | 58.221 | 38.462 | 0.00 | 0.00 | 36.78 | 2.73 |
70 | 71 | 7.837689 | AGACTAGTCACAATGGGTATGTTACTA | 59.162 | 37.037 | 24.44 | 0.00 | 36.78 | 1.82 |
71 | 72 | 6.668283 | AGACTAGTCACAATGGGTATGTTACT | 59.332 | 38.462 | 24.44 | 0.00 | 38.44 | 2.24 |
72 | 73 | 6.875076 | AGACTAGTCACAATGGGTATGTTAC | 58.125 | 40.000 | 24.44 | 0.00 | 0.00 | 2.50 |
73 | 74 | 7.490657 | AAGACTAGTCACAATGGGTATGTTA | 57.509 | 36.000 | 24.44 | 0.00 | 0.00 | 2.41 |
74 | 75 | 6.374417 | AAGACTAGTCACAATGGGTATGTT | 57.626 | 37.500 | 24.44 | 2.72 | 0.00 | 2.71 |
75 | 76 | 6.668283 | ACTAAGACTAGTCACAATGGGTATGT | 59.332 | 38.462 | 24.44 | 4.72 | 32.61 | 2.29 |
76 | 77 | 6.980978 | CACTAAGACTAGTCACAATGGGTATG | 59.019 | 42.308 | 24.44 | 5.34 | 36.14 | 2.39 |
77 | 78 | 6.895756 | TCACTAAGACTAGTCACAATGGGTAT | 59.104 | 38.462 | 24.44 | 0.00 | 36.14 | 2.73 |
78 | 79 | 6.250711 | TCACTAAGACTAGTCACAATGGGTA | 58.749 | 40.000 | 24.44 | 3.30 | 36.14 | 3.69 |
79 | 80 | 5.084519 | TCACTAAGACTAGTCACAATGGGT | 58.915 | 41.667 | 24.44 | 9.95 | 36.14 | 4.51 |
80 | 81 | 5.186021 | ACTCACTAAGACTAGTCACAATGGG | 59.814 | 44.000 | 24.44 | 17.81 | 36.14 | 4.00 |
81 | 82 | 6.274157 | ACTCACTAAGACTAGTCACAATGG | 57.726 | 41.667 | 24.44 | 11.63 | 36.14 | 3.16 |
82 | 83 | 7.653713 | ACAAACTCACTAAGACTAGTCACAATG | 59.346 | 37.037 | 24.44 | 16.08 | 36.14 | 2.82 |
83 | 84 | 7.727181 | ACAAACTCACTAAGACTAGTCACAAT | 58.273 | 34.615 | 24.44 | 10.13 | 36.14 | 2.71 |
84 | 85 | 7.108841 | ACAAACTCACTAAGACTAGTCACAA | 57.891 | 36.000 | 24.44 | 8.44 | 36.14 | 3.33 |
85 | 86 | 6.710597 | ACAAACTCACTAAGACTAGTCACA | 57.289 | 37.500 | 24.44 | 10.55 | 36.14 | 3.58 |
139 | 140 | 9.959749 | GTGGTGTGACTCAATTTTCTATTTTTA | 57.040 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
145 | 146 | 5.680619 | ACAGTGGTGTGACTCAATTTTCTA | 58.319 | 37.500 | 0.00 | 0.00 | 34.75 | 2.10 |
147 | 148 | 4.900635 | ACAGTGGTGTGACTCAATTTTC | 57.099 | 40.909 | 0.00 | 0.00 | 34.75 | 2.29 |
148 | 149 | 4.201910 | CGAACAGTGGTGTGACTCAATTTT | 60.202 | 41.667 | 0.00 | 0.00 | 36.84 | 1.82 |
150 | 151 | 2.872245 | CGAACAGTGGTGTGACTCAATT | 59.128 | 45.455 | 0.00 | 0.00 | 36.84 | 2.32 |
151 | 152 | 2.483876 | CGAACAGTGGTGTGACTCAAT | 58.516 | 47.619 | 0.00 | 0.00 | 36.84 | 2.57 |
157 | 158 | 1.046472 | AGGTCCGAACAGTGGTGTGA | 61.046 | 55.000 | 0.00 | 0.00 | 36.84 | 3.58 |
164 | 165 | 3.091545 | TCCGTTATTAGGTCCGAACAGT | 58.908 | 45.455 | 0.00 | 0.00 | 0.00 | 3.55 |
169 | 170 | 5.182001 | GCTACTATTCCGTTATTAGGTCCGA | 59.818 | 44.000 | 0.00 | 0.00 | 0.00 | 4.55 |
304 | 305 | 2.530460 | TAGGGCTTCTACGGTTACCA | 57.470 | 50.000 | 1.13 | 0.00 | 0.00 | 3.25 |
315 | 316 | 3.510753 | GCTAGGTGTAGGTATAGGGCTTC | 59.489 | 52.174 | 0.00 | 0.00 | 0.00 | 3.86 |
330 | 331 | 0.914417 | TCCTTTCCCTGGGCTAGGTG | 60.914 | 60.000 | 23.90 | 7.55 | 45.80 | 4.00 |
367 | 368 | 2.723273 | TCTTATCTCTCCGTGCTGTGA | 58.277 | 47.619 | 0.00 | 0.00 | 0.00 | 3.58 |
543 | 544 | 3.506398 | GAACTGGGAAATTTTCAGGGGA | 58.494 | 45.455 | 19.67 | 0.00 | 33.19 | 4.81 |
963 | 970 | 4.615815 | ATCTGCGCCCCGATCTGC | 62.616 | 66.667 | 4.18 | 0.00 | 0.00 | 4.26 |
1528 | 1776 | 6.869421 | ATTAAAACGAACTAATGCATGCAC | 57.131 | 33.333 | 25.37 | 8.20 | 0.00 | 4.57 |
1644 | 1895 | 1.006832 | CCATCTACCAACGCTTTCCG | 58.993 | 55.000 | 0.00 | 0.00 | 44.21 | 4.30 |
1651 | 1902 | 3.343617 | ACAAACATCCCATCTACCAACG | 58.656 | 45.455 | 0.00 | 0.00 | 0.00 | 4.10 |
1694 | 1945 | 5.527214 | CCCCTTTCCAAATGAACAAAAGAAC | 59.473 | 40.000 | 0.00 | 0.00 | 31.05 | 3.01 |
1775 | 2026 | 8.477256 | TCCAAAGCTAGAATTATTCCCAAATTG | 58.523 | 33.333 | 0.78 | 3.10 | 0.00 | 2.32 |
2150 | 2402 | 1.205655 | TCGCACAAGGAGGAGAAGATG | 59.794 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
2337 | 2589 | 3.327757 | TCCCATGTAGAGCAAACTCAAGT | 59.672 | 43.478 | 0.00 | 0.00 | 46.09 | 3.16 |
2422 | 2674 | 3.981071 | TCCTCTGTGGTAAGGAATGTG | 57.019 | 47.619 | 0.00 | 0.00 | 38.74 | 3.21 |
2635 | 2887 | 3.434319 | CTTGCAGGTCCGCGCAAT | 61.434 | 61.111 | 18.55 | 0.00 | 46.34 | 3.56 |
2820 | 3072 | 2.992543 | GTTTTTGCTGAATGCGCCAATA | 59.007 | 40.909 | 4.18 | 0.00 | 46.63 | 1.90 |
2826 | 3078 | 2.420628 | TCAGGTTTTTGCTGAATGCG | 57.579 | 45.000 | 0.00 | 0.00 | 46.63 | 4.73 |
2829 | 3081 | 4.853924 | ATCGTTCAGGTTTTTGCTGAAT | 57.146 | 36.364 | 0.00 | 0.00 | 38.99 | 2.57 |
3054 | 3306 | 1.950828 | CCAGCAGTCCATCATCAGAC | 58.049 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
3370 | 3622 | 0.824109 | TAGCTTCCCACTGACGGATG | 59.176 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
3381 | 3633 | 2.557056 | GTGGTGGTCTTTTTAGCTTCCC | 59.443 | 50.000 | 0.00 | 0.00 | 0.00 | 3.97 |
3435 | 3687 | 3.181491 | CCTATACCGCATTGTGGGTTTTG | 60.181 | 47.826 | 19.96 | 7.35 | 37.55 | 2.44 |
3436 | 3688 | 3.020984 | CCTATACCGCATTGTGGGTTTT | 58.979 | 45.455 | 19.96 | 1.97 | 37.55 | 2.43 |
3445 | 3697 | 2.708861 | TGGAATGTCCCTATACCGCATT | 59.291 | 45.455 | 0.00 | 0.00 | 35.03 | 3.56 |
3529 | 3782 | 5.395214 | CCAAAAATGTTGCCCCTAAGATACC | 60.395 | 44.000 | 0.00 | 0.00 | 0.00 | 2.73 |
3698 | 3951 | 8.789762 | GGTACAACAACTAATCCAATACTGTTT | 58.210 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
3763 | 4042 | 5.806502 | CCGCAGCAAAATTTCAAGATATTCA | 59.193 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3799 | 4078 | 8.528044 | AAGGTAGAAAATCACAACCAGTAAAA | 57.472 | 30.769 | 0.00 | 0.00 | 32.43 | 1.52 |
3840 | 4119 | 0.398696 | ACAGCCCGTTCACCATACAA | 59.601 | 50.000 | 0.00 | 0.00 | 0.00 | 2.41 |
3935 | 4216 | 7.881142 | TCGGAAATCATGTAAAATTTCACAGT | 58.119 | 30.769 | 15.54 | 0.00 | 41.53 | 3.55 |
3966 | 4247 | 4.330894 | CGTGTGTTATGCAGAATCTCATGT | 59.669 | 41.667 | 0.00 | 0.00 | 0.00 | 3.21 |
3988 | 4271 | 7.326063 | CCTTCCTAGCAAAAGTTGTAAAATTCG | 59.674 | 37.037 | 0.00 | 0.00 | 30.03 | 3.34 |
3989 | 4272 | 8.357402 | TCCTTCCTAGCAAAAGTTGTAAAATTC | 58.643 | 33.333 | 0.00 | 0.00 | 30.03 | 2.17 |
3999 | 4288 | 8.164070 | TCTCTTAAATTCCTTCCTAGCAAAAGT | 58.836 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
4102 | 4392 | 1.836802 | ACCCTCTCAATCCTCTGAAGC | 59.163 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
4103 | 4393 | 2.170187 | CCACCCTCTCAATCCTCTGAAG | 59.830 | 54.545 | 0.00 | 0.00 | 0.00 | 3.02 |
4346 | 4853 | 8.768955 | CAGTCAGGATTTTTCTATAGGAATTCG | 58.231 | 37.037 | 0.00 | 0.00 | 33.53 | 3.34 |
4347 | 4854 | 9.061435 | CCAGTCAGGATTTTTCTATAGGAATTC | 57.939 | 37.037 | 0.00 | 0.00 | 41.22 | 2.17 |
4348 | 4855 | 8.001292 | CCCAGTCAGGATTTTTCTATAGGAATT | 58.999 | 37.037 | 0.00 | 0.00 | 41.22 | 2.17 |
4349 | 4856 | 7.129504 | ACCCAGTCAGGATTTTTCTATAGGAAT | 59.870 | 37.037 | 0.00 | 0.00 | 41.22 | 3.01 |
4350 | 4857 | 6.447084 | ACCCAGTCAGGATTTTTCTATAGGAA | 59.553 | 38.462 | 0.00 | 0.00 | 41.22 | 3.36 |
4367 | 4874 | 3.855255 | TTGTTTCAGATGACCCAGTCA | 57.145 | 42.857 | 0.00 | 0.00 | 46.90 | 3.41 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.