Multiple sequence alignment - TraesCS3D01G344200

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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 TraesCS3D01G344200 chr3D 100.000 3378 0 0 879 4256 456010896 456007519 0.000000e+00 6239.0
1 TraesCS3D01G344200 chr3D 100.000 731 0 0 1 731 456011774 456011044 0.000000e+00 1351.0
2 TraesCS3D01G344200 chr3A 92.724 3422 142 48 879 4256 598904261 598900903 0.000000e+00 4841.0
3 TraesCS3D01G344200 chr3A 91.152 712 43 10 34 731 598905038 598904333 0.000000e+00 948.0
4 TraesCS3D01G344200 chr3B 90.046 3446 203 58 880 4256 602472240 602468866 0.000000e+00 4335.0
5 TraesCS3D01G344200 chr3B 94.628 242 12 1 34 275 602473067 602472827 1.450000e-99 374.0
6 TraesCS3D01G344200 chr3B 89.492 295 8 8 438 731 602472585 602472313 6.770000e-93 351.0
7 TraesCS3D01G344200 chr3B 93.431 137 5 1 303 435 602472831 602472695 2.600000e-47 200.0
8 TraesCS3D01G344200 chr3B 97.778 45 1 0 2593 2637 602470509 602470465 1.270000e-10 78.7
9 TraesCS3D01G344200 chr3B 100.000 33 0 0 1 33 5615449 5615417 1.280000e-05 62.1
10 TraesCS3D01G344200 chr5D 94.268 1099 48 10 2254 3348 491583639 491584726 0.000000e+00 1666.0
11 TraesCS3D01G344200 chr5D 88.068 704 30 21 34 731 491582797 491583452 0.000000e+00 785.0
12 TraesCS3D01G344200 chr5D 86.154 130 7 4 880 1007 491583525 491583645 3.450000e-26 130.0
13 TraesCS3D01G344200 chr6A 100.000 33 0 0 1 33 71078026 71078058 1.280000e-05 62.1
14 TraesCS3D01G344200 chr5B 100.000 33 0 0 1 33 425867503 425867535 1.280000e-05 62.1
15 TraesCS3D01G344200 chr5A 100.000 33 0 0 1 33 569170972 569171004 1.280000e-05 62.1
16 TraesCS3D01G344200 chr2B 100.000 33 0 0 1 33 164378970 164378938 1.280000e-05 62.1
17 TraesCS3D01G344200 chr2B 100.000 33 0 0 1 33 446109715 446109747 1.280000e-05 62.1
18 TraesCS3D01G344200 chrUn 100.000 30 0 0 3 32 94517171 94517142 5.940000e-04 56.5
19 TraesCS3D01G344200 chr6D 96.970 33 1 0 2 34 307429429 307429397 5.940000e-04 56.5
20 TraesCS3D01G344200 chr1B 96.970 33 1 0 1 33 2788288 2788256 5.940000e-04 56.5


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 TraesCS3D01G344200 chr3D 456007519 456011774 4255 True 3795.000000 6239 100.000000 1 4256 2 chr3D.!!$R1 4255
1 TraesCS3D01G344200 chr3A 598900903 598905038 4135 True 2894.500000 4841 91.938000 34 4256 2 chr3A.!!$R1 4222
2 TraesCS3D01G344200 chr3B 602468866 602473067 4201 True 1067.740000 4335 93.075000 34 4256 5 chr3B.!!$R2 4222
3 TraesCS3D01G344200 chr5D 491582797 491584726 1929 False 860.333333 1666 89.496667 34 3348 3 chr5D.!!$F1 3314

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
210 219 0.317160 AACGACTTGCCGTGATCAGA 59.683 50.0 0.0 0.0 42.54 3.27 F
711 881 0.521735 CTTTGTTCCGGCCTGCTTAC 59.478 55.0 0.0 0.0 0.00 2.34 F
712 882 0.891904 TTTGTTCCGGCCTGCTTACC 60.892 55.0 0.0 0.0 0.00 2.85 F
2269 2454 1.033574 TGAATGGTTTTTCCGCCGTT 58.966 45.0 0.0 0.0 39.52 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2056 2239 0.953960 AACTTTTGGTAGGGCGCTCG 60.954 55.000 6.54 0.00 0.0 5.03 R
2522 2726 1.183549 ACCGGCTGAACTAGTACTGG 58.816 55.000 5.39 4.89 0.0 4.00 R
2567 2771 7.020602 CACATCCTTTGTTTTTGGTTTTGTTC 58.979 34.615 0.00 0.00 36.0 3.18 R
4170 4462 0.031515 ACCACATAGTCGGGGGATCA 60.032 55.000 0.00 0.00 0.0 2.92 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
22 23 2.040412 CCCCCTATGTTAGAATCCTGGC 59.960 54.545 0.00 0.00 0.00 4.85
23 24 2.982488 CCCCTATGTTAGAATCCTGGCT 59.018 50.000 0.00 0.00 0.00 4.75
24 25 3.008485 CCCCTATGTTAGAATCCTGGCTC 59.992 52.174 0.00 0.00 0.00 4.70
25 26 3.008485 CCCTATGTTAGAATCCTGGCTCC 59.992 52.174 0.00 0.00 0.00 4.70
26 27 2.918712 ATGTTAGAATCCTGGCTCCG 57.081 50.000 0.00 0.00 0.00 4.63
27 28 1.568504 TGTTAGAATCCTGGCTCCGT 58.431 50.000 0.00 0.00 0.00 4.69
28 29 1.480954 TGTTAGAATCCTGGCTCCGTC 59.519 52.381 0.00 0.00 0.00 4.79
29 30 1.120530 TTAGAATCCTGGCTCCGTCC 58.879 55.000 0.00 0.00 0.00 4.79
30 31 0.759436 TAGAATCCTGGCTCCGTCCC 60.759 60.000 0.00 0.00 0.00 4.46
31 32 2.041265 AATCCTGGCTCCGTCCCT 59.959 61.111 0.00 0.00 0.00 4.20
32 33 2.317149 GAATCCTGGCTCCGTCCCTG 62.317 65.000 0.00 0.00 0.00 4.45
59 60 1.211212 TGATCCAAGAGCCATGACCAG 59.789 52.381 0.00 0.00 0.00 4.00
69 71 1.270550 GCCATGACCAGAAAAGGTGTG 59.729 52.381 0.00 0.00 43.38 3.82
210 219 0.317160 AACGACTTGCCGTGATCAGA 59.683 50.000 0.00 0.00 42.54 3.27
234 243 2.030946 CGATCAGAAGAAAATCCGTGCC 59.969 50.000 0.00 0.00 0.00 5.01
381 427 3.434984 GCTCTGTTGTTTCTAGAAGCCTG 59.565 47.826 15.74 6.52 0.00 4.85
404 450 3.277211 TACACGTGTGGGCTCTCGC 62.277 63.158 30.83 0.00 34.19 5.03
460 613 2.579207 TGACTTTCTTATCGAGGCCG 57.421 50.000 0.00 0.00 37.07 6.13
635 803 3.317455 TTCATTATGGCCTCCATTGCT 57.683 42.857 3.32 0.00 42.23 3.91
711 881 0.521735 CTTTGTTCCGGCCTGCTTAC 59.478 55.000 0.00 0.00 0.00 2.34
712 882 0.891904 TTTGTTCCGGCCTGCTTACC 60.892 55.000 0.00 0.00 0.00 2.85
713 883 2.058125 TTGTTCCGGCCTGCTTACCA 62.058 55.000 0.00 0.00 0.00 3.25
1239 1416 1.519455 CCTCACAATCCGCTCGTCC 60.519 63.158 0.00 0.00 0.00 4.79
1662 1839 2.579738 GTCTCCAAGGTCGGCTCC 59.420 66.667 0.00 0.00 0.00 4.70
1865 2042 1.094785 GTATCGCTGCAACACCCATT 58.905 50.000 0.00 0.00 0.00 3.16
1988 2171 6.801377 GTGCAAATCGTTCATTTCATCTACAA 59.199 34.615 0.00 0.00 31.79 2.41
1989 2172 7.485913 GTGCAAATCGTTCATTTCATCTACAAT 59.514 33.333 0.00 0.00 31.79 2.71
2269 2454 1.033574 TGAATGGTTTTTCCGCCGTT 58.966 45.000 0.00 0.00 39.52 4.44
2522 2726 2.729028 TTAGCCAATAAGAGGTGGGC 57.271 50.000 0.00 0.00 44.92 5.36
2634 2875 8.757982 ATTGTTCTACTGCCATCAAATTCTAT 57.242 30.769 0.00 0.00 0.00 1.98
2714 2958 3.370103 CCTGAACCGGGTCAGCTAATTAA 60.370 47.826 39.09 7.11 43.18 1.40
2745 2989 2.953466 GCATCACTGCATGATTGGTT 57.047 45.000 0.00 0.00 46.54 3.67
2749 2993 1.805943 TCACTGCATGATTGGTTGACG 59.194 47.619 0.00 0.00 29.99 4.35
2899 3156 2.890945 GCAGTAACACCCCTTTTGATGT 59.109 45.455 0.00 0.00 0.00 3.06
2966 3223 2.373169 TGAAGAAAGTGAGAGGCATGGT 59.627 45.455 0.00 0.00 0.00 3.55
3154 3414 2.750166 GTCTCTGAAGACGGTGATGAGA 59.250 50.000 0.00 0.00 42.42 3.27
3158 3418 3.511540 TCTGAAGACGGTGATGAGAATGT 59.488 43.478 0.00 0.00 0.00 2.71
3252 3512 2.895372 CTTGCCCCGTACCGCATC 60.895 66.667 0.00 0.00 34.35 3.91
3395 3664 3.984633 GCTGTCGTTGGCTTATATCTCTC 59.015 47.826 0.00 0.00 0.00 3.20
3396 3665 4.261825 GCTGTCGTTGGCTTATATCTCTCT 60.262 45.833 0.00 0.00 0.00 3.10
3398 3667 6.561737 TGTCGTTGGCTTATATCTCTCTAG 57.438 41.667 0.00 0.00 0.00 2.43
3399 3668 6.296803 TGTCGTTGGCTTATATCTCTCTAGA 58.703 40.000 0.00 0.00 35.80 2.43
3400 3669 6.205076 TGTCGTTGGCTTATATCTCTCTAGAC 59.795 42.308 0.00 0.00 33.57 2.59
3401 3670 6.428771 GTCGTTGGCTTATATCTCTCTAGACT 59.571 42.308 0.00 0.00 33.57 3.24
3518 3788 9.757227 ATATAAGTATTGAGCAAGTGAGAAGAC 57.243 33.333 0.00 0.00 0.00 3.01
3571 3841 5.928976 CCATGTCTGTAGATGGTATTGGAA 58.071 41.667 0.00 0.00 40.81 3.53
3642 3912 5.601313 TGACACTAAAAACAGTAGGAGAGGT 59.399 40.000 0.00 0.00 0.00 3.85
3646 3916 6.869388 CACTAAAAACAGTAGGAGAGGTTCTC 59.131 42.308 0.00 0.00 42.66 2.87
3669 3939 5.528690 TCCTACTATGCTGCATTCAAACATC 59.471 40.000 21.56 0.00 0.00 3.06
3677 3947 5.884232 TGCTGCATTCAAACATCTAGAAGAT 59.116 36.000 0.00 0.00 34.74 2.40
3690 3960 5.218587 ATCTAGAAGATTTGCGACAAGCCC 61.219 45.833 0.00 0.00 36.94 5.19
3699 3969 0.462759 GCGACAAGCCCTAGAAGCAT 60.463 55.000 7.37 0.00 40.81 3.79
3714 3984 6.818644 CCTAGAAGCATAACAGAAAGCTACAA 59.181 38.462 0.00 0.00 36.07 2.41
3779 4053 7.482654 GCAAATCTGCCTTAGTTTTTCTTTT 57.517 32.000 0.00 0.00 43.26 2.27
3780 4054 7.567571 GCAAATCTGCCTTAGTTTTTCTTTTC 58.432 34.615 0.00 0.00 43.26 2.29
3983 4274 8.021955 TCGAGAGCAATGTAATTAATAGCATG 57.978 34.615 5.71 0.00 32.46 4.06
3988 4279 8.408043 AGCAATGTAATTAATAGCATGCCTAA 57.592 30.769 15.66 10.34 32.46 2.69
4042 4334 5.131642 TCCAACTAATCTCAGCCATCAATCT 59.868 40.000 0.00 0.00 0.00 2.40
4046 4338 3.773418 ATCTCAGCCATCAATCTCTGG 57.227 47.619 0.00 0.00 35.53 3.86
4055 4347 3.697542 CCATCAATCTCTGGCAATCAACA 59.302 43.478 0.00 0.00 0.00 3.33
4060 4352 4.574674 ATCTCTGGCAATCAACAACCTA 57.425 40.909 0.00 0.00 0.00 3.08
4091 4383 5.651576 TCCAATATTGAGCACATGTTTAGCA 59.348 36.000 17.23 0.00 0.00 3.49
4104 4396 7.220683 GCACATGTTTAGCACACATTTAATAGG 59.779 37.037 0.00 0.00 38.61 2.57
4156 4448 3.367932 CCTACTTGACATTGCACGTACTG 59.632 47.826 0.00 0.00 0.00 2.74
4161 4453 1.726791 GACATTGCACGTACTGACCAG 59.273 52.381 0.00 0.00 0.00 4.00
4163 4455 0.673644 ATTGCACGTACTGACCAGGC 60.674 55.000 1.82 0.00 0.00 4.85
4164 4456 1.754380 TTGCACGTACTGACCAGGCT 61.754 55.000 1.82 0.00 0.00 4.58
4165 4457 0.896479 TGCACGTACTGACCAGGCTA 60.896 55.000 1.82 0.00 0.00 3.93
4166 4458 0.179134 GCACGTACTGACCAGGCTAG 60.179 60.000 1.82 0.00 0.00 3.42
4167 4459 1.174783 CACGTACTGACCAGGCTAGT 58.825 55.000 1.82 2.04 0.00 2.57
4168 4460 2.362736 CACGTACTGACCAGGCTAGTA 58.637 52.381 1.82 0.26 0.00 1.82
4169 4461 2.950309 CACGTACTGACCAGGCTAGTAT 59.050 50.000 6.67 0.00 30.47 2.12
4170 4462 3.380637 CACGTACTGACCAGGCTAGTATT 59.619 47.826 6.67 0.00 30.47 1.89
4171 4463 3.380637 ACGTACTGACCAGGCTAGTATTG 59.619 47.826 6.67 5.85 30.47 1.90
4172 4464 3.630769 CGTACTGACCAGGCTAGTATTGA 59.369 47.826 6.67 0.00 30.47 2.57
4173 4465 4.278669 CGTACTGACCAGGCTAGTATTGAT 59.721 45.833 6.67 0.00 30.47 2.57
4174 4466 4.946478 ACTGACCAGGCTAGTATTGATC 57.054 45.455 1.82 0.00 0.00 2.92
4175 4467 3.643792 ACTGACCAGGCTAGTATTGATCC 59.356 47.826 1.82 0.00 0.00 3.36
4176 4468 2.972713 TGACCAGGCTAGTATTGATCCC 59.027 50.000 0.00 0.00 0.00 3.85
4253 4545 7.043656 TGACGATGTAAGCATTATTTACGACTG 60.044 37.037 0.00 0.00 35.07 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.040412 GCCAGGATTCTAACATAGGGGG 59.960 54.545 0.00 0.00 0.00 5.40
2 3 2.982488 AGCCAGGATTCTAACATAGGGG 59.018 50.000 0.00 0.00 0.00 4.79
3 4 3.008485 GGAGCCAGGATTCTAACATAGGG 59.992 52.174 0.00 0.00 0.00 3.53
4 5 3.306364 CGGAGCCAGGATTCTAACATAGG 60.306 52.174 0.00 0.00 0.00 2.57
5 6 3.322254 ACGGAGCCAGGATTCTAACATAG 59.678 47.826 0.00 0.00 0.00 2.23
6 7 3.305720 ACGGAGCCAGGATTCTAACATA 58.694 45.455 0.00 0.00 0.00 2.29
7 8 2.103263 GACGGAGCCAGGATTCTAACAT 59.897 50.000 0.00 0.00 0.00 2.71
8 9 1.480954 GACGGAGCCAGGATTCTAACA 59.519 52.381 0.00 0.00 0.00 2.41
9 10 1.202545 GGACGGAGCCAGGATTCTAAC 60.203 57.143 0.00 0.00 0.00 2.34
10 11 1.120530 GGACGGAGCCAGGATTCTAA 58.879 55.000 0.00 0.00 0.00 2.10
11 12 0.759436 GGGACGGAGCCAGGATTCTA 60.759 60.000 0.00 0.00 0.00 2.10
12 13 2.066999 GGGACGGAGCCAGGATTCT 61.067 63.158 0.00 0.00 0.00 2.40
13 14 2.066999 AGGGACGGAGCCAGGATTC 61.067 63.158 0.00 0.00 0.00 2.52
14 15 2.041265 AGGGACGGAGCCAGGATT 59.959 61.111 0.00 0.00 0.00 3.01
15 16 2.765807 CAGGGACGGAGCCAGGAT 60.766 66.667 0.00 0.00 0.00 3.24
16 17 3.846405 AACAGGGACGGAGCCAGGA 62.846 63.158 0.00 0.00 0.00 3.86
17 18 2.804828 GAAACAGGGACGGAGCCAGG 62.805 65.000 0.00 0.00 0.00 4.45
18 19 1.376037 GAAACAGGGACGGAGCCAG 60.376 63.158 0.00 0.00 0.00 4.85
19 20 2.747686 GAAACAGGGACGGAGCCA 59.252 61.111 0.00 0.00 0.00 4.75
20 21 2.046217 GGAAACAGGGACGGAGCC 60.046 66.667 0.00 0.00 0.00 4.70
21 22 2.747686 TGGAAACAGGGACGGAGC 59.252 61.111 0.00 0.00 35.01 4.70
32 33 2.726821 TGGCTCTTGGATCATGGAAAC 58.273 47.619 0.00 0.00 0.00 2.78
59 60 6.472486 GCTTTTCTCACTTTACACACCTTTTC 59.528 38.462 0.00 0.00 0.00 2.29
69 71 3.784488 CGTCACGCTTTTCTCACTTTAC 58.216 45.455 0.00 0.00 0.00 2.01
210 219 4.177026 CACGGATTTTCTTCTGATCGAGT 58.823 43.478 0.00 0.00 0.00 4.18
234 243 3.177487 CACGAGACATCTCACATCTGTG 58.823 50.000 9.49 3.90 46.91 3.66
298 307 1.202371 GGTATCGTTGCGTCCATCAGA 60.202 52.381 0.00 0.00 0.00 3.27
381 427 3.423154 GCCCACACGTGTAGCTGC 61.423 66.667 26.96 20.11 0.00 5.25
404 450 0.962356 AAATCGTTGGCCTCAGCTGG 60.962 55.000 15.13 4.45 39.73 4.85
669 837 1.079750 GCAGAACCACTCCCTCGAC 60.080 63.158 0.00 0.00 0.00 4.20
711 881 2.677524 TCGTACCTGGACCGGTGG 60.678 66.667 14.63 10.51 37.93 4.61
712 882 2.570181 GTCGTACCTGGACCGGTG 59.430 66.667 14.63 0.00 37.93 4.94
713 883 2.677875 GGTCGTACCTGGACCGGT 60.678 66.667 6.92 6.92 44.04 5.28
916 1086 4.885426 CAGGACTGCAGGTGTTGT 57.115 55.556 19.93 0.00 0.00 3.32
1244 1421 4.116328 CGAGCGAGACCAGCGGAA 62.116 66.667 1.50 0.00 40.04 4.30
1433 1610 4.135153 CGGCGTCCACTCCCTCAG 62.135 72.222 0.00 0.00 0.00 3.35
1960 2143 4.418013 TGAAATGAACGATTTGCACGAT 57.582 36.364 1.86 0.00 34.18 3.73
1989 2172 9.627123 ACTTGTGCTTATCCTTTGCTAAATATA 57.373 29.630 0.00 0.00 0.00 0.86
2056 2239 0.953960 AACTTTTGGTAGGGCGCTCG 60.954 55.000 6.54 0.00 0.00 5.03
2173 2358 3.740764 GCTGCAAACCAAATGAAGACCAA 60.741 43.478 0.00 0.00 0.00 3.67
2180 2365 4.754114 GGTTATTTGCTGCAAACCAAATGA 59.246 37.500 28.11 7.88 40.66 2.57
2256 2441 3.429543 GGGAAAAATAACGGCGGAAAAAC 59.570 43.478 13.24 0.00 0.00 2.43
2269 2454 1.606903 ACCAACACGCGGGAAAAATA 58.393 45.000 19.19 0.00 0.00 1.40
2522 2726 1.183549 ACCGGCTGAACTAGTACTGG 58.816 55.000 5.39 4.89 0.00 4.00
2567 2771 7.020602 CACATCCTTTGTTTTTGGTTTTGTTC 58.979 34.615 0.00 0.00 36.00 3.18
2714 2958 1.669115 GTGATGCAGACACACGGCT 60.669 57.895 17.91 0.00 40.20 5.52
2719 2963 4.120959 AATCATGCAGTGATGCAGACACA 61.121 43.478 22.55 11.42 46.80 3.72
2745 2989 2.410466 GGTTTTCAACCCAGCGTCA 58.590 52.632 0.00 0.00 46.12 4.35
2850 3095 7.706607 ACTGCAAAAAGACCTGATTAAAAAGTC 59.293 33.333 0.00 0.00 0.00 3.01
2851 3096 7.555965 ACTGCAAAAAGACCTGATTAAAAAGT 58.444 30.769 0.00 0.00 0.00 2.66
2858 3114 4.773323 GCTACTGCAAAAAGACCTGATT 57.227 40.909 0.00 0.00 39.41 2.57
2899 3156 1.069973 CGCATCACAAAAGAAGCACGA 60.070 47.619 0.00 0.00 32.11 4.35
3084 3341 4.373116 TCTTCGCCGGCACCAGAC 62.373 66.667 28.98 0.00 0.00 3.51
3205 3465 2.286872 GGACTCAAGCTGATCATGGTG 58.713 52.381 0.00 0.00 0.00 4.17
3252 3512 3.243877 CCATGACGAACGAGCTTAATCAG 59.756 47.826 0.00 0.00 0.00 2.90
3377 3646 6.535540 AGTCTAGAGAGATATAAGCCAACGA 58.464 40.000 0.00 0.00 33.14 3.85
3395 3664 4.681942 CGTTCTGACCAACTCAAAGTCTAG 59.318 45.833 0.00 0.00 0.00 2.43
3396 3665 4.340097 TCGTTCTGACCAACTCAAAGTCTA 59.660 41.667 0.00 0.00 0.00 2.59
3398 3667 3.245519 GTCGTTCTGACCAACTCAAAGTC 59.754 47.826 0.00 0.00 42.04 3.01
3399 3668 3.195661 GTCGTTCTGACCAACTCAAAGT 58.804 45.455 0.00 0.00 42.04 2.66
3400 3669 3.861569 GTCGTTCTGACCAACTCAAAG 57.138 47.619 0.00 0.00 42.04 2.77
3518 3788 3.989817 GCCAGCAAACATAAGGAAAACAG 59.010 43.478 0.00 0.00 0.00 3.16
3571 3841 7.201857 GCTCCCATTTTTAGATGAAATAGTGCT 60.202 37.037 0.00 0.00 0.00 4.40
3642 3912 5.357742 TTGAATGCAGCATAGTAGGAGAA 57.642 39.130 8.75 0.00 0.00 2.87
3646 3916 5.530171 AGATGTTTGAATGCAGCATAGTAGG 59.470 40.000 8.75 0.00 0.00 3.18
3647 3917 6.615264 AGATGTTTGAATGCAGCATAGTAG 57.385 37.500 8.75 0.00 0.00 2.57
3652 3922 5.884232 TCTTCTAGATGTTTGAATGCAGCAT 59.116 36.000 0.52 0.52 0.00 3.79
3669 3939 2.352960 GGGCTTGTCGCAAATCTTCTAG 59.647 50.000 0.00 0.00 41.67 2.43
3677 3947 1.808411 CTTCTAGGGCTTGTCGCAAA 58.192 50.000 0.00 0.00 41.67 3.68
3690 3960 7.010923 CCTTGTAGCTTTCTGTTATGCTTCTAG 59.989 40.741 0.00 0.00 37.02 2.43
3699 3969 5.989777 GTCAACTCCTTGTAGCTTTCTGTTA 59.010 40.000 0.00 0.00 0.00 2.41
4042 4334 4.574674 ATCTAGGTTGTTGATTGCCAGA 57.425 40.909 0.00 0.00 0.00 3.86
4156 4448 2.303311 GGGGATCAATACTAGCCTGGTC 59.697 54.545 0.00 0.00 0.00 4.02
4161 4453 1.275573 GTCGGGGGATCAATACTAGCC 59.724 57.143 0.00 0.00 0.00 3.93
4163 4455 5.017490 ACATAGTCGGGGGATCAATACTAG 58.983 45.833 0.00 0.00 0.00 2.57
4164 4456 4.770531 CACATAGTCGGGGGATCAATACTA 59.229 45.833 0.00 0.00 0.00 1.82
4165 4457 3.578716 CACATAGTCGGGGGATCAATACT 59.421 47.826 0.00 0.00 0.00 2.12
4166 4458 3.306780 CCACATAGTCGGGGGATCAATAC 60.307 52.174 0.00 0.00 0.00 1.89
4167 4459 2.903784 CCACATAGTCGGGGGATCAATA 59.096 50.000 0.00 0.00 0.00 1.90
4168 4460 1.699634 CCACATAGTCGGGGGATCAAT 59.300 52.381 0.00 0.00 0.00 2.57
4169 4461 1.128200 CCACATAGTCGGGGGATCAA 58.872 55.000 0.00 0.00 0.00 2.57
4170 4462 0.031515 ACCACATAGTCGGGGGATCA 60.032 55.000 0.00 0.00 0.00 2.92
4171 4463 1.129058 AACCACATAGTCGGGGGATC 58.871 55.000 0.00 0.00 0.00 3.36
4172 4464 0.837272 CAACCACATAGTCGGGGGAT 59.163 55.000 0.00 0.00 0.00 3.85
4173 4465 1.268992 CCAACCACATAGTCGGGGGA 61.269 60.000 0.00 0.00 0.00 4.81
4174 4466 1.223487 CCAACCACATAGTCGGGGG 59.777 63.158 0.00 0.00 0.00 5.40
4175 4467 0.616371 TTCCAACCACATAGTCGGGG 59.384 55.000 0.00 0.00 0.00 5.73
4176 4468 2.710096 ATTCCAACCACATAGTCGGG 57.290 50.000 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.