Multiple sequence alignment - TraesCS7B01G154800

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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 TraesCS7B01G154800 chr7B 100.000 6617 0 0 1 6617 206517669 206511053 0.000000e+00 12220.0
1 TraesCS7B01G154800 chr7B 92.422 4104 274 17 1656 5745 209645902 209641822 0.000000e+00 5821.0
2 TraesCS7B01G154800 chr7B 97.019 3019 70 4 830 3834 209148668 209145656 0.000000e+00 5059.0
3 TraesCS7B01G154800 chr7B 91.860 2506 171 13 3253 5745 209323942 209321457 0.000000e+00 3467.0
4 TraesCS7B01G154800 chr7B 91.929 1908 93 28 4525 6398 209141575 209139695 0.000000e+00 2614.0
5 TraesCS7B01G154800 chr7B 96.716 609 12 7 2 608 209149790 209149188 0.000000e+00 1007.0
6 TraesCS7B01G154800 chr7B 84.240 717 55 25 941 1622 206344189 206343496 0.000000e+00 645.0
7 TraesCS7B01G154800 chr7B 82.535 710 82 24 939 1626 209646690 209646001 2.660000e-163 586.0
8 TraesCS7B01G154800 chr7B 79.501 722 124 16 3864 4578 206341633 206340929 5.960000e-135 492.0
9 TraesCS7B01G154800 chr7B 94.595 296 11 5 326 619 206345875 206345583 2.810000e-123 453.0
10 TraesCS7B01G154800 chr7B 94.662 281 10 5 341 619 206345056 206344779 1.320000e-116 431.0
11 TraesCS7B01G154800 chr7B 91.331 323 8 2 618 940 209148970 209148668 2.210000e-114 424.0
12 TraesCS7B01G154800 chr7B 89.362 329 13 8 618 929 206344729 206344406 1.730000e-105 394.0
13 TraesCS7B01G154800 chr7B 82.745 255 37 6 4626 4875 209139505 209139253 3.110000e-53 220.0
14 TraesCS7B01G154800 chr7B 86.705 173 15 7 190 359 209137881 209137714 1.130000e-42 185.0
15 TraesCS7B01G154800 chr7B 88.435 147 15 2 5108 5254 209139190 209139046 6.820000e-40 176.0
16 TraesCS7B01G154800 chr7B 93.220 118 8 0 812 929 206344409 206344292 2.450000e-39 174.0
17 TraesCS7B01G154800 chr7D 95.381 6040 163 35 618 6617 234561519 234555556 0.000000e+00 9502.0
18 TraesCS7B01G154800 chr7D 92.544 4104 268 16 1656 5745 234654574 234650495 0.000000e+00 5849.0
19 TraesCS7B01G154800 chr7D 83.449 719 56 27 939 1622 234355434 234354744 1.580000e-170 610.0
20 TraesCS7B01G154800 chr7D 87.034 563 34 22 78 625 234562108 234561570 3.410000e-167 599.0
21 TraesCS7B01G154800 chr7D 78.670 722 130 16 3864 4578 234352880 234352176 6.050000e-125 459.0
22 TraesCS7B01G154800 chr7D 89.329 328 14 7 618 929 234355945 234355623 6.220000e-105 392.0
23 TraesCS7B01G154800 chr7D 84.765 361 13 10 265 619 234356322 234355998 2.300000e-84 324.0
24 TraesCS7B01G154800 chr7D 94.118 68 4 0 812 879 234355626 234355559 3.260000e-18 104.0
25 TraesCS7B01G154800 chr7A 95.837 4516 113 20 1608 6095 248936706 248941174 0.000000e+00 7228.0
26 TraesCS7B01G154800 chr7A 92.633 3054 209 10 1656 4707 249282447 249279408 0.000000e+00 4379.0
27 TraesCS7B01G154800 chr7A 92.984 2765 134 28 939 3682 248544418 248541693 0.000000e+00 3976.0
28 TraesCS7B01G154800 chr7A 93.544 1332 62 6 3679 5008 248541596 248540287 0.000000e+00 1962.0
29 TraesCS7B01G154800 chr7A 90.735 993 35 18 615 1590 248935769 248936721 0.000000e+00 1271.0
30 TraesCS7B01G154800 chr7A 93.956 728 36 5 5026 5745 249278937 249278210 0.000000e+00 1094.0
31 TraesCS7B01G154800 chr7A 88.800 500 30 13 456 929 248545133 248544634 2.060000e-164 590.0
32 TraesCS7B01G154800 chr7A 80.423 756 86 32 939 1656 249283213 249282482 2.730000e-143 520.0
33 TraesCS7B01G154800 chr7A 83.214 560 50 16 939 1476 247274224 247273687 2.160000e-129 473.0
34 TraesCS7B01G154800 chr7A 89.706 340 27 6 4703 5037 249279317 249278981 1.710000e-115 427.0
35 TraesCS7B01G154800 chr7A 88.889 315 15 10 631 932 247274742 247274435 2.910000e-98 370.0
36 TraesCS7B01G154800 chr7A 90.821 207 9 5 416 619 247275011 247274812 1.090000e-67 268.0
37 TraesCS7B01G154800 chr7A 88.125 160 12 7 78 231 248935179 248935337 4.080000e-42 183.0
38 TraesCS7B01G154800 chr7A 92.373 118 9 0 812 929 248544637 248544520 1.140000e-37 169.0
39 TraesCS7B01G154800 chr7A 89.831 118 10 1 812 929 247274441 247274326 4.130000e-32 150.0
40 TraesCS7B01G154800 chr7A 90.566 53 2 2 333 385 248545215 248545166 4.280000e-07 67.6
41 TraesCS7B01G154800 chr3B 85.055 823 85 17 812 1619 145509168 145508369 0.000000e+00 804.0
42 TraesCS7B01G154800 chr3B 78.385 421 72 17 4171 4578 145506167 145505753 8.520000e-64 255.0


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 TraesCS7B01G154800 chr7B 206511053 206517669 6616 True 12220.000000 12220 100.000000 1 6617 1 chr7B.!!$R1 6616
1 TraesCS7B01G154800 chr7B 209321457 209323942 2485 True 3467.000000 3467 91.860000 3253 5745 1 chr7B.!!$R2 2492
2 TraesCS7B01G154800 chr7B 209641822 209646690 4868 True 3203.500000 5821 87.478500 939 5745 2 chr7B.!!$R6 4806
3 TraesCS7B01G154800 chr7B 209145656 209149790 4134 True 2163.333333 5059 95.022000 2 3834 3 chr7B.!!$R5 3832
4 TraesCS7B01G154800 chr7B 209137714 209141575 3861 True 798.750000 2614 87.453500 190 6398 4 chr7B.!!$R4 6208
5 TraesCS7B01G154800 chr7B 206340929 206345875 4946 True 431.500000 645 89.263333 326 4578 6 chr7B.!!$R3 4252
6 TraesCS7B01G154800 chr7D 234650495 234654574 4079 True 5849.000000 5849 92.544000 1656 5745 1 chr7D.!!$R1 4089
7 TraesCS7B01G154800 chr7D 234555556 234562108 6552 True 5050.500000 9502 91.207500 78 6617 2 chr7D.!!$R3 6539
8 TraesCS7B01G154800 chr7D 234352176 234356322 4146 True 377.800000 610 86.066200 265 4578 5 chr7D.!!$R2 4313
9 TraesCS7B01G154800 chr7A 248935179 248941174 5995 False 2894.000000 7228 91.565667 78 6095 3 chr7A.!!$F1 6017
10 TraesCS7B01G154800 chr7A 249278210 249283213 5003 True 1605.000000 4379 89.179500 939 5745 4 chr7A.!!$R3 4806
11 TraesCS7B01G154800 chr7A 248540287 248545215 4928 True 1352.920000 3976 91.653400 333 5008 5 chr7A.!!$R2 4675
12 TraesCS7B01G154800 chr7A 247273687 247275011 1324 True 315.250000 473 88.188750 416 1476 4 chr7A.!!$R1 1060
13 TraesCS7B01G154800 chr3B 145505753 145509168 3415 True 529.500000 804 81.720000 812 4578 2 chr3B.!!$R1 3766

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
671 1792 0.108019 GGTGGGTTTGTCTCTCGGTT 59.892 55.000 0.0 0.0 0.00 4.44 F
2576 4325 0.614979 TTGGAGGAGGAGACGAAGGG 60.615 60.000 0.0 0.0 0.00 3.95 F
3837 6293 1.073722 CAAGGTTCCTGAGCTGCCA 59.926 57.895 0.0 0.0 35.94 4.92 F
5387 8052 0.750850 GGTAACTCCAGCTATCGCCA 59.249 55.000 0.0 0.0 36.60 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2587 4336 0.038744 AACTCTGCACCCCCATGAAG 59.961 55.0 0.00 0.0 0.00 3.02 R
4139 6607 0.183492 TGCAGCTTCCTGAACACCTT 59.817 50.0 0.00 0.0 41.77 3.50 R
5530 8195 0.391597 TCGCACCCGAGAACTTCTTT 59.608 50.0 0.00 0.0 38.82 2.52 R
6449 9176 0.678395 CGTCTGGCCATAGATGCTCT 59.322 55.0 5.51 0.0 0.00 4.09 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
64 65 2.301296 TGTGGGGCAATTTTATGGTGTG 59.699 45.455 0.00 0.00 0.00 3.82
67 68 4.404073 GTGGGGCAATTTTATGGTGTGATA 59.596 41.667 0.00 0.00 0.00 2.15
82 83 4.746115 GGTGTGATATCGGTTGCGTTTATA 59.254 41.667 0.00 0.00 0.00 0.98
123 128 8.376942 GCGTTTATTCAACAACAAGAAGAAAAA 58.623 29.630 0.00 0.00 36.90 1.94
193 198 6.360370 TTCTAGTGTAAGAAAGTGGCTCAT 57.640 37.500 0.00 0.00 32.59 2.90
295 332 0.613777 GACATGGGTCTCCGGAACTT 59.386 55.000 5.23 0.00 40.99 2.66
402 442 3.574614 CAAAGTCCAAACCCAAATAGCG 58.425 45.455 0.00 0.00 0.00 4.26
437 500 3.423154 GGGCGCAACAGTTCCTCG 61.423 66.667 10.83 0.00 0.00 4.63
451 514 2.639286 CTCGCACAGCCCAACAAC 59.361 61.111 0.00 0.00 0.00 3.32
616 1730 1.817209 CCGTCTCCTGGTAAGCCTC 59.183 63.158 0.00 0.00 35.27 4.70
649 1770 1.529796 GTGGTGTTGGTGGACTGGA 59.470 57.895 0.00 0.00 0.00 3.86
650 1771 0.818040 GTGGTGTTGGTGGACTGGAC 60.818 60.000 0.00 0.00 0.00 4.02
651 1772 0.986019 TGGTGTTGGTGGACTGGACT 60.986 55.000 0.00 0.00 0.00 3.85
652 1773 0.535102 GGTGTTGGTGGACTGGACTG 60.535 60.000 0.00 0.00 0.00 3.51
653 1774 0.535102 GTGTTGGTGGACTGGACTGG 60.535 60.000 0.00 0.00 0.00 4.00
671 1792 0.108019 GGTGGGTTTGTCTCTCGGTT 59.892 55.000 0.00 0.00 0.00 4.44
975 2430 7.219535 CACTTGACTCATTCTTGTTGTTTCTTG 59.780 37.037 0.00 0.00 0.00 3.02
1269 2758 1.032794 ATTATCTCACGGAGCAGCGA 58.967 50.000 0.00 0.00 0.00 4.93
1534 3056 2.167281 AGCGAAGATGACTATGCAGTGT 59.833 45.455 0.00 0.00 34.21 3.55
1585 3110 0.679960 GGGGGATAGCGTTGCAAAGT 60.680 55.000 13.93 3.84 0.00 2.66
1603 3287 2.818169 TATGGCTGGGGATCGGTGC 61.818 63.158 0.00 0.00 0.00 5.01
1830 3576 2.486982 GCTGGATGATATGGTGCATGAC 59.513 50.000 0.00 0.00 0.00 3.06
2034 3780 2.621407 CCATTGGGTTGCTCTGTGGTAT 60.621 50.000 0.00 0.00 0.00 2.73
2476 4222 4.413189 TGGATCCAGAGATGCTATTGGAAA 59.587 41.667 11.44 0.00 42.55 3.13
2485 4231 3.552132 TGCTATTGGAAAGTATGCGGA 57.448 42.857 0.00 0.00 0.00 5.54
2576 4325 0.614979 TTGGAGGAGGAGACGAAGGG 60.615 60.000 0.00 0.00 0.00 3.95
2587 4336 2.483106 GAGACGAAGGGCCTAAACAAAC 59.517 50.000 6.41 0.00 0.00 2.93
2745 4503 1.180029 CAAAGGATTGTCCAGCCAGG 58.820 55.000 0.00 0.00 39.61 4.45
3026 4821 6.339587 AGTGAGATCTAATACAAGCTAGCC 57.660 41.667 12.13 0.00 0.00 3.93
3046 4841 3.306019 GCCATTTTTCTGAACACGGGAAT 60.306 43.478 0.00 0.00 0.00 3.01
3559 5915 6.765915 AAGCTCTTGATTTCATTCCTAACC 57.234 37.500 0.00 0.00 0.00 2.85
3796 6252 4.631377 CACTTCTTTGCTATTGTCCGATGA 59.369 41.667 0.00 0.00 0.00 2.92
3826 6282 6.575162 AATGTGATAACTGTTCCAAGGTTC 57.425 37.500 0.00 0.00 0.00 3.62
3837 6293 1.073722 CAAGGTTCCTGAGCTGCCA 59.926 57.895 0.00 0.00 35.94 4.92
3991 6447 5.651139 AGCTTGTCGGTAGAATGTACTTCTA 59.349 40.000 9.41 9.41 42.56 2.10
4136 6604 7.444183 CACTACCAATAGAAAACCTGAAAGTCA 59.556 37.037 0.00 0.00 32.23 3.41
4137 6605 6.884280 ACCAATAGAAAACCTGAAAGTCAG 57.116 37.500 0.00 0.00 43.91 3.51
4169 6637 1.831736 GGAAGCTGCACCTAGTTCCTA 59.168 52.381 1.02 0.00 34.89 2.94
4220 6688 5.135533 TGAGTACCCAGGATAGTCAGGATAA 59.864 44.000 0.00 0.00 30.25 1.75
4484 6955 6.017275 AGGTACCGACTTCTGATAATTCTACG 60.017 42.308 6.18 0.00 0.00 3.51
4530 7001 7.450014 TCTTTTATGCCTGTTCCATTAAGTTCA 59.550 33.333 0.00 0.00 0.00 3.18
4791 7372 8.954350 GTCAGGATATGATAATTGCAAGCTTAT 58.046 33.333 4.94 5.11 40.92 1.73
4828 7409 7.334421 TGAAGGTATCAGCTTAATTTGAGTGTC 59.666 37.037 0.00 0.00 35.86 3.67
4857 7450 1.771255 GCCTGATATGGACCAGAACCT 59.229 52.381 0.00 0.00 32.37 3.50
4966 7562 4.278170 CACAAACTCTATTCACCTTGGCAA 59.722 41.667 0.00 0.00 0.00 4.52
4967 7563 4.520492 ACAAACTCTATTCACCTTGGCAAG 59.480 41.667 20.31 20.31 0.00 4.01
5057 7706 9.743057 TGTTTGAAGTTTGGATTGTTAAGTATG 57.257 29.630 0.00 0.00 0.00 2.39
5209 7863 6.151312 ACGTAATCAGTCACTTGAGATACACT 59.849 38.462 0.00 0.00 0.00 3.55
5387 8052 0.750850 GGTAACTCCAGCTATCGCCA 59.249 55.000 0.00 0.00 36.60 5.69
5416 8081 1.077086 ATTGAGCACCATGGCCACA 59.923 52.632 8.16 5.30 0.00 4.17
5438 8103 2.880890 CCTTGAATGTAGGGCACTATGC 59.119 50.000 0.00 0.00 44.08 3.14
5739 8404 0.592637 TTGTTGCATTGGCTGAGTCG 59.407 50.000 0.00 0.00 41.91 4.18
5789 8475 5.057149 GGTCTGTTCACACTGTTCATAACT 58.943 41.667 0.00 0.00 0.00 2.24
5790 8476 5.527582 GGTCTGTTCACACTGTTCATAACTT 59.472 40.000 0.00 0.00 0.00 2.66
5953 8640 1.197721 GACAGTGGAAAACATGGAGCG 59.802 52.381 0.00 0.00 0.00 5.03
5954 8641 0.109597 CAGTGGAAAACATGGAGCGC 60.110 55.000 0.00 0.00 0.00 5.92
6050 8737 2.500910 CTCAGCCTCTTCTTCTGGATGT 59.499 50.000 0.00 0.00 38.30 3.06
6111 8798 6.149807 GTCTGTGTCCACGGGAAAATAAAATA 59.850 38.462 6.42 0.00 38.23 1.40
6116 8803 8.680001 GTGTCCACGGGAAAATAAAATATAACT 58.320 33.333 0.00 0.00 31.38 2.24
6117 8804 8.895737 TGTCCACGGGAAAATAAAATATAACTC 58.104 33.333 0.00 0.00 31.38 3.01
6118 8805 9.117183 GTCCACGGGAAAATAAAATATAACTCT 57.883 33.333 0.00 0.00 31.38 3.24
6119 8806 9.689501 TCCACGGGAAAATAAAATATAACTCTT 57.310 29.630 0.00 0.00 0.00 2.85
6120 8807 9.946165 CCACGGGAAAATAAAATATAACTCTTC 57.054 33.333 0.00 0.00 0.00 2.87
6121 8808 9.646336 CACGGGAAAATAAAATATAACTCTTCG 57.354 33.333 0.00 0.00 0.00 3.79
6122 8809 8.833493 ACGGGAAAATAAAATATAACTCTTCGG 58.167 33.333 0.00 0.00 0.00 4.30
6123 8810 8.833493 CGGGAAAATAAAATATAACTCTTCGGT 58.167 33.333 0.00 0.00 0.00 4.69
6124 8811 9.946165 GGGAAAATAAAATATAACTCTTCGGTG 57.054 33.333 0.00 0.00 0.00 4.94
6402 9129 3.464907 CCTCAATGCATCTAGACACTGG 58.535 50.000 0.00 0.00 0.00 4.00
6403 9130 3.464907 CTCAATGCATCTAGACACTGGG 58.535 50.000 0.00 0.00 0.00 4.45
6449 9176 3.015327 GACCTCGAGCTAACCTTCTACA 58.985 50.000 6.99 0.00 0.00 2.74
6450 9177 3.018149 ACCTCGAGCTAACCTTCTACAG 58.982 50.000 6.99 0.00 0.00 2.74
6452 9179 3.314080 CCTCGAGCTAACCTTCTACAGAG 59.686 52.174 6.99 0.00 0.00 3.35
6520 9247 2.798145 CGACCCAGTGCAAAAAGAAACC 60.798 50.000 0.00 0.00 0.00 3.27
6521 9248 2.167487 GACCCAGTGCAAAAAGAAACCA 59.833 45.455 0.00 0.00 0.00 3.67
6593 9320 6.427242 GCATCTCTCATATTCAGCTCAAATCA 59.573 38.462 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.758734 CTCATGAATAGCGGTGGGGA 59.241 55.000 0.00 0.00 0.00 4.81
64 65 5.688621 TCACACTATAAACGCAACCGATATC 59.311 40.000 0.00 0.00 38.29 1.63
67 68 3.852286 TCACACTATAAACGCAACCGAT 58.148 40.909 0.00 0.00 38.29 4.18
82 83 0.531974 AACGCAACCGACATCACACT 60.532 50.000 0.00 0.00 38.29 3.55
123 128 9.896645 TCTTGAGAGATTTAGCAAGTGAATATT 57.103 29.630 0.00 0.00 38.95 1.28
402 442 2.813179 CGTGCCTGCCGAATGCTAC 61.813 63.158 0.00 0.00 42.00 3.58
437 500 3.615709 GGGGTTGTTGGGCTGTGC 61.616 66.667 0.00 0.00 0.00 4.57
649 1770 0.393077 CGAGAGACAAACCCACCAGT 59.607 55.000 0.00 0.00 0.00 4.00
650 1771 0.320771 CCGAGAGACAAACCCACCAG 60.321 60.000 0.00 0.00 0.00 4.00
651 1772 1.052124 ACCGAGAGACAAACCCACCA 61.052 55.000 0.00 0.00 0.00 4.17
652 1773 0.108019 AACCGAGAGACAAACCCACC 59.892 55.000 0.00 0.00 0.00 4.61
653 1774 1.509703 GAACCGAGAGACAAACCCAC 58.490 55.000 0.00 0.00 0.00 4.61
700 1821 0.960364 ATTGCGGCGGAGAAACACAT 60.960 50.000 9.78 0.00 0.00 3.21
975 2430 1.294659 CTGTCGCCTGGAAACTGAGC 61.295 60.000 0.00 0.00 0.00 4.26
1081 2540 3.924013 ATCCAGGACCTGCCACGGA 62.924 63.158 16.72 8.00 42.65 4.69
1353 2875 2.768527 CCACCCAGAGCAGAAGAATCTA 59.231 50.000 0.00 0.00 33.50 1.98
1431 2953 0.478072 ACCACTGAGCAACCCAATGA 59.522 50.000 0.00 0.00 0.00 2.57
1534 3056 2.060050 TCCTTTTTGTTTCTGGCCGA 57.940 45.000 0.00 0.00 0.00 5.54
1585 3110 2.818169 GCACCGATCCCCAGCCATA 61.818 63.158 0.00 0.00 0.00 2.74
1603 3287 0.177141 CCATCCTTTGCAATGCCAGG 59.823 55.000 12.93 12.93 31.52 4.45
1830 3576 1.424493 GCTTCTCGGCGGTCTTGATG 61.424 60.000 7.21 2.26 0.00 3.07
2034 3780 4.038763 CAGTAGCCCTTATACGGTTCATCA 59.961 45.833 0.00 0.00 0.00 3.07
2163 3909 1.498576 CCCCACACATCCCATCCATTA 59.501 52.381 0.00 0.00 0.00 1.90
2226 3972 1.377202 AGACGCATCATTGCCGGTT 60.377 52.632 1.90 0.00 46.57 4.44
2341 4087 1.261480 ATCGTTGTCCTCAGCTCACT 58.739 50.000 0.00 0.00 0.00 3.41
2399 4145 5.415701 GTCTCCACAAATAATTGCTTCAGGA 59.584 40.000 0.00 0.00 40.34 3.86
2485 4231 4.220602 GCCCTTGAACTGTGGATTAAACAT 59.779 41.667 0.00 0.00 0.00 2.71
2576 4325 2.233676 CCCCCATGAAGTTTGTTTAGGC 59.766 50.000 0.00 0.00 0.00 3.93
2587 4336 0.038744 AACTCTGCACCCCCATGAAG 59.961 55.000 0.00 0.00 0.00 3.02
2745 4503 4.151157 GTCATTGGTGGTAACGTAACACTC 59.849 45.833 14.26 7.51 45.56 3.51
2789 4547 6.205101 GGAATAGTTCCTTACGAGTCTTCA 57.795 41.667 1.52 0.00 46.57 3.02
3026 4821 6.494893 TCTATTCCCGTGTTCAGAAAAATG 57.505 37.500 0.00 0.00 0.00 2.32
3046 4841 5.415701 GCTCCATTTCCAAAAGTGTCATCTA 59.584 40.000 0.00 0.00 0.00 1.98
3258 5602 7.488150 GCAACACTTATTTTATGAAGGTAAGGC 59.512 37.037 8.38 0.00 0.00 4.35
3559 5915 5.335426 CCATTCCTTCAGTGTCATCAAACAG 60.335 44.000 0.00 0.00 0.00 3.16
3796 6252 6.484288 TGGAACAGTTATCACATTTCCATCT 58.516 36.000 7.83 0.00 39.49 2.90
3826 6282 1.321474 TTTGTTCTTGGCAGCTCAGG 58.679 50.000 0.00 0.00 0.00 3.86
3837 6293 6.888105 ACCATTTTCACTTCCATTTGTTCTT 58.112 32.000 0.00 0.00 0.00 2.52
4136 6604 1.072965 CAGCTTCCTGAACACCTTCCT 59.927 52.381 0.00 0.00 41.77 3.36
4137 6605 1.528129 CAGCTTCCTGAACACCTTCC 58.472 55.000 0.00 0.00 41.77 3.46
4138 6606 0.877743 GCAGCTTCCTGAACACCTTC 59.122 55.000 0.00 0.00 41.77 3.46
4139 6607 0.183492 TGCAGCTTCCTGAACACCTT 59.817 50.000 0.00 0.00 41.77 3.50
4140 6608 0.536006 GTGCAGCTTCCTGAACACCT 60.536 55.000 0.00 0.00 45.48 4.00
4141 6609 1.952263 GTGCAGCTTCCTGAACACC 59.048 57.895 0.00 0.00 45.48 4.16
4144 6612 1.002544 ACTAGGTGCAGCTTCCTGAAC 59.997 52.381 25.47 0.00 45.45 3.18
4145 6613 1.352083 ACTAGGTGCAGCTTCCTGAA 58.648 50.000 25.47 3.41 41.77 3.02
4146 6614 1.276421 GAACTAGGTGCAGCTTCCTGA 59.724 52.381 25.47 4.23 41.77 3.86
4147 6615 1.677217 GGAACTAGGTGCAGCTTCCTG 60.677 57.143 25.47 13.96 42.13 3.86
4169 6637 5.249393 AGGTCAGTCTGTTTATGAGTTGGAT 59.751 40.000 0.00 0.00 0.00 3.41
4220 6688 0.598065 GCCTTGATTTTGGTCGCTGT 59.402 50.000 0.00 0.00 0.00 4.40
4484 6955 5.126396 AGAACAACCTTAGAAATTGCTGC 57.874 39.130 0.00 0.00 0.00 5.25
4556 7031 9.173939 CTTTTGTAGAAGCAAACTATGAAACAG 57.826 33.333 0.00 0.00 37.98 3.16
4583 7058 9.674068 AGAAGGAATACTCTTAAAGGCTTAAAG 57.326 33.333 0.00 0.00 0.00 1.85
4584 7059 9.668497 GAGAAGGAATACTCTTAAAGGCTTAAA 57.332 33.333 0.00 0.00 0.00 1.52
4585 7060 9.047947 AGAGAAGGAATACTCTTAAAGGCTTAA 57.952 33.333 0.00 0.00 40.02 1.85
4586 7061 8.478877 CAGAGAAGGAATACTCTTAAAGGCTTA 58.521 37.037 0.00 0.00 40.85 3.09
4587 7062 7.334858 CAGAGAAGGAATACTCTTAAAGGCTT 58.665 38.462 0.00 0.00 40.85 4.35
4588 7063 6.631540 GCAGAGAAGGAATACTCTTAAAGGCT 60.632 42.308 0.00 0.00 40.85 4.58
4589 7064 5.525745 GCAGAGAAGGAATACTCTTAAAGGC 59.474 44.000 0.00 0.00 40.85 4.35
4590 7065 6.644347 TGCAGAGAAGGAATACTCTTAAAGG 58.356 40.000 0.00 0.00 40.85 3.11
4828 7409 5.019470 TGGTCCATATCAGGCTATCAGTAG 58.981 45.833 0.00 0.00 0.00 2.57
4857 7450 8.200792 AACTAACAGTTTTAATCAATGGCACAA 58.799 29.630 0.00 0.00 37.12 3.33
5057 7706 6.147656 CCAATTGCAATTCTAAAACCAGAACC 59.852 38.462 21.70 0.00 37.37 3.62
5121 7772 2.517959 TCTCAACAGGCCATTCAAAGG 58.482 47.619 5.01 0.00 0.00 3.11
5387 8052 1.512926 GTGCTCAATGACACCGACTT 58.487 50.000 5.16 0.00 0.00 3.01
5416 8081 3.685550 GCATAGTGCCCTACATTCAAGGT 60.686 47.826 0.00 0.00 37.42 3.50
5530 8195 0.391597 TCGCACCCGAGAACTTCTTT 59.608 50.000 0.00 0.00 38.82 2.52
5739 8404 1.470098 CCTGCAATCTACACCTGCAAC 59.530 52.381 0.00 0.00 44.94 4.17
5953 8640 5.964758 TCACAACAATATTCAAAGGGATGC 58.035 37.500 0.00 0.00 0.00 3.91
5954 8641 6.982141 CCATCACAACAATATTCAAAGGGATG 59.018 38.462 10.05 10.05 0.00 3.51
6050 8737 2.565391 ACTCCGACACACATAATCCACA 59.435 45.455 0.00 0.00 0.00 4.17
6116 8803 2.755655 GGAGACATCTCTTCACCGAAGA 59.244 50.000 8.74 6.29 45.01 2.87
6117 8804 2.478709 CGGAGACATCTCTTCACCGAAG 60.479 54.545 8.74 0.00 46.54 3.79
6118 8805 1.472878 CGGAGACATCTCTTCACCGAA 59.527 52.381 8.74 0.00 46.54 4.30
6119 8806 1.095600 CGGAGACATCTCTTCACCGA 58.904 55.000 8.74 0.00 46.54 4.69
6120 8807 0.101399 CCGGAGACATCTCTTCACCG 59.899 60.000 8.74 0.00 44.16 4.94
6121 8808 1.135333 GACCGGAGACATCTCTTCACC 59.865 57.143 9.46 0.00 42.48 4.02
6122 8809 1.202200 CGACCGGAGACATCTCTTCAC 60.202 57.143 9.46 0.00 42.48 3.18
6123 8810 1.095600 CGACCGGAGACATCTCTTCA 58.904 55.000 9.46 0.00 42.48 3.02
6124 8811 1.096416 ACGACCGGAGACATCTCTTC 58.904 55.000 9.46 3.08 42.48 2.87
6125 8812 0.811915 CACGACCGGAGACATCTCTT 59.188 55.000 9.46 0.00 42.48 2.85
6126 8813 0.322636 ACACGACCGGAGACATCTCT 60.323 55.000 9.46 0.00 42.48 3.10
6127 8814 0.179161 CACACGACCGGAGACATCTC 60.179 60.000 9.46 0.00 42.14 2.75
6128 8815 1.595993 CCACACGACCGGAGACATCT 61.596 60.000 9.46 0.00 0.00 2.90
6129 8816 1.153823 CCACACGACCGGAGACATC 60.154 63.158 9.46 0.00 0.00 3.06
6130 8817 1.605451 TCCACACGACCGGAGACAT 60.605 57.895 9.46 0.00 0.00 3.06
6131 8818 2.203379 TCCACACGACCGGAGACA 60.203 61.111 9.46 0.00 0.00 3.41
6136 8824 2.410638 TTCGTTCTCCACACGACCGG 62.411 60.000 0.00 0.00 46.04 5.28
6300 9026 3.372822 CAGCAATGTGGCATTGGATTTTC 59.627 43.478 19.40 5.70 35.83 2.29
6402 9129 3.263261 GCTTAGAGTTTAGGCTGTGACC 58.737 50.000 0.00 0.00 0.00 4.02
6403 9130 3.680458 GTGCTTAGAGTTTAGGCTGTGAC 59.320 47.826 0.00 0.00 0.00 3.67
6449 9176 0.678395 CGTCTGGCCATAGATGCTCT 59.322 55.000 5.51 0.00 0.00 4.09
6450 9177 3.207677 CGTCTGGCCATAGATGCTC 57.792 57.895 5.51 0.00 0.00 4.26
6520 9247 2.449031 TAAGGTGTCTGCGTGGGCTG 62.449 60.000 0.00 0.00 40.82 4.85
6521 9248 1.764571 TTAAGGTGTCTGCGTGGGCT 61.765 55.000 0.00 0.00 40.82 5.19
6593 9320 3.953775 CGCCCCATATTCGCCCCT 61.954 66.667 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.