Multiple sequence alignment - TraesCS6A01G338400

Loading Multiple Alignment...

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 TraesCS6A01G338400 chr6A 100.000 2756 0 0 1 2756 571880423 571883178 0.000000e+00 5090.0
1 TraesCS6A01G338400 chr6B 87.337 1990 115 62 706 2635 643131157 643133069 0.000000e+00 2152.0
2 TraesCS6A01G338400 chr6B 91.095 1078 49 14 796 1852 642989372 642990423 0.000000e+00 1415.0
3 TraesCS6A01G338400 chr6B 92.857 126 8 1 664 788 642987438 642987563 6.060000e-42 182.0
4 TraesCS6A01G338400 chr6B 92.000 50 4 0 2707 2756 643133093 643133142 1.370000e-08 71.3
5 TraesCS6A01G338400 chr6D 89.915 1656 91 34 457 2090 427170404 427172005 0.000000e+00 2063.0
6 TraesCS6A01G338400 chr6D 90.625 544 43 8 1944 2482 427172011 427172551 0.000000e+00 715.0
7 TraesCS6A01G338400 chr6D 92.357 471 15 11 1 455 427169637 427170102 0.000000e+00 651.0
8 TraesCS6A01G338400 chr6D 83.582 670 53 10 1 619 12661443 12662106 2.380000e-160 575.0
9 TraesCS6A01G338400 chr6D 83.556 450 33 5 24 435 98137991 98138437 1.550000e-102 383.0
10 TraesCS6A01G338400 chr6D 90.722 194 15 3 2546 2738 427172548 427172739 3.520000e-64 255.0
11 TraesCS6A01G338400 chr3B 86.152 751 72 21 1003 1725 826919651 826918905 0.000000e+00 782.0
12 TraesCS6A01G338400 chr3B 84.816 461 31 3 11 433 298271111 298270652 7.050000e-116 427.0
13 TraesCS6A01G338400 chr3D 85.963 748 73 19 1003 1722 612263743 612264486 0.000000e+00 771.0
14 TraesCS6A01G338400 chr3D 85.736 666 52 8 1 639 30353757 30354406 0.000000e+00 664.0
15 TraesCS6A01G338400 chr3A 88.506 609 59 7 1003 1601 746900718 746901325 0.000000e+00 726.0
16 TraesCS6A01G338400 chr3A 84.935 697 50 12 1 646 651594359 651595051 0.000000e+00 654.0
17 TraesCS6A01G338400 chr1B 86.076 632 60 14 24 639 133252572 133251953 0.000000e+00 654.0
18 TraesCS6A01G338400 chr1B 77.652 528 95 15 1025 1535 546967819 546967298 1.600000e-77 300.0
19 TraesCS6A01G338400 chr1B 77.071 519 98 13 1025 1528 547178415 547177903 2.090000e-71 279.0
20 TraesCS6A01G338400 chr1B 78.421 380 65 13 1025 1394 546702163 546701791 5.940000e-57 231.0
21 TraesCS6A01G338400 chr2A 83.079 721 61 12 1 665 105546779 105546064 1.410000e-167 599.0
22 TraesCS6A01G338400 chr2A 84.713 471 33 8 1 433 49424687 49424218 4.220000e-118 435.0
23 TraesCS6A01G338400 chr5A 82.328 696 69 14 1 645 325183044 325183736 3.100000e-154 555.0
24 TraesCS6A01G338400 chr2D 83.717 608 41 19 1 558 599215147 599214548 3.150000e-144 521.0
25 TraesCS6A01G338400 chr2D 85.132 417 32 12 230 618 180996870 180997284 1.540000e-107 399.0
26 TraesCS6A01G338400 chr7D 83.388 608 43 18 1 558 133610326 133610925 6.810000e-141 510.0
27 TraesCS6A01G338400 chr7D 83.279 610 41 10 1 558 133494174 133493574 3.170000e-139 505.0
28 TraesCS6A01G338400 chr7A 82.246 659 51 18 14 619 653005352 653004707 2.450000e-140 508.0
29 TraesCS6A01G338400 chr4A 85.928 469 30 6 1 433 651204444 651204912 4.160000e-128 468.0
30 TraesCS6A01G338400 chr4A 85.138 471 31 5 1 433 16341594 16341125 1.950000e-121 446.0
31 TraesCS6A01G338400 chr5D 81.905 525 46 13 123 619 540035168 540035671 5.530000e-107 398.0
32 TraesCS6A01G338400 chr1D 77.756 517 98 9 1025 1528 406677000 406676488 4.460000e-78 302.0


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 TraesCS6A01G338400 chr6A 571880423 571883178 2755 False 5090.00 5090 100.00000 1 2756 1 chr6A.!!$F1 2755
1 TraesCS6A01G338400 chr6B 643131157 643133142 1985 False 1111.65 2152 89.66850 706 2756 2 chr6B.!!$F2 2050
2 TraesCS6A01G338400 chr6B 642987438 642990423 2985 False 798.50 1415 91.97600 664 1852 2 chr6B.!!$F1 1188
3 TraesCS6A01G338400 chr6D 427169637 427172739 3102 False 921.00 2063 90.90475 1 2738 4 chr6D.!!$F3 2737
4 TraesCS6A01G338400 chr6D 12661443 12662106 663 False 575.00 575 83.58200 1 619 1 chr6D.!!$F1 618
5 TraesCS6A01G338400 chr3B 826918905 826919651 746 True 782.00 782 86.15200 1003 1725 1 chr3B.!!$R2 722
6 TraesCS6A01G338400 chr3D 612263743 612264486 743 False 771.00 771 85.96300 1003 1722 1 chr3D.!!$F2 719
7 TraesCS6A01G338400 chr3D 30353757 30354406 649 False 664.00 664 85.73600 1 639 1 chr3D.!!$F1 638
8 TraesCS6A01G338400 chr3A 746900718 746901325 607 False 726.00 726 88.50600 1003 1601 1 chr3A.!!$F2 598
9 TraesCS6A01G338400 chr3A 651594359 651595051 692 False 654.00 654 84.93500 1 646 1 chr3A.!!$F1 645
10 TraesCS6A01G338400 chr1B 133251953 133252572 619 True 654.00 654 86.07600 24 639 1 chr1B.!!$R1 615
11 TraesCS6A01G338400 chr1B 546967298 546967819 521 True 300.00 300 77.65200 1025 1535 1 chr1B.!!$R3 510
12 TraesCS6A01G338400 chr1B 547177903 547178415 512 True 279.00 279 77.07100 1025 1528 1 chr1B.!!$R4 503
13 TraesCS6A01G338400 chr2A 105546064 105546779 715 True 599.00 599 83.07900 1 665 1 chr2A.!!$R2 664
14 TraesCS6A01G338400 chr5A 325183044 325183736 692 False 555.00 555 82.32800 1 645 1 chr5A.!!$F1 644
15 TraesCS6A01G338400 chr2D 599214548 599215147 599 True 521.00 521 83.71700 1 558 1 chr2D.!!$R1 557
16 TraesCS6A01G338400 chr7D 133610326 133610925 599 False 510.00 510 83.38800 1 558 1 chr7D.!!$F1 557
17 TraesCS6A01G338400 chr7D 133493574 133494174 600 True 505.00 505 83.27900 1 558 1 chr7D.!!$R1 557
18 TraesCS6A01G338400 chr7A 653004707 653005352 645 True 508.00 508 82.24600 14 619 1 chr7A.!!$R1 605
19 TraesCS6A01G338400 chr5D 540035168 540035671 503 False 398.00 398 81.90500 123 619 1 chr5D.!!$F1 496
20 TraesCS6A01G338400 chr1D 406676488 406677000 512 True 302.00 302 77.75600 1025 1528 1 chr1D.!!$R1 503

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
932 3123 0.395862 CCCGAGCCCTAGAGAACAGA 60.396 60.0 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
2515 4947 0.536724 CCCAGCAAATTAAGGCCACC 59.463 55.0 5.01 0.0 0.0 4.61 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
139 142 7.649533 TGATTGGAAATAATCAGCTTCACAT 57.350 32.000 0.00 0.00 40.95 3.21
501 865 8.517878 GGCATGCATCAAGTAATACTTTATCAT 58.482 33.333 21.36 5.13 36.03 2.45
529 893 0.952280 GCCTGCCATCTGATGTGATG 59.048 55.000 15.95 2.49 42.38 3.07
541 905 6.275494 TCTGATGTGATGCAATGTTGAATT 57.725 33.333 0.00 0.00 0.00 2.17
554 918 4.159377 TGTTGAATTCGCCATGTTCTTC 57.841 40.909 0.04 0.00 0.00 2.87
619 983 1.529438 GAATCGCAAAGTGGACGAACA 59.471 47.619 0.00 0.00 39.56 3.18
623 987 1.002900 CGCAAAGTGGACGAACAACAT 60.003 47.619 0.00 0.00 0.00 2.71
641 1005 5.104859 ACAACATATGGTTCACCGGTACATA 60.105 40.000 6.87 14.18 37.72 2.29
684 1056 2.209315 CCAAACCCTTGGTGCCCAG 61.209 63.158 0.00 0.00 46.25 4.45
697 1069 2.102578 GTGCCCAGCCAGATTTACATT 58.897 47.619 0.00 0.00 0.00 2.71
929 3120 1.817209 CACCCGAGCCCTAGAGAAC 59.183 63.158 0.00 0.00 0.00 3.01
930 3121 0.970937 CACCCGAGCCCTAGAGAACA 60.971 60.000 0.00 0.00 0.00 3.18
931 3122 0.684805 ACCCGAGCCCTAGAGAACAG 60.685 60.000 0.00 0.00 0.00 3.16
932 3123 0.395862 CCCGAGCCCTAGAGAACAGA 60.396 60.000 0.00 0.00 0.00 3.41
933 3124 1.475403 CCGAGCCCTAGAGAACAGAA 58.525 55.000 0.00 0.00 0.00 3.02
963 3177 5.011227 ACCTCCTCTACAAAGAAACACTCTC 59.989 44.000 0.00 0.00 31.02 3.20
968 3182 6.015856 CCTCTACAAAGAAACACTCTCTGAGA 60.016 42.308 7.24 7.24 31.02 3.27
970 3184 4.376146 ACAAAGAAACACTCTCTGAGAGC 58.624 43.478 29.66 15.75 46.12 4.09
971 3185 4.141846 ACAAAGAAACACTCTCTGAGAGCA 60.142 41.667 29.66 0.00 46.12 4.26
972 3186 3.658757 AGAAACACTCTCTGAGAGCAC 57.341 47.619 29.66 17.58 46.12 4.40
973 3187 2.298729 AGAAACACTCTCTGAGAGCACC 59.701 50.000 29.66 16.40 46.12 5.01
974 3188 0.972883 AACACTCTCTGAGAGCACCC 59.027 55.000 29.66 0.00 46.12 4.61
975 3189 1.247419 ACACTCTCTGAGAGCACCCG 61.247 60.000 29.66 17.17 46.12 5.28
976 3190 0.962855 CACTCTCTGAGAGCACCCGA 60.963 60.000 29.66 0.00 46.12 5.14
977 3191 0.679640 ACTCTCTGAGAGCACCCGAG 60.680 60.000 29.66 9.27 46.12 4.63
978 3192 2.003658 CTCTCTGAGAGCACCCGAGC 62.004 65.000 20.77 0.00 35.30 5.03
979 3193 2.283173 TCTGAGAGCACCCGAGCA 60.283 61.111 0.00 0.00 36.85 4.26
980 3194 2.125753 CTGAGAGCACCCGAGCAC 60.126 66.667 0.00 0.00 36.85 4.40
981 3195 2.917227 TGAGAGCACCCGAGCACA 60.917 61.111 0.00 0.00 36.85 4.57
982 3196 2.343758 GAGAGCACCCGAGCACAA 59.656 61.111 0.00 0.00 36.85 3.33
1362 3592 2.509561 GAGAAGGCGCGGAAGGAC 60.510 66.667 8.83 0.00 0.00 3.85
1769 4047 5.020132 CCCCTACTGAGAGAAGAAGAAGAA 58.980 45.833 0.00 0.00 0.00 2.52
1844 4126 0.250295 TCACAACTCGGCCAGAAAGG 60.250 55.000 2.24 0.00 41.84 3.11
1905 4187 3.247006 AGCGGACAGTCGATTTTACAT 57.753 42.857 0.00 0.00 0.00 2.29
1971 4391 4.394729 TGTCCACTCTGGGTCATAAAAAC 58.605 43.478 0.00 0.00 38.32 2.43
1976 4396 5.243730 CCACTCTGGGTCATAAAAACATGTT 59.756 40.000 4.92 4.92 32.67 2.71
1996 4417 8.998377 ACATGTTCATTTACCCTAAAAATTTGC 58.002 29.630 0.00 0.00 0.00 3.68
2008 4429 7.147811 ACCCTAAAAATTTGCAGTGTCTGTTTA 60.148 33.333 0.00 0.00 33.43 2.01
2017 4438 3.604772 GCAGTGTCTGTTTACAAAGCTCG 60.605 47.826 0.00 0.00 33.43 5.03
2087 4509 2.670019 AAATAAGGATTACCCCGGCC 57.330 50.000 0.00 0.00 36.73 6.13
2121 4543 6.367374 TGTGTTGTTTCATGTAGATAGGGA 57.633 37.500 0.00 0.00 0.00 4.20
2124 4546 7.888021 TGTGTTGTTTCATGTAGATAGGGAAAT 59.112 33.333 0.00 0.00 31.06 2.17
2145 4568 6.694877 AATAAAATACGAAGAAGCCCCTTC 57.305 37.500 5.80 5.80 40.45 3.46
2184 4608 4.260784 GCGAAAACTGAACAACTGAGACAT 60.261 41.667 0.00 0.00 0.00 3.06
2200 4624 0.606096 ACATCATCCCGACGACAACA 59.394 50.000 0.00 0.00 0.00 3.33
2218 4642 7.174253 ACGACAACATAATCAAACCACTAACAT 59.826 33.333 0.00 0.00 0.00 2.71
2329 4760 4.634004 GGCAAACCCATTTAGTTAATTGCC 59.366 41.667 10.05 10.05 39.88 4.52
2416 4847 4.322049 CCTTTCTTTAGTTCTCTCCGCTGA 60.322 45.833 0.00 0.00 0.00 4.26
2420 4852 3.577649 TTAGTTCTCTCCGCTGACAAG 57.422 47.619 0.00 0.00 0.00 3.16
2421 4853 1.333177 AGTTCTCTCCGCTGACAAGT 58.667 50.000 0.00 0.00 0.00 3.16
2428 4860 1.662629 CTCCGCTGACAAGTATGCAAG 59.337 52.381 0.00 0.00 0.00 4.01
2485 4917 4.549458 TCATTCAAAGCAAGTTAAGCTGC 58.451 39.130 0.00 0.00 42.53 5.25
2501 4933 3.119291 AGCTGCTCGATTTGTAAGATCG 58.881 45.455 0.00 0.40 45.72 3.69
2502 4934 2.860735 GCTGCTCGATTTGTAAGATCGT 59.139 45.455 6.42 0.00 44.89 3.73
2505 4937 4.490743 TGCTCGATTTGTAAGATCGTGAA 58.509 39.130 11.30 0.10 44.89 3.18
2506 4938 4.326278 TGCTCGATTTGTAAGATCGTGAAC 59.674 41.667 11.30 0.00 44.89 3.18
2507 4939 4.326278 GCTCGATTTGTAAGATCGTGAACA 59.674 41.667 11.30 0.00 44.89 3.18
2508 4940 5.163992 GCTCGATTTGTAAGATCGTGAACAA 60.164 40.000 11.30 0.00 44.89 2.83
2509 4941 6.455646 GCTCGATTTGTAAGATCGTGAACAAT 60.456 38.462 11.30 0.00 44.89 2.71
2510 4942 7.253983 GCTCGATTTGTAAGATCGTGAACAATA 60.254 37.037 11.30 0.00 44.89 1.90
2511 4943 8.642908 TCGATTTGTAAGATCGTGAACAATAT 57.357 30.769 6.42 0.00 44.89 1.28
2512 4944 8.539674 TCGATTTGTAAGATCGTGAACAATATG 58.460 33.333 6.42 0.00 44.89 1.78
2513 4945 8.539674 CGATTTGTAAGATCGTGAACAATATGA 58.460 33.333 0.00 0.00 40.98 2.15
2516 4948 7.770801 TGTAAGATCGTGAACAATATGAAGG 57.229 36.000 0.00 0.00 0.00 3.46
2517 4949 7.327975 TGTAAGATCGTGAACAATATGAAGGT 58.672 34.615 0.00 0.00 0.00 3.50
2518 4950 6.668541 AAGATCGTGAACAATATGAAGGTG 57.331 37.500 0.00 0.00 0.00 4.00
2519 4951 5.118990 AGATCGTGAACAATATGAAGGTGG 58.881 41.667 0.00 0.00 0.00 4.61
2520 4952 3.006940 TCGTGAACAATATGAAGGTGGC 58.993 45.455 0.00 0.00 0.00 5.01
2521 4953 2.097466 CGTGAACAATATGAAGGTGGCC 59.903 50.000 0.00 0.00 0.00 5.36
2539 4971 3.204158 TGGCCTTAATTTGCTGGGAGATA 59.796 43.478 3.32 0.00 0.00 1.98
2540 4972 4.215109 GGCCTTAATTTGCTGGGAGATAA 58.785 43.478 0.00 0.00 0.00 1.75
2541 4973 4.835056 GGCCTTAATTTGCTGGGAGATAAT 59.165 41.667 0.00 0.00 0.00 1.28
2564 4996 5.856126 TCATAAGAAACATGTTCACCGTC 57.144 39.130 12.39 5.31 0.00 4.79
2568 5000 2.073816 GAAACATGTTCACCGTCGGAT 58.926 47.619 20.51 0.00 0.00 4.18
2636 5068 3.673809 CACAGGTTCAAAGTAGACGCTAC 59.326 47.826 8.42 8.42 0.00 3.58
2638 5070 4.021368 ACAGGTTCAAAGTAGACGCTACAT 60.021 41.667 15.98 4.85 0.00 2.29
2646 5078 8.797266 TCAAAGTAGACGCTACATACAATATG 57.203 34.615 15.98 0.00 0.00 1.78
2650 5083 6.715718 AGTAGACGCTACATACAATATGAGGT 59.284 38.462 15.98 0.00 0.00 3.85
2655 5088 8.758633 ACGCTACATACAATATGAGGTTTATC 57.241 34.615 2.88 0.00 0.00 1.75
2677 5110 3.574614 GAAACGATTGTTGGATGGTTGG 58.425 45.455 0.00 0.00 38.62 3.77
2738 5180 2.985957 TTGCTTGGCTTGCTTTCTTT 57.014 40.000 4.23 0.00 0.00 2.52
2739 5181 2.514205 TGCTTGGCTTGCTTTCTTTC 57.486 45.000 4.23 0.00 0.00 2.62
2743 5185 3.323243 CTTGGCTTGCTTTCTTTCCATG 58.677 45.455 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 8.725405 TTGAGTGACTACAATGTGTTTTTCTA 57.275 30.769 0.00 0.00 0.00 2.10
114 117 7.649533 TGTGAAGCTGATTATTTCCAATCAT 57.350 32.000 0.00 0.00 42.49 2.45
529 893 2.609350 ACATGGCGAATTCAACATTGC 58.391 42.857 6.22 0.00 0.00 3.56
541 905 0.251916 ATTCCCGAAGAACATGGCGA 59.748 50.000 0.00 0.00 37.29 5.54
619 983 3.985019 TGTACCGGTGAACCATATGTT 57.015 42.857 19.93 0.00 40.81 2.71
641 1005 1.265905 CGCAAAGCTCTTTTTACCGGT 59.734 47.619 13.98 13.98 0.00 5.28
798 2985 0.465287 ATCCCGGGCAATGCATTTTC 59.535 50.000 18.49 4.53 0.00 2.29
895 3086 4.552355 TCGGGTGCTCGTGTTTATATATG 58.448 43.478 0.00 0.00 0.00 1.78
896 3087 4.806330 CTCGGGTGCTCGTGTTTATATAT 58.194 43.478 0.00 0.00 0.00 0.86
921 3112 5.245075 AGGAGGTCTGTTTTCTGTTCTCTAG 59.755 44.000 0.00 0.00 0.00 2.43
929 3120 4.873746 TGTAGAGGAGGTCTGTTTTCTG 57.126 45.455 0.00 0.00 36.64 3.02
930 3121 5.602978 TCTTTGTAGAGGAGGTCTGTTTTCT 59.397 40.000 0.00 0.00 36.64 2.52
931 3122 5.855045 TCTTTGTAGAGGAGGTCTGTTTTC 58.145 41.667 0.00 0.00 36.64 2.29
932 3123 5.888982 TCTTTGTAGAGGAGGTCTGTTTT 57.111 39.130 0.00 0.00 36.64 2.43
933 3124 5.888982 TTCTTTGTAGAGGAGGTCTGTTT 57.111 39.130 0.00 0.00 36.64 2.83
963 3177 2.125753 GTGCTCGGGTGCTCTCAG 60.126 66.667 0.00 0.00 0.00 3.35
968 3182 0.324943 AATACTTGTGCTCGGGTGCT 59.675 50.000 0.00 0.00 0.00 4.40
970 3184 1.086696 CCAATACTTGTGCTCGGGTG 58.913 55.000 0.00 0.00 0.00 4.61
971 3185 0.981183 TCCAATACTTGTGCTCGGGT 59.019 50.000 0.00 0.00 0.00 5.28
972 3186 2.213499 GATCCAATACTTGTGCTCGGG 58.787 52.381 0.00 0.00 0.00 5.14
973 3187 1.860950 CGATCCAATACTTGTGCTCGG 59.139 52.381 0.00 0.00 0.00 4.63
974 3188 2.809446 TCGATCCAATACTTGTGCTCG 58.191 47.619 0.00 0.00 0.00 5.03
975 3189 4.122776 ACATCGATCCAATACTTGTGCTC 58.877 43.478 0.00 0.00 0.00 4.26
976 3190 4.122776 GACATCGATCCAATACTTGTGCT 58.877 43.478 0.00 0.00 0.00 4.40
977 3191 3.060272 CGACATCGATCCAATACTTGTGC 60.060 47.826 0.00 0.00 43.02 4.57
978 3192 4.359706 TCGACATCGATCCAATACTTGTG 58.640 43.478 0.00 0.00 44.22 3.33
979 3193 4.649088 TCGACATCGATCCAATACTTGT 57.351 40.909 0.00 0.00 44.22 3.16
1614 3859 1.154654 GTTCGCGAACTCAAAGCCG 60.155 57.895 37.61 0.00 38.25 5.52
1769 4047 1.032657 CGGACTCGGTGTGGATCTCT 61.033 60.000 0.00 0.00 0.00 3.10
1818 4100 1.947642 GCCGAGTTGTGACGACGTT 60.948 57.895 0.13 0.00 0.00 3.99
1844 4126 6.764308 TCAAAAGACTTGATCCATCAATCC 57.236 37.500 2.45 0.00 44.92 3.01
1958 4378 8.091449 GGTAAATGAACATGTTTTTATGACCCA 58.909 33.333 13.36 2.90 0.00 4.51
1971 4391 8.997323 TGCAAATTTTTAGGGTAAATGAACATG 58.003 29.630 0.00 0.00 0.00 3.21
1976 4396 7.731054 ACACTGCAAATTTTTAGGGTAAATGA 58.269 30.769 4.87 0.00 0.00 2.57
1993 4414 3.694072 AGCTTTGTAAACAGACACTGCAA 59.306 39.130 0.00 0.00 34.37 4.08
1996 4417 3.604772 GCGAGCTTTGTAAACAGACACTG 60.605 47.826 0.00 0.00 37.52 3.66
2064 4486 4.212716 GCCGGGGTAATCCTTATTTTCTT 58.787 43.478 2.18 0.00 35.33 2.52
2087 4509 7.587629 ACATGAAACAACACATTGATGTAGAG 58.412 34.615 0.00 0.00 39.39 2.43
2121 4543 6.661805 TGAAGGGGCTTCTTCGTATTTTATTT 59.338 34.615 13.37 0.00 44.38 1.40
2124 4546 5.168647 TGAAGGGGCTTCTTCGTATTTTA 57.831 39.130 13.37 0.00 44.38 1.52
2136 4558 5.449553 CTGGTTTCTATTATGAAGGGGCTT 58.550 41.667 0.00 0.00 0.00 4.35
2137 4559 4.141158 CCTGGTTTCTATTATGAAGGGGCT 60.141 45.833 0.00 0.00 0.00 5.19
2145 4568 5.357032 AGTTTTCGCCCTGGTTTCTATTATG 59.643 40.000 0.00 0.00 0.00 1.90
2184 4608 3.131400 TGATTATGTTGTCGTCGGGATGA 59.869 43.478 0.00 0.00 0.00 2.92
2218 4642 3.570540 CTGGAGTGGAGGTCATGATAGA 58.429 50.000 0.00 0.00 0.00 1.98
2252 4681 1.427592 GGCGTTGCTGATGCTCTCTC 61.428 60.000 5.13 0.00 40.27 3.20
2253 4682 1.449246 GGCGTTGCTGATGCTCTCT 60.449 57.895 5.13 0.00 40.27 3.10
2254 4683 1.023513 AAGGCGTTGCTGATGCTCTC 61.024 55.000 0.00 0.00 40.27 3.20
2329 4760 6.932356 ACAGTAATGGAATCTATTGCACAG 57.068 37.500 9.68 2.69 40.91 3.66
2428 4860 2.352503 AAACATTCTTGCGTGCATCC 57.647 45.000 0.00 0.00 0.00 3.51
2435 4867 6.910433 ACTAACTTACACAAAACATTCTTGCG 59.090 34.615 0.00 0.00 0.00 4.85
2485 4917 6.389622 TTGTTCACGATCTTACAAATCGAG 57.610 37.500 11.98 4.78 46.89 4.04
2501 4933 3.356290 AGGCCACCTTCATATTGTTCAC 58.644 45.455 5.01 0.00 0.00 3.18
2502 4934 3.737559 AGGCCACCTTCATATTGTTCA 57.262 42.857 5.01 0.00 0.00 3.18
2505 4937 6.630188 GCAAATTAAGGCCACCTTCATATTGT 60.630 38.462 5.01 0.00 43.57 2.71
2506 4938 5.754890 GCAAATTAAGGCCACCTTCATATTG 59.245 40.000 5.01 6.07 43.57 1.90
2507 4939 5.662657 AGCAAATTAAGGCCACCTTCATATT 59.337 36.000 5.01 0.00 43.57 1.28
2508 4940 5.069516 CAGCAAATTAAGGCCACCTTCATAT 59.930 40.000 5.01 0.00 43.57 1.78
2509 4941 4.402155 CAGCAAATTAAGGCCACCTTCATA 59.598 41.667 5.01 0.00 43.57 2.15
2510 4942 3.196254 CAGCAAATTAAGGCCACCTTCAT 59.804 43.478 5.01 0.00 43.57 2.57
2511 4943 2.562298 CAGCAAATTAAGGCCACCTTCA 59.438 45.455 5.01 0.00 43.57 3.02
2512 4944 2.094026 CCAGCAAATTAAGGCCACCTTC 60.094 50.000 5.01 0.00 43.57 3.46
2513 4945 1.901833 CCAGCAAATTAAGGCCACCTT 59.098 47.619 5.01 4.01 46.63 3.50
2514 4946 1.560505 CCAGCAAATTAAGGCCACCT 58.439 50.000 5.01 0.00 33.87 4.00
2515 4947 0.536724 CCCAGCAAATTAAGGCCACC 59.463 55.000 5.01 0.00 0.00 4.61
2516 4948 1.478105 CTCCCAGCAAATTAAGGCCAC 59.522 52.381 5.01 0.00 0.00 5.01
2517 4949 1.357420 TCTCCCAGCAAATTAAGGCCA 59.643 47.619 5.01 0.00 0.00 5.36
2518 4950 2.143876 TCTCCCAGCAAATTAAGGCC 57.856 50.000 0.00 0.00 0.00 5.19
2519 4951 6.040842 TGAATTATCTCCCAGCAAATTAAGGC 59.959 38.462 0.00 0.00 0.00 4.35
2520 4952 7.587037 TGAATTATCTCCCAGCAAATTAAGG 57.413 36.000 0.00 0.00 0.00 2.69
2539 4971 7.214467 ACGGTGAACATGTTTCTTATGAATT 57.786 32.000 13.36 0.00 31.56 2.17
2540 4972 6.402118 CGACGGTGAACATGTTTCTTATGAAT 60.402 38.462 13.36 0.00 31.56 2.57
2541 4973 5.107259 CGACGGTGAACATGTTTCTTATGAA 60.107 40.000 13.36 0.00 0.00 2.57
2636 5068 8.974408 TCGTTTCGATAAACCTCATATTGTATG 58.026 33.333 0.00 0.00 41.68 2.39
2638 5070 9.537192 AATCGTTTCGATAAACCTCATATTGTA 57.463 29.630 5.11 0.00 46.30 2.41
2646 5078 5.121142 TCCAACAATCGTTTCGATAAACCTC 59.879 40.000 5.11 0.00 46.30 3.85
2650 5083 5.413213 ACCATCCAACAATCGTTTCGATAAA 59.587 36.000 5.11 0.00 46.30 1.40
2655 5088 3.233578 CAACCATCCAACAATCGTTTCG 58.766 45.455 0.00 0.00 31.13 3.46


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

AutoCloner maintained by Alex Coulton.