Multiple sequence alignment - TraesCS5B01G164700

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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 TraesCS5B01G164700 chr5B 100.000 2665 0 0 1 2665 304662458 304659794 0.000000e+00 4922
1 TraesCS5B01G164700 chr5B 100.000 2400 0 0 3032 5431 304659427 304657028 0.000000e+00 4433
2 TraesCS5B01G164700 chr5B 91.745 957 42 5 4508 5431 51867060 51866108 0.000000e+00 1295
3 TraesCS5B01G164700 chr5B 96.170 235 9 0 5197 5431 38774397 38774163 8.530000e-103 385
4 TraesCS5B01G164700 chr5B 90.741 108 8 1 4400 4507 355618186 355618291 5.670000e-30 143
5 TraesCS5B01G164700 chr5D 96.612 1476 23 2 3032 4507 268937596 268936148 0.000000e+00 2423
6 TraesCS5B01G164700 chr5D 95.439 1140 41 6 1 1137 268940286 268939155 0.000000e+00 1807
7 TraesCS5B01G164700 chr5D 95.609 911 21 8 1102 1994 268939157 268938248 0.000000e+00 1443
8 TraesCS5B01G164700 chr5D 96.019 427 13 3 1980 2406 268938292 268937870 0.000000e+00 691
9 TraesCS5B01G164700 chr5D 85.605 521 66 7 113 628 334017868 334017352 6.190000e-149 538
10 TraesCS5B01G164700 chr5D 85.465 516 73 2 111 625 220679358 220679872 2.230000e-148 536
11 TraesCS5B01G164700 chr5D 99.167 240 2 0 2426 2665 268937881 268937642 3.000000e-117 433
12 TraesCS5B01G164700 chr5D 91.071 112 6 2 4395 4504 558907298 558907407 1.220000e-31 148
13 TraesCS5B01G164700 chr5A 92.280 1386 71 20 3032 4402 357079939 357081303 0.000000e+00 1934
14 TraesCS5B01G164700 chr5A 93.481 813 29 12 756 1544 357077933 357078745 0.000000e+00 1186
15 TraesCS5B01G164700 chr5A 88.542 288 30 2 1676 1963 357079096 357079380 4.030000e-91 346
16 TraesCS5B01G164700 chr5A 87.281 228 7 7 2441 2665 357079685 357079893 1.950000e-59 241
17 TraesCS5B01G164700 chr5A 90.055 181 18 0 2010 2190 357079364 357079544 9.090000e-58 235
18 TraesCS5B01G164700 chr1B 94.510 929 46 5 4507 5431 655347054 655346127 0.000000e+00 1428
19 TraesCS5B01G164700 chr7A 92.219 951 43 18 4508 5431 696873221 696874167 0.000000e+00 1317
20 TraesCS5B01G164700 chr7A 91.798 951 47 19 4508 5431 696942683 696943629 0.000000e+00 1295
21 TraesCS5B01G164700 chr7A 85.742 519 72 2 111 628 61876610 61876093 1.030000e-151 547
22 TraesCS5B01G164700 chr7A 85.714 518 71 3 112 628 700106788 700106273 1.330000e-150 544
23 TraesCS5B01G164700 chr1A 92.008 951 45 12 4508 5431 580532830 580533776 0.000000e+00 1306
24 TraesCS5B01G164700 chr1A 91.588 951 49 12 4508 5431 580546134 580547080 0.000000e+00 1284
25 TraesCS5B01G164700 chr1A 85.038 528 74 4 110 634 292761052 292760527 2.880000e-147 532
26 TraesCS5B01G164700 chr1A 90.654 107 8 1 4398 4504 566098868 566098972 2.040000e-29 141
27 TraesCS5B01G164700 chr6B 92.449 927 48 6 4508 5431 657094813 657095720 0.000000e+00 1304
28 TraesCS5B01G164700 chr6B 92.523 107 6 1 4398 4504 702685309 702685413 9.420000e-33 152
29 TraesCS5B01G164700 chrUn 91.334 877 45 12 4508 5357 390633674 390632802 0.000000e+00 1170
30 TraesCS5B01G164700 chrUn 100.000 387 0 0 3884 4270 480444761 480444375 0.000000e+00 715
31 TraesCS5B01G164700 chrUn 94.379 427 17 5 4592 5015 476676303 476676725 0.000000e+00 649
32 TraesCS5B01G164700 chr3A 95.815 693 26 3 4508 5198 12562375 12561684 0.000000e+00 1116
33 TraesCS5B01G164700 chr3A 88.793 116 11 2 4392 4507 711147124 711147237 2.040000e-29 141
34 TraesCS5B01G164700 chr4D 86.047 516 62 8 111 625 136961812 136961306 3.700000e-151 545
35 TraesCS5B01G164700 chr4D 96.170 235 9 0 5197 5431 471505114 471504880 8.530000e-103 385
36 TraesCS5B01G164700 chr4D 95.745 235 10 0 5197 5431 309699944 309700178 3.970000e-101 379
37 TraesCS5B01G164700 chr4A 85.143 525 74 4 110 633 582847107 582846586 8.010000e-148 534
38 TraesCS5B01G164700 chr4A 95.708 233 10 0 5199 5431 689653556 689653788 5.140000e-100 375
39 TraesCS5B01G164700 chr3B 85.143 525 72 5 113 633 120214603 120214081 2.880000e-147 532
40 TraesCS5B01G164700 chr2B 90.909 110 8 1 4398 4507 385568877 385568770 4.380000e-31 147
41 TraesCS5B01G164700 chr2B 90.654 107 8 1 4401 4507 770679796 770679692 2.040000e-29 141
42 TraesCS5B01G164700 chr7D 90.826 109 8 1 4399 4507 5492211 5492105 1.580000e-30 145


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 TraesCS5B01G164700 chr5B 304657028 304662458 5430 True 4677.5 4922 100.0000 1 5431 2 chr5B.!!$R3 5430
1 TraesCS5B01G164700 chr5B 51866108 51867060 952 True 1295.0 1295 91.7450 4508 5431 1 chr5B.!!$R2 923
2 TraesCS5B01G164700 chr5D 268936148 268940286 4138 True 1359.4 2423 96.5692 1 4507 5 chr5D.!!$R2 4506
3 TraesCS5B01G164700 chr5D 334017352 334017868 516 True 538.0 538 85.6050 113 628 1 chr5D.!!$R1 515
4 TraesCS5B01G164700 chr5D 220679358 220679872 514 False 536.0 536 85.4650 111 625 1 chr5D.!!$F1 514
5 TraesCS5B01G164700 chr5A 357077933 357081303 3370 False 788.4 1934 90.3278 756 4402 5 chr5A.!!$F1 3646
6 TraesCS5B01G164700 chr1B 655346127 655347054 927 True 1428.0 1428 94.5100 4507 5431 1 chr1B.!!$R1 924
7 TraesCS5B01G164700 chr7A 696873221 696874167 946 False 1317.0 1317 92.2190 4508 5431 1 chr7A.!!$F1 923
8 TraesCS5B01G164700 chr7A 696942683 696943629 946 False 1295.0 1295 91.7980 4508 5431 1 chr7A.!!$F2 923
9 TraesCS5B01G164700 chr7A 61876093 61876610 517 True 547.0 547 85.7420 111 628 1 chr7A.!!$R1 517
10 TraesCS5B01G164700 chr7A 700106273 700106788 515 True 544.0 544 85.7140 112 628 1 chr7A.!!$R2 516
11 TraesCS5B01G164700 chr1A 580532830 580533776 946 False 1306.0 1306 92.0080 4508 5431 1 chr1A.!!$F2 923
12 TraesCS5B01G164700 chr1A 580546134 580547080 946 False 1284.0 1284 91.5880 4508 5431 1 chr1A.!!$F3 923
13 TraesCS5B01G164700 chr1A 292760527 292761052 525 True 532.0 532 85.0380 110 634 1 chr1A.!!$R1 524
14 TraesCS5B01G164700 chr6B 657094813 657095720 907 False 1304.0 1304 92.4490 4508 5431 1 chr6B.!!$F1 923
15 TraesCS5B01G164700 chrUn 390632802 390633674 872 True 1170.0 1170 91.3340 4508 5357 1 chrUn.!!$R1 849
16 TraesCS5B01G164700 chr3A 12561684 12562375 691 True 1116.0 1116 95.8150 4508 5198 1 chr3A.!!$R1 690
17 TraesCS5B01G164700 chr4D 136961306 136961812 506 True 545.0 545 86.0470 111 625 1 chr4D.!!$R1 514
18 TraesCS5B01G164700 chr4A 582846586 582847107 521 True 534.0 534 85.1430 110 633 1 chr4A.!!$R1 523
19 TraesCS5B01G164700 chr3B 120214081 120214603 522 True 532.0 532 85.1430 113 633 1 chr3B.!!$R1 520

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
52 53 0.238289 CCACGCACAACATTCACCTC 59.762 55.000 0.0 0.0 0.00 3.85 F
1017 1024 1.202110 TGAGCGAAATACTCCGTCGTC 60.202 52.381 0.0 0.0 37.12 4.20 F
1129 1153 1.287038 TTCTCTCTCCCCGGCCTCTA 61.287 60.000 0.0 0.0 0.00 2.43 F
2347 2671 0.842635 GAGATGAGGGGCAAGGATGT 59.157 55.000 0.0 0.0 0.00 3.06 F
3245 3609 0.804989 GCTAACACGCTCCATGCTTT 59.195 50.000 0.0 0.0 40.11 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2002 2294 0.687920 TGGTGTTCACCCTATTCGCA 59.312 50.000 17.78 0.00 0.0 5.10 R
2347 2671 1.152984 CACCCACAGCAGAACACCA 60.153 57.895 0.00 0.00 0.0 4.17 R
2631 2955 1.963855 CCGTGCCAAACATCCGTGA 60.964 57.895 0.00 0.00 0.0 4.35 R
3247 3611 0.036010 CCGGTGGACTGAGCTCATTT 60.036 55.000 18.63 7.34 0.0 2.32 R
5168 5590 1.034838 GCGCAGAGAGAGGAGAGGAA 61.035 60.000 0.30 0.00 0.0 3.36 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 0.397675 TGTCCGCTCCCATGATCTCT 60.398 55.000 0.00 0.00 0.00 3.10
52 53 0.238289 CCACGCACAACATTCACCTC 59.762 55.000 0.00 0.00 0.00 3.85
75 76 2.888051 CCGTGTGCGTGTGTGTGA 60.888 61.111 0.00 0.00 36.15 3.58
512 517 1.423541 TGCTAGGGATGGTGTTGTTGT 59.576 47.619 0.00 0.00 0.00 3.32
577 582 1.202203 GTGACGTGCGTTTGTACTGA 58.798 50.000 0.00 0.00 0.00 3.41
953 960 8.732227 CAACACAAAACAAAGAACAAAACAAAG 58.268 29.630 0.00 0.00 0.00 2.77
1017 1024 1.202110 TGAGCGAAATACTCCGTCGTC 60.202 52.381 0.00 0.00 37.12 4.20
1107 1131 2.182827 CACCCTTCCTCACATCTCTCA 58.817 52.381 0.00 0.00 0.00 3.27
1129 1153 1.287038 TTCTCTCTCCCCGGCCTCTA 61.287 60.000 0.00 0.00 0.00 2.43
1147 1210 4.458989 CCTCTATCTCTCTGTGGATACTGC 59.541 50.000 0.00 0.00 37.61 4.40
1154 1217 2.232208 CTCTGTGGATACTGCTGTGTCA 59.768 50.000 19.38 7.00 36.25 3.58
1157 1220 2.093500 TGTGGATACTGCTGTGTCATCC 60.093 50.000 19.38 16.64 36.25 3.51
1199 1262 2.366167 ATCCTCCTGGCCTTCGCT 60.366 61.111 3.32 0.00 34.44 4.93
1277 1340 3.329889 ACCAAGATCCTGGCGGCA 61.330 61.111 12.58 12.58 40.45 5.69
1680 1972 6.127083 CCAAATCACCACCCTTATAATTTGCT 60.127 38.462 0.00 0.00 33.46 3.91
1967 2259 6.130298 TGAAAGTGAACACCATACTGTTTG 57.870 37.500 1.11 0.00 34.40 2.93
1977 2269 7.259290 ACACCATACTGTTTGTTTCTAGTTG 57.741 36.000 0.00 0.00 0.00 3.16
1978 2270 6.262273 ACACCATACTGTTTGTTTCTAGTTGG 59.738 38.462 0.00 0.00 32.54 3.77
1979 2271 5.768164 ACCATACTGTTTGTTTCTAGTTGGG 59.232 40.000 0.00 0.00 31.54 4.12
1980 2272 5.768164 CCATACTGTTTGTTTCTAGTTGGGT 59.232 40.000 0.00 0.00 0.00 4.51
1981 2273 6.293955 CCATACTGTTTGTTTCTAGTTGGGTG 60.294 42.308 0.00 0.00 0.00 4.61
1982 2274 4.850680 ACTGTTTGTTTCTAGTTGGGTGA 58.149 39.130 0.00 0.00 0.00 4.02
1983 2275 5.258051 ACTGTTTGTTTCTAGTTGGGTGAA 58.742 37.500 0.00 0.00 0.00 3.18
1984 2276 5.124936 ACTGTTTGTTTCTAGTTGGGTGAAC 59.875 40.000 0.00 0.00 34.40 3.18
1985 2277 5.010933 TGTTTGTTTCTAGTTGGGTGAACA 58.989 37.500 0.00 0.00 36.98 3.18
1986 2278 5.106078 TGTTTGTTTCTAGTTGGGTGAACAC 60.106 40.000 0.00 0.00 36.98 3.32
2090 2382 9.817809 GACATGGACTGACATAAGTAAATCTAA 57.182 33.333 0.00 0.00 0.00 2.10
2263 2562 3.239587 TGTATTTCAACCGCTCATCGA 57.760 42.857 0.00 0.00 41.67 3.59
2347 2671 0.842635 GAGATGAGGGGCAAGGATGT 59.157 55.000 0.00 0.00 0.00 3.06
2394 2718 1.075542 CGCACTTTCACCTATCGCAA 58.924 50.000 0.00 0.00 0.00 4.85
2395 2719 1.463056 CGCACTTTCACCTATCGCAAA 59.537 47.619 0.00 0.00 0.00 3.68
2396 2720 2.095969 CGCACTTTCACCTATCGCAAAA 60.096 45.455 0.00 0.00 0.00 2.44
2397 2721 3.608241 CGCACTTTCACCTATCGCAAAAA 60.608 43.478 0.00 0.00 0.00 1.94
2398 2722 3.668656 GCACTTTCACCTATCGCAAAAAC 59.331 43.478 0.00 0.00 0.00 2.43
2399 2723 4.556699 GCACTTTCACCTATCGCAAAAACT 60.557 41.667 0.00 0.00 0.00 2.66
2400 2724 5.334569 GCACTTTCACCTATCGCAAAAACTA 60.335 40.000 0.00 0.00 0.00 2.24
2401 2725 6.622896 GCACTTTCACCTATCGCAAAAACTAT 60.623 38.462 0.00 0.00 0.00 2.12
2402 2726 7.413657 GCACTTTCACCTATCGCAAAAACTATA 60.414 37.037 0.00 0.00 0.00 1.31
2403 2727 8.116753 CACTTTCACCTATCGCAAAAACTATAG 58.883 37.037 0.00 0.00 0.00 1.31
2404 2728 8.038944 ACTTTCACCTATCGCAAAAACTATAGA 58.961 33.333 6.78 0.00 0.00 1.98
2405 2729 8.958119 TTTCACCTATCGCAAAAACTATAGAT 57.042 30.769 6.78 0.00 0.00 1.98
2406 2730 8.958119 TTCACCTATCGCAAAAACTATAGATT 57.042 30.769 6.78 0.00 0.00 2.40
2407 2731 8.958119 TCACCTATCGCAAAAACTATAGATTT 57.042 30.769 6.78 4.29 0.00 2.17
2408 2732 9.391006 TCACCTATCGCAAAAACTATAGATTTT 57.609 29.630 13.33 13.33 31.50 1.82
2458 2782 4.178545 ACAATACAAGCCACTGAAATGC 57.821 40.909 0.00 0.00 0.00 3.56
2631 2955 4.785511 ACTGCTGTCGTACTAATTCACT 57.214 40.909 0.00 0.00 0.00 3.41
3245 3609 0.804989 GCTAACACGCTCCATGCTTT 59.195 50.000 0.00 0.00 40.11 3.51
3246 3610 1.466360 GCTAACACGCTCCATGCTTTG 60.466 52.381 0.00 0.00 40.11 2.77
3247 3611 2.076100 CTAACACGCTCCATGCTTTGA 58.924 47.619 0.00 0.00 40.11 2.69
3248 3612 1.317613 AACACGCTCCATGCTTTGAA 58.682 45.000 0.00 0.00 40.11 2.69
3249 3613 1.317613 ACACGCTCCATGCTTTGAAA 58.682 45.000 0.00 0.00 40.11 2.69
3250 3614 1.888512 ACACGCTCCATGCTTTGAAAT 59.111 42.857 0.00 0.00 40.11 2.17
3251 3615 2.256174 CACGCTCCATGCTTTGAAATG 58.744 47.619 0.00 0.00 40.11 2.32
3252 3616 2.095110 CACGCTCCATGCTTTGAAATGA 60.095 45.455 0.00 0.00 40.11 2.57
3253 3617 2.163010 ACGCTCCATGCTTTGAAATGAG 59.837 45.455 0.00 0.00 40.11 2.90
3254 3618 2.537401 GCTCCATGCTTTGAAATGAGC 58.463 47.619 0.00 0.00 38.95 4.26
3261 3625 2.816087 TGCTTTGAAATGAGCTCAGTCC 59.184 45.455 22.96 8.24 39.60 3.85
3588 3952 1.569493 CAAAGACAACGGCCTCACG 59.431 57.895 0.00 0.00 40.31 4.35
4409 4781 5.119694 GGAATGTTCTCATGTACTTCCTCC 58.880 45.833 0.00 0.00 34.19 4.30
4414 4786 4.451629 TCTCATGTACTTCCTCCGTTTC 57.548 45.455 0.00 0.00 0.00 2.78
4548 4920 2.632512 CCACATTTGGGGTTAGCTTTGT 59.367 45.455 0.00 0.00 39.57 2.83
4705 5078 1.451449 TACACCCACACCCCTTGATT 58.549 50.000 0.00 0.00 0.00 2.57
5225 5697 1.815421 GCAACGGCGAGATCCACAT 60.815 57.895 16.62 0.00 0.00 3.21
5306 5779 0.107361 TCGCTGATGGTAGACGAGGA 60.107 55.000 0.00 0.00 0.00 3.71
5331 5804 4.134563 CGGTGGAGAAGAAAAGAAAAGGA 58.865 43.478 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 0.465705 GAGATCATGGGAGCGGACAA 59.534 55.000 0.00 0.00 33.76 3.18
29 30 1.361993 GAATGTTGTGCGTGGCCAA 59.638 52.632 7.24 0.00 0.00 4.52
96 97 0.394192 TCACCCAGCTGAGTTCACTG 59.606 55.000 17.39 0.00 0.00 3.66
263 267 1.830408 TTTTCACCCCGGCCAACAG 60.830 57.895 2.24 0.00 0.00 3.16
369 373 1.280998 GGATCGGAGTTTCCCCTGAAA 59.719 52.381 0.00 0.00 38.14 2.69
371 375 0.042731 AGGATCGGAGTTTCCCCTGA 59.957 55.000 0.00 0.00 31.13 3.86
436 441 2.114411 GTGGGTTTCAAGGCGGGA 59.886 61.111 0.00 0.00 0.00 5.14
437 442 3.361977 CGTGGGTTTCAAGGCGGG 61.362 66.667 0.00 0.00 0.00 6.13
953 960 0.687354 TGTCCCTCTTCTCAACTGGC 59.313 55.000 0.00 0.00 0.00 4.85
1107 1131 1.458588 GGCCGGGGAGAGAGAAGAT 60.459 63.158 2.18 0.00 0.00 2.40
1129 1153 3.384146 CACAGCAGTATCCACAGAGAGAT 59.616 47.826 0.00 0.00 0.00 2.75
1147 1210 1.430632 GCCATTGCGGATGACACAG 59.569 57.895 1.75 0.00 38.03 3.66
1680 1972 2.287849 CGCAGCAGAGAGAAATCGGATA 60.288 50.000 0.00 0.00 0.00 2.59
1967 2259 3.547746 TGGTGTTCACCCAACTAGAAAC 58.452 45.455 17.78 0.00 35.79 2.78
1977 2269 5.784578 AAAAAGAAGTATGGTGTTCACCC 57.215 39.130 17.78 4.41 0.00 4.61
1998 2290 3.004944 GGTGTTCACCCTATTCGCAAAAA 59.995 43.478 10.56 0.00 0.00 1.94
1999 2291 2.554893 GGTGTTCACCCTATTCGCAAAA 59.445 45.455 10.56 0.00 0.00 2.44
2000 2292 2.156098 GGTGTTCACCCTATTCGCAAA 58.844 47.619 10.56 0.00 0.00 3.68
2001 2293 1.072489 TGGTGTTCACCCTATTCGCAA 59.928 47.619 17.78 0.00 0.00 4.85
2002 2294 0.687920 TGGTGTTCACCCTATTCGCA 59.312 50.000 17.78 0.00 0.00 5.10
2003 2295 2.038387 ATGGTGTTCACCCTATTCGC 57.962 50.000 17.78 0.00 0.00 4.70
2004 2296 4.402056 AGTATGGTGTTCACCCTATTCG 57.598 45.455 17.78 0.00 0.00 3.34
2005 2297 7.562135 TCTTAAGTATGGTGTTCACCCTATTC 58.438 38.462 17.78 5.46 0.00 1.75
2006 2298 7.504926 TCTTAAGTATGGTGTTCACCCTATT 57.495 36.000 17.78 7.75 0.00 1.73
2007 2299 7.691993 ATCTTAAGTATGGTGTTCACCCTAT 57.308 36.000 17.78 9.20 0.00 2.57
2008 2300 7.620491 TGTATCTTAAGTATGGTGTTCACCCTA 59.380 37.037 17.78 10.51 0.00 3.53
2009 2301 6.442564 TGTATCTTAAGTATGGTGTTCACCCT 59.557 38.462 17.78 11.44 0.00 4.34
2143 2436 8.647143 ACAATTTATGTTGGTTTTCTCAGTTG 57.353 30.769 0.00 0.00 40.06 3.16
2235 2528 6.559810 TGAGCGGTTGAAATACATATTTTGG 58.440 36.000 0.00 0.00 36.13 3.28
2263 2562 4.481072 AGCATCGGTTTAGATAGTAGGGT 58.519 43.478 0.00 0.00 0.00 4.34
2347 2671 1.152984 CACCCACAGCAGAACACCA 60.153 57.895 0.00 0.00 0.00 4.17
2424 2748 9.706691 GTGGCTTGTATTGTATCTATAGCTTTA 57.293 33.333 0.00 0.00 0.00 1.85
2631 2955 1.963855 CCGTGCCAAACATCCGTGA 60.964 57.895 0.00 0.00 0.00 4.35
3178 3532 9.445786 CGACACTTTTGTTTACATGTAATCTTT 57.554 29.630 18.69 0.00 35.47 2.52
3179 3533 7.589954 GCGACACTTTTGTTTACATGTAATCTT 59.410 33.333 18.69 0.00 35.47 2.40
3180 3534 7.075741 GCGACACTTTTGTTTACATGTAATCT 58.924 34.615 18.69 1.25 35.47 2.40
3181 3535 6.031003 CGCGACACTTTTGTTTACATGTAATC 59.969 38.462 18.69 17.47 35.47 1.75
3182 3536 5.849081 CGCGACACTTTTGTTTACATGTAAT 59.151 36.000 18.69 0.80 35.47 1.89
3183 3537 5.006455 TCGCGACACTTTTGTTTACATGTAA 59.994 36.000 14.35 14.35 35.47 2.41
3184 3538 4.507021 TCGCGACACTTTTGTTTACATGTA 59.493 37.500 3.71 0.08 35.47 2.29
3185 3539 3.310227 TCGCGACACTTTTGTTTACATGT 59.690 39.130 3.71 2.69 35.47 3.21
3186 3540 3.867665 TCGCGACACTTTTGTTTACATG 58.132 40.909 3.71 0.00 35.47 3.21
3187 3541 4.539509 TTCGCGACACTTTTGTTTACAT 57.460 36.364 9.15 0.00 35.47 2.29
3188 3542 4.337985 TTTCGCGACACTTTTGTTTACA 57.662 36.364 9.15 0.00 35.47 2.41
3245 3609 1.338105 CGGTGGACTGAGCTCATTTCA 60.338 52.381 18.63 14.42 0.00 2.69
3246 3610 1.363744 CGGTGGACTGAGCTCATTTC 58.636 55.000 18.63 16.10 0.00 2.17
3247 3611 0.036010 CCGGTGGACTGAGCTCATTT 60.036 55.000 18.63 7.34 0.00 2.32
3248 3612 1.599047 CCGGTGGACTGAGCTCATT 59.401 57.895 18.63 12.37 0.00 2.57
3249 3613 2.362369 CCCGGTGGACTGAGCTCAT 61.362 63.158 18.63 7.64 0.00 2.90
3250 3614 2.997315 CCCGGTGGACTGAGCTCA 60.997 66.667 17.19 17.19 0.00 4.26
3251 3615 2.680352 TCCCGGTGGACTGAGCTC 60.680 66.667 6.82 6.82 35.03 4.09
3549 3913 3.000080 CTCGTTGAGCGTGCGGAAC 62.000 63.158 0.00 0.56 42.13 3.62
3573 3937 3.575351 GAGCGTGAGGCCGTTGTCT 62.575 63.158 0.00 0.00 45.17 3.41
3588 3952 3.760035 TCGACGGGGCAGAAGAGC 61.760 66.667 0.00 0.00 0.00 4.09
3768 4132 0.447011 GCACGTCGTAGCTGTAGTCT 59.553 55.000 0.00 0.00 0.00 3.24
3882 4246 2.155279 GGCTTCAAGAACTTGGAGACC 58.845 52.381 22.41 18.34 46.37 3.85
4431 4803 9.126151 TGTTGTAGTCCATTTGAAATGTCTAAA 57.874 29.630 15.93 10.39 0.00 1.85
4432 4804 8.684386 TGTTGTAGTCCATTTGAAATGTCTAA 57.316 30.769 15.93 4.89 0.00 2.10
4433 4805 8.862325 ATGTTGTAGTCCATTTGAAATGTCTA 57.138 30.769 15.93 13.97 0.00 2.59
4504 4876 3.953612 TGGTTTTCTGCAATTCACTCAGT 59.046 39.130 0.00 0.00 0.00 3.41
4705 5078 5.296748 GGGCTGATTGCTTTTCTGTTTTAA 58.703 37.500 0.00 0.00 42.39 1.52
5166 5588 1.402787 GCAGAGAGAGGAGAGGAAGG 58.597 60.000 0.00 0.00 0.00 3.46
5168 5590 1.034838 GCGCAGAGAGAGGAGAGGAA 61.035 60.000 0.30 0.00 0.00 3.36
5206 5678 2.434185 GTGGATCTCGCCGTTGCA 60.434 61.111 0.00 0.00 37.32 4.08
5209 5681 1.144057 GGATGTGGATCTCGCCGTT 59.856 57.895 0.00 0.00 0.00 4.44
5225 5697 2.033448 GACGTGGGTTGCCATGGA 59.967 61.111 18.40 0.00 0.00 3.41
5238 5710 4.446413 GGCCGGGATTGACGACGT 62.446 66.667 2.18 0.00 0.00 4.34
5291 5764 0.738975 CGCTTCCTCGTCTACCATCA 59.261 55.000 0.00 0.00 0.00 3.07
5306 5779 2.930826 TCTTTTCTTCTCCACCGCTT 57.069 45.000 0.00 0.00 0.00 4.68
5331 5804 3.012959 TGTCTACCATCTCCTTCCTCCTT 59.987 47.826 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.