Multiple sequence alignment - TraesCS7A01G243100

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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 TraesCS7A01G243100 chr7A 100.000 3405 0 0 1 3405 218266670 218263266 0.000000e+00 6288.0
1 TraesCS7A01G243100 chr7B 93.502 2724 122 17 137 2834 196275681 196278375 0.000000e+00 3999.0
2 TraesCS7A01G243100 chr7B 95.580 362 16 0 3044 3405 196278734 196279095 6.330000e-162 580.0
3 TraesCS7A01G243100 chr7B 100.000 28 0 0 2979 3006 196278713 196278740 6.000000e-03 52.8
4 TraesCS7A01G243100 chr7D 94.313 2110 84 12 100 2203 205954982 205952903 0.000000e+00 3199.0
5 TraesCS7A01G243100 chr7D 94.074 810 35 6 2187 2984 205951118 205950310 0.000000e+00 1218.0
6 TraesCS7A01G243100 chr7D 95.550 427 19 0 2979 3405 205950027 205949601 0.000000e+00 684.0
7 TraesCS7A01G243100 chrUn 92.740 427 31 0 2979 3405 214044523 214044097 4.830000e-173 617.0
8 TraesCS7A01G243100 chrUn 92.740 427 31 0 2979 3405 240300562 240300988 4.830000e-173 617.0
9 TraesCS7A01G243100 chrUn 91.569 427 36 0 2979 3405 45772963 45772537 1.050000e-164 590.0
10 TraesCS7A01G243100 chrUn 88.705 363 34 4 2622 2978 45773614 45773253 1.450000e-118 436.0
11 TraesCS7A01G243100 chrUn 92.419 277 21 0 2702 2978 214045089 214044813 2.460000e-106 396.0
12 TraesCS7A01G243100 chrUn 92.419 277 21 0 2702 2978 240299996 240300272 2.460000e-106 396.0
13 TraesCS7A01G243100 chr3D 91.569 427 36 0 2979 3405 592868444 592868018 1.050000e-164 590.0
14 TraesCS7A01G243100 chr3D 91.569 427 36 0 2979 3405 592874185 592873759 1.050000e-164 590.0
15 TraesCS7A01G243100 chr3D 88.705 363 34 4 2622 2978 592869095 592868734 1.450000e-118 436.0
16 TraesCS7A01G243100 chr3D 88.705 363 34 4 2622 2978 592874836 592874475 1.450000e-118 436.0
17 TraesCS7A01G243100 chr2A 78.436 422 83 7 2979 3396 764770931 764771348 5.600000e-68 268.0


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 TraesCS7A01G243100 chr7A 218263266 218266670 3404 True 6288.000000 6288 100.000000 1 3405 1 chr7A.!!$R1 3404
1 TraesCS7A01G243100 chr7B 196275681 196279095 3414 False 1543.933333 3999 96.360667 137 3405 3 chr7B.!!$F1 3268
2 TraesCS7A01G243100 chr7D 205949601 205954982 5381 True 1700.333333 3199 94.645667 100 3405 3 chr7D.!!$R1 3305
3 TraesCS7A01G243100 chrUn 45772537 45773614 1077 True 513.000000 590 90.137000 2622 3405 2 chrUn.!!$R1 783
4 TraesCS7A01G243100 chrUn 214044097 214045089 992 True 506.500000 617 92.579500 2702 3405 2 chrUn.!!$R2 703
5 TraesCS7A01G243100 chrUn 240299996 240300988 992 False 506.500000 617 92.579500 2702 3405 2 chrUn.!!$F1 703
6 TraesCS7A01G243100 chr3D 592868018 592869095 1077 True 513.000000 590 90.137000 2622 3405 2 chr3D.!!$R1 783
7 TraesCS7A01G243100 chr3D 592873759 592874836 1077 True 513.000000 590 90.137000 2622 3405 2 chr3D.!!$R2 783

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
559 567 0.109039 TCGTTGGCGTCATCATTCGA 60.109 50.000 0.00 0.0 39.49 3.71 F
796 811 0.390860 CGCCATAGTCCTTCAGAGGG 59.609 60.000 0.00 0.0 43.72 4.30 F
972 994 1.476891 CTAACTCTCCTTGCGGCACTA 59.523 52.381 0.05 0.0 0.00 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1658 1680 1.250328 CTCAACCTCAATTGGCAGCA 58.750 50.000 5.42 0.0 0.00 4.41 R
1795 1817 2.338809 TCCAACCTCCAACAGAGTCAT 58.661 47.619 0.00 0.0 41.47 3.06 R
2880 4724 2.034558 GCCAAAGAAGTTGCAGCAGTAA 59.965 45.455 2.55 0.0 35.74 2.24 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
41 42 2.187946 CCTTAGTGGGCCTGCGAG 59.812 66.667 4.53 0.00 0.00 5.03
42 43 2.359169 CCTTAGTGGGCCTGCGAGA 61.359 63.158 4.53 0.00 0.00 4.04
43 44 1.142748 CTTAGTGGGCCTGCGAGAG 59.857 63.158 4.53 0.00 0.00 3.20
55 56 2.811317 CGAGAGCACCTGTTCGGC 60.811 66.667 0.00 0.00 35.61 5.54
56 57 2.435059 GAGAGCACCTGTTCGGCC 60.435 66.667 0.00 0.00 35.61 6.13
57 58 3.959991 GAGAGCACCTGTTCGGCCC 62.960 68.421 0.00 0.00 35.61 5.80
58 59 4.329545 GAGCACCTGTTCGGCCCA 62.330 66.667 0.00 0.00 35.61 5.36
59 60 4.335647 AGCACCTGTTCGGCCCAG 62.336 66.667 0.00 0.00 35.61 4.45
74 75 3.322466 CAGCCCAGGGGTCGTCTT 61.322 66.667 7.44 0.00 37.65 3.01
75 76 3.322466 AGCCCAGGGGTCGTCTTG 61.322 66.667 3.52 0.00 37.65 3.02
77 78 4.410400 CCCAGGGGTCGTCTTGCC 62.410 72.222 0.00 0.00 0.00 4.52
78 79 4.410400 CCAGGGGTCGTCTTGCCC 62.410 72.222 0.00 0.00 44.09 5.36
79 80 3.322466 CAGGGGTCGTCTTGCCCT 61.322 66.667 0.00 0.00 44.25 5.19
80 81 3.322466 AGGGGTCGTCTTGCCCTG 61.322 66.667 0.00 0.00 44.25 4.45
82 83 4.021925 GGGTCGTCTTGCCCTGCT 62.022 66.667 0.00 0.00 41.63 4.24
83 84 2.435059 GGTCGTCTTGCCCTGCTC 60.435 66.667 0.00 0.00 0.00 4.26
84 85 2.811317 GTCGTCTTGCCCTGCTCG 60.811 66.667 0.00 0.00 0.00 5.03
85 86 4.742201 TCGTCTTGCCCTGCTCGC 62.742 66.667 0.00 0.00 0.00 5.03
104 105 4.054455 GAGCACGAACGCGCGAAA 62.054 61.111 39.36 0.00 42.48 3.46
105 106 4.349871 AGCACGAACGCGCGAAAC 62.350 61.111 39.36 23.85 42.48 2.78
186 187 4.263572 CTCCGGCACCCACAACCA 62.264 66.667 0.00 0.00 0.00 3.67
288 289 2.100631 CCACCACTGAACGCCGATC 61.101 63.158 0.00 0.00 0.00 3.69
318 319 1.060937 CATTCACTTACGCGCCAGC 59.939 57.895 5.73 0.00 40.74 4.85
372 373 1.686355 AAAATTCACTCGTGCCCACA 58.314 45.000 0.00 0.00 0.00 4.17
460 462 9.494479 CTACACAATATTGCTTTATCAAGTGTG 57.506 33.333 15.48 4.74 39.91 3.82
506 513 2.076863 CAGACGGGGTCATTTCTTCAC 58.923 52.381 0.00 0.00 34.60 3.18
540 548 4.635765 ACGCATGATACAGTTTGCATAACT 59.364 37.500 0.00 8.03 34.80 2.24
557 565 1.359848 ACTCGTTGGCGTCATCATTC 58.640 50.000 0.00 0.00 39.49 2.67
559 567 0.109039 TCGTTGGCGTCATCATTCGA 60.109 50.000 0.00 0.00 39.49 3.71
561 569 3.614673 TCGTTGGCGTCATCATTCGATG 61.615 50.000 0.00 0.00 42.60 3.84
594 602 9.158233 CACAAGGATGCAATTTTAGAATGAATT 57.842 29.630 0.00 0.00 0.00 2.17
616 624 4.098914 TGCCTTTTCCTGCTAAGAAAGA 57.901 40.909 0.00 0.00 34.84 2.52
622 630 8.088365 GCCTTTTCCTGCTAAGAAAGAAAATAA 58.912 33.333 0.00 0.00 36.25 1.40
693 708 9.289303 CAATTACATAATTCTTGTGCTGTTACC 57.711 33.333 4.62 0.00 33.88 2.85
709 724 4.388229 CCGTGTTACATGGTGCCA 57.612 55.556 15.05 0.00 35.92 4.92
796 811 0.390860 CGCCATAGTCCTTCAGAGGG 59.609 60.000 0.00 0.00 43.72 4.30
841 856 2.711009 TGTACCATGATGAATCCCCTCC 59.289 50.000 0.00 0.00 0.00 4.30
907 929 6.896883 TCACTGGAATCATCATCTGAATCTT 58.103 36.000 0.00 0.00 37.44 2.40
908 930 7.344134 TCACTGGAATCATCATCTGAATCTTT 58.656 34.615 0.00 0.00 37.44 2.52
972 994 1.476891 CTAACTCTCCTTGCGGCACTA 59.523 52.381 0.05 0.00 0.00 2.74
983 1005 2.778299 TGCGGCACTATTTTGACTTCT 58.222 42.857 0.00 0.00 0.00 2.85
1034 1056 2.414559 CGTTGATGATTGGTGAGTTGCC 60.415 50.000 0.00 0.00 0.00 4.52
1085 1107 1.750206 GACCTTCGGAGAGTACCTTCC 59.250 57.143 0.00 3.66 38.43 3.46
1113 1135 2.281070 CCTTCGATCGCCCCCATG 60.281 66.667 11.09 0.00 0.00 3.66
1114 1136 2.974698 CTTCGATCGCCCCCATGC 60.975 66.667 11.09 0.00 0.00 4.06
1276 1298 3.057969 AGCAGCACTGTAAGCACATTA 57.942 42.857 0.00 0.00 37.60 1.90
1319 1341 9.107177 GTGAGATGAGATAGTGAATCAATTTGT 57.893 33.333 0.00 0.00 37.03 2.83
1517 1539 6.066032 TCCTTAGTTTGGAACTTTTGGTAGG 58.934 40.000 0.00 0.00 42.81 3.18
1560 1582 2.604686 TGCCGAGAGAAGCCTGGT 60.605 61.111 0.00 0.00 0.00 4.00
1667 1689 4.888326 TTTACCATTTCTTGCTGCCAAT 57.112 36.364 0.00 0.00 0.00 3.16
1668 1690 4.888326 TTACCATTTCTTGCTGCCAATT 57.112 36.364 0.00 0.00 0.00 2.32
1669 1691 3.048337 ACCATTTCTTGCTGCCAATTG 57.952 42.857 0.00 0.00 0.00 2.32
1670 1692 2.633967 ACCATTTCTTGCTGCCAATTGA 59.366 40.909 7.12 0.00 0.00 2.57
1671 1693 3.259064 CCATTTCTTGCTGCCAATTGAG 58.741 45.455 7.12 0.00 0.00 3.02
1672 1694 3.259064 CATTTCTTGCTGCCAATTGAGG 58.741 45.455 7.12 0.00 0.00 3.86
1673 1695 1.999648 TTCTTGCTGCCAATTGAGGT 58.000 45.000 7.12 0.00 0.00 3.85
1715 1737 7.418025 GCCTAGACTATGTCTGGACTTTATTGT 60.418 40.741 11.71 0.00 42.49 2.71
1716 1738 9.132923 CCTAGACTATGTCTGGACTTTATTGTA 57.867 37.037 11.71 0.00 42.49 2.41
1719 1741 9.201989 AGACTATGTCTGGACTTTATTGTATCA 57.798 33.333 0.00 0.00 41.76 2.15
1720 1742 9.988815 GACTATGTCTGGACTTTATTGTATCAT 57.011 33.333 2.38 0.00 0.00 2.45
1784 1806 6.477688 TCAACGGATATTACGAAATGGAAGTC 59.522 38.462 7.62 0.00 34.93 3.01
1795 1817 3.788227 AATGGAAGTCCTGCTGTTGTA 57.212 42.857 0.00 0.00 36.82 2.41
1799 1821 3.003480 GGAAGTCCTGCTGTTGTATGAC 58.997 50.000 0.00 0.00 0.00 3.06
1810 1832 4.248859 CTGTTGTATGACTCTGTTGGAGG 58.751 47.826 0.00 0.00 45.83 4.30
1845 1867 4.557899 ATGTTTGGGGGATATCCATTGT 57.442 40.909 23.27 0.00 37.91 2.71
2034 2059 4.580580 ACTATAGCAAAAGCTGGCATAACC 59.419 41.667 0.00 0.00 39.84 2.85
2333 4166 5.712152 AACTGTTCTTCTATTTTGGCAGG 57.288 39.130 0.00 0.00 0.00 4.85
2350 4183 4.161565 TGGCAGGTACACGATAAATCTCTT 59.838 41.667 0.00 0.00 0.00 2.85
2540 4373 5.970317 TGTCGATTACTGAAACCTGTCTA 57.030 39.130 0.00 0.00 0.00 2.59
2690 4534 5.911178 TGAAGGGGATATCAATCAGGTTACT 59.089 40.000 4.83 0.00 33.41 2.24
2809 4653 6.257630 GTGTATTGTTTTCCACAGTTTGCATT 59.742 34.615 0.00 0.00 36.48 3.56
2875 4719 6.325919 TCACCCTTTAAACTTAAGCACATG 57.674 37.500 1.29 0.00 0.00 3.21
2951 4795 4.681744 CTGGTCTAGCATCTCAAAGAGTC 58.318 47.826 0.00 0.00 0.00 3.36
2962 4806 6.459066 CATCTCAAAGAGTCTGTCTTGGTTA 58.541 40.000 0.00 0.00 45.44 2.85
3031 5164 4.998051 TGAGGTTTCAAGGGCTATTCTTT 58.002 39.130 0.00 0.00 0.00 2.52
3045 5178 5.723295 GCTATTCTTTGCCAATCTTTCCAA 58.277 37.500 0.00 0.00 0.00 3.53
3118 5339 5.524511 TGAAATGAATTCGTAGACCAACG 57.475 39.130 0.00 0.00 41.18 4.10
3157 5378 2.037641 AGGCAACATCCAAAAAGCTTCC 59.962 45.455 0.00 0.00 41.41 3.46
3289 5510 8.160765 TGTCAGATAAAATCCCTTTGTAGACAA 58.839 33.333 0.00 0.00 33.87 3.18
3314 5535 1.002011 GGCCTCCACCTCCAAGTTC 60.002 63.158 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 2.187946 CTCGCAGGCCCACTAAGG 59.812 66.667 0.00 0.00 37.03 2.69
25 26 1.142748 CTCTCGCAGGCCCACTAAG 59.857 63.158 0.00 0.00 0.00 2.18
26 27 3.019003 GCTCTCGCAGGCCCACTAA 62.019 63.158 0.00 0.00 35.78 2.24
27 28 3.461773 GCTCTCGCAGGCCCACTA 61.462 66.667 0.00 0.00 35.78 2.74
36 37 2.049156 CGAACAGGTGCTCTCGCA 60.049 61.111 0.00 0.00 45.60 5.10
37 38 2.811317 CCGAACAGGTGCTCTCGC 60.811 66.667 0.00 0.00 34.51 5.03
38 39 2.811317 GCCGAACAGGTGCTCTCG 60.811 66.667 0.00 0.00 43.70 4.04
39 40 2.435059 GGCCGAACAGGTGCTCTC 60.435 66.667 0.00 0.00 43.70 3.20
40 41 4.021925 GGGCCGAACAGGTGCTCT 62.022 66.667 0.00 0.00 43.70 4.09
41 42 4.329545 TGGGCCGAACAGGTGCTC 62.330 66.667 0.00 0.00 43.70 4.26
42 43 4.335647 CTGGGCCGAACAGGTGCT 62.336 66.667 0.00 0.00 43.70 4.40
57 58 3.322466 AAGACGACCCCTGGGCTG 61.322 66.667 7.39 1.00 39.32 4.85
58 59 3.322466 CAAGACGACCCCTGGGCT 61.322 66.667 7.39 0.00 39.32 5.19
60 61 4.410400 GGCAAGACGACCCCTGGG 62.410 72.222 5.50 5.50 42.03 4.45
61 62 4.410400 GGGCAAGACGACCCCTGG 62.410 72.222 0.00 0.00 40.56 4.45
67 68 2.811317 CGAGCAGGGCAAGACGAC 60.811 66.667 0.00 0.00 0.00 4.34
68 69 4.742201 GCGAGCAGGGCAAGACGA 62.742 66.667 0.00 0.00 0.00 4.20
87 88 4.054455 TTTCGCGCGTTCGTGCTC 62.054 61.111 30.98 2.01 45.09 4.26
88 89 4.349871 GTTTCGCGCGTTCGTGCT 62.350 61.111 30.98 0.00 45.09 4.40
90 91 3.609422 GAGGTTTCGCGCGTTCGTG 62.609 63.158 30.98 0.00 46.68 4.35
91 92 3.400590 GAGGTTTCGCGCGTTCGT 61.401 61.111 30.98 20.69 38.14 3.85
92 93 4.130281 GGAGGTTTCGCGCGTTCG 62.130 66.667 30.98 3.37 39.07 3.95
93 94 3.785499 GGGAGGTTTCGCGCGTTC 61.785 66.667 30.98 19.66 0.00 3.95
100 101 4.814294 CGGCGAGGGGAGGTTTCG 62.814 72.222 0.00 0.00 37.40 3.46
288 289 0.107017 AGTGAATGCTTCCATCCCGG 60.107 55.000 0.00 0.00 0.00 5.73
318 319 1.078918 TTCATCTGCAGTCTGGCGG 60.079 57.895 14.67 0.00 41.61 6.13
325 326 5.401750 AGATAGGATACCTTCATCTGCAGT 58.598 41.667 14.67 0.00 30.36 4.40
356 357 0.615331 ATCTGTGGGCACGAGTGAAT 59.385 50.000 7.50 0.00 0.00 2.57
360 361 0.972983 AGCTATCTGTGGGCACGAGT 60.973 55.000 0.00 0.00 0.00 4.18
372 373 8.738645 ATTTTACTCGGATTTTCAAGCTATCT 57.261 30.769 0.00 0.00 0.00 1.98
460 462 3.552478 GCCGTAGCTATAGGGTGAAGAAC 60.552 52.174 16.76 0.00 38.87 3.01
506 513 4.620982 TGTATCATGCGTAGGATTGACAG 58.379 43.478 5.87 0.00 35.32 3.51
540 548 0.109039 TCGAATGATGACGCCAACGA 60.109 50.000 0.00 0.00 43.93 3.85
557 565 4.122046 TGCATCCTTGTGATAGTTCATCG 58.878 43.478 0.00 0.00 36.33 3.84
559 567 7.414222 AAATTGCATCCTTGTGATAGTTCAT 57.586 32.000 0.00 0.00 33.56 2.57
561 569 8.677300 TCTAAAATTGCATCCTTGTGATAGTTC 58.323 33.333 0.00 0.00 30.56 3.01
568 576 8.712285 ATTCATTCTAAAATTGCATCCTTGTG 57.288 30.769 0.00 0.00 0.00 3.33
594 602 4.469657 TCTTTCTTAGCAGGAAAAGGCAA 58.530 39.130 0.00 0.00 33.17 4.52
616 624 9.435688 GCACTACCCAAAATTCAGAATTATTTT 57.564 29.630 8.88 0.00 35.05 1.82
622 630 7.014615 GGATATGCACTACCCAAAATTCAGAAT 59.985 37.037 0.00 0.00 0.00 2.40
633 641 2.082140 ACGAGGATATGCACTACCCA 57.918 50.000 0.00 0.00 0.00 4.51
639 647 4.054780 TGAGGTTTACGAGGATATGCAC 57.945 45.455 0.00 0.00 0.00 4.57
693 708 0.516877 CACTGGCACCATGTAACACG 59.483 55.000 0.00 0.00 0.00 4.49
709 724 3.527507 TCCAGTTCTGTAGAGGACACT 57.472 47.619 0.42 0.00 33.31 3.55
841 856 0.107508 ACAGATGAGGGGTTGATGCG 60.108 55.000 0.00 0.00 0.00 4.73
972 994 5.059833 GGAGTGTCTGTGAGAAGTCAAAAT 58.940 41.667 0.00 0.00 33.27 1.82
983 1005 0.603065 CATCGGTGGAGTGTCTGTGA 59.397 55.000 0.00 0.00 0.00 3.58
1034 1056 0.736053 CTCCGACTTCTCTTCCGAGG 59.264 60.000 0.00 0.00 37.86 4.63
1050 1072 1.003233 GGTCTGCCCACTGAACTCC 60.003 63.158 0.00 0.00 0.00 3.85
1085 1107 0.460987 GATCGAAGGGACACCAGCTG 60.461 60.000 6.78 6.78 40.13 4.24
1319 1341 0.766131 ACACAATAACACGGGGTGGA 59.234 50.000 0.00 0.00 37.94 4.02
1421 1443 6.071560 GCCCAAAGTTTTATTACAGCCTAGTT 60.072 38.462 0.00 0.00 0.00 2.24
1560 1582 4.832266 ACCCAACAGCAAATAATCAACTCA 59.168 37.500 0.00 0.00 0.00 3.41
1650 1672 3.259064 CTCAATTGGCAGCAAGAAATGG 58.741 45.455 5.42 0.00 0.00 3.16
1658 1680 1.250328 CTCAACCTCAATTGGCAGCA 58.750 50.000 5.42 0.00 0.00 4.41
1667 1689 5.307196 GGCTACTATAATCCCTCAACCTCAA 59.693 44.000 0.00 0.00 0.00 3.02
1668 1690 4.838986 GGCTACTATAATCCCTCAACCTCA 59.161 45.833 0.00 0.00 0.00 3.86
1669 1691 5.088026 AGGCTACTATAATCCCTCAACCTC 58.912 45.833 0.00 0.00 0.00 3.85
1670 1692 5.094569 AGGCTACTATAATCCCTCAACCT 57.905 43.478 0.00 0.00 0.00 3.50
1671 1693 6.153170 GTCTAGGCTACTATAATCCCTCAACC 59.847 46.154 0.00 0.00 0.00 3.77
1672 1694 6.949463 AGTCTAGGCTACTATAATCCCTCAAC 59.051 42.308 0.00 0.00 0.00 3.18
1673 1695 7.104974 AGTCTAGGCTACTATAATCCCTCAA 57.895 40.000 0.00 0.00 0.00 3.02
1715 1737 4.751600 GCACTGCTAGCACATACAATGATA 59.248 41.667 14.93 0.00 0.00 2.15
1716 1738 3.562973 GCACTGCTAGCACATACAATGAT 59.437 43.478 14.93 0.00 0.00 2.45
1717 1739 2.938451 GCACTGCTAGCACATACAATGA 59.062 45.455 14.93 0.00 0.00 2.57
1718 1740 2.679336 TGCACTGCTAGCACATACAATG 59.321 45.455 14.93 3.88 37.02 2.82
1719 1741 2.989909 TGCACTGCTAGCACATACAAT 58.010 42.857 14.93 0.00 37.02 2.71
1720 1742 2.470983 TGCACTGCTAGCACATACAA 57.529 45.000 14.93 0.00 37.02 2.41
1721 1743 2.696989 ATGCACTGCTAGCACATACA 57.303 45.000 14.93 10.23 45.95 2.29
1722 1744 6.159293 TCTTATATGCACTGCTAGCACATAC 58.841 40.000 22.01 10.73 45.95 2.39
1723 1745 6.345096 TCTTATATGCACTGCTAGCACATA 57.655 37.500 21.88 21.88 45.95 2.29
1784 1806 3.325293 ACAGAGTCATACAACAGCAGG 57.675 47.619 0.00 0.00 0.00 4.85
1795 1817 2.338809 TCCAACCTCCAACAGAGTCAT 58.661 47.619 0.00 0.00 41.47 3.06
1799 1821 2.619074 GGGATTCCAACCTCCAACAGAG 60.619 54.545 4.80 0.00 42.83 3.35
1826 1848 3.909732 TGACAATGGATATCCCCCAAAC 58.090 45.455 19.34 7.07 37.22 2.93
1845 1867 7.556635 TGAGTTTCTCGTAATCTTCCTAGATGA 59.443 37.037 0.00 0.00 35.87 2.92
2034 2059 5.066375 TGTGTTGATGGTGAACTCTGAAAAG 59.934 40.000 0.00 0.00 0.00 2.27
2141 2166 7.180079 GGTCAAGATACAACATAATTGTGTCG 58.820 38.462 8.40 0.00 42.76 4.35
2333 4166 7.988904 AACTAGCAAGAGATTTATCGTGTAC 57.011 36.000 0.00 0.00 32.13 2.90
2350 4183 4.680407 TCCTTCCTAGGTGTAAACTAGCA 58.320 43.478 9.08 0.00 42.60 3.49
2414 4247 8.988060 TGTATATATTTTCAGAAGGAGACCACA 58.012 33.333 0.00 0.00 0.00 4.17
2423 4256 9.261180 ACGACCACATGTATATATTTTCAGAAG 57.739 33.333 0.00 0.00 0.00 2.85
2498 4331 9.638239 ATCGACAATTATTTTTAGTTTGCACAT 57.362 25.926 0.00 0.00 0.00 3.21
2499 4332 9.469807 AATCGACAATTATTTTTAGTTTGCACA 57.530 25.926 0.00 0.00 0.00 4.57
2560 4393 6.767524 ACTTGGTTTCAGTAAATTGTCACA 57.232 33.333 0.00 0.00 0.00 3.58
2619 4457 2.619074 CCCCTTCCTGCCTCAGTAAAAG 60.619 54.545 0.00 0.00 0.00 2.27
2667 4510 6.043243 TCAGTAACCTGATTGATATCCCCTTC 59.957 42.308 0.00 0.00 42.80 3.46
2670 4513 5.280215 CCTCAGTAACCTGATTGATATCCCC 60.280 48.000 0.00 0.00 46.38 4.81
2850 4694 6.969993 TGTGCTTAAGTTTAAAGGGTGAAT 57.030 33.333 4.02 0.00 0.00 2.57
2875 4719 3.134458 AGAAGTTGCAGCAGTAACACTC 58.866 45.455 12.29 8.10 42.04 3.51
2880 4724 2.034558 GCCAAAGAAGTTGCAGCAGTAA 59.965 45.455 2.55 0.00 35.74 2.24
2951 4795 3.390135 TCTTGCGAGTTAACCAAGACAG 58.610 45.455 16.93 2.94 39.80 3.51
2962 4806 3.064545 GCTGCTTATTCATCTTGCGAGTT 59.935 43.478 0.00 0.00 0.00 3.01
3035 5168 4.946157 CACTATCAGTGCCTTGGAAAGATT 59.054 41.667 0.00 0.00 42.59 2.40
3043 5176 2.625737 CACTCCACTATCAGTGCCTTG 58.374 52.381 0.64 0.00 44.63 3.61
3134 5355 3.391506 AGCTTTTTGGATGTTGCCTTC 57.608 42.857 0.00 0.00 0.00 3.46
3138 5359 2.037641 AGGGAAGCTTTTTGGATGTTGC 59.962 45.455 0.00 0.00 0.00 4.17
3157 5378 3.703001 AGTGAACCACAGGAATGTAGG 57.297 47.619 0.00 0.00 36.74 3.18
3212 5433 9.525409 CAAAAGTTGAAATTCAGAGAGAAACAT 57.475 29.630 0.00 0.00 40.22 2.71
3229 5450 4.644234 TGCCATCAAGAAGTCAAAAGTTGA 59.356 37.500 0.00 0.00 37.33 3.18
3314 5535 2.631418 TAAGTTTGACGAGGCTCGAG 57.369 50.000 40.35 15.76 43.74 4.04


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

AutoCloner maintained by Alex Coulton.