Multiple sequence alignment - TraesCS7B01G184900

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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 TraesCS7B01G184900 chr7B 100.000 3542 0 0 1 3542 299406698 299403157 0.000000e+00 6541.0
1 TraesCS7B01G184900 chr7B 92.782 665 22 2 704 1367 246960319 246959680 0.000000e+00 939.0
2 TraesCS7B01G184900 chr7B 95.349 516 22 2 3028 3542 246959430 246958916 0.000000e+00 819.0
3 TraesCS7B01G184900 chr7B 96.825 252 8 0 1407 1658 246959685 246959434 4.230000e-114 422.0
4 TraesCS7B01G184900 chr7B 92.683 82 6 0 1358 1439 299405260 299405341 6.210000e-23 119.0
5 TraesCS7B01G184900 chr4B 96.345 2791 94 7 754 3542 401275956 401278740 0.000000e+00 4582.0
6 TraesCS7B01G184900 chr4B 83.160 481 57 13 3082 3542 375828149 375828625 5.470000e-113 418.0
7 TraesCS7B01G184900 chr4B 87.640 89 10 1 1122 1209 149991505 149991593 6.260000e-18 102.0
8 TraesCS7B01G184900 chr4B 89.024 82 7 1 1358 1439 401276639 401276560 2.250000e-17 100.0
9 TraesCS7B01G184900 chr4A 96.586 2138 70 3 1407 3542 311723628 311725764 0.000000e+00 3541.0
10 TraesCS7B01G184900 chr4A 92.810 765 29 2 604 1367 311722894 311723633 0.000000e+00 1085.0
11 TraesCS7B01G184900 chr4A 100.000 33 0 0 1358 1390 311723660 311723628 1.060000e-05 62.1
12 TraesCS7B01G184900 chr2B 96.569 1020 32 3 2525 3542 546969839 546970857 0.000000e+00 1687.0
13 TraesCS7B01G184900 chr2B 97.169 777 21 1 1407 2183 546968738 546969513 0.000000e+00 1312.0
14 TraesCS7B01G184900 chr2B 92.820 766 28 3 604 1367 546968003 546968743 0.000000e+00 1085.0
15 TraesCS7B01G184900 chr2B 95.530 604 26 1 1 603 179402812 179402209 0.000000e+00 965.0
16 TraesCS7B01G184900 chr2B 95.382 563 23 2 45 604 615876944 615877506 0.000000e+00 893.0
17 TraesCS7B01G184900 chr2B 97.952 293 5 1 2025 2316 546969529 546969821 1.130000e-139 507.0
18 TraesCS7B01G184900 chr2B 86.383 235 25 7 1995 2228 733162446 733162674 2.110000e-62 250.0
19 TraesCS7B01G184900 chr3B 97.844 603 12 1 1 603 613747469 613746868 0.000000e+00 1040.0
20 TraesCS7B01G184900 chr3B 95.307 554 23 3 1596 2147 406614479 406615031 0.000000e+00 876.0
21 TraesCS7B01G184900 chr3B 94.128 562 28 5 1590 2148 406613836 406614395 0.000000e+00 850.0
22 TraesCS7B01G184900 chr3B 93.600 250 13 3 1821 2069 158635616 158635863 1.550000e-98 370.0
23 TraesCS7B01G184900 chr3B 93.227 251 11 4 1821 2070 366553643 366553888 7.230000e-97 364.0
24 TraesCS7B01G184900 chr3B 83.934 361 42 10 3159 3505 530701360 530701718 7.330000e-87 331.0
25 TraesCS7B01G184900 chr3B 95.960 99 4 0 1673 1771 279756493 279756591 1.020000e-35 161.0
26 TraesCS7B01G184900 chr1B 94.536 604 32 1 1 604 358961070 358960468 0.000000e+00 931.0
27 TraesCS7B01G184900 chr1B 90.340 559 27 7 1590 2147 148507745 148508277 0.000000e+00 708.0
28 TraesCS7B01G184900 chr1B 92.593 54 4 0 979 1032 533963963 533963910 1.050000e-10 78.7
29 TraesCS7B01G184900 chr6B 94.253 609 30 3 1 604 465880095 465880703 0.000000e+00 926.0
30 TraesCS7B01G184900 chr6B 93.904 607 33 3 1 604 117995955 117996560 0.000000e+00 913.0
31 TraesCS7B01G184900 chr6B 94.464 560 28 3 1590 2147 391686053 391685495 0.000000e+00 859.0
32 TraesCS7B01G184900 chr6B 95.601 341 13 2 1808 2147 494393766 494393427 2.400000e-151 545.0
33 TraesCS7B01G184900 chr6B 95.437 263 11 1 1590 1851 494394030 494393768 5.470000e-113 418.0
34 TraesCS7B01G184900 chr6B 82.851 484 55 16 3082 3542 516307147 516307625 3.290000e-110 409.0
35 TraesCS7B01G184900 chr6B 81.743 482 63 17 3082 3542 162101266 162100789 2.580000e-101 379.0
36 TraesCS7B01G184900 chr6B 85.792 366 26 12 729 1088 250559041 250558696 7.230000e-97 364.0
37 TraesCS7B01G184900 chr6B 83.495 103 8 6 638 733 250564657 250564557 1.750000e-13 87.9
38 TraesCS7B01G184900 chr3D 93.388 605 31 4 1 603 233012505 233011908 0.000000e+00 887.0
39 TraesCS7B01G184900 chr3D 80.412 97 19 0 1122 1218 119300924 119301020 1.360000e-09 75.0
40 TraesCS7B01G184900 chr5A 93.245 607 31 4 1 604 503382173 503381574 0.000000e+00 885.0
41 TraesCS7B01G184900 chr5B 81.737 449 52 17 3082 3505 205586695 205586252 7.280000e-92 348.0
42 TraesCS7B01G184900 chr5B 87.912 91 11 0 1128 1218 342186779 342186869 1.340000e-19 108.0
43 TraesCS7B01G184900 chr5B 87.778 90 11 0 1129 1218 342178891 342178980 4.840000e-19 106.0
44 TraesCS7B01G184900 chr4D 83.505 97 16 0 1122 1218 466316505 466316601 1.350000e-14 91.6
45 TraesCS7B01G184900 chr1D 94.231 52 3 0 981 1032 112789132 112789183 2.930000e-11 80.5
46 TraesCS7B01G184900 chr1A 85.075 67 7 2 541 604 12493127 12493193 8.210000e-07 65.8


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 TraesCS7B01G184900 chr7B 299403157 299406698 3541 True 6541.000000 6541 100.000000 1 3542 1 chr7B.!!$R1 3541
1 TraesCS7B01G184900 chr7B 246958916 246960319 1403 True 726.666667 939 94.985333 704 3542 3 chr7B.!!$R2 2838
2 TraesCS7B01G184900 chr4B 401275956 401278740 2784 False 4582.000000 4582 96.345000 754 3542 1 chr4B.!!$F3 2788
3 TraesCS7B01G184900 chr4A 311722894 311725764 2870 False 2313.000000 3541 94.698000 604 3542 2 chr4A.!!$F1 2938
4 TraesCS7B01G184900 chr2B 546968003 546970857 2854 False 1147.750000 1687 96.127500 604 3542 4 chr2B.!!$F3 2938
5 TraesCS7B01G184900 chr2B 179402209 179402812 603 True 965.000000 965 95.530000 1 603 1 chr2B.!!$R1 602
6 TraesCS7B01G184900 chr2B 615876944 615877506 562 False 893.000000 893 95.382000 45 604 1 chr2B.!!$F1 559
7 TraesCS7B01G184900 chr3B 613746868 613747469 601 True 1040.000000 1040 97.844000 1 603 1 chr3B.!!$R1 602
8 TraesCS7B01G184900 chr3B 406613836 406615031 1195 False 863.000000 876 94.717500 1590 2148 2 chr3B.!!$F5 558
9 TraesCS7B01G184900 chr1B 358960468 358961070 602 True 931.000000 931 94.536000 1 604 1 chr1B.!!$R1 603
10 TraesCS7B01G184900 chr1B 148507745 148508277 532 False 708.000000 708 90.340000 1590 2147 1 chr1B.!!$F1 557
11 TraesCS7B01G184900 chr6B 465880095 465880703 608 False 926.000000 926 94.253000 1 604 1 chr6B.!!$F2 603
12 TraesCS7B01G184900 chr6B 117995955 117996560 605 False 913.000000 913 93.904000 1 604 1 chr6B.!!$F1 603
13 TraesCS7B01G184900 chr6B 391685495 391686053 558 True 859.000000 859 94.464000 1590 2147 1 chr6B.!!$R4 557
14 TraesCS7B01G184900 chr6B 494393427 494394030 603 True 481.500000 545 95.519000 1590 2147 2 chr6B.!!$R5 557
15 TraesCS7B01G184900 chr3D 233011908 233012505 597 True 887.000000 887 93.388000 1 603 1 chr3D.!!$R1 602
16 TraesCS7B01G184900 chr5A 503381574 503382173 599 True 885.000000 885 93.245000 1 604 1 chr5A.!!$R1 603

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
671 688 1.522668 CAATCAGTCCTTCACGGCAA 58.477 50.000 0.0 0.0 0.00 4.52 F
1029 1047 0.817654 CAGTCAGCCGAGTGATGGTA 59.182 55.000 0.0 0.0 44.18 3.25 F
1031 1049 1.103803 GTCAGCCGAGTGATGGTAGA 58.896 55.000 0.0 0.0 0.00 2.59 F
1032 1050 1.683917 GTCAGCCGAGTGATGGTAGAT 59.316 52.381 0.0 0.0 0.00 1.98 F
2232 3179 0.249447 CTGTTGTGTGACAGGCTCGA 60.249 55.000 0.0 0.0 42.58 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1915 2688 0.179089 ATCCTCAGATCTGCACACGC 60.179 55.0 18.36 0.0 39.24 5.34 R
2213 3160 0.249447 TCGAGCCTGTCACACAACAG 60.249 55.0 0.00 0.0 45.10 3.16 R
2232 3179 0.541392 TAGCGTTGCCAGACCATCAT 59.459 50.0 0.00 0.0 0.00 2.45 R
2353 3300 0.879090 GGGTGTCGGGTTTGTGAATC 59.121 55.0 0.00 0.0 0.00 2.52 R
3193 4142 1.031235 TACGGCGATACGGAAATGGA 58.969 50.0 16.62 0.0 38.39 3.41 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
111 115 6.258727 CCTATGTTGCGTTTATGACTGAATCT 59.741 38.462 0.00 0.00 0.00 2.40
527 544 9.959721 AACTCACCTTACTCATTGTTTACATAT 57.040 29.630 0.00 0.00 0.00 1.78
634 651 2.525629 TGAGGTGAGGAACGGGCA 60.526 61.111 0.00 0.00 0.00 5.36
636 653 2.526873 AGGTGAGGAACGGGCACT 60.527 61.111 0.00 0.00 33.25 4.40
656 673 2.106683 CCAACGCCGTCCTCCAATC 61.107 63.158 0.00 0.00 0.00 2.67
665 682 1.550524 CGTCCTCCAATCAGTCCTTCA 59.449 52.381 0.00 0.00 0.00 3.02
671 688 1.522668 CAATCAGTCCTTCACGGCAA 58.477 50.000 0.00 0.00 0.00 4.52
744 761 2.840753 ATGGCACCACCGACCCTTT 61.841 57.895 0.00 0.00 43.94 3.11
748 765 2.063774 CACCACCGACCCTTTACCT 58.936 57.895 0.00 0.00 0.00 3.08
797 814 3.599933 CCCCTTTGGCCCTTCCCA 61.600 66.667 0.00 0.00 0.00 4.37
799 816 1.589399 CCCCTTTGGCCCTTCCCATA 61.589 60.000 0.00 0.00 34.21 2.74
848 865 1.568597 TCTGCTCCTCCTCTAGCTCTT 59.431 52.381 0.00 0.00 39.53 2.85
857 874 3.124066 TCCTCTAGCTCTTGTCCTCCTA 58.876 50.000 0.00 0.00 0.00 2.94
967 985 2.973899 GCGCAGAGGAGGAAGACA 59.026 61.111 0.30 0.00 0.00 3.41
1008 1026 2.573340 CCCAAAAGGATGCGCCAC 59.427 61.111 4.18 0.00 40.02 5.01
1009 1027 2.573340 CCAAAAGGATGCGCCACC 59.427 61.111 4.18 8.58 40.02 4.61
1010 1028 2.573340 CAAAAGGATGCGCCACCC 59.427 61.111 4.18 2.88 40.02 4.61
1011 1029 2.117206 AAAAGGATGCGCCACCCA 59.883 55.556 4.18 0.00 40.02 4.51
1012 1030 1.978617 AAAAGGATGCGCCACCCAG 60.979 57.895 4.18 0.00 40.02 4.45
1013 1031 2.713531 AAAAGGATGCGCCACCCAGT 62.714 55.000 4.18 0.00 40.02 4.00
1014 1032 3.628646 AAGGATGCGCCACCCAGTC 62.629 63.158 4.18 0.00 40.02 3.51
1015 1033 4.408821 GGATGCGCCACCCAGTCA 62.409 66.667 4.18 0.00 36.34 3.41
1016 1034 2.821366 GATGCGCCACCCAGTCAG 60.821 66.667 4.18 0.00 0.00 3.51
1021 1039 4.767255 GCCACCCAGTCAGCCGAG 62.767 72.222 0.00 0.00 0.00 4.63
1022 1040 3.314331 CCACCCAGTCAGCCGAGT 61.314 66.667 0.00 0.00 0.00 4.18
1023 1041 2.047844 CACCCAGTCAGCCGAGTG 60.048 66.667 0.00 0.00 41.55 3.51
1024 1042 2.203640 ACCCAGTCAGCCGAGTGA 60.204 61.111 6.33 0.00 44.18 3.41
1025 1043 1.610673 ACCCAGTCAGCCGAGTGAT 60.611 57.895 6.33 0.00 44.18 3.06
1026 1044 1.153489 CCCAGTCAGCCGAGTGATG 60.153 63.158 6.33 0.00 44.18 3.07
1027 1045 1.153489 CCAGTCAGCCGAGTGATGG 60.153 63.158 6.33 0.00 44.18 3.51
1028 1046 1.593787 CAGTCAGCCGAGTGATGGT 59.406 57.895 0.00 0.00 44.18 3.55
1029 1047 0.817654 CAGTCAGCCGAGTGATGGTA 59.182 55.000 0.00 0.00 44.18 3.25
1030 1048 1.107114 AGTCAGCCGAGTGATGGTAG 58.893 55.000 0.00 0.00 0.00 3.18
1031 1049 1.103803 GTCAGCCGAGTGATGGTAGA 58.896 55.000 0.00 0.00 0.00 2.59
1032 1050 1.683917 GTCAGCCGAGTGATGGTAGAT 59.316 52.381 0.00 0.00 0.00 1.98
1327 1372 2.172717 TCCTGTTTCTTATGCTAGGCCC 59.827 50.000 0.00 0.00 0.00 5.80
1367 1455 8.782339 TGCTATTTAGGTTGGTTCTAAACTAC 57.218 34.615 0.00 0.00 38.86 2.73
1368 1456 8.377034 TGCTATTTAGGTTGGTTCTAAACTACA 58.623 33.333 0.00 0.00 38.86 2.74
1369 1457 9.392259 GCTATTTAGGTTGGTTCTAAACTACAT 57.608 33.333 0.00 0.00 38.86 2.29
1372 1460 8.983702 TTTAGGTTGGTTCTAAACTACATGTT 57.016 30.769 2.30 0.00 41.29 2.71
1374 1462 7.506328 AGGTTGGTTCTAAACTACATGTTTC 57.494 36.000 2.30 0.00 44.81 2.78
1375 1463 6.489022 AGGTTGGTTCTAAACTACATGTTTCC 59.511 38.462 2.30 0.00 44.81 3.13
1376 1464 6.489022 GGTTGGTTCTAAACTACATGTTTCCT 59.511 38.462 2.30 0.00 44.81 3.36
1377 1465 7.662669 GGTTGGTTCTAAACTACATGTTTCCTA 59.337 37.037 2.30 0.00 44.81 2.94
1378 1466 9.059260 GTTGGTTCTAAACTACATGTTTCCTAA 57.941 33.333 2.30 0.00 44.81 2.69
1379 1467 9.802039 TTGGTTCTAAACTACATGTTTCCTAAT 57.198 29.630 2.30 0.00 44.81 1.73
1380 1468 9.802039 TGGTTCTAAACTACATGTTTCCTAATT 57.198 29.630 2.30 0.00 44.81 1.40
1497 1585 4.281941 ACACTCATGACTTTCAGACTGCTA 59.718 41.667 0.00 0.00 0.00 3.49
1713 2440 3.199946 TCTTGTTGAGGTGTCTGTTTCCT 59.800 43.478 0.00 0.00 0.00 3.36
1730 2457 5.885352 TGTTTCCTCTCTTTGTGTCATGAAA 59.115 36.000 0.00 0.00 0.00 2.69
1857 2629 6.099341 GCTCTCCTCTCACTTTTTCTCTTAG 58.901 44.000 0.00 0.00 0.00 2.18
1860 2632 8.024145 TCTCCTCTCACTTTTTCTCTTAGTTT 57.976 34.615 0.00 0.00 0.00 2.66
2006 2779 7.436376 GTGAATTTTCTTCCCTTTGTTCTTCTG 59.564 37.037 0.00 0.00 0.00 3.02
2017 2790 6.183360 CCCTTTGTTCTTCTGTTCTGATGTTT 60.183 38.462 0.00 0.00 0.00 2.83
2019 2792 8.571336 CCTTTGTTCTTCTGTTCTGATGTTTAT 58.429 33.333 0.00 0.00 0.00 1.40
2213 3160 3.627577 ACTCACAGTGTTGTTTGATCCAC 59.372 43.478 0.00 0.00 34.62 4.02
2232 3179 0.249447 CTGTTGTGTGACAGGCTCGA 60.249 55.000 0.00 0.00 42.58 4.04
2251 3198 0.541392 ATGATGGTCTGGCAACGCTA 59.459 50.000 0.00 0.00 42.51 4.26
2383 3330 0.249398 CCGACACCCTTTGGAGTAGG 59.751 60.000 0.00 0.00 40.47 3.18
2423 3370 5.702065 TCTTGGCACTTGGGTGTTATATA 57.298 39.130 0.00 0.00 44.65 0.86
2457 3404 1.660607 CGTCGCTCATTGTAGCAATGT 59.339 47.619 17.83 0.00 42.91 2.71
2553 3500 0.696501 AAGGGTAATTCGTGCAGGGT 59.303 50.000 6.56 0.00 0.00 4.34
2614 3562 9.887406 TTATAAGTTGTGCTTTTTGTAAGCTAC 57.113 29.630 10.46 7.72 43.38 3.58
2616 3564 4.573201 AGTTGTGCTTTTTGTAAGCTACGA 59.427 37.500 10.46 5.02 43.38 3.43
2628 3576 6.795098 TGTAAGCTACGATGTGTTTTTCAT 57.205 33.333 0.00 0.00 0.00 2.57
2630 3578 6.649141 TGTAAGCTACGATGTGTTTTTCATCT 59.351 34.615 0.00 0.00 39.36 2.90
2749 3697 9.723601 AACATGTTCATTTGGCTAATAAAACAT 57.276 25.926 19.23 19.23 39.70 2.71
2831 3779 5.888161 ACTCGCTAATTGGAAAATCAGGATT 59.112 36.000 0.00 0.00 0.00 3.01
3017 3965 9.664332 TGCAATGGTAAATTAATTATGCAGTTT 57.336 25.926 0.01 0.00 33.21 2.66
3100 4048 5.007430 GCAACGATCTCATTTCATCTCATGT 59.993 40.000 0.00 0.00 0.00 3.21
3179 4128 6.146898 GCCGTACTGCTTTTCTAAAAATTGA 58.853 36.000 1.52 0.00 0.00 2.57
3224 4173 1.739929 CGCCGTATCTGTGTTGCCA 60.740 57.895 0.00 0.00 0.00 4.92
3252 4201 8.465999 TGCACCATAACAATTACTTATTGAAGG 58.534 33.333 4.64 3.66 45.35 3.46
3471 4420 6.467677 CAATAGTTGTCTCTCCCAGAAGAAA 58.532 40.000 0.00 0.00 30.72 2.52
3486 4435 7.944554 TCCCAGAAGAAATTTTGTGAGAATAGT 59.055 33.333 0.00 0.00 0.00 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
634 651 3.692406 GAGGACGGCGTTGGGAGT 61.692 66.667 16.19 0.00 0.00 3.85
643 660 1.153349 GGACTGATTGGAGGACGGC 60.153 63.158 0.00 0.00 0.00 5.68
656 673 1.593196 TTCTTTGCCGTGAAGGACTG 58.407 50.000 0.00 0.00 45.00 3.51
671 688 0.908198 ATCCGAGAGCTGGCTTTCTT 59.092 50.000 10.57 0.00 0.00 2.52
744 761 2.303022 CACTTCAAAGAGGAGGCAGGTA 59.697 50.000 0.00 0.00 0.00 3.08
748 765 0.473755 TGCACTTCAAAGAGGAGGCA 59.526 50.000 0.00 0.00 0.00 4.75
797 814 3.766545 ACATGGTGAGGCAAAACTGTAT 58.233 40.909 0.00 0.00 0.00 2.29
799 816 2.071778 ACATGGTGAGGCAAAACTGT 57.928 45.000 0.00 0.00 0.00 3.55
848 865 3.564571 CCAGGAGAAGAAGTAGGAGGACA 60.565 52.174 0.00 0.00 0.00 4.02
857 874 3.893089 TCCACCCAGGAGAAGAAGT 57.107 52.632 0.00 0.00 43.07 3.01
894 911 3.209410 GACAATTCCGAGCTCATTCCAT 58.791 45.455 15.40 0.00 0.00 3.41
951 969 0.967887 TCCTGTCTTCCTCCTCTGCG 60.968 60.000 0.00 0.00 0.00 5.18
967 985 3.715097 GGCAGGCAGACAGCTCCT 61.715 66.667 0.00 0.00 44.79 3.69
975 993 3.402681 GGGTAGCAGGCAGGCAGA 61.403 66.667 0.00 0.00 35.83 4.26
1008 1026 1.153489 CATCACTCGGCTGACTGGG 60.153 63.158 0.00 0.00 0.00 4.45
1009 1027 1.153489 CCATCACTCGGCTGACTGG 60.153 63.158 0.00 0.00 0.00 4.00
1010 1028 0.817654 TACCATCACTCGGCTGACTG 59.182 55.000 0.00 0.00 0.00 3.51
1011 1029 1.107114 CTACCATCACTCGGCTGACT 58.893 55.000 0.00 0.00 0.00 3.41
1012 1030 1.103803 TCTACCATCACTCGGCTGAC 58.896 55.000 0.00 0.00 0.00 3.51
1013 1031 1.957177 GATCTACCATCACTCGGCTGA 59.043 52.381 0.00 0.00 0.00 4.26
1014 1032 1.000283 GGATCTACCATCACTCGGCTG 60.000 57.143 0.00 0.00 38.79 4.85
1015 1033 1.333177 GGATCTACCATCACTCGGCT 58.667 55.000 0.00 0.00 38.79 5.52
1016 1034 0.318762 GGGATCTACCATCACTCGGC 59.681 60.000 0.00 0.00 41.20 5.54
1017 1035 1.615883 CTGGGATCTACCATCACTCGG 59.384 57.143 0.00 0.00 40.36 4.63
1018 1036 2.035193 CACTGGGATCTACCATCACTCG 59.965 54.545 0.00 0.00 40.36 4.18
1019 1037 2.366916 CCACTGGGATCTACCATCACTC 59.633 54.545 0.00 0.00 40.36 3.51
1020 1038 2.023015 TCCACTGGGATCTACCATCACT 60.023 50.000 0.00 0.00 40.36 3.41
1021 1039 2.398588 TCCACTGGGATCTACCATCAC 58.601 52.381 0.00 0.00 40.36 3.06
1022 1040 2.866923 TCCACTGGGATCTACCATCA 57.133 50.000 0.00 0.00 40.36 3.07
1023 1041 4.392940 CATTTCCACTGGGATCTACCATC 58.607 47.826 0.00 0.00 44.48 3.51
1024 1042 3.435601 GCATTTCCACTGGGATCTACCAT 60.436 47.826 0.00 0.00 44.48 3.55
1025 1043 2.092429 GCATTTCCACTGGGATCTACCA 60.092 50.000 0.00 0.00 44.48 3.25
1026 1044 2.576615 GCATTTCCACTGGGATCTACC 58.423 52.381 0.00 0.00 44.48 3.18
1027 1045 2.173569 AGGCATTTCCACTGGGATCTAC 59.826 50.000 0.00 0.00 44.48 2.59
1028 1046 2.439507 GAGGCATTTCCACTGGGATCTA 59.560 50.000 0.00 0.00 44.48 1.98
1029 1047 1.213926 GAGGCATTTCCACTGGGATCT 59.786 52.381 0.00 0.00 44.48 2.75
1030 1048 1.213926 AGAGGCATTTCCACTGGGATC 59.786 52.381 0.00 0.00 44.48 3.36
1031 1049 1.064166 CAGAGGCATTTCCACTGGGAT 60.064 52.381 0.00 0.00 46.05 3.85
1032 1050 0.329261 CAGAGGCATTTCCACTGGGA 59.671 55.000 0.00 0.00 46.05 4.37
1327 1372 9.561069 ACCTAAATAGCAAATACACCTATCTTG 57.439 33.333 0.00 0.00 0.00 3.02
1470 1558 6.148480 GCAGTCTGAAAGTCATGAGTGTAATT 59.852 38.462 3.18 0.00 32.54 1.40
1497 1585 9.125026 GAGGTGGAAGATGTATCAAATATGTTT 57.875 33.333 0.00 0.00 0.00 2.83
1713 2440 6.543465 ACACAATCTTTCATGACACAAAGAGA 59.457 34.615 11.98 1.79 40.96 3.10
1730 2457 1.705186 ACCCTACAGCCAACACAATCT 59.295 47.619 0.00 0.00 0.00 2.40
1806 2533 2.751806 GGCAAGACTCTTGAGGAATTGG 59.248 50.000 20.98 0.00 0.00 3.16
1857 2629 1.153147 GCGATGGGAGGGGAGAAAC 60.153 63.158 0.00 0.00 0.00 2.78
1860 2632 0.191064 ATTAGCGATGGGAGGGGAGA 59.809 55.000 0.00 0.00 0.00 3.71
1897 2669 6.785164 GCACACGCAATGTTTAAAAACTAATG 59.215 34.615 7.09 4.85 40.64 1.90
1915 2688 0.179089 ATCCTCAGATCTGCACACGC 60.179 55.000 18.36 0.00 39.24 5.34
2006 2779 7.221452 GCCATCACAAATCATAAACATCAGAAC 59.779 37.037 0.00 0.00 0.00 3.01
2017 2790 7.307131 TCTCATCTAGCCATCACAAATCATA 57.693 36.000 0.00 0.00 0.00 2.15
2019 2792 5.619132 TCTCATCTAGCCATCACAAATCA 57.381 39.130 0.00 0.00 0.00 2.57
2213 3160 0.249447 TCGAGCCTGTCACACAACAG 60.249 55.000 0.00 0.00 45.10 3.16
2232 3179 0.541392 TAGCGTTGCCAGACCATCAT 59.459 50.000 0.00 0.00 0.00 2.45
2251 3198 9.392259 CTATCATTGGCATTCAGATGTATATGT 57.608 33.333 0.00 0.00 35.63 2.29
2353 3300 0.879090 GGGTGTCGGGTTTGTGAATC 59.121 55.000 0.00 0.00 0.00 2.52
2383 3330 5.505324 GCCAAGATTCAGAGATACACATTGC 60.505 44.000 0.00 0.00 0.00 3.56
2423 3370 4.188462 TGAGCGACGAACCAATGAAATAT 58.812 39.130 0.00 0.00 0.00 1.28
2438 3385 3.301835 CGTACATTGCTACAATGAGCGAC 60.302 47.826 23.21 14.47 45.99 5.19
2457 3404 1.672854 CCGATTGTCTCTGGCCCGTA 61.673 60.000 0.00 0.00 0.00 4.02
2553 3500 8.221944 CCCTTGATTACCATGTAGGGTTTATTA 58.778 37.037 0.00 0.00 43.89 0.98
2614 3562 4.772434 ACAACGAGATGAAAAACACATCG 58.228 39.130 0.00 0.00 45.77 3.84
2616 3564 6.377327 AGAACAACGAGATGAAAAACACAT 57.623 33.333 0.00 0.00 0.00 3.21
2628 3576 8.294954 AGGAAGATATCTAAAGAACAACGAGA 57.705 34.615 5.46 0.00 0.00 4.04
2630 3578 9.720769 AAAAGGAAGATATCTAAAGAACAACGA 57.279 29.630 5.46 0.00 0.00 3.85
2749 3697 7.823799 TGCACATAATTCAAGAGAGATGTGTAA 59.176 33.333 12.79 1.89 40.10 2.41
2831 3779 9.859427 CAAGAATTCATTATGCCAAGTTTTAGA 57.141 29.630 8.44 0.00 0.00 2.10
3017 3965 7.181361 TGACCATTAATTTCCTCAATCCTCAA 58.819 34.615 0.00 0.00 0.00 3.02
3193 4142 1.031235 TACGGCGATACGGAAATGGA 58.969 50.000 16.62 0.00 38.39 3.41
3224 4173 8.574251 TCAATAAGTAATTGTTATGGTGCACT 57.426 30.769 17.98 0.00 44.58 4.40
3252 4201 4.218635 GGGAACAAGAAGAGGGACATTTTC 59.781 45.833 0.00 0.00 0.00 2.29
3486 4435 6.181908 ACAAACAACCAACTCTTTAGGTACA 58.818 36.000 0.00 0.00 34.63 2.90


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

AutoCloner maintained by Alex Coulton.