Multiple sequence alignment - TraesCS3B01G377300

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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 TraesCS3B01G377300 chr3B 100.000 2990 0 0 1 2990 594409120 594412109 0.000000e+00 5522.0
1 TraesCS3B01G377300 chr3B 94.610 705 37 1 1 704 547205329 547204625 0.000000e+00 1090.0
2 TraesCS3B01G377300 chr3B 85.399 726 49 25 1 697 796886290 796886987 0.000000e+00 701.0
3 TraesCS3B01G377300 chr3B 83.994 681 52 12 74 697 21453172 21452492 4.260000e-168 601.0
4 TraesCS3B01G377300 chr3B 88.767 365 30 10 336 696 126642428 126642071 1.270000e-118 436.0
5 TraesCS3B01G377300 chr3B 97.436 39 1 0 1 39 21453210 21453172 1.920000e-07 67.6
6 TraesCS3B01G377300 chr3D 93.214 2284 107 30 739 2990 452416329 452418596 0.000000e+00 3315.0
7 TraesCS3B01G377300 chr3A 92.685 2283 110 33 737 2990 594666788 594669042 0.000000e+00 3238.0
8 TraesCS3B01G377300 chr3A 83.514 370 41 12 347 697 717805651 717806019 7.990000e-86 327.0
9 TraesCS3B01G377300 chr2B 95.455 638 26 2 1 637 103328232 103327597 0.000000e+00 1014.0
10 TraesCS3B01G377300 chr2B 87.088 364 26 6 336 697 662881335 662881679 2.790000e-105 392.0
11 TraesCS3B01G377300 chr2B 86.777 363 33 3 336 696 778793995 778793646 1.000000e-104 390.0
12 TraesCS3B01G377300 chr2B 88.652 282 27 4 61 337 662880965 662881246 3.690000e-89 339.0
13 TraesCS3B01G377300 chr2B 87.943 282 29 4 61 337 778794365 778794084 7.990000e-86 327.0
14 TraesCS3B01G377300 chr7B 86.795 727 54 12 1 697 588920233 588919519 0.000000e+00 773.0
15 TraesCS3B01G377300 chr5B 85.043 702 80 18 1 697 322413120 322412439 0.000000e+00 691.0
16 TraesCS3B01G377300 chr1B 85.072 623 48 23 91 697 684049115 684049708 7.140000e-166 593.0
17 TraesCS3B01G377300 chrUn 81.013 711 89 30 1 697 5421699 5422377 9.500000e-145 523.0
18 TraesCS3B01G377300 chr6B 85.714 364 46 6 336 696 238772199 238771839 2.180000e-101 379.0
19 TraesCS3B01G377300 chr6B 86.517 178 23 1 161 337 649443974 649444151 8.460000e-46 195.0


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 TraesCS3B01G377300 chr3B 594409120 594412109 2989 False 5522.0 5522 100.000 1 2990 1 chr3B.!!$F1 2989
1 TraesCS3B01G377300 chr3B 547204625 547205329 704 True 1090.0 1090 94.610 1 704 1 chr3B.!!$R2 703
2 TraesCS3B01G377300 chr3B 796886290 796886987 697 False 701.0 701 85.399 1 697 1 chr3B.!!$F2 696
3 TraesCS3B01G377300 chr3B 21452492 21453210 718 True 334.3 601 90.715 1 697 2 chr3B.!!$R3 696
4 TraesCS3B01G377300 chr3D 452416329 452418596 2267 False 3315.0 3315 93.214 739 2990 1 chr3D.!!$F1 2251
5 TraesCS3B01G377300 chr3A 594666788 594669042 2254 False 3238.0 3238 92.685 737 2990 1 chr3A.!!$F1 2253
6 TraesCS3B01G377300 chr2B 103327597 103328232 635 True 1014.0 1014 95.455 1 637 1 chr2B.!!$R1 636
7 TraesCS3B01G377300 chr2B 662880965 662881679 714 False 365.5 392 87.870 61 697 2 chr2B.!!$F1 636
8 TraesCS3B01G377300 chr2B 778793646 778794365 719 True 358.5 390 87.360 61 696 2 chr2B.!!$R2 635
9 TraesCS3B01G377300 chr7B 588919519 588920233 714 True 773.0 773 86.795 1 697 1 chr7B.!!$R1 696
10 TraesCS3B01G377300 chr5B 322412439 322413120 681 True 691.0 691 85.043 1 697 1 chr5B.!!$R1 696
11 TraesCS3B01G377300 chr1B 684049115 684049708 593 False 593.0 593 85.072 91 697 1 chr1B.!!$F1 606
12 TraesCS3B01G377300 chrUn 5421699 5422377 678 False 523.0 523 81.013 1 697 1 chrUn.!!$F1 696

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
583 810 0.033504 TTTGTCGGTCTGGACTGAGC 59.966 55.0 11.96 8.29 46.39 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2377 2638 1.092348 GGTTTAAGATCGGGTGCACC 58.908 55.0 28.57 28.57 0.0 5.01 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
312 319 1.225855 GTGTGTTTGCACTCCGATGA 58.774 50.000 0.00 0.00 45.44 2.92
369 548 4.681978 GGTTGAGCGGCGGTGACT 62.682 66.667 19.47 0.00 0.00 3.41
464 643 0.534203 GTGCGAGGGTTTCTGTTGGA 60.534 55.000 0.00 0.00 0.00 3.53
583 810 0.033504 TTTGTCGGTCTGGACTGAGC 59.966 55.000 11.96 8.29 46.39 4.26
664 891 0.958876 GGGACGAAAATTGACCGGCT 60.959 55.000 0.00 0.00 0.00 5.52
678 906 0.603569 CCGGCTGAGACTACAACTGT 59.396 55.000 0.00 0.00 0.00 3.55
698 926 6.951971 ACTGTTGCATTAGGAGTAGAGATTT 58.048 36.000 0.00 0.00 0.00 2.17
699 927 7.398024 ACTGTTGCATTAGGAGTAGAGATTTT 58.602 34.615 0.00 0.00 0.00 1.82
704 932 7.050377 TGCATTAGGAGTAGAGATTTTTCCAG 58.950 38.462 0.00 0.00 0.00 3.86
705 933 7.092891 TGCATTAGGAGTAGAGATTTTTCCAGA 60.093 37.037 0.00 0.00 0.00 3.86
706 934 7.440856 GCATTAGGAGTAGAGATTTTTCCAGAG 59.559 40.741 0.00 0.00 0.00 3.35
707 935 8.482128 CATTAGGAGTAGAGATTTTTCCAGAGT 58.518 37.037 0.00 0.00 0.00 3.24
708 936 6.943899 AGGAGTAGAGATTTTTCCAGAGTT 57.056 37.500 0.00 0.00 0.00 3.01
709 937 7.323052 AGGAGTAGAGATTTTTCCAGAGTTT 57.677 36.000 0.00 0.00 0.00 2.66
710 938 7.390823 AGGAGTAGAGATTTTTCCAGAGTTTC 58.609 38.462 0.00 0.00 0.00 2.78
711 939 6.311690 GGAGTAGAGATTTTTCCAGAGTTTCG 59.688 42.308 0.00 0.00 0.00 3.46
712 940 6.166982 AGTAGAGATTTTTCCAGAGTTTCGG 58.833 40.000 0.00 0.00 0.00 4.30
713 941 5.228945 AGAGATTTTTCCAGAGTTTCGGA 57.771 39.130 0.00 0.00 0.00 4.55
714 942 4.998033 AGAGATTTTTCCAGAGTTTCGGAC 59.002 41.667 0.00 0.00 0.00 4.79
715 943 4.974399 AGATTTTTCCAGAGTTTCGGACT 58.026 39.130 0.00 0.00 42.70 3.85
716 944 5.377478 AGATTTTTCCAGAGTTTCGGACTT 58.623 37.500 0.00 0.00 39.19 3.01
717 945 5.470437 AGATTTTTCCAGAGTTTCGGACTTC 59.530 40.000 0.00 0.00 39.19 3.01
718 946 4.417426 TTTTCCAGAGTTTCGGACTTCT 57.583 40.909 0.00 0.00 39.19 2.85
719 947 4.417426 TTTCCAGAGTTTCGGACTTCTT 57.583 40.909 0.00 0.00 39.19 2.52
720 948 5.540400 TTTCCAGAGTTTCGGACTTCTTA 57.460 39.130 0.00 0.00 39.19 2.10
721 949 5.540400 TTCCAGAGTTTCGGACTTCTTAA 57.460 39.130 0.00 0.00 39.19 1.85
722 950 5.740290 TCCAGAGTTTCGGACTTCTTAAT 57.260 39.130 0.00 0.00 39.19 1.40
723 951 6.110411 TCCAGAGTTTCGGACTTCTTAATT 57.890 37.500 0.00 0.00 39.19 1.40
724 952 6.531021 TCCAGAGTTTCGGACTTCTTAATTT 58.469 36.000 0.00 0.00 39.19 1.82
725 953 6.649557 TCCAGAGTTTCGGACTTCTTAATTTC 59.350 38.462 0.00 0.00 39.19 2.17
726 954 6.128254 CCAGAGTTTCGGACTTCTTAATTTCC 60.128 42.308 0.00 0.00 39.19 3.13
727 955 6.651225 CAGAGTTTCGGACTTCTTAATTTCCT 59.349 38.462 0.00 0.00 39.19 3.36
728 956 7.817962 CAGAGTTTCGGACTTCTTAATTTCCTA 59.182 37.037 0.00 0.00 39.19 2.94
729 957 8.541234 AGAGTTTCGGACTTCTTAATTTCCTAT 58.459 33.333 0.00 0.00 39.19 2.57
730 958 9.163899 GAGTTTCGGACTTCTTAATTTCCTATT 57.836 33.333 0.00 0.00 39.19 1.73
731 959 9.516546 AGTTTCGGACTTCTTAATTTCCTATTT 57.483 29.630 0.00 0.00 33.92 1.40
732 960 9.770503 GTTTCGGACTTCTTAATTTCCTATTTC 57.229 33.333 0.00 0.00 0.00 2.17
733 961 8.502105 TTCGGACTTCTTAATTTCCTATTTCC 57.498 34.615 0.00 0.00 0.00 3.13
734 962 7.626390 TCGGACTTCTTAATTTCCTATTTCCA 58.374 34.615 0.00 0.00 0.00 3.53
735 963 8.272173 TCGGACTTCTTAATTTCCTATTTCCAT 58.728 33.333 0.00 0.00 0.00 3.41
759 987 2.992593 GAGAAAATCCCTCCACTCCAC 58.007 52.381 0.00 0.00 0.00 4.02
760 988 2.305927 GAGAAAATCCCTCCACTCCACA 59.694 50.000 0.00 0.00 0.00 4.17
761 989 2.716424 AGAAAATCCCTCCACTCCACAA 59.284 45.455 0.00 0.00 0.00 3.33
762 990 3.140144 AGAAAATCCCTCCACTCCACAAA 59.860 43.478 0.00 0.00 0.00 2.83
763 991 3.611025 AAATCCCTCCACTCCACAAAA 57.389 42.857 0.00 0.00 0.00 2.44
764 992 3.833559 AATCCCTCCACTCCACAAAAT 57.166 42.857 0.00 0.00 0.00 1.82
765 993 4.946160 AATCCCTCCACTCCACAAAATA 57.054 40.909 0.00 0.00 0.00 1.40
769 997 4.290985 TCCCTCCACTCCACAAAATATTCA 59.709 41.667 0.00 0.00 0.00 2.57
789 1017 9.935241 ATATTCATGTCTATACAGTCATCAACC 57.065 33.333 0.00 0.00 39.49 3.77
790 1018 5.831997 TCATGTCTATACAGTCATCAACCG 58.168 41.667 0.00 0.00 39.49 4.44
863 1091 1.641577 CGTCCTCTCATCCGAAAACC 58.358 55.000 0.00 0.00 0.00 3.27
871 1099 2.168521 CTCATCCGAAAACCCTGCTCTA 59.831 50.000 0.00 0.00 0.00 2.43
877 1105 1.464997 GAAAACCCTGCTCTAGTTGCG 59.535 52.381 6.14 0.00 0.00 4.85
934 1163 1.672356 ACAGAACTGCCATGGCGTC 60.672 57.895 30.87 25.53 45.51 5.19
959 1195 2.023223 CTTGTGCACGCCAAATGCC 61.023 57.895 13.13 0.00 42.69 4.40
962 1198 2.282391 TGCACGCCAAATGCCTCT 60.282 55.556 0.00 0.00 42.69 3.69
976 1212 7.414540 GCCAAATGCCTCTACATATATAAGCAC 60.415 40.741 0.00 0.00 0.00 4.40
1015 1251 4.157289 CACCAACTACGCTTCTTCTACCTA 59.843 45.833 0.00 0.00 0.00 3.08
1336 1575 2.573462 TGAAGGAAGGATGACAAGGGAG 59.427 50.000 0.00 0.00 0.00 4.30
1344 1583 2.486191 GGATGACAAGGGAGCAGGTATG 60.486 54.545 0.00 0.00 0.00 2.39
1414 1655 4.305989 TCAGCGAAATCTGCAAGTTTTT 57.694 36.364 0.00 0.00 36.08 1.94
1446 1687 7.577426 GCTGATGAATTTCTGGTTGGTATTTCA 60.577 37.037 0.00 0.00 0.00 2.69
1526 1767 3.877508 GTCATATGTTGAAGGTACCCTGC 59.122 47.826 8.74 0.00 35.70 4.85
1528 1769 1.372501 ATGTTGAAGGTACCCTGCCT 58.627 50.000 8.74 0.00 38.11 4.75
1551 1796 6.376864 CCTATACCCTCACAGATACAGAGATG 59.623 46.154 0.00 0.00 0.00 2.90
1564 1809 8.200120 CAGATACAGAGATGACCTCATGTTTTA 58.800 37.037 0.00 0.00 44.40 1.52
1609 1862 9.477484 AGTACAATATTTGTATACTACTGCAGC 57.523 33.333 15.27 0.00 46.73 5.25
1620 1873 6.668541 ATACTACTGCAGCATAAACTGTTG 57.331 37.500 15.27 0.00 39.96 3.33
1638 1891 6.357367 ACTGTTGGGATTAATATGACCTCAC 58.643 40.000 0.00 0.00 0.00 3.51
1765 2020 5.818336 TGTTTCTGAAAATACAGTTGACGGA 59.182 36.000 4.09 0.00 38.79 4.69
1852 2107 2.352127 GCCAAGGCAAGTTGACAATCTC 60.352 50.000 12.25 0.00 41.49 2.75
1919 2174 5.418840 ACAAACTTCTTTTCCAAGCTCTTCA 59.581 36.000 0.00 0.00 0.00 3.02
1943 2198 5.827797 AGCAGATGAACTTCTTTTGTACCAA 59.172 36.000 0.00 0.00 0.00 3.67
2011 2267 4.494091 ACATCAAGGGATTAGGACAGTG 57.506 45.455 0.00 0.00 0.00 3.66
2017 2273 3.724478 AGGGATTAGGACAGTGATGTGA 58.276 45.455 0.00 0.00 0.00 3.58
2018 2274 4.302067 AGGGATTAGGACAGTGATGTGAT 58.698 43.478 0.00 0.00 0.00 3.06
2019 2275 4.102210 AGGGATTAGGACAGTGATGTGATG 59.898 45.833 0.00 0.00 0.00 3.07
2020 2276 4.141620 GGGATTAGGACAGTGATGTGATGT 60.142 45.833 0.00 0.00 0.00 3.06
2021 2277 4.813161 GGATTAGGACAGTGATGTGATGTG 59.187 45.833 0.00 0.00 0.00 3.21
2022 2278 4.890158 TTAGGACAGTGATGTGATGTGT 57.110 40.909 0.00 0.00 0.00 3.72
2023 2279 3.049708 AGGACAGTGATGTGATGTGTG 57.950 47.619 0.00 0.00 0.00 3.82
2024 2280 1.466167 GGACAGTGATGTGATGTGTGC 59.534 52.381 0.00 0.00 0.00 4.57
2025 2281 2.420642 GACAGTGATGTGATGTGTGCT 58.579 47.619 0.00 0.00 0.00 4.40
2039 2295 1.854126 GTGTGCTTGTGTTGTTCATGC 59.146 47.619 0.00 0.00 36.79 4.06
2040 2296 1.475682 TGTGCTTGTGTTGTTCATGCA 59.524 42.857 0.00 0.00 41.34 3.96
2062 2318 5.616488 AAAATGGTTTTTGATGAGCATGC 57.384 34.783 10.51 10.51 33.79 4.06
2063 2319 2.747396 TGGTTTTTGATGAGCATGCC 57.253 45.000 15.66 6.65 0.00 4.40
2267 2525 6.038714 CAGGAGAAGCTTAACAGAAACTTTGT 59.961 38.462 0.00 0.00 0.00 2.83
2285 2543 7.458409 ACTTTGTCCGACAGACTTACTATAA 57.542 36.000 0.64 0.00 46.46 0.98
2286 2544 7.536855 ACTTTGTCCGACAGACTTACTATAAG 58.463 38.462 0.64 1.63 46.46 1.73
2287 2545 5.496133 TGTCCGACAGACTTACTATAAGC 57.504 43.478 0.00 0.00 46.46 3.09
2288 2546 5.191426 TGTCCGACAGACTTACTATAAGCT 58.809 41.667 0.00 0.00 46.46 3.74
2289 2547 6.351711 TGTCCGACAGACTTACTATAAGCTA 58.648 40.000 0.00 0.00 46.46 3.32
2293 2551 8.350722 TCCGACAGACTTACTATAAGCTAATTG 58.649 37.037 0.00 0.00 0.00 2.32
2294 2552 7.115095 CCGACAGACTTACTATAAGCTAATTGC 59.885 40.741 0.00 0.00 43.29 3.56
2310 2571 5.067805 GCTAATTGCTTGCTTACCTAATGGT 59.932 40.000 0.00 0.00 43.54 3.55
2314 2575 3.756434 TGCTTGCTTACCTAATGGTTGTC 59.244 43.478 0.00 0.00 46.05 3.18
2338 2599 6.764560 TCATATGATGTGTTCAGAAGTCCATG 59.235 38.462 0.00 0.00 37.89 3.66
2341 2602 1.142667 TGTGTTCAGAAGTCCATGGCA 59.857 47.619 6.96 0.00 0.00 4.92
2352 2613 4.510167 AGTCCATGGCATTAAGCTTACT 57.490 40.909 6.96 0.00 44.79 2.24
2356 2617 4.883585 TCCATGGCATTAAGCTTACTCAAG 59.116 41.667 6.96 0.12 44.79 3.02
2369 2630 4.459337 GCTTACTCAAGTAAACCCTGCATT 59.541 41.667 4.32 0.00 39.70 3.56
2377 2638 3.440173 AGTAAACCCTGCATTTGATGACG 59.560 43.478 0.00 0.00 0.00 4.35
2420 2681 2.825532 GGCATGACTGTAAACCCAACAT 59.174 45.455 0.00 0.00 0.00 2.71
2614 2878 3.532155 GGATGACCGCCGCTCTCT 61.532 66.667 0.00 0.00 0.00 3.10
2638 2902 4.217118 ACAAATGCTCTGTGATCCAAGTTC 59.783 41.667 0.00 0.00 0.00 3.01
2641 2905 2.009042 GCTCTGTGATCCAAGTTCCCG 61.009 57.143 0.00 0.00 0.00 5.14
2710 2974 3.797039 TCTGCAATATCTCCCGAAACTG 58.203 45.455 0.00 0.00 0.00 3.16
2864 3128 1.620819 TCTTGTCAGCCCTTCTCTCAC 59.379 52.381 0.00 0.00 0.00 3.51
2965 3229 4.274602 TGCAAAATCATGGATGCACTTT 57.725 36.364 10.23 0.00 43.32 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 88 7.238710 AGTGGTAACCCTTTCAAATCTTACAT 58.761 34.615 0.00 0.00 0.00 2.29
343 468 4.735132 CGCTCAACCCTTCGCCGA 62.735 66.667 0.00 0.00 0.00 5.54
583 810 1.378514 CCCACCGATTCCCCACTTG 60.379 63.158 0.00 0.00 0.00 3.16
664 891 5.011635 TCCTAATGCAACAGTTGTAGTCTCA 59.988 40.000 14.88 3.54 0.00 3.27
678 906 7.402054 TGGAAAAATCTCTACTCCTAATGCAA 58.598 34.615 0.00 0.00 0.00 4.08
698 926 4.417426 AAGAAGTCCGAAACTCTGGAAA 57.583 40.909 0.00 0.00 37.17 3.13
699 927 5.540400 TTAAGAAGTCCGAAACTCTGGAA 57.460 39.130 0.00 0.00 37.17 3.53
704 932 8.719560 ATAGGAAATTAAGAAGTCCGAAACTC 57.280 34.615 0.00 0.00 37.17 3.01
705 933 9.516546 AAATAGGAAATTAAGAAGTCCGAAACT 57.483 29.630 0.00 0.00 41.10 2.66
706 934 9.770503 GAAATAGGAAATTAAGAAGTCCGAAAC 57.229 33.333 0.00 0.00 35.19 2.78
707 935 8.953313 GGAAATAGGAAATTAAGAAGTCCGAAA 58.047 33.333 0.00 0.00 35.19 3.46
708 936 8.104566 TGGAAATAGGAAATTAAGAAGTCCGAA 58.895 33.333 0.00 0.00 35.19 4.30
709 937 7.626390 TGGAAATAGGAAATTAAGAAGTCCGA 58.374 34.615 0.00 0.00 35.19 4.55
710 938 7.859325 TGGAAATAGGAAATTAAGAAGTCCG 57.141 36.000 0.00 0.00 35.19 4.79
711 939 9.408648 TGATGGAAATAGGAAATTAAGAAGTCC 57.591 33.333 0.00 0.00 0.00 3.85
713 941 9.413734 CCTGATGGAAATAGGAAATTAAGAAGT 57.586 33.333 0.00 0.00 33.33 3.01
714 942 9.632638 TCCTGATGGAAATAGGAAATTAAGAAG 57.367 33.333 0.00 0.00 39.87 2.85
715 943 9.632638 CTCCTGATGGAAATAGGAAATTAAGAA 57.367 33.333 0.00 0.00 42.66 2.52
716 944 9.003145 TCTCCTGATGGAAATAGGAAATTAAGA 57.997 33.333 0.00 0.00 42.66 2.10
717 945 9.632638 TTCTCCTGATGGAAATAGGAAATTAAG 57.367 33.333 0.00 0.00 42.66 1.85
718 946 9.989296 TTTCTCCTGATGGAAATAGGAAATTAA 57.011 29.630 0.00 0.00 42.66 1.40
719 947 9.989296 TTTTCTCCTGATGGAAATAGGAAATTA 57.011 29.630 0.00 0.00 42.66 1.40
720 948 8.899887 TTTTCTCCTGATGGAAATAGGAAATT 57.100 30.769 0.00 0.00 42.66 1.82
721 949 9.140874 GATTTTCTCCTGATGGAAATAGGAAAT 57.859 33.333 0.00 0.00 42.66 2.17
722 950 7.561356 GGATTTTCTCCTGATGGAAATAGGAAA 59.439 37.037 0.00 0.00 42.66 3.13
723 951 7.062957 GGATTTTCTCCTGATGGAAATAGGAA 58.937 38.462 0.00 0.00 42.66 3.36
724 952 6.410853 GGGATTTTCTCCTGATGGAAATAGGA 60.411 42.308 0.00 0.00 44.28 2.94
725 953 5.772169 GGGATTTTCTCCTGATGGAAATAGG 59.228 44.000 0.00 0.00 44.28 2.57
726 954 6.608922 AGGGATTTTCTCCTGATGGAAATAG 58.391 40.000 0.00 0.00 44.28 1.73
727 955 6.410853 GGAGGGATTTTCTCCTGATGGAAATA 60.411 42.308 3.12 0.00 45.46 1.40
728 956 5.453158 GAGGGATTTTCTCCTGATGGAAAT 58.547 41.667 0.00 0.00 44.28 2.17
729 957 4.325344 GGAGGGATTTTCTCCTGATGGAAA 60.325 45.833 3.12 0.00 45.46 3.13
730 958 3.203040 GGAGGGATTTTCTCCTGATGGAA 59.797 47.826 3.12 0.00 45.46 3.53
731 959 2.780010 GGAGGGATTTTCTCCTGATGGA 59.220 50.000 3.12 0.00 45.46 3.41
732 960 3.220674 GGAGGGATTTTCTCCTGATGG 57.779 52.381 3.12 0.00 45.46 3.51
763 991 9.935241 GGTTGATGACTGTATAGACATGAATAT 57.065 33.333 8.99 0.00 38.98 1.28
764 992 8.082242 CGGTTGATGACTGTATAGACATGAATA 58.918 37.037 8.99 0.00 38.98 1.75
765 993 6.925718 CGGTTGATGACTGTATAGACATGAAT 59.074 38.462 8.99 0.00 38.98 2.57
769 997 6.273825 GTTCGGTTGATGACTGTATAGACAT 58.726 40.000 4.26 4.26 41.01 3.06
803 1031 2.357517 ACAGGAAGAGTTGCGGCG 60.358 61.111 0.51 0.51 0.00 6.46
863 1091 0.459237 CCTGACGCAACTAGAGCAGG 60.459 60.000 0.00 0.00 36.00 4.85
877 1105 3.368571 GTGCAAGCCAGGCCTGAC 61.369 66.667 34.91 24.22 0.00 3.51
950 1186 6.599244 TGCTTATATATGTAGAGGCATTTGGC 59.401 38.462 0.00 0.00 43.74 4.52
976 1212 0.531532 GGTGAGTGATCCGCATCCAG 60.532 60.000 0.00 0.00 0.00 3.86
1015 1251 0.834612 TGTTGGTTCTCCTTCACCGT 59.165 50.000 0.00 0.00 35.60 4.83
1144 1383 2.206635 CCTGACTGGTCTAGCAGGG 58.793 63.158 13.29 1.97 42.29 4.45
1154 1393 1.971505 TTCGCATAGGCCCTGACTGG 61.972 60.000 0.00 0.00 36.38 4.00
1344 1583 1.597663 GGCGGTTCAGTGTATGTATGC 59.402 52.381 0.00 0.00 0.00 3.14
1394 1634 4.293415 AGAAAAACTTGCAGATTTCGCTG 58.707 39.130 8.80 0.00 36.99 5.18
1396 1636 6.668325 GCATAAGAAAAACTTGCAGATTTCGC 60.668 38.462 8.80 0.00 39.38 4.70
1397 1637 6.583806 AGCATAAGAAAAACTTGCAGATTTCG 59.416 34.615 0.00 0.00 39.38 3.46
1414 1655 6.095860 CCAACCAGAAATTCATCAGCATAAGA 59.904 38.462 0.00 0.00 0.00 2.10
1446 1687 2.684881 CGAAGGGCTGCATACTGAATTT 59.315 45.455 0.50 0.00 0.00 1.82
1526 1767 5.882040 TCTCTGTATCTGTGAGGGTATAGG 58.118 45.833 0.00 0.00 0.00 2.57
1528 1769 6.943146 GTCATCTCTGTATCTGTGAGGGTATA 59.057 42.308 0.00 0.00 0.00 1.47
1564 1809 7.129457 TGTACTGCCTGAGAAATCAATAGAT 57.871 36.000 0.00 0.00 35.53 1.98
1609 1862 9.354673 AGGTCATATTAATCCCAACAGTTTATG 57.645 33.333 0.00 0.00 0.00 1.90
1681 1936 2.092429 TGTTGTTTGCTCAGAGGAAGGT 60.092 45.455 4.36 0.00 0.00 3.50
1765 2020 2.236395 CCAACCTTCCTCCACGTATTCT 59.764 50.000 0.00 0.00 0.00 2.40
1852 2107 2.349580 CGCCACATGCATATATCTTCCG 59.650 50.000 0.00 0.00 41.33 4.30
1919 2174 5.376625 TGGTACAAAAGAAGTTCATCTGCT 58.623 37.500 5.50 0.00 29.94 4.24
1959 2214 7.627939 GCATCCATCATTTATCTAACCATGAGC 60.628 40.741 0.00 0.00 0.00 4.26
2011 2267 3.243168 ACAACACAAGCACACATCACATC 60.243 43.478 0.00 0.00 0.00 3.06
2017 2273 3.708890 CATGAACAACACAAGCACACAT 58.291 40.909 0.00 0.00 0.00 3.21
2018 2274 2.734809 GCATGAACAACACAAGCACACA 60.735 45.455 0.00 0.00 0.00 3.72
2019 2275 1.854126 GCATGAACAACACAAGCACAC 59.146 47.619 0.00 0.00 0.00 3.82
2020 2276 1.475682 TGCATGAACAACACAAGCACA 59.524 42.857 0.00 0.00 32.21 4.57
2021 2277 2.206815 TGCATGAACAACACAAGCAC 57.793 45.000 0.00 0.00 32.21 4.40
2022 2278 2.955477 TTGCATGAACAACACAAGCA 57.045 40.000 0.00 0.00 34.19 3.91
2023 2279 4.520078 CATTTTGCATGAACAACACAAGC 58.480 39.130 0.00 0.00 0.00 4.01
2024 2280 4.571580 ACCATTTTGCATGAACAACACAAG 59.428 37.500 0.00 0.00 0.00 3.16
2025 2281 4.511527 ACCATTTTGCATGAACAACACAA 58.488 34.783 0.00 0.00 0.00 3.33
2040 2296 4.456566 GGCATGCTCATCAAAAACCATTTT 59.543 37.500 18.92 0.00 39.30 1.82
2061 2317 4.961438 AATTGGATAATGGAATGTGGGC 57.039 40.909 0.00 0.00 0.00 5.36
2062 2318 5.068987 ACGAAATTGGATAATGGAATGTGGG 59.931 40.000 0.00 0.00 0.00 4.61
2063 2319 6.147864 ACGAAATTGGATAATGGAATGTGG 57.852 37.500 0.00 0.00 0.00 4.17
2213 2471 2.691011 CCTAGGAGTTGAGGAGCACTAC 59.309 54.545 1.05 0.00 34.46 2.73
2267 2525 8.350722 CAATTAGCTTATAGTAAGTCTGTCGGA 58.649 37.037 0.00 0.00 0.00 4.55
2286 2544 5.523369 CCATTAGGTAAGCAAGCAATTAGC 58.477 41.667 0.00 0.00 46.19 3.09
2310 2571 6.595326 GGACTTCTGAACACATCATATGACAA 59.405 38.462 7.78 0.00 37.44 3.18
2314 2575 6.017357 CCATGGACTTCTGAACACATCATATG 60.017 42.308 5.56 0.00 37.44 1.78
2338 2599 6.404403 GGGTTTACTTGAGTAAGCTTAATGCC 60.404 42.308 11.80 0.00 44.23 4.40
2341 2602 6.374613 GCAGGGTTTACTTGAGTAAGCTTAAT 59.625 38.462 7.99 7.01 41.03 1.40
2352 2613 5.048083 GTCATCAAATGCAGGGTTTACTTGA 60.048 40.000 0.00 0.00 0.00 3.02
2356 2617 3.427503 CCGTCATCAAATGCAGGGTTTAC 60.428 47.826 0.00 0.00 0.00 2.01
2377 2638 1.092348 GGTTTAAGATCGGGTGCACC 58.908 55.000 28.57 28.57 0.00 5.01
2386 2647 1.947456 GTCATGCCGGGGTTTAAGATC 59.053 52.381 2.18 0.00 0.00 2.75
2420 2681 9.650539 CAAGATTATCAGAGAAGAGAAGTTCAA 57.349 33.333 5.50 0.00 0.00 2.69
2614 2878 4.910195 ACTTGGATCACAGAGCATTTGTA 58.090 39.130 0.00 0.00 0.00 2.41
2638 2902 1.204146 TGGAGGATTCCTTCTTCGGG 58.796 55.000 12.38 0.00 44.36 5.14
2641 2905 3.136260 AGAGCATGGAGGATTCCTTCTTC 59.864 47.826 12.38 5.23 44.36 2.87
2710 2974 4.800249 GCTCTCATGACTGATCCAGATTCC 60.800 50.000 0.45 0.00 35.18 3.01
2815 3079 3.230134 TGTTGAGGCCTATTTTGCTTGT 58.770 40.909 4.42 0.00 0.00 3.16
2864 3128 3.485633 CAATCGACAGTCAAGTTGCATG 58.514 45.455 0.41 1.87 0.00 4.06
2965 3229 2.223502 GGATCTACATGAGCGTTCGTCA 60.224 50.000 0.00 0.00 30.59 4.35


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

AutoCloner maintained by Alex Coulton.