Multiple sequence alignment - TraesCS5A01G508800

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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 TraesCS5A01G508800 chr5A 100.000 4883 0 0 1 4883 673238609 673233727 0.000000e+00 9018.0
1 TraesCS5A01G508800 chr5A 91.234 616 46 5 763 1371 673185055 673185669 0.000000e+00 832.0
2 TraesCS5A01G508800 chr5A 86.217 682 47 9 1692 2344 673186004 673186667 0.000000e+00 695.0
3 TraesCS5A01G508800 chr5A 84.884 258 32 2 1418 1668 673185757 673186014 2.260000e-63 254.0
4 TraesCS5A01G508800 chr4B 93.603 4205 162 27 769 4882 631899433 631895245 0.000000e+00 6176.0
5 TraesCS5A01G508800 chr4B 81.681 1321 146 42 3275 4540 632123110 632121831 0.000000e+00 1011.0
6 TraesCS5A01G508800 chr4B 81.245 1301 154 41 1996 3254 632124354 632123102 0.000000e+00 968.0
7 TraesCS5A01G508800 chr4B 82.560 992 133 26 3568 4540 632128760 632129730 0.000000e+00 837.0
8 TraesCS5A01G508800 chr4B 82.922 972 104 32 756 1668 632125667 632124699 0.000000e+00 819.0
9 TraesCS5A01G508800 chr4B 89.408 642 40 10 756 1371 631837608 631838247 0.000000e+00 784.0
10 TraesCS5A01G508800 chr4B 84.738 688 56 17 1692 2342 631838580 631839255 1.150000e-180 643.0
11 TraesCS5A01G508800 chr4B 86.503 326 20 6 1713 2020 632124679 632124360 2.180000e-88 337.0
12 TraesCS5A01G508800 chr4D 94.428 1705 57 11 754 2435 493924139 493922450 0.000000e+00 2588.0
13 TraesCS5A01G508800 chr4D 83.134 1589 170 53 1711 3254 493908471 493910006 0.000000e+00 1360.0
14 TraesCS5A01G508800 chr4D 82.779 1324 145 35 3266 4540 493909989 493911278 0.000000e+00 1105.0
15 TraesCS5A01G508800 chr4D 85.669 942 89 33 756 1653 493907540 493908479 0.000000e+00 950.0
16 TraesCS5A01G508800 chr2A 98.805 753 7 1 1 753 776174260 776173510 0.000000e+00 1339.0
17 TraesCS5A01G508800 chr2A 98.539 753 11 0 1 753 9952092 9951340 0.000000e+00 1330.0
18 TraesCS5A01G508800 chr1A 97.477 753 19 0 1 753 12308576 12307824 0.000000e+00 1286.0
19 TraesCS5A01G508800 chr1A 96.702 758 20 3 1 753 532734600 532735357 0.000000e+00 1256.0
20 TraesCS5A01G508800 chr1A 94.821 753 27 4 1 753 584971017 584970277 0.000000e+00 1164.0
21 TraesCS5A01G508800 chr3A 96.702 758 19 4 1 753 698296661 698295905 0.000000e+00 1256.0
22 TraesCS5A01G508800 chr7B 95.086 753 24 5 1 753 706975660 706976399 0.000000e+00 1173.0
23 TraesCS5A01G508800 chr3B 94.026 770 31 7 1 769 772228082 772227327 0.000000e+00 1153.0
24 TraesCS5A01G508800 chrUn 92.696 753 48 4 1 753 117079460 117078715 0.000000e+00 1079.0
25 TraesCS5A01G508800 chr4A 86.107 763 76 17 2 753 696131387 696132130 0.000000e+00 795.0
26 TraesCS5A01G508800 chr2B 86.071 761 75 21 5 753 761714883 761714142 0.000000e+00 789.0
27 TraesCS5A01G508800 chr2B 85.019 534 61 5 798 1312 540255849 540256382 4.330000e-145 525.0
28 TraesCS5A01G508800 chr2B 95.000 40 2 0 999 1038 220520172 220520211 4.080000e-06 63.9
29 TraesCS5A01G508800 chr2D 86.800 250 20 8 2102 2342 459104671 459104916 2.900000e-67 267.0
30 TraesCS5A01G508800 chr2D 82.540 315 33 9 1692 1992 459045930 459046236 1.740000e-64 257.0
31 TraesCS5A01G508800 chr2D 92.437 119 6 1 1985 2103 459046398 459046513 3.020000e-37 167.0
32 TraesCS5A01G508800 chr2D 98.734 79 0 1 824 901 459038080 459038158 6.590000e-29 139.0


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 TraesCS5A01G508800 chr5A 673233727 673238609 4882 True 9018.000000 9018 100.000000 1 4883 1 chr5A.!!$R1 4882
1 TraesCS5A01G508800 chr5A 673185055 673186667 1612 False 593.666667 832 87.445000 763 2344 3 chr5A.!!$F1 1581
2 TraesCS5A01G508800 chr4B 631895245 631899433 4188 True 6176.000000 6176 93.603000 769 4882 1 chr4B.!!$R1 4113
3 TraesCS5A01G508800 chr4B 632128760 632129730 970 False 837.000000 837 82.560000 3568 4540 1 chr4B.!!$F1 972
4 TraesCS5A01G508800 chr4B 632121831 632125667 3836 True 783.750000 1011 83.087750 756 4540 4 chr4B.!!$R2 3784
5 TraesCS5A01G508800 chr4B 631837608 631839255 1647 False 713.500000 784 87.073000 756 2342 2 chr4B.!!$F2 1586
6 TraesCS5A01G508800 chr4D 493922450 493924139 1689 True 2588.000000 2588 94.428000 754 2435 1 chr4D.!!$R1 1681
7 TraesCS5A01G508800 chr4D 493907540 493911278 3738 False 1138.333333 1360 83.860667 756 4540 3 chr4D.!!$F1 3784
8 TraesCS5A01G508800 chr2A 776173510 776174260 750 True 1339.000000 1339 98.805000 1 753 1 chr2A.!!$R2 752
9 TraesCS5A01G508800 chr2A 9951340 9952092 752 True 1330.000000 1330 98.539000 1 753 1 chr2A.!!$R1 752
10 TraesCS5A01G508800 chr1A 12307824 12308576 752 True 1286.000000 1286 97.477000 1 753 1 chr1A.!!$R1 752
11 TraesCS5A01G508800 chr1A 532734600 532735357 757 False 1256.000000 1256 96.702000 1 753 1 chr1A.!!$F1 752
12 TraesCS5A01G508800 chr1A 584970277 584971017 740 True 1164.000000 1164 94.821000 1 753 1 chr1A.!!$R2 752
13 TraesCS5A01G508800 chr3A 698295905 698296661 756 True 1256.000000 1256 96.702000 1 753 1 chr3A.!!$R1 752
14 TraesCS5A01G508800 chr7B 706975660 706976399 739 False 1173.000000 1173 95.086000 1 753 1 chr7B.!!$F1 752
15 TraesCS5A01G508800 chr3B 772227327 772228082 755 True 1153.000000 1153 94.026000 1 769 1 chr3B.!!$R1 768
16 TraesCS5A01G508800 chrUn 117078715 117079460 745 True 1079.000000 1079 92.696000 1 753 1 chrUn.!!$R1 752
17 TraesCS5A01G508800 chr4A 696131387 696132130 743 False 795.000000 795 86.107000 2 753 1 chr4A.!!$F1 751
18 TraesCS5A01G508800 chr2B 761714142 761714883 741 True 789.000000 789 86.071000 5 753 1 chr2B.!!$R1 748
19 TraesCS5A01G508800 chr2B 540255849 540256382 533 False 525.000000 525 85.019000 798 1312 1 chr2B.!!$F2 514
20 TraesCS5A01G508800 chr2D 459045930 459046513 583 False 212.000000 257 87.488500 1692 2103 2 chr2D.!!$F3 411

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
938 995 0.250513 CTCCTAAACTGCTTCGCCCT 59.749 55.0 0.00 0.0 0.0 5.19 F
946 1015 0.813210 CTGCTTCGCCCTCTCCATTC 60.813 60.0 0.00 0.0 0.0 2.67 F
2616 3066 0.310543 TTGTGTCAGTGCGCCATTTC 59.689 50.0 4.18 0.0 0.0 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1886 2058 1.738030 GCCTGCAAAACATGGAGCATC 60.738 52.381 0.00 0.00 45.47 3.91 R
2936 3415 1.799258 GCACCAGGAACACCTGCAAG 61.799 60.000 10.37 4.22 46.92 4.01 R
4344 4939 0.771755 AAGGAAGGAGCCCGACTTTT 59.228 50.000 0.00 0.00 0.00 2.27 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
222 224 4.792513 AGCATCCATCCATCTTCTTTCT 57.207 40.909 0.00 0.00 0.00 2.52
680 703 3.368116 GCTCGCCTAATTATCATACCGGT 60.368 47.826 13.98 13.98 0.00 5.28
698 721 4.077184 CCGAGCTGTAACGGGCCA 62.077 66.667 4.39 0.00 44.59 5.36
938 995 0.250513 CTCCTAAACTGCTTCGCCCT 59.749 55.000 0.00 0.00 0.00 5.19
946 1015 0.813210 CTGCTTCGCCCTCTCCATTC 60.813 60.000 0.00 0.00 0.00 2.67
947 1016 1.267574 TGCTTCGCCCTCTCCATTCT 61.268 55.000 0.00 0.00 0.00 2.40
950 1019 1.676678 TTCGCCCTCTCCATTCTCCG 61.677 60.000 0.00 0.00 0.00 4.63
1144 1217 3.842925 TTCCTCAAGCACCACGCCC 62.843 63.158 0.00 0.00 44.04 6.13
1289 1362 1.827969 CGTCCTCTCCATTCTCCACTT 59.172 52.381 0.00 0.00 0.00 3.16
1610 1752 3.411446 TGTCCATGTTCACTTGATCCAC 58.589 45.455 0.00 0.00 0.00 4.02
1635 1777 5.123186 TCCATTCTAGGCAATGTGTAAAACG 59.877 40.000 4.09 0.00 32.61 3.60
1709 1851 5.768980 AAGTCTCTCATTGATTTCCCTGA 57.231 39.130 0.00 0.00 0.00 3.86
1713 1855 7.180663 AGTCTCTCATTGATTTCCCTGAAATT 58.819 34.615 3.77 0.00 41.56 1.82
1729 1882 6.070824 CCCTGAAATTTTGTTTGCCTAGGTAT 60.071 38.462 11.31 0.00 0.00 2.73
1886 2058 2.497138 TGACCAACTCAACTCATGCAG 58.503 47.619 0.00 0.00 0.00 4.41
2338 2759 2.375509 AGTGGGAAGGAAGGTAACCTTG 59.624 50.000 5.82 0.00 44.82 3.61
2439 2862 2.488937 TGGCACACATCTGCACAATAAG 59.511 45.455 0.00 0.00 39.08 1.73
2616 3066 0.310543 TTGTGTCAGTGCGCCATTTC 59.689 50.000 4.18 0.00 0.00 2.17
2659 3109 8.579850 AAGTGATTCCTGATGTTTATGCTTTA 57.420 30.769 0.00 0.00 0.00 1.85
2725 3175 4.659111 ATGACCCATTGCAACACATATG 57.341 40.909 0.00 0.00 0.00 1.78
2786 3240 4.788100 CGTTTGCATTCTTTCGTTCTATGG 59.212 41.667 0.00 0.00 0.00 2.74
2847 3323 4.837093 AAATTCAGAACCACTATCCCGA 57.163 40.909 0.00 0.00 0.00 5.14
2908 3387 3.924114 TTATACTGCCTGGCTGCTTAA 57.076 42.857 23.46 17.60 0.00 1.85
2936 3415 3.256631 ACCAGTTCTGATTGTTGAATGCC 59.743 43.478 1.00 0.00 0.00 4.40
3019 3498 0.676782 AAAATTCTGGGGCCTCGTCG 60.677 55.000 0.84 0.00 0.00 5.12
3055 3534 4.022329 GGTAATTTTGTTGACCACCCTCAG 60.022 45.833 0.00 0.00 31.89 3.35
3143 3640 1.085893 CATGTCATTGCTGCGTGGTA 58.914 50.000 5.24 0.00 0.00 3.25
3360 3860 5.249852 TGGTTCAACTAGCCTGTAATACCTT 59.750 40.000 0.00 0.00 0.00 3.50
3375 3875 9.216117 CTGTAATACCTTTGTAGTGCTAAGTTT 57.784 33.333 2.24 0.00 30.38 2.66
3390 3890 4.261614 GCTAAGTTTTGTTCCACTTCCAGG 60.262 45.833 0.00 0.00 34.92 4.45
3436 3936 6.769608 GCATTGCTTGCCCTTATTTATTAC 57.230 37.500 0.16 0.00 46.15 1.89
3437 3937 6.515832 GCATTGCTTGCCCTTATTTATTACT 58.484 36.000 0.16 0.00 46.15 2.24
3438 3938 7.657336 GCATTGCTTGCCCTTATTTATTACTA 58.343 34.615 0.16 0.00 46.15 1.82
3541 4041 4.325028 TGCTTGATGTTGTTCTTTGCAT 57.675 36.364 0.00 0.00 0.00 3.96
3551 4051 2.694628 TGTTCTTTGCATTTGGTCAGCT 59.305 40.909 0.00 0.00 0.00 4.24
3617 4178 4.082571 GGTGCAAACTATGTCAGCATCTTT 60.083 41.667 0.00 0.00 37.56 2.52
3653 4214 5.106078 GGAAGTATCTGGTATCTCATCGGTC 60.106 48.000 0.00 0.00 0.00 4.79
3701 4262 4.485163 GCCCATTTCTCACACATAAACAC 58.515 43.478 0.00 0.00 0.00 3.32
3784 4352 0.949105 CTGCACTTCGCCGGTACTTT 60.949 55.000 1.90 0.00 41.33 2.66
3808 4376 5.183713 TGTTACCTGCTAGCGTTTCTAACTA 59.816 40.000 10.77 1.08 0.00 2.24
3892 4476 1.625616 GCATCAGTGACAAATGCAGC 58.374 50.000 14.68 0.00 44.07 5.25
3897 4481 4.488126 TCAGTGACAAATGCAGCTAAAC 57.512 40.909 0.00 0.00 0.00 2.01
4023 4607 8.184192 AGTGTCTGCTTGCATTGTAAATATAAC 58.816 33.333 0.00 0.00 0.00 1.89
4162 4747 9.357652 GAAGATATCTCTTTATGAGTCTGCATC 57.642 37.037 5.51 0.00 41.87 3.91
4192 4777 4.439253 ACTTGCCTACTTCTTTGTTCCT 57.561 40.909 0.00 0.00 0.00 3.36
4193 4778 4.793201 ACTTGCCTACTTCTTTGTTCCTT 58.207 39.130 0.00 0.00 0.00 3.36
4194 4779 5.201243 ACTTGCCTACTTCTTTGTTCCTTT 58.799 37.500 0.00 0.00 0.00 3.11
4195 4780 5.656859 ACTTGCCTACTTCTTTGTTCCTTTT 59.343 36.000 0.00 0.00 0.00 2.27
4196 4781 5.514274 TGCCTACTTCTTTGTTCCTTTTG 57.486 39.130 0.00 0.00 0.00 2.44
4251 4837 4.439305 TTGAGGACTACATTTGCATTGC 57.561 40.909 0.46 0.46 0.00 3.56
4344 4939 7.942341 ACCCTTGTTTCTCATGACAAACTAATA 59.058 33.333 22.11 4.68 35.54 0.98
4427 5023 9.361315 TGAAATGATCATTGTTAAGAAAGCATG 57.639 29.630 21.39 0.00 31.50 4.06
4429 5025 7.649533 ATGATCATTGTTAAGAAAGCATGGA 57.350 32.000 1.18 0.00 0.00 3.41
4543 5146 0.245539 GAATCGGTGGACGGAACAGA 59.754 55.000 0.00 0.00 44.45 3.41
4544 5147 0.682852 AATCGGTGGACGGAACAGAA 59.317 50.000 0.00 0.00 44.45 3.02
4551 5154 3.242969 GGTGGACGGAACAGAAAACTTTC 60.243 47.826 0.00 0.00 37.45 2.62
4558 5161 4.083802 CGGAACAGAAAACTTTCTAGCAGG 60.084 45.833 4.43 0.00 45.23 4.85
4568 5171 6.628644 AACTTTCTAGCAGGATCCTAAACT 57.371 37.500 15.67 14.55 0.00 2.66
4607 5210 2.650778 GGGCTTTTGGGAGCAACG 59.349 61.111 0.00 0.00 44.49 4.10
4705 5310 7.738437 ATGTAGGGGTGAAATTCAAATTGAT 57.262 32.000 0.00 0.00 0.00 2.57
4784 5389 0.944386 ATCAAACACGAGCGCAAGTT 59.056 45.000 11.47 5.51 41.68 2.66
4790 5395 1.079127 ACGAGCGCAAGTTATGGCT 60.079 52.632 11.47 0.00 37.98 4.75
4820 5425 2.357009 AGATGCTCGTGAATGAAATGGC 59.643 45.455 0.00 0.00 0.00 4.40
4828 5433 4.057432 CGTGAATGAAATGGCCAAACTTT 58.943 39.130 10.96 5.89 0.00 2.66
4829 5434 4.150451 CGTGAATGAAATGGCCAAACTTTC 59.850 41.667 19.23 19.23 0.00 2.62
4830 5435 5.055812 GTGAATGAAATGGCCAAACTTTCA 58.944 37.500 27.01 27.01 41.57 2.69
4831 5436 5.178067 GTGAATGAAATGGCCAAACTTTCAG 59.822 40.000 27.94 0.00 40.91 3.02
4880 5487 9.817809 AAGTAAGTTGGACACTATACATATGTG 57.182 33.333 18.81 4.37 32.94 3.21
4881 5488 8.978472 AGTAAGTTGGACACTATACATATGTGT 58.022 33.333 18.81 14.37 46.03 3.72
4882 5489 9.031360 GTAAGTTGGACACTATACATATGTGTG 57.969 37.037 18.81 18.57 43.81 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
222 224 3.912907 GAGGGCGCGGCTAGCTAA 61.913 66.667 32.30 0.00 45.59 3.09
938 995 5.357742 TTGATTGATTCGGAGAATGGAGA 57.642 39.130 0.00 0.00 45.90 3.71
946 1015 5.278169 GGGTGATTGATTGATTGATTCGGAG 60.278 44.000 0.00 0.00 0.00 4.63
947 1016 4.580167 GGGTGATTGATTGATTGATTCGGA 59.420 41.667 0.00 0.00 0.00 4.55
950 1019 4.202040 TGCGGGTGATTGATTGATTGATTC 60.202 41.667 0.00 0.00 0.00 2.52
1144 1217 2.825836 GACCATGCTGGCGAAGGG 60.826 66.667 2.50 0.00 42.67 3.95
1289 1362 1.270839 GCTGCTACCTGACTTGTTCCA 60.271 52.381 0.00 0.00 0.00 3.53
1447 1582 1.065854 ACGATTTGAGAGGCCTTCCAG 60.066 52.381 6.77 0.00 33.74 3.86
1530 1665 1.588404 GAAGTACATCGTGTGGCATCG 59.412 52.381 8.36 8.36 0.00 3.84
1610 1752 6.555315 GTTTTACACATTGCCTAGAATGGAG 58.445 40.000 8.55 4.16 37.60 3.86
1709 1851 6.584185 ACGATACCTAGGCAAACAAAATTT 57.416 33.333 9.30 0.00 0.00 1.82
1713 1855 3.255725 CGACGATACCTAGGCAAACAAA 58.744 45.455 9.30 0.00 0.00 2.83
1886 2058 1.738030 GCCTGCAAAACATGGAGCATC 60.738 52.381 0.00 0.00 45.47 3.91
2193 2591 3.081804 AGTAAAATCAAAGGGCCTCACG 58.918 45.455 6.46 0.00 0.00 4.35
2338 2759 6.554334 TGACAAAAATGACTGTACTAAGCC 57.446 37.500 0.00 0.00 0.00 4.35
2439 2862 4.974645 AAAATTGGAAGGGAAGGAAACC 57.025 40.909 0.00 0.00 0.00 3.27
2477 2917 8.481314 ACATATGATGTGAAGTGTGACTCTATT 58.519 33.333 10.38 0.00 43.01 1.73
2479 2919 7.410120 ACATATGATGTGAAGTGTGACTCTA 57.590 36.000 10.38 0.00 43.01 2.43
2480 2920 6.291648 ACATATGATGTGAAGTGTGACTCT 57.708 37.500 10.38 0.00 43.01 3.24
2481 2921 6.183360 CCAACATATGATGTGAAGTGTGACTC 60.183 42.308 10.38 0.00 44.07 3.36
2483 2923 5.643348 TCCAACATATGATGTGAAGTGTGAC 59.357 40.000 10.38 0.00 44.07 3.67
2616 3066 9.294030 GAATCACTTTGGAAGCAACAAATATAG 57.706 33.333 1.77 0.00 37.22 1.31
2659 3109 3.254960 AGGCCACAGCATAGGAATATCT 58.745 45.455 5.01 0.00 42.56 1.98
2725 3175 2.477375 TCTACCGTGCATCGTTCAAAAC 59.523 45.455 0.00 0.00 37.94 2.43
2786 3240 6.034898 CAGACACAAAATGGAAAACAAGTGAC 59.965 38.462 0.00 0.00 0.00 3.67
2893 3372 2.648059 AGTAATTAAGCAGCCAGGCAG 58.352 47.619 15.80 6.89 35.83 4.85
2897 3376 4.770795 ACTGGTAGTAATTAAGCAGCCAG 58.229 43.478 13.71 14.62 43.37 4.85
2899 3378 5.294552 CAGAACTGGTAGTAATTAAGCAGCC 59.705 44.000 13.71 8.07 43.37 4.85
2908 3387 8.950210 CATTCAACAATCAGAACTGGTAGTAAT 58.050 33.333 1.93 0.00 0.00 1.89
2936 3415 1.799258 GCACCAGGAACACCTGCAAG 61.799 60.000 10.37 4.22 46.92 4.01
3019 3498 6.843069 ACAAAATTACCTGCATTTGTCAAC 57.157 33.333 7.80 0.00 40.85 3.18
3055 3534 4.488879 GCAAATGGAGGTTTGAGAATGAC 58.511 43.478 3.74 0.00 40.64 3.06
3169 3666 8.641498 ATTAAAGGAATCCTAAGTGGCATATG 57.359 34.615 0.46 0.00 31.13 1.78
3360 3860 5.883673 AGTGGAACAAAACTTAGCACTACAA 59.116 36.000 0.00 0.00 44.16 2.41
3375 3875 0.555769 AAGGCCTGGAAGTGGAACAA 59.444 50.000 5.69 0.00 44.16 2.83
3390 3890 5.640732 CACATATGAACCAAACTGTAAGGC 58.359 41.667 10.38 0.00 39.30 4.35
3436 3936 8.912988 CAGATCTTTTAGAGATAGCCCCTATAG 58.087 40.741 0.00 0.00 45.17 1.31
3437 3937 8.402683 ACAGATCTTTTAGAGATAGCCCCTATA 58.597 37.037 0.00 0.00 45.17 1.31
3438 3938 7.180051 CACAGATCTTTTAGAGATAGCCCCTAT 59.820 40.741 0.00 0.00 45.17 2.57
3498 3998 6.311200 AGCAAACAACAAAAGAATGACAGAAC 59.689 34.615 0.00 0.00 0.00 3.01
3559 4059 2.489329 GCAGTTAGAATTGGCAGCAGAA 59.511 45.455 0.00 0.00 0.00 3.02
3599 4099 7.744087 TGTTGTAAAGATGCTGACATAGTTT 57.256 32.000 0.00 0.00 36.35 2.66
3600 4100 7.755591 CATGTTGTAAAGATGCTGACATAGTT 58.244 34.615 0.00 0.00 40.86 2.24
3617 4178 4.180817 CAGATACTTCCGCACATGTTGTA 58.819 43.478 0.00 0.00 0.00 2.41
3653 4214 7.312899 GGTCAACTTATTTACCTGGATTTGTG 58.687 38.462 0.00 0.00 0.00 3.33
3701 4262 5.765182 ACTTCAGGAATTAACTGTGGAAGTG 59.235 40.000 10.90 0.00 39.81 3.16
3784 4352 4.021719 AGTTAGAAACGCTAGCAGGTAACA 60.022 41.667 16.45 0.00 33.19 2.41
3808 4376 1.724582 GCACCTGCAACAAGTTCGGT 61.725 55.000 0.00 0.00 41.59 4.69
3892 4476 5.365619 ACTGGTGGTGTTCAACTAGTTTAG 58.634 41.667 5.07 0.00 33.29 1.85
3897 4481 3.541632 ACAACTGGTGGTGTTCAACTAG 58.458 45.455 0.00 0.00 33.29 2.57
4001 4585 8.685427 ACATGTTATATTTACAATGCAAGCAGA 58.315 29.630 0.00 0.00 0.00 4.26
4041 4625 9.349713 ACCTCTGTAACTGAACAAATGAAATTA 57.650 29.630 0.00 0.00 33.67 1.40
4061 4645 1.078143 GGTAGCAAGGCCACCTCTG 60.078 63.158 5.01 0.00 30.89 3.35
4150 4735 4.648762 AGTAGCTAACAGATGCAGACTCAT 59.351 41.667 0.00 0.00 0.00 2.90
4162 4747 5.331876 AGAAGTAGGCAAGTAGCTAACAG 57.668 43.478 0.00 0.00 44.79 3.16
4223 4809 6.472016 TGCAAATGTAGTCCTCAAACTATCA 58.528 36.000 0.00 0.00 34.41 2.15
4251 4837 2.332063 ACATGAATGGTTAGCCTCCG 57.668 50.000 0.00 0.00 35.27 4.63
4344 4939 0.771755 AAGGAAGGAGCCCGACTTTT 59.228 50.000 0.00 0.00 0.00 2.27
4461 5063 4.275936 GTGTGTGCCCAACAGATAATATCC 59.724 45.833 0.00 0.00 40.26 2.59
4543 5146 7.462590 AGTTTAGGATCCTGCTAGAAAGTTTT 58.537 34.615 25.28 0.00 0.00 2.43
4544 5147 7.021998 AGTTTAGGATCCTGCTAGAAAGTTT 57.978 36.000 25.28 2.70 0.00 2.66
4551 5154 7.172361 GCATTCTTTAGTTTAGGATCCTGCTAG 59.828 40.741 25.28 13.50 0.00 3.42
4552 5155 6.992715 GCATTCTTTAGTTTAGGATCCTGCTA 59.007 38.462 25.28 18.83 0.00 3.49
4558 5161 7.865706 TCCTTGCATTCTTTAGTTTAGGATC 57.134 36.000 0.00 0.00 0.00 3.36
4568 5171 4.280677 CCCACTTGTTCCTTGCATTCTTTA 59.719 41.667 0.00 0.00 0.00 1.85
4607 5210 4.650754 TCTTCACTCGGTATCTTAAGGC 57.349 45.455 1.85 0.00 0.00 4.35
4678 5282 9.094578 TCAATTTGAATTTCACCCCTACATTTA 57.905 29.630 0.00 0.00 0.00 1.40
4700 5305 2.801679 CAAAGGTGTGCGCAAAATCAAT 59.198 40.909 14.00 0.00 0.00 2.57
4705 5310 1.066303 CTACCAAAGGTGTGCGCAAAA 59.934 47.619 14.00 0.00 36.19 2.44
4735 5340 7.214460 TCTGGTATAACATGGGAATAACCAA 57.786 36.000 0.00 0.00 45.13 3.67
4736 5341 6.833346 TCTGGTATAACATGGGAATAACCA 57.167 37.500 0.00 2.40 46.24 3.67
4757 5362 4.083537 TGCGCTCGTGTTTGATTTTATTCT 60.084 37.500 9.73 0.00 0.00 2.40
4784 5389 5.221521 ACGAGCATCTTGAGAAATAGCCATA 60.222 40.000 0.00 0.00 0.00 2.74
4790 5395 6.340522 TCATTCACGAGCATCTTGAGAAATA 58.659 36.000 0.00 0.00 44.53 1.40
4838 5445 7.012044 CCAACTTACTTAGTTAATTCATCCGGG 59.988 40.741 0.00 0.00 45.29 5.73


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

AutoCloner maintained by Alex Coulton.