Multiple sequence alignment - TraesCS3A01G012800

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


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 TraesCS3A01G012800 chr3A 100.000 4187 0 0 1 4187 9607826 9603640 0.000000e+00 7733
1 TraesCS3A01G012800 chr3A 96.667 150 4 1 1675 1823 9618803 9618654 8.990000e-62 248
2 TraesCS3A01G012800 chr3D 93.318 4011 195 32 220 4187 4069309 4065329 0.000000e+00 5854
3 TraesCS3A01G012800 chr3D 90.909 220 6 5 1 220 4069554 4069349 2.460000e-72 283
4 TraesCS3A01G012800 chrUn 93.077 2961 164 18 439 3363 242439040 242441995 0.000000e+00 4294
5 TraesCS3A01G012800 chrUn 93.077 2961 164 18 439 3363 242452075 242455030 0.000000e+00 4294
6 TraesCS3A01G012800 chrUn 93.377 755 44 6 3433 4187 242442113 242442861 0.000000e+00 1112
7 TraesCS3A01G012800 chrUn 93.377 755 44 6 3433 4187 242455148 242455896 0.000000e+00 1112
8 TraesCS3A01G012800 chr3B 93.077 2961 164 18 439 3363 6310298 6307343 0.000000e+00 4294
9 TraesCS3A01G012800 chr3B 92.310 2770 175 25 487 3237 6381548 6378798 0.000000e+00 3901
10 TraesCS3A01G012800 chr3B 90.507 927 52 14 3278 4187 6378803 6377896 0.000000e+00 1192
11 TraesCS3A01G012800 chr3B 93.377 755 44 6 3433 4187 6307225 6306477 0.000000e+00 1112
12 TraesCS3A01G012800 chr2B 82.658 2220 361 21 976 3186 173464121 173466325 0.000000e+00 1945
13 TraesCS3A01G012800 chr2A 82.448 2222 356 29 976 3186 124378328 124380526 0.000000e+00 1912
14 TraesCS3A01G012800 chr2D 83.778 2022 309 13 1169 3186 120551226 120553232 0.000000e+00 1899


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 TraesCS3A01G012800 chr3A 9603640 9607826 4186 True 7733.0 7733 100.0000 1 4187 1 chr3A.!!$R1 4186
1 TraesCS3A01G012800 chr3D 4065329 4069554 4225 True 3068.5 5854 92.1135 1 4187 2 chr3D.!!$R1 4186
2 TraesCS3A01G012800 chrUn 242439040 242442861 3821 False 2703.0 4294 93.2270 439 4187 2 chrUn.!!$F1 3748
3 TraesCS3A01G012800 chrUn 242452075 242455896 3821 False 2703.0 4294 93.2270 439 4187 2 chrUn.!!$F2 3748
4 TraesCS3A01G012800 chr3B 6306477 6310298 3821 True 2703.0 4294 93.2270 439 4187 2 chr3B.!!$R1 3748
5 TraesCS3A01G012800 chr3B 6377896 6381548 3652 True 2546.5 3901 91.4085 487 4187 2 chr3B.!!$R2 3700
6 TraesCS3A01G012800 chr2B 173464121 173466325 2204 False 1945.0 1945 82.6580 976 3186 1 chr2B.!!$F1 2210
7 TraesCS3A01G012800 chr2A 124378328 124380526 2198 False 1912.0 1912 82.4480 976 3186 1 chr2A.!!$F1 2210
8 TraesCS3A01G012800 chr2D 120551226 120553232 2006 False 1899.0 1899 83.7780 1169 3186 1 chr2D.!!$F1 2017

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
971 1068 0.036388 ATGGCGTGGTCAGTGTAAGG 60.036 55.0 0.00 0.0 0.0 2.69 F
1243 1350 0.322975 CTTCAGGGAGTGTGTCAGGG 59.677 60.0 0.00 0.0 0.0 4.45 F
2847 2959 0.607489 AGCGCTCAAACATGAAGGCT 60.607 50.0 2.64 0.0 0.0 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2619 2731 0.750911 CCTCCTGCAGATCCAAAGCC 60.751 60.000 17.39 0.0 0.00 4.35 R
3099 3211 3.207669 CTCAGCTTGGCATCCGGC 61.208 66.667 0.00 0.0 43.74 6.13 R
3983 4199 1.003866 GTTTCACGCGACAGAAGCTTT 60.004 47.619 15.93 0.0 0.00 3.51 R

All possible primers

Listed 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.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 4.703379 TTTCGTGTTTAGGGTTAAGGGA 57.297 40.909 0.00 0.00 0.00 4.20
76 77 9.599866 TGATTAGTGTTAAAGATGTCATGGTAG 57.400 33.333 0.00 0.00 0.00 3.18
95 96 2.949447 AGACTCCATTTTGTGCTTGGT 58.051 42.857 0.00 0.00 0.00 3.67
187 188 6.205658 GGAACAAGAAAATCACTAGAGTGCTT 59.794 38.462 4.72 0.00 45.25 3.91
238 279 4.666512 ACTTACATTGGGCCATGGATATC 58.333 43.478 18.40 0.00 0.00 1.63
264 305 3.657350 CGGCCCCTCCCAGGAAAA 61.657 66.667 0.00 0.00 37.67 2.29
265 306 2.360585 GGCCCCTCCCAGGAAAAG 59.639 66.667 0.00 0.00 37.67 2.27
266 307 2.363018 GCCCCTCCCAGGAAAAGC 60.363 66.667 0.00 0.00 37.67 3.51
268 309 1.000396 CCCCTCCCAGGAAAAGCAG 60.000 63.158 0.00 0.00 37.67 4.24
323 376 1.772156 CCCTCCCCATCCCCTCTTC 60.772 68.421 0.00 0.00 0.00 2.87
328 381 2.107141 CCATCCCCTCTTCGACGC 59.893 66.667 0.00 0.00 0.00 5.19
426 479 0.653636 CCGTACGTGCTCTCTCTCTC 59.346 60.000 15.21 0.00 0.00 3.20
427 480 1.647346 CGTACGTGCTCTCTCTCTCT 58.353 55.000 7.22 0.00 0.00 3.10
428 481 1.591158 CGTACGTGCTCTCTCTCTCTC 59.409 57.143 7.22 0.00 0.00 3.20
429 482 2.737359 CGTACGTGCTCTCTCTCTCTCT 60.737 54.545 7.22 0.00 0.00 3.10
430 483 2.024176 ACGTGCTCTCTCTCTCTCTC 57.976 55.000 0.00 0.00 0.00 3.20
431 484 1.555075 ACGTGCTCTCTCTCTCTCTCT 59.445 52.381 0.00 0.00 0.00 3.10
432 485 2.205074 CGTGCTCTCTCTCTCTCTCTC 58.795 57.143 0.00 0.00 0.00 3.20
433 486 2.159043 CGTGCTCTCTCTCTCTCTCTCT 60.159 54.545 0.00 0.00 0.00 3.10
434 487 3.462021 GTGCTCTCTCTCTCTCTCTCTC 58.538 54.545 0.00 0.00 0.00 3.20
435 488 3.133721 GTGCTCTCTCTCTCTCTCTCTCT 59.866 52.174 0.00 0.00 0.00 3.10
436 489 3.386078 TGCTCTCTCTCTCTCTCTCTCTC 59.614 52.174 0.00 0.00 0.00 3.20
437 490 3.640967 GCTCTCTCTCTCTCTCTCTCTCT 59.359 52.174 0.00 0.00 0.00 3.10
463 516 3.073735 CTCTCGCCCTGACCTGCT 61.074 66.667 0.00 0.00 0.00 4.24
466 519 2.922503 TCGCCCTGACCTGCTCAA 60.923 61.111 0.00 0.00 0.00 3.02
482 535 0.176680 TCAAGCTCTCCAATCCGCTC 59.823 55.000 0.00 0.00 31.30 5.03
499 552 5.123227 TCCGCTCCCAAATTTATCTACTTG 58.877 41.667 0.00 0.00 0.00 3.16
758 852 0.539438 TGCTTGGTGGGCTTCGATTT 60.539 50.000 0.00 0.00 0.00 2.17
769 863 1.934849 GCTTCGATTTGTTGCCCCAAC 60.935 52.381 1.33 1.33 43.78 3.77
790 884 4.293494 ACTGAGGCTTGAGATTCAGGATA 58.707 43.478 13.26 0.00 40.97 2.59
922 1019 1.136329 AAGCCTGGTCCATGAGGTGT 61.136 55.000 0.00 0.00 35.89 4.16
927 1024 2.636830 CTGGTCCATGAGGTGTGATTC 58.363 52.381 0.00 0.00 35.89 2.52
938 1035 1.453155 GTGTGATTCCTGCGTGGATT 58.547 50.000 0.00 0.00 45.68 3.01
941 1038 1.737838 TGATTCCTGCGTGGATTCAC 58.262 50.000 14.94 0.00 45.18 3.18
946 1043 0.251916 CCTGCGTGGATTCACCCTTA 59.748 55.000 0.00 0.00 40.65 2.69
958 1055 0.108329 CACCCTTACTCGAATGGCGT 60.108 55.000 0.00 0.00 41.80 5.68
969 1066 1.803334 GAATGGCGTGGTCAGTGTAA 58.197 50.000 0.00 0.00 0.00 2.41
970 1067 1.732259 GAATGGCGTGGTCAGTGTAAG 59.268 52.381 0.00 0.00 0.00 2.34
971 1068 0.036388 ATGGCGTGGTCAGTGTAAGG 60.036 55.000 0.00 0.00 0.00 2.69
1053 1154 2.151202 GCCCTTTTGAACAGACATCGA 58.849 47.619 0.00 0.00 0.00 3.59
1160 1267 2.035961 GCAATGAGGATAGACGCCAGTA 59.964 50.000 0.00 0.00 0.00 2.74
1243 1350 0.322975 CTTCAGGGAGTGTGTCAGGG 59.677 60.000 0.00 0.00 0.00 4.45
1352 1459 2.254651 GAGCGTCGTCGACCACTT 59.745 61.111 19.29 2.79 39.71 3.16
1368 1475 3.963124 CTTTGGGAATGCCGGGCCT 62.963 63.158 17.97 3.08 33.83 5.19
1387 1494 1.670811 CTGAGTTGTTTGAGTTGGCGT 59.329 47.619 0.00 0.00 0.00 5.68
1389 1496 1.002792 GAGTTGTTTGAGTTGGCGTCC 60.003 52.381 0.00 0.00 0.00 4.79
1390 1497 1.021968 GTTGTTTGAGTTGGCGTCCT 58.978 50.000 0.00 0.00 0.00 3.85
1426 1533 1.740296 GGTGGGTCGATGACGTTGG 60.740 63.158 0.00 0.00 40.69 3.77
1444 1551 3.510531 TGGTACAGGTTTATGCCACAA 57.489 42.857 0.00 0.00 0.00 3.33
1648 1755 8.660373 CACCAAATGTCTACTCTTATTCAGTTC 58.340 37.037 0.00 0.00 0.00 3.01
2043 2150 3.237746 TGTTGAAATGGCAAGGAATGGA 58.762 40.909 0.00 0.00 0.00 3.41
2246 2353 2.819608 ACCTTTGGAATGACATGGTTCG 59.180 45.455 0.00 0.00 0.00 3.95
2575 2682 6.322201 AGACATGATAAAAAGGGGCTATGTTG 59.678 38.462 0.00 0.00 0.00 3.33
2847 2959 0.607489 AGCGCTCAAACATGAAGGCT 60.607 50.000 2.64 0.00 0.00 4.58
3099 3211 3.104766 CTGCAGGCAGGCATTACG 58.895 61.111 13.39 0.00 43.97 3.18
3171 3283 6.487828 TGATTTTGGTGATTCTCAGGAAGAT 58.512 36.000 0.00 0.00 34.70 2.40
3209 3321 6.129874 AGTCATAGGTTATCACAGAGCTACA 58.870 40.000 0.00 0.00 0.00 2.74
3249 3364 6.944862 AGAATTATTCCATAAGGTGATGAGCC 59.055 38.462 0.78 0.00 35.89 4.70
3280 3395 7.850982 GGTATTGTTGCATCAAGTATTAGTTCG 59.149 37.037 15.02 0.00 0.00 3.95
3352 3468 4.981794 AGAAACAGGTCAAAGTTTTCACG 58.018 39.130 0.00 0.00 38.01 4.35
3426 3556 5.300286 AGGTTAGATATTGGCTCATGCAAAC 59.700 40.000 0.00 0.00 41.91 2.93
3632 3846 4.161377 ACTCCTCAAGTTAGATGAAGAGGC 59.839 45.833 0.00 0.00 41.79 4.70
3634 3848 4.161189 TCCTCAAGTTAGATGAAGAGGCAG 59.839 45.833 0.00 0.00 41.79 4.85
3645 3859 2.105766 GAAGAGGCAGGGCATCAATTT 58.894 47.619 5.64 0.00 42.11 1.82
3675 3889 9.530129 GCATGCTAGATATTGTAAAAATACGAC 57.470 33.333 11.37 0.00 0.00 4.34
3692 3906 9.840427 AAAATACGACAACCTAAATCTGATTTG 57.160 29.630 22.47 11.32 33.82 2.32
3734 3948 6.751888 TCTTAGTTTTGCTCTGCTTTTGTTTC 59.248 34.615 0.00 0.00 0.00 2.78
3735 3949 4.819769 AGTTTTGCTCTGCTTTTGTTTCA 58.180 34.783 0.00 0.00 0.00 2.69
3773 3987 0.457443 GCTGCCCTGGACTTTATTGC 59.543 55.000 0.00 0.00 0.00 3.56
3774 3988 1.838112 CTGCCCTGGACTTTATTGCA 58.162 50.000 0.00 0.00 0.00 4.08
3799 4015 8.173775 CACTGATCATTCTGTTATGAACTTCAC 58.826 37.037 0.00 0.00 38.01 3.18
3858 4074 3.493129 GCCGAAAAGTCCCAACATTTTTC 59.507 43.478 0.00 0.00 36.61 2.29
3919 4135 8.421784 TGGTGCCTTTATTACTAGATTAGTCTG 58.578 37.037 0.00 0.00 40.14 3.51
3983 4199 5.479724 TGAAATGATATCAGGGTGCAAACAA 59.520 36.000 11.78 0.00 0.00 2.83
3996 4212 1.518515 GCAAACAAAAGCTTCTGTCGC 59.481 47.619 5.76 8.58 0.00 5.19
4015 4231 1.592543 GCGTGAAACAAGCTTTTTGGG 59.407 47.619 0.00 0.00 36.06 4.12
4055 4271 2.483877 TGTAGCTTTTTGACTGCGGATG 59.516 45.455 0.00 0.00 0.00 3.51
4163 4379 3.724374 TGCACTGTTTAGGTGTACACTC 58.276 45.455 24.55 14.90 37.07 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 1.129811 CCCTAAACACGAAATCGCCAC 59.870 52.381 2.15 0.00 44.43 5.01
40 41 9.832445 ATCTTTAACACTAATCAACGACCATAT 57.168 29.630 0.00 0.00 0.00 1.78
76 77 3.733443 AACCAAGCACAAAATGGAGTC 57.267 42.857 0.00 0.00 37.66 3.36
95 96 1.215117 GCCAGCGCCATTGCTTTAA 59.785 52.632 2.29 0.00 44.46 1.52
102 103 1.153784 CAAAATCGCCAGCGCCATT 60.154 52.632 2.29 0.00 39.59 3.16
103 104 2.342650 ACAAAATCGCCAGCGCCAT 61.343 52.632 2.29 0.00 39.59 4.40
104 105 2.983030 ACAAAATCGCCAGCGCCA 60.983 55.556 2.29 0.00 39.59 5.69
105 106 2.504681 CACAAAATCGCCAGCGCC 60.505 61.111 2.29 0.00 39.59 6.53
106 107 2.082366 CACACAAAATCGCCAGCGC 61.082 57.895 7.27 0.00 39.59 5.92
107 108 0.998226 CACACACAAAATCGCCAGCG 60.998 55.000 5.50 5.50 41.35 5.18
108 109 1.277495 GCACACACAAAATCGCCAGC 61.277 55.000 0.00 0.00 0.00 4.85
109 110 0.311790 AGCACACACAAAATCGCCAG 59.688 50.000 0.00 0.00 0.00 4.85
110 111 0.310543 GAGCACACACAAAATCGCCA 59.689 50.000 0.00 0.00 0.00 5.69
111 112 0.310543 TGAGCACACACAAAATCGCC 59.689 50.000 0.00 0.00 0.00 5.54
112 113 1.264020 TCTGAGCACACACAAAATCGC 59.736 47.619 0.00 0.00 0.00 4.58
113 114 2.287644 TGTCTGAGCACACACAAAATCG 59.712 45.455 0.00 0.00 0.00 3.34
114 115 3.969117 TGTCTGAGCACACACAAAATC 57.031 42.857 0.00 0.00 0.00 2.17
253 294 1.023513 CGAGCTGCTTTTCCTGGGAG 61.024 60.000 2.53 0.00 0.00 4.30
254 295 1.003355 CGAGCTGCTTTTCCTGGGA 60.003 57.895 2.53 0.00 0.00 4.37
265 306 4.219999 GGAGGGAGAGCGAGCTGC 62.220 72.222 0.84 0.00 46.98 5.25
266 307 3.535962 GGGAGGGAGAGCGAGCTG 61.536 72.222 0.84 0.00 0.00 4.24
400 453 3.277211 GAGCACGTACGGGTCAGCA 62.277 63.158 20.35 0.00 33.16 4.41
401 454 2.506438 GAGCACGTACGGGTCAGC 60.506 66.667 20.35 14.07 33.16 4.26
402 455 1.136984 GAGAGCACGTACGGGTCAG 59.863 63.158 26.38 12.01 35.30 3.51
403 456 1.303074 AGAGAGCACGTACGGGTCA 60.303 57.895 26.38 0.00 35.30 4.02
426 479 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
427 480 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
428 481 4.023279 CGAGAGAGAGAGAGAGAGAGAGAG 60.023 54.167 0.00 0.00 0.00 3.20
429 482 3.885901 CGAGAGAGAGAGAGAGAGAGAGA 59.114 52.174 0.00 0.00 0.00 3.10
430 483 3.551863 GCGAGAGAGAGAGAGAGAGAGAG 60.552 56.522 0.00 0.00 0.00 3.20
431 484 2.362397 GCGAGAGAGAGAGAGAGAGAGA 59.638 54.545 0.00 0.00 0.00 3.10
432 485 2.546795 GGCGAGAGAGAGAGAGAGAGAG 60.547 59.091 0.00 0.00 0.00 3.20
433 486 1.412710 GGCGAGAGAGAGAGAGAGAGA 59.587 57.143 0.00 0.00 0.00 3.10
434 487 1.541233 GGGCGAGAGAGAGAGAGAGAG 60.541 61.905 0.00 0.00 0.00 3.20
435 488 0.468226 GGGCGAGAGAGAGAGAGAGA 59.532 60.000 0.00 0.00 0.00 3.10
436 489 0.469917 AGGGCGAGAGAGAGAGAGAG 59.530 60.000 0.00 0.00 0.00 3.20
437 490 0.180171 CAGGGCGAGAGAGAGAGAGA 59.820 60.000 0.00 0.00 0.00 3.10
463 516 0.176680 GAGCGGATTGGAGAGCTTGA 59.823 55.000 0.00 0.00 40.39 3.02
466 519 2.439104 GGGAGCGGATTGGAGAGCT 61.439 63.158 0.00 0.00 43.33 4.09
482 535 5.418840 ACACAGCCAAGTAGATAAATTTGGG 59.581 40.000 0.00 0.00 40.29 4.12
499 552 2.357009 CTCCATTGATAGCAACACAGCC 59.643 50.000 0.00 0.00 36.72 4.85
577 634 1.212616 GCTACAGCTGACGCTAATGG 58.787 55.000 23.35 0.00 46.99 3.16
758 852 2.203480 GCCTCAGTTGGGGCAACA 60.203 61.111 18.00 0.00 45.66 3.33
769 863 3.842007 ATCCTGAATCTCAAGCCTCAG 57.158 47.619 0.00 0.00 35.99 3.35
790 884 0.596577 CAGTCATTGCTGCAGCTGTT 59.403 50.000 36.61 19.79 42.66 3.16
941 1038 0.810031 CCACGCCATTCGAGTAAGGG 60.810 60.000 0.00 0.00 42.15 3.95
946 1043 1.079819 CTGACCACGCCATTCGAGT 60.080 57.895 0.00 0.00 41.67 4.18
958 1055 1.431633 TCCTCCTCCTTACACTGACCA 59.568 52.381 0.00 0.00 0.00 4.02
969 1066 1.229984 CAAACCCCCTCCTCCTCCT 60.230 63.158 0.00 0.00 0.00 3.69
970 1067 2.985116 GCAAACCCCCTCCTCCTCC 61.985 68.421 0.00 0.00 0.00 4.30
971 1068 2.677848 GCAAACCCCCTCCTCCTC 59.322 66.667 0.00 0.00 0.00 3.71
1053 1154 4.741239 AGGCGTGGATCCAGGGGT 62.741 66.667 30.36 8.48 33.02 4.95
1102 1206 1.696884 GGGTTCCTCCTCCTCATCATC 59.303 57.143 0.00 0.00 36.25 2.92
1103 1207 1.010046 TGGGTTCCTCCTCCTCATCAT 59.990 52.381 0.00 0.00 36.25 2.45
1104 1208 0.417437 TGGGTTCCTCCTCCTCATCA 59.583 55.000 0.00 0.00 36.25 3.07
1110 1217 1.904990 GCTGACTGGGTTCCTCCTCC 61.905 65.000 0.00 0.00 36.25 4.30
1160 1267 4.952262 CGTGTGATCACAGGATGAAAAT 57.048 40.909 34.36 0.00 46.69 1.82
1186 1293 2.502492 CCCAGCTCGATGTCCGGAT 61.502 63.158 7.81 0.00 39.14 4.18
1269 1376 2.330231 GCATAAGCAACGCAAACAGA 57.670 45.000 0.00 0.00 41.58 3.41
1352 1459 4.757355 CAGGCCCGGCATTCCCAA 62.757 66.667 12.58 0.00 0.00 4.12
1368 1475 1.668751 GACGCCAACTCAAACAACTCA 59.331 47.619 0.00 0.00 0.00 3.41
1387 1494 2.562298 CCAAATTGCTAGCCAACAAGGA 59.438 45.455 13.29 0.00 41.22 3.36
1389 1496 2.299867 ACCCAAATTGCTAGCCAACAAG 59.700 45.455 13.29 0.00 35.99 3.16
1390 1497 2.036992 CACCCAAATTGCTAGCCAACAA 59.963 45.455 13.29 0.00 35.99 2.83
1426 1533 5.221048 GGATGATTGTGGCATAAACCTGTAC 60.221 44.000 0.00 0.00 0.00 2.90
1444 1551 3.054361 AGCTCTACAAAAACCCGGATGAT 60.054 43.478 0.73 0.00 0.00 2.45
1497 1604 0.250295 CAACCTTCTTGGCCTCGACA 60.250 55.000 3.32 0.00 40.22 4.35
1648 1755 8.115490 TCTCCATGTGTATACATACTCATCAG 57.885 38.462 9.18 6.20 45.53 2.90
2043 2150 7.682787 ATAACTCACCAGATTAGGAGTGATT 57.317 36.000 0.00 0.00 40.29 2.57
2246 2353 8.243426 TGTAAGCATCTGGAACAAAATTATGAC 58.757 33.333 0.00 0.00 38.70 3.06
2619 2731 0.750911 CCTCCTGCAGATCCAAAGCC 60.751 60.000 17.39 0.00 0.00 4.35
2847 2959 6.407865 CCATCTCTCTAAAGATTTCCAGAGCA 60.408 42.308 7.90 1.44 33.68 4.26
3018 3130 9.754382 CCAATTTTGAAGTATCCAATTATGAGG 57.246 33.333 0.00 0.00 0.00 3.86
3099 3211 3.207669 CTCAGCTTGGCATCCGGC 61.208 66.667 0.00 0.00 43.74 6.13
3209 3321 7.942341 TGGAATAATTCTGTTGACCAAGTTACT 59.058 33.333 0.00 0.00 0.00 2.24
3249 3364 5.571784 ACTTGATGCAACAATACCATGAG 57.428 39.130 10.06 0.00 0.00 2.90
3280 3395 1.740025 CGGAAGCAAAGGGAACAGATC 59.260 52.381 0.00 0.00 0.00 2.75
3317 3432 2.553247 CCTGTTTCTTCCCTCCCTTGTC 60.553 54.545 0.00 0.00 0.00 3.18
3426 3556 6.876257 GGCAGTCCTAATATCCTACTTGATTG 59.124 42.308 0.00 0.00 0.00 2.67
3465 3679 8.746530 AGATAAATCTGACTCAAAATGTGCATT 58.253 29.630 0.00 0.00 35.42 3.56
3481 3695 9.579932 AAAAGAGGCCCTAATAAGATAAATCTG 57.420 33.333 0.00 0.00 37.19 2.90
3552 3766 0.322008 AGCTGAACACCTAGCCTTGC 60.322 55.000 0.00 0.00 40.76 4.01
3632 3846 3.571571 CATGCGATAAATTGATGCCCTG 58.428 45.455 0.00 0.00 0.00 4.45
3634 3848 2.029649 AGCATGCGATAAATTGATGCCC 60.030 45.455 13.01 0.00 40.26 5.36
3710 3924 6.531240 TGAAACAAAAGCAGAGCAAAACTAAG 59.469 34.615 0.00 0.00 0.00 2.18
3734 3948 6.073980 GGCAGCTTACATCATGCATATTTTTG 60.074 38.462 0.00 0.00 40.46 2.44
3735 3949 5.987347 GGCAGCTTACATCATGCATATTTTT 59.013 36.000 0.00 0.00 40.46 1.94
3773 3987 8.173775 GTGAAGTTCATAACAGAATGATCAGTG 58.826 37.037 9.18 0.29 39.69 3.66
3774 3988 7.879677 TGTGAAGTTCATAACAGAATGATCAGT 59.120 33.333 9.18 0.00 39.69 3.41
3883 4099 2.979814 AAAGGCACCACAAAAAGGTC 57.020 45.000 0.00 0.00 37.23 3.85
3957 4173 3.554934 TGCACCCTGATATCATTTCACC 58.445 45.455 5.72 0.00 0.00 4.02
3968 4184 2.041701 AGCTTTTGTTTGCACCCTGAT 58.958 42.857 0.00 0.00 0.00 2.90
3983 4199 1.003866 GTTTCACGCGACAGAAGCTTT 60.004 47.619 15.93 0.00 0.00 3.51
3996 4212 2.857748 GACCCAAAAAGCTTGTTTCACG 59.142 45.455 0.00 0.00 0.00 4.35
4041 4257 1.603456 TTCAGCATCCGCAGTCAAAA 58.397 45.000 0.00 0.00 42.27 2.44
4045 4261 1.129437 GAACTTTCAGCATCCGCAGTC 59.871 52.381 0.00 0.00 42.27 3.51
4073 4289 4.401022 TCTTCACATTCTGAAACCTGCAT 58.599 39.130 0.00 0.00 38.47 3.96


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.