Multiple sequence alignment - TraesCS4B01G132400

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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 TraesCS4B01G132400 chr4B 100.000 2624 0 0 1 2624 172396431 172399054 0.000000e+00 4846.0
1 TraesCS4B01G132400 chr4B 87.586 290 35 1 2335 2624 605897785 605897497 4.180000e-88 335.0
2 TraesCS4B01G132400 chr4D 90.175 1598 100 26 1 1589 111610063 111611612 0.000000e+00 2028.0
3 TraesCS4B01G132400 chr4D 90.344 611 59 0 1722 2332 298270244 298270854 0.000000e+00 802.0
4 TraesCS4B01G132400 chr4D 90.106 283 28 0 2335 2617 298270888 298271170 4.130000e-98 368.0
5 TraesCS4B01G132400 chr4D 91.489 47 2 2 1684 1729 111611761 111611806 2.180000e-06 63.9
6 TraesCS4B01G132400 chr4A 90.564 922 39 17 808 1718 465524226 465523342 0.000000e+00 1177.0
7 TraesCS4B01G132400 chr4A 88.341 832 63 16 1 810 465525125 465524306 0.000000e+00 968.0
8 TraesCS4B01G132400 chr4A 87.398 611 77 0 1722 2332 666485913 666486523 0.000000e+00 702.0
9 TraesCS4B01G132400 chr4A 87.288 472 60 0 1131 1602 648784639 648785110 8.260000e-150 540.0
10 TraesCS4B01G132400 chr7D 89.362 611 65 0 1722 2332 544563288 544562678 0.000000e+00 769.0
11 TraesCS4B01G132400 chr7D 85.924 476 62 3 1131 1605 41592418 41592889 1.080000e-138 503.0
12 TraesCS4B01G132400 chr7D 89.655 290 30 0 2335 2624 544562644 544562355 1.150000e-98 370.0
13 TraesCS4B01G132400 chr3D 89.362 611 63 1 1722 2332 31893790 31893182 0.000000e+00 767.0
14 TraesCS4B01G132400 chr3D 90.345 290 28 0 2335 2624 31893148 31892859 5.300000e-102 381.0
15 TraesCS4B01G132400 chr2B 89.327 609 65 0 1724 2332 131302926 131303534 0.000000e+00 765.0
16 TraesCS4B01G132400 chr2B 87.725 611 75 0 1722 2332 683263977 683264587 0.000000e+00 713.0
17 TraesCS4B01G132400 chr2B 91.003 289 26 0 2335 2623 131303568 131303856 8.810000e-105 390.0
18 TraesCS4B01G132400 chr2B 89.655 290 30 0 2335 2624 683264621 683264910 1.150000e-98 370.0
19 TraesCS4B01G132400 chr2B 76.953 256 53 5 1722 1974 523797856 523797604 9.790000e-30 141.0
20 TraesCS4B01G132400 chr7A 88.052 611 73 0 1722 2332 79131271 79130661 0.000000e+00 725.0
21 TraesCS4B01G132400 chr7A 88.211 475 56 0 1131 1605 40987988 40988462 3.790000e-158 568.0
22 TraesCS4B01G132400 chr6B 87.004 554 72 0 1779 2332 173441248 173440695 2.220000e-175 625.0
23 TraesCS4B01G132400 chr6B 86.207 290 40 0 2335 2624 173440659 173440370 5.450000e-82 315.0
24 TraesCS4B01G132400 chr7B 87.185 476 61 0 1857 2332 706497589 706498064 2.300000e-150 542.0
25 TraesCS4B01G132400 chr7B 87.931 290 35 0 2335 2624 706498098 706498387 2.500000e-90 342.0
26 TraesCS4B01G132400 chrUn 80.556 288 54 2 2338 2624 337952074 337951788 1.220000e-53 220.0


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 TraesCS4B01G132400 chr4B 172396431 172399054 2623 False 4846.00 4846 100.0000 1 2624 1 chr4B.!!$F1 2623
1 TraesCS4B01G132400 chr4D 111610063 111611806 1743 False 1045.95 2028 90.8320 1 1729 2 chr4D.!!$F1 1728
2 TraesCS4B01G132400 chr4D 298270244 298271170 926 False 585.00 802 90.2250 1722 2617 2 chr4D.!!$F2 895
3 TraesCS4B01G132400 chr4A 465523342 465525125 1783 True 1072.50 1177 89.4525 1 1718 2 chr4A.!!$R1 1717
4 TraesCS4B01G132400 chr4A 666485913 666486523 610 False 702.00 702 87.3980 1722 2332 1 chr4A.!!$F2 610
5 TraesCS4B01G132400 chr7D 544562355 544563288 933 True 569.50 769 89.5085 1722 2624 2 chr7D.!!$R1 902
6 TraesCS4B01G132400 chr3D 31892859 31893790 931 True 574.00 767 89.8535 1722 2624 2 chr3D.!!$R1 902
7 TraesCS4B01G132400 chr2B 131302926 131303856 930 False 577.50 765 90.1650 1724 2623 2 chr2B.!!$F1 899
8 TraesCS4B01G132400 chr2B 683263977 683264910 933 False 541.50 713 88.6900 1722 2624 2 chr2B.!!$F2 902
9 TraesCS4B01G132400 chr7A 79130661 79131271 610 True 725.00 725 88.0520 1722 2332 1 chr7A.!!$R1 610
10 TraesCS4B01G132400 chr6B 173440370 173441248 878 True 470.00 625 86.6055 1779 2624 2 chr6B.!!$R1 845
11 TraesCS4B01G132400 chr7B 706497589 706498387 798 False 442.00 542 87.5580 1857 2624 2 chr7B.!!$F1 767

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
584 606 0.178981 ACAGGTCCATTGCTTGCTGT 60.179 50.0 0.0 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2170 2394 0.041684 TCCTCATCTGCCACTCAGGA 59.958 55.0 0.0 0.0 43.06 3.86 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
29 30 8.594550 AGGTCTACTCACTCTTATTAAGCAAAA 58.405 33.333 0.00 0.00 0.00 2.44
44 52 1.000060 GCAAAAGCATTGGTGAGAGCA 60.000 47.619 4.67 0.00 0.00 4.26
76 84 5.359576 TCTGTTGCAAAAGTTAATGGACTGT 59.640 36.000 16.28 0.00 0.00 3.55
84 92 5.947228 AAGTTAATGGACTGTCATGTGTG 57.053 39.130 10.38 0.00 0.00 3.82
150 159 2.684001 TTACATCCATCCACGTGGTC 57.316 50.000 32.74 0.00 40.27 4.02
197 208 2.040545 TGGCCCGATTTGTAGGAAAAGA 59.959 45.455 0.00 0.00 0.00 2.52
202 213 4.270008 CCGATTTGTAGGAAAAGACCCAT 58.730 43.478 0.00 0.00 0.00 4.00
209 220 1.077663 AGGAAAAGACCCATGCCATGT 59.922 47.619 3.63 0.00 0.00 3.21
240 251 6.831353 TGTGTCTTACTTTCATTCCCTTTTCA 59.169 34.615 0.00 0.00 0.00 2.69
265 276 9.674824 CATAAGAAATAGATGGACAAGAAATGC 57.325 33.333 0.00 0.00 0.00 3.56
267 278 6.189859 AGAAATAGATGGACAAGAAATGCCA 58.810 36.000 0.00 0.00 38.83 4.92
283 297 2.032981 CCACCCGCTCATAATTGCC 58.967 57.895 0.00 0.00 0.00 4.52
327 341 6.491062 TGCCTCCATTATCATCACCTATTTTG 59.509 38.462 0.00 0.00 0.00 2.44
351 365 5.452077 GCGAGTCTCATTATTACCACCTCTT 60.452 44.000 0.00 0.00 0.00 2.85
369 383 2.945008 TCTTGGAGCACTTCTTTGTGTG 59.055 45.455 0.00 0.00 39.89 3.82
398 412 4.301628 TGCATGCATAGTATTCTGTCTCG 58.698 43.478 18.46 0.00 0.00 4.04
422 436 0.588252 CGATTTGCAGGCCGGAATAG 59.412 55.000 5.05 0.00 0.00 1.73
458 472 7.606456 TCACAAGAAAGGAAAACGAATATAGCT 59.394 33.333 0.00 0.00 0.00 3.32
496 510 1.948834 TGAGGAGCAACAATGTGTGTG 59.051 47.619 0.00 0.00 40.60 3.82
545 564 3.054166 CACACACCGACGATGAAACTTA 58.946 45.455 0.00 0.00 0.00 2.24
558 577 5.006165 CGATGAAACTTAGAAAGGCTAGCTG 59.994 44.000 15.72 0.00 0.00 4.24
584 606 0.178981 ACAGGTCCATTGCTTGCTGT 60.179 50.000 0.00 0.00 0.00 4.40
609 631 4.980573 TGGCTCACTGGTTAGTTATGTTT 58.019 39.130 0.00 0.00 34.07 2.83
614 636 6.128526 GCTCACTGGTTAGTTATGTTTGTCTC 60.129 42.308 0.00 0.00 34.07 3.36
617 640 7.771361 TCACTGGTTAGTTATGTTTGTCTCAAA 59.229 33.333 0.00 0.00 34.07 2.69
619 642 9.131791 ACTGGTTAGTTATGTTTGTCTCAAAAT 57.868 29.630 0.00 0.00 31.66 1.82
633 656 9.442047 TTTGTCTCAAAATGCTTAAAAGGAAAA 57.558 25.926 0.00 0.00 0.00 2.29
666 691 3.801698 AGATAGCGTGACTCATTTGCAT 58.198 40.909 0.00 0.00 0.00 3.96
678 703 0.921347 ATTTGCATCGACGCGTAGTC 59.079 50.000 13.97 6.90 46.16 2.59
711 736 0.898320 TCTTCTGTGGTGCTAGGCTC 59.102 55.000 0.00 0.00 0.00 4.70
726 751 1.292223 GCTCCTAGCCACGTGTTGA 59.708 57.895 15.65 2.45 34.48 3.18
754 783 1.152922 TTTGGCTTTCCCGACGGTT 60.153 52.632 13.94 0.00 35.87 4.44
761 790 2.758009 CTTTCCCGACGGTTTGAAGTA 58.242 47.619 13.94 0.00 0.00 2.24
786 815 1.281419 TCTCTGAAATACCGGGGCAA 58.719 50.000 6.32 0.00 0.00 4.52
804 833 3.303791 GGCAATTTTAAGGCCGATCGTAG 60.304 47.826 15.09 0.08 38.04 3.51
826 936 8.166706 CGTAGATGTAAATCCAAAAGTACACAC 58.833 37.037 0.00 0.00 29.71 3.82
837 947 7.031372 TCCAAAAGTACACACGATATCAGTAC 58.969 38.462 3.12 9.43 36.26 2.73
894 1004 1.750193 CGTGGTGGCCAAATACAGAT 58.250 50.000 7.24 0.00 34.18 2.90
908 1018 9.173939 GCCAAATACAGATATCAAATCGAAAAG 57.826 33.333 5.32 0.00 0.00 2.27
967 1077 3.066342 CACATGTTCATCTGCCATCTTCC 59.934 47.826 0.00 0.00 0.00 3.46
1023 1133 1.065782 GCTTCCTTCTCCTGTTCCTCC 60.066 57.143 0.00 0.00 0.00 4.30
1024 1134 2.545810 CTTCCTTCTCCTGTTCCTCCT 58.454 52.381 0.00 0.00 0.00 3.69
1025 1135 2.239681 TCCTTCTCCTGTTCCTCCTC 57.760 55.000 0.00 0.00 0.00 3.71
1027 1137 2.927007 TCCTTCTCCTGTTCCTCCTCTA 59.073 50.000 0.00 0.00 0.00 2.43
1028 1138 3.053245 TCCTTCTCCTGTTCCTCCTCTAG 60.053 52.174 0.00 0.00 0.00 2.43
1029 1139 3.309556 CCTTCTCCTGTTCCTCCTCTAGT 60.310 52.174 0.00 0.00 0.00 2.57
1030 1140 4.079672 CCTTCTCCTGTTCCTCCTCTAGTA 60.080 50.000 0.00 0.00 0.00 1.82
1031 1141 4.781775 TCTCCTGTTCCTCCTCTAGTAG 57.218 50.000 0.00 0.00 0.00 2.57
1032 1142 4.113085 TCTCCTGTTCCTCCTCTAGTAGT 58.887 47.826 0.00 0.00 0.00 2.73
1033 1143 4.080243 TCTCCTGTTCCTCCTCTAGTAGTG 60.080 50.000 0.00 0.00 0.00 2.74
1034 1144 3.592427 TCCTGTTCCTCCTCTAGTAGTGT 59.408 47.826 0.00 0.00 0.00 3.55
1035 1145 3.697045 CCTGTTCCTCCTCTAGTAGTGTG 59.303 52.174 0.00 0.00 0.00 3.82
1036 1146 4.567958 CCTGTTCCTCCTCTAGTAGTGTGA 60.568 50.000 0.00 0.00 0.00 3.58
1037 1147 5.194473 TGTTCCTCCTCTAGTAGTGTGAT 57.806 43.478 0.00 0.00 0.00 3.06
1038 1148 4.950475 TGTTCCTCCTCTAGTAGTGTGATG 59.050 45.833 0.00 0.00 0.00 3.07
1512 1622 1.807573 CGGGTTCGAGAAGAGCAGC 60.808 63.158 0.00 0.00 39.00 5.25
1592 1702 1.268778 GCGTTGCTCCGTTTTGCTTC 61.269 55.000 0.00 0.00 0.00 3.86
1621 1731 2.076863 GAAACGGACATTGCTGCTACT 58.923 47.619 0.00 0.00 0.00 2.57
1632 1742 3.038788 TGCTGCTACTGATGTTTCGAA 57.961 42.857 0.00 0.00 0.00 3.71
1633 1743 3.599343 TGCTGCTACTGATGTTTCGAAT 58.401 40.909 0.00 0.00 0.00 3.34
1634 1744 4.002982 TGCTGCTACTGATGTTTCGAATT 58.997 39.130 0.00 0.00 0.00 2.17
1635 1745 4.455533 TGCTGCTACTGATGTTTCGAATTT 59.544 37.500 0.00 0.00 0.00 1.82
1636 1746 5.048782 TGCTGCTACTGATGTTTCGAATTTT 60.049 36.000 0.00 0.00 0.00 1.82
1720 1944 4.010667 TGTTCTATTTGTAACCGTGCCT 57.989 40.909 0.00 0.00 0.00 4.75
1771 1995 0.792640 CAGTTCGTGAGCTTCGCAAT 59.207 50.000 7.26 0.00 0.00 3.56
1774 1998 3.062639 CAGTTCGTGAGCTTCGCAATATT 59.937 43.478 7.26 0.00 0.00 1.28
1878 2102 0.177836 GGGTTTGCAGGCAGTTTTGT 59.822 50.000 0.00 0.00 0.00 2.83
1981 2205 9.797642 AGCAAGAATCATATTGATGTATTGGTA 57.202 29.630 10.18 0.00 37.15 3.25
1995 2219 4.469586 TGTATTGGTACAGGAAGATGCAGA 59.530 41.667 0.00 0.00 42.39 4.26
1999 2223 3.070159 TGGTACAGGAAGATGCAGATAGC 59.930 47.826 0.00 0.00 45.96 2.97
2039 2263 2.280186 GGTTCTATGGAGCGCCGG 60.280 66.667 2.29 0.00 36.79 6.13
2092 2316 1.091197 TGCGTACTCTGCATGCCATG 61.091 55.000 16.68 0.00 37.44 3.66
2155 2379 3.203040 CCCTCTATCCCCATGAACACTTT 59.797 47.826 0.00 0.00 0.00 2.66
2159 2383 6.235231 TCTATCCCCATGAACACTTTAGTC 57.765 41.667 0.00 0.00 0.00 2.59
2161 2385 4.553330 TCCCCATGAACACTTTAGTCTC 57.447 45.455 0.00 0.00 0.00 3.36
2170 2394 1.546476 CACTTTAGTCTCTCAGCCCGT 59.454 52.381 0.00 0.00 0.00 5.28
2224 2448 0.247460 CCGATGAGTGTGCTCTCCAA 59.753 55.000 0.00 0.00 42.13 3.53
2227 2451 2.159128 CGATGAGTGTGCTCTCCAAGAT 60.159 50.000 0.00 0.00 42.13 2.40
2246 2470 3.910627 AGATCTAGGTTGGTCAGGTGTTT 59.089 43.478 0.00 0.00 0.00 2.83
2281 2505 2.514824 GGTCAAGCCGGAGATGCC 60.515 66.667 5.05 2.59 0.00 4.40
2303 2527 4.069232 TCAAGGCCAGGCTCGACG 62.069 66.667 12.43 0.00 0.00 5.12
2332 2556 1.537202 GCCAATGAAGCGTTCAGACTT 59.463 47.619 6.59 0.00 43.98 3.01
2376 2633 4.202040 TGCTTTGTTGTGACAGAATTCAGG 60.202 41.667 8.44 1.79 37.04 3.86
2382 2639 2.224843 TGTGACAGAATTCAGGCACCAT 60.225 45.455 28.11 0.00 40.25 3.55
2397 2654 1.221566 CCATGCACTCCCACATCGA 59.778 57.895 0.00 0.00 0.00 3.59
2407 2664 0.652592 CCCACATCGATCGTTCAAGC 59.347 55.000 15.94 0.00 0.00 4.01
2412 2669 3.842428 CACATCGATCGTTCAAGCAAAAG 59.158 43.478 15.94 0.00 0.00 2.27
2424 2681 4.295051 TCAAGCAAAAGCAATTCCGTTAC 58.705 39.130 0.00 0.00 0.00 2.50
2425 2682 4.047822 CAAGCAAAAGCAATTCCGTTACA 58.952 39.130 0.00 0.00 0.00 2.41
2431 2688 6.616260 GCAAAAGCAATTCCGTTACAAGAATG 60.616 38.462 0.00 0.00 33.08 2.67
2458 2715 1.825474 AGTCACACCAGGATTACGAGG 59.175 52.381 0.00 0.00 0.00 4.63
2553 2810 3.123620 CAGCAGCAACTCGAGCCC 61.124 66.667 13.61 0.44 0.00 5.19
2572 2829 2.683933 GGGGAGCCCGAGAGTTCA 60.684 66.667 0.00 0.00 36.85 3.18
2585 2842 2.088423 AGAGTTCAGTAGCCTGTCGAG 58.912 52.381 0.00 0.00 39.82 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 61 5.591099 ACAGTCCATTAACTTTTGCAACAG 58.409 37.500 11.05 11.05 0.00 3.16
54 62 5.126222 TGACAGTCCATTAACTTTTGCAACA 59.874 36.000 0.00 0.00 0.00 3.33
55 63 5.587289 TGACAGTCCATTAACTTTTGCAAC 58.413 37.500 0.00 0.00 0.00 4.17
56 64 5.843673 TGACAGTCCATTAACTTTTGCAA 57.156 34.783 0.00 0.00 0.00 4.08
57 65 5.301551 ACATGACAGTCCATTAACTTTTGCA 59.698 36.000 0.00 0.00 0.00 4.08
150 159 1.341531 AGAGACTGTGGTCCAGAAACG 59.658 52.381 0.00 0.00 44.49 3.60
152 161 2.894126 GAGAGAGACTGTGGTCCAGAAA 59.106 50.000 0.00 0.00 44.49 2.52
197 208 0.322322 CAAGCAAACATGGCATGGGT 59.678 50.000 29.49 15.56 33.60 4.51
202 213 1.401761 AGACACAAGCAAACATGGCA 58.598 45.000 0.00 0.00 0.00 4.92
209 220 6.460953 GGGAATGAAAGTAAGACACAAGCAAA 60.461 38.462 0.00 0.00 0.00 3.68
240 251 8.854117 GGCATTTCTTGTCCATCTATTTCTTAT 58.146 33.333 0.00 0.00 0.00 1.73
252 263 0.893270 CGGGTGGCATTTCTTGTCCA 60.893 55.000 0.00 0.00 31.66 4.02
265 276 1.455383 GGGCAATTATGAGCGGGTGG 61.455 60.000 0.00 0.00 0.00 4.61
267 278 1.152756 GGGGCAATTATGAGCGGGT 60.153 57.895 0.00 0.00 0.00 5.28
283 297 0.545071 AAGATGCCAACCAAAGGGGG 60.545 55.000 0.00 0.00 42.91 5.40
308 322 7.172190 AGACTCGCAAAATAGGTGATGATAATG 59.828 37.037 0.00 0.00 0.00 1.90
327 341 4.038162 AGAGGTGGTAATAATGAGACTCGC 59.962 45.833 0.00 0.00 0.00 5.03
351 365 2.418368 ACACACAAAGAAGTGCTCCA 57.582 45.000 0.00 0.00 43.23 3.86
369 383 6.258727 ACAGAATACTATGCATGCAAGTGTAC 59.741 38.462 29.67 22.52 0.00 2.90
398 412 1.429148 CCGGCCTGCAAATCGAGTAC 61.429 60.000 0.00 0.00 0.00 2.73
422 436 6.391227 TTCCTTTCTTGTGATTTGAGGAAC 57.609 37.500 0.00 0.00 37.01 3.62
458 472 3.021695 CTCACTCTACCACCCACGAATA 58.978 50.000 0.00 0.00 0.00 1.75
462 476 0.611062 TCCTCACTCTACCACCCACG 60.611 60.000 0.00 0.00 0.00 4.94
496 510 1.129251 CTCATCACGTTGCATGTGACC 59.871 52.381 20.60 0.00 45.78 4.02
534 553 5.006165 CAGCTAGCCTTTCTAAGTTTCATCG 59.994 44.000 12.13 0.00 0.00 3.84
558 577 1.065854 AGCAATGGACCTGTCAGCTAC 60.066 52.381 0.00 0.00 0.00 3.58
584 606 4.225042 ACATAACTAACCAGTGAGCCATCA 59.775 41.667 0.00 0.00 34.36 3.07
609 631 7.494298 GGTTTTCCTTTTAAGCATTTTGAGACA 59.506 33.333 0.00 0.00 36.94 3.41
614 636 7.552458 AGTGGTTTTCCTTTTAAGCATTTTG 57.448 32.000 0.00 0.00 41.38 2.44
617 640 7.386059 CCATAGTGGTTTTCCTTTTAAGCATT 58.614 34.615 0.00 0.00 41.38 3.56
619 642 5.279256 GCCATAGTGGTTTTCCTTTTAAGCA 60.279 40.000 0.00 0.00 40.46 3.91
633 656 1.762957 ACGCTATCTTGCCATAGTGGT 59.237 47.619 10.88 2.28 40.02 4.16
678 703 1.532868 CAGAAGAGGAACTGCCAAACG 59.467 52.381 0.00 0.00 41.55 3.60
711 736 1.531149 CTTGTTCAACACGTGGCTAGG 59.469 52.381 21.57 4.23 0.00 3.02
726 751 3.430236 CGGGAAAGCCAAAGAAACTTGTT 60.430 43.478 0.00 0.00 35.15 2.83
754 783 7.333423 CGGTATTTCAGAGAAATGGTACTTCAA 59.667 37.037 13.61 0.00 0.00 2.69
761 790 3.371595 CCCCGGTATTTCAGAGAAATGGT 60.372 47.826 13.61 0.00 0.00 3.55
786 815 4.957296 ACATCTACGATCGGCCTTAAAAT 58.043 39.130 20.98 0.00 0.00 1.82
804 833 7.124347 TCGTGTGTACTTTTGGATTTACATC 57.876 36.000 0.00 0.00 0.00 3.06
826 936 5.035784 TCTTCATGCTCGTACTGATATCG 57.964 43.478 0.00 0.00 0.00 2.92
837 947 2.084610 TGGAGTGTTCTTCATGCTCG 57.915 50.000 0.00 0.00 0.00 5.03
925 1035 5.875224 TGTGAGGTGTTGGAAGATTGATTA 58.125 37.500 0.00 0.00 0.00 1.75
926 1036 4.728772 TGTGAGGTGTTGGAAGATTGATT 58.271 39.130 0.00 0.00 0.00 2.57
927 1037 4.371624 TGTGAGGTGTTGGAAGATTGAT 57.628 40.909 0.00 0.00 0.00 2.57
928 1038 3.855255 TGTGAGGTGTTGGAAGATTGA 57.145 42.857 0.00 0.00 0.00 2.57
967 1077 3.370978 GGATTCCGTCTTGTGTATGTGTG 59.629 47.826 0.00 0.00 0.00 3.82
1023 1133 3.623510 TCACGCTCATCACACTACTAGAG 59.376 47.826 0.00 0.00 0.00 2.43
1024 1134 3.606687 TCACGCTCATCACACTACTAGA 58.393 45.455 0.00 0.00 0.00 2.43
1025 1135 4.286101 CATCACGCTCATCACACTACTAG 58.714 47.826 0.00 0.00 0.00 2.57
1027 1137 2.159184 CCATCACGCTCATCACACTACT 60.159 50.000 0.00 0.00 0.00 2.57
1028 1138 2.196749 CCATCACGCTCATCACACTAC 58.803 52.381 0.00 0.00 0.00 2.73
1029 1139 1.136891 CCCATCACGCTCATCACACTA 59.863 52.381 0.00 0.00 0.00 2.74
1030 1140 0.107993 CCCATCACGCTCATCACACT 60.108 55.000 0.00 0.00 0.00 3.55
1031 1141 1.709147 GCCCATCACGCTCATCACAC 61.709 60.000 0.00 0.00 0.00 3.82
1032 1142 1.450134 GCCCATCACGCTCATCACA 60.450 57.895 0.00 0.00 0.00 3.58
1033 1143 2.528743 CGCCCATCACGCTCATCAC 61.529 63.158 0.00 0.00 0.00 3.06
1034 1144 2.202919 CGCCCATCACGCTCATCA 60.203 61.111 0.00 0.00 0.00 3.07
1035 1145 2.202932 ACGCCCATCACGCTCATC 60.203 61.111 0.00 0.00 0.00 2.92
1036 1146 2.315781 ATCACGCCCATCACGCTCAT 62.316 55.000 0.00 0.00 0.00 2.90
1037 1147 2.906182 GATCACGCCCATCACGCTCA 62.906 60.000 0.00 0.00 0.00 4.26
1038 1148 2.202932 ATCACGCCCATCACGCTC 60.203 61.111 0.00 0.00 0.00 5.03
1774 1998 2.601367 GGCCCTTCTTGCCTTGCA 60.601 61.111 0.00 0.00 45.70 4.08
1792 2016 2.886523 CTCCATGACAAAAACCAGAGCA 59.113 45.455 0.00 0.00 0.00 4.26
1816 2040 6.097554 CCTCAACTCTCTTGCCTCTTATCTTA 59.902 42.308 0.00 0.00 0.00 2.10
1822 2046 2.614259 TCCTCAACTCTCTTGCCTCTT 58.386 47.619 0.00 0.00 0.00 2.85
1878 2102 1.174078 TAGACCGTCGCTGTCCACAA 61.174 55.000 0.00 0.00 33.09 3.33
1930 2154 5.774498 AATTCTTCAGTTCCACTTTCACC 57.226 39.130 0.00 0.00 0.00 4.02
1975 2199 4.785346 ATCTGCATCTTCCTGTACCAAT 57.215 40.909 0.00 0.00 0.00 3.16
2039 2263 2.467826 GGTGGCGATCTGCTGCTTC 61.468 63.158 0.00 0.00 45.43 3.86
2092 2316 1.660560 AAAGCCATGCATCGTGAGGC 61.661 55.000 15.40 15.40 45.54 4.70
2116 2340 0.584876 GGGTTTCGTTGAAGTCACCG 59.415 55.000 0.00 0.00 32.87 4.94
2155 2379 0.394488 CAGGACGGGCTGAGAGACTA 60.394 60.000 0.00 0.00 0.00 2.59
2170 2394 0.041684 TCCTCATCTGCCACTCAGGA 59.958 55.000 0.00 0.00 43.06 3.86
2224 2448 3.191888 ACACCTGACCAACCTAGATCT 57.808 47.619 0.00 0.00 0.00 2.75
2227 2451 3.042682 TGAAACACCTGACCAACCTAGA 58.957 45.455 0.00 0.00 0.00 2.43
2246 2470 3.265479 TGACCATTGTCCCATGTGTATGA 59.735 43.478 0.00 0.00 41.01 2.15
2254 2478 0.680921 CGGCTTGACCATTGTCCCAT 60.681 55.000 0.00 0.00 41.01 4.00
2264 2488 2.514824 GGCATCTCCGGCTTGACC 60.515 66.667 0.00 0.00 0.00 4.02
2270 2494 1.031571 TTGACATTGGCATCTCCGGC 61.032 55.000 0.00 0.00 37.80 6.13
2281 2505 1.651240 CGAGCCTGGCCTTGACATTG 61.651 60.000 16.57 0.00 0.00 2.82
2322 2546 2.926200 CTCCACTGCATAAGTCTGAACG 59.074 50.000 0.00 0.00 36.83 3.95
2332 2556 4.700700 CAATGATCTGACTCCACTGCATA 58.299 43.478 0.00 0.00 0.00 3.14
2376 2633 1.660560 GATGTGGGAGTGCATGGTGC 61.661 60.000 0.00 0.00 45.29 5.01
2382 2639 1.141665 CGATCGATGTGGGAGTGCA 59.858 57.895 10.26 0.00 0.00 4.57
2386 2643 2.196749 CTTGAACGATCGATGTGGGAG 58.803 52.381 24.34 6.19 0.00 4.30
2407 2664 6.420604 ACATTCTTGTAACGGAATTGCTTTTG 59.579 34.615 0.00 0.00 33.16 2.44
2412 2669 5.118510 CCAAACATTCTTGTAACGGAATTGC 59.881 40.000 0.00 0.00 34.06 3.56
2424 2681 3.374745 GTGTGACTGCCAAACATTCTTG 58.625 45.455 0.00 0.00 33.11 3.02
2425 2682 2.362077 GGTGTGACTGCCAAACATTCTT 59.638 45.455 0.00 0.00 34.60 2.52
2431 2688 0.465460 TCCTGGTGTGACTGCCAAAC 60.465 55.000 0.00 0.00 33.93 2.93
2458 2715 2.864489 GCCAAGAGGACGCTATAAGCTC 60.864 54.545 0.00 0.00 36.53 4.09
2535 2792 3.123620 GGCTCGAGTTGCTGCTGG 61.124 66.667 15.13 0.00 0.00 4.85
2538 2795 3.123620 CAGGGCTCGAGTTGCTGC 61.124 66.667 15.13 0.00 0.00 5.25
2553 2810 2.685380 AACTCTCGGGCTCCCCAG 60.685 66.667 0.00 0.00 45.83 4.45
2572 2829 0.107116 ACCGATCTCGACAGGCTACT 60.107 55.000 0.22 0.00 43.02 2.57
2595 2852 4.666655 CGGTCTAGTCGTTTTTGCAGATTG 60.667 45.833 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.