Multiple sequence alignment - TraesCS2B01G215100

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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 TraesCS2B01G215100 chr2B 100.000 4407 0 0 1 4407 200474221 200469815 0.000000e+00 8139.0
1 TraesCS2B01G215100 chr2B 90.949 1149 83 14 2447 3577 200384467 200385612 0.000000e+00 1526.0
2 TraesCS2B01G215100 chr2B 89.010 919 76 19 714 1620 200382694 200383599 0.000000e+00 1114.0
3 TraesCS2B01G215100 chr2B 80.851 282 32 12 2088 2354 200384184 200384458 7.470000e-48 202.0
4 TraesCS2B01G215100 chr2B 94.059 101 3 3 487 586 796740086 796739988 2.750000e-32 150.0
5 TraesCS2B01G215100 chr2B 90.909 77 6 1 132 208 668678872 668678797 7.800000e-18 102.0
6 TraesCS2B01G215100 chr2B 82.759 116 9 5 4 112 683757446 683757335 4.690000e-15 93.5
7 TraesCS2B01G215100 chr2B 100.000 33 0 0 1591 1623 200472600 200472568 1.320000e-05 62.1
8 TraesCS2B01G215100 chr2B 100.000 33 0 0 1622 1654 200472631 200472599 1.320000e-05 62.1
9 TraesCS2B01G215100 chr2D 95.646 2802 88 16 1625 4404 142475019 142472230 0.000000e+00 4468.0
10 TraesCS2B01G215100 chr2D 95.943 1060 28 4 576 1623 142476046 142474990 0.000000e+00 1705.0
11 TraesCS2B01G215100 chr2D 90.846 1147 81 18 2447 3575 142433098 142431958 0.000000e+00 1515.0
12 TraesCS2B01G215100 chr2D 89.967 917 73 15 714 1623 142435858 142434954 0.000000e+00 1166.0
13 TraesCS2B01G215100 chr2D 92.105 494 33 2 5 494 142476536 142476045 0.000000e+00 691.0
14 TraesCS2B01G215100 chr2D 81.495 281 31 13 2089 2354 142433381 142433107 1.240000e-50 211.0
15 TraesCS2B01G215100 chr2D 100.000 29 0 0 1412 1440 26537573 26537545 2.000000e-03 54.7
16 TraesCS2B01G215100 chr2A 92.518 1978 122 10 2444 4407 158554787 158556752 0.000000e+00 2809.0
17 TraesCS2B01G215100 chr2A 93.843 1072 39 10 574 1623 158553001 158554067 0.000000e+00 1589.0
18 TraesCS2B01G215100 chr2A 92.330 1056 68 9 2506 3554 158591711 158592760 0.000000e+00 1489.0
19 TraesCS2B01G215100 chr2A 89.738 916 70 21 714 1620 158589563 158590463 0.000000e+00 1149.0
20 TraesCS2B01G215100 chr2A 90.885 768 25 14 1622 2381 158554035 158554765 0.000000e+00 989.0
21 TraesCS2B01G215100 chr2A 85.851 523 43 13 1 494 158552481 158553001 1.090000e-145 527.0
22 TraesCS2B01G215100 chr2A 93.204 103 6 1 487 588 207651967 207651865 2.750000e-32 150.0
23 TraesCS2B01G215100 chr2A 88.393 112 11 1 2089 2198 158591375 158591486 2.770000e-27 134.0
24 TraesCS2B01G215100 chr2A 84.615 130 12 2 4 128 471704302 471704176 5.990000e-24 122.0
25 TraesCS2B01G215100 chr2A 85.600 125 7 5 4 120 203722988 203723109 2.150000e-23 121.0
26 TraesCS2B01G215100 chr5D 98.876 89 1 0 491 579 383306973 383306885 4.560000e-35 159.0
27 TraesCS2B01G215100 chr5D 78.571 182 32 7 296 470 300777691 300777872 3.600000e-21 113.0
28 TraesCS2B01G215100 chr7B 95.833 96 3 1 491 585 28056136 28056231 2.120000e-33 154.0
29 TraesCS2B01G215100 chr7B 78.404 213 27 9 4 201 748714242 748714034 2.150000e-23 121.0
30 TraesCS2B01G215100 chr7B 94.521 73 4 0 127 199 453016790 453016862 3.600000e-21 113.0
31 TraesCS2B01G215100 chr5B 95.789 95 4 0 491 585 492096689 492096595 2.120000e-33 154.0
32 TraesCS2B01G215100 chr5B 94.118 68 4 0 132 199 470515565 470515498 2.170000e-18 104.0
33 TraesCS2B01G215100 chr5A 89.744 117 7 5 462 577 286677785 286677897 1.280000e-30 145.0
34 TraesCS2B01G215100 chr5A 85.366 123 14 3 1 122 561154660 561154779 1.660000e-24 124.0
35 TraesCS2B01G215100 chr5A 95.588 68 3 0 132 199 415159514 415159447 4.660000e-20 110.0
36 TraesCS2B01G215100 chr6A 88.889 117 10 2 469 582 7170223 7170107 1.650000e-29 141.0
37 TraesCS2B01G215100 chr4D 86.567 134 10 7 465 593 80976653 80976523 1.650000e-29 141.0
38 TraesCS2B01G215100 chr7D 90.566 106 7 3 483 586 94261220 94261324 2.140000e-28 137.0
39 TraesCS2B01G215100 chr7D 84.328 134 11 4 1 128 446926310 446926439 5.990000e-24 122.0
40 TraesCS2B01G215100 chr7D 84.800 125 11 2 9 128 160427971 160428092 7.740000e-23 119.0
41 TraesCS2B01G215100 chr3A 91.892 74 6 0 127 200 51447382 51447455 2.170000e-18 104.0
42 TraesCS2B01G215100 chr1A 91.892 74 4 2 130 202 86606355 86606427 7.800000e-18 102.0
43 TraesCS2B01G215100 chr1D 90.667 75 6 1 130 204 374003757 374003830 1.010000e-16 99.0
44 TraesCS2B01G215100 chr1D 97.368 38 1 0 4146 4183 27864673 27864710 1.020000e-06 65.8
45 TraesCS2B01G215100 chrUn 100.000 29 0 0 1412 1440 17152116 17152088 2.000000e-03 54.7
46 TraesCS2B01G215100 chrUn 100.000 29 0 0 1412 1440 292609814 292609842 2.000000e-03 54.7


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 TraesCS2B01G215100 chr2B 200469815 200474221 4406 True 2754.400000 8139 100.000000 1 4407 3 chr2B.!!$R4 4406
1 TraesCS2B01G215100 chr2B 200382694 200385612 2918 False 947.333333 1526 86.936667 714 3577 3 chr2B.!!$F1 2863
2 TraesCS2B01G215100 chr2D 142472230 142476536 4306 True 2288.000000 4468 94.564667 5 4404 3 chr2D.!!$R3 4399
3 TraesCS2B01G215100 chr2D 142431958 142435858 3900 True 964.000000 1515 87.436000 714 3575 3 chr2D.!!$R2 2861
4 TraesCS2B01G215100 chr2A 158552481 158556752 4271 False 1478.500000 2809 90.774250 1 4407 4 chr2A.!!$F2 4406
5 TraesCS2B01G215100 chr2A 158589563 158592760 3197 False 924.000000 1489 90.153667 714 3554 3 chr2A.!!$F3 2840

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
244 245 3.988976 ACCTAGCGGATATTGCATGAT 57.011 42.857 0.00 0.0 33.85 2.45 F
1623 1692 0.524180 GAGGCATGCTTTAACTGCGC 60.524 55.000 18.92 0.0 36.76 6.09 F
2403 4118 0.392327 CCCACACAGACACACACACA 60.392 55.000 0.00 0.0 0.00 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1630 1699 0.524180 GTTAAAGCATGCCTCTGCGC 60.524 55.000 15.66 0.00 46.86 6.09 R
3059 4792 3.461773 CGACAGCAGATCCCCCGT 61.462 66.667 0.00 0.00 0.00 5.28 R
4262 6023 0.599204 AGGTGTCGCGACGTGAAATT 60.599 50.000 31.88 11.83 0.00 1.82 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
46 47 4.235079 TCGGATGACCCAATTCTGAATT 57.765 40.909 9.76 9.76 34.14 2.17
128 129 9.683870 AAGAATTGAATGAGAGAGCTTTAAGAT 57.316 29.630 0.00 0.00 0.00 2.40
130 131 9.107177 GAATTGAATGAGAGAGCTTTAAGATCA 57.893 33.333 12.86 0.72 31.99 2.92
149 150 8.744568 AAGATCAAATTCTAATTGGAGACCTC 57.255 34.615 0.00 0.00 32.16 3.85
190 191 9.042008 TCTTTAAAACTAGTGAGCTTAGTGTTG 57.958 33.333 9.01 0.00 0.00 3.33
230 231 9.526713 CTATGACATGTCATCAATATACCTAGC 57.473 37.037 37.89 3.56 46.57 3.42
244 245 3.988976 ACCTAGCGGATATTGCATGAT 57.011 42.857 0.00 0.00 33.85 2.45
472 502 6.093633 GTGAAAGGTGGACCATATGTTAAGTC 59.906 42.308 0.00 1.83 38.89 3.01
477 507 7.924541 AGGTGGACCATATGTTAAGTCTTTTA 58.075 34.615 0.00 0.00 38.89 1.52
481 511 8.598916 TGGACCATATGTTAAGTCTTTTACTGA 58.401 33.333 1.24 0.00 38.88 3.41
495 525 8.905850 AGTCTTTTACTGATAGCTAACTACTCC 58.094 37.037 0.00 0.00 36.93 3.85
496 526 8.136800 GTCTTTTACTGATAGCTAACTACTCCC 58.863 40.741 0.00 0.00 0.00 4.30
497 527 8.060075 TCTTTTACTGATAGCTAACTACTCCCT 58.940 37.037 0.00 0.00 0.00 4.20
498 528 7.820578 TTTACTGATAGCTAACTACTCCCTC 57.179 40.000 0.00 0.00 0.00 4.30
499 529 5.656549 ACTGATAGCTAACTACTCCCTCT 57.343 43.478 0.00 0.00 0.00 3.69
500 530 5.381757 ACTGATAGCTAACTACTCCCTCTG 58.618 45.833 0.00 0.00 0.00 3.35
501 531 5.103855 ACTGATAGCTAACTACTCCCTCTGT 60.104 44.000 0.00 0.00 0.00 3.41
502 532 6.101442 ACTGATAGCTAACTACTCCCTCTGTA 59.899 42.308 0.00 0.00 0.00 2.74
503 533 6.907961 TGATAGCTAACTACTCCCTCTGTAA 58.092 40.000 0.00 0.00 0.00 2.41
504 534 7.351952 TGATAGCTAACTACTCCCTCTGTAAA 58.648 38.462 0.00 0.00 0.00 2.01
505 535 5.918426 AGCTAACTACTCCCTCTGTAAAC 57.082 43.478 0.00 0.00 0.00 2.01
506 536 5.581975 AGCTAACTACTCCCTCTGTAAACT 58.418 41.667 0.00 0.00 0.00 2.66
507 537 6.729428 AGCTAACTACTCCCTCTGTAAACTA 58.271 40.000 0.00 0.00 0.00 2.24
508 538 7.180663 AGCTAACTACTCCCTCTGTAAACTAA 58.819 38.462 0.00 0.00 0.00 2.24
509 539 7.840210 AGCTAACTACTCCCTCTGTAAACTAAT 59.160 37.037 0.00 0.00 0.00 1.73
510 540 9.129532 GCTAACTACTCCCTCTGTAAACTAATA 57.870 37.037 0.00 0.00 0.00 0.98
517 547 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
518 548 8.777578 TCCCTCTGTAAACTAATATAAGAGCA 57.222 34.615 0.00 0.00 0.00 4.26
519 549 9.381038 TCCCTCTGTAAACTAATATAAGAGCAT 57.619 33.333 0.00 0.00 0.00 3.79
569 599 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
570 600 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
571 601 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
572 602 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
573 603 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
592 625 8.638629 AGGGAGTACTATACATGTTGACTATC 57.361 38.462 2.30 0.00 0.00 2.08
621 654 7.301868 TGCCTATAGATGACATGACAACATA 57.698 36.000 0.00 0.00 35.09 2.29
662 695 9.979578 TGGCTATATTATTTAACCATGCTTTTG 57.020 29.630 0.00 0.00 0.00 2.44
1074 1142 5.047847 TCGTGTCTAACACTTTCTTCTTGG 58.952 41.667 8.44 0.00 46.46 3.61
1622 1691 1.089920 AGAGGCATGCTTTAACTGCG 58.910 50.000 18.92 0.00 36.76 5.18
1623 1692 0.524180 GAGGCATGCTTTAACTGCGC 60.524 55.000 18.92 0.00 36.76 6.09
1624 1693 1.869132 GGCATGCTTTAACTGCGCG 60.869 57.895 18.92 0.00 36.76 6.86
1625 1694 2.499603 GCATGCTTTAACTGCGCGC 61.500 57.895 27.26 27.26 0.00 6.86
1626 1695 1.135315 CATGCTTTAACTGCGCGCT 59.865 52.632 33.29 15.25 0.00 5.92
1627 1696 0.858961 CATGCTTTAACTGCGCGCTC 60.859 55.000 33.29 4.38 0.00 5.03
1628 1697 2.276058 GCTTTAACTGCGCGCTCG 60.276 61.111 33.29 24.37 39.07 5.03
1629 1698 2.726691 GCTTTAACTGCGCGCTCGA 61.727 57.895 33.29 11.56 38.10 4.04
1630 1699 1.341802 CTTTAACTGCGCGCTCGAG 59.658 57.895 33.29 23.44 38.10 4.04
1631 1700 2.603503 CTTTAACTGCGCGCTCGAGC 62.604 60.000 33.29 27.64 41.27 5.03
1641 1710 4.887987 GCTCGAGCGCAGAGGCAT 62.888 66.667 23.61 0.00 41.24 4.40
1642 1711 2.960659 CTCGAGCGCAGAGGCATG 60.961 66.667 20.73 0.00 41.24 4.06
1645 1714 2.823147 GAGCGCAGAGGCATGCTT 60.823 61.111 18.92 10.66 44.24 3.91
1646 1715 2.360852 AGCGCAGAGGCATGCTTT 60.361 55.556 18.92 6.28 44.24 3.51
1647 1716 1.078214 AGCGCAGAGGCATGCTTTA 60.078 52.632 18.92 0.00 44.24 1.85
1648 1717 0.677731 AGCGCAGAGGCATGCTTTAA 60.678 50.000 18.92 0.00 44.24 1.52
1649 1718 0.524180 GCGCAGAGGCATGCTTTAAC 60.524 55.000 18.92 0.00 44.24 2.01
1650 1719 1.089920 CGCAGAGGCATGCTTTAACT 58.910 50.000 18.92 5.25 44.24 2.24
1651 1720 1.202110 CGCAGAGGCATGCTTTAACTG 60.202 52.381 18.92 14.47 44.24 3.16
1652 1721 1.468736 GCAGAGGCATGCTTTAACTGC 60.469 52.381 20.94 20.94 43.07 4.40
1849 1924 6.846283 GCGTGACTCGAATAATTGAAATTAGG 59.154 38.462 0.22 0.00 42.86 2.69
1989 3619 7.012421 GCCAGAAATATGTTTTCCTCGTAGAAT 59.988 37.037 0.00 0.00 34.09 2.40
1990 3620 8.893727 CCAGAAATATGTTTTCCTCGTAGAATT 58.106 33.333 0.00 0.00 34.09 2.17
2138 3802 9.238368 CCACTTCTACCTATAAATCAACCAAAA 57.762 33.333 0.00 0.00 0.00 2.44
2271 3986 5.301551 TCACACAGATTAGTTGCACCAAATT 59.698 36.000 0.00 0.00 0.00 1.82
2272 3987 6.488344 TCACACAGATTAGTTGCACCAAATTA 59.512 34.615 0.00 0.00 0.00 1.40
2273 3988 6.803320 CACACAGATTAGTTGCACCAAATTAG 59.197 38.462 0.00 0.00 0.00 1.73
2274 3989 6.490040 ACACAGATTAGTTGCACCAAATTAGT 59.510 34.615 0.00 0.00 0.00 2.24
2284 3999 9.028284 AGTTGCACCAAATTAGTACTAGTAGTA 57.972 33.333 12.58 12.58 0.00 1.82
2315 4030 7.089538 TGATACGTCGAACAACCAAATTAGTA 58.910 34.615 0.00 0.00 0.00 1.82
2347 4062 7.812191 ACGTCTGCTGCAAATTTAATGAATTTA 59.188 29.630 3.02 0.00 44.16 1.40
2384 4099 1.774639 TCGAACTGCGTAGTTTGTCC 58.225 50.000 26.61 11.88 46.79 4.02
2403 4118 0.392327 CCCACACAGACACACACACA 60.392 55.000 0.00 0.00 0.00 3.72
2404 4119 1.447945 CCACACAGACACACACACAA 58.552 50.000 0.00 0.00 0.00 3.33
2405 4120 1.130373 CCACACAGACACACACACAAC 59.870 52.381 0.00 0.00 0.00 3.32
2407 4122 1.003118 ACACAGACACACACACAACCT 59.997 47.619 0.00 0.00 0.00 3.50
2408 4123 1.398041 CACAGACACACACACAACCTG 59.602 52.381 0.00 0.00 0.00 4.00
2409 4124 1.003118 ACAGACACACACACAACCTGT 59.997 47.619 0.00 0.00 0.00 4.00
2422 4137 5.862924 CACAACCTGTGTATACTTTGGAG 57.137 43.478 4.17 4.91 43.08 3.86
2423 4138 5.305585 CACAACCTGTGTATACTTTGGAGT 58.694 41.667 4.17 5.42 43.08 3.85
2424 4139 6.460781 CACAACCTGTGTATACTTTGGAGTA 58.539 40.000 4.17 0.00 43.08 2.59
2425 4140 6.367969 CACAACCTGTGTATACTTTGGAGTAC 59.632 42.308 4.17 0.00 43.08 2.73
2426 4141 6.269307 ACAACCTGTGTATACTTTGGAGTACT 59.731 38.462 4.17 0.00 39.29 2.73
2505 4238 3.956199 CCCGGGAGTCAGTACAATAGTTA 59.044 47.826 18.48 0.00 0.00 2.24
2737 4470 1.224592 GATCTCCAACCCGCACCAT 59.775 57.895 0.00 0.00 0.00 3.55
2977 4710 3.016474 GAAGCTGCTGTTCGCCGTC 62.016 63.158 1.35 0.00 38.05 4.79
3428 5161 1.122019 GGCCCAGACCGAGTGGATAT 61.122 60.000 0.00 0.00 37.23 1.63
3663 5418 5.523438 ACCAATATTTTGTTTCCACGTGT 57.477 34.783 15.65 0.00 0.00 4.49
3796 5555 2.437359 GCATGGGCACTCGCTTCT 60.437 61.111 0.00 0.00 40.72 2.85
3813 5572 2.423874 TCGGAGAGGTGCGCAAAA 59.576 55.556 14.00 0.00 37.45 2.44
3822 5581 3.922640 TGCGCAAAAGGCAACCCC 61.923 61.111 8.16 0.00 45.17 4.95
3897 5656 4.755123 CCGGGATAAACAAGGCACTATAAG 59.245 45.833 0.00 0.00 38.49 1.73
3904 5663 2.159085 ACAAGGCACTATAAGAGGACGC 60.159 50.000 0.00 0.00 38.49 5.19
3982 5741 5.292589 CGTACTAACCCAAATAATGACGCTT 59.707 40.000 0.00 0.00 0.00 4.68
4112 5873 7.719633 TCATAAGAATAAGGTGGCAATTACTCC 59.280 37.037 0.00 0.00 0.00 3.85
4116 5877 1.308877 AGGTGGCAATTACTCCCCAT 58.691 50.000 0.00 0.00 0.00 4.00
4254 6015 8.789762 TGAATTATGCACATAGAATGATCTTGG 58.210 33.333 0.00 0.00 37.10 3.61
4262 6023 8.623903 GCACATAGAATGATCTTGGTTTATGAA 58.376 33.333 0.00 0.00 37.10 2.57
4295 6056 0.392706 ACACCTCGTTGCAGTCATGA 59.607 50.000 0.00 0.00 0.00 3.07
4347 6108 6.309980 CGAGGCAATTAATTTGTACATGCAAA 59.690 34.615 15.16 0.00 41.77 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.611519 TGACCGGGTCAACAATTTCC 58.388 50.000 26.95 0.00 39.78 3.13
46 47 8.415950 TTTAAGGCTTCACAATTAATTGAGGA 57.584 30.769 30.18 23.01 40.14 3.71
128 129 8.742777 CAATTGAGGTCTCCAATTAGAATTTGA 58.257 33.333 0.00 0.00 40.91 2.69
130 131 8.884124 TCAATTGAGGTCTCCAATTAGAATTT 57.116 30.769 3.38 0.00 40.91 1.82
149 150 8.807667 AGTTTTAAAGAGCTCACATTCAATTG 57.192 30.769 17.77 0.00 0.00 2.32
244 245 7.201947 GGATATCATAGGTAGTATCATGCAGCA 60.202 40.741 4.83 0.00 0.00 4.41
362 388 6.496565 TCTCTTTCCATCTCTCTTTCAACTCT 59.503 38.462 0.00 0.00 0.00 3.24
472 502 8.240267 AGGGAGTAGTTAGCTATCAGTAAAAG 57.760 38.462 4.67 0.00 0.00 2.27
477 507 5.103855 ACAGAGGGAGTAGTTAGCTATCAGT 60.104 44.000 4.67 0.00 0.00 3.41
481 511 7.355890 AGTTTACAGAGGGAGTAGTTAGCTAT 58.644 38.462 0.00 0.00 0.00 2.97
543 573 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
544 574 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
545 575 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
546 576 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
547 577 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
557 587 9.570468 CATGTATAGTACTCCCTCTGTAAACTA 57.430 37.037 0.00 0.00 0.00 2.24
558 588 8.060075 ACATGTATAGTACTCCCTCTGTAAACT 58.940 37.037 0.00 0.00 0.00 2.66
559 589 8.235359 ACATGTATAGTACTCCCTCTGTAAAC 57.765 38.462 0.00 0.00 0.00 2.01
560 590 8.692710 CAACATGTATAGTACTCCCTCTGTAAA 58.307 37.037 0.00 0.00 0.00 2.01
561 591 8.057011 TCAACATGTATAGTACTCCCTCTGTAA 58.943 37.037 0.00 0.00 0.00 2.41
562 592 7.501559 GTCAACATGTATAGTACTCCCTCTGTA 59.498 40.741 0.00 0.00 0.00 2.74
563 593 6.321690 GTCAACATGTATAGTACTCCCTCTGT 59.678 42.308 0.00 0.00 0.00 3.41
564 594 6.547880 AGTCAACATGTATAGTACTCCCTCTG 59.452 42.308 0.00 0.00 0.00 3.35
565 595 6.674573 AGTCAACATGTATAGTACTCCCTCT 58.325 40.000 0.00 0.00 0.00 3.69
566 596 6.963083 AGTCAACATGTATAGTACTCCCTC 57.037 41.667 0.00 0.00 0.00 4.30
567 597 8.225416 TGATAGTCAACATGTATAGTACTCCCT 58.775 37.037 0.00 0.00 0.00 4.20
568 598 8.298140 GTGATAGTCAACATGTATAGTACTCCC 58.702 40.741 0.00 0.00 0.00 4.30
569 599 8.847196 TGTGATAGTCAACATGTATAGTACTCC 58.153 37.037 0.00 0.00 0.00 3.85
573 603 9.476202 GCAATGTGATAGTCAACATGTATAGTA 57.524 33.333 0.00 0.00 0.00 1.82
574 604 7.442364 GGCAATGTGATAGTCAACATGTATAGT 59.558 37.037 0.00 0.00 0.00 2.12
575 605 7.658982 AGGCAATGTGATAGTCAACATGTATAG 59.341 37.037 0.00 0.00 0.00 1.31
576 606 7.508687 AGGCAATGTGATAGTCAACATGTATA 58.491 34.615 0.00 0.00 0.00 1.47
592 625 5.993441 TGTCATGTCATCTATAGGCAATGTG 59.007 40.000 0.00 0.00 0.00 3.21
621 654 1.486211 AGCCAGCCGTTGACTATAGT 58.514 50.000 4.68 4.68 0.00 2.12
662 695 6.206634 AGAGCTATCACTCATAAGCACTCTAC 59.793 42.308 0.00 0.00 39.26 2.59
1074 1142 2.924926 TGCACGTACGAATAACATGACC 59.075 45.455 24.41 0.00 0.00 4.02
1624 1693 4.887987 ATGCCTCTGCGCTCGAGC 62.888 66.667 27.64 27.64 41.78 5.03
1625 1694 2.960659 CATGCCTCTGCGCTCGAG 60.961 66.667 9.73 8.45 41.78 4.04
1628 1697 1.091771 TAAAGCATGCCTCTGCGCTC 61.092 55.000 15.66 0.00 46.86 5.03
1629 1698 0.677731 TTAAAGCATGCCTCTGCGCT 60.678 50.000 15.66 0.00 46.86 5.92
1630 1699 0.524180 GTTAAAGCATGCCTCTGCGC 60.524 55.000 15.66 0.00 46.86 6.09
1631 1700 1.089920 AGTTAAAGCATGCCTCTGCG 58.910 50.000 15.66 0.00 46.86 5.18
1632 1701 1.468736 GCAGTTAAAGCATGCCTCTGC 60.469 52.381 23.39 23.39 42.62 4.26
1633 1702 1.202110 CGCAGTTAAAGCATGCCTCTG 60.202 52.381 15.66 15.69 36.60 3.35
1634 1703 1.089920 CGCAGTTAAAGCATGCCTCT 58.910 50.000 15.66 1.04 36.60 3.69
1635 1704 0.804989 ACGCAGTTAAAGCATGCCTC 59.195 50.000 15.66 0.49 37.78 4.70
1636 1705 2.946947 ACGCAGTTAAAGCATGCCT 58.053 47.368 15.66 4.37 37.78 4.75
1800 1874 2.328099 GCAGGCAGTCCGTTTCCAG 61.328 63.158 0.00 0.00 37.47 3.86
1849 1924 4.499357 CCGAGTAGTACTAGCCAACCAATC 60.499 50.000 1.87 0.00 0.00 2.67
1878 1960 1.380524 GAGTCGATCCGTTCTCCTCA 58.619 55.000 0.00 0.00 0.00 3.86
1934 3564 2.661718 TGAACTCACTTTTCAACCCCC 58.338 47.619 0.00 0.00 29.89 5.40
1989 3619 9.485206 GTAGAACTGAAGAAACCATTGTACTAA 57.515 33.333 0.00 0.00 0.00 2.24
1990 3620 8.092687 GGTAGAACTGAAGAAACCATTGTACTA 58.907 37.037 0.00 0.00 0.00 1.82
1991 3621 6.935208 GGTAGAACTGAAGAAACCATTGTACT 59.065 38.462 0.00 0.00 0.00 2.73
1992 3622 6.148976 GGGTAGAACTGAAGAAACCATTGTAC 59.851 42.308 0.00 0.00 0.00 2.90
2088 3752 6.431852 GGTTGGGCTAACAATGTAGAACTAAA 59.568 38.462 15.85 0.00 41.18 1.85
2091 3755 4.202524 TGGTTGGGCTAACAATGTAGAACT 60.203 41.667 15.85 0.00 41.18 3.01
2138 3802 7.662669 ACAACTAAAACTAAACGGATGGTATGT 59.337 33.333 0.00 0.00 0.00 2.29
2199 3901 6.668283 ACTACATGACTGGATTAGTTAGTGGT 59.332 38.462 0.00 0.00 40.53 4.16
2200 3902 6.980978 CACTACATGACTGGATTAGTTAGTGG 59.019 42.308 0.00 0.00 40.28 4.00
2273 3988 9.362911 CGACGTATCAATGTTTACTACTAGTAC 57.637 37.037 0.00 0.00 28.93 2.73
2274 3989 9.313118 TCGACGTATCAATGTTTACTACTAGTA 57.687 33.333 1.89 1.89 0.00 1.82
2284 3999 4.512198 TGGTTGTTCGACGTATCAATGTTT 59.488 37.500 0.00 0.00 0.00 2.83
2315 4030 2.645730 TTTGCAGCAGACGTGTTTTT 57.354 40.000 0.00 0.00 0.00 1.94
2347 4062 7.456253 CAGTTCGAATTCATTATCGACAGTTT 58.544 34.615 0.00 0.00 46.65 2.66
2384 4099 0.392327 TGTGTGTGTGTCTGTGTGGG 60.392 55.000 0.00 0.00 0.00 4.61
2403 4118 6.930068 AGTACTCCAAAGTATACACAGGTT 57.070 37.500 5.50 0.00 40.08 3.50
2404 4119 7.180663 AGTAGTACTCCAAAGTATACACAGGT 58.819 38.462 0.00 0.00 40.08 4.00
2405 4120 7.642082 AGTAGTACTCCAAAGTATACACAGG 57.358 40.000 0.00 3.55 40.08 4.00
3059 4792 3.461773 CGACAGCAGATCCCCCGT 61.462 66.667 0.00 0.00 0.00 5.28
3695 5450 8.944029 CAACATAATAAAATTCCCATGTTGCAA 58.056 29.630 11.06 0.00 43.38 4.08
3796 5555 1.667830 CTTTTGCGCACCTCTCCGA 60.668 57.895 11.12 0.00 0.00 4.55
3813 5572 1.002134 CATGAAGACGGGGTTGCCT 60.002 57.895 0.00 0.00 0.00 4.75
3822 5581 6.668541 ATTTGATCCTACAACATGAAGACG 57.331 37.500 0.00 0.00 0.00 4.18
3863 5622 2.934553 GTTTATCCCGGCTACTCACAAC 59.065 50.000 0.00 0.00 0.00 3.32
3904 5663 1.303309 GATTCCGTTGGCATCCTCTG 58.697 55.000 0.00 0.00 0.00 3.35
3982 5741 5.227569 TCAAATCAGTGCTCCAAGACTTA 57.772 39.130 0.00 0.00 0.00 2.24
4112 5873 2.503895 AGCCTTGTCTTGAGAATGGG 57.496 50.000 0.00 0.00 0.00 4.00
4116 5877 4.623932 ACACATAGCCTTGTCTTGAGAA 57.376 40.909 0.00 0.00 0.00 2.87
4244 6005 9.357652 CGTGAAATTTCATAAACCAAGATCATT 57.642 29.630 23.05 0.00 39.73 2.57
4254 6015 4.256766 GTCGCGACGTGAAATTTCATAAAC 59.743 41.667 25.19 9.90 39.73 2.01
4262 6023 0.599204 AGGTGTCGCGACGTGAAATT 60.599 50.000 31.88 11.83 0.00 1.82
4322 6083 5.339177 TGCATGTACAAATTAATTGCCTCG 58.661 37.500 11.66 0.00 43.13 4.63
4347 6108 4.525100 ACATTAGCCCGTGGTAAAAACATT 59.475 37.500 0.00 0.00 37.92 2.71


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

AutoCloner maintained by Alex Coulton.