Multiple sequence alignment - TraesCS3A01G243200

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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 TraesCS3A01G243200 chr3A 100.000 3129 0 0 1 3129 456774697 456777825 0.000000e+00 5779.0
1 TraesCS3A01G243200 chr3A 90.190 316 27 3 154 467 481633202 481632889 2.900000e-110 409.0
2 TraesCS3A01G243200 chr3A 90.190 316 28 3 154 467 481636608 481636294 2.900000e-110 409.0
3 TraesCS3A01G243200 chr3A 91.250 160 14 0 1 160 649018071 649017912 5.250000e-53 219.0
4 TraesCS3A01G243200 chr3B 92.513 2364 106 27 806 3126 436739701 436742036 0.000000e+00 3319.0
5 TraesCS3A01G243200 chr3B 96.226 53 2 0 769 821 436734247 436734299 1.550000e-13 87.9
6 TraesCS3A01G243200 chr3D 92.389 1892 90 18 1271 3126 338489888 338491761 0.000000e+00 2647.0
7 TraesCS3A01G243200 chr3D 93.159 497 13 5 765 1244 338489401 338489893 0.000000e+00 710.0
8 TraesCS3A01G243200 chr3D 91.720 157 13 0 1 157 299119294 299119450 5.250000e-53 219.0
9 TraesCS3A01G243200 chr1A 90.317 630 38 9 158 766 513362507 513363134 0.000000e+00 804.0
10 TraesCS3A01G243200 chr5B 87.304 638 52 16 155 766 546413532 546414166 0.000000e+00 702.0
11 TraesCS3A01G243200 chr5B 94.257 296 12 3 154 447 526188856 526188564 6.160000e-122 448.0
12 TraesCS3A01G243200 chr5B 82.621 351 33 14 436 766 526178958 526178616 5.110000e-73 285.0
13 TraesCS3A01G243200 chr6D 92.405 158 12 0 1 158 97578848 97578691 3.140000e-55 226.0
14 TraesCS3A01G243200 chr6D 79.574 235 46 2 535 767 347404649 347404415 1.930000e-37 167.0
15 TraesCS3A01G243200 chr6A 92.308 156 12 0 1 156 346594852 346594697 4.060000e-54 222.0
16 TraesCS3A01G243200 chr2A 91.824 159 13 0 1 159 737478048 737477890 4.060000e-54 222.0
17 TraesCS3A01G243200 chr7D 90.854 164 15 0 1 164 373383419 373383582 1.460000e-53 220.0
18 TraesCS3A01G243200 chrUn 91.720 157 13 0 1 157 115400884 115400728 5.250000e-53 219.0
19 TraesCS3A01G243200 chrUn 81.702 235 40 3 535 767 15537701 15537934 3.180000e-45 193.0
20 TraesCS3A01G243200 chrUn 81.277 235 42 2 535 767 255483069 255483303 4.120000e-44 189.0
21 TraesCS3A01G243200 chrUn 80.932 236 40 5 535 767 222059244 222059477 6.890000e-42 182.0
22 TraesCS3A01G243200 chrUn 80.932 236 40 5 535 767 396710072 396709839 6.890000e-42 182.0
23 TraesCS3A01G243200 chrUn 80.932 236 40 5 535 767 396711645 396711412 6.890000e-42 182.0
24 TraesCS3A01G243200 chrUn 80.932 236 40 5 535 767 468513556 468513789 6.890000e-42 182.0
25 TraesCS3A01G243200 chrUn 80.365 219 38 4 551 766 40744701 40744485 8.980000e-36 161.0
26 TraesCS3A01G243200 chr2D 89.474 171 18 0 1 171 13523247 13523077 1.890000e-52 217.0
27 TraesCS3A01G243200 chr1D 91.195 159 14 0 1 159 405055145 405054987 1.890000e-52 217.0
28 TraesCS3A01G243200 chr7B 80.870 230 33 11 543 766 721496940 721496716 1.490000e-38 171.0


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 TraesCS3A01G243200 chr3A 456774697 456777825 3128 False 5779.0 5779 100.000 1 3129 1 chr3A.!!$F1 3128
1 TraesCS3A01G243200 chr3A 481632889 481636608 3719 True 409.0 409 90.190 154 467 2 chr3A.!!$R2 313
2 TraesCS3A01G243200 chr3B 436739701 436742036 2335 False 3319.0 3319 92.513 806 3126 1 chr3B.!!$F2 2320
3 TraesCS3A01G243200 chr3D 338489401 338491761 2360 False 1678.5 2647 92.774 765 3126 2 chr3D.!!$F2 2361
4 TraesCS3A01G243200 chr1A 513362507 513363134 627 False 804.0 804 90.317 158 766 1 chr1A.!!$F1 608
5 TraesCS3A01G243200 chr5B 546413532 546414166 634 False 702.0 702 87.304 155 766 1 chr5B.!!$F1 611

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
544 550 0.600255 GTGCAACGCCTAGACACTGT 60.600 55.0 0.0 0.0 0.0 3.55 F
1231 1411 0.103390 TCAAGGTTTCGTCGCTGTCA 59.897 50.0 0.0 0.0 0.0 3.58 F
1966 2418 0.104934 AGACCCTCAACACCCTCACT 60.105 55.0 0.0 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1996 2448 0.323360 TAACCTTGGTGAGCATGGCC 60.323 55.000 15.43 0.0 0.00 5.36 R
2032 2484 0.660595 CGACAGTCGCGAAGAACACT 60.661 55.000 12.06 0.0 31.14 3.55 R
2956 3968 1.602165 CGCACGTACCACAAGAGAACT 60.602 52.381 0.00 0.0 0.00 3.01 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
26 27 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
97 98 9.678260 AGAGTATAGATTCACTCATTTTGCTTT 57.322 29.630 4.70 0.00 42.99 3.51
98 99 9.713740 GAGTATAGATTCACTCATTTTGCTTTG 57.286 33.333 0.00 0.00 40.74 2.77
99 100 9.236006 AGTATAGATTCACTCATTTTGCTTTGT 57.764 29.630 0.00 0.00 0.00 2.83
103 104 7.889469 AGATTCACTCATTTTGCTTTGTATGT 58.111 30.769 0.00 0.00 0.00 2.29
104 105 9.013229 AGATTCACTCATTTTGCTTTGTATGTA 57.987 29.630 0.00 0.00 0.00 2.29
105 106 9.282247 GATTCACTCATTTTGCTTTGTATGTAG 57.718 33.333 0.00 0.00 0.00 2.74
106 107 7.744087 TCACTCATTTTGCTTTGTATGTAGT 57.256 32.000 0.00 0.00 0.00 2.73
107 108 7.806690 TCACTCATTTTGCTTTGTATGTAGTC 58.193 34.615 0.00 0.00 0.00 2.59
108 109 7.443879 TCACTCATTTTGCTTTGTATGTAGTCA 59.556 33.333 0.00 0.00 0.00 3.41
109 110 7.535258 CACTCATTTTGCTTTGTATGTAGTCAC 59.465 37.037 0.00 0.00 0.00 3.67
110 111 7.445402 ACTCATTTTGCTTTGTATGTAGTCACT 59.555 33.333 0.00 0.00 0.00 3.41
111 112 8.165239 TCATTTTGCTTTGTATGTAGTCACTT 57.835 30.769 0.00 0.00 0.00 3.16
112 113 9.278978 TCATTTTGCTTTGTATGTAGTCACTTA 57.721 29.630 0.00 0.00 0.00 2.24
115 116 9.891828 TTTTGCTTTGTATGTAGTCACTTATTG 57.108 29.630 0.00 0.00 0.00 1.90
116 117 8.840833 TTGCTTTGTATGTAGTCACTTATTGA 57.159 30.769 0.00 0.00 0.00 2.57
117 118 8.840833 TGCTTTGTATGTAGTCACTTATTGAA 57.159 30.769 0.00 0.00 35.39 2.69
118 119 9.278978 TGCTTTGTATGTAGTCACTTATTGAAA 57.721 29.630 0.00 0.00 35.39 2.69
119 120 9.543018 GCTTTGTATGTAGTCACTTATTGAAAC 57.457 33.333 0.00 0.00 35.39 2.78
121 122 9.787435 TTTGTATGTAGTCACTTATTGAAACCT 57.213 29.630 0.00 0.00 35.39 3.50
339 341 1.072331 ACAGTGTGTCATGGGTTCCTC 59.928 52.381 0.00 0.00 0.00 3.71
358 360 3.760151 CCTCAGATTTTTGTCTGGCATCA 59.240 43.478 4.28 0.00 44.51 3.07
389 391 1.939934 GTGTGCTGTGTAAAGCTGTGA 59.060 47.619 0.00 0.00 43.90 3.58
394 396 2.878406 GCTGTGTAAAGCTGTGAGGAAA 59.122 45.455 0.00 0.00 40.20 3.13
544 550 0.600255 GTGCAACGCCTAGACACTGT 60.600 55.000 0.00 0.00 0.00 3.55
547 553 1.067776 GCAACGCCTAGACACTGTAGT 60.068 52.381 0.00 0.00 0.00 2.73
580 655 1.217882 GCGTTGCACACTGACTTAGT 58.782 50.000 0.00 0.00 41.36 2.24
587 662 6.356977 CGTTGCACACTGACTTAGTAATTTTG 59.643 38.462 0.00 0.00 37.60 2.44
591 667 5.473504 CACACTGACTTAGTAATTTTGGGCT 59.526 40.000 0.00 0.00 37.60 5.19
607 683 2.645567 CTGTCTGAGGTGCGACGT 59.354 61.111 0.00 0.00 32.93 4.34
632 708 2.427812 TCAGGTGTGTAACGTCTGTCAA 59.572 45.455 0.00 0.00 42.39 3.18
638 714 4.986659 GTGTGTAACGTCTGTCAATTAGGT 59.013 41.667 0.00 0.00 42.39 3.08
645 721 4.081642 ACGTCTGTCAATTAGGTGCTACAT 60.082 41.667 0.00 0.00 0.00 2.29
647 723 6.040247 CGTCTGTCAATTAGGTGCTACATAA 58.960 40.000 0.00 0.00 0.00 1.90
882 960 2.876645 CGTGCGTCGCTTCCTCTC 60.877 66.667 19.50 0.00 0.00 3.20
883 961 2.569134 GTGCGTCGCTTCCTCTCT 59.431 61.111 19.50 0.00 0.00 3.10
1229 1409 1.148310 CATCAAGGTTTCGTCGCTGT 58.852 50.000 0.00 0.00 0.00 4.40
1231 1411 0.103390 TCAAGGTTTCGTCGCTGTCA 59.897 50.000 0.00 0.00 0.00 3.58
1285 1466 0.811616 CCCTTGTACCATCGCTGCTC 60.812 60.000 0.00 0.00 0.00 4.26
1295 1476 2.907897 ATCGCTGCTCTTACCCGTGC 62.908 60.000 0.00 0.00 0.00 5.34
1312 1493 2.095768 CGTGCAATCGTGTGAGGAAATT 60.096 45.455 0.00 0.00 0.00 1.82
1317 1498 4.034510 GCAATCGTGTGAGGAAATTAGAGG 59.965 45.833 0.00 0.00 0.00 3.69
1374 1568 3.937706 AGGATTGAAATGAAGAGAGTGCG 59.062 43.478 0.00 0.00 0.00 5.34
1396 1590 6.072452 TGCGTATCTCTCTGACCTATATGTTG 60.072 42.308 0.00 0.00 0.00 3.33
1417 1619 2.287547 GGTGTTTCGTACCACGTGACTA 60.288 50.000 19.30 2.71 43.14 2.59
1534 1737 7.573968 ATCCATCTACTTAGCAAATCCAAAC 57.426 36.000 0.00 0.00 0.00 2.93
1635 1852 1.726853 ATCAGCAGTTTACTGACGCC 58.273 50.000 13.83 0.00 46.38 5.68
1637 1854 0.666274 CAGCAGTTTACTGACGCCGA 60.666 55.000 13.83 0.00 46.59 5.54
1737 1954 0.179065 GCACCGGTACCTTCCATACC 60.179 60.000 6.87 0.00 39.05 2.73
1795 2012 6.126768 CCCCCTCTCTCATTGATAACTAACAA 60.127 42.308 0.00 0.00 0.00 2.83
1966 2418 0.104934 AGACCCTCAACACCCTCACT 60.105 55.000 0.00 0.00 0.00 3.41
1996 2448 1.558756 AGGAGGAACATCAAGAGGCAG 59.441 52.381 0.00 0.00 0.00 4.85
2032 2484 1.480954 GTTAGCGGGAGGAATGACTCA 59.519 52.381 0.00 0.00 39.27 3.41
2035 2487 0.460987 GCGGGAGGAATGACTCAGTG 60.461 60.000 0.00 0.00 39.27 3.66
2080 2532 4.569023 CTCGTGCCGCCTATCGCA 62.569 66.667 0.00 0.00 37.30 5.10
2130 2582 0.807496 GTCCAGCTCTTGCCATGAAC 59.193 55.000 0.00 0.00 40.80 3.18
2160 2612 5.998363 GGTTTTTAGTGGTCATCTTCAGACT 59.002 40.000 0.00 0.00 36.29 3.24
2265 2717 8.902806 CATGTAGGTTTTTATCCATTAAGCAGA 58.097 33.333 0.00 0.00 0.00 4.26
2281 2733 7.734924 TTAAGCAGAAGATATGGCATAAGTG 57.265 36.000 11.86 6.02 0.00 3.16
2339 2879 6.152831 ACAATATTAAACTCAACAAGGAGGGC 59.847 38.462 0.00 0.00 39.27 5.19
2345 2885 1.615392 CTCAACAAGGAGGGCCAAAAG 59.385 52.381 6.18 0.00 36.29 2.27
2359 2900 4.381612 GGGCCAAAAGTAAGAATTAGCACC 60.382 45.833 4.39 0.00 0.00 5.01
2365 2906 6.870971 AAAGTAAGAATTAGCACCGTGAAA 57.129 33.333 1.65 0.00 0.00 2.69
2366 2907 7.448748 AAAGTAAGAATTAGCACCGTGAAAT 57.551 32.000 1.65 0.00 0.00 2.17
2367 2908 6.422776 AGTAAGAATTAGCACCGTGAAATG 57.577 37.500 1.65 0.00 0.00 2.32
2368 2909 5.938125 AGTAAGAATTAGCACCGTGAAATGT 59.062 36.000 1.65 0.00 0.00 2.71
2369 2910 5.705609 AAGAATTAGCACCGTGAAATGTT 57.294 34.783 1.65 0.00 0.00 2.71
2370 2911 5.046910 AGAATTAGCACCGTGAAATGTTG 57.953 39.130 1.65 0.00 0.00 3.33
2373 2914 2.364311 GCACCGTGAAATGTTGCGC 61.364 57.895 0.00 0.00 0.00 6.09
2403 2944 9.918630 CTTTGATATTGACAACCTGAAGAAATT 57.081 29.630 0.00 0.00 0.00 1.82
2444 3209 3.073062 AGACTACAGGTGCATTTCAACCT 59.927 43.478 0.00 0.00 30.95 3.50
2824 3836 5.855045 GGATAGGTCCTGTGATTATCGTTT 58.145 41.667 0.00 0.00 41.60 3.60
2833 3845 6.070995 TCCTGTGATTATCGTTTGGTCTTAGT 60.071 38.462 0.00 0.00 0.00 2.24
2849 3861 0.395311 TAGTTGCTCGACCGGGAGAT 60.395 55.000 6.32 0.00 36.08 2.75
2953 3965 0.973632 TCCAAAGGCTCACGCTCTTA 59.026 50.000 0.00 0.00 36.09 2.10
2956 3968 0.321671 AAAGGCTCACGCTCTTAGCA 59.678 50.000 0.00 0.00 42.58 3.49
2964 3976 2.558795 TCACGCTCTTAGCAGTTCTCTT 59.441 45.455 0.00 0.00 42.58 2.85
2992 4004 2.052690 GCGGAGGCCAGAGTAGACA 61.053 63.158 5.01 0.00 0.00 3.41
3086 4879 5.026121 TGACACCTCTGTAGAGATGGAAAT 58.974 41.667 10.40 0.00 40.06 2.17
3126 4926 8.950210 AGGTATGAACTTTGTATGAAACATGAG 58.050 33.333 0.00 0.00 38.10 2.90
3127 4927 8.946085 GGTATGAACTTTGTATGAAACATGAGA 58.054 33.333 0.00 0.00 38.10 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
71 72 9.678260 AAAGCAAAATGAGTGAATCTATACTCT 57.322 29.630 0.00 0.00 42.86 3.24
72 73 9.713740 CAAAGCAAAATGAGTGAATCTATACTC 57.286 33.333 0.00 0.00 42.77 2.59
73 74 9.236006 ACAAAGCAAAATGAGTGAATCTATACT 57.764 29.630 0.00 0.00 0.00 2.12
77 78 9.013229 ACATACAAAGCAAAATGAGTGAATCTA 57.987 29.630 0.00 0.00 0.00 1.98
78 79 7.889469 ACATACAAAGCAAAATGAGTGAATCT 58.111 30.769 0.00 0.00 0.00 2.40
79 80 9.282247 CTACATACAAAGCAAAATGAGTGAATC 57.718 33.333 0.00 0.00 0.00 2.52
80 81 8.796475 ACTACATACAAAGCAAAATGAGTGAAT 58.204 29.630 0.00 0.00 0.00 2.57
81 82 8.165239 ACTACATACAAAGCAAAATGAGTGAA 57.835 30.769 0.00 0.00 0.00 3.18
82 83 7.443879 TGACTACATACAAAGCAAAATGAGTGA 59.556 33.333 0.00 0.00 0.00 3.41
83 84 7.535258 GTGACTACATACAAAGCAAAATGAGTG 59.465 37.037 0.00 0.00 0.00 3.51
84 85 7.445402 AGTGACTACATACAAAGCAAAATGAGT 59.555 33.333 0.00 0.00 0.00 3.41
85 86 7.810658 AGTGACTACATACAAAGCAAAATGAG 58.189 34.615 0.00 0.00 0.00 2.90
86 87 7.744087 AGTGACTACATACAAAGCAAAATGA 57.256 32.000 0.00 0.00 0.00 2.57
89 90 9.891828 CAATAAGTGACTACATACAAAGCAAAA 57.108 29.630 0.00 0.00 0.00 2.44
90 91 9.278978 TCAATAAGTGACTACATACAAAGCAAA 57.721 29.630 0.00 0.00 0.00 3.68
91 92 8.840833 TCAATAAGTGACTACATACAAAGCAA 57.159 30.769 0.00 0.00 0.00 3.91
92 93 8.840833 TTCAATAAGTGACTACATACAAAGCA 57.159 30.769 0.00 0.00 35.39 3.91
93 94 9.543018 GTTTCAATAAGTGACTACATACAAAGC 57.457 33.333 0.00 0.00 35.39 3.51
95 96 9.787435 AGGTTTCAATAAGTGACTACATACAAA 57.213 29.630 0.00 0.00 35.39 2.83
152 153 6.595682 CATGATGGGGAAAGAGTGTAATACT 58.404 40.000 0.00 0.00 44.02 2.12
153 154 5.239525 GCATGATGGGGAAAGAGTGTAATAC 59.760 44.000 0.00 0.00 0.00 1.89
154 155 5.104151 TGCATGATGGGGAAAGAGTGTAATA 60.104 40.000 0.00 0.00 0.00 0.98
155 156 4.210331 GCATGATGGGGAAAGAGTGTAAT 58.790 43.478 0.00 0.00 0.00 1.89
156 157 3.010027 TGCATGATGGGGAAAGAGTGTAA 59.990 43.478 0.00 0.00 0.00 2.41
339 341 5.475719 ACAATGATGCCAGACAAAAATCTG 58.524 37.500 0.00 0.00 44.91 2.90
358 360 2.224606 CACAGCACACAAGGAGACAAT 58.775 47.619 0.00 0.00 0.00 2.71
394 396 2.683768 CTATGAGGCCCTAGGACACTT 58.316 52.381 11.48 2.76 29.21 3.16
544 550 3.278668 ACGCCTAAGAGCTAGACACTA 57.721 47.619 0.00 0.00 0.00 2.74
547 553 1.135083 GCAACGCCTAAGAGCTAGACA 60.135 52.381 0.00 0.00 0.00 3.41
548 554 1.135083 TGCAACGCCTAAGAGCTAGAC 60.135 52.381 0.00 0.00 0.00 2.59
549 555 1.135083 GTGCAACGCCTAAGAGCTAGA 60.135 52.381 0.00 0.00 0.00 2.43
580 655 3.420893 CACCTCAGACAGCCCAAAATTA 58.579 45.455 0.00 0.00 0.00 1.40
587 662 3.695606 TCGCACCTCAGACAGCCC 61.696 66.667 0.00 0.00 0.00 5.19
591 667 1.007734 GAACGTCGCACCTCAGACA 60.008 57.895 0.00 0.00 37.23 3.41
607 683 1.677576 AGACGTTACACACCTGACGAA 59.322 47.619 1.50 0.00 38.74 3.85
645 721 2.380941 TCTAGGCGCCACACTACATTA 58.619 47.619 31.54 7.71 0.00 1.90
647 723 1.069204 CATCTAGGCGCCACACTACAT 59.931 52.381 31.54 7.63 0.00 2.29
702 779 7.877003 TCACAAAGTGAACTGTTACTGAAAAA 58.123 30.769 0.00 0.00 39.78 1.94
882 960 2.954753 GCTTCGCGTTCCACCACAG 61.955 63.158 5.77 0.00 0.00 3.66
883 961 2.970324 GCTTCGCGTTCCACCACA 60.970 61.111 5.77 0.00 0.00 4.17
904 982 2.689983 CAATGGGCTGTGGTAGGAATTC 59.310 50.000 0.00 0.00 0.00 2.17
911 989 2.045438 CGGCAATGGGCTGTGGTA 60.045 61.111 0.00 0.00 44.22 3.25
1229 1409 1.271543 CCACCAGGTGCAGAAATCTGA 60.272 52.381 14.98 0.00 46.59 3.27
1231 1411 0.610232 GCCACCAGGTGCAGAAATCT 60.610 55.000 14.98 0.00 37.19 2.40
1295 1476 4.034510 GCCTCTAATTTCCTCACACGATTG 59.965 45.833 0.00 0.00 0.00 2.67
1312 1493 1.211969 GTCTCGTTGTGCGCCTCTA 59.788 57.895 4.18 0.00 41.07 2.43
1317 1498 3.764049 GACCGTCTCGTTGTGCGC 61.764 66.667 0.00 0.00 41.07 6.09
1374 1568 7.231722 ACACCAACATATAGGTCAGAGAGATAC 59.768 40.741 0.00 0.00 35.52 2.24
1396 1590 0.854705 GTCACGTGGTACGAAACACC 59.145 55.000 17.00 0.00 46.05 4.16
1410 1612 7.170998 ACAAACTACTGGATTTCTTTAGTCACG 59.829 37.037 0.00 0.00 0.00 4.35
1417 1619 8.641498 ATCATCACAAACTACTGGATTTCTTT 57.359 30.769 0.00 0.00 0.00 2.52
1495 1698 4.205587 AGATGGATTTAAAGCCTCTGCAG 58.794 43.478 22.32 7.63 41.13 4.41
1637 1854 5.461032 AGAAACTTCAGAAGACGAGATGT 57.539 39.130 17.56 0.00 0.00 3.06
1668 1885 1.007118 TCCAGGAGATCCAGCTGTGTA 59.993 52.381 13.81 0.00 38.89 2.90
1675 1892 1.134461 CAGTTGCTCCAGGAGATCCAG 60.134 57.143 21.89 2.48 38.89 3.86
1737 1954 6.381801 GTGAAGGAAGTATGGTGATTTTGTG 58.618 40.000 0.00 0.00 0.00 3.33
1795 2012 2.779430 TGAGCATGAGGGGATGTAATGT 59.221 45.455 0.00 0.00 0.00 2.71
1966 2418 2.381752 TGTTCCTCCTCTGTGAGACA 57.618 50.000 0.00 0.00 34.11 3.41
1978 2430 2.016096 GCCTGCCTCTTGATGTTCCTC 61.016 57.143 0.00 0.00 0.00 3.71
1996 2448 0.323360 TAACCTTGGTGAGCATGGCC 60.323 55.000 15.43 0.00 0.00 5.36
2032 2484 0.660595 CGACAGTCGCGAAGAACACT 60.661 55.000 12.06 0.00 31.14 3.55
2035 2487 1.371389 ACCGACAGTCGCGAAGAAC 60.371 57.895 18.02 0.00 38.82 3.01
2130 2582 5.316987 AGATGACCACTAAAAACCTCTTGG 58.683 41.667 0.00 0.00 39.83 3.61
2237 2689 6.923508 GCTTAATGGATAAAAACCTACATGCC 59.076 38.462 0.00 0.00 0.00 4.40
2265 2717 8.850156 GGATAAAACACACTTATGCCATATCTT 58.150 33.333 0.00 0.00 0.00 2.40
2281 2733 5.417580 TCCTTGTGGCTAATGGATAAAACAC 59.582 40.000 0.00 0.00 0.00 3.32
2339 2879 5.180492 TCACGGTGCTAATTCTTACTTTTGG 59.820 40.000 2.51 0.00 0.00 3.28
2345 2885 6.178239 ACATTTCACGGTGCTAATTCTTAC 57.822 37.500 2.51 0.00 0.00 2.34
2359 2900 3.425136 CGTGCGCAACATTTCACG 58.575 55.556 14.00 4.72 44.62 4.35
2365 2906 0.801872 TATCAAAGCGTGCGCAACAT 59.198 45.000 14.00 0.00 44.88 2.71
2366 2907 0.801872 ATATCAAAGCGTGCGCAACA 59.198 45.000 14.00 0.00 44.88 3.33
2367 2908 1.578915 CAATATCAAAGCGTGCGCAAC 59.421 47.619 14.00 7.82 44.88 4.17
2368 2909 1.466558 TCAATATCAAAGCGTGCGCAA 59.533 42.857 14.00 0.00 44.88 4.85
2369 2910 1.082690 TCAATATCAAAGCGTGCGCA 58.917 45.000 18.87 5.66 44.88 6.09
2370 2911 1.202020 TGTCAATATCAAAGCGTGCGC 60.202 47.619 8.67 8.67 42.33 6.09
2373 2914 4.154015 TCAGGTTGTCAATATCAAAGCGTG 59.846 41.667 0.00 0.00 0.00 5.34
2444 3209 9.784531 AGAAATTATCAGAAGTTTCAGAACTGA 57.215 29.630 0.00 0.00 45.18 3.41
2595 3363 8.292448 CAGCTTTTATACTTGTGTTGAGATTGT 58.708 33.333 0.00 0.00 0.00 2.71
2833 3845 1.945354 GACATCTCCCGGTCGAGCAA 61.945 60.000 15.89 0.00 0.00 3.91
2849 3861 3.054875 AGCTACATGATCAAGCAAGGACA 60.055 43.478 17.82 0.00 38.75 4.02
2953 3965 1.687123 ACGTACCACAAGAGAACTGCT 59.313 47.619 0.00 0.00 0.00 4.24
2956 3968 1.602165 CGCACGTACCACAAGAGAACT 60.602 52.381 0.00 0.00 0.00 3.01
2964 3976 4.367023 GCCTCCGCACGTACCACA 62.367 66.667 0.00 0.00 34.03 4.17
3022 4034 3.003173 TTCCACTGGCTCCTCGGG 61.003 66.667 0.00 0.00 0.00 5.14
3086 4879 3.459828 TCATACCTGAACCTGAATCCCA 58.540 45.455 0.00 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.