Multiple sequence alignment - TraesCS6D01G173700

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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 TraesCS6D01G173700 chr6D 100.000 7508 0 0 1 7508 162949874 162957381 0.000000e+00 13865.0
1 TraesCS6D01G173700 chr6D 93.080 737 46 3 1942 2677 162951635 162952367 0.000000e+00 1074.0
2 TraesCS6D01G173700 chr6D 93.080 737 46 3 1762 2494 162951815 162952550 0.000000e+00 1074.0
3 TraesCS6D01G173700 chr6D 92.199 282 22 0 3041 3322 162952770 162953051 4.220000e-107 399.0
4 TraesCS6D01G173700 chr6D 92.199 282 22 0 2897 3178 162952914 162953195 4.220000e-107 399.0
5 TraesCS6D01G173700 chr6D 94.565 92 4 1 4580 4671 427344854 427344944 2.820000e-29 141.0
6 TraesCS6D01G173700 chr6B 96.885 6099 171 9 17 6108 299623030 299616944 0.000000e+00 10192.0
7 TraesCS6D01G173700 chr6B 91.822 2788 195 20 3971 6751 299826754 299823993 0.000000e+00 3855.0
8 TraesCS6D01G173700 chr6B 94.392 945 51 2 911 1854 299828884 299827941 0.000000e+00 1450.0
9 TraesCS6D01G173700 chr6B 95.667 900 29 5 6611 7507 299602335 299601443 0.000000e+00 1437.0
10 TraesCS6D01G173700 chr6B 92.135 801 53 6 3185 3977 299827651 299826853 0.000000e+00 1122.0
11 TraesCS6D01G173700 chr6B 94.019 719 40 1 1959 2677 299621275 299620560 0.000000e+00 1086.0
12 TraesCS6D01G173700 chr6B 92.944 737 47 3 1762 2494 299621112 299620377 0.000000e+00 1068.0
13 TraesCS6D01G173700 chr6B 85.210 879 90 26 56 915 299838326 299837469 0.000000e+00 867.0
14 TraesCS6D01G173700 chr6B 96.788 467 15 0 6106 6572 299602799 299602333 0.000000e+00 780.0
15 TraesCS6D01G173700 chr6B 91.697 554 41 3 1762 2311 299620929 299620377 0.000000e+00 763.0
16 TraesCS6D01G173700 chr6B 88.603 544 38 5 2491 3034 299828033 299827514 2.280000e-179 640.0
17 TraesCS6D01G173700 chr6B 92.553 282 21 0 2897 3178 299620013 299619732 9.070000e-109 405.0
18 TraesCS6D01G173700 chr6B 90.826 218 12 4 6735 6952 299822100 299821891 1.230000e-72 285.0
19 TraesCS6D01G173700 chr6B 95.652 92 4 0 4576 4667 13827521 13827612 1.690000e-31 148.0
20 TraesCS6D01G173700 chr6A 96.792 3211 75 8 4285 7490 222678559 222681746 0.000000e+00 5334.0
21 TraesCS6D01G173700 chr6A 96.337 1829 60 3 670 2494 222673001 222674826 0.000000e+00 3000.0
22 TraesCS6D01G173700 chr6A 96.353 1508 49 4 1942 3447 222674094 222675597 0.000000e+00 2475.0
23 TraesCS6D01G173700 chr6A 93.924 1547 88 5 5319 6863 222135368 222136910 0.000000e+00 2331.0
24 TraesCS6D01G173700 chr6A 92.769 1466 101 4 483 1945 222125508 222126971 0.000000e+00 2115.0
25 TraesCS6D01G173700 chr6A 97.693 737 12 4 3561 4294 222675592 222676326 0.000000e+00 1262.0
26 TraesCS6D01G173700 chr6A 90.637 801 61 7 3185 3977 222127188 222127982 0.000000e+00 1051.0
27 TraesCS6D01G173700 chr6A 95.161 620 29 1 9 628 222672385 222673003 0.000000e+00 977.0
28 TraesCS6D01G173700 chr6A 92.632 665 45 4 4663 5326 222128690 222129351 0.000000e+00 953.0
29 TraesCS6D01G173700 chr6A 90.835 611 52 3 3971 4579 222128081 222128689 0.000000e+00 815.0
30 TraesCS6D01G173700 chr6A 90.809 544 43 3 2491 3034 222126785 222127321 0.000000e+00 721.0
31 TraesCS6D01G173700 chr6A 92.115 279 22 0 2897 3175 222675190 222675468 1.960000e-105 394.0
32 TraesCS6D01G173700 chr6A 86.402 353 34 9 56 403 222125166 222125509 2.560000e-99 374.0
33 TraesCS6D01G173700 chr6A 91.228 57 2 1 6896 6952 222136919 222136972 2.910000e-09 75.0
34 TraesCS6D01G173700 chr7D 91.946 1552 113 6 581 2128 388033303 388034846 0.000000e+00 2163.0
35 TraesCS6D01G173700 chr7D 91.972 984 79 0 2308 3291 388034477 388035460 0.000000e+00 1380.0
36 TraesCS6D01G173700 chr7D 88.247 502 44 9 6236 6736 388035463 388035950 3.020000e-163 586.0
37 TraesCS6D01G173700 chr7D 92.199 282 22 0 3041 3322 388035066 388035347 4.220000e-107 399.0
38 TraesCS6D01G173700 chr7B 91.044 1552 127 7 581 2128 383511092 383512635 0.000000e+00 2085.0
39 TraesCS6D01G173700 chr7B 90.622 949 88 1 2308 3256 383512266 383513213 0.000000e+00 1258.0
40 TraesCS6D01G173700 chr7B 89.396 679 62 5 2977 3651 383514298 383514970 0.000000e+00 846.0
41 TraesCS6D01G173700 chr7B 85.954 655 53 19 6087 6737 383514943 383515562 0.000000e+00 664.0
42 TraesCS6D01G173700 chr7B 90.576 191 17 1 2491 2681 383512266 383512455 1.250000e-62 252.0
43 TraesCS6D01G173700 chr7B 95.556 90 3 1 4576 4665 84214184 84214272 7.850000e-30 143.0
44 TraesCS6D01G173700 chr7A 90.148 1553 142 7 581 2128 438253504 438255050 0.000000e+00 2010.0
45 TraesCS6D01G173700 chr7A 89.856 1114 95 13 5625 6736 438259934 438261031 0.000000e+00 1415.0
46 TraesCS6D01G173700 chr7A 89.527 888 93 0 2308 3195 438254681 438255568 0.000000e+00 1125.0
47 TraesCS6D01G173700 chr7A 88.618 738 57 11 3047 3781 438258170 438258883 0.000000e+00 872.0
48 TraesCS6D01G173700 chr7A 91.787 621 44 2 4955 5575 438259321 438259934 0.000000e+00 857.0
49 TraesCS6D01G173700 chr7A 86.723 354 35 8 56 403 438253125 438253472 4.250000e-102 383.0
50 TraesCS6D01G173700 chr7A 93.893 131 8 0 3845 3975 438259161 438259291 1.650000e-46 198.0
51 TraesCS6D01G173700 chr2D 94.624 93 5 0 4581 4673 128890639 128890731 2.180000e-30 145.0
52 TraesCS6D01G173700 chr4B 89.381 113 7 5 4569 4677 4233616 4233505 3.650000e-28 137.0
53 TraesCS6D01G173700 chr5A 91.837 98 6 2 4570 4666 376465977 376465881 1.310000e-27 135.0
54 TraesCS6D01G173700 chr5A 91.379 58 4 1 415 472 104619145 104619201 2.250000e-10 78.7
55 TraesCS6D01G173700 chr4A 92.553 94 4 3 4569 4659 663651216 663651309 1.700000e-26 132.0
56 TraesCS6D01G173700 chr4A 97.619 42 1 0 415 456 164523161 164523120 1.040000e-08 73.1
57 TraesCS6D01G173700 chr2B 100.000 45 0 0 412 456 114408537 114408493 4.830000e-12 84.2
58 TraesCS6D01G173700 chr5B 91.379 58 4 1 415 472 107735023 107734967 2.250000e-10 78.7
59 TraesCS6D01G173700 chr5D 94.118 51 1 1 405 455 461073360 461073408 8.080000e-10 76.8
60 TraesCS6D01G173700 chr5D 95.652 46 2 0 411 456 491432561 491432606 2.910000e-09 75.0
61 TraesCS6D01G173700 chr5D 89.655 58 5 1 415 472 98296506 98296450 1.040000e-08 73.1


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 TraesCS6D01G173700 chr6D 162949874 162957381 7507 False 13865.000000 13865 100.000000 1 7508 1 chr6D.!!$F1 7507
1 TraesCS6D01G173700 chr6D 162951635 162953195 1560 False 736.500000 1074 92.639500 1762 3322 4 chr6D.!!$F3 1560
2 TraesCS6D01G173700 chr6B 299616944 299623030 6086 True 2702.800000 10192 93.619600 17 6108 5 chr6B.!!$R3 6091
3 TraesCS6D01G173700 chr6B 299821891 299828884 6993 True 1470.400000 3855 91.555600 911 6952 5 chr6B.!!$R4 6041
4 TraesCS6D01G173700 chr6B 299601443 299602799 1356 True 1108.500000 1437 96.227500 6106 7507 2 chr6B.!!$R2 1401
5 TraesCS6D01G173700 chr6B 299837469 299838326 857 True 867.000000 867 85.210000 56 915 1 chr6B.!!$R1 859
6 TraesCS6D01G173700 chr6A 222672385 222681746 9361 False 2240.333333 5334 95.741833 9 7490 6 chr6A.!!$F3 7481
7 TraesCS6D01G173700 chr6A 222135368 222136972 1604 False 1203.000000 2331 92.576000 5319 6952 2 chr6A.!!$F2 1633
8 TraesCS6D01G173700 chr6A 222125166 222129351 4185 False 1004.833333 2115 90.680667 56 5326 6 chr6A.!!$F1 5270
9 TraesCS6D01G173700 chr7D 388033303 388035950 2647 False 1132.000000 2163 91.091000 581 6736 4 chr7D.!!$F1 6155
10 TraesCS6D01G173700 chr7B 383511092 383515562 4470 False 1021.000000 2085 89.518400 581 6737 5 chr7B.!!$F2 6156
11 TraesCS6D01G173700 chr7A 438253125 438261031 7906 False 980.000000 2010 90.078857 56 6736 7 chr7A.!!$F1 6680

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
985 1123 1.523758 AAGCGCCAAAGAAGTACAGG 58.476 50.000 2.29 0.0 0.00 4.00 F
2045 3101 1.002069 ATGGATTTGGAGGGCACTGA 58.998 50.000 0.00 0.0 0.00 3.41 F
2323 3379 1.207089 TCACAGAAGGGAATGGTAGCG 59.793 52.381 0.00 0.0 0.00 4.26 F
2342 3398 3.069289 GCGTCATGATGGAATATGCAGA 58.931 45.455 16.59 0.0 0.00 4.26 F
3621 8940 3.671971 CGGTTGACACTTTGTTTGCTGAA 60.672 43.478 0.00 0.0 0.00 3.02 F
4163 9805 2.167662 AGGAAAAACACCCTATTGGCG 58.832 47.619 0.00 0.0 37.83 5.69 F
4812 12701 3.642938 TGGAACAGGGGAAACATCG 57.357 52.632 0.00 0.0 0.00 3.84 F
5989 13888 5.933617 AGTGCATGAATAAGCCTATGAAGA 58.066 37.500 0.00 0.0 0.00 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2303 3359 1.207089 CGCTACCATTCCCTTCTGTGA 59.793 52.381 0.00 0.00 0.00 3.58 R
3051 4107 1.439365 CTTCGACGCTTGCAGCAAC 60.439 57.895 2.83 0.65 42.58 4.17 R
3599 8918 2.159448 TCAGCAAACAAAGTGTCAACCG 60.159 45.455 0.00 0.00 0.00 4.44 R
3860 9396 2.417558 GACTGCTGCTCCCTGGGTTT 62.418 60.000 13.56 0.00 0.00 3.27 R
4812 12701 4.257267 ACCCAAACTTCAATAAAGCAGC 57.743 40.909 0.00 0.00 38.67 5.25 R
5929 13828 0.174162 GCTTCATTGGACATGGTGGC 59.826 55.000 0.00 0.00 0.00 5.01 R
6261 14160 2.558286 GGTGGTGACGAGGACACGA 61.558 63.158 0.00 0.00 38.90 4.35 R
6819 16636 1.565759 TCCAAGCCTGACCTGCATTAT 59.434 47.619 0.00 0.00 0.00 1.28 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
83 84 2.101249 CACATGGCAACTTGGTCTTGTT 59.899 45.455 0.00 0.00 45.58 2.83
242 249 3.599343 TGTATGGCATGTCTTCACTGTC 58.401 45.455 10.98 0.00 0.00 3.51
286 293 5.508200 TGTTTTATCATATTTCGGGTGCC 57.492 39.130 0.00 0.00 0.00 5.01
287 294 4.950475 TGTTTTATCATATTTCGGGTGCCA 59.050 37.500 0.00 0.00 0.00 4.92
459 469 3.931468 TGTCGTGGTTTTAGTTCAACGAA 59.069 39.130 0.00 0.00 0.00 3.85
463 473 5.350914 TCGTGGTTTTAGTTCAACGAAAAGA 59.649 36.000 8.63 1.14 34.30 2.52
648 784 2.284405 ACACCCGGGGATCGAACT 60.284 61.111 27.92 0.00 42.43 3.01
672 808 4.624293 CGCAGCATACTCCTCTCG 57.376 61.111 0.00 0.00 0.00 4.04
985 1123 1.523758 AAGCGCCAAAGAAGTACAGG 58.476 50.000 2.29 0.00 0.00 4.00
1140 1279 3.290948 AAAGACAAACTGGGTACTGCA 57.709 42.857 0.00 0.00 0.00 4.41
1225 1365 8.209917 AGTTGTCGAAAATGAAAAGTTCTACT 57.790 30.769 0.00 0.00 0.00 2.57
1317 1457 3.518705 AGTTCTGGAAGCTGACTGATGAT 59.481 43.478 0.00 0.00 0.00 2.45
1405 1545 7.639378 ACTAAGCTGTTTAAATCCTCCCAATA 58.361 34.615 0.00 0.00 0.00 1.90
1803 2673 9.881649 GTCATGAAGGAATATGCAGATATAAGA 57.118 33.333 0.00 0.00 0.00 2.10
1835 2705 1.975680 TGAGGTACCTCCAGAAACACC 59.024 52.381 34.05 10.79 42.09 4.16
1843 2713 4.721132 ACCTCCAGAAACACCGAATAAAA 58.279 39.130 0.00 0.00 0.00 1.52
1869 2739 3.269381 TGGATTTAGAGGGCACTGGAATT 59.731 43.478 0.00 0.00 0.00 2.17
1904 2774 7.148255 GGGCAATTATTCTTTGGATTTTGGAAC 60.148 37.037 0.00 0.00 0.00 3.62
2029 3085 5.972107 AGAAACACTGAATGAAGGAATGG 57.028 39.130 0.00 0.00 0.00 3.16
2034 3090 6.276832 ACACTGAATGAAGGAATGGATTTG 57.723 37.500 0.00 0.00 0.00 2.32
2045 3101 1.002069 ATGGATTTGGAGGGCACTGA 58.998 50.000 0.00 0.00 0.00 3.41
2056 3112 3.190874 GAGGGCACTGAAGTAGATTTCG 58.809 50.000 0.00 0.00 0.00 3.46
2063 3119 3.002791 CTGAAGTAGATTTCGCAGGCAA 58.997 45.455 0.00 0.00 0.00 4.52
2223 3279 4.170468 TGAAGGAATGGATTTAGAGGGC 57.830 45.455 0.00 0.00 0.00 5.19
2242 3298 3.370953 GGGCACTGGAGTAGATTTCACAT 60.371 47.826 0.00 0.00 0.00 3.21
2297 3353 4.767409 AGGCAAGGAATGTAAAGAAGAACC 59.233 41.667 0.00 0.00 0.00 3.62
2303 3359 7.761038 AGGAATGTAAAGAAGAACCGAAAAT 57.239 32.000 0.00 0.00 0.00 1.82
2323 3379 1.207089 TCACAGAAGGGAATGGTAGCG 59.793 52.381 0.00 0.00 0.00 4.26
2342 3398 3.069289 GCGTCATGATGGAATATGCAGA 58.931 45.455 16.59 0.00 0.00 4.26
2369 3425 4.548669 AGAGAAGAGGGTATTGAGGTACC 58.451 47.826 2.73 2.73 42.79 3.34
2386 3442 5.187186 GAGGTACCTCCAGAAACACTGAATA 59.813 44.000 28.87 0.00 45.43 1.75
2565 3621 5.723672 TTGAGGTACCTCTAGAAACACTG 57.276 43.478 35.83 0.00 43.12 3.66
3035 4091 6.317391 GCTACAGAAGACATTCCAAAAGCTAT 59.683 38.462 0.00 0.00 35.94 2.97
3051 4107 4.775058 AGCTATAGAAGACATGGCTACG 57.225 45.455 0.00 0.00 38.32 3.51
3493 8810 7.930513 AAAAGCAAAATACTTACAAGAGCAC 57.069 32.000 0.00 0.00 0.00 4.40
3621 8940 3.671971 CGGTTGACACTTTGTTTGCTGAA 60.672 43.478 0.00 0.00 0.00 3.02
3781 9103 7.176165 AGGTTTACAGAAGCCACCTATAAAAAC 59.824 37.037 0.00 0.00 38.37 2.43
3860 9396 7.470009 GCTTCAAAGGAACTGAACAAAGGAATA 60.470 37.037 0.00 0.00 40.86 1.75
4148 9790 9.847224 AGTCTTTTATCACAAGTTAGAAGGAAA 57.153 29.630 0.00 0.00 0.00 3.13
4156 9798 5.359860 CACAAGTTAGAAGGAAAAACACCCT 59.640 40.000 0.00 0.00 0.00 4.34
4163 9805 2.167662 AGGAAAAACACCCTATTGGCG 58.832 47.619 0.00 0.00 37.83 5.69
4489 12377 4.777896 ACTGCTCTACTAATTTGTGGAGGA 59.222 41.667 26.07 23.65 43.06 3.71
4660 12548 7.553334 ACACTCTTATATTTCTTTACGGAGCA 58.447 34.615 0.00 0.00 0.00 4.26
4789 12678 3.668656 GCTGTAAAAGTTCGGCAATGTTC 59.331 43.478 0.00 0.00 36.16 3.18
4812 12701 3.642938 TGGAACAGGGGAAACATCG 57.357 52.632 0.00 0.00 0.00 3.84
5236 13127 8.477709 CGTATACAATTATTTCTTGACTCGACC 58.522 37.037 3.32 0.00 0.00 4.79
5929 13828 6.506500 AAATCCAGTTTGCTGTATTCTCTG 57.493 37.500 0.00 0.00 41.02 3.35
5989 13888 5.933617 AGTGCATGAATAAGCCTATGAAGA 58.066 37.500 0.00 0.00 0.00 2.87
6261 14160 0.113385 ATCTCCGGTCGGGATCATCT 59.887 55.000 9.68 0.00 46.04 2.90
6392 14294 2.607750 TGGACAGCCTGGAGGGAC 60.608 66.667 0.00 0.00 37.23 4.46
6461 14363 2.486982 CTGACATCCAAAGGTTCTGCAG 59.513 50.000 7.63 7.63 0.00 4.41
6528 14430 5.527582 GTGAGCAATTCCGTAGTTGGATATT 59.472 40.000 0.00 0.00 38.00 1.28
6740 14647 9.562408 TGTTGGTTCATCTGTTGTTTACTATTA 57.438 29.630 0.00 0.00 0.00 0.98
6819 16636 4.202567 ACAGAATCCTTAAGCCAGGACAAA 60.203 41.667 0.00 0.00 46.22 2.83
6863 16680 7.093771 GGATTGAACTTTGGACCAGATTACATT 60.094 37.037 0.00 0.00 0.00 2.71
7008 16826 2.710377 CAGGCAATAACTACAGGCACA 58.290 47.619 0.00 0.00 0.00 4.57
7023 16841 4.586001 ACAGGCACATCAATCTTTCTGTTT 59.414 37.500 0.00 0.00 31.17 2.83
7088 16906 4.698780 AGCGAGGGTTAACTGAAATAAACC 59.301 41.667 5.42 0.00 39.88 3.27
7099 16917 9.796120 TTAACTGAAATAAACCTCAAAACACAG 57.204 29.630 0.00 0.00 0.00 3.66
7200 17018 1.211703 TGCAAGTCCCTTGTCAGACAA 59.788 47.619 15.39 15.39 42.77 3.18
7422 17240 3.246226 CAGTCGCTTCATAACTGGCATAC 59.754 47.826 0.00 0.00 37.38 2.39
7463 17281 5.784578 ACAAAATGGTGGGTAGTCTTTTC 57.215 39.130 0.00 0.00 0.00 2.29
7481 17299 7.976734 AGTCTTTTCTCAACGGACTAATCTATG 59.023 37.037 0.00 0.00 35.79 2.23
7483 17301 8.528643 TCTTTTCTCAACGGACTAATCTATGAA 58.471 33.333 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 2.246469 TGGTCCATCAACCAAACCATG 58.754 47.619 0.00 0.00 46.26 3.66
83 84 2.280524 CGTCCAACTCCAACGGCA 60.281 61.111 0.00 0.00 32.96 5.69
286 293 5.621635 CGTCACCGTGAAGATACTAATTG 57.378 43.478 8.62 0.00 0.00 2.32
459 469 4.887655 ACTCACTCCGTTCCAAAATTCTTT 59.112 37.500 0.00 0.00 0.00 2.52
463 473 4.969484 AGTACTCACTCCGTTCCAAAATT 58.031 39.130 0.00 0.00 0.00 1.82
648 784 1.305219 GGAGTATGCTGCGCAACCAA 61.305 55.000 13.05 0.00 43.62 3.67
672 808 3.284449 GTCGTGGTGGTGGGCAAC 61.284 66.667 0.00 0.00 0.00 4.17
985 1123 0.664166 CCCATCGCTTGTGTTGCAAC 60.664 55.000 22.83 22.83 32.90 4.17
1140 1279 2.243221 AGAATGTCCAAATAGCTGGGCT 59.757 45.455 0.00 0.00 41.97 5.19
1225 1365 1.832998 TGTGATCAGCAGGCAGTGATA 59.167 47.619 0.00 0.00 33.43 2.15
1317 1457 9.931698 TGTCTACCTTCTCTCTTTATATACCAA 57.068 33.333 0.00 0.00 0.00 3.67
1405 1545 8.884124 TCCTTTTCATCCAGAAATGTTTCTAT 57.116 30.769 7.62 0.00 45.23 1.98
1835 2705 7.013274 TGCCCTCTAAATCCATTCTTTTATTCG 59.987 37.037 0.00 0.00 0.00 3.34
1843 2713 3.117738 CCAGTGCCCTCTAAATCCATTCT 60.118 47.826 0.00 0.00 0.00 2.40
1869 2739 2.948979 AGAATAATTGCCCGCGAAATCA 59.051 40.909 8.23 0.00 0.00 2.57
2029 3085 2.206576 ACTTCAGTGCCCTCCAAATC 57.793 50.000 0.00 0.00 0.00 2.17
2034 3090 3.536570 GAAATCTACTTCAGTGCCCTCC 58.463 50.000 0.00 0.00 0.00 4.30
2045 3101 6.543831 AGAATAATTGCCTGCGAAATCTACTT 59.456 34.615 0.00 0.00 0.00 2.24
2056 3112 6.108015 TGAAATCCAAAGAATAATTGCCTGC 58.892 36.000 0.00 0.00 0.00 4.85
2063 3119 8.810041 AGCAACTTCTGAAATCCAAAGAATAAT 58.190 29.630 0.00 0.00 29.96 1.28
2223 3279 4.256110 TGCATGTGAAATCTACTCCAGTG 58.744 43.478 0.00 0.00 0.00 3.66
2242 3298 8.587608 ACTTCTGAAATCCAAAGAATAATTGCA 58.412 29.630 0.00 0.00 29.96 4.08
2297 3353 3.758554 ACCATTCCCTTCTGTGATTTTCG 59.241 43.478 0.00 0.00 0.00 3.46
2303 3359 1.207089 CGCTACCATTCCCTTCTGTGA 59.793 52.381 0.00 0.00 0.00 3.58
2323 3379 9.828039 TCTTATATCTGCATATTCCATCATGAC 57.172 33.333 0.00 0.00 0.00 3.06
2342 3398 9.536510 GTACCTCAATACCCTCTTCTCTTATAT 57.463 37.037 0.00 0.00 0.00 0.86
2355 3411 3.042059 TCTGGAGGTACCTCAATACCC 57.958 52.381 36.73 22.87 45.13 3.69
2369 3425 7.362401 CCATTCCTTTATTCAGTGTTTCTGGAG 60.362 40.741 0.00 0.00 43.76 3.86
2386 3442 4.017130 AGTGCCCTCTAAATCCATTCCTTT 60.017 41.667 0.00 0.00 0.00 3.11
2565 3621 6.777580 TGCCCTCTAAATCCATTCCTTTATTC 59.222 38.462 0.00 0.00 0.00 1.75
3003 4059 2.604912 TGTCTTCTGTAGCTCCCTCA 57.395 50.000 0.00 0.00 0.00 3.86
3035 4091 2.496070 AGCAACGTAGCCATGTCTTCTA 59.504 45.455 0.00 0.00 34.23 2.10
3051 4107 1.439365 CTTCGACGCTTGCAGCAAC 60.439 57.895 2.83 0.65 42.58 4.17
3357 8674 4.322567 AGACCTCTTCAATCAAGCTTGTC 58.677 43.478 25.19 11.64 31.26 3.18
3493 8810 6.183360 CCATTTACGAAAACAATTTTAGCCCG 60.183 38.462 0.00 0.00 31.94 6.13
3599 8918 2.159448 TCAGCAAACAAAGTGTCAACCG 60.159 45.455 0.00 0.00 0.00 4.44
3621 8940 4.800023 TCATGGGCAGATCAGAAATGATT 58.200 39.130 0.00 0.00 0.00 2.57
3781 9103 4.506886 GGATCACTTCCCTCGTACATAG 57.493 50.000 0.00 0.00 38.75 2.23
3860 9396 2.417558 GACTGCTGCTCCCTGGGTTT 62.418 60.000 13.56 0.00 0.00 3.27
4163 9805 5.916661 TCTATAGAGACTGGTGGTCAAAC 57.083 43.478 0.00 0.00 46.72 2.93
4489 12377 6.933514 ATTTTGTCCATCAGGGTAATGTTT 57.066 33.333 0.00 0.00 38.11 2.83
4660 12548 8.037758 CACTGGATCAGAAGTTAATCAGTACTT 58.962 37.037 0.00 0.00 37.31 2.24
4812 12701 4.257267 ACCCAAACTTCAATAAAGCAGC 57.743 40.909 0.00 0.00 38.67 5.25
5807 13698 6.805271 CACAAAGAATTGCCTGAGATTAACAG 59.195 38.462 0.00 0.00 40.34 3.16
5819 13717 0.598065 AGACGCCACAAAGAATTGCC 59.402 50.000 0.00 0.00 40.34 4.52
5929 13828 0.174162 GCTTCATTGGACATGGTGGC 59.826 55.000 0.00 0.00 0.00 5.01
5989 13888 5.282055 TCTTCATCTTTCGGCACTATGAT 57.718 39.130 0.00 0.00 0.00 2.45
6261 14160 2.558286 GGTGGTGACGAGGACACGA 61.558 63.158 0.00 0.00 38.90 4.35
6528 14430 3.068732 GTCTAGATAGCCATCTGTGCACA 59.931 47.826 20.37 20.37 41.75 4.57
6819 16636 1.565759 TCCAAGCCTGACCTGCATTAT 59.434 47.619 0.00 0.00 0.00 1.28
6863 16680 5.013287 TCACACCCAAACCTTACTTGCTATA 59.987 40.000 0.00 0.00 0.00 1.31
7088 16906 7.011950 TGTTTACATGTAGTCCTGTGTTTTGAG 59.988 37.037 5.56 0.00 0.00 3.02
7091 16909 6.238266 CGTGTTTACATGTAGTCCTGTGTTTT 60.238 38.462 5.56 0.00 0.00 2.43
7099 16917 7.577979 TGAAAATTCGTGTTTACATGTAGTCC 58.422 34.615 5.56 0.00 34.59 3.85
7401 17219 2.698855 ATGCCAGTTATGAAGCGACT 57.301 45.000 0.00 0.00 0.00 4.18
7422 17240 8.922676 CATTTTGTTGATTCTTCCATCTTTCTG 58.077 33.333 0.00 0.00 0.00 3.02
7426 17244 7.156673 CACCATTTTGTTGATTCTTCCATCTT 58.843 34.615 0.00 0.00 0.00 2.40
7431 17249 4.040339 ACCCACCATTTTGTTGATTCTTCC 59.960 41.667 0.00 0.00 0.00 3.46
7432 17250 5.213891 ACCCACCATTTTGTTGATTCTTC 57.786 39.130 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.