Multiple sequence alignment - TraesCS2A01G301800

Loading Multiple Alignment...

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 TraesCS2A01G301800 chr2A 100.000 2336 0 0 1 2336 516826589 516824254 0.000000e+00 4314
1 TraesCS2A01G301800 chr2A 87.470 423 47 6 505 923 515951794 515952214 1.260000e-132 483
2 TraesCS2A01G301800 chr2D 95.152 1052 49 1 606 1655 382446973 382445922 0.000000e+00 1659
3 TraesCS2A01G301800 chr2D 92.587 688 39 7 1656 2336 476394650 476393968 0.000000e+00 977
4 TraesCS2A01G301800 chr2D 96.309 298 9 2 1 298 382448385 382448090 2.700000e-134 488
5 TraesCS2A01G301800 chr2D 90.476 294 10 3 292 569 382447264 382446973 2.830000e-99 372
6 TraesCS2A01G301800 chr6A 93.723 685 32 6 1660 2336 429345357 429344676 0.000000e+00 1016
7 TraesCS2A01G301800 chr6A 92.764 691 38 7 1656 2336 429363070 429362382 0.000000e+00 989
8 TraesCS2A01G301800 chr1A 93.179 689 34 7 1656 2336 306746552 306747235 0.000000e+00 1000
9 TraesCS2A01G301800 chr1A 92.754 690 41 3 1656 2336 107912319 107911630 0.000000e+00 989
10 TraesCS2A01G301800 chr1A 87.207 469 52 6 1192 1655 218524431 218524896 5.720000e-146 527
11 TraesCS2A01G301800 chr1A 86.715 414 51 4 513 923 464808893 464808481 7.610000e-125 457
12 TraesCS2A01G301800 chr1A 85.990 414 54 4 513 923 383406923 383407335 7.660000e-120 440
13 TraesCS2A01G301800 chr1D 92.630 692 41 5 1654 2336 435475724 435475034 0.000000e+00 987
14 TraesCS2A01G301800 chr1D 87.049 471 49 8 1192 1655 105351120 105350655 2.660000e-144 521
15 TraesCS2A01G301800 chr1D 85.749 414 55 4 513 923 400931792 400931380 3.560000e-118 435
16 TraesCS2A01G301800 chr1D 85.507 414 56 4 513 923 247478988 247479400 1.660000e-116 429
17 TraesCS2A01G301800 chr1D 85.507 414 56 4 513 923 343859499 343859087 1.660000e-116 429
18 TraesCS2A01G301800 chr1D 85.577 416 52 7 513 923 452590965 452591377 1.660000e-116 429
19 TraesCS2A01G301800 chr1D 85.106 423 58 5 505 923 114006176 114005755 5.970000e-116 427
20 TraesCS2A01G301800 chr1D 84.870 423 59 5 505 923 114009843 114010264 2.780000e-114 422
21 TraesCS2A01G301800 chr1D 84.615 429 61 5 505 929 247525085 247524658 2.780000e-114 422
22 TraesCS2A01G301800 chr3A 91.961 709 45 7 1638 2336 566048917 566049623 0.000000e+00 983
23 TraesCS2A01G301800 chr3A 92.075 694 44 5 1653 2336 672428042 672428734 0.000000e+00 966
24 TraesCS2A01G301800 chr3A 88.889 90 8 2 1112 1201 606615355 606615268 2.450000e-20 110
25 TraesCS2A01G301800 chr7A 92.587 688 37 7 1656 2336 271103752 271103072 0.000000e+00 976
26 TraesCS2A01G301800 chr7A 85.990 414 54 4 513 923 540664413 540664825 7.660000e-120 440
27 TraesCS2A01G301800 chr2B 88.475 590 54 4 1 578 453236832 453236245 0.000000e+00 701
28 TraesCS2A01G301800 chr2B 90.000 90 6 2 1112 1201 129710373 129710287 1.900000e-21 113
29 TraesCS2A01G301800 chr5A 79.440 929 140 34 1192 2087 379099278 379100188 5.520000e-171 610
30 TraesCS2A01G301800 chr5A 87.049 471 51 7 1192 1655 709392039 709392506 7.400000e-145 523
31 TraesCS2A01G301800 chr5A 85.782 422 55 5 505 922 621752348 621752768 2.130000e-120 442
32 TraesCS2A01G301800 chr3D 87.527 465 55 2 1193 1655 182651082 182650619 3.420000e-148 534
33 TraesCS2A01G301800 chr3D 87.179 468 53 5 1192 1655 329443152 329443616 2.060000e-145 525
34 TraesCS2A01G301800 chr3D 85.990 414 54 4 513 923 274516033 274516445 7.660000e-120 440
35 TraesCS2A01G301800 chr3D 85.990 414 53 5 513 923 341508210 341507799 2.760000e-119 438
36 TraesCS2A01G301800 chr4A 87.207 469 52 6 1192 1655 453613907 453614372 5.720000e-146 527
37 TraesCS2A01G301800 chr7D 87.124 466 54 5 1192 1655 369457458 369456997 7.400000e-145 523
38 TraesCS2A01G301800 chr7D 86.715 414 51 4 513 923 218391686 218391274 7.610000e-125 457
39 TraesCS2A01G301800 chr3B 87.750 400 44 5 527 923 424127600 424127997 1.640000e-126 462
40 TraesCS2A01G301800 chr3B 90.000 100 7 1 967 1063 779594339 779594240 2.440000e-25 126
41 TraesCS2A01G301800 chr3B 91.111 90 5 2 1112 1201 713502144 713502058 4.080000e-23 119
42 TraesCS2A01G301800 chr3B 88.889 90 7 2 1112 1201 779594140 779594054 8.830000e-20 108
43 TraesCS2A01G301800 chr7B 86.019 422 55 4 505 923 522151336 522150916 1.270000e-122 449
44 TraesCS2A01G301800 chr7B 90.000 90 6 2 1112 1201 557370886 557370972 1.900000e-21 113
45 TraesCS2A01G301800 chr4D 86.232 414 53 4 513 923 47533000 47532588 1.650000e-121 446
46 TraesCS2A01G301800 chr4D 86.232 414 53 4 513 923 443840867 443841279 1.650000e-121 446
47 TraesCS2A01G301800 chr4D 85.749 414 55 4 513 923 437244350 437244762 3.560000e-118 435
48 TraesCS2A01G301800 chr4D 85.343 423 57 5 505 923 275881642 275882063 1.280000e-117 433
49 TraesCS2A01G301800 chr4D 85.106 423 58 5 505 923 119908253 119908674 5.970000e-116 427
50 TraesCS2A01G301800 chrUn 85.749 414 55 4 513 923 85312826 85312414 3.560000e-118 435
51 TraesCS2A01G301800 chrUn 85.266 414 57 4 513 923 300474152 300474564 7.720000e-115 424
52 TraesCS2A01G301800 chrUn 85.266 414 57 4 513 923 473157678 473158090 7.720000e-115 424
53 TraesCS2A01G301800 chrUn 85.024 414 58 4 513 923 1035858 1036270 3.590000e-113 418
54 TraesCS2A01G301800 chrUn 85.024 414 58 4 513 923 31389615 31390027 3.590000e-113 418
55 TraesCS2A01G301800 chrUn 85.024 414 58 4 513 923 97984003 97984415 3.590000e-113 418
56 TraesCS2A01G301800 chrUn 85.024 414 58 4 513 923 404517043 404517455 3.590000e-113 418
57 TraesCS2A01G301800 chrUn 85.024 414 57 5 513 923 395405591 395406002 1.290000e-112 416
58 TraesCS2A01G301800 chrUn 93.798 129 8 0 1061 1189 74596251 74596379 6.590000e-46 195
59 TraesCS2A01G301800 chrUn 89.583 96 7 1 971 1063 74596077 74596172 4.080000e-23 119
60 TraesCS2A01G301800 chr4B 85.749 414 55 4 513 923 199715396 199714984 3.560000e-118 435
61 TraesCS2A01G301800 chr4B 85.749 414 55 4 513 923 600206173 600206585 3.560000e-118 435
62 TraesCS2A01G301800 chr6D 85.507 414 56 4 513 923 158356620 158356208 1.660000e-116 429
63 TraesCS2A01G301800 chr6D 85.266 414 57 4 513 923 111664884 111664472 7.720000e-115 424
64 TraesCS2A01G301800 chr6D 85.266 414 57 4 513 923 306494987 306495399 7.720000e-115 424
65 TraesCS2A01G301800 chr6D 85.401 411 56 4 513 920 424819848 424820257 7.720000e-115 424
66 TraesCS2A01G301800 chr6D 84.798 421 60 4 506 923 35699403 35698984 9.980000e-114 420
67 TraesCS2A01G301800 chr6D 94.574 129 7 0 1061 1189 431846490 431846618 1.420000e-47 200
68 TraesCS2A01G301800 chr6D 89.000 100 8 1 967 1063 431846295 431846394 1.130000e-23 121
69 TraesCS2A01G301800 chr6B 93.798 129 8 0 1061 1189 651987505 651987633 6.590000e-46 195
70 TraesCS2A01G301800 chr6B 90.000 100 7 1 967 1063 686467568 686467667 2.440000e-25 126
71 TraesCS2A01G301800 chr6B 87.629 97 9 1 967 1060 651987323 651987419 2.450000e-20 110
72 TraesCS2A01G301800 chr1B 92.000 100 5 1 967 1063 626869790 626869691 1.130000e-28 137


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 TraesCS2A01G301800 chr2A 516824254 516826589 2335 True 4314.000000 4314 100.000 1 2336 1 chr2A.!!$R1 2335
1 TraesCS2A01G301800 chr2D 476393968 476394650 682 True 977.000000 977 92.587 1656 2336 1 chr2D.!!$R1 680
2 TraesCS2A01G301800 chr2D 382445922 382448385 2463 True 839.666667 1659 93.979 1 1655 3 chr2D.!!$R2 1654
3 TraesCS2A01G301800 chr6A 429344676 429345357 681 True 1016.000000 1016 93.723 1660 2336 1 chr6A.!!$R1 676
4 TraesCS2A01G301800 chr6A 429362382 429363070 688 True 989.000000 989 92.764 1656 2336 1 chr6A.!!$R2 680
5 TraesCS2A01G301800 chr1A 306746552 306747235 683 False 1000.000000 1000 93.179 1656 2336 1 chr1A.!!$F2 680
6 TraesCS2A01G301800 chr1A 107911630 107912319 689 True 989.000000 989 92.754 1656 2336 1 chr1A.!!$R1 680
7 TraesCS2A01G301800 chr1D 435475034 435475724 690 True 987.000000 987 92.630 1654 2336 1 chr1D.!!$R6 682
8 TraesCS2A01G301800 chr3A 566048917 566049623 706 False 983.000000 983 91.961 1638 2336 1 chr3A.!!$F1 698
9 TraesCS2A01G301800 chr3A 672428042 672428734 692 False 966.000000 966 92.075 1653 2336 1 chr3A.!!$F2 683
10 TraesCS2A01G301800 chr7A 271103072 271103752 680 True 976.000000 976 92.587 1656 2336 1 chr7A.!!$R1 680
11 TraesCS2A01G301800 chr2B 453236245 453236832 587 True 701.000000 701 88.475 1 578 1 chr2B.!!$R2 577
12 TraesCS2A01G301800 chr5A 379099278 379100188 910 False 610.000000 610 79.440 1192 2087 1 chr5A.!!$F1 895

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
604 1459 0.615331 ACTGTCCCACTATGCACTGG 59.385 55.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1812 2687 0.24912 TTCGGTGCTTGATCGGTCAT 59.751 50.0 0.0 0.0 33.56 3.06 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
43 44 8.347035 TGTATTGTTTTGCAGTTAGTCCTTAAC 58.653 33.333 0.00 0.00 41.64 2.01
48 49 6.870971 TTTGCAGTTAGTCCTTAACGAAAT 57.129 33.333 0.00 0.00 45.14 2.17
56 57 5.927281 AGTCCTTAACGAAATAGTAGCCA 57.073 39.130 0.00 0.00 0.00 4.75
129 130 6.336566 CGAGGATATTACATCATGAAGAGGG 58.663 44.000 4.68 0.00 30.77 4.30
233 234 5.897050 TGATTACAAAGTTCAAAAAGGCGT 58.103 33.333 0.00 0.00 0.00 5.68
266 267 1.886886 TGCGTTTTGGGACCTACTTC 58.113 50.000 0.00 0.00 0.00 3.01
276 277 3.514309 TGGGACCTACTTCTTTGTAGCTC 59.486 47.826 0.00 0.00 38.75 4.09
277 278 3.514309 GGGACCTACTTCTTTGTAGCTCA 59.486 47.826 0.00 0.00 38.75 4.26
295 1127 3.947834 GCTCATTTATGTGTGCCTTAGGT 59.052 43.478 0.00 0.00 33.68 3.08
336 1168 2.522436 ACCGTCCGGACAGGTGAA 60.522 61.111 34.88 0.75 41.99 3.18
339 1171 1.292223 CGTCCGGACAGGTGAACAT 59.708 57.895 32.80 0.00 41.99 2.71
342 1174 1.066143 GTCCGGACAGGTGAACATGAT 60.066 52.381 29.75 0.00 41.99 2.45
498 1348 3.261137 ACAAGTTGAGGTAGGCTAGTTCC 59.739 47.826 10.54 0.00 0.00 3.62
510 1365 2.239907 GGCTAGTTCCTTGGTTCCTCAT 59.760 50.000 0.00 0.00 0.00 2.90
575 1430 4.987285 CCCGATCTCACTTGACATTATCAG 59.013 45.833 0.00 0.00 38.99 2.90
578 1433 5.695363 CGATCTCACTTGACATTATCAGCAT 59.305 40.000 0.00 0.00 38.99 3.79
579 1434 6.346678 CGATCTCACTTGACATTATCAGCATG 60.347 42.308 0.00 0.00 38.99 4.06
593 1448 4.299586 TCAGCATGATTTAACTGTCCCA 57.700 40.909 0.00 0.00 42.56 4.37
594 1449 4.009675 TCAGCATGATTTAACTGTCCCAC 58.990 43.478 0.00 0.00 42.56 4.61
595 1450 4.012374 CAGCATGATTTAACTGTCCCACT 58.988 43.478 0.00 0.00 39.69 4.00
596 1451 5.045942 TCAGCATGATTTAACTGTCCCACTA 60.046 40.000 0.00 0.00 42.56 2.74
597 1452 5.824624 CAGCATGATTTAACTGTCCCACTAT 59.175 40.000 0.00 0.00 39.69 2.12
598 1453 5.824624 AGCATGATTTAACTGTCCCACTATG 59.175 40.000 0.00 0.00 0.00 2.23
599 1454 5.506317 GCATGATTTAACTGTCCCACTATGC 60.506 44.000 0.00 0.00 0.00 3.14
600 1455 5.172687 TGATTTAACTGTCCCACTATGCA 57.827 39.130 0.00 0.00 0.00 3.96
601 1456 4.941263 TGATTTAACTGTCCCACTATGCAC 59.059 41.667 0.00 0.00 0.00 4.57
602 1457 4.634012 TTTAACTGTCCCACTATGCACT 57.366 40.909 0.00 0.00 0.00 4.40
603 1458 2.479566 AACTGTCCCACTATGCACTG 57.520 50.000 0.00 0.00 0.00 3.66
604 1459 0.615331 ACTGTCCCACTATGCACTGG 59.385 55.000 0.00 0.00 0.00 4.00
605 1460 0.904649 CTGTCCCACTATGCACTGGA 59.095 55.000 8.23 0.00 0.00 3.86
635 1490 1.962807 GGCCTGCATTGTATATGCCAA 59.037 47.619 0.00 0.00 43.94 4.52
669 1524 4.222114 CGATGTTGGACAAGCTTCTTTTC 58.778 43.478 0.00 0.00 0.00 2.29
704 1559 5.011125 ACCCCAACTCTATCACGAATATCAG 59.989 44.000 0.00 0.00 0.00 2.90
836 1691 4.218417 GCCACACAACATTCTAGGTCAATT 59.782 41.667 0.00 0.00 0.00 2.32
848 1703 7.743116 TTCTAGGTCAATTGGTGTCCTATAA 57.257 36.000 5.42 8.85 44.09 0.98
849 1704 7.743116 TCTAGGTCAATTGGTGTCCTATAAA 57.257 36.000 5.42 1.04 44.09 1.40
853 1708 5.126545 GGTCAATTGGTGTCCTATAAAACCC 59.873 44.000 5.42 0.00 33.07 4.11
940 1795 3.249189 TCCCTTCCTGGTTGCGCT 61.249 61.111 9.73 0.00 0.00 5.92
949 1804 2.985847 GGTTGCGCTGGCCTTCTT 60.986 61.111 9.73 0.00 38.85 2.52
961 1816 1.073722 CCTTCTTGCAGCTCACCCA 59.926 57.895 0.00 0.00 0.00 4.51
979 1834 2.039137 GAACCTCTCCTCCCCGGT 59.961 66.667 0.00 0.00 0.00 5.28
1037 1892 2.697761 GCGTGAGGCTCTACGTCCA 61.698 63.158 27.54 3.98 41.98 4.02
1038 1893 1.136984 CGTGAGGCTCTACGTCCAC 59.863 63.158 22.65 9.82 35.70 4.02
1085 1940 2.163815 CCAAGTCGAACCAGTACGAGAT 59.836 50.000 0.00 0.00 39.16 2.75
1089 1944 2.161012 GTCGAACCAGTACGAGATGACA 59.839 50.000 0.00 0.00 39.16 3.58
1096 1951 1.335182 AGTACGAGATGACATCGCTGG 59.665 52.381 15.87 5.31 43.91 4.85
1140 1995 0.983378 AGGAGGATGTGGCCTGGTAC 60.983 60.000 3.32 0.00 38.73 3.34
1189 2044 0.823356 GGCCAAGACCAAGAGCAACA 60.823 55.000 0.00 0.00 0.00 3.33
1190 2045 1.032014 GCCAAGACCAAGAGCAACAA 58.968 50.000 0.00 0.00 0.00 2.83
1223 2078 3.425359 GCTTTGACTCGATGGTTCACATG 60.425 47.826 0.00 0.00 40.72 3.21
1318 2181 1.078823 TCAAGGCTAACCCTCTCCTCA 59.921 52.381 0.00 0.00 45.62 3.86
1333 2196 5.777732 CCTCTCCTCATGCCTAGTAGTATTT 59.222 44.000 0.00 0.00 0.00 1.40
1373 2236 7.809806 TGTACTCGGTTTTTAGTTCTACTAAGC 59.190 37.037 0.00 0.00 41.23 3.09
1403 2266 9.810545 AAAAATTTCGATTCCAAAGTTTGTCTA 57.189 25.926 14.36 0.02 32.82 2.59
1404 2267 9.981114 AAAATTTCGATTCCAAAGTTTGTCTAT 57.019 25.926 14.36 4.74 31.65 1.98
1432 2295 6.070366 AGCTCTAACTTTCTATTAAACCCCGT 60.070 38.462 0.00 0.00 0.00 5.28
1443 2306 2.288788 AAACCCCGTCCGACTATCGC 62.289 60.000 0.00 0.00 38.82 4.58
1449 2312 1.726265 GTCCGACTATCGCCGACTT 59.274 57.895 0.00 0.00 38.82 3.01
1462 2325 1.472480 GCCGACTTGCACCACATTATT 59.528 47.619 0.00 0.00 0.00 1.40
1491 2354 4.848660 AGAGCATACACCATGGGATATCTT 59.151 41.667 18.09 3.72 34.97 2.40
1539 2402 7.243604 TCCATCACCAAAGCAAAAAGATAAT 57.756 32.000 0.00 0.00 0.00 1.28
1559 2422 1.423541 TGGCTCAAAGCTGACCCTTTA 59.576 47.619 0.00 0.00 41.99 1.85
1573 2436 5.437060 TGACCCTTTATGCTGTCCTATTTC 58.563 41.667 0.00 0.00 0.00 2.17
1699 2568 1.519408 AAATTTCCTACGCACACGCT 58.481 45.000 0.00 0.00 45.53 5.07
1812 2687 8.391075 TGATGTAGTCATACGTCTTCATGATA 57.609 34.615 0.00 0.00 44.85 2.15
1833 2709 0.389948 GACCGATCAAGCACCGAACT 60.390 55.000 0.00 0.00 0.00 3.01
1885 2769 0.818296 CGTCCCTCAAACTCCGATCT 59.182 55.000 0.00 0.00 0.00 2.75
1993 2878 1.607628 GCTACGATATGACCGAGGTGT 59.392 52.381 0.00 0.00 0.00 4.16
2209 3097 1.484653 GGAGAGGGAAGGAGAAAGAGC 59.515 57.143 0.00 0.00 0.00 4.09
2327 3221 1.002017 CCAATTGGGCCCATGAGGT 59.998 57.895 29.23 6.31 38.26 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 2.146342 CCAGGCATGGCTACTATTTCG 58.854 52.381 22.88 6.73 40.52 3.46
48 49 0.546122 CAACCCAGGCATGGCTACTA 59.454 55.000 22.88 0.00 46.19 1.82
56 57 1.274703 ATCGAGGTCAACCCAGGCAT 61.275 55.000 0.00 0.00 36.42 4.40
129 130 7.336396 TCTTTCAGGAATTAAGTAGCTTACCC 58.664 38.462 0.00 0.00 0.00 3.69
233 234 2.102070 AACGCATATTCAACACCCGA 57.898 45.000 0.00 0.00 0.00 5.14
266 267 5.124457 AGGCACACATAAATGAGCTACAAAG 59.876 40.000 0.00 0.00 0.00 2.77
276 277 4.096382 GGACACCTAAGGCACACATAAATG 59.904 45.833 0.00 0.00 0.00 2.32
277 278 4.270008 GGACACCTAAGGCACACATAAAT 58.730 43.478 0.00 0.00 0.00 1.40
295 1127 0.599558 GTGCAGTACTGTACGGGACA 59.400 55.000 27.84 15.71 42.72 4.02
365 1204 7.568349 TGATATTCCTATATTTGGCTAGCTGG 58.432 38.462 15.72 0.00 0.00 4.85
404 1254 5.633830 AATCTGCAACATAGACAACTTGG 57.366 39.130 0.00 0.00 0.00 3.61
498 1348 6.920758 CGTAAAGAGAGATATGAGGAACCAAG 59.079 42.308 0.00 0.00 0.00 3.61
510 1365 3.488363 GAGGAGCCCGTAAAGAGAGATA 58.512 50.000 0.00 0.00 0.00 1.98
575 1430 5.506317 GCATAGTGGGACAGTTAAATCATGC 60.506 44.000 0.00 0.00 40.27 4.06
578 1433 4.941263 GTGCATAGTGGGACAGTTAAATCA 59.059 41.667 0.00 0.00 40.27 2.57
579 1434 5.065218 CAGTGCATAGTGGGACAGTTAAATC 59.935 44.000 0.00 0.00 40.27 2.17
580 1435 4.943705 CAGTGCATAGTGGGACAGTTAAAT 59.056 41.667 0.00 0.00 40.27 1.40
581 1436 4.323417 CAGTGCATAGTGGGACAGTTAAA 58.677 43.478 0.00 0.00 40.27 1.52
582 1437 3.307410 CCAGTGCATAGTGGGACAGTTAA 60.307 47.826 5.07 0.00 40.27 2.01
583 1438 2.236146 CCAGTGCATAGTGGGACAGTTA 59.764 50.000 5.07 0.00 40.27 2.24
584 1439 1.003580 CCAGTGCATAGTGGGACAGTT 59.996 52.381 5.07 0.00 40.27 3.16
585 1440 1.831290 TCCAGTGCATAGTGGGACAGT 60.831 52.381 11.58 0.00 45.78 3.55
586 1441 0.904649 TCCAGTGCATAGTGGGACAG 59.095 55.000 11.58 0.00 45.78 3.51
587 1442 0.904649 CTCCAGTGCATAGTGGGACA 59.095 55.000 11.58 0.00 45.78 4.02
588 1443 0.462759 GCTCCAGTGCATAGTGGGAC 60.463 60.000 11.58 2.72 45.78 4.46
589 1444 0.618680 AGCTCCAGTGCATAGTGGGA 60.619 55.000 11.58 4.29 45.78 4.37
590 1445 0.254178 AAGCTCCAGTGCATAGTGGG 59.746 55.000 11.58 5.32 45.78 4.61
591 1446 1.209019 AGAAGCTCCAGTGCATAGTGG 59.791 52.381 6.41 6.41 46.90 4.00
592 1447 2.277969 CAGAAGCTCCAGTGCATAGTG 58.722 52.381 0.00 0.00 34.99 2.74
593 1448 1.209019 CCAGAAGCTCCAGTGCATAGT 59.791 52.381 0.00 0.00 34.99 2.12
594 1449 1.483827 TCCAGAAGCTCCAGTGCATAG 59.516 52.381 0.00 0.00 34.99 2.23
595 1450 1.483827 CTCCAGAAGCTCCAGTGCATA 59.516 52.381 0.00 0.00 34.99 3.14
596 1451 0.252479 CTCCAGAAGCTCCAGTGCAT 59.748 55.000 0.00 0.00 34.99 3.96
597 1452 1.675801 CTCCAGAAGCTCCAGTGCA 59.324 57.895 0.00 0.00 34.99 4.57
598 1453 1.078567 CCTCCAGAAGCTCCAGTGC 60.079 63.158 0.00 0.00 0.00 4.40
599 1454 1.078567 GCCTCCAGAAGCTCCAGTG 60.079 63.158 0.00 0.00 0.00 3.66
600 1455 2.297129 GGCCTCCAGAAGCTCCAGT 61.297 63.158 0.00 0.00 0.00 4.00
601 1456 1.994507 AGGCCTCCAGAAGCTCCAG 60.995 63.158 0.00 0.00 0.00 3.86
602 1457 2.123632 AGGCCTCCAGAAGCTCCA 59.876 61.111 0.00 0.00 0.00 3.86
603 1458 2.588989 CAGGCCTCCAGAAGCTCC 59.411 66.667 0.00 0.00 0.00 4.70
604 1459 2.124778 GCAGGCCTCCAGAAGCTC 60.125 66.667 0.00 0.00 0.00 4.09
605 1460 1.860944 AATGCAGGCCTCCAGAAGCT 61.861 55.000 0.00 0.00 0.00 3.74
635 1490 2.567169 TCCAACATCGTCTGAGATGGTT 59.433 45.455 16.20 0.00 45.46 3.67
704 1559 2.044123 AAAGATCAGGTCCGGAATGC 57.956 50.000 5.23 0.00 0.00 3.56
836 1691 1.065272 GGCGGGTTTTATAGGACACCA 60.065 52.381 0.00 0.00 0.00 4.17
848 1703 2.432874 ACAAAAGCTAAAAGGCGGGTTT 59.567 40.909 0.00 0.00 37.29 3.27
849 1704 2.036387 ACAAAAGCTAAAAGGCGGGTT 58.964 42.857 0.00 0.00 37.29 4.11
853 1708 1.269517 TGCCACAAAAGCTAAAAGGCG 60.270 47.619 11.07 0.00 43.35 5.52
940 1795 1.601759 GTGAGCTGCAAGAAGGCCA 60.602 57.895 5.01 0.00 34.07 5.36
949 1804 2.116983 GAGGTTCTGGGTGAGCTGCA 62.117 60.000 1.02 0.00 0.00 4.41
961 1816 2.364961 CCGGGGAGGAGAGGTTCT 59.635 66.667 0.00 0.00 45.00 3.01
990 1845 3.736720 GGTGCATCTCATCATCTTGCTA 58.263 45.455 0.00 0.00 34.47 3.49
1000 1855 2.191375 CTGGCCGGTGCATCTCAT 59.809 61.111 2.29 0.00 40.13 2.90
1037 1892 1.456892 TATCCGAGGATGGTGCCGT 60.457 57.895 14.50 0.00 36.17 5.68
1038 1893 1.006102 GTATCCGAGGATGGTGCCG 60.006 63.158 14.50 0.00 36.17 5.69
1085 1940 0.460811 GATCTGCACCAGCGATGTCA 60.461 55.000 0.00 0.00 46.23 3.58
1089 1944 1.067084 CTCGATCTGCACCAGCGAT 59.933 57.895 1.98 0.00 46.23 4.58
1096 1951 1.899437 TTCACCCCCTCGATCTGCAC 61.899 60.000 0.00 0.00 0.00 4.57
1121 1976 0.983378 GTACCAGGCCACATCCTCCT 60.983 60.000 5.01 0.00 33.25 3.69
1161 2016 1.429930 TGGTCTTGGCCTTGTAGACA 58.570 50.000 21.18 10.58 39.98 3.41
1189 2044 4.160439 TCGAGTCAAAGCTAGATGGATGTT 59.840 41.667 0.00 0.00 0.00 2.71
1190 2045 3.701542 TCGAGTCAAAGCTAGATGGATGT 59.298 43.478 0.00 0.00 0.00 3.06
1223 2078 4.272018 GCATAAGGATGGTGATATCGATGC 59.728 45.833 8.54 0.27 34.35 3.91
1318 2181 5.756833 GTGCGGTTTAAATACTACTAGGCAT 59.243 40.000 0.00 0.00 0.00 4.40
1333 2196 0.961019 AGTACACGAGGTGCGGTTTA 59.039 50.000 0.00 0.00 46.49 2.01
1381 2244 9.226606 TGTATAGACAAACTTTGGAATCGAAAT 57.773 29.630 6.47 0.00 30.68 2.17
1403 2266 9.833917 GGGTTTAATAGAAAGTTAGAGCTGTAT 57.166 33.333 0.00 0.00 0.00 2.29
1404 2267 8.262933 GGGGTTTAATAGAAAGTTAGAGCTGTA 58.737 37.037 0.00 0.00 0.00 2.74
1443 2306 3.190327 TCAAATAATGTGGTGCAAGTCGG 59.810 43.478 0.00 0.00 0.00 4.79
1449 2312 5.221402 TGCTCTTTTCAAATAATGTGGTGCA 60.221 36.000 0.00 0.00 0.00 4.57
1462 2325 3.763360 CCCATGGTGTATGCTCTTTTCAA 59.237 43.478 11.73 0.00 35.37 2.69
1491 2354 5.277250 TGAGGTCACAAGGGATATACAAGA 58.723 41.667 0.00 0.00 0.00 3.02
1559 2422 4.422073 TCCGATTGAAATAGGACAGCAT 57.578 40.909 1.18 0.00 35.61 3.79
1573 2436 3.061295 CGACACTGATGACTTTCCGATTG 59.939 47.826 0.00 0.00 0.00 2.67
1699 2568 4.895668 TGCTATGCATCACCATGATCTA 57.104 40.909 0.19 0.00 34.28 1.98
1812 2687 0.249120 TTCGGTGCTTGATCGGTCAT 59.751 50.000 0.00 0.00 33.56 3.06
1885 2769 0.324368 TCTCCCTCAAAGCTCGGCTA 60.324 55.000 0.00 0.00 38.25 3.93
1932 2816 3.057104 TGTGTCGGTAGAACATCATCGTT 60.057 43.478 0.00 0.00 0.00 3.85
1934 2818 3.108881 CTGTGTCGGTAGAACATCATCG 58.891 50.000 0.00 0.00 0.00 3.84
2121 3008 3.785859 GACTCCTCATGGGGCGCA 61.786 66.667 6.79 6.74 37.32 6.09


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

AutoCloner maintained by Alex Coulton.