Multiple sequence alignment - TraesCS5A01G321000

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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 TraesCS5A01G321000 chr5A 100.000 3645 0 0 327 3971 534011052 534014696 0.000000e+00 6732.0
1 TraesCS5A01G321000 chr5A 82.085 1228 167 38 1715 2926 534064604 534065794 0.000000e+00 1000.0
2 TraesCS5A01G321000 chr5A 80.165 1331 208 40 1718 3012 534108303 534109613 0.000000e+00 944.0
3 TraesCS5A01G321000 chr5A 93.301 209 12 2 1087 1294 534063630 534063837 1.390000e-79 307.0
4 TraesCS5A01G321000 chr5A 93.069 202 14 0 1093 1294 534107842 534108043 3.000000e-76 296.0
5 TraesCS5A01G321000 chr5A 100.000 29 0 0 1 29 534010726 534010754 2.000000e-03 54.7
6 TraesCS5A01G321000 chr5B 88.889 1548 79 30 632 2145 506759331 506760819 0.000000e+00 1820.0
7 TraesCS5A01G321000 chr5B 93.774 771 32 12 2264 3026 506760840 506761602 0.000000e+00 1144.0
8 TraesCS5A01G321000 chr5B 82.226 1339 178 37 1718 3018 506767345 506768661 0.000000e+00 1099.0
9 TraesCS5A01G321000 chr5B 81.591 1320 184 38 1717 3000 506780249 506781545 0.000000e+00 1037.0
10 TraesCS5A01G321000 chr5B 83.652 838 99 21 3026 3839 455160906 455160083 0.000000e+00 754.0
11 TraesCS5A01G321000 chr5B 88.144 388 38 7 3461 3847 124636527 124636907 4.680000e-124 455.0
12 TraesCS5A01G321000 chr5B 90.164 244 19 5 1087 1329 506766463 506766702 2.980000e-81 313.0
13 TraesCS5A01G321000 chr5B 92.056 214 16 1 1081 1294 506778630 506778842 2.320000e-77 300.0
14 TraesCS5A01G321000 chr3A 99.156 948 8 0 3024 3971 699798436 699797489 0.000000e+00 1707.0
15 TraesCS5A01G321000 chr3A 98.423 951 15 0 3021 3971 612758703 612759653 0.000000e+00 1674.0
16 TraesCS5A01G321000 chr6A 98.627 947 13 0 3025 3971 222541753 222542699 0.000000e+00 1677.0
17 TraesCS5A01G321000 chr5D 94.203 759 31 8 2264 3019 420622149 420622897 0.000000e+00 1146.0
18 TraesCS5A01G321000 chr5D 82.836 1340 169 35 1715 3018 420627360 420628674 0.000000e+00 1144.0
19 TraesCS5A01G321000 chr5D 92.022 727 37 9 1421 2145 420621421 420622128 0.000000e+00 1002.0
20 TraesCS5A01G321000 chr5D 84.648 938 75 29 495 1422 420620509 420621387 0.000000e+00 870.0
21 TraesCS5A01G321000 chr5D 89.765 469 32 5 327 794 420579867 420580320 1.590000e-163 586.0
22 TraesCS5A01G321000 chr5D 81.230 618 88 14 1720 2322 420701946 420702550 1.290000e-129 473.0
23 TraesCS5A01G321000 chr5D 85.753 372 39 10 1061 1422 420592892 420593259 8.050000e-102 381.0
24 TraesCS5A01G321000 chr5D 94.634 205 9 2 1091 1294 420625448 420625651 2.300000e-82 316.0
25 TraesCS5A01G321000 chr5D 94.118 204 12 0 1091 1294 420701248 420701451 1.070000e-80 311.0
26 TraesCS5A01G321000 chr5D 91.765 170 9 2 671 840 420579650 420579814 8.580000e-57 231.0
27 TraesCS5A01G321000 chr5D 86.036 222 21 1 854 1065 420580318 420580539 3.090000e-56 230.0
28 TraesCS5A01G321000 chr6B 83.761 819 80 32 3029 3813 52203919 52203120 0.000000e+00 726.0
29 TraesCS5A01G321000 chrUn 84.673 672 81 17 3178 3839 195495649 195494990 0.000000e+00 651.0
30 TraesCS5A01G321000 chrUn 84.673 672 81 17 3178 3839 438411367 438410708 0.000000e+00 651.0
31 TraesCS5A01G321000 chr3B 87.403 516 50 13 3296 3804 638923433 638922926 2.660000e-161 579.0
32 TraesCS5A01G321000 chr3D 94.340 53 3 0 3185 3237 584107959 584108011 9.150000e-12 82.4
33 TraesCS5A01G321000 chr1B 91.667 48 2 2 3022 3069 450462992 450462947 9.210000e-07 65.8
34 TraesCS5A01G321000 chr1B 93.182 44 2 1 3026 3069 94171610 94171568 3.310000e-06 63.9


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 TraesCS5A01G321000 chr5A 534010726 534014696 3970 False 3393.35 6732 100.000000 1 3971 2 chr5A.!!$F1 3970
1 TraesCS5A01G321000 chr5A 534063630 534065794 2164 False 653.50 1000 87.693000 1087 2926 2 chr5A.!!$F2 1839
2 TraesCS5A01G321000 chr5A 534107842 534109613 1771 False 620.00 944 86.617000 1093 3012 2 chr5A.!!$F3 1919
3 TraesCS5A01G321000 chr5B 506759331 506761602 2271 False 1482.00 1820 91.331500 632 3026 2 chr5B.!!$F2 2394
4 TraesCS5A01G321000 chr5B 455160083 455160906 823 True 754.00 754 83.652000 3026 3839 1 chr5B.!!$R1 813
5 TraesCS5A01G321000 chr5B 506766463 506768661 2198 False 706.00 1099 86.195000 1087 3018 2 chr5B.!!$F3 1931
6 TraesCS5A01G321000 chr5B 506778630 506781545 2915 False 668.50 1037 86.823500 1081 3000 2 chr5B.!!$F4 1919
7 TraesCS5A01G321000 chr3A 699797489 699798436 947 True 1707.00 1707 99.156000 3024 3971 1 chr3A.!!$R1 947
8 TraesCS5A01G321000 chr3A 612758703 612759653 950 False 1674.00 1674 98.423000 3021 3971 1 chr3A.!!$F1 950
9 TraesCS5A01G321000 chr6A 222541753 222542699 946 False 1677.00 1677 98.627000 3025 3971 1 chr6A.!!$F1 946
10 TraesCS5A01G321000 chr5D 420620509 420628674 8165 False 895.60 1146 89.668600 495 3019 5 chr5D.!!$F3 2524
11 TraesCS5A01G321000 chr5D 420701248 420702550 1302 False 392.00 473 87.674000 1091 2322 2 chr5D.!!$F4 1231
12 TraesCS5A01G321000 chr5D 420579650 420580539 889 False 349.00 586 89.188667 327 1065 3 chr5D.!!$F2 738
13 TraesCS5A01G321000 chr6B 52203120 52203919 799 True 726.00 726 83.761000 3029 3813 1 chr6B.!!$R1 784
14 TraesCS5A01G321000 chrUn 195494990 195495649 659 True 651.00 651 84.673000 3178 3839 1 chrUn.!!$R1 661
15 TraesCS5A01G321000 chrUn 438410708 438411367 659 True 651.00 651 84.673000 3178 3839 1 chrUn.!!$R2 661
16 TraesCS5A01G321000 chr3B 638922926 638923433 507 True 579.00 579 87.403000 3296 3804 1 chr3B.!!$R1 508

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
623 624 0.035725 CTGCTCTGATGGGCACTCAA 60.036 55.0 0.00 0.0 34.57 3.02 F
1392 1781 0.249657 CTGCTAGCGTCCTCCCAATC 60.250 60.0 10.77 0.0 0.00 2.67 F
2592 4094 0.112412 ACATTCCCTTGCCGGAGTTT 59.888 50.0 5.05 0.0 32.13 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1961 3405 1.152567 CAACCCCTGCAACCTCCAA 60.153 57.895 0.00 0.0 0.00 3.53 R
2802 4304 2.751436 CTTGACCACCCGGCCATG 60.751 66.667 2.24 0.0 34.57 3.66 R
3556 6504 7.816031 TCAGTAATGGTTAACTACAAGCTACAC 59.184 37.037 5.42 0.0 0.00 2.90 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
345 346 0.389948 ATCCTCGTGGCGTCAAAGTC 60.390 55.000 0.00 0.00 0.00 3.01
370 371 0.329596 AGGAGGACCAATGTTGCTCC 59.670 55.000 10.24 10.24 36.08 4.70
419 420 5.835113 TCATTTAGGCATAAGCTTTGGTC 57.165 39.130 3.20 0.00 41.70 4.02
430 431 3.326836 AGCTTTGGTCTTCTACAGCTC 57.673 47.619 0.00 0.00 31.93 4.09
432 433 2.611518 CTTTGGTCTTCTACAGCTCCG 58.388 52.381 0.00 0.00 0.00 4.63
433 434 0.246635 TTGGTCTTCTACAGCTCCGC 59.753 55.000 0.00 0.00 0.00 5.54
451 452 2.434185 TGCTCGCCGGTGTGATTC 60.434 61.111 20.68 3.93 0.00 2.52
460 461 3.335579 GCCGGTGTGATTCTTTAGAGTT 58.664 45.455 1.90 0.00 0.00 3.01
461 462 3.751698 GCCGGTGTGATTCTTTAGAGTTT 59.248 43.478 1.90 0.00 0.00 2.66
483 484 7.598493 AGTTTGTGCATTTTAATTACGCAGAAT 59.402 29.630 0.00 0.00 36.02 2.40
486 487 7.727955 TGTGCATTTTAATTACGCAGAATTTG 58.272 30.769 0.00 0.00 32.31 2.32
487 488 7.596621 TGTGCATTTTAATTACGCAGAATTTGA 59.403 29.630 0.00 0.00 32.31 2.69
622 623 0.906282 TCTGCTCTGATGGGCACTCA 60.906 55.000 0.00 0.00 34.57 3.41
623 624 0.035725 CTGCTCTGATGGGCACTCAA 60.036 55.000 0.00 0.00 34.57 3.02
643 649 0.738975 CTCACATCTGCCCTGCATTG 59.261 55.000 0.00 0.00 38.13 2.82
665 671 3.426963 GGCAATTACCCAATGTGTACACG 60.427 47.826 20.61 8.73 0.00 4.49
676 682 1.374125 TGTACACGCGCAGAAGCAT 60.374 52.632 5.73 0.00 42.27 3.79
687 693 0.439985 CAGAAGCATGTTGACCGACG 59.560 55.000 0.00 0.00 0.00 5.12
821 827 3.452474 CCATTCGTTTTGGAAAAGCACA 58.548 40.909 0.00 0.00 36.26 4.57
823 829 4.260172 CCATTCGTTTTGGAAAAGCACAAC 60.260 41.667 0.00 0.00 36.26 3.32
828 834 4.032331 CGTTTTGGAAAAGCACAACGAAAT 59.968 37.500 0.00 0.00 39.43 2.17
829 835 5.230306 CGTTTTGGAAAAGCACAACGAAATA 59.770 36.000 0.00 0.00 39.43 1.40
840 846 2.993899 ACAACGAAATAAGTGAGCGAGG 59.006 45.455 0.00 0.00 0.00 4.63
925 940 7.419172 CGGACCCTCCTATAAAGAAAGAAGAAT 60.419 40.741 0.00 0.00 33.30 2.40
927 942 8.393959 ACCCTCCTATAAAGAAAGAAGAATGA 57.606 34.615 0.00 0.00 0.00 2.57
932 947 8.537016 TCCTATAAAGAAAGAAGAATGAACCGA 58.463 33.333 0.00 0.00 0.00 4.69
961 983 2.281484 CCCCCGGTGACAGTGTTG 60.281 66.667 0.00 0.00 0.00 3.33
983 1020 2.647158 GGACTTCCCGCTCCGAACT 61.647 63.158 0.00 0.00 0.00 3.01
988 1025 1.033746 TTCCCGCTCCGAACTACGAT 61.034 55.000 0.00 0.00 45.77 3.73
1003 1040 2.976903 GATCCTCCGCCAGCATGC 60.977 66.667 10.51 10.51 31.97 4.06
1029 1066 4.459089 GGCTTCCGGCGCTCTCTT 62.459 66.667 7.64 0.00 42.94 2.85
1035 1072 4.116328 CGGCGCTCTCTTCCGTCA 62.116 66.667 7.64 0.00 38.47 4.35
1042 1079 0.875728 CTCTCTTCCGTCACTGTCGT 59.124 55.000 0.00 0.00 0.00 4.34
1049 1086 1.626654 CCGTCACTGTCGTTGATGCC 61.627 60.000 0.00 0.00 0.00 4.40
1076 1113 4.796231 CCTCTTCGTCGCGGTGGG 62.796 72.222 6.13 0.00 0.00 4.61
1077 1114 4.052229 CTCTTCGTCGCGGTGGGT 62.052 66.667 6.13 0.00 0.00 4.51
1311 1348 2.290287 TACGCCATGCCAGTCCACT 61.290 57.895 0.00 0.00 0.00 4.00
1336 1605 1.687996 CCACCCACCTCTTGGTTTGTT 60.688 52.381 0.00 0.00 46.05 2.83
1337 1606 2.423660 CCACCCACCTCTTGGTTTGTTA 60.424 50.000 0.00 0.00 46.05 2.41
1338 1607 2.621526 CACCCACCTCTTGGTTTGTTAC 59.378 50.000 0.00 0.00 46.05 2.50
1344 1613 3.458487 ACCTCTTGGTTTGTTACTCCAGT 59.542 43.478 0.00 0.00 46.05 4.00
1346 1615 5.131475 ACCTCTTGGTTTGTTACTCCAGTAA 59.869 40.000 0.00 0.00 46.05 2.24
1392 1781 0.249657 CTGCTAGCGTCCTCCCAATC 60.250 60.000 10.77 0.00 0.00 2.67
1429 1917 9.940166 CAACTTTAGAAACGGTTTACTAATGTT 57.060 29.630 25.85 25.85 40.41 2.71
1456 1953 6.761312 AGAGATTGGTTGAAAATGCATTTGA 58.239 32.000 24.74 12.18 0.00 2.69
1577 2644 6.064846 AGATAATTTCATCGCCACAATGTC 57.935 37.500 0.00 0.00 0.00 3.06
1613 2745 2.279073 CGGAGACCCTGGCCTCTA 59.721 66.667 3.32 0.00 0.00 2.43
1639 2771 5.240891 TCTTCATAGCAGAAGTTTGGAGTG 58.759 41.667 11.65 0.00 44.18 3.51
1641 2773 3.582647 TCATAGCAGAAGTTTGGAGTGGA 59.417 43.478 0.00 0.00 0.00 4.02
1754 3198 5.048083 GCAGGTGATAACATTTTTGGTGAGA 60.048 40.000 0.00 0.00 0.00 3.27
1961 3405 6.092955 TCGATGGCTACGGAAACTATAATT 57.907 37.500 4.44 0.00 0.00 1.40
2029 3473 7.175467 TCAGTGCTCAACATGTATTTTCTTGAT 59.825 33.333 0.00 0.00 0.00 2.57
2083 3527 1.410083 GGCTATGGTTGGATCAAGGCA 60.410 52.381 0.00 0.00 0.00 4.75
2149 3609 5.107109 TGAATTTGTCACCATCTTTCGTG 57.893 39.130 0.00 0.00 0.00 4.35
2150 3610 3.559238 ATTTGTCACCATCTTTCGTGC 57.441 42.857 0.00 0.00 0.00 5.34
2151 3611 2.254546 TTGTCACCATCTTTCGTGCT 57.745 45.000 0.00 0.00 0.00 4.40
2152 3612 3.394674 TTGTCACCATCTTTCGTGCTA 57.605 42.857 0.00 0.00 0.00 3.49
2153 3613 3.610040 TGTCACCATCTTTCGTGCTAT 57.390 42.857 0.00 0.00 0.00 2.97
2154 3614 3.261580 TGTCACCATCTTTCGTGCTATG 58.738 45.455 0.00 0.00 0.00 2.23
2157 3620 3.132111 TCACCATCTTTCGTGCTATGCTA 59.868 43.478 0.00 0.00 0.00 3.49
2162 3625 5.928839 CCATCTTTCGTGCTATGCTACTTAT 59.071 40.000 0.00 0.00 0.00 1.73
2170 3633 7.361127 TCGTGCTATGCTACTTATACTTTCTC 58.639 38.462 0.00 0.00 0.00 2.87
2171 3634 7.228906 TCGTGCTATGCTACTTATACTTTCTCT 59.771 37.037 0.00 0.00 0.00 3.10
2194 3657 2.297597 GCCATACTGAGTAGGCTGTAGG 59.702 54.545 19.25 6.07 43.70 3.18
2195 3658 2.297597 CCATACTGAGTAGGCTGTAGGC 59.702 54.545 0.00 0.00 41.43 3.93
2196 3659 1.676746 TACTGAGTAGGCTGTAGGCG 58.323 55.000 0.00 0.00 46.23 5.52
2197 3660 1.038130 ACTGAGTAGGCTGTAGGCGG 61.038 60.000 0.00 0.00 46.23 6.13
2198 3661 0.752009 CTGAGTAGGCTGTAGGCGGA 60.752 60.000 0.00 0.00 46.23 5.54
2239 3704 9.128107 GACAACAACACATTAATTATCTGTTGG 57.872 33.333 22.12 13.99 43.91 3.77
2246 3711 7.833682 ACACATTAATTATCTGTTGGACCATCA 59.166 33.333 5.15 5.15 0.00 3.07
2260 3725 5.076182 TGGACCATCATAACTCTGCAAAAA 58.924 37.500 0.00 0.00 0.00 1.94
2285 3751 9.716507 AAAAATCAATAATTATTCTGTCGACGG 57.283 29.630 18.66 18.66 0.00 4.79
2421 3921 6.665992 TGAAAGTAGGTGATGACAGTAGTT 57.334 37.500 0.00 0.00 0.00 2.24
2423 3923 6.493802 TGAAAGTAGGTGATGACAGTAGTTCT 59.506 38.462 0.00 0.00 0.00 3.01
2424 3924 7.668469 TGAAAGTAGGTGATGACAGTAGTTCTA 59.332 37.037 0.00 0.00 0.00 2.10
2425 3925 7.633193 AAGTAGGTGATGACAGTAGTTCTAG 57.367 40.000 0.00 0.00 0.00 2.43
2427 3927 6.824704 AGTAGGTGATGACAGTAGTTCTAGAC 59.175 42.308 0.00 0.00 0.00 2.59
2429 3929 6.249951 AGGTGATGACAGTAGTTCTAGACTT 58.750 40.000 0.00 0.00 39.86 3.01
2430 3930 6.376018 AGGTGATGACAGTAGTTCTAGACTTC 59.624 42.308 0.00 0.00 39.86 3.01
2431 3931 6.376018 GGTGATGACAGTAGTTCTAGACTTCT 59.624 42.308 0.00 0.00 39.86 2.85
2433 3933 8.609176 GTGATGACAGTAGTTCTAGACTTCTAG 58.391 40.741 6.92 6.92 45.57 2.43
2435 3935 9.820725 GATGACAGTAGTTCTAGACTTCTAGTA 57.179 37.037 12.11 1.40 44.74 1.82
2436 3936 9.603921 ATGACAGTAGTTCTAGACTTCTAGTAC 57.396 37.037 12.73 12.73 44.74 2.73
2437 3937 8.040132 TGACAGTAGTTCTAGACTTCTAGTACC 58.960 40.741 15.61 5.70 43.53 3.34
2438 3938 8.149631 ACAGTAGTTCTAGACTTCTAGTACCT 57.850 38.462 15.61 11.01 43.53 3.08
2439 3939 8.042515 ACAGTAGTTCTAGACTTCTAGTACCTG 58.957 40.741 15.61 16.87 43.53 4.00
2440 3940 8.042515 CAGTAGTTCTAGACTTCTAGTACCTGT 58.957 40.741 15.61 4.75 43.53 4.00
2441 3941 9.265862 AGTAGTTCTAGACTTCTAGTACCTGTA 57.734 37.037 15.61 4.02 43.53 2.74
2457 3957 5.693769 ACCTGTATAGTTTGGTGCTATGT 57.306 39.130 0.00 0.00 32.15 2.29
2458 3958 6.801718 ACCTGTATAGTTTGGTGCTATGTA 57.198 37.500 0.00 0.00 32.15 2.29
2459 3959 6.579865 ACCTGTATAGTTTGGTGCTATGTAC 58.420 40.000 0.00 0.00 32.15 2.90
2460 3960 6.155565 ACCTGTATAGTTTGGTGCTATGTACA 59.844 38.462 0.00 0.00 32.15 2.90
2592 4094 0.112412 ACATTCCCTTGCCGGAGTTT 59.888 50.000 5.05 0.00 32.13 2.66
2785 4287 1.073763 TGTGCTATGCTGGTGGTTTCT 59.926 47.619 0.00 0.00 0.00 2.52
2952 4454 3.173151 TGACTCTGAGGTGCTATGGAAA 58.827 45.455 9.85 0.00 0.00 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
326 327 0.389948 GACTTTGACGCCACGAGGAT 60.390 55.000 1.86 0.00 36.89 3.24
327 328 1.006571 GACTTTGACGCCACGAGGA 60.007 57.895 1.86 0.00 36.89 3.71
328 329 2.372690 CGACTTTGACGCCACGAGG 61.373 63.158 0.00 0.00 38.23 4.63
329 330 3.147294 CGACTTTGACGCCACGAG 58.853 61.111 0.00 0.00 0.00 4.18
336 337 1.063806 CTCCTTGAGCGACTTTGACG 58.936 55.000 0.00 0.00 0.00 4.35
337 338 1.000955 TCCTCCTTGAGCGACTTTGAC 59.999 52.381 0.00 0.00 0.00 3.18
338 339 1.000955 GTCCTCCTTGAGCGACTTTGA 59.999 52.381 0.00 0.00 31.78 2.69
339 340 1.433534 GTCCTCCTTGAGCGACTTTG 58.566 55.000 0.00 0.00 31.78 2.77
340 341 0.321996 GGTCCTCCTTGAGCGACTTT 59.678 55.000 10.46 0.00 33.55 2.66
345 346 0.036010 ACATTGGTCCTCCTTGAGCG 60.036 55.000 0.00 0.00 35.53 5.03
397 398 5.509498 AGACCAAAGCTTATGCCTAAATGA 58.491 37.500 0.00 0.00 40.80 2.57
433 434 2.434884 AATCACACCGGCGAGCAG 60.435 61.111 9.30 0.00 0.00 4.24
460 461 7.881643 AATTCTGCGTAATTAAAATGCACAA 57.118 28.000 0.00 2.47 35.15 3.33
461 462 7.596621 TCAAATTCTGCGTAATTAAAATGCACA 59.403 29.630 0.00 0.00 35.15 4.57
476 477 7.433131 ACAATAAGCATACATTCAAATTCTGCG 59.567 33.333 0.00 0.00 33.54 5.18
483 484 9.926158 ATGAAACACAATAAGCATACATTCAAA 57.074 25.926 0.00 0.00 0.00 2.69
521 522 6.092396 GGAAGAAAAGTCTCGGTTAAGGAATC 59.908 42.308 0.00 0.00 30.70 2.52
522 523 5.938710 GGAAGAAAAGTCTCGGTTAAGGAAT 59.061 40.000 0.00 0.00 30.70 3.01
523 524 5.163280 TGGAAGAAAAGTCTCGGTTAAGGAA 60.163 40.000 0.00 0.00 30.70 3.36
524 525 4.345837 TGGAAGAAAAGTCTCGGTTAAGGA 59.654 41.667 0.00 0.00 30.70 3.36
622 623 0.330604 ATGCAGGGCAGATGTGAGTT 59.669 50.000 0.00 0.00 43.65 3.01
623 624 0.330604 AATGCAGGGCAGATGTGAGT 59.669 50.000 0.00 0.00 43.65 3.41
643 649 3.426963 CGTGTACACATTGGGTAATTGCC 60.427 47.826 24.98 3.57 0.00 4.52
665 671 1.154150 GGTCAACATGCTTCTGCGC 60.154 57.895 0.00 0.00 43.34 6.09
676 682 1.466167 GACTAGCTACGTCGGTCAACA 59.534 52.381 0.00 0.00 0.00 3.33
687 693 1.094073 TCTCGCCGTGGACTAGCTAC 61.094 60.000 0.00 0.00 0.00 3.58
740 746 1.980772 GAAGGTCGACGGAGGGGAA 60.981 63.158 9.92 0.00 0.00 3.97
807 813 6.814146 ACTTATTTCGTTGTGCTTTTCCAAAA 59.186 30.769 0.00 0.00 0.00 2.44
821 827 2.618053 CCCTCGCTCACTTATTTCGTT 58.382 47.619 0.00 0.00 0.00 3.85
823 829 0.931005 GCCCTCGCTCACTTATTTCG 59.069 55.000 0.00 0.00 0.00 3.46
828 834 1.378119 TCTCGCCCTCGCTCACTTA 60.378 57.895 0.00 0.00 35.26 2.24
829 835 2.676822 TCTCGCCCTCGCTCACTT 60.677 61.111 0.00 0.00 35.26 3.16
925 940 1.535444 TGGCTCCTCCTTCGGTTCA 60.535 57.895 0.00 0.00 35.26 3.18
927 942 2.593956 GGTGGCTCCTCCTTCGGTT 61.594 63.158 0.00 0.00 35.26 4.44
983 1020 1.832608 ATGCTGGCGGAGGATCGTA 60.833 57.895 0.00 0.00 34.37 3.43
1015 1052 4.129737 CGGAAGAGAGCGCCGGAA 62.130 66.667 5.05 0.00 41.29 4.30
1029 1066 0.666274 GCATCAACGACAGTGACGGA 60.666 55.000 18.67 8.00 34.93 4.69
1035 1072 1.296715 GAGGGGCATCAACGACAGT 59.703 57.895 0.00 0.00 0.00 3.55
1042 1079 2.367202 GGACGAGGAGGGGCATCAA 61.367 63.158 0.00 0.00 0.00 2.57
1049 1086 1.378124 GACGAAGAGGACGAGGAGGG 61.378 65.000 0.00 0.00 34.70 4.30
1311 1348 2.153401 CAAGAGGTGGGTGGGTGGA 61.153 63.158 0.00 0.00 0.00 4.02
1336 1605 7.607607 TCGATTACTGTTACTGTTACTGGAGTA 59.392 37.037 0.00 1.49 0.00 2.59
1337 1606 6.432162 TCGATTACTGTTACTGTTACTGGAGT 59.568 38.462 0.00 2.30 0.00 3.85
1338 1607 6.746364 GTCGATTACTGTTACTGTTACTGGAG 59.254 42.308 0.00 0.00 0.00 3.86
1344 1613 6.726258 TCGAGTCGATTACTGTTACTGTTA 57.274 37.500 12.09 0.00 39.07 2.41
1346 1615 5.570344 CATCGAGTCGATTACTGTTACTGT 58.430 41.667 25.03 0.00 44.59 3.55
1349 1618 3.729716 GGCATCGAGTCGATTACTGTTAC 59.270 47.826 25.03 7.30 44.59 2.50
1350 1619 3.379057 TGGCATCGAGTCGATTACTGTTA 59.621 43.478 25.03 6.68 44.59 2.41
1429 1917 7.707624 AATGCATTTTCAACCAATCTCTCTA 57.292 32.000 5.99 0.00 0.00 2.43
1431 1919 6.869913 TCAAATGCATTTTCAACCAATCTCTC 59.130 34.615 21.95 0.00 0.00 3.20
1545 2612 9.926751 GTGGCGATGAAATTATCTATATCAATG 57.073 33.333 0.00 0.00 0.00 2.82
1577 2644 4.472286 TCCGCTTTTTCGCAGAAAAATAG 58.528 39.130 21.08 17.99 45.90 1.73
1613 2745 5.809001 TCCAAACTTCTGCTATGAAGATGT 58.191 37.500 17.09 3.49 44.40 3.06
1961 3405 1.152567 CAACCCCTGCAACCTCCAA 60.153 57.895 0.00 0.00 0.00 3.53
2083 3527 2.553904 CCTGAACCAAGCTTCCTGTGAT 60.554 50.000 0.00 0.00 0.00 3.06
2145 3605 7.228906 AGAGAAAGTATAAGTAGCATAGCACGA 59.771 37.037 0.00 0.00 0.00 4.35
2146 3606 7.364200 AGAGAAAGTATAAGTAGCATAGCACG 58.636 38.462 0.00 0.00 0.00 5.34
2147 3607 8.973378 CAAGAGAAAGTATAAGTAGCATAGCAC 58.027 37.037 0.00 0.00 0.00 4.40
2148 3608 7.653713 GCAAGAGAAAGTATAAGTAGCATAGCA 59.346 37.037 0.00 0.00 0.00 3.49
2149 3609 7.117092 GGCAAGAGAAAGTATAAGTAGCATAGC 59.883 40.741 0.00 0.00 0.00 2.97
2150 3610 8.144478 TGGCAAGAGAAAGTATAAGTAGCATAG 58.856 37.037 0.00 0.00 0.00 2.23
2151 3611 8.018537 TGGCAAGAGAAAGTATAAGTAGCATA 57.981 34.615 0.00 0.00 0.00 3.14
2152 3612 6.889198 TGGCAAGAGAAAGTATAAGTAGCAT 58.111 36.000 0.00 0.00 0.00 3.79
2153 3613 6.294361 TGGCAAGAGAAAGTATAAGTAGCA 57.706 37.500 0.00 0.00 0.00 3.49
2154 3614 8.145122 AGTATGGCAAGAGAAAGTATAAGTAGC 58.855 37.037 0.00 0.00 0.00 3.58
2157 3620 8.079211 TCAGTATGGCAAGAGAAAGTATAAGT 57.921 34.615 0.00 0.00 36.16 2.24
2162 3625 6.096987 CCTACTCAGTATGGCAAGAGAAAGTA 59.903 42.308 13.95 7.42 36.16 2.24
2202 3665 3.795639 TGTGTTGTTGTCGATTGCAAATG 59.204 39.130 1.71 0.00 0.00 2.32
2209 3672 9.773328 CAGATAATTAATGTGTTGTTGTCGATT 57.227 29.630 0.00 0.00 0.00 3.34
2260 3725 9.104965 TCCGTCGACAGAATAATTATTGATTTT 57.895 29.630 15.39 0.00 0.00 1.82
2262 3727 8.657074 TTCCGTCGACAGAATAATTATTGATT 57.343 30.769 15.39 0.00 0.00 2.57
2399 3881 6.926313 AGAACTACTGTCATCACCTACTTTC 58.074 40.000 0.00 0.00 0.00 2.62
2423 3923 9.624373 CCAAACTATACAGGTACTAGAAGTCTA 57.376 37.037 0.00 0.00 36.02 2.59
2424 3924 8.114743 ACCAAACTATACAGGTACTAGAAGTCT 58.885 37.037 0.00 0.00 36.02 3.24
2425 3925 8.189460 CACCAAACTATACAGGTACTAGAAGTC 58.811 40.741 0.00 0.00 36.02 3.01
2427 3927 6.979238 GCACCAAACTATACAGGTACTAGAAG 59.021 42.308 0.00 0.00 36.02 2.85
2429 3929 6.192773 AGCACCAAACTATACAGGTACTAGA 58.807 40.000 0.00 0.00 36.02 2.43
2430 3930 6.466885 AGCACCAAACTATACAGGTACTAG 57.533 41.667 0.00 0.00 36.02 2.57
2431 3931 7.562454 ACATAGCACCAAACTATACAGGTACTA 59.438 37.037 0.00 0.00 36.02 1.82
2433 3933 6.579865 ACATAGCACCAAACTATACAGGTAC 58.420 40.000 0.00 0.00 32.01 3.34
2435 3935 5.693769 ACATAGCACCAAACTATACAGGT 57.306 39.130 0.00 0.00 33.91 4.00
2436 3936 6.578944 TGTACATAGCACCAAACTATACAGG 58.421 40.000 0.00 0.00 0.00 4.00
2437 3937 9.193133 GTATGTACATAGCACCAAACTATACAG 57.807 37.037 15.93 0.00 27.68 2.74
2438 3938 8.697292 TGTATGTACATAGCACCAAACTATACA 58.303 33.333 15.93 5.15 0.00 2.29
2439 3939 9.706691 ATGTATGTACATAGCACCAAACTATAC 57.293 33.333 15.93 2.57 44.54 1.47
2592 4094 5.968528 AATTGGATGCCGTAAAGTTGTTA 57.031 34.783 0.00 0.00 0.00 2.41
2802 4304 2.751436 CTTGACCACCCGGCCATG 60.751 66.667 2.24 0.00 34.57 3.66
2878 4380 6.950842 TCTTCCATGTGTTGATAGACTTCAT 58.049 36.000 0.00 0.00 0.00 2.57
2952 4454 7.616150 TGAGTACCTCAACTATTAGAGCTTCTT 59.384 37.037 0.00 0.00 37.57 2.52
3556 6504 7.816031 TCAGTAATGGTTAACTACAAGCTACAC 59.184 37.037 5.42 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.