Multiple sequence alignment - TraesCS1D01G106800

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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 TraesCS1D01G106800 chr1D 100.000 5643 0 0 1 5643 99665973 99671615 0.000000e+00 10421
1 TraesCS1D01G106800 chr1B 95.239 4831 184 25 1 4800 152802377 152797562 0.000000e+00 7605
2 TraesCS1D01G106800 chr1A 94.887 3051 91 18 1 3009 95058098 95061125 0.000000e+00 4710
3 TraesCS1D01G106800 chr1A 94.956 1804 73 9 3008 4800 95061207 95063003 0.000000e+00 2811
4 TraesCS1D01G106800 chr4D 97.642 848 18 2 4797 5643 242954548 242953702 0.000000e+00 1454
5 TraesCS1D01G106800 chr4D 97.041 845 23 2 4800 5643 171864347 171863504 0.000000e+00 1421
6 TraesCS1D01G106800 chr4D 83.889 180 22 7 1129 1305 508695077 508694902 1.260000e-36 165
7 TraesCS1D01G106800 chr3D 97.427 855 18 4 4792 5643 75123650 75122797 0.000000e+00 1454
8 TraesCS1D01G106800 chr3D 97.630 844 18 2 4801 5643 537505419 537504577 0.000000e+00 1447
9 TraesCS1D01G106800 chr3D 97.512 844 20 1 4801 5643 385256473 385255630 0.000000e+00 1441
10 TraesCS1D01G106800 chr5D 97.749 844 18 1 4800 5643 452162794 452163636 0.000000e+00 1452
11 TraesCS1D01G106800 chr5D 97.406 848 20 2 4797 5643 335349943 335349097 0.000000e+00 1443
12 TraesCS1D01G106800 chr7D 97.160 845 21 2 4801 5643 491314141 491314984 0.000000e+00 1424
13 TraesCS1D01G106800 chr6D 97.038 844 23 2 4801 5643 291902877 291902035 0.000000e+00 1419
14 TraesCS1D01G106800 chr5A 84.444 180 21 7 1129 1305 694983152 694982977 2.700000e-38 171
15 TraesCS1D01G106800 chr4B 83.060 183 24 7 1129 1308 659165883 659165705 5.850000e-35 159


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 TraesCS1D01G106800 chr1D 99665973 99671615 5642 False 10421.0 10421 100.0000 1 5643 1 chr1D.!!$F1 5642
1 TraesCS1D01G106800 chr1B 152797562 152802377 4815 True 7605.0 7605 95.2390 1 4800 1 chr1B.!!$R1 4799
2 TraesCS1D01G106800 chr1A 95058098 95063003 4905 False 3760.5 4710 94.9215 1 4800 2 chr1A.!!$F1 4799
3 TraesCS1D01G106800 chr4D 242953702 242954548 846 True 1454.0 1454 97.6420 4797 5643 1 chr4D.!!$R2 846
4 TraesCS1D01G106800 chr4D 171863504 171864347 843 True 1421.0 1421 97.0410 4800 5643 1 chr4D.!!$R1 843
5 TraesCS1D01G106800 chr3D 75122797 75123650 853 True 1454.0 1454 97.4270 4792 5643 1 chr3D.!!$R1 851
6 TraesCS1D01G106800 chr3D 537504577 537505419 842 True 1447.0 1447 97.6300 4801 5643 1 chr3D.!!$R3 842
7 TraesCS1D01G106800 chr3D 385255630 385256473 843 True 1441.0 1441 97.5120 4801 5643 1 chr3D.!!$R2 842
8 TraesCS1D01G106800 chr5D 452162794 452163636 842 False 1452.0 1452 97.7490 4800 5643 1 chr5D.!!$F1 843
9 TraesCS1D01G106800 chr5D 335349097 335349943 846 True 1443.0 1443 97.4060 4797 5643 1 chr5D.!!$R1 846
10 TraesCS1D01G106800 chr7D 491314141 491314984 843 False 1424.0 1424 97.1600 4801 5643 1 chr7D.!!$F1 842
11 TraesCS1D01G106800 chr6D 291902035 291902877 842 True 1419.0 1419 97.0380 4801 5643 1 chr6D.!!$R1 842

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
278 285 0.902984 TACTCTTCAGCTTCCCCGCA 60.903 55.000 0.00 0.00 0.00 5.69 F
1051 1090 0.393820 AGCGGACGAAAGGGTTACAA 59.606 50.000 0.00 0.00 0.00 2.41 F
1805 1852 2.029828 TCAACTTCCGAGTTCTCTCTGC 60.030 50.000 0.00 0.00 44.14 4.26 F
2486 2535 1.172180 CCAACATGCTTGTGTCCGGT 61.172 55.000 5.94 0.00 35.83 5.28 F
2490 2539 1.336755 ACATGCTTGTGTCCGGTTTTC 59.663 47.619 4.14 0.00 33.85 2.29 F
3905 4055 1.506718 GTAGCGGAAAAGGCCAAGC 59.493 57.895 5.01 0.21 0.00 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1624 1665 1.069358 TGGCGGATTTTCCAAACCAAC 59.931 47.619 0.00 0.0 35.91 3.77 R
2359 2408 0.313672 TTTGCATCCACGCCAAAGTC 59.686 50.000 0.00 0.0 0.00 3.01 R
3775 3925 0.343372 TAGATGCCTCCCCTTCCTGT 59.657 55.000 0.00 0.0 0.00 4.00 R
4039 4189 0.604243 TGCGCAACATAGGAACGGTT 60.604 50.000 8.16 0.0 0.00 4.44 R
4414 4564 1.474330 ACCTCGGAAATTCAATGGCC 58.526 50.000 0.00 0.0 0.00 5.36 R
4817 4967 0.031414 GGTAGGAGCCAACTAGGGGA 60.031 60.000 6.88 0.0 38.09 4.81 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
24 25 4.164221 AGTCAGTTCTTGAGACCCAAAAGA 59.836 41.667 0.00 0.00 36.21 2.52
35 36 5.770162 TGAGACCCAAAAGATCTTTCCTTTC 59.230 40.000 20.71 14.31 33.15 2.62
184 187 1.264288 GCACCGGTTCTTCTTCTGTTG 59.736 52.381 2.97 0.00 0.00 3.33
278 285 0.902984 TACTCTTCAGCTTCCCCGCA 60.903 55.000 0.00 0.00 0.00 5.69
399 431 4.183101 CACTTGTCTTGTGCCAATTTGTT 58.817 39.130 0.00 0.00 0.00 2.83
418 450 8.964476 ATTTGTTTACTCCATATAGACCTGTG 57.036 34.615 0.00 0.00 0.00 3.66
602 639 6.203530 TGCACGCATTAAAATTTGAATTTGGA 59.796 30.769 0.00 0.00 38.53 3.53
619 656 7.178983 TGAATTTGGATAAATCTGGCTCAAGTT 59.821 33.333 0.00 0.00 35.50 2.66
657 694 6.818142 TGAATGCGAGTTCTGAATATCTGAAA 59.182 34.615 0.00 0.00 36.36 2.69
821 860 5.324409 ACAGGCTGTGAATTCCAGAAATAA 58.676 37.500 21.37 0.00 31.38 1.40
922 961 6.097412 GGGGTCAAGATAGCAAAGATTTCATT 59.903 38.462 0.00 0.00 0.00 2.57
952 991 5.993748 TTGGAACACCTTCTTTCAAAGTT 57.006 34.783 0.00 0.00 39.29 2.66
976 1015 4.893424 TCAAAAAGGAAAACGGTCTCTG 57.107 40.909 0.00 0.00 0.00 3.35
1022 1061 3.120041 TGTCATTACATATCCGCACACG 58.880 45.455 0.00 0.00 39.67 4.49
1051 1090 0.393820 AGCGGACGAAAGGGTTACAA 59.606 50.000 0.00 0.00 0.00 2.41
1230 1270 8.185506 TGTCCACCGATAATATAGAAGCTAAA 57.814 34.615 0.00 0.00 0.00 1.85
1340 1380 5.343249 GTGTTCTTCACAGTTTTGAGCAAT 58.657 37.500 0.00 0.00 45.51 3.56
1361 1401 7.818930 AGCAATTTTCGTAACCATGATGAATTT 59.181 29.630 0.00 0.00 0.00 1.82
1624 1665 7.709613 ACGCACCTTACTGAAAAATATAGGTAG 59.290 37.037 0.00 0.00 33.44 3.18
1747 1788 5.132897 ACGCATTTTGTGACATAATTGGT 57.867 34.783 0.00 0.00 0.00 3.67
1805 1852 2.029828 TCAACTTCCGAGTTCTCTCTGC 60.030 50.000 0.00 0.00 44.14 4.26
1908 1955 3.345508 AGCAACTCTCATCTTGCATGA 57.654 42.857 4.57 4.57 44.42 3.07
1946 1993 7.172361 GCTAATAGATAGAAAAGAGGGCAACTG 59.828 40.741 0.00 0.00 33.04 3.16
1947 1994 4.917906 AGATAGAAAAGAGGGCAACTGT 57.082 40.909 0.00 0.00 0.00 3.55
2359 2408 8.801882 TTTATGAATGTAGGTCTTGTTTAGGG 57.198 34.615 0.00 0.00 0.00 3.53
2377 2426 1.523154 GGACTTTGGCGTGGATGCAA 61.523 55.000 0.00 0.00 36.28 4.08
2427 2476 9.462174 CTTAAAGATGTAAAACATGAAGTTGCA 57.538 29.630 0.00 0.30 39.27 4.08
2486 2535 1.172180 CCAACATGCTTGTGTCCGGT 61.172 55.000 5.94 0.00 35.83 5.28
2490 2539 1.336755 ACATGCTTGTGTCCGGTTTTC 59.663 47.619 4.14 0.00 33.85 2.29
2511 2560 5.514274 TCCTTGATCAGGTTTGTTTTGTC 57.486 39.130 3.93 0.00 44.37 3.18
2650 2699 5.245531 CTCATTTGAGCCTACTTGGTAACA 58.754 41.667 0.00 0.00 39.41 2.41
2743 2792 5.047021 TGAGGAAAATCCACAACAACAACAA 60.047 36.000 0.00 0.00 39.61 2.83
2744 2793 5.175127 AGGAAAATCCACAACAACAACAAC 58.825 37.500 0.00 0.00 39.61 3.32
2745 2794 4.932200 GGAAAATCCACAACAACAACAACA 59.068 37.500 0.00 0.00 36.28 3.33
2746 2795 5.163903 GGAAAATCCACAACAACAACAACAC 60.164 40.000 0.00 0.00 36.28 3.32
3183 3319 7.402054 TGTCAAGAATTCTATATGGGTGTGTT 58.598 34.615 8.75 0.00 0.00 3.32
3188 3324 5.708736 ATTCTATATGGGTGTGTTGGTCA 57.291 39.130 0.00 0.00 0.00 4.02
3207 3355 3.755378 GTCATTGGTATGCATCCATCCTC 59.245 47.826 15.69 6.83 34.75 3.71
3208 3356 3.654321 TCATTGGTATGCATCCATCCTCT 59.346 43.478 15.69 1.10 34.75 3.69
3209 3357 3.777106 TTGGTATGCATCCATCCTCTC 57.223 47.619 15.69 0.00 34.75 3.20
3348 3496 6.084326 AGACAAAATTATGACCACAACACC 57.916 37.500 0.00 0.00 0.00 4.16
3370 3518 2.279851 CCGTCACTTCGCACCACA 60.280 61.111 0.00 0.00 0.00 4.17
3458 3606 9.941664 CTCTCTCATTTTATTTCGCAAATACAT 57.058 29.630 2.16 0.00 33.32 2.29
3494 3642 6.780457 ATGAATGGGAAAAATAGTCACTGG 57.220 37.500 0.00 0.00 0.00 4.00
3699 3847 5.070446 AGTCCTTGTGAGTTGTAATGAGTGA 59.930 40.000 0.00 0.00 0.00 3.41
3905 4055 1.506718 GTAGCGGAAAAGGCCAAGC 59.493 57.895 5.01 0.21 0.00 4.01
3953 4103 4.800993 CACTACACGATCTCCATGAAGTTC 59.199 45.833 0.00 0.00 0.00 3.01
3957 4107 5.595885 ACACGATCTCCATGAAGTTCATAG 58.404 41.667 17.86 11.32 34.28 2.23
4039 4189 5.833406 TCAGAGTTGCATGTTTCAAGAAA 57.167 34.783 0.00 0.00 0.00 2.52
4052 4202 5.591067 TGTTTCAAGAAAACCGTTCCTATGT 59.409 36.000 0.00 0.00 45.58 2.29
4072 4222 3.234386 GTTGCGCAAAAACTATGAGGAC 58.766 45.455 26.87 4.07 0.00 3.85
4075 4225 1.732259 CGCAAAAACTATGAGGACGCT 59.268 47.619 0.00 0.00 0.00 5.07
4132 4282 7.736893 ACTACAAGCTAACTATTATCCCCAAG 58.263 38.462 0.00 0.00 0.00 3.61
4176 4326 3.972133 TGATGAAGTCTCCCATTGCAAT 58.028 40.909 5.99 5.99 0.00 3.56
4244 4394 7.695055 TCTTGGGAACAGGTTTCAATTCTATA 58.305 34.615 0.00 0.00 44.54 1.31
4280 4430 4.058124 CCATATTACATCTGTGGTGGACG 58.942 47.826 0.00 0.00 0.00 4.79
4366 4516 9.352784 GTGTTGCTGAAATATAACATTTTGCTA 57.647 29.630 0.00 0.00 35.72 3.49
4367 4517 9.571810 TGTTGCTGAAATATAACATTTTGCTAG 57.428 29.630 0.00 0.00 0.00 3.42
4393 4543 2.693591 GTCATTCTACAGATCCGGGTCA 59.306 50.000 19.03 0.00 0.00 4.02
4428 4578 3.719268 AAAAGGGGCCATTGAATTTCC 57.281 42.857 3.25 0.00 0.00 3.13
4642 4792 9.442047 AATCTTCATAACCTGAACTTCAAGTAG 57.558 33.333 0.00 0.00 38.97 2.57
4693 4843 7.899178 CTGGTAACTGTGTGATGTTGTAATA 57.101 36.000 0.00 0.00 37.61 0.98
4696 4846 7.171848 TGGTAACTGTGTGATGTTGTAATACAC 59.828 37.037 0.00 0.00 41.36 2.90
4926 5076 0.394488 TGCCCTTTGACCGTTTGACA 60.394 50.000 0.00 0.00 0.00 3.58
5045 5195 6.465948 TCATTTGCATTTAGGACAAAAGCAT 58.534 32.000 1.12 0.00 36.90 3.79
5562 5716 1.497309 AAAGGGCATTCGAGGGACCA 61.497 55.000 12.29 0.00 0.00 4.02
5566 5720 1.810030 GCATTCGAGGGACCACGAC 60.810 63.158 10.34 0.00 37.38 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 7.920160 TGATGCAACTTCAGTATGTATTTGA 57.080 32.000 0.00 0.00 37.40 2.69
60 61 8.186163 ACATGATGCAACTTCAGTATGTATTTG 58.814 33.333 0.00 0.00 37.40 2.32
61 62 8.284945 ACATGATGCAACTTCAGTATGTATTT 57.715 30.769 0.00 0.00 37.40 1.40
64 65 8.962884 ATAACATGATGCAACTTCAGTATGTA 57.037 30.769 0.00 0.00 37.40 2.29
65 66 7.870509 ATAACATGATGCAACTTCAGTATGT 57.129 32.000 0.00 0.00 37.40 2.29
184 187 1.009078 TGCAACGCATCTGATACTGC 58.991 50.000 0.00 0.00 31.71 4.40
210 213 3.604582 CTTTCCCATCAAGAGGACTGAC 58.395 50.000 0.00 0.00 0.00 3.51
399 431 6.747414 ATTGCACAGGTCTATATGGAGTAA 57.253 37.500 0.00 0.00 0.00 2.24
434 466 5.580022 ACCATAAAAGTGTCCTAGGCAAAT 58.420 37.500 2.96 0.00 0.00 2.32
470 507 7.277981 GGACACAATCAGTCGAACTTATTACAT 59.722 37.037 0.00 0.00 36.87 2.29
471 508 6.588756 GGACACAATCAGTCGAACTTATTACA 59.411 38.462 0.00 0.00 36.87 2.41
602 639 5.774690 TCAAACCAACTTGAGCCAGATTTAT 59.225 36.000 0.00 0.00 31.67 1.40
619 656 4.142271 ACTCGCATTCAAAGTTTCAAACCA 60.142 37.500 0.00 0.00 0.00 3.67
657 694 9.927081 ATCATTTTATACCCAAGATCTGAACTT 57.073 29.630 0.00 0.00 0.00 2.66
821 860 4.475016 ACCATCTGCTCCTTACATAAACCT 59.525 41.667 0.00 0.00 0.00 3.50
952 991 6.544564 ACAGAGACCGTTTTCCTTTTTGATAA 59.455 34.615 0.00 0.00 0.00 1.75
1022 1061 1.289109 TTCGTCCGCTGCTGCTAAAC 61.289 55.000 14.03 7.71 36.97 2.01
1230 1270 8.335532 TCAACACTTCATAAAATTCGAATCCT 57.664 30.769 11.83 4.18 0.00 3.24
1340 1380 6.925718 TGCAAAATTCATCATGGTTACGAAAA 59.074 30.769 0.00 0.00 0.00 2.29
1456 1496 2.281762 CAGTTCGCGTATGTAGCTTTCC 59.718 50.000 5.77 0.00 0.00 3.13
1624 1665 1.069358 TGGCGGATTTTCCAAACCAAC 59.931 47.619 0.00 0.00 35.91 3.77
1747 1788 1.875514 GTCAGAAGAAGCATGCACACA 59.124 47.619 21.98 0.00 0.00 3.72
1805 1852 9.823647 AAAACAAGGTAGACATATCATGTAGAG 57.176 33.333 0.00 0.00 45.03 2.43
1908 1955 8.621532 TTCTATCTATTAGCCGAAATGCAAAT 57.378 30.769 0.00 0.00 0.00 2.32
1946 1993 9.566530 TTTGACATGTTTGTAATATATGCACAC 57.433 29.630 0.00 1.46 35.79 3.82
2291 2340 8.867112 ACAGAGTAAATATACATGTACAACCG 57.133 34.615 7.96 0.00 34.40 4.44
2359 2408 0.313672 TTTGCATCCACGCCAAAGTC 59.686 50.000 0.00 0.00 0.00 3.01
2417 2466 6.600882 AATCTTGATTTCCTGCAACTTCAT 57.399 33.333 0.00 0.00 0.00 2.57
2427 2476 6.409524 TTCACTGCAAAATCTTGATTTCCT 57.590 33.333 8.77 0.00 34.14 3.36
2475 2524 2.294074 TCAAGGAAAACCGGACACAAG 58.706 47.619 9.46 0.00 0.00 3.16
2490 2539 7.857561 TGGAGACAAAACAAACCTGATCAAGG 61.858 42.308 0.00 3.24 45.77 3.61
2511 2560 8.964476 TCTTAAAGCCAATAATTAGAGTGGAG 57.036 34.615 14.01 5.08 32.54 3.86
2743 2792 4.784177 TGTCATGGAGATGCATAATGTGT 58.216 39.130 0.00 0.00 0.00 3.72
2744 2793 5.959618 ATGTCATGGAGATGCATAATGTG 57.040 39.130 0.00 0.00 29.75 3.21
2745 2794 8.520351 CATTTATGTCATGGAGATGCATAATGT 58.480 33.333 0.00 0.00 37.82 2.71
2746 2795 8.520351 ACATTTATGTCATGGAGATGCATAATG 58.480 33.333 0.00 3.85 37.82 1.90
2838 2889 3.119602 ACGCTACTCACGCTGAAAAGATA 60.120 43.478 0.00 0.00 0.00 1.98
2931 2982 6.347160 GCTCAAATCAAAGATGAAAACCTTGC 60.347 38.462 0.00 0.00 39.49 4.01
2994 3045 9.555727 AGTTTTAGTTACTAGAAAGCACATTGA 57.444 29.630 0.00 0.00 0.00 2.57
3013 3147 9.825972 AATAACACGAATGATGACAAGTTTTAG 57.174 29.630 0.00 0.00 0.00 1.85
3031 3165 7.407871 CGCTAAACTAACTTGCAAAATAACACG 60.408 37.037 0.00 0.00 0.00 4.49
3144 3280 8.579006 AGAATTCTTGACAAATTGCTATGTTCA 58.421 29.630 0.88 0.00 0.00 3.18
3172 3308 2.109128 ACCAATGACCAACACACCCATA 59.891 45.455 0.00 0.00 0.00 2.74
3183 3319 3.489355 GATGGATGCATACCAATGACCA 58.511 45.455 17.97 10.98 40.93 4.02
3188 3324 3.009916 GGAGAGGATGGATGCATACCAAT 59.990 47.826 17.97 2.03 40.93 3.16
3207 3355 5.877012 GTGTATAATGCATAGACCATGGGAG 59.123 44.000 18.09 1.69 34.97 4.30
3208 3356 5.309282 TGTGTATAATGCATAGACCATGGGA 59.691 40.000 18.09 0.54 33.43 4.37
3209 3357 5.559770 TGTGTATAATGCATAGACCATGGG 58.440 41.667 18.09 0.00 33.43 4.00
3348 3496 2.022129 GTGCGAAGTGACGGGACAG 61.022 63.158 0.00 0.00 0.00 3.51
3487 3635 7.989826 AGCAATTGAATAGATAAACCAGTGAC 58.010 34.615 10.34 0.00 0.00 3.67
3528 3676 2.751166 ATTGGAGGTGTGAGTCTTCG 57.249 50.000 0.00 0.00 0.00 3.79
3719 3869 3.623906 ATGTGATGAGGTCAGACAAGG 57.376 47.619 2.17 0.00 37.56 3.61
3772 3922 1.564348 GATGCCTCCCCTTCCTGTTAA 59.436 52.381 0.00 0.00 0.00 2.01
3773 3923 1.213296 GATGCCTCCCCTTCCTGTTA 58.787 55.000 0.00 0.00 0.00 2.41
3774 3924 0.551131 AGATGCCTCCCCTTCCTGTT 60.551 55.000 0.00 0.00 0.00 3.16
3775 3925 0.343372 TAGATGCCTCCCCTTCCTGT 59.657 55.000 0.00 0.00 0.00 4.00
3953 4103 6.402550 GCACAAAACTGTACAGGACATCTATG 60.403 42.308 26.12 13.98 37.45 2.23
3957 4107 3.563808 TGCACAAAACTGTACAGGACATC 59.436 43.478 26.12 9.69 37.45 3.06
4039 4189 0.604243 TGCGCAACATAGGAACGGTT 60.604 50.000 8.16 0.00 0.00 4.44
4052 4202 2.095969 CGTCCTCATAGTTTTTGCGCAA 60.096 45.455 21.02 21.02 0.00 4.85
4072 4222 7.331934 AGTGTGTCCATAATAATATTGCTAGCG 59.668 37.037 10.77 0.00 0.00 4.26
4075 4225 9.845740 AACAGTGTGTCCATAATAATATTGCTA 57.154 29.630 0.00 0.00 0.00 3.49
4176 4326 6.657966 CGTCCCTATCACATACTTCATACCTA 59.342 42.308 0.00 0.00 0.00 3.08
4244 4394 6.048732 TGTAATATGGTCGCACATATCCAT 57.951 37.500 10.70 0.00 41.81 3.41
4280 4430 7.283127 TCCATGAATATTTGACCTAAGTTCAGC 59.717 37.037 0.00 0.00 0.00 4.26
4366 4516 4.141287 CGGATCTGTAGAATGACTCCTCT 58.859 47.826 0.00 0.00 0.00 3.69
4367 4517 3.254657 CCGGATCTGTAGAATGACTCCTC 59.745 52.174 0.00 0.00 0.00 3.71
4414 4564 1.474330 ACCTCGGAAATTCAATGGCC 58.526 50.000 0.00 0.00 0.00 5.36
4428 4578 5.390567 GCAAGTGTGTTCCTATAAAACCTCG 60.391 44.000 0.00 0.00 0.00 4.63
4544 4694 4.489737 AGGATCATCGGATAGGTAACCAA 58.510 43.478 0.00 0.00 32.67 3.67
4642 4792 4.065789 ACTTACAGTACAAAAGCTGGAGC 58.934 43.478 0.00 0.00 42.49 4.70
4659 4809 6.275335 TCACACAGTTACCAGTTACACTTAC 58.725 40.000 0.00 0.00 0.00 2.34
4707 4857 7.724061 TCAAACCTTTGTAGCCTAGAAAAATCT 59.276 33.333 0.00 0.00 39.18 2.40
4817 4967 0.031414 GGTAGGAGCCAACTAGGGGA 60.031 60.000 6.88 0.00 38.09 4.81
5032 5182 5.998981 TCGTTTAAAGGATGCTTTTGTCCTA 59.001 36.000 17.87 0.00 43.94 2.94
5045 5195 5.750352 ATTACCTCAGGTCGTTTAAAGGA 57.250 39.130 0.00 6.50 37.09 3.36
5206 5358 8.964476 ATCCAAGTCGTTAGAACATTCATAAT 57.036 30.769 0.00 0.00 0.00 1.28
5403 5557 6.793505 TTAGGACAAAAGCACCCTTTAAAA 57.206 33.333 0.00 0.00 40.30 1.52
5562 5716 1.202675 TGCCCTTACTTTTTCCGTCGT 60.203 47.619 0.00 0.00 0.00 4.34
5566 5720 4.048504 CAGTTTTGCCCTTACTTTTTCCG 58.951 43.478 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.