Multiple sequence alignment - TraesCS7A01G334600

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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 TraesCS7A01G334600 chr7A 100.000 7345 0 0 2202 9546 488157974 488150630 0.000000e+00 13564.0
1 TraesCS7A01G334600 chr7A 98.552 5111 44 5 3729 8829 488491313 488486223 0.000000e+00 9001.0
2 TraesCS7A01G334600 chr7A 100.000 1847 0 0 1 1847 488160175 488158329 0.000000e+00 3411.0
3 TraesCS7A01G334600 chr7A 98.739 1507 13 1 1 1501 488500492 488498986 0.000000e+00 2673.0
4 TraesCS7A01G334600 chr7A 91.143 1942 117 20 5780 7702 43048070 43049975 0.000000e+00 2582.0
5 TraesCS7A01G334600 chr7A 99.225 774 6 0 2970 3743 488494090 488493317 0.000000e+00 1397.0
6 TraesCS7A01G334600 chr7A 88.304 1026 94 14 804 1810 43046403 43047421 0.000000e+00 1206.0
7 TraesCS7A01G334600 chr7A 90.192 887 56 10 7857 8724 43061977 43062851 0.000000e+00 1127.0
8 TraesCS7A01G334600 chr7A 93.450 626 37 4 8924 9546 16155318 16154694 0.000000e+00 926.0
9 TraesCS7A01G334600 chr7A 97.692 390 8 1 2586 2975 488495011 488494623 0.000000e+00 669.0
10 TraesCS7A01G334600 chr7A 99.088 329 3 0 2260 2588 488495613 488495285 8.260000e-165 592.0
11 TraesCS7A01G334600 chr7A 88.859 377 35 5 3954 4328 43047701 43048072 3.140000e-124 457.0
12 TraesCS7A01G334600 chr7A 96.859 191 5 1 1647 1837 488496075 488495886 1.550000e-82 318.0
13 TraesCS7A01G334600 chr7A 98.256 172 3 0 1479 1650 488498960 488498789 1.560000e-77 302.0
14 TraesCS7A01G334600 chr7A 85.345 232 26 6 2205 2434 43047435 43047660 5.760000e-57 233.0
15 TraesCS7A01G334600 chr7A 91.463 164 12 2 7700 7862 43050345 43050507 3.470000e-54 224.0
16 TraesCS7A01G334600 chr7A 90.476 168 13 1 556 723 43046235 43046399 1.610000e-52 219.0
17 TraesCS7A01G334600 chr7B 94.349 3097 111 24 5535 8590 456493000 456496073 0.000000e+00 4691.0
18 TraesCS7A01G334600 chr7B 95.853 1085 34 6 2504 3579 456489859 456490941 0.000000e+00 1744.0
19 TraesCS7A01G334600 chr7B 95.035 987 39 6 730 1711 456488177 456489158 0.000000e+00 1543.0
20 TraesCS7A01G334600 chr7B 88.381 1007 69 20 4091 5082 456491676 456492649 0.000000e+00 1168.0
21 TraesCS7A01G334600 chr7B 94.929 631 29 1 3 633 456487548 456488175 0.000000e+00 985.0
22 TraesCS7A01G334600 chr7B 95.016 321 15 1 3765 4084 456491298 456491618 3.980000e-138 503.0
23 TraesCS7A01G334600 chr7B 92.177 294 15 4 2218 2505 456489455 456489746 8.920000e-110 409.0
24 TraesCS7A01G334600 chr7B 91.235 251 21 1 5253 5502 456492659 456492909 3.300000e-89 340.0
25 TraesCS7A01G334600 chr7B 94.366 71 3 1 3771 3840 456491615 456491685 3.650000e-19 108.0
26 TraesCS7A01G334600 chr7B 100.000 28 0 0 691 718 456488236 456488263 1.700000e-02 52.8
27 TraesCS7A01G334600 chr7D 93.856 3011 108 24 5745 8724 437640745 437637781 0.000000e+00 4464.0
28 TraesCS7A01G334600 chr7D 88.286 2561 174 47 6192 8724 43202221 43204683 0.000000e+00 2952.0
29 TraesCS7A01G334600 chr7D 93.326 1858 73 15 3 1847 437646153 437644334 0.000000e+00 2697.0
30 TraesCS7A01G334600 chr7D 90.329 1944 122 26 3427 5348 437642745 437640846 0.000000e+00 2488.0
31 TraesCS7A01G334600 chr7D 88.496 1017 88 14 765 1768 43200278 43201278 0.000000e+00 1203.0
32 TraesCS7A01G334600 chr7D 95.053 566 28 0 2507 3072 437643657 437643092 0.000000e+00 891.0
33 TraesCS7A01G334600 chr7D 92.010 413 28 4 5780 6188 43201775 43202186 8.310000e-160 575.0
34 TraesCS7A01G334600 chr7D 96.450 338 12 0 3119 3456 437643083 437642746 8.370000e-155 558.0
35 TraesCS7A01G334600 chr7D 91.720 314 14 4 2202 2510 437644092 437643786 8.860000e-115 425.0
36 TraesCS7A01G334600 chr7D 88.843 242 23 3 3853 4090 43201341 43201582 2.610000e-75 294.0
37 TraesCS7A01G334600 chr7D 90.187 214 14 5 4117 4328 43201569 43201777 1.220000e-68 272.0
38 TraesCS7A01G334600 chr7D 83.688 141 7 4 8782 8922 437637683 437637559 1.680000e-22 119.0
39 TraesCS7A01G334600 chr7D 91.358 81 1 1 5581 5655 437640849 437640769 1.310000e-18 106.0
40 TraesCS7A01G334600 chr7D 100.000 30 0 0 691 720 43200302 43200331 1.000000e-03 56.5
41 TraesCS7A01G334600 chr7D 100.000 28 0 0 4586 4613 392826430 392826403 1.700000e-02 52.8
42 TraesCS7A01G334600 chr4A 89.788 2967 204 51 5803 8724 651348895 651351807 0.000000e+00 3709.0
43 TraesCS7A01G334600 chr4A 86.101 1072 119 17 796 1845 651347185 651348248 0.000000e+00 1127.0
44 TraesCS7A01G334600 chr4A 89.342 319 31 2 4012 4328 651348566 651348883 1.930000e-106 398.0
45 TraesCS7A01G334600 chr4A 87.324 213 16 4 2254 2456 651348248 651348459 5.760000e-57 233.0
46 TraesCS7A01G334600 chr4A 85.000 100 15 0 4892 4991 346059337 346059238 1.700000e-17 102.0
47 TraesCS7A01G334600 chr6A 94.409 626 32 1 8924 9546 561585809 561585184 0.000000e+00 959.0
48 TraesCS7A01G334600 chr6A 94.249 626 33 1 8924 9546 16669150 16669775 0.000000e+00 953.0
49 TraesCS7A01G334600 chr6A 94.249 626 33 3 8924 9546 561454827 561455452 0.000000e+00 953.0
50 TraesCS7A01G334600 chr1A 93.450 626 37 4 8924 9546 565658025 565657401 0.000000e+00 926.0
51 TraesCS7A01G334600 chr1A 93.023 43 3 0 5401 5443 582835202 582835244 8.000000e-06 63.9
52 TraesCS7A01G334600 chr2A 93.142 627 37 4 8924 9546 128482533 128483157 0.000000e+00 915.0
53 TraesCS7A01G334600 chrUn 92.344 627 43 3 8924 9546 10231182 10230557 0.000000e+00 887.0
54 TraesCS7A01G334600 chr1D 91.667 624 50 2 8920 9542 386434620 386435242 0.000000e+00 863.0
55 TraesCS7A01G334600 chr2D 91.139 632 47 7 8921 9546 81254969 81255597 0.000000e+00 848.0
56 TraesCS7A01G334600 chr5B 83.806 247 27 9 4447 4684 73469441 73469683 1.250000e-53 222.0
57 TraesCS7A01G334600 chr5B 93.617 47 2 1 5397 5443 534260478 534260433 1.720000e-07 69.4
58 TraesCS7A01G334600 chr3D 89.394 66 2 4 2475 2540 29695692 29695632 2.860000e-10 78.7
59 TraesCS7A01G334600 chr3A 97.727 44 1 0 2497 2540 40354367 40354324 1.030000e-09 76.8
60 TraesCS7A01G334600 chr3B 95.455 44 2 0 2497 2540 50912389 50912346 4.780000e-08 71.3
61 TraesCS7A01G334600 chr4D 100.000 32 0 0 5412 5443 407188380 407188411 1.040000e-04 60.2
62 TraesCS7A01G334600 chr5D 100.000 31 0 0 5413 5443 496063379 496063409 3.720000e-04 58.4
63 TraesCS7A01G334600 chr5D 100.000 29 0 0 5415 5443 313375076 313375048 5.000000e-03 54.7
64 TraesCS7A01G334600 chr6B 100.000 30 0 0 4325 4354 32655384 32655413 1.000000e-03 56.5
65 TraesCS7A01G334600 chr6D 88.636 44 5 0 4570 4613 144603591 144603634 5.000000e-03 54.7
66 TraesCS7A01G334600 chr6D 100.000 29 0 0 5415 5443 328836901 328836929 5.000000e-03 54.7


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 TraesCS7A01G334600 chr7A 488150630 488160175 9545 True 8487.500000 13564 100.000000 1 9546 2 chr7A.!!$R2 9545
1 TraesCS7A01G334600 chr7A 488486223 488500492 14269 True 2136.000000 9001 98.344429 1 8829 7 chr7A.!!$R3 8828
2 TraesCS7A01G334600 chr7A 43061977 43062851 874 False 1127.000000 1127 90.192000 7857 8724 1 chr7A.!!$F1 867
3 TraesCS7A01G334600 chr7A 16154694 16155318 624 True 926.000000 926 93.450000 8924 9546 1 chr7A.!!$R1 622
4 TraesCS7A01G334600 chr7A 43046235 43050507 4272 False 820.166667 2582 89.265000 556 7862 6 chr7A.!!$F2 7306
5 TraesCS7A01G334600 chr7B 456487548 456496073 8525 False 1154.380000 4691 94.134100 3 8590 10 chr7B.!!$F1 8587
6 TraesCS7A01G334600 chr7D 437637559 437646153 8594 True 1468.500000 4464 91.972500 3 8922 8 chr7D.!!$R2 8919
7 TraesCS7A01G334600 chr7D 43200278 43204683 4405 False 892.083333 2952 91.303667 691 8724 6 chr7D.!!$F1 8033
8 TraesCS7A01G334600 chr4A 651347185 651351807 4622 False 1366.750000 3709 88.138750 796 8724 4 chr4A.!!$F1 7928
9 TraesCS7A01G334600 chr6A 561585184 561585809 625 True 959.000000 959 94.409000 8924 9546 1 chr6A.!!$R1 622
10 TraesCS7A01G334600 chr6A 16669150 16669775 625 False 953.000000 953 94.249000 8924 9546 1 chr6A.!!$F1 622
11 TraesCS7A01G334600 chr6A 561454827 561455452 625 False 953.000000 953 94.249000 8924 9546 1 chr6A.!!$F2 622
12 TraesCS7A01G334600 chr1A 565657401 565658025 624 True 926.000000 926 93.450000 8924 9546 1 chr1A.!!$R1 622
13 TraesCS7A01G334600 chr2A 128482533 128483157 624 False 915.000000 915 93.142000 8924 9546 1 chr2A.!!$F1 622
14 TraesCS7A01G334600 chrUn 10230557 10231182 625 True 887.000000 887 92.344000 8924 9546 1 chrUn.!!$R1 622
15 TraesCS7A01G334600 chr1D 386434620 386435242 622 False 863.000000 863 91.667000 8920 9542 1 chr1D.!!$F1 622
16 TraesCS7A01G334600 chr2D 81254969 81255597 628 False 848.000000 848 91.139000 8921 9546 1 chr2D.!!$F1 625

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
1382 1429 2.654877 GACGGCCTCGAGGTTGAA 59.345 61.111 31.43 0.00 40.11 2.69 F
2726 5996 0.605319 CACTCCAGCTACCCGCAAAA 60.605 55.000 0.00 0.00 42.61 2.44 F
2926 6197 1.348036 GTAAGGACCTGCAGACCAACT 59.652 52.381 24.31 14.37 0.00 3.16 F
4084 9956 2.392662 TCTATGCTCCTCCTCCAACAG 58.607 52.381 0.00 0.00 0.00 3.16 F
4947 10882 2.036256 GCCAGGCCACAAGGTGAT 59.964 61.111 5.01 0.00 35.23 3.06 F
5035 10976 0.546598 CCTCCTCCTTAACCGCCAAT 59.453 55.000 0.00 0.00 0.00 3.16 F
5059 11000 2.363925 GGGGGACTAGGAGCACGT 60.364 66.667 0.00 0.00 0.00 4.49 F
6369 12422 3.306973 TCGCTTTATCATTTGTCGAGCAG 59.693 43.478 0.00 0.00 0.00 4.24 F
7478 13562 2.647683 TGTGGTGTTGGCATCAGTTA 57.352 45.000 0.00 0.00 36.23 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2918 6189 0.976641 TGGCTTCGATCAGTTGGTCT 59.023 50.000 0.00 0.0 0.00 3.85 R
4698 10630 1.673665 GGAGCAGGAGCAACAGGTG 60.674 63.158 0.00 0.0 45.49 4.00 R
4781 10713 2.725641 CAGTCGTGGTCGTGGACA 59.274 61.111 0.00 0.0 38.33 4.02 R
5035 10976 0.106167 CTCCTAGTCCCCCGTCATCA 60.106 60.000 0.00 0.0 0.00 3.07 R
6369 12422 0.037975 CAGCATGAGGCCCAAACAAC 60.038 55.000 0.00 0.0 46.50 3.32 R
7021 13083 1.135373 AGTATTCACTCTGGTGTCGCG 60.135 52.381 0.00 0.0 43.41 5.87 R
7478 13562 3.682858 CCGACAATATTTGTGGACTCGTT 59.317 43.478 4.26 0.0 45.52 3.85 R
8455 14964 3.430453 TCTTACAATGGCCAGGGAAAAG 58.570 45.455 13.05 14.0 0.00 2.27 R
8832 15406 0.110056 CACTCGTCATGTTTGCAGGC 60.110 55.000 0.00 0.0 0.00 4.85 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
1382 1429 2.654877 GACGGCCTCGAGGTTGAA 59.345 61.111 31.43 0.00 40.11 2.69
1716 4545 0.612174 TAACGAGCAGGACAGCCTCT 60.612 55.000 0.00 0.00 44.80 3.69
1773 4606 6.546428 TTCTGACAACCCACCAAATTTTTA 57.454 33.333 0.00 0.00 0.00 1.52
2577 5571 5.950544 ACAGACCTTAGGTTACATATGCA 57.049 39.130 4.99 0.00 35.25 3.96
2726 5996 0.605319 CACTCCAGCTACCCGCAAAA 60.605 55.000 0.00 0.00 42.61 2.44
2918 6189 1.841302 CTGCTGGGTAAGGACCTGCA 61.841 60.000 13.94 13.94 46.09 4.41
2926 6197 1.348036 GTAAGGACCTGCAGACCAACT 59.652 52.381 24.31 14.37 0.00 3.16
3303 7113 7.492352 AATATTCTCCAATAACAGTAACCGC 57.508 36.000 0.00 0.00 0.00 5.68
3329 7139 5.112129 ACCACCTTGAATGTCTTATACCC 57.888 43.478 0.00 0.00 0.00 3.69
3973 9844 6.434340 AGGAGGAATTTTACTGAACCACATTC 59.566 38.462 0.00 0.00 37.88 2.67
4084 9956 2.392662 TCTATGCTCCTCCTCCAACAG 58.607 52.381 0.00 0.00 0.00 3.16
4202 10126 5.007724 GTGAAAACTCCAACTACTGTCCAAG 59.992 44.000 0.00 0.00 0.00 3.61
4696 10628 4.411981 CCTCCTGCTGCTGCTGCT 62.412 66.667 27.67 0.00 40.48 4.24
4697 10629 3.128188 CTCCTGCTGCTGCTGCTG 61.128 66.667 27.67 25.97 40.48 4.41
4725 10657 4.704103 TCCTGCTCCGCCTCCTGT 62.704 66.667 0.00 0.00 0.00 4.00
4947 10882 2.036256 GCCAGGCCACAAGGTGAT 59.964 61.111 5.01 0.00 35.23 3.06
5035 10976 0.546598 CCTCCTCCTTAACCGCCAAT 59.453 55.000 0.00 0.00 0.00 3.16
5059 11000 2.363925 GGGGGACTAGGAGCACGT 60.364 66.667 0.00 0.00 0.00 4.49
5208 11150 4.514577 CGGATCTCGGCCTTGCGT 62.515 66.667 0.00 0.00 34.75 5.24
6040 12054 5.238868 CGGTTGAGAGATAACGAGATCCTTA 59.761 44.000 0.00 0.00 0.00 2.69
6206 12257 4.431416 TCTGGCCTTCTTTAGTTGACAA 57.569 40.909 3.32 0.00 0.00 3.18
6369 12422 3.306973 TCGCTTTATCATTTGTCGAGCAG 59.693 43.478 0.00 0.00 0.00 4.24
7021 13083 5.054390 TCTCGTAAAAACAATGGGATTGC 57.946 39.130 0.00 0.00 43.98 3.56
7478 13562 2.647683 TGTGGTGTTGGCATCAGTTA 57.352 45.000 0.00 0.00 36.23 2.24
7513 13597 7.827236 ACAAATATTGTCGGGTCTCAAAGAATA 59.173 33.333 0.00 0.00 40.56 1.75
8455 14964 1.404315 GGACTCGGAACAGTCATGGAC 60.404 57.143 4.59 0.00 44.18 4.02
8830 15404 2.743538 GGCAGCAGCGTCATGTGA 60.744 61.111 0.00 0.00 43.41 3.58
8831 15405 2.747822 GGCAGCAGCGTCATGTGAG 61.748 63.158 0.00 0.00 43.41 3.51
8832 15406 2.747822 GCAGCAGCGTCATGTGAGG 61.748 63.158 0.00 0.00 0.00 3.86
8837 15411 3.503363 GCGTCATGTGAGGCCTGC 61.503 66.667 12.00 2.81 46.70 4.85
8838 15412 2.046988 CGTCATGTGAGGCCTGCA 60.047 61.111 12.00 9.98 0.00 4.41
8839 15413 1.672030 CGTCATGTGAGGCCTGCAA 60.672 57.895 12.00 0.00 0.00 4.08
8840 15414 1.236616 CGTCATGTGAGGCCTGCAAA 61.237 55.000 12.00 3.33 0.00 3.68
8841 15415 0.242017 GTCATGTGAGGCCTGCAAAC 59.758 55.000 12.00 8.39 0.00 2.93
8842 15416 0.178995 TCATGTGAGGCCTGCAAACA 60.179 50.000 12.00 10.01 0.00 2.83
8843 15417 0.892755 CATGTGAGGCCTGCAAACAT 59.107 50.000 12.00 12.08 31.79 2.71
8844 15418 0.892755 ATGTGAGGCCTGCAAACATG 59.107 50.000 12.00 0.00 30.53 3.21
8845 15419 0.178995 TGTGAGGCCTGCAAACATGA 60.179 50.000 12.00 0.00 0.00 3.07
8846 15420 0.242017 GTGAGGCCTGCAAACATGAC 59.758 55.000 12.00 0.00 0.00 3.06
8856 15430 2.325082 AAACATGACGAGTGGGCGC 61.325 57.895 0.00 0.00 33.86 6.53
8915 15489 4.691216 GGAACTATGTGAACTTGACAGGTC 59.309 45.833 0.00 0.00 37.24 3.85
8922 15496 5.924356 TGTGAACTTGACAGGTCTATTTCA 58.076 37.500 10.75 10.75 37.67 2.69
8952 15526 3.196469 TGCAGAAAACCACCACATTGAAA 59.804 39.130 0.00 0.00 0.00 2.69
8954 15528 4.680440 GCAGAAAACCACCACATTGAAACT 60.680 41.667 0.00 0.00 0.00 2.66
8967 15541 4.520492 ACATTGAAACTTAGGGTTGCAGAG 59.480 41.667 0.00 0.00 43.63 3.35
9012 15586 3.243035 CCAGAAAACACTGATTTCACGCA 60.243 43.478 12.74 0.00 38.86 5.24
9041 15615 3.971245 TGCAGAAAACACCAAACCTTT 57.029 38.095 0.00 0.00 0.00 3.11
9208 15782 3.386237 ACACTCTCGCCTCTGCCC 61.386 66.667 0.00 0.00 0.00 5.36
9235 15809 3.831911 CTCTCCTCACTCTGTTCTTCCTT 59.168 47.826 0.00 0.00 0.00 3.36
9238 15812 2.903135 CCTCACTCTGTTCTTCCTTCCT 59.097 50.000 0.00 0.00 0.00 3.36
9309 15883 2.649034 GTGGAGCGACGAGACCAA 59.351 61.111 0.00 0.00 34.11 3.67
9439 16018 2.159028 GCTCGATCTGAACCTAGCCTTT 60.159 50.000 0.00 0.00 0.00 3.11
9456 16035 1.338020 CTTTTCTTTGCTTGCTCCCGT 59.662 47.619 0.00 0.00 0.00 5.28
9488 16067 3.848272 ACGATGCACGATCCAAATTTT 57.152 38.095 14.18 0.00 45.77 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1716 4545 4.688879 CGTTGACTTGGCTGTAAGATGTTA 59.311 41.667 0.00 0.00 34.07 2.41
2238 5080 5.007034 TCAAAATAAACAATGGCGAGGAGA 58.993 37.500 0.00 0.00 0.00 3.71
2577 5571 6.071784 AGGTCGGTGTTTGTTTTAAGAAAAGT 60.072 34.615 0.00 0.00 0.00 2.66
2726 5996 5.757850 CAACTTAGTTGGAGTGCTCTTTT 57.242 39.130 16.62 0.00 39.56 2.27
2918 6189 0.976641 TGGCTTCGATCAGTTGGTCT 59.023 50.000 0.00 0.00 0.00 3.85
2926 6197 3.074369 TCCGGCTGGCTTCGATCA 61.074 61.111 6.73 0.00 34.14 2.92
3005 6814 1.476085 CACCAGTTGCCAACTTTGTGA 59.524 47.619 23.19 0.00 41.07 3.58
3303 7113 5.982890 ATAAGACATTCAAGGTGGTTTGG 57.017 39.130 0.00 0.00 0.00 3.28
3329 7139 4.125703 GAGGCCTTGACTGATCATACTTG 58.874 47.826 6.77 0.00 33.85 3.16
3973 9844 5.529581 TCAGGTTTCTTGGCCTTAAAAAG 57.470 39.130 3.32 0.00 31.73 2.27
4084 9956 5.356470 AGTCAGTTATGTAGTACGGAGGTTC 59.644 44.000 0.00 0.00 0.00 3.62
4202 10126 4.435651 GCACAATCTTGCCTTTAGTACGAC 60.436 45.833 0.00 0.00 36.42 4.34
4698 10630 1.673665 GGAGCAGGAGCAACAGGTG 60.674 63.158 0.00 0.00 45.49 4.00
4725 10657 4.020617 CCTGGAGGTCCGCAGCAA 62.021 66.667 0.00 0.00 39.43 3.91
4781 10713 2.725641 CAGTCGTGGTCGTGGACA 59.274 61.111 0.00 0.00 38.33 4.02
4947 10882 1.585006 GACTCCCAGCTCGACGAAA 59.415 57.895 0.00 0.00 0.00 3.46
5035 10976 0.106167 CTCCTAGTCCCCCGTCATCA 60.106 60.000 0.00 0.00 0.00 3.07
5370 11312 0.534203 AACGTTCATTGTGACGCCCT 60.534 50.000 0.00 0.03 0.00 5.19
5451 11394 2.204463 TGCCATGAAAGTGGATCCCTA 58.796 47.619 9.90 0.00 42.02 3.53
5713 11724 2.700773 GGTCCGCATGGGCAGAAAC 61.701 63.158 3.80 0.00 43.76 2.78
6040 12054 7.624549 TCAGCTTGTCTAACCATAATTCTCTT 58.375 34.615 0.00 0.00 0.00 2.85
6369 12422 0.037975 CAGCATGAGGCCCAAACAAC 60.038 55.000 0.00 0.00 46.50 3.32
7021 13083 1.135373 AGTATTCACTCTGGTGTCGCG 60.135 52.381 0.00 0.00 43.41 5.87
7478 13562 3.682858 CCGACAATATTTGTGGACTCGTT 59.317 43.478 4.26 0.00 45.52 3.85
7513 13597 9.826574 AATATGCATTTATCAGCAACAATCTTT 57.173 25.926 3.54 0.00 44.88 2.52
8455 14964 3.430453 TCTTACAATGGCCAGGGAAAAG 58.570 45.455 13.05 14.00 0.00 2.27
8830 15404 0.957395 CTCGTCATGTTTGCAGGCCT 60.957 55.000 0.00 0.00 0.00 5.19
8831 15405 1.237285 ACTCGTCATGTTTGCAGGCC 61.237 55.000 0.00 0.00 0.00 5.19
8832 15406 0.110056 CACTCGTCATGTTTGCAGGC 60.110 55.000 0.00 0.00 0.00 4.85
8833 15407 0.518636 CCACTCGTCATGTTTGCAGG 59.481 55.000 0.00 0.00 0.00 4.85
8834 15408 0.518636 CCCACTCGTCATGTTTGCAG 59.481 55.000 0.00 0.00 0.00 4.41
8835 15409 1.514678 GCCCACTCGTCATGTTTGCA 61.515 55.000 0.00 0.00 0.00 4.08
8836 15410 1.210155 GCCCACTCGTCATGTTTGC 59.790 57.895 0.00 0.00 0.00 3.68
8837 15411 1.497278 CGCCCACTCGTCATGTTTG 59.503 57.895 0.00 0.00 0.00 2.93
8838 15412 2.325082 GCGCCCACTCGTCATGTTT 61.325 57.895 0.00 0.00 0.00 2.83
8839 15413 2.742372 GCGCCCACTCGTCATGTT 60.742 61.111 0.00 0.00 0.00 2.71
8840 15414 3.695606 AGCGCCCACTCGTCATGT 61.696 61.111 2.29 0.00 0.00 3.21
8841 15415 3.190849 CAGCGCCCACTCGTCATG 61.191 66.667 2.29 0.00 0.00 3.07
8842 15416 4.457496 CCAGCGCCCACTCGTCAT 62.457 66.667 2.29 0.00 0.00 3.06
8873 15447 4.864704 TCCTATATGTTGTCGCATGCTA 57.135 40.909 17.13 0.72 0.00 3.49
8912 15486 6.500684 TCTGCAATTCACTTGAAATAGACC 57.499 37.500 0.00 0.00 37.61 3.85
8915 15489 7.652909 TGGTTTTCTGCAATTCACTTGAAATAG 59.347 33.333 0.00 0.00 37.61 1.73
8922 15496 3.450457 TGGTGGTTTTCTGCAATTCACTT 59.550 39.130 0.00 0.00 0.00 3.16
8952 15526 3.243724 AGTCTTCTCTGCAACCCTAAGT 58.756 45.455 0.00 0.00 0.00 2.24
8954 15528 3.963428 GAGTCTTCTCTGCAACCCTAA 57.037 47.619 0.00 0.00 37.68 2.69
8967 15541 5.433005 GCACAAAAACGTAGAAGAGTCTTC 58.567 41.667 22.97 22.97 35.12 2.87
9012 15586 7.173047 GGTTTGGTGTTTTCTGCAAATGATTAT 59.827 33.333 0.00 0.00 0.00 1.28
9041 15615 2.703007 AGTGCTTAAAATGCCCCAACAA 59.297 40.909 0.00 0.00 0.00 2.83
9081 15655 0.251564 ACGCCACATCCCCAAAATCA 60.252 50.000 0.00 0.00 0.00 2.57
9208 15782 2.043450 AGAGTGAGGAGAGGGCGG 60.043 66.667 0.00 0.00 0.00 6.13
9269 15843 4.738998 CATGGCACCGGGGAGCAA 62.739 66.667 8.67 0.28 33.44 3.91
9328 15902 1.340399 TGCCATCGCAGGAGGAGATT 61.340 55.000 0.00 0.00 41.12 2.40
9439 16018 1.808411 CTACGGGAGCAAGCAAAGAA 58.192 50.000 0.00 0.00 0.00 2.52
9488 16067 3.445805 TCACATCTGCGTCAGTACCATTA 59.554 43.478 6.72 0.00 32.61 1.90


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

AutoCloner maintained by Alex Coulton.