Multiple sequence alignment - TraesCS5B01G504100

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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 TraesCS5B01G504100 chr5B 100.000 1808 0 0 1 1808 670247563 670245756 0.000000e+00 3339.0
1 TraesCS5B01G504100 chr5B 86.748 981 54 14 606 1558 670304715 670305647 0.000000e+00 1022.0
2 TraesCS5B01G504100 chr5B 85.729 981 53 16 606 1558 670139028 670138107 0.000000e+00 955.0
3 TraesCS5B01G504100 chr5B 100.000 229 0 0 2123 2351 670245441 670245213 7.770000e-115 424.0
4 TraesCS5B01G504100 chr5B 94.771 153 8 0 1408 1560 670136632 670136480 3.020000e-59 239.0
5 TraesCS5B01G504100 chr5D 87.106 1016 64 18 658 1631 531203391 531202401 0.000000e+00 1088.0
6 TraesCS5B01G504100 chr5D 87.623 816 41 19 847 1629 531254618 531253830 0.000000e+00 893.0
7 TraesCS5B01G504100 chr5D 85.501 669 58 17 14 659 531206767 531206115 0.000000e+00 662.0
8 TraesCS5B01G504100 chr5D 82.635 501 65 9 1 496 191910031 191910514 7.770000e-115 424.0
9 TraesCS5B01G504100 chr5D 92.760 221 16 0 2131 2351 528525450 528525670 1.050000e-83 320.0
10 TraesCS5B01G504100 chr5D 94.330 194 7 2 659 848 531254843 531254650 6.350000e-76 294.0
11 TraesCS5B01G504100 chr5D 92.523 107 7 1 1702 1808 528524959 528525064 4.050000e-33 152.0
12 TraesCS5B01G504100 chr5D 94.681 94 5 0 584 677 531255185 531255092 1.880000e-31 147.0
13 TraesCS5B01G504100 chr5D 100.000 32 0 0 1656 1687 223648126 223648095 2.520000e-05 60.2
14 TraesCS5B01G504100 chr4A 88.175 778 44 12 863 1608 641359466 641360227 0.000000e+00 883.0
15 TraesCS5B01G504100 chr4A 90.000 270 15 6 591 848 641358501 641358770 2.890000e-89 339.0
16 TraesCS5B01G504100 chr7A 85.435 563 64 12 1 559 733357816 733357268 9.430000e-159 569.0
17 TraesCS5B01G504100 chr7A 76.503 183 36 6 2147 2327 89895924 89896101 2.490000e-15 93.5
18 TraesCS5B01G504100 chr7A 100.000 34 0 0 1654 1687 98885326 98885293 1.950000e-06 63.9
19 TraesCS5B01G504100 chr3B 84.192 563 70 13 1 559 157930843 157930296 1.600000e-146 529.0
20 TraesCS5B01G504100 chr3B 82.837 571 64 16 1 560 670265915 670265368 4.540000e-132 481.0
21 TraesCS5B01G504100 chr3B 97.380 229 6 0 2123 2351 488327683 488327911 7.880000e-105 390.0
22 TraesCS5B01G504100 chr3B 99.065 107 1 0 1702 1808 488327516 488327622 2.380000e-45 193.0
23 TraesCS5B01G504100 chr3B 100.000 32 0 0 1656 1687 39576608 39576577 2.520000e-05 60.2
24 TraesCS5B01G504100 chr6A 83.894 565 71 13 1 560 7143827 7143278 2.680000e-144 521.0
25 TraesCS5B01G504100 chr4B 83.688 564 70 15 1 559 558739898 558740444 1.610000e-141 512.0
26 TraesCS5B01G504100 chr4B 88.194 288 30 3 1 285 558739471 558739757 8.050000e-90 340.0
27 TraesCS5B01G504100 chr4B 89.691 194 19 1 2123 2316 623168020 623168212 1.800000e-61 246.0
28 TraesCS5B01G504100 chr4B 90.909 88 7 1 1721 1808 89278063 89277977 1.480000e-22 117.0
29 TraesCS5B01G504100 chr4B 100.000 32 0 0 1656 1687 586023707 586023738 2.520000e-05 60.2
30 TraesCS5B01G504100 chr3A 81.560 564 83 8 1 560 712870535 712871081 1.660000e-121 446.0
31 TraesCS5B01G504100 chr3A 93.886 229 14 0 2123 2351 584437190 584436962 1.730000e-91 346.0
32 TraesCS5B01G504100 chr3A 100.000 32 0 0 1656 1687 217838886 217838917 2.520000e-05 60.2
33 TraesCS5B01G504100 chr3A 100.000 32 0 0 1656 1687 682975509 682975478 2.520000e-05 60.2
34 TraesCS5B01G504100 chr7B 98.253 229 3 1 2123 2351 500037846 500038073 1.310000e-107 399.0
35 TraesCS5B01G504100 chr7B 96.154 104 4 0 1705 1808 500037681 500037784 1.120000e-38 171.0
36 TraesCS5B01G504100 chr7B 100.000 34 0 0 1654 1687 394831994 394831961 1.950000e-06 63.9
37 TraesCS5B01G504100 chr7D 79.964 549 89 10 1 544 436405972 436405440 3.670000e-103 385.0
38 TraesCS5B01G504100 chr6D 77.818 559 99 16 9 560 391568661 391569201 2.910000e-84 322.0
39 TraesCS5B01G504100 chr1A 89.956 229 23 0 2123 2351 22831862 22832090 1.770000e-76 296.0
40 TraesCS5B01G504100 chr1A 83.981 206 33 0 2125 2330 2214731 2214936 5.120000e-47 198.0
41 TraesCS5B01G504100 chr2B 89.720 107 10 1 1702 1808 168822064 168821959 4.080000e-28 135.0
42 TraesCS5B01G504100 chr6B 100.000 32 0 0 1656 1687 164362361 164362330 2.520000e-05 60.2
43 TraesCS5B01G504100 chr5A 90.698 43 0 3 1656 1698 482121538 482121576 1.000000e-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 TraesCS5B01G504100 chr5B 670245213 670247563 2350 True 1881.500000 3339 100.000000 1 2351 2 chr5B.!!$R2 2350
1 TraesCS5B01G504100 chr5B 670304715 670305647 932 False 1022.000000 1022 86.748000 606 1558 1 chr5B.!!$F1 952
2 TraesCS5B01G504100 chr5B 670136480 670139028 2548 True 597.000000 955 90.250000 606 1560 2 chr5B.!!$R1 954
3 TraesCS5B01G504100 chr5D 531202401 531206767 4366 True 875.000000 1088 86.303500 14 1631 2 chr5D.!!$R2 1617
4 TraesCS5B01G504100 chr5D 531253830 531255185 1355 True 444.666667 893 92.211333 584 1629 3 chr5D.!!$R3 1045
5 TraesCS5B01G504100 chr5D 528524959 528525670 711 False 236.000000 320 92.641500 1702 2351 2 chr5D.!!$F2 649
6 TraesCS5B01G504100 chr4A 641358501 641360227 1726 False 611.000000 883 89.087500 591 1608 2 chr4A.!!$F1 1017
7 TraesCS5B01G504100 chr7A 733357268 733357816 548 True 569.000000 569 85.435000 1 559 1 chr7A.!!$R2 558
8 TraesCS5B01G504100 chr3B 157930296 157930843 547 True 529.000000 529 84.192000 1 559 1 chr3B.!!$R2 558
9 TraesCS5B01G504100 chr3B 670265368 670265915 547 True 481.000000 481 82.837000 1 560 1 chr3B.!!$R3 559
10 TraesCS5B01G504100 chr6A 7143278 7143827 549 True 521.000000 521 83.894000 1 560 1 chr6A.!!$R1 559
11 TraesCS5B01G504100 chr4B 558739471 558740444 973 False 426.000000 512 85.941000 1 559 2 chr4B.!!$F3 558
12 TraesCS5B01G504100 chr3A 712870535 712871081 546 False 446.000000 446 81.560000 1 560 1 chr3A.!!$F2 559
13 TraesCS5B01G504100 chr7D 436405440 436405972 532 True 385.000000 385 79.964000 1 544 1 chr7D.!!$R1 543
14 TraesCS5B01G504100 chr6D 391568661 391569201 540 False 322.000000 322 77.818000 9 560 1 chr6D.!!$F1 551

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
861 4353 0.397941 TTGCCTCCACACCAGAAGAG 59.602 55.0 0.0 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2312 8190 0.108615 CGATGCGGAAAGACAGTCCT 60.109 55.0 0.0 0.0 32.53 3.85 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
30 31 8.195436 CCTTCACTCGTAATCTTAAGGATAACA 58.805 37.037 1.85 0.00 35.14 2.41
170 599 0.981183 ATTGCTCCACAGAACCCGTA 59.019 50.000 0.00 0.00 0.00 4.02
232 670 8.874156 AGATACTTGGAGCATATCTATTCAACA 58.126 33.333 0.00 0.00 34.58 3.33
286 724 6.036517 AGCATCATTAAGTAGCAACGAAAGAG 59.963 38.462 0.00 0.00 0.00 2.85
287 725 6.183360 GCATCATTAAGTAGCAACGAAAGAGT 60.183 38.462 0.00 0.00 0.00 3.24
288 726 7.010183 GCATCATTAAGTAGCAACGAAAGAGTA 59.990 37.037 0.00 0.00 0.00 2.59
289 727 8.535592 CATCATTAAGTAGCAACGAAAGAGTAG 58.464 37.037 0.00 0.00 0.00 2.57
290 728 6.530534 TCATTAAGTAGCAACGAAAGAGTAGC 59.469 38.462 0.00 0.00 0.00 3.58
291 729 3.936372 AGTAGCAACGAAAGAGTAGCA 57.064 42.857 0.00 0.00 0.00 3.49
292 730 4.252971 AGTAGCAACGAAAGAGTAGCAA 57.747 40.909 0.00 0.00 0.00 3.91
293 731 3.988517 AGTAGCAACGAAAGAGTAGCAAC 59.011 43.478 0.00 0.00 0.00 4.17
294 732 1.792949 AGCAACGAAAGAGTAGCAACG 59.207 47.619 0.00 0.00 0.00 4.10
295 733 1.790623 GCAACGAAAGAGTAGCAACGA 59.209 47.619 0.00 0.00 0.00 3.85
296 734 2.220133 GCAACGAAAGAGTAGCAACGAA 59.780 45.455 0.00 0.00 0.00 3.85
297 735 3.302870 GCAACGAAAGAGTAGCAACGAAA 60.303 43.478 0.00 0.00 0.00 3.46
298 736 4.446234 CAACGAAAGAGTAGCAACGAAAG 58.554 43.478 0.00 0.00 0.00 2.62
299 737 3.973657 ACGAAAGAGTAGCAACGAAAGA 58.026 40.909 0.00 0.00 0.00 2.52
442 881 9.472995 GTAACACACGTCATAATTCACTTAATG 57.527 33.333 0.00 0.00 0.00 1.90
450 889 8.394877 CGTCATAATTCACTTAATGCAGGTTAA 58.605 33.333 0.00 0.00 0.00 2.01
462 901 1.981254 CAGGTTAACGCAAAGCCATG 58.019 50.000 0.00 0.00 0.00 3.66
490 929 5.833131 TCCAAGCATACTTTCCAAGAACTTT 59.167 36.000 0.00 0.00 32.29 2.66
534 988 7.995488 AGCTTTAGCAAGATCCAAGTTATATGT 59.005 33.333 4.33 0.00 45.16 2.29
560 1014 6.414109 ACAATATTCGTCACGACTATCTTTCG 59.586 38.462 10.21 1.45 42.36 3.46
577 1040 6.895607 TCTTTCGACGAATGCATACATTAA 57.104 33.333 11.71 0.00 46.59 1.40
578 1041 7.477144 TCTTTCGACGAATGCATACATTAAT 57.523 32.000 11.71 0.00 46.59 1.40
579 1042 7.915508 TCTTTCGACGAATGCATACATTAATT 58.084 30.769 11.71 0.00 46.59 1.40
580 1043 9.036671 TCTTTCGACGAATGCATACATTAATTA 57.963 29.630 11.71 0.00 46.59 1.40
581 1044 9.644993 CTTTCGACGAATGCATACATTAATTAA 57.355 29.630 11.71 0.00 46.59 1.40
603 1066 6.976934 AAGGAACACATGTATGGAAGTTTT 57.023 33.333 0.00 0.00 0.00 2.43
646 1109 7.645058 ATTTCCTTCTTCTTTTTGTGAGTCA 57.355 32.000 0.00 0.00 0.00 3.41
647 1110 7.645058 TTTCCTTCTTCTTTTTGTGAGTCAT 57.355 32.000 0.00 0.00 0.00 3.06
687 4143 3.512680 CACCGTCCTTTGATAGACAGAC 58.487 50.000 0.00 0.00 33.08 3.51
861 4353 0.397941 TTGCCTCCACACCAGAAGAG 59.602 55.000 0.00 0.00 0.00 2.85
1128 5269 4.467084 GCGGATGGCGGTGAGGAA 62.467 66.667 0.00 0.00 0.00 3.36
1196 5337 3.706373 GGACGAGCTGGCCCAGAA 61.706 66.667 16.85 0.00 32.44 3.02
1406 5564 1.669604 TGTGTGTGCACCGTGTATTT 58.330 45.000 15.69 0.00 44.65 1.40
1515 7324 3.382227 TGGTACAGTGAGTCTCGTTTCAA 59.618 43.478 0.00 0.00 0.00 2.69
1536 7345 1.666872 GTCCCTGGTGTGCACGTAC 60.667 63.158 13.13 5.49 0.00 3.67
1561 7376 4.913335 ACACGTCCGTTGATCTGTATAT 57.087 40.909 0.00 0.00 0.00 0.86
1577 7392 7.713764 TCTGTATATGTTTTCCATCATGACG 57.286 36.000 0.00 0.00 34.86 4.35
1616 7431 3.339141 GTTGTTCTTTCCTCCTAGGCAG 58.661 50.000 2.96 2.50 34.61 4.85
1631 7446 4.408821 CAGGGGTAAGCTGCGGCA 62.409 66.667 21.93 1.29 41.70 5.69
1632 7447 3.646715 AGGGGTAAGCTGCGGCAA 61.647 61.111 21.93 4.07 41.70 4.52
1633 7448 3.440415 GGGGTAAGCTGCGGCAAC 61.440 66.667 21.93 16.90 41.70 4.17
1634 7449 2.359975 GGGTAAGCTGCGGCAACT 60.360 61.111 21.93 1.06 41.70 3.16
1635 7450 1.078708 GGGTAAGCTGCGGCAACTA 60.079 57.895 21.93 5.05 41.70 2.24
1636 7451 1.366854 GGGTAAGCTGCGGCAACTAC 61.367 60.000 21.93 16.68 41.70 2.73
1637 7452 0.391263 GGTAAGCTGCGGCAACTACT 60.391 55.000 21.93 0.00 41.70 2.57
1638 7453 1.000145 GTAAGCTGCGGCAACTACTC 59.000 55.000 21.93 0.00 41.70 2.59
1639 7454 0.895530 TAAGCTGCGGCAACTACTCT 59.104 50.000 21.93 0.00 41.70 3.24
1640 7455 0.671781 AAGCTGCGGCAACTACTCTG 60.672 55.000 21.93 0.00 41.70 3.35
1641 7456 1.374758 GCTGCGGCAACTACTCTGT 60.375 57.895 14.08 0.00 38.54 3.41
1642 7457 0.951040 GCTGCGGCAACTACTCTGTT 60.951 55.000 14.08 0.00 38.54 3.16
1643 7458 1.512926 CTGCGGCAACTACTCTGTTT 58.487 50.000 3.44 0.00 0.00 2.83
1644 7459 1.461127 CTGCGGCAACTACTCTGTTTC 59.539 52.381 3.44 0.00 0.00 2.78
1645 7460 1.202592 TGCGGCAACTACTCTGTTTCA 60.203 47.619 0.00 0.00 0.00 2.69
1646 7461 1.871039 GCGGCAACTACTCTGTTTCAA 59.129 47.619 0.00 0.00 0.00 2.69
1647 7462 2.289547 GCGGCAACTACTCTGTTTCAAA 59.710 45.455 0.00 0.00 0.00 2.69
1648 7463 3.242936 GCGGCAACTACTCTGTTTCAAAA 60.243 43.478 0.00 0.00 0.00 2.44
1649 7464 4.556699 GCGGCAACTACTCTGTTTCAAAAT 60.557 41.667 0.00 0.00 0.00 1.82
1650 7465 5.334569 GCGGCAACTACTCTGTTTCAAAATA 60.335 40.000 0.00 0.00 0.00 1.40
1651 7466 6.077838 CGGCAACTACTCTGTTTCAAAATAC 58.922 40.000 0.00 0.00 0.00 1.89
1652 7467 6.073222 CGGCAACTACTCTGTTTCAAAATACT 60.073 38.462 0.00 0.00 0.00 2.12
1653 7468 7.298854 GGCAACTACTCTGTTTCAAAATACTC 58.701 38.462 0.00 0.00 0.00 2.59
1654 7469 7.041372 GGCAACTACTCTGTTTCAAAATACTCA 60.041 37.037 0.00 0.00 0.00 3.41
1655 7470 8.507249 GCAACTACTCTGTTTCAAAATACTCAT 58.493 33.333 0.00 0.00 0.00 2.90
1660 7475 8.908786 ACTCTGTTTCAAAATACTCATTCTCA 57.091 30.769 0.00 0.00 0.00 3.27
1661 7476 9.342308 ACTCTGTTTCAAAATACTCATTCTCAA 57.658 29.630 0.00 0.00 0.00 3.02
1692 7507 9.847224 AAGTCTTTTTAGAGATTCCAAACTACA 57.153 29.630 0.00 0.00 0.00 2.74
1699 7514 9.886132 TTTAGAGATTCCAAACTACATAAGACC 57.114 33.333 0.00 0.00 0.00 3.85
1700 7515 6.890293 AGAGATTCCAAACTACATAAGACCC 58.110 40.000 0.00 0.00 0.00 4.46
1707 7522 5.123344 CCAAACTACATAAGACCCTTTTCCG 59.877 44.000 0.00 0.00 0.00 4.30
1717 7532 1.254026 CCCTTTTCCGGAAACCCTTC 58.746 55.000 28.97 0.00 0.00 3.46
1719 7534 1.543871 CCTTTTCCGGAAACCCTTCGA 60.544 52.381 28.97 11.83 31.77 3.71
1727 7542 3.546714 AAACCCTTCGACGCCCAGG 62.547 63.158 0.00 0.00 0.00 4.45
1802 7617 4.812476 CGTGAGATCGCCGGGCAA 62.812 66.667 20.71 0.00 0.00 4.52
2154 8032 1.702957 TCGAGGAACAACTGGGGAAAT 59.297 47.619 0.00 0.00 0.00 2.17
2156 8034 2.228822 CGAGGAACAACTGGGGAAATTG 59.771 50.000 0.00 0.00 0.00 2.32
2159 8037 2.969262 GGAACAACTGGGGAAATTGGAA 59.031 45.455 0.00 0.00 0.00 3.53
2162 8040 5.247337 GGAACAACTGGGGAAATTGGAAATA 59.753 40.000 0.00 0.00 0.00 1.40
2169 8047 5.457686 TGGGGAAATTGGAAATATCAGAGG 58.542 41.667 0.00 0.00 0.00 3.69
2207 8085 5.089970 TGGTTCTTGATGATCGAGTTGAT 57.910 39.130 9.42 0.00 41.06 2.57
2342 8220 3.918544 CGCATCGGTGGGGAAAAT 58.081 55.556 4.51 0.00 34.86 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 4.739793 TGGAAGATCAGGTGTCCATTTTT 58.260 39.130 0.00 0.00 35.22 1.94
76 504 7.411486 TGTTAAGTCCAGAAAAATGTTCCAA 57.589 32.000 0.00 0.00 0.00 3.53
212 644 6.499106 TCCTGTTGAATAGATATGCTCCAA 57.501 37.500 0.00 0.00 0.00 3.53
232 670 2.511637 GAGGGGTGATCCAAGATTTCCT 59.488 50.000 0.00 0.00 37.22 3.36
294 732 0.951558 TTTGTGGCCGAAGCTCTTTC 59.048 50.000 0.00 0.00 39.73 2.62
295 733 1.620822 ATTTGTGGCCGAAGCTCTTT 58.379 45.000 0.00 0.00 39.73 2.52
296 734 2.027192 TCTATTTGTGGCCGAAGCTCTT 60.027 45.455 0.00 0.00 39.73 2.85
297 735 1.555075 TCTATTTGTGGCCGAAGCTCT 59.445 47.619 0.00 0.00 39.73 4.09
298 736 2.024176 TCTATTTGTGGCCGAAGCTC 57.976 50.000 0.00 0.00 39.73 4.09
299 737 2.488153 GTTTCTATTTGTGGCCGAAGCT 59.512 45.455 0.00 0.00 39.73 3.74
433 872 3.403968 TGCGTTAACCTGCATTAAGTGA 58.596 40.909 4.30 0.00 35.90 3.41
442 881 0.243636 ATGGCTTTGCGTTAACCTGC 59.756 50.000 0.00 0.00 0.00 4.85
462 901 3.119708 CTTGGAAAGTATGCTTGGAGCAC 60.120 47.826 4.55 0.00 46.87 4.40
490 929 1.067142 GCTTATGACCGTGTGGACTGA 60.067 52.381 0.00 0.00 39.21 3.41
534 988 7.585210 CGAAAGATAGTCGTGACGAATATTGTA 59.415 37.037 25.47 3.38 44.92 2.41
545 999 4.340263 CATTCGTCGAAAGATAGTCGTGA 58.660 43.478 12.40 0.00 45.19 4.35
560 1014 9.382244 GTTCCTTAATTAATGTATGCATTCGTC 57.618 33.333 12.62 0.00 43.61 4.20
577 1040 8.650143 AAACTTCCATACATGTGTTCCTTAAT 57.350 30.769 9.11 0.00 0.00 1.40
578 1041 8.472007 AAAACTTCCATACATGTGTTCCTTAA 57.528 30.769 9.11 0.00 0.00 1.85
579 1042 8.472007 AAAAACTTCCATACATGTGTTCCTTA 57.528 30.769 9.11 0.00 0.00 2.69
580 1043 6.976934 AAAACTTCCATACATGTGTTCCTT 57.023 33.333 9.11 0.00 0.00 3.36
581 1044 6.976934 AAAAACTTCCATACATGTGTTCCT 57.023 33.333 9.11 0.00 0.00 3.36
603 1066 9.713684 AAGGAAATTGATTCACCCATCTAATAA 57.286 29.630 0.00 0.00 39.98 1.40
687 4143 2.099098 GCCATCCACCTAACGGAAATTG 59.901 50.000 0.00 0.00 35.77 2.32
861 4353 6.422776 TGGAGTTCTCGCATTATCTTTTTC 57.577 37.500 0.00 0.00 0.00 2.29
908 5049 1.732917 CTGCCTAGCTCGTCTCTGG 59.267 63.158 0.00 0.00 0.00 3.86
929 5070 6.641169 AATAGAGAGATGCGATGTCAAGTA 57.359 37.500 0.00 0.00 0.00 2.24
1406 5564 6.072175 GCTTATTACACAACCAACCAGATTGA 60.072 38.462 0.00 0.00 41.23 2.57
1515 7324 1.600636 CGTGCACACCAGGGACAAT 60.601 57.895 18.64 0.00 0.00 2.71
1536 7345 2.251040 CAGATCAACGGACGTGTACAG 58.749 52.381 0.00 0.00 0.00 2.74
1561 7376 1.802069 TCGCGTCATGATGGAAAACA 58.198 45.000 16.59 0.00 0.00 2.83
1616 7431 2.530958 TAGTTGCCGCAGCTTACCCC 62.531 60.000 15.40 0.00 40.80 4.95
1634 7449 9.996554 TGAGAATGAGTATTTTGAAACAGAGTA 57.003 29.630 0.00 0.00 0.00 2.59
1635 7450 8.908786 TGAGAATGAGTATTTTGAAACAGAGT 57.091 30.769 0.00 0.00 0.00 3.24
1666 7481 9.847224 TGTAGTTTGGAATCTCTAAAAAGACTT 57.153 29.630 0.00 0.00 28.67 3.01
1673 7488 9.886132 GGTCTTATGTAGTTTGGAATCTCTAAA 57.114 33.333 0.00 0.00 0.00 1.85
1674 7489 8.483758 GGGTCTTATGTAGTTTGGAATCTCTAA 58.516 37.037 0.00 0.00 0.00 2.10
1675 7490 7.844779 AGGGTCTTATGTAGTTTGGAATCTCTA 59.155 37.037 0.00 0.00 0.00 2.43
1676 7491 6.674419 AGGGTCTTATGTAGTTTGGAATCTCT 59.326 38.462 0.00 0.00 0.00 3.10
1677 7492 6.890293 AGGGTCTTATGTAGTTTGGAATCTC 58.110 40.000 0.00 0.00 0.00 2.75
1678 7493 6.893020 AGGGTCTTATGTAGTTTGGAATCT 57.107 37.500 0.00 0.00 0.00 2.40
1679 7494 7.939784 AAAGGGTCTTATGTAGTTTGGAATC 57.060 36.000 0.00 0.00 0.00 2.52
1680 7495 7.396339 GGAAAAGGGTCTTATGTAGTTTGGAAT 59.604 37.037 0.00 0.00 0.00 3.01
1681 7496 6.717997 GGAAAAGGGTCTTATGTAGTTTGGAA 59.282 38.462 0.00 0.00 0.00 3.53
1682 7497 6.243148 GGAAAAGGGTCTTATGTAGTTTGGA 58.757 40.000 0.00 0.00 0.00 3.53
1683 7498 5.123344 CGGAAAAGGGTCTTATGTAGTTTGG 59.877 44.000 0.00 0.00 0.00 3.28
1684 7499 5.123344 CCGGAAAAGGGTCTTATGTAGTTTG 59.877 44.000 0.00 0.00 0.00 2.93
1685 7500 5.013391 TCCGGAAAAGGGTCTTATGTAGTTT 59.987 40.000 0.00 0.00 0.00 2.66
1686 7501 4.533311 TCCGGAAAAGGGTCTTATGTAGTT 59.467 41.667 0.00 0.00 0.00 2.24
1687 7502 4.098894 TCCGGAAAAGGGTCTTATGTAGT 58.901 43.478 0.00 0.00 0.00 2.73
1688 7503 4.748277 TCCGGAAAAGGGTCTTATGTAG 57.252 45.455 0.00 0.00 0.00 2.74
1689 7504 5.247862 GTTTCCGGAAAAGGGTCTTATGTA 58.752 41.667 30.49 0.82 31.33 2.29
1690 7505 4.077108 GTTTCCGGAAAAGGGTCTTATGT 58.923 43.478 30.49 0.00 31.33 2.29
1691 7506 3.442625 GGTTTCCGGAAAAGGGTCTTATG 59.557 47.826 30.49 0.00 31.33 1.90
1692 7507 3.562826 GGGTTTCCGGAAAAGGGTCTTAT 60.563 47.826 30.49 0.00 31.33 1.73
1693 7508 2.224843 GGGTTTCCGGAAAAGGGTCTTA 60.225 50.000 30.49 2.95 31.33 2.10
1694 7509 1.479942 GGGTTTCCGGAAAAGGGTCTT 60.480 52.381 30.49 0.00 31.33 3.01
1695 7510 0.111832 GGGTTTCCGGAAAAGGGTCT 59.888 55.000 30.49 0.00 31.33 3.85
1696 7511 0.111832 AGGGTTTCCGGAAAAGGGTC 59.888 55.000 30.49 17.43 38.33 4.46
1697 7512 0.559205 AAGGGTTTCCGGAAAAGGGT 59.441 50.000 30.49 14.04 38.33 4.34
1698 7513 1.254026 GAAGGGTTTCCGGAAAAGGG 58.746 55.000 30.49 0.00 38.33 3.95
1699 7514 0.879090 CGAAGGGTTTCCGGAAAAGG 59.121 55.000 30.49 12.40 38.33 3.11
1700 7515 1.534163 GTCGAAGGGTTTCCGGAAAAG 59.466 52.381 30.49 16.72 38.33 2.27
1707 7522 2.745100 GGGCGTCGAAGGGTTTCC 60.745 66.667 0.00 0.00 0.00 3.13
1727 7542 2.478033 CGCCAAACCCTAATCGCCC 61.478 63.158 0.00 0.00 0.00 6.13
1733 7548 1.611519 CAAGTTCCGCCAAACCCTAA 58.388 50.000 0.00 0.00 0.00 2.69
1757 7572 2.184830 TCGATCTAGTCCACGGGCG 61.185 63.158 0.00 0.00 0.00 6.13
2129 7944 1.475280 CCCAGTTGTTCCTCGATACGA 59.525 52.381 0.00 0.00 0.00 3.43
2133 8011 1.358152 TTCCCCAGTTGTTCCTCGAT 58.642 50.000 0.00 0.00 0.00 3.59
2145 8023 5.537674 CCTCTGATATTTCCAATTTCCCCAG 59.462 44.000 0.00 0.00 0.00 4.45
2154 8032 3.392616 GCCTCCTCCTCTGATATTTCCAA 59.607 47.826 0.00 0.00 0.00 3.53
2156 8034 2.028567 CGCCTCCTCCTCTGATATTTCC 60.029 54.545 0.00 0.00 0.00 3.13
2159 8037 2.243810 GTCGCCTCCTCCTCTGATATT 58.756 52.381 0.00 0.00 0.00 1.28
2162 8040 1.040339 GTGTCGCCTCCTCCTCTGAT 61.040 60.000 0.00 0.00 0.00 2.90
2226 8104 0.532862 AATACCTTGCCCGCGATCAG 60.533 55.000 8.23 0.00 0.00 2.90
2259 8137 5.523552 CGTTGGAGATTGTCTGTATATGCAA 59.476 40.000 0.00 0.00 0.00 4.08
2264 8142 3.702330 CGCGTTGGAGATTGTCTGTATA 58.298 45.455 0.00 0.00 0.00 1.47
2267 8145 1.291877 GCGCGTTGGAGATTGTCTGT 61.292 55.000 8.43 0.00 0.00 3.41
2273 8151 4.088421 CGTAGCGCGTTGGAGATT 57.912 55.556 8.43 0.00 35.54 2.40
2312 8190 0.108615 CGATGCGGAAAGACAGTCCT 60.109 55.000 0.00 0.00 32.53 3.85


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

AutoCloner maintained by Alex Coulton.