Multiple sequence alignment - TraesCS2B01G255400

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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 TraesCS2B01G255400 chr2B 100.000 2549 0 0 1 2549 292448818 292451366 0.000000e+00 4708
1 TraesCS2B01G255400 chr2B 94.426 1238 64 2 562 1798 36241849 36243082 0.000000e+00 1899
2 TraesCS2B01G255400 chr2B 94.222 1246 66 3 557 1800 596962062 596963303 0.000000e+00 1897
3 TraesCS2B01G255400 chr2B 94.198 1241 66 3 562 1800 384810182 384808946 0.000000e+00 1888
4 TraesCS2B01G255400 chr2B 98.933 750 8 0 1800 2549 283951388 283950639 0.000000e+00 1341
5 TraesCS2B01G255400 chr2B 98.803 752 9 0 1798 2549 301306112 301305361 0.000000e+00 1339
6 TraesCS2B01G255400 chr2B 98.800 750 9 0 1800 2549 320648617 320647868 0.000000e+00 1336
7 TraesCS2B01G255400 chr2B 98.667 750 9 1 1800 2549 320658680 320657932 0.000000e+00 1328
8 TraesCS2B01G255400 chr2B 98.533 750 11 0 1800 2549 283941326 283940577 0.000000e+00 1325
9 TraesCS2B01G255400 chr2B 98.267 750 12 1 1800 2549 273191238 273191986 0.000000e+00 1312
10 TraesCS2B01G255400 chr5B 94.623 1246 59 5 557 1800 317969008 317970247 0.000000e+00 1923
11 TraesCS2B01G255400 chr5B 94.516 1240 63 2 561 1800 446193256 446192022 0.000000e+00 1908
12 TraesCS2B01G255400 chr5B 94.270 1239 65 3 563 1800 269389473 269390706 0.000000e+00 1890
13 TraesCS2B01G255400 chr5B 98.267 750 13 0 1800 2549 695921382 695920633 0.000000e+00 1314
14 TraesCS2B01G255400 chr5B 90.878 581 29 5 6 562 679880506 679881086 0.000000e+00 758
15 TraesCS2B01G255400 chr5B 90.361 581 31 5 6 562 650504724 650505303 0.000000e+00 739
16 TraesCS2B01G255400 chr5B 90.017 581 34 10 6 562 712557199 712557779 0.000000e+00 730
17 TraesCS2B01G255400 chr5B 83.986 562 79 8 8 562 258918158 258917601 8.020000e-150 540
18 TraesCS2B01G255400 chr3B 94.605 1242 62 2 560 1800 594400319 594399082 0.000000e+00 1917
19 TraesCS2B01G255400 chr1B 94.592 1239 62 2 562 1800 154580593 154581826 0.000000e+00 1912
20 TraesCS2B01G255400 chr1B 94.056 1245 67 3 557 1800 498442425 498441187 0.000000e+00 1882
21 TraesCS2B01G255400 chr1B 91.910 581 23 1 6 562 212546632 212547212 0.000000e+00 791
22 TraesCS2B01G255400 chr1B 91.081 583 27 2 4 562 268347884 268347303 0.000000e+00 765
23 TraesCS2B01G255400 chr1B 91.039 558 45 2 8 562 681388857 681389412 0.000000e+00 749
24 TraesCS2B01G255400 chr1B 86.355 557 73 3 8 562 176071726 176071171 2.810000e-169 604
25 TraesCS2B01G255400 chr6B 98.667 750 10 0 1800 2549 193865720 193866469 0.000000e+00 1330
26 TraesCS2B01G255400 chr6B 98.267 750 13 0 1800 2549 193856575 193857324 0.000000e+00 1314
27 TraesCS2B01G255400 chr6B 92.072 555 40 2 9 562 177698014 177698565 0.000000e+00 778
28 TraesCS2B01G255400 chr6B 90.941 563 44 5 4 562 112617447 112616888 0.000000e+00 750
29 TraesCS2B01G255400 chr4B 92.086 556 40 3 4 559 172079283 172079834 0.000000e+00 780
30 TraesCS2B01G255400 chr4B 90.785 586 30 9 1 562 412135922 412136507 0.000000e+00 761
31 TraesCS2B01G255400 chr4B 90.988 577 28 7 10 562 93179047 93178471 0.000000e+00 756
32 TraesCS2B01G255400 chr4B 90.988 577 29 4 9 562 595348662 595348086 0.000000e+00 756
33 TraesCS2B01G255400 chr4B 90.566 583 30 5 4 562 124679490 124680071 0.000000e+00 749
34 TraesCS2B01G255400 chr4B 90.395 583 31 8 4 562 37275878 37275297 0.000000e+00 743
35 TraesCS2B01G255400 chr4B 90.395 583 31 5 4 562 202283974 202284555 0.000000e+00 743
36 TraesCS2B01G255400 chr4B 90.395 583 31 6 4 562 383720339 383719758 0.000000e+00 743
37 TraesCS2B01G255400 chr4B 90.051 583 33 10 4 562 351997885 351997304 0.000000e+00 732
38 TraesCS2B01G255400 chr4B 89.880 583 34 2 4 562 253132858 253133439 0.000000e+00 726
39 TraesCS2B01G255400 chr4B 89.708 583 35 8 4 562 451669419 451668838 0.000000e+00 721
40 TraesCS2B01G255400 chr4B 89.501 581 37 4 6 562 365025328 365024748 0.000000e+00 713
41 TraesCS2B01G255400 chr4B 89.236 576 41 15 4 562 532161241 532161812 0.000000e+00 701
42 TraesCS2B01G255400 chr4B 87.857 560 59 7 8 562 655612017 655612572 0.000000e+00 649
43 TraesCS2B01G255400 chrUn 90.051 583 32 8 4 562 460663897 460663317 0.000000e+00 732
44 TraesCS2B01G255400 chrUn 89.708 583 35 6 4 562 36967900 36968481 0.000000e+00 721
45 TraesCS2B01G255400 chrUn 89.194 583 38 5 4 562 7676927 7676346 0.000000e+00 704
46 TraesCS2B01G255400 chrUn 89.194 583 38 5 4 562 270271854 270271273 0.000000e+00 704
47 TraesCS2B01G255400 chrUn 89.273 578 38 5 9 562 36250803 36250226 0.000000e+00 702
48 TraesCS2B01G255400 chrUn 89.273 578 38 5 9 562 39392002 39392579 0.000000e+00 702
49 TraesCS2B01G255400 chrUn 89.273 578 38 5 9 562 240829573 240830150 0.000000e+00 702
50 TraesCS2B01G255400 chrUn 88.851 583 40 6 4 562 216812059 216811478 0.000000e+00 693
51 TraesCS2B01G255400 chrUn 88.336 583 43 5 4 562 285638390 285637809 0.000000e+00 676
52 TraesCS2B01G255400 chrUn 88.225 586 44 6 1 562 350347449 350348033 0.000000e+00 676
53 TraesCS2B01G255400 chrUn 88.034 585 41 13 4 562 291757770 291758351 0.000000e+00 665
54 TraesCS2B01G255400 chrUn 88.034 585 41 13 4 562 291763354 291763935 0.000000e+00 665
55 TraesCS2B01G255400 chrUn 88.034 585 41 13 4 562 305347728 305347147 0.000000e+00 665
56 TraesCS2B01G255400 chrUn 89.377 546 33 9 41 562 238083666 238083122 0.000000e+00 664
57 TraesCS2B01G255400 chrUn 87.650 583 46 8 4 562 54956369 54956949 0.000000e+00 654
58 TraesCS2B01G255400 chrUn 87.716 578 47 10 9 562 242393184 242392607 0.000000e+00 652
59 TraesCS2B01G255400 chrUn 89.223 399 19 4 6 380 124727188 124726790 6.380000e-131 477
60 TraesCS2B01G255400 chrUn 86.435 317 18 8 4 296 469689682 469689367 8.800000e-85 324
61 TraesCS2B01G255400 chr4A 87.143 560 66 5 4 562 657740813 657741367 4.630000e-177 630
62 TraesCS2B01G255400 chr7B 86.047 559 72 3 9 562 437517263 437516706 1.690000e-166 595
63 TraesCS2B01G255400 chr7A 84.875 562 78 7 2 560 616826918 616827475 6.160000e-156 560
64 TraesCS2B01G255400 chr7A 84.602 565 76 10 1 560 616794075 616794633 3.710000e-153 551
65 TraesCS2B01G255400 chr7A 81.915 564 87 14 4 560 132670989 132671544 1.790000e-126 462
66 TraesCS2B01G255400 chr1A 94.169 343 20 0 220 562 431044478 431044136 8.080000e-145 523


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 TraesCS2B01G255400 chr2B 292448818 292451366 2548 False 4708 4708 100.000 1 2549 1 chr2B.!!$F3 2548
1 TraesCS2B01G255400 chr2B 36241849 36243082 1233 False 1899 1899 94.426 562 1798 1 chr2B.!!$F1 1236
2 TraesCS2B01G255400 chr2B 596962062 596963303 1241 False 1897 1897 94.222 557 1800 1 chr2B.!!$F4 1243
3 TraesCS2B01G255400 chr2B 384808946 384810182 1236 True 1888 1888 94.198 562 1800 1 chr2B.!!$R6 1238
4 TraesCS2B01G255400 chr2B 283950639 283951388 749 True 1341 1341 98.933 1800 2549 1 chr2B.!!$R2 749
5 TraesCS2B01G255400 chr2B 301305361 301306112 751 True 1339 1339 98.803 1798 2549 1 chr2B.!!$R3 751
6 TraesCS2B01G255400 chr2B 320647868 320648617 749 True 1336 1336 98.800 1800 2549 1 chr2B.!!$R4 749
7 TraesCS2B01G255400 chr2B 320657932 320658680 748 True 1328 1328 98.667 1800 2549 1 chr2B.!!$R5 749
8 TraesCS2B01G255400 chr2B 283940577 283941326 749 True 1325 1325 98.533 1800 2549 1 chr2B.!!$R1 749
9 TraesCS2B01G255400 chr2B 273191238 273191986 748 False 1312 1312 98.267 1800 2549 1 chr2B.!!$F2 749
10 TraesCS2B01G255400 chr5B 317969008 317970247 1239 False 1923 1923 94.623 557 1800 1 chr5B.!!$F2 1243
11 TraesCS2B01G255400 chr5B 446192022 446193256 1234 True 1908 1908 94.516 561 1800 1 chr5B.!!$R2 1239
12 TraesCS2B01G255400 chr5B 269389473 269390706 1233 False 1890 1890 94.270 563 1800 1 chr5B.!!$F1 1237
13 TraesCS2B01G255400 chr5B 695920633 695921382 749 True 1314 1314 98.267 1800 2549 1 chr5B.!!$R3 749
14 TraesCS2B01G255400 chr5B 679880506 679881086 580 False 758 758 90.878 6 562 1 chr5B.!!$F4 556
15 TraesCS2B01G255400 chr5B 650504724 650505303 579 False 739 739 90.361 6 562 1 chr5B.!!$F3 556
16 TraesCS2B01G255400 chr5B 712557199 712557779 580 False 730 730 90.017 6 562 1 chr5B.!!$F5 556
17 TraesCS2B01G255400 chr5B 258917601 258918158 557 True 540 540 83.986 8 562 1 chr5B.!!$R1 554
18 TraesCS2B01G255400 chr3B 594399082 594400319 1237 True 1917 1917 94.605 560 1800 1 chr3B.!!$R1 1240
19 TraesCS2B01G255400 chr1B 154580593 154581826 1233 False 1912 1912 94.592 562 1800 1 chr1B.!!$F1 1238
20 TraesCS2B01G255400 chr1B 498441187 498442425 1238 True 1882 1882 94.056 557 1800 1 chr1B.!!$R3 1243
21 TraesCS2B01G255400 chr1B 212546632 212547212 580 False 791 791 91.910 6 562 1 chr1B.!!$F2 556
22 TraesCS2B01G255400 chr1B 268347303 268347884 581 True 765 765 91.081 4 562 1 chr1B.!!$R2 558
23 TraesCS2B01G255400 chr1B 681388857 681389412 555 False 749 749 91.039 8 562 1 chr1B.!!$F3 554
24 TraesCS2B01G255400 chr1B 176071171 176071726 555 True 604 604 86.355 8 562 1 chr1B.!!$R1 554
25 TraesCS2B01G255400 chr6B 193865720 193866469 749 False 1330 1330 98.667 1800 2549 1 chr6B.!!$F3 749
26 TraesCS2B01G255400 chr6B 193856575 193857324 749 False 1314 1314 98.267 1800 2549 1 chr6B.!!$F2 749
27 TraesCS2B01G255400 chr6B 177698014 177698565 551 False 778 778 92.072 9 562 1 chr6B.!!$F1 553
28 TraesCS2B01G255400 chr6B 112616888 112617447 559 True 750 750 90.941 4 562 1 chr6B.!!$R1 558
29 TraesCS2B01G255400 chr4B 172079283 172079834 551 False 780 780 92.086 4 559 1 chr4B.!!$F2 555
30 TraesCS2B01G255400 chr4B 412135922 412136507 585 False 761 761 90.785 1 562 1 chr4B.!!$F5 561
31 TraesCS2B01G255400 chr4B 93178471 93179047 576 True 756 756 90.988 10 562 1 chr4B.!!$R2 552
32 TraesCS2B01G255400 chr4B 595348086 595348662 576 True 756 756 90.988 9 562 1 chr4B.!!$R7 553
33 TraesCS2B01G255400 chr4B 124679490 124680071 581 False 749 749 90.566 4 562 1 chr4B.!!$F1 558
34 TraesCS2B01G255400 chr4B 37275297 37275878 581 True 743 743 90.395 4 562 1 chr4B.!!$R1 558
35 TraesCS2B01G255400 chr4B 202283974 202284555 581 False 743 743 90.395 4 562 1 chr4B.!!$F3 558
36 TraesCS2B01G255400 chr4B 383719758 383720339 581 True 743 743 90.395 4 562 1 chr4B.!!$R5 558
37 TraesCS2B01G255400 chr4B 351997304 351997885 581 True 732 732 90.051 4 562 1 chr4B.!!$R3 558
38 TraesCS2B01G255400 chr4B 253132858 253133439 581 False 726 726 89.880 4 562 1 chr4B.!!$F4 558
39 TraesCS2B01G255400 chr4B 451668838 451669419 581 True 721 721 89.708 4 562 1 chr4B.!!$R6 558
40 TraesCS2B01G255400 chr4B 365024748 365025328 580 True 713 713 89.501 6 562 1 chr4B.!!$R4 556
41 TraesCS2B01G255400 chr4B 532161241 532161812 571 False 701 701 89.236 4 562 1 chr4B.!!$F6 558
42 TraesCS2B01G255400 chr4B 655612017 655612572 555 False 649 649 87.857 8 562 1 chr4B.!!$F7 554
43 TraesCS2B01G255400 chrUn 460663317 460663897 580 True 732 732 90.051 4 562 1 chrUn.!!$R10 558
44 TraesCS2B01G255400 chrUn 36967900 36968481 581 False 721 721 89.708 4 562 1 chrUn.!!$F1 558
45 TraesCS2B01G255400 chrUn 7676346 7676927 581 True 704 704 89.194 4 562 1 chrUn.!!$R1 558
46 TraesCS2B01G255400 chrUn 270271273 270271854 581 True 704 704 89.194 4 562 1 chrUn.!!$R7 558
47 TraesCS2B01G255400 chrUn 36250226 36250803 577 True 702 702 89.273 9 562 1 chrUn.!!$R2 553
48 TraesCS2B01G255400 chrUn 39392002 39392579 577 False 702 702 89.273 9 562 1 chrUn.!!$F2 553
49 TraesCS2B01G255400 chrUn 240829573 240830150 577 False 702 702 89.273 9 562 1 chrUn.!!$F4 553
50 TraesCS2B01G255400 chrUn 216811478 216812059 581 True 693 693 88.851 4 562 1 chrUn.!!$R4 558
51 TraesCS2B01G255400 chrUn 285637809 285638390 581 True 676 676 88.336 4 562 1 chrUn.!!$R8 558
52 TraesCS2B01G255400 chrUn 350347449 350348033 584 False 676 676 88.225 1 562 1 chrUn.!!$F7 561
53 TraesCS2B01G255400 chrUn 291757770 291758351 581 False 665 665 88.034 4 562 1 chrUn.!!$F5 558
54 TraesCS2B01G255400 chrUn 291763354 291763935 581 False 665 665 88.034 4 562 1 chrUn.!!$F6 558
55 TraesCS2B01G255400 chrUn 305347147 305347728 581 True 665 665 88.034 4 562 1 chrUn.!!$R9 558
56 TraesCS2B01G255400 chrUn 238083122 238083666 544 True 664 664 89.377 41 562 1 chrUn.!!$R5 521
57 TraesCS2B01G255400 chrUn 54956369 54956949 580 False 654 654 87.650 4 562 1 chrUn.!!$F3 558
58 TraesCS2B01G255400 chrUn 242392607 242393184 577 True 652 652 87.716 9 562 1 chrUn.!!$R6 553
59 TraesCS2B01G255400 chr4A 657740813 657741367 554 False 630 630 87.143 4 562 1 chr4A.!!$F1 558
60 TraesCS2B01G255400 chr7B 437516706 437517263 557 True 595 595 86.047 9 562 1 chr7B.!!$R1 553
61 TraesCS2B01G255400 chr7A 616826918 616827475 557 False 560 560 84.875 2 560 1 chr7A.!!$F3 558
62 TraesCS2B01G255400 chr7A 616794075 616794633 558 False 551 551 84.602 1 560 1 chr7A.!!$F2 559
63 TraesCS2B01G255400 chr7A 132670989 132671544 555 False 462 462 81.915 4 560 1 chr7A.!!$F1 556

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
983 1034 0.098728 CGGCGTTGACATCCCATTTC 59.901 55.0 0.0 0.0 0.0 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2194 2250 1.295423 GAACACTTAGGCTGGCCGA 59.705 57.895 5.93 0.0 41.95 5.54 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
495 544 1.078708 TCAAAACCGGCGGATCTCC 60.079 57.895 35.78 0.00 0.00 3.71
682 733 4.336993 ACTCGTTTTGTGAACTTTGGCATA 59.663 37.500 0.00 0.00 0.00 3.14
687 738 2.364632 TGTGAACTTTGGCATATCCGG 58.635 47.619 0.00 0.00 37.80 5.14
718 769 3.133362 TGTTTTGACTCGTCCCTTACAGT 59.867 43.478 0.00 0.00 0.00 3.55
731 782 0.847373 TTACAGTTGGGACCAGGCAA 59.153 50.000 0.00 0.00 0.00 4.52
732 783 1.072266 TACAGTTGGGACCAGGCAAT 58.928 50.000 0.00 0.00 0.00 3.56
757 808 2.165437 GGCGGCCAATTTTATTCAGACA 59.835 45.455 15.62 0.00 0.00 3.41
805 856 1.135915 CAGAGAGCCGTTGAGCATAGT 59.864 52.381 0.00 0.00 34.23 2.12
842 893 3.662247 GCTATATTAGCGGGTGACAGT 57.338 47.619 0.00 0.00 42.62 3.55
980 1031 2.824041 GCGGCGTTGACATCCCAT 60.824 61.111 9.37 0.00 0.00 4.00
981 1032 2.406616 GCGGCGTTGACATCCCATT 61.407 57.895 9.37 0.00 0.00 3.16
982 1033 1.933115 GCGGCGTTGACATCCCATTT 61.933 55.000 9.37 0.00 0.00 2.32
983 1034 0.098728 CGGCGTTGACATCCCATTTC 59.901 55.000 0.00 0.00 0.00 2.17
1017 1068 0.674581 CCATGTCTTCCGCAAGCTCA 60.675 55.000 0.00 0.00 0.00 4.26
1143 1194 3.518590 GAACCACAATCGTCCGTTCTAT 58.481 45.455 0.00 0.00 32.36 1.98
1183 1234 1.265236 AAGAATCGGGGCAATTGCAA 58.735 45.000 30.32 13.71 44.36 4.08
1216 1267 0.665298 GGGATCTTTGAGCAATCGGC 59.335 55.000 0.00 0.00 45.30 5.54
1264 1315 2.297033 GCATGCTTCTTTCTTTGGGTCA 59.703 45.455 11.37 0.00 0.00 4.02
1310 1361 2.854963 TGAACTGCAAGAAGAGCATGT 58.145 42.857 0.00 0.00 41.82 3.21
1313 1364 1.270518 ACTGCAAGAAGAGCATGTCGT 60.271 47.619 0.00 0.00 41.82 4.34
1476 1527 4.316025 AGCACTACCAATACCCATTTGT 57.684 40.909 0.00 0.00 0.00 2.83
1535 1586 6.257630 GCACTGGTTGTAATGTTGAAAATGTT 59.742 34.615 0.00 0.00 0.00 2.71
1628 1679 8.023050 TGTTGGTCAAAGTTGTTTAAATGTTG 57.977 30.769 0.00 0.00 0.00 3.33
1709 1765 5.543714 ACTTTTGATCAATGAAATGCAGCA 58.456 33.333 9.40 0.00 0.00 4.41
2178 2234 1.276421 CGAAGGGACAGACACAGGAAT 59.724 52.381 0.00 0.00 0.00 3.01
2194 2250 4.202503 ACAGGAATGAAGAAGGACACATGT 60.203 41.667 0.00 0.00 0.00 3.21
2242 2298 0.393537 GCAAGCTACCATGGCTCAGT 60.394 55.000 13.04 0.00 39.30 3.41
2265 2321 5.091552 TGGTAACACTAGGAGACATTTCCT 58.908 41.667 0.00 0.00 46.43 3.36
2315 2371 4.138290 ACTAGATAGTCAGATCCCACACG 58.862 47.826 0.00 0.00 0.00 4.49
2448 2504 6.599244 GCCATACATAACATACACATAGGCAT 59.401 38.462 0.00 0.00 36.03 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
495 544 1.305887 AGTTCGGGACCCCCTACTG 60.306 63.158 4.46 0.00 42.67 2.74
590 641 1.135859 GCAAAACTGAGCAGATGGACG 60.136 52.381 4.21 0.00 0.00 4.79
682 733 1.545582 CAAAACATTGACCTGCCGGAT 59.454 47.619 5.05 0.00 0.00 4.18
718 769 0.918983 CCTCTATTGCCTGGTCCCAA 59.081 55.000 0.00 0.00 0.00 4.12
731 782 4.469657 TGAATAAAATTGGCCGCCTCTAT 58.530 39.130 11.61 0.00 0.00 1.98
732 783 3.882888 CTGAATAAAATTGGCCGCCTCTA 59.117 43.478 11.61 0.00 0.00 2.43
757 808 2.646719 CAAGCCACGCATGCAACT 59.353 55.556 19.57 5.71 0.00 3.16
784 835 0.461548 TATGCTCAACGGCTCTCTGG 59.538 55.000 0.00 0.00 0.00 3.86
805 856 3.293714 CACACACCCGCAATGGCA 61.294 61.111 0.00 0.00 41.24 4.92
836 887 3.157949 TGGTCACCGCCACTGTCA 61.158 61.111 0.00 0.00 32.81 3.58
885 936 1.504446 GTCGTGCTCTCGCTCTCTT 59.496 57.895 0.00 0.00 36.97 2.85
973 1024 1.312815 GGAGCCGAAGAAATGGGATG 58.687 55.000 0.00 0.00 0.00 3.51
1143 1194 1.180456 CCCCATTCTTGCTGCACACA 61.180 55.000 0.00 0.00 0.00 3.72
1183 1234 1.278127 AGATCCCGACCACGAAAATGT 59.722 47.619 0.00 0.00 42.66 2.71
1216 1267 3.236816 GCATGAACACGGAACAAATCAG 58.763 45.455 0.00 0.00 0.00 2.90
1221 1272 0.950836 CCTGCATGAACACGGAACAA 59.049 50.000 0.00 0.00 0.00 2.83
1264 1315 0.990374 AGAGTCTTGGCCAGAGCATT 59.010 50.000 5.11 0.00 42.56 3.56
1310 1361 1.449423 AGCATGCGCAACCATACGA 60.449 52.632 17.11 0.00 42.27 3.43
1417 1468 4.631813 CCTAACCTTCTTCTTCAACATCCG 59.368 45.833 0.00 0.00 0.00 4.18
1476 1527 7.784470 ACCTACAAATGCCCAAAAGTATTTA 57.216 32.000 0.00 0.00 37.28 1.40
1535 1586 4.650588 CCTCCATAATTCATGCCTTTCCAA 59.349 41.667 0.00 0.00 32.84 3.53
1709 1765 7.243604 TGTTTGGCTCTGGAATAATTCATTT 57.756 32.000 0.00 0.00 0.00 2.32
2178 2234 1.608025 GCCGACATGTGTCCTTCTTCA 60.608 52.381 1.15 0.00 41.86 3.02
2194 2250 1.295423 GAACACTTAGGCTGGCCGA 59.705 57.895 5.93 0.00 41.95 5.54
2242 2298 5.046591 CAGGAAATGTCTCCTAGTGTTACCA 60.047 44.000 0.00 0.00 44.46 3.25
2265 2321 8.693625 GTTTATCTTTAGTAGCCTCTCTTACCA 58.306 37.037 0.00 0.00 0.00 3.25
2315 2371 8.620416 TGTGTATGATATTGAAATGCTTGGTAC 58.380 33.333 0.00 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.