Multiple sequence alignment - TraesCS7B01G025000

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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 TraesCS7B01G025000 chr7B 100.000 1647 0 0 1 1647 23640387 23638741 0.000000e+00 3042
1 TraesCS7B01G025000 chr7B 99.454 916 1 2 732 1647 253687448 253688359 0.000000e+00 1661
2 TraesCS7B01G025000 chr7B 100.000 734 0 0 1885 2618 23638503 23637770 0.000000e+00 1356
3 TraesCS7B01G025000 chr7B 96.328 817 26 2 831 1647 725613560 725612748 0.000000e+00 1339
4 TraesCS7B01G025000 chr7B 96.206 817 27 2 831 1647 725648422 725647610 0.000000e+00 1334
5 TraesCS7B01G025000 chr7B 92.066 731 54 3 7 735 23935902 23935174 0.000000e+00 1026
6 TraesCS7B01G025000 chr7B 90.634 726 68 0 1893 2618 23935190 23934465 0.000000e+00 965
7 TraesCS7B01G025000 chr7B 88.446 727 84 0 7 733 23518735 23518009 0.000000e+00 878
8 TraesCS7B01G025000 chr7B 87.415 731 92 0 1 731 23941096 23940366 0.000000e+00 841
9 TraesCS7B01G025000 chr7B 87.208 727 93 0 7 733 23584908 23584182 0.000000e+00 828
10 TraesCS7B01G025000 chr7B 86.694 729 93 4 7 733 23960572 23959846 0.000000e+00 806
11 TraesCS7B01G025000 chr7B 84.757 761 80 12 1893 2618 23518023 23517264 0.000000e+00 730
12 TraesCS7B01G025000 chr7B 82.626 754 96 16 1893 2615 23526425 23525676 3.680000e-178 634
13 TraesCS7B01G025000 chr7B 81.871 684 107 12 1945 2618 23940321 23939645 6.330000e-156 560
14 TraesCS7B01G025000 chr5B 97.307 817 21 1 831 1647 198416637 198417452 0.000000e+00 1386
15 TraesCS7B01G025000 chr4A 97.307 817 21 1 831 1647 607178756 607179571 0.000000e+00 1386
16 TraesCS7B01G025000 chrUn 96.450 817 25 2 831 1647 331324963 331325775 0.000000e+00 1345
17 TraesCS7B01G025000 chrUn 96.328 817 26 2 831 1647 331364795 331365607 0.000000e+00 1339
18 TraesCS7B01G025000 chr3B 95.349 817 29 3 831 1647 22525169 22524362 0.000000e+00 1290
19 TraesCS7B01G025000 chr3B 82.074 569 81 7 2071 2618 741464850 741464282 1.420000e-127 466
20 TraesCS7B01G025000 chr7D 92.297 727 56 0 7 733 76932474 76931748 0.000000e+00 1033
21 TraesCS7B01G025000 chr7D 89.023 747 61 3 1893 2618 76931762 76931016 0.000000e+00 905
22 TraesCS7B01G025000 chr7D 87.330 734 91 2 1 733 76957097 76956365 0.000000e+00 839
23 TraesCS7B01G025000 chr7D 86.301 730 95 4 7 733 77047148 77046421 0.000000e+00 789
24 TraesCS7B01G025000 chr7D 83.156 754 98 10 1893 2618 76921167 76920415 0.000000e+00 662
25 TraesCS7B01G025000 chr7D 81.818 748 91 19 1898 2618 76745415 76744686 1.040000e-163 586
26 TraesCS7B01G025000 chr7D 82.225 692 96 13 1945 2618 76785984 76785302 2.920000e-159 571
27 TraesCS7B01G025000 chr7D 80.769 754 108 14 1893 2617 76623339 76624084 2.940000e-154 555
28 TraesCS7B01G025000 chr7D 80.559 751 104 24 1893 2618 76634005 76634738 8.240000e-150 540
29 TraesCS7B01G025000 chr7D 82.290 559 80 14 1893 2440 77046435 77045885 1.420000e-127 466
30 TraesCS7B01G025000 chr7D 82.051 546 77 5 2094 2618 7562735 7562190 1.850000e-121 446
31 TraesCS7B01G025000 chr7D 80.342 585 94 7 2055 2618 8254355 8254939 8.660000e-115 424
32 TraesCS7B01G025000 chr7D 87.129 202 26 0 2417 2618 76948715 76948514 2.030000e-56 230
33 TraesCS7B01G025000 chr1A 90.228 614 59 1 979 1591 35544856 35545469 0.000000e+00 800
34 TraesCS7B01G025000 chr7A 86.240 734 99 2 1 733 80864564 80863832 0.000000e+00 795
35 TraesCS7B01G025000 chr7A 82.823 751 93 14 1893 2618 80863846 80863107 7.900000e-180 640
36 TraesCS7B01G025000 chr7A 80.139 574 93 7 2066 2618 8693393 8693966 2.430000e-110 409


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 TraesCS7B01G025000 chr7B 23637770 23640387 2617 True 2199.0 3042 100.0000 1 2618 2 chr7B.!!$R7 2617
1 TraesCS7B01G025000 chr7B 253687448 253688359 911 False 1661.0 1661 99.4540 732 1647 1 chr7B.!!$F1 915
2 TraesCS7B01G025000 chr7B 725612748 725613560 812 True 1339.0 1339 96.3280 831 1647 1 chr7B.!!$R4 816
3 TraesCS7B01G025000 chr7B 725647610 725648422 812 True 1334.0 1334 96.2060 831 1647 1 chr7B.!!$R5 816
4 TraesCS7B01G025000 chr7B 23934465 23941096 6631 True 848.0 1026 87.9965 1 2618 4 chr7B.!!$R8 2617
5 TraesCS7B01G025000 chr7B 23584182 23584908 726 True 828.0 828 87.2080 7 733 1 chr7B.!!$R2 726
6 TraesCS7B01G025000 chr7B 23959846 23960572 726 True 806.0 806 86.6940 7 733 1 chr7B.!!$R3 726
7 TraesCS7B01G025000 chr7B 23517264 23518735 1471 True 804.0 878 86.6015 7 2618 2 chr7B.!!$R6 2611
8 TraesCS7B01G025000 chr7B 23525676 23526425 749 True 634.0 634 82.6260 1893 2615 1 chr7B.!!$R1 722
9 TraesCS7B01G025000 chr5B 198416637 198417452 815 False 1386.0 1386 97.3070 831 1647 1 chr5B.!!$F1 816
10 TraesCS7B01G025000 chr4A 607178756 607179571 815 False 1386.0 1386 97.3070 831 1647 1 chr4A.!!$F1 816
11 TraesCS7B01G025000 chrUn 331324963 331325775 812 False 1345.0 1345 96.4500 831 1647 1 chrUn.!!$F1 816
12 TraesCS7B01G025000 chrUn 331364795 331365607 812 False 1339.0 1339 96.3280 831 1647 1 chrUn.!!$F2 816
13 TraesCS7B01G025000 chr3B 22524362 22525169 807 True 1290.0 1290 95.3490 831 1647 1 chr3B.!!$R1 816
14 TraesCS7B01G025000 chr3B 741464282 741464850 568 True 466.0 466 82.0740 2071 2618 1 chr3B.!!$R2 547
15 TraesCS7B01G025000 chr7D 76931016 76932474 1458 True 969.0 1033 90.6600 7 2618 2 chr7D.!!$R7 2611
16 TraesCS7B01G025000 chr7D 76956365 76957097 732 True 839.0 839 87.3300 1 733 1 chr7D.!!$R6 732
17 TraesCS7B01G025000 chr7D 76920415 76921167 752 True 662.0 662 83.1560 1893 2618 1 chr7D.!!$R4 725
18 TraesCS7B01G025000 chr7D 77045885 77047148 1263 True 627.5 789 84.2955 7 2440 2 chr7D.!!$R8 2433
19 TraesCS7B01G025000 chr7D 76744686 76745415 729 True 586.0 586 81.8180 1898 2618 1 chr7D.!!$R2 720
20 TraesCS7B01G025000 chr7D 76785302 76785984 682 True 571.0 571 82.2250 1945 2618 1 chr7D.!!$R3 673
21 TraesCS7B01G025000 chr7D 76623339 76624084 745 False 555.0 555 80.7690 1893 2617 1 chr7D.!!$F2 724
22 TraesCS7B01G025000 chr7D 76634005 76634738 733 False 540.0 540 80.5590 1893 2618 1 chr7D.!!$F3 725
23 TraesCS7B01G025000 chr7D 7562190 7562735 545 True 446.0 446 82.0510 2094 2618 1 chr7D.!!$R1 524
24 TraesCS7B01G025000 chr7D 8254355 8254939 584 False 424.0 424 80.3420 2055 2618 1 chr7D.!!$F1 563
25 TraesCS7B01G025000 chr1A 35544856 35545469 613 False 800.0 800 90.2280 979 1591 1 chr1A.!!$F1 612
26 TraesCS7B01G025000 chr7A 80863107 80864564 1457 True 717.5 795 84.5315 1 2618 2 chr7A.!!$R1 2617
27 TraesCS7B01G025000 chr7A 8693393 8693966 573 False 409.0 409 80.1390 2066 2618 1 chr7A.!!$F1 552

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
715 717 0.179161 CGACGCTACAACTGGAGAGG 60.179 60.0 0.0 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2542 7792 1.270518 TGCCTCTTGCTCTGAAGACAC 60.271 52.381 0.0 0.0 42.0 3.67 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
29 30 3.066814 GGGTACTGCGTCCTCCGT 61.067 66.667 0.00 0.00 39.32 4.69
97 98 4.023021 CCGACTAAGGATAAGTACTCCAGC 60.023 50.000 0.00 0.00 35.08 4.85
98 99 4.579340 CGACTAAGGATAAGTACTCCAGCA 59.421 45.833 0.00 0.00 35.08 4.41
100 101 6.223351 ACTAAGGATAAGTACTCCAGCAAC 57.777 41.667 0.00 0.00 35.08 4.17
142 143 7.509546 CAGGTATATTCTTACACCTTGTCCAT 58.490 38.462 0.00 0.00 39.40 3.41
235 236 6.543831 GGCCATCATATCCATATAACTCCAAC 59.456 42.308 0.00 0.00 0.00 3.77
299 300 1.467204 CCGCGTTGCATGCTTCATTTA 60.467 47.619 20.33 0.00 0.00 1.40
313 314 7.320443 TGCTTCATTTACAGGATTGTCATAC 57.680 36.000 0.00 0.00 38.76 2.39
346 347 5.116180 CACCAAGAGAACAACAACTCACTA 58.884 41.667 0.00 0.00 35.83 2.74
693 695 6.921857 AGACATATTGAATGCAGCAATTTAGC 59.078 34.615 18.95 9.69 37.22 3.09
694 696 6.575267 ACATATTGAATGCAGCAATTTAGCA 58.425 32.000 18.95 5.31 43.14 3.49
699 701 2.830772 TGCAGCAATTTAGCATCGAC 57.169 45.000 0.00 0.00 36.85 4.20
700 702 1.062440 TGCAGCAATTTAGCATCGACG 59.938 47.619 0.00 0.00 36.85 5.12
701 703 1.734885 CAGCAATTTAGCATCGACGC 58.265 50.000 0.00 0.00 36.85 5.19
702 704 1.328680 CAGCAATTTAGCATCGACGCT 59.671 47.619 12.06 12.06 46.26 5.07
703 705 2.539688 CAGCAATTTAGCATCGACGCTA 59.460 45.455 9.50 9.50 43.56 4.26
704 706 2.540101 AGCAATTTAGCATCGACGCTAC 59.460 45.455 13.55 1.11 44.03 3.58
705 707 2.284150 GCAATTTAGCATCGACGCTACA 59.716 45.455 13.55 7.33 44.03 2.74
706 708 3.242284 GCAATTTAGCATCGACGCTACAA 60.242 43.478 13.55 10.98 44.03 2.41
707 709 4.263800 CAATTTAGCATCGACGCTACAAC 58.736 43.478 13.55 0.00 44.03 3.32
708 710 2.933495 TTAGCATCGACGCTACAACT 57.067 45.000 13.55 0.00 44.03 3.16
709 711 2.188837 TAGCATCGACGCTACAACTG 57.811 50.000 9.50 0.00 43.56 3.16
710 712 0.458543 AGCATCGACGCTACAACTGG 60.459 55.000 3.09 0.00 41.55 4.00
711 713 0.457853 GCATCGACGCTACAACTGGA 60.458 55.000 0.00 0.00 0.00 3.86
712 714 1.550065 CATCGACGCTACAACTGGAG 58.450 55.000 0.00 0.00 0.00 3.86
713 715 1.132453 CATCGACGCTACAACTGGAGA 59.868 52.381 0.00 0.00 0.00 3.71
714 716 0.803117 TCGACGCTACAACTGGAGAG 59.197 55.000 0.00 0.00 0.00 3.20
715 717 0.179161 CGACGCTACAACTGGAGAGG 60.179 60.000 0.00 0.00 0.00 3.69
716 718 0.889306 GACGCTACAACTGGAGAGGT 59.111 55.000 0.00 0.00 0.00 3.85
717 719 0.889306 ACGCTACAACTGGAGAGGTC 59.111 55.000 0.00 0.00 0.00 3.85
718 720 0.888619 CGCTACAACTGGAGAGGTCA 59.111 55.000 0.00 0.00 0.00 4.02
719 721 1.272490 CGCTACAACTGGAGAGGTCAA 59.728 52.381 0.00 0.00 0.00 3.18
720 722 2.672478 CGCTACAACTGGAGAGGTCAAG 60.672 54.545 0.00 0.00 0.00 3.02
721 723 2.563179 GCTACAACTGGAGAGGTCAAGA 59.437 50.000 0.00 0.00 0.00 3.02
722 724 3.196685 GCTACAACTGGAGAGGTCAAGAT 59.803 47.826 0.00 0.00 0.00 2.40
723 725 4.402793 GCTACAACTGGAGAGGTCAAGATA 59.597 45.833 0.00 0.00 0.00 1.98
724 726 4.810191 ACAACTGGAGAGGTCAAGATAC 57.190 45.455 0.00 0.00 0.00 2.24
725 727 3.515901 ACAACTGGAGAGGTCAAGATACC 59.484 47.826 0.00 0.00 40.06 2.73
726 728 2.379972 ACTGGAGAGGTCAAGATACCG 58.620 52.381 0.00 0.00 44.77 4.02
727 729 2.291670 ACTGGAGAGGTCAAGATACCGT 60.292 50.000 0.00 0.00 44.77 4.83
728 730 3.053842 ACTGGAGAGGTCAAGATACCGTA 60.054 47.826 0.00 0.00 44.77 4.02
729 731 3.952323 CTGGAGAGGTCAAGATACCGTAA 59.048 47.826 0.00 0.00 44.77 3.18
730 732 4.346730 TGGAGAGGTCAAGATACCGTAAA 58.653 43.478 0.00 0.00 44.77 2.01
804 806 2.565841 GCAAGAAGGACGAAGGCATAT 58.434 47.619 0.00 0.00 0.00 1.78
805 807 3.494398 GGCAAGAAGGACGAAGGCATATA 60.494 47.826 0.00 0.00 0.00 0.86
806 808 3.495001 GCAAGAAGGACGAAGGCATATAC 59.505 47.826 0.00 0.00 0.00 1.47
1931 1934 2.887783 TGCATTTTCGGCCTTGAAACTA 59.112 40.909 0.00 0.00 37.57 2.24
1932 1935 3.242518 GCATTTTCGGCCTTGAAACTAC 58.757 45.455 0.00 0.00 37.57 2.73
1975 1994 2.440517 AATGATACATGTGGCAGCCA 57.559 45.000 11.22 11.22 0.00 4.75
2004 2023 4.974645 TCCTTGTGTGTCCTTGAAGTAT 57.025 40.909 0.00 0.00 0.00 2.12
2030 2052 3.632145 ACAAAGTGCGGAGAGATGTTTTT 59.368 39.130 0.00 0.00 0.00 1.94
2059 2081 5.520376 AACACCTCACATTTCTTTTCCAG 57.480 39.130 0.00 0.00 0.00 3.86
2069 2094 8.194769 TCACATTTCTTTTCCAGTTTAACCTTC 58.805 33.333 0.00 0.00 0.00 3.46
2133 2161 6.720309 TGTTCCATCAATTCTTCTATGGTGA 58.280 36.000 0.00 0.00 39.91 4.02
2222 7436 8.263640 GTCTCATATTCTCTGCCACCATAATAT 58.736 37.037 0.00 0.00 0.00 1.28
2229 7455 7.182817 TCTCTGCCACCATAATATATACCAC 57.817 40.000 0.00 0.00 0.00 4.16
2308 7543 7.951530 ATTCTGCTTTTTGTGTTAAATCCAG 57.048 32.000 0.00 0.00 0.00 3.86
2351 7586 2.804212 GCCATTTGCCATCCATAGTTGC 60.804 50.000 0.00 0.00 0.00 4.17
2448 7683 9.325198 CATATGATAGGTGTTTGTAGCTTAACA 57.675 33.333 0.00 0.00 32.21 2.41
2460 7695 6.494666 TGTAGCTTAACATTAGTATGGGCT 57.505 37.500 0.00 0.00 36.01 5.19
2465 7700 5.588648 GCTTAACATTAGTATGGGCTTGACA 59.411 40.000 0.00 0.00 36.01 3.58
2495 7745 7.797121 ATCCCCAATGTTACTTTCTTCAATT 57.203 32.000 0.00 0.00 0.00 2.32
2499 7749 5.639082 CCAATGTTACTTTCTTCAATTGCCC 59.361 40.000 0.00 0.00 0.00 5.36
2542 7792 0.954452 GAACTCAGCAAACCACCCAG 59.046 55.000 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.915575 ACGCAGTACCCCTCTACG 58.084 61.111 0.00 0.00 41.94 3.51
29 30 9.851686 ATTATGTGATAACCTTTGCATAGAAGA 57.148 29.630 5.65 0.00 0.00 2.87
69 70 6.264970 GGAGTACTTATCCTTAGTCGGAATGT 59.735 42.308 0.00 0.00 36.49 2.71
100 101 6.716620 ATACCTGCAGTATGGTTGTCACCG 62.717 50.000 13.81 0.00 40.31 4.94
169 170 5.698741 TGAGAGACCCACATATGTTTCAT 57.301 39.130 5.37 0.00 0.00 2.57
178 179 1.690893 CGATGGATGAGAGACCCACAT 59.309 52.381 0.00 0.00 32.07 3.21
181 182 1.114627 CACGATGGATGAGAGACCCA 58.885 55.000 0.00 0.00 0.00 4.51
281 282 2.594321 TGTAAATGAAGCATGCAACGC 58.406 42.857 21.98 6.31 0.00 4.84
299 300 6.240549 CCTTAGAAGGTATGACAATCCTGT 57.759 41.667 0.00 0.00 41.41 4.00
346 347 6.127423 CCAATCTCCATCAGAAGCAAAATCTT 60.127 38.462 0.00 0.00 33.62 2.40
681 683 1.734885 CGTCGATGCTAAATTGCTGC 58.265 50.000 0.00 0.00 0.00 5.25
682 684 1.328680 AGCGTCGATGCTAAATTGCTG 59.671 47.619 30.14 0.00 45.14 4.41
683 685 1.656652 AGCGTCGATGCTAAATTGCT 58.343 45.000 30.14 3.97 45.14 3.91
690 692 1.202256 CCAGTTGTAGCGTCGATGCTA 60.202 52.381 30.72 30.72 45.14 3.49
692 694 0.457853 TCCAGTTGTAGCGTCGATGC 60.458 55.000 22.11 22.11 0.00 3.91
693 695 1.132453 TCTCCAGTTGTAGCGTCGATG 59.868 52.381 0.00 0.00 0.00 3.84
694 696 1.402259 CTCTCCAGTTGTAGCGTCGAT 59.598 52.381 0.00 0.00 0.00 3.59
695 697 0.803117 CTCTCCAGTTGTAGCGTCGA 59.197 55.000 0.00 0.00 0.00 4.20
696 698 0.179161 CCTCTCCAGTTGTAGCGTCG 60.179 60.000 0.00 0.00 0.00 5.12
697 699 0.889306 ACCTCTCCAGTTGTAGCGTC 59.111 55.000 0.00 0.00 0.00 5.19
698 700 0.889306 GACCTCTCCAGTTGTAGCGT 59.111 55.000 0.00 0.00 0.00 5.07
699 701 0.888619 TGACCTCTCCAGTTGTAGCG 59.111 55.000 0.00 0.00 0.00 4.26
700 702 2.563179 TCTTGACCTCTCCAGTTGTAGC 59.437 50.000 0.00 0.00 0.00 3.58
701 703 5.163499 GGTATCTTGACCTCTCCAGTTGTAG 60.163 48.000 0.00 0.00 36.47 2.74
702 704 4.710375 GGTATCTTGACCTCTCCAGTTGTA 59.290 45.833 0.00 0.00 36.47 2.41
703 705 3.515901 GGTATCTTGACCTCTCCAGTTGT 59.484 47.826 0.00 0.00 36.47 3.32
704 706 3.429547 CGGTATCTTGACCTCTCCAGTTG 60.430 52.174 0.00 0.00 37.34 3.16
705 707 2.761208 CGGTATCTTGACCTCTCCAGTT 59.239 50.000 0.00 0.00 37.34 3.16
706 708 2.291670 ACGGTATCTTGACCTCTCCAGT 60.292 50.000 0.00 0.00 37.34 4.00
707 709 2.379972 ACGGTATCTTGACCTCTCCAG 58.620 52.381 0.00 0.00 37.34 3.86
708 710 2.526888 ACGGTATCTTGACCTCTCCA 57.473 50.000 0.00 0.00 37.34 3.86
709 711 4.996788 TTTACGGTATCTTGACCTCTCC 57.003 45.455 0.00 0.00 37.34 3.71
710 712 5.163437 ACCATTTACGGTATCTTGACCTCTC 60.163 44.000 0.00 0.00 37.57 3.20
711 713 4.715297 ACCATTTACGGTATCTTGACCTCT 59.285 41.667 0.00 0.00 37.57 3.69
712 714 4.809426 CACCATTTACGGTATCTTGACCTC 59.191 45.833 0.00 0.00 37.07 3.85
713 715 4.383770 CCACCATTTACGGTATCTTGACCT 60.384 45.833 0.00 0.00 37.07 3.85
714 716 3.875134 CCACCATTTACGGTATCTTGACC 59.125 47.826 0.00 0.00 37.07 4.02
715 717 3.875134 CCCACCATTTACGGTATCTTGAC 59.125 47.826 0.00 0.00 37.07 3.18
716 718 3.775866 TCCCACCATTTACGGTATCTTGA 59.224 43.478 0.00 0.00 37.07 3.02
717 719 4.127171 CTCCCACCATTTACGGTATCTTG 58.873 47.826 0.00 0.00 37.07 3.02
718 720 3.778629 ACTCCCACCATTTACGGTATCTT 59.221 43.478 0.00 0.00 37.07 2.40
719 721 3.381335 ACTCCCACCATTTACGGTATCT 58.619 45.455 0.00 0.00 37.07 1.98
720 722 3.832615 ACTCCCACCATTTACGGTATC 57.167 47.619 0.00 0.00 37.07 2.24
721 723 3.070590 GCTACTCCCACCATTTACGGTAT 59.929 47.826 0.00 0.00 37.07 2.73
722 724 2.431782 GCTACTCCCACCATTTACGGTA 59.568 50.000 0.00 0.00 37.07 4.02
723 725 1.208776 GCTACTCCCACCATTTACGGT 59.791 52.381 0.00 0.00 41.07 4.83
724 726 1.474498 GGCTACTCCCACCATTTACGG 60.474 57.143 0.00 0.00 0.00 4.02
725 727 1.949465 GGCTACTCCCACCATTTACG 58.051 55.000 0.00 0.00 0.00 3.18
763 765 2.416747 CTCACGACAAAAGCATCAGGA 58.583 47.619 0.00 0.00 0.00 3.86
804 806 7.758076 CGGTCTCTATGTTCAATTGTTGTAGTA 59.242 37.037 5.13 0.00 0.00 1.82
805 807 6.590292 CGGTCTCTATGTTCAATTGTTGTAGT 59.410 38.462 5.13 0.00 0.00 2.73
806 808 6.811665 TCGGTCTCTATGTTCAATTGTTGTAG 59.188 38.462 5.13 4.80 0.00 2.74
1889 1892 6.750148 TGCAAACCATTTACGGTATCTTTTT 58.250 32.000 0.00 0.00 38.76 1.94
1890 1893 6.334102 TGCAAACCATTTACGGTATCTTTT 57.666 33.333 0.00 0.00 38.76 2.27
1891 1894 5.968528 TGCAAACCATTTACGGTATCTTT 57.031 34.783 0.00 0.00 38.76 2.52
1907 1910 2.147436 TCAAGGCCGAAAATGCAAAC 57.853 45.000 0.00 0.00 0.00 2.93
1975 1994 4.021102 AGGACACACAAGGATTCGAAAT 57.979 40.909 0.00 0.00 0.00 2.17
2004 2023 3.258372 ACATCTCTCCGCACTTTGTTAGA 59.742 43.478 0.00 0.00 0.00 2.10
2030 2052 6.713762 AAGAAATGTGAGGTGTTTGATGAA 57.286 33.333 0.00 0.00 0.00 2.57
2041 2063 6.923508 GGTTAAACTGGAAAAGAAATGTGAGG 59.076 38.462 0.00 0.00 0.00 3.86
2059 2081 4.226761 CCTGCAATTGTCGAAGGTTAAAC 58.773 43.478 7.40 0.00 0.00 2.01
2069 2094 1.497278 CCGTCACCTGCAATTGTCG 59.503 57.895 7.40 6.81 0.00 4.35
2114 2142 6.990341 TGTGTCACCATAGAAGAATTGATG 57.010 37.500 0.00 0.00 0.00 3.07
2133 2161 6.060136 CCAGAGATATCACCAATGAATGTGT 58.940 40.000 5.32 0.00 38.69 3.72
2190 7404 6.283694 GTGGCAGAGAATATGAGACAATACA 58.716 40.000 0.00 0.00 0.00 2.29
2191 7405 5.698545 GGTGGCAGAGAATATGAGACAATAC 59.301 44.000 0.00 0.00 0.00 1.89
2229 7455 6.218019 TCCTGCAAGAAATGAAAGTCAAATG 58.782 36.000 0.00 0.00 34.07 2.32
2289 7524 6.019075 GGAACACTGGATTTAACACAAAAAGC 60.019 38.462 0.00 0.00 0.00 3.51
2308 7543 5.106118 GGCTTTATTCAAGAAGAGGGAACAC 60.106 44.000 0.00 0.00 33.80 3.32
2351 7586 5.995897 TGAGATGCAGAAGGATATGTTGATG 59.004 40.000 0.00 0.00 0.00 3.07
2424 7659 9.899661 AATGTTAAGCTACAAACACCTATCATA 57.100 29.630 10.39 0.00 38.35 2.15
2448 7683 7.831193 GGATAATGATGTCAAGCCCATACTAAT 59.169 37.037 0.00 0.00 0.00 1.73
2460 7695 7.353525 AGTAACATTGGGGATAATGATGTCAA 58.646 34.615 5.58 0.00 39.79 3.18
2465 7700 9.136323 GAAGAAAGTAACATTGGGGATAATGAT 57.864 33.333 5.58 0.00 39.79 2.45
2495 7745 2.308570 ACAAGTACATGAATGGAGGGCA 59.691 45.455 4.87 0.00 0.00 5.36
2499 7749 5.633830 AAGCAACAAGTACATGAATGGAG 57.366 39.130 4.87 0.00 0.00 3.86
2542 7792 1.270518 TGCCTCTTGCTCTGAAGACAC 60.271 52.381 0.00 0.00 42.00 3.67


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

AutoCloner maintained by Alex Coulton.