Multiple sequence alignment - TraesCS4D01G078400

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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 TraesCS4D01G078400 chr4D 100.000 4234 0 0 1 4234 52619984 52624217 0.000000e+00 7819
1 TraesCS4D01G078400 chr4D 91.648 1353 75 19 1 1347 70984276 70985596 0.000000e+00 1838
2 TraesCS4D01G078400 chr4D 90.200 1102 74 23 1609 2688 70986913 70988002 0.000000e+00 1406
3 TraesCS4D01G078400 chr4D 86.264 779 51 11 2692 3451 70988169 70988910 0.000000e+00 795
4 TraesCS4D01G078400 chr4D 92.800 125 9 0 1392 1516 70986353 70986477 9.350000e-42 182
5 TraesCS4D01G078400 chr4D 94.118 102 5 1 1507 1608 70986777 70986877 2.040000e-33 154
6 TraesCS4D01G078400 chr4B 94.502 4274 141 31 1 4231 77298723 77302945 0.000000e+00 6505
7 TraesCS4D01G078400 chr4A 88.057 1884 136 39 1609 3451 527010773 527008938 0.000000e+00 2150
8 TraesCS4D01G078400 chr4A 91.491 1328 75 19 1 1321 527013572 527012276 0.000000e+00 1792
9 TraesCS4D01G078400 chr4A 92.800 125 9 0 1392 1516 527011333 527011209 9.350000e-42 182
10 TraesCS4D01G078400 chr4A 94.059 101 5 1 1507 1607 527010909 527010810 7.330000e-33 152
11 TraesCS4D01G078400 chr4A 87.218 133 9 4 3822 3949 527008459 527008330 1.230000e-30 145
12 TraesCS4D01G078400 chrUn 91.500 1353 78 18 1 1347 54310905 54309584 0.000000e+00 1827
13 TraesCS4D01G078400 chrUn 85.255 1119 95 24 2359 3452 54299474 54298401 0.000000e+00 1088
14 TraesCS4D01G078400 chrUn 90.116 779 49 18 1609 2370 54308269 54307502 0.000000e+00 987
15 TraesCS4D01G078400 chrUn 93.600 125 8 0 1392 1516 54308825 54308701 2.010000e-43 187
16 TraesCS4D01G078400 chrUn 89.216 102 6 2 1507 1608 54308401 54308305 5.750000e-24 122


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 TraesCS4D01G078400 chr4D 52619984 52624217 4233 False 7819.00 7819 100.000 1 4234 1 chr4D.!!$F1 4233
1 TraesCS4D01G078400 chr4D 70984276 70988910 4634 False 875.00 1838 91.006 1 3451 5 chr4D.!!$F2 3450
2 TraesCS4D01G078400 chr4B 77298723 77302945 4222 False 6505.00 6505 94.502 1 4231 1 chr4B.!!$F1 4230
3 TraesCS4D01G078400 chr4A 527008330 527013572 5242 True 884.20 2150 90.725 1 3949 5 chr4A.!!$R1 3948
4 TraesCS4D01G078400 chrUn 54298401 54299474 1073 True 1088.00 1088 85.255 2359 3452 1 chrUn.!!$R1 1093
5 TraesCS4D01G078400 chrUn 54307502 54310905 3403 True 780.75 1827 91.108 1 2370 4 chrUn.!!$R2 2369

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
838 852 0.036105 ACGTCTCATGCCAGCAATCA 60.036 50.0 0.00 0.00 0.00 2.57 F
2008 3280 0.335019 TACTCTACTGCAGCAGGGGA 59.665 55.0 26.38 20.23 35.51 4.81 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2425 3712 0.469494 TTGCTCACAGGCAACAGAGA 59.531 50.0 0.00 0.0 45.64 3.10 R
3468 4949 0.242017 GCTCTTGGCATGCTCGTTTT 59.758 50.0 18.92 0.0 41.35 2.43 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
52 54 0.037882 CTGCTCTTCAGCCGAACAGA 60.038 55.000 0.00 0.00 46.26 3.41
62 64 4.574892 TCAGCCGAACAGATTCAACAATA 58.425 39.130 0.00 0.00 34.14 1.90
69 71 3.016031 ACAGATTCAACAATATGCGGCA 58.984 40.909 4.58 4.58 35.00 5.69
198 200 2.339712 CTGGCCACCAAAAAGCGG 59.660 61.111 0.00 0.00 30.80 5.52
378 389 6.407202 ACAAGCGATAATCTGGAAGTTACTT 58.593 36.000 0.00 0.00 33.76 2.24
589 602 0.523966 CCGGAGATGATCGAGTAGCC 59.476 60.000 0.00 0.00 0.00 3.93
602 615 3.954258 TCGAGTAGCCTGATGATCTCAAA 59.046 43.478 0.00 0.00 32.14 2.69
755 768 3.495753 ACTAATGGAAAACCGTCGAACAC 59.504 43.478 0.00 0.00 0.00 3.32
838 852 0.036105 ACGTCTCATGCCAGCAATCA 60.036 50.000 0.00 0.00 0.00 2.57
908 922 4.342665 GGTGGTCCTTATCTTGAGAGGTAG 59.657 50.000 0.00 0.00 32.33 3.18
909 923 4.342665 GTGGTCCTTATCTTGAGAGGTAGG 59.657 50.000 0.00 0.00 32.33 3.18
910 924 4.232122 TGGTCCTTATCTTGAGAGGTAGGA 59.768 45.833 0.00 0.00 32.33 2.94
911 925 4.830600 GGTCCTTATCTTGAGAGGTAGGAG 59.169 50.000 8.11 0.00 32.86 3.69
912 926 5.451354 GTCCTTATCTTGAGAGGTAGGAGT 58.549 45.833 8.11 0.00 32.86 3.85
913 927 6.410621 GGTCCTTATCTTGAGAGGTAGGAGTA 60.411 46.154 8.11 0.00 32.86 2.59
914 928 6.487668 GTCCTTATCTTGAGAGGTAGGAGTAC 59.512 46.154 8.11 0.00 32.86 2.73
957 971 4.032960 TGATGGAAGTATTTGTGCCACT 57.967 40.909 0.00 0.00 0.00 4.00
1014 1028 5.899120 AAGCTGAGATGTTTCTAGTACGA 57.101 39.130 0.00 0.00 30.30 3.43
1380 1557 8.725148 AGTTAATGCTTTATGTTCAGAGACTTG 58.275 33.333 0.00 0.00 0.00 3.16
1430 2349 0.470766 GTGGTGGCGGGGTCATATTA 59.529 55.000 0.00 0.00 0.00 0.98
1476 2395 0.531090 TGTACCACCTGTTGTCGCAC 60.531 55.000 0.00 0.00 0.00 5.34
1516 2435 6.441093 TGGATTTCTGACTTCACATAATGC 57.559 37.500 0.00 0.00 0.00 3.56
1594 2821 6.440052 TGGTAACTATGCATCATTGCCCTTC 61.440 44.000 20.35 3.94 43.13 3.46
1706 2972 9.959749 GTGGTCACTTATGTTTCAAAATTTCTA 57.040 29.630 0.00 0.00 0.00 2.10
1778 3045 5.227184 CGAAAGAAACGGTTATTGCAATAGC 59.773 40.000 21.31 21.31 42.57 2.97
1901 3173 8.827832 ATTGTTGTACTACTATGTACCCACTA 57.172 34.615 8.88 0.00 41.34 2.74
1978 3250 4.882842 TGATAGTAGCAACACCAACTGA 57.117 40.909 0.00 0.00 0.00 3.41
2008 3280 0.335019 TACTCTACTGCAGCAGGGGA 59.665 55.000 26.38 20.23 35.51 4.81
2164 3446 6.372381 TCCATGTGACATGTATTTCTCAGTTG 59.628 38.462 22.62 4.36 0.00 3.16
2216 3499 6.241207 ACGACAGAAATTTGGTTATGTGAG 57.759 37.500 0.00 0.00 0.00 3.51
2242 3525 5.876651 AACTACTATCTGTCATGCATCCA 57.123 39.130 0.00 0.00 0.00 3.41
2346 3629 7.118535 GTGGTTCCTTTTGACAAAGCTTAAAAA 59.881 33.333 0.00 4.45 38.53 1.94
2375 3658 1.458827 CGCTTCTCACAAGCTTCACTC 59.541 52.381 0.00 0.00 40.94 3.51
2378 3661 0.389025 TCTCACAAGCTTCACTCGCA 59.611 50.000 0.00 0.00 0.00 5.10
2537 3825 6.345298 TGAATAACGGAAACTGATGCTATGA 58.655 36.000 0.00 0.00 0.00 2.15
2589 3877 5.745294 GCTTCGTTCAAATGCATTATGTCAT 59.255 36.000 13.39 0.00 0.00 3.06
2593 3881 5.276020 CGTTCAAATGCATTATGTCATGTGC 60.276 40.000 13.39 14.65 38.05 4.57
2644 3932 8.844441 TGCATTACTTGTGTGTTTAGTAAAAC 57.156 30.769 0.00 0.00 44.40 2.43
2672 3960 0.468226 TTGCCAGTCAGTTCGTTCCT 59.532 50.000 0.00 0.00 0.00 3.36
2676 3964 2.031944 GCCAGTCAGTTCGTTCCTTTTC 60.032 50.000 0.00 0.00 0.00 2.29
2690 4142 1.743394 CCTTTTCCCATGCGTACTTCC 59.257 52.381 0.00 0.00 0.00 3.46
2756 4209 3.412386 GTTTTGCTGTCCAGGTACATCT 58.588 45.455 0.00 0.00 0.00 2.90
2957 4418 2.938451 TGCTTGGCATTCTTATGTCTCG 59.062 45.455 0.00 0.00 37.28 4.04
2966 4427 6.252441 GGCATTCTTATGTCTCGAGAATATCG 59.748 42.308 18.55 6.34 42.18 2.92
2994 4456 5.751586 CCTTGTTACCCTACAATACCACAT 58.248 41.667 0.00 0.00 37.39 3.21
3126 4593 6.952938 AGACTCTCTTCATATATCCATGAGCA 59.047 38.462 0.00 0.00 36.34 4.26
3133 4600 4.287845 TCATATATCCATGAGCAAGCACCT 59.712 41.667 0.00 0.00 31.34 4.00
3160 4627 1.508632 ACAGTCAACAAATCGGACCG 58.491 50.000 7.84 7.84 31.99 4.79
3284 4751 6.291377 CCTAGCATGTTCCTGTACATACATT 58.709 40.000 12.91 5.87 36.64 2.71
3285 4752 6.203530 CCTAGCATGTTCCTGTACATACATTG 59.796 42.308 12.91 10.62 36.64 2.82
3286 4753 5.744171 AGCATGTTCCTGTACATACATTGA 58.256 37.500 12.91 0.00 36.64 2.57
3287 4754 6.359804 AGCATGTTCCTGTACATACATTGAT 58.640 36.000 12.91 7.46 36.64 2.57
3288 4755 7.508687 AGCATGTTCCTGTACATACATTGATA 58.491 34.615 12.91 0.00 36.64 2.15
3289 4756 7.442364 AGCATGTTCCTGTACATACATTGATAC 59.558 37.037 12.91 4.74 36.64 2.24
3290 4757 7.226523 GCATGTTCCTGTACATACATTGATACA 59.773 37.037 12.91 2.94 36.64 2.29
3291 4758 9.276590 CATGTTCCTGTACATACATTGATACAT 57.723 33.333 12.91 4.62 36.64 2.29
3292 4759 8.661352 TGTTCCTGTACATACATTGATACATG 57.339 34.615 0.00 0.00 35.36 3.21
3293 4760 7.714813 TGTTCCTGTACATACATTGATACATGG 59.285 37.037 0.00 0.00 35.36 3.66
3433 4914 7.063074 ACTGATAGTGTTTGTAATTGTACGCTC 59.937 37.037 0.00 0.00 33.74 5.03
3468 4949 0.031515 TATGGCCTTCTTCGAGGGGA 60.032 55.000 3.32 0.00 37.29 4.81
3476 4957 0.037605 TCTTCGAGGGGAAAACGAGC 60.038 55.000 0.00 0.00 37.36 5.03
3506 4987 2.687700 CTGAGCAGCTGTGGACTATT 57.312 50.000 16.64 0.00 0.00 1.73
3837 5426 0.548031 TGGAACATCATCCCTCCTGC 59.452 55.000 0.00 0.00 38.82 4.85
3994 5590 5.981915 TGACGAAGAATATCAGCAGATCAAG 59.018 40.000 0.00 0.00 35.67 3.02
3997 5593 5.634439 CGAAGAATATCAGCAGATCAAGGAG 59.366 44.000 0.00 0.00 35.67 3.69
4003 5599 3.706183 TCAGCAGATCAAGGAGAAGAGA 58.294 45.455 0.00 0.00 0.00 3.10
4004 5600 3.700539 TCAGCAGATCAAGGAGAAGAGAG 59.299 47.826 0.00 0.00 0.00 3.20
4005 5601 3.033184 AGCAGATCAAGGAGAAGAGAGG 58.967 50.000 0.00 0.00 0.00 3.69
4006 5602 3.030291 GCAGATCAAGGAGAAGAGAGGA 58.970 50.000 0.00 0.00 0.00 3.71
4008 5604 4.262164 GCAGATCAAGGAGAAGAGAGGATC 60.262 50.000 0.00 0.00 0.00 3.36
4056 5652 7.092137 TCGAAGGAATCAAGACGAACTATAA 57.908 36.000 0.00 0.00 0.00 0.98
4192 5788 6.635755 AGAGGAAAACTATTACAGAGCTCAC 58.364 40.000 17.77 0.00 0.00 3.51
4215 5811 3.716006 CCACTCACGGCGTGCAAG 61.716 66.667 33.59 27.46 32.98 4.01
4226 5822 4.043200 GTGCAAGCCGGGCTGAAC 62.043 66.667 24.63 17.00 39.62 3.18
4227 5823 4.269523 TGCAAGCCGGGCTGAACT 62.270 61.111 24.63 3.14 39.62 3.01
4228 5824 3.741476 GCAAGCCGGGCTGAACTG 61.741 66.667 24.63 17.94 39.62 3.16
4229 5825 2.281761 CAAGCCGGGCTGAACTGT 60.282 61.111 24.63 1.78 39.62 3.55
4230 5826 1.003839 CAAGCCGGGCTGAACTGTA 60.004 57.895 24.63 0.00 39.62 2.74
4231 5827 1.003718 AAGCCGGGCTGAACTGTAC 60.004 57.895 24.63 0.00 39.62 2.90
4232 5828 1.481056 AAGCCGGGCTGAACTGTACT 61.481 55.000 24.63 0.00 39.62 2.73
4233 5829 1.448013 GCCGGGCTGAACTGTACTC 60.448 63.158 12.87 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 1.980765 AGCAGTCCCAATCTCAACTGA 59.019 47.619 5.59 0.00 41.26 3.41
52 54 3.193267 ACAAGTGCCGCATATTGTTGAAT 59.807 39.130 16.88 0.38 32.10 2.57
62 64 0.321919 ATCTGACACAAGTGCCGCAT 60.322 50.000 0.00 0.00 0.00 4.73
69 71 5.233083 TCTTCATTCCATCTGACACAAGT 57.767 39.130 0.00 0.00 0.00 3.16
544 555 7.094762 GGAGTTCAGAACGATTTGGATAAACTT 60.095 37.037 7.68 0.00 36.23 2.66
589 602 9.909644 ATTTTGTTTTCTCTTTGAGATCATCAG 57.090 29.630 0.00 0.00 38.56 2.90
602 615 6.294473 TCAGCTCTGAGATTTTGTTTTCTCT 58.706 36.000 9.28 0.00 39.30 3.10
838 852 1.822990 CAAGCTGAGCATTCCCATTGT 59.177 47.619 7.39 0.00 0.00 2.71
908 922 3.300388 TCTGATCACTGATGGGTACTCC 58.700 50.000 0.00 0.00 0.00 3.85
909 923 5.536538 TGTATCTGATCACTGATGGGTACTC 59.463 44.000 7.53 0.00 36.41 2.59
910 924 5.458595 TGTATCTGATCACTGATGGGTACT 58.541 41.667 7.53 0.00 36.41 2.73
911 925 5.791336 TGTATCTGATCACTGATGGGTAC 57.209 43.478 7.53 1.73 36.41 3.34
912 926 7.071071 TCAATTGTATCTGATCACTGATGGGTA 59.929 37.037 5.13 0.00 36.41 3.69
913 927 5.901413 ATTGTATCTGATCACTGATGGGT 57.099 39.130 7.53 0.00 36.41 4.51
914 928 6.293698 TCAATTGTATCTGATCACTGATGGG 58.706 40.000 5.13 0.00 36.41 4.00
915 929 7.094762 CCATCAATTGTATCTGATCACTGATGG 60.095 40.741 23.89 23.89 40.91 3.51
916 930 7.660208 TCCATCAATTGTATCTGATCACTGATG 59.340 37.037 19.16 19.16 36.41 3.07
917 931 7.742767 TCCATCAATTGTATCTGATCACTGAT 58.257 34.615 5.13 0.00 38.10 2.90
918 932 7.128234 TCCATCAATTGTATCTGATCACTGA 57.872 36.000 5.13 0.00 29.69 3.41
919 933 7.498239 ACTTCCATCAATTGTATCTGATCACTG 59.502 37.037 5.13 0.00 29.69 3.66
920 934 7.571919 ACTTCCATCAATTGTATCTGATCACT 58.428 34.615 5.13 0.00 29.69 3.41
921 935 7.798596 ACTTCCATCAATTGTATCTGATCAC 57.201 36.000 5.13 0.00 29.69 3.06
964 978 3.885724 TGACTGAACTCTGACAACACA 57.114 42.857 0.00 0.00 0.00 3.72
1014 1028 7.836685 TCTCTAGTACAAGAGAATCCATCTGTT 59.163 37.037 1.16 0.00 47.00 3.16
1116 1131 7.539712 TTTCTTCAACAGTAAGACAGTCTTG 57.460 36.000 23.92 12.01 37.29 3.02
1380 1557 5.953183 TGTGACAAAATCATGATGTAAGGC 58.047 37.500 9.46 3.01 40.28 4.35
1430 2349 6.430000 AGGTTCTAAATAAGTTTGATGCGTGT 59.570 34.615 0.00 0.00 0.00 4.49
1476 2395 7.012515 CAGAAATCCAAGAGATCCAAGATTGAG 59.987 40.741 0.00 0.00 32.47 3.02
1706 2972 3.809832 CGATGAAGGACAGTTCAGTTTGT 59.190 43.478 0.00 0.00 39.78 2.83
1778 3045 6.212235 CAGACTCAGCTACACTATTATGTGG 58.788 44.000 0.00 0.00 41.84 4.17
1908 3180 8.096414 ACATTCCCATTAATTCAAAGAAGTTGG 58.904 33.333 0.00 0.00 37.85 3.77
1978 3250 2.417924 GCAGTAGAGTATGCTGTGCTGT 60.418 50.000 22.21 0.00 45.70 4.40
2008 3280 9.218440 CTTGCAAAAATTAACCTACCATTGAAT 57.782 29.630 0.00 0.00 0.00 2.57
2216 3499 7.710907 TGGATGCATGACAGATAGTAGTTTTAC 59.289 37.037 2.46 0.00 0.00 2.01
2242 3525 2.441750 TGGCTTCCTTGAAACAGGTACT 59.558 45.455 0.00 0.00 43.88 2.73
2316 3599 5.598417 AGCTTTGTCAAAAGGAACCACTTAT 59.402 36.000 0.00 0.00 42.66 1.73
2346 3629 4.537015 GCTTGTGAGAAGCGTTTGTATTT 58.463 39.130 0.00 0.00 33.20 1.40
2347 3630 4.147219 GCTTGTGAGAAGCGTTTGTATT 57.853 40.909 0.00 0.00 33.20 1.89
2348 3631 3.813529 GCTTGTGAGAAGCGTTTGTAT 57.186 42.857 0.00 0.00 33.20 2.29
2375 3658 3.187432 TGGTGTGTATACAAACATGTGCG 59.813 43.478 24.33 0.00 38.82 5.34
2378 3661 7.620880 AGTAGATGGTGTGTATACAAACATGT 58.379 34.615 24.33 19.00 38.82 3.21
2420 3707 3.672808 CTCACAGGCAACAGAGAAAGAT 58.327 45.455 0.00 0.00 41.41 2.40
2425 3712 0.469494 TTGCTCACAGGCAACAGAGA 59.531 50.000 0.00 0.00 45.64 3.10
2537 3825 2.223876 CCAGCAAAGCAGACAAACATGT 60.224 45.455 0.00 0.00 0.00 3.21
2589 3877 3.004210 TGCTCAAAAGATAAAAGCGCACA 59.996 39.130 11.47 0.00 35.74 4.57
2593 3881 3.163594 CGGTGCTCAAAAGATAAAAGCG 58.836 45.455 0.00 0.00 35.74 4.68
2644 3932 4.553547 CGAACTGACTGGCAAGAAAGAAAG 60.554 45.833 0.00 0.00 0.00 2.62
2672 3960 2.570415 TGGAAGTACGCATGGGAAAA 57.430 45.000 17.76 0.00 0.00 2.29
2676 3964 5.084818 TGATATATGGAAGTACGCATGGG 57.915 43.478 8.44 8.44 0.00 4.00
2907 4360 5.958380 ACAGGATGAGGTACTGACATAAGAA 59.042 40.000 0.00 0.00 41.74 2.52
2957 4418 2.246719 ACAAGGCCAGCGATATTCTC 57.753 50.000 5.01 0.00 0.00 2.87
2966 4427 0.326927 TGTAGGGTAACAAGGCCAGC 59.673 55.000 5.01 0.00 39.74 4.85
2994 4456 1.964891 GTCAGCAGCAGAGCAAGCA 60.965 57.895 0.00 0.00 35.04 3.91
3133 4600 2.136298 TTTGTTGACTGTTGGGAGCA 57.864 45.000 0.00 0.00 0.00 4.26
3140 4607 1.871039 CGGTCCGATTTGTTGACTGTT 59.129 47.619 4.91 0.00 32.06 3.16
3284 4751 9.936329 TTATCTATGTATAGAGCCCATGTATCA 57.064 33.333 7.57 0.00 42.20 2.15
3286 4753 9.148879 GGTTATCTATGTATAGAGCCCATGTAT 57.851 37.037 7.57 0.00 42.20 2.29
3287 4754 8.344546 AGGTTATCTATGTATAGAGCCCATGTA 58.655 37.037 7.57 0.00 42.20 2.29
3288 4755 7.192628 AGGTTATCTATGTATAGAGCCCATGT 58.807 38.462 7.57 0.00 42.20 3.21
3289 4756 7.201956 GGAGGTTATCTATGTATAGAGCCCATG 60.202 44.444 7.57 0.00 42.20 3.66
3290 4757 6.841755 GGAGGTTATCTATGTATAGAGCCCAT 59.158 42.308 7.57 0.00 42.20 4.00
3291 4758 6.010650 AGGAGGTTATCTATGTATAGAGCCCA 60.011 42.308 7.57 0.00 42.20 5.36
3292 4759 6.436890 AGGAGGTTATCTATGTATAGAGCCC 58.563 44.000 7.57 6.86 42.20 5.19
3293 4760 7.837187 AGAAGGAGGTTATCTATGTATAGAGCC 59.163 40.741 7.57 8.88 42.20 4.70
3371 4839 2.291741 CTGTCAGGTCAAAAAGTCTGCC 59.708 50.000 0.00 0.00 0.00 4.85
3428 4909 7.254795 GCCATATACTGTTGATTTAAAGAGCGT 60.255 37.037 0.00 0.00 0.00 5.07
3433 4914 9.125026 AGAAGGCCATATACTGTTGATTTAAAG 57.875 33.333 5.01 0.00 0.00 1.85
3468 4949 0.242017 GCTCTTGGCATGCTCGTTTT 59.758 50.000 18.92 0.00 41.35 2.43
3476 4957 2.099143 CTGCTCAGCTCTTGGCATG 58.901 57.895 0.00 0.00 44.79 4.06
3506 4987 9.021807 GGCTCCTGTAATACATAGATAACACTA 57.978 37.037 6.99 0.00 0.00 2.74
3776 5287 5.163290 TGGGTATTTATCACTCGTGGCAATA 60.163 40.000 0.00 0.00 0.00 1.90
3899 5490 5.104982 AGGATTCTGAATCTTCCTCTGTGAC 60.105 44.000 24.96 8.12 33.22 3.67
3994 5590 4.567747 CCCTAGCTAGATCCTCTCTTCTCC 60.568 54.167 22.70 0.00 35.28 3.71
3997 5593 4.382386 ACCCTAGCTAGATCCTCTCTTC 57.618 50.000 22.70 0.00 35.28 2.87
4003 5599 1.866943 TCCCAACCCTAGCTAGATCCT 59.133 52.381 22.70 0.69 0.00 3.24
4004 5600 2.252714 CTCCCAACCCTAGCTAGATCC 58.747 57.143 22.70 0.00 0.00 3.36
4005 5601 1.621317 GCTCCCAACCCTAGCTAGATC 59.379 57.143 22.70 0.00 33.40 2.75
4006 5602 1.062121 TGCTCCCAACCCTAGCTAGAT 60.062 52.381 22.70 6.99 37.16 1.98
4008 5604 0.466124 GTGCTCCCAACCCTAGCTAG 59.534 60.000 14.20 14.20 37.16 3.42
4009 5605 0.981277 GGTGCTCCCAACCCTAGCTA 60.981 60.000 0.00 0.00 37.16 3.32
4010 5606 2.301738 GGTGCTCCCAACCCTAGCT 61.302 63.158 0.00 0.00 37.16 3.32
4011 5607 2.272471 GGTGCTCCCAACCCTAGC 59.728 66.667 0.00 0.00 36.77 3.42
4012 5608 0.909610 TCTGGTGCTCCCAACCCTAG 60.910 60.000 1.59 0.00 44.65 3.02
4013 5609 0.253160 ATCTGGTGCTCCCAACCCTA 60.253 55.000 1.59 0.00 44.65 3.53
4014 5610 1.542375 ATCTGGTGCTCCCAACCCT 60.542 57.895 1.59 0.00 44.65 4.34
4056 5652 6.792473 TGGGTGGTTCCTCTGATAATATACAT 59.208 38.462 0.00 0.00 36.25 2.29
4137 5733 0.179004 TTGGTGGCAACGTTCAGGAT 60.179 50.000 0.00 0.00 42.51 3.24
4209 5805 4.043200 GTTCAGCCCGGCTTGCAC 62.043 66.667 9.99 2.75 36.40 4.57
4215 5811 1.448013 GAGTACAGTTCAGCCCGGC 60.448 63.158 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.