Multiple sequence alignment - TraesCS2B01G134700

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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 TraesCS2B01G134700 chr2B 100.000 5047 0 0 1 5047 101238143 101233097 0.000000e+00 9321
1 TraesCS2B01G134700 chr2B 93.774 1590 70 13 2400 3980 101072890 101074459 0.000000e+00 2361
2 TraesCS2B01G134700 chr2B 97.164 811 17 4 4238 5047 31395272 31396077 0.000000e+00 1365
3 TraesCS2B01G134700 chr2B 90.850 765 69 1 3024 3787 101418970 101418206 0.000000e+00 1024
4 TraesCS2B01G134700 chr2B 90.588 765 71 1 3024 3787 101451888 101451124 0.000000e+00 1013
5 TraesCS2B01G134700 chr2B 90.327 765 72 2 3024 3787 101432871 101432108 0.000000e+00 1002
6 TraesCS2B01G134700 chr2B 86.312 526 44 12 2394 2908 101452475 101451967 9.550000e-152 547
7 TraesCS2B01G134700 chr2B 83.752 517 49 11 2394 2908 101419532 101419049 1.660000e-124 457
8 TraesCS2B01G134700 chr2B 83.939 523 36 13 2394 2908 101433432 101432950 1.660000e-124 457
9 TraesCS2B01G134700 chr2B 92.035 113 6 3 1 110 557996471 557996359 6.770000e-34 156
10 TraesCS2B01G134700 chr2D 96.423 3411 65 13 871 4238 65267475 65264079 0.000000e+00 5570
11 TraesCS2B01G134700 chr2D 94.092 1591 69 7 2400 3983 64732334 64733906 0.000000e+00 2394
12 TraesCS2B01G134700 chr2D 87.313 1403 117 27 2414 3787 69148936 69150306 0.000000e+00 1548
13 TraesCS2B01G134700 chr2D 87.362 997 90 16 2394 3365 68903119 68902134 0.000000e+00 1110
14 TraesCS2B01G134700 chr2D 96.905 517 11 4 1 515 65314445 65313932 0.000000e+00 861
15 TraesCS2B01G134700 chr2D 92.706 425 31 0 3363 3787 68888185 68887761 9.290000e-172 614
16 TraesCS2B01G134700 chr2D 93.566 373 9 3 511 875 65268054 65267689 4.440000e-150 542
17 TraesCS2B01G134700 chr2D 74.390 410 93 11 119 522 341451903 341451500 1.120000e-36 165
18 TraesCS2B01G134700 chr4B 97.411 811 19 2 4238 5047 652287570 652286761 0.000000e+00 1380
19 TraesCS2B01G134700 chr4B 81.056 549 79 19 115 646 21947389 21946849 1.010000e-111 414
20 TraesCS2B01G134700 chr1B 97.294 813 21 1 4236 5047 328146983 328146171 0.000000e+00 1378
21 TraesCS2B01G134700 chr1B 97.048 813 22 2 4236 5047 369641821 369642632 0.000000e+00 1367
22 TraesCS2B01G134700 chr1B 96.794 811 25 1 4238 5047 665101626 665102436 0.000000e+00 1352
23 TraesCS2B01G134700 chr1B 75.872 344 67 15 307 637 537379330 537379670 1.450000e-35 161
24 TraesCS2B01G134700 chr3B 97.048 813 23 1 4236 5047 26856629 26857441 0.000000e+00 1367
25 TraesCS2B01G134700 chr3B 89.076 119 10 3 1 116 21170898 21170780 1.460000e-30 145
26 TraesCS2B01G134700 chr7B 96.687 815 25 2 4234 5047 675629206 675630019 0.000000e+00 1354
27 TraesCS2B01G134700 chr7B 80.892 471 69 15 115 575 354406221 354406680 8.040000e-93 351
28 TraesCS2B01G134700 chr7B 74.487 439 82 27 127 553 258870088 258870508 4.040000e-36 163
29 TraesCS2B01G134700 chr7B 91.525 118 9 1 1 117 63947954 63947837 1.450000e-35 161
30 TraesCS2B01G134700 chr7B 76.431 297 58 11 360 646 685169326 685169032 3.150000e-32 150
31 TraesCS2B01G134700 chr5B 96.794 811 24 2 4238 5047 387151394 387150585 0.000000e+00 1352
32 TraesCS2B01G134700 chr6A 96.675 812 26 1 4236 5047 4555214 4556024 0.000000e+00 1349
33 TraesCS2B01G134700 chr6A 89.076 119 11 2 1 117 109048400 109048518 4.070000e-31 147
34 TraesCS2B01G134700 chr2A 92.971 626 44 0 3162 3787 65702505 65701880 0.000000e+00 913
35 TraesCS2B01G134700 chr2A 83.960 798 70 24 2394 3164 65703546 65702780 0.000000e+00 712
36 TraesCS2B01G134700 chr2A 73.805 481 98 25 183 646 123218612 123218143 1.120000e-36 165
37 TraesCS2B01G134700 chr2A 73.198 541 108 32 119 637 625486518 625485993 1.450000e-35 161
38 TraesCS2B01G134700 chr2A 87.500 120 11 4 1 117 469223990 469224108 8.810000e-28 135
39 TraesCS2B01G134700 chr7D 80.220 546 79 24 115 646 351456139 351455609 2.850000e-102 383
40 TraesCS2B01G134700 chr7A 77.578 446 79 14 213 646 412006062 412005626 3.020000e-62 250
41 TraesCS2B01G134700 chr6B 75.053 469 88 23 115 572 436831044 436830594 1.850000e-44 191
42 TraesCS2B01G134700 chr6D 73.126 547 116 27 119 646 449796670 449796136 3.130000e-37 167
43 TraesCS2B01G134700 chr6D 92.857 112 6 2 1 110 63336703 63336592 1.450000e-35 161
44 TraesCS2B01G134700 chr3A 74.253 435 90 19 127 553 441629728 441630148 4.040000e-36 163
45 TraesCS2B01G134700 chr4D 90.756 119 10 1 1 118 111036393 111036275 1.880000e-34 158
46 TraesCS2B01G134700 chr4D 87.500 120 12 3 1 117 233108317 233108198 8.810000e-28 135
47 TraesCS2B01G134700 chr3D 75.350 357 67 19 307 646 314321699 314322051 8.750000e-33 152


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 TraesCS2B01G134700 chr2B 101233097 101238143 5046 True 9321.0 9321 100.0000 1 5047 1 chr2B.!!$R1 5046
1 TraesCS2B01G134700 chr2B 101072890 101074459 1569 False 2361.0 2361 93.7740 2400 3980 1 chr2B.!!$F2 1580
2 TraesCS2B01G134700 chr2B 31395272 31396077 805 False 1365.0 1365 97.1640 4238 5047 1 chr2B.!!$F1 809
3 TraesCS2B01G134700 chr2B 101451124 101452475 1351 True 780.0 1013 88.4500 2394 3787 2 chr2B.!!$R5 1393
4 TraesCS2B01G134700 chr2B 101418206 101419532 1326 True 740.5 1024 87.3010 2394 3787 2 chr2B.!!$R3 1393
5 TraesCS2B01G134700 chr2B 101432108 101433432 1324 True 729.5 1002 87.1330 2394 3787 2 chr2B.!!$R4 1393
6 TraesCS2B01G134700 chr2D 65264079 65268054 3975 True 3056.0 5570 94.9945 511 4238 2 chr2D.!!$R5 3727
7 TraesCS2B01G134700 chr2D 64732334 64733906 1572 False 2394.0 2394 94.0920 2400 3983 1 chr2D.!!$F1 1583
8 TraesCS2B01G134700 chr2D 69148936 69150306 1370 False 1548.0 1548 87.3130 2414 3787 1 chr2D.!!$F2 1373
9 TraesCS2B01G134700 chr2D 68902134 68903119 985 True 1110.0 1110 87.3620 2394 3365 1 chr2D.!!$R3 971
10 TraesCS2B01G134700 chr2D 65313932 65314445 513 True 861.0 861 96.9050 1 515 1 chr2D.!!$R1 514
11 TraesCS2B01G134700 chr4B 652286761 652287570 809 True 1380.0 1380 97.4110 4238 5047 1 chr4B.!!$R2 809
12 TraesCS2B01G134700 chr4B 21946849 21947389 540 True 414.0 414 81.0560 115 646 1 chr4B.!!$R1 531
13 TraesCS2B01G134700 chr1B 328146171 328146983 812 True 1378.0 1378 97.2940 4236 5047 1 chr1B.!!$R1 811
14 TraesCS2B01G134700 chr1B 369641821 369642632 811 False 1367.0 1367 97.0480 4236 5047 1 chr1B.!!$F1 811
15 TraesCS2B01G134700 chr1B 665101626 665102436 810 False 1352.0 1352 96.7940 4238 5047 1 chr1B.!!$F3 809
16 TraesCS2B01G134700 chr3B 26856629 26857441 812 False 1367.0 1367 97.0480 4236 5047 1 chr3B.!!$F1 811
17 TraesCS2B01G134700 chr7B 675629206 675630019 813 False 1354.0 1354 96.6870 4234 5047 1 chr7B.!!$F3 813
18 TraesCS2B01G134700 chr5B 387150585 387151394 809 True 1352.0 1352 96.7940 4238 5047 1 chr5B.!!$R1 809
19 TraesCS2B01G134700 chr6A 4555214 4556024 810 False 1349.0 1349 96.6750 4236 5047 1 chr6A.!!$F1 811
20 TraesCS2B01G134700 chr2A 65701880 65703546 1666 True 812.5 913 88.4655 2394 3787 2 chr2A.!!$R3 1393
21 TraesCS2B01G134700 chr7D 351455609 351456139 530 True 383.0 383 80.2200 115 646 1 chr7D.!!$R1 531

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
800 811 0.107643 TGATGCGAACCAACCTGTGA 59.892 50.000 0.0 0.0 0.0 3.58 F
1492 1722 0.547954 GGTTCCAGTCCCTCCTCCTT 60.548 60.000 0.0 0.0 0.0 3.36 F
1787 2017 0.677731 TTCGAAGCCATGGAAGCCTG 60.678 55.000 18.4 0.0 0.0 4.85 F
3233 3879 1.220749 GCCATTACAGCGGAGGACA 59.779 57.895 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2236 2466 0.390866 CTGCCACGAGACTGCATCTT 60.391 55.0 0.00 0.0 38.00 2.40 R
2338 2592 0.750546 TGCTTCAGATCCATGGCTGC 60.751 55.0 6.96 0.0 32.27 5.25 R
3445 4091 2.624316 CGTGAAGCAAGCATCACAAT 57.376 45.0 24.36 0.0 42.61 2.71 R
4759 5444 0.320771 GAGCGAGCAAGAAGACCCAA 60.321 55.0 0.00 0.0 0.00 4.12 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
35 36 5.106634 TGCAAGTAATTTTCATGCCATTTGC 60.107 36.000 1.63 0.00 38.07 3.68
209 211 2.611974 AATTGCTTGGTTTAGCGTCG 57.388 45.000 0.00 0.00 44.18 5.12
449 451 5.109210 TGATCAAGAACATGTTAGGTAGCG 58.891 41.667 11.95 0.00 0.00 4.26
452 454 5.302360 TCAAGAACATGTTAGGTAGCGTTT 58.698 37.500 11.95 0.00 0.00 3.60
492 495 7.207383 TGTTTATCATTACCTACTCATGGACG 58.793 38.462 0.00 0.00 0.00 4.79
637 648 2.447244 AGTTAGTGCTCTGTGTCAGC 57.553 50.000 0.00 0.00 37.40 4.26
798 809 0.179032 TGTGATGCGAACCAACCTGT 60.179 50.000 0.00 0.00 0.00 4.00
799 810 0.238289 GTGATGCGAACCAACCTGTG 59.762 55.000 0.00 0.00 0.00 3.66
800 811 0.107643 TGATGCGAACCAACCTGTGA 59.892 50.000 0.00 0.00 0.00 3.58
801 812 1.271325 TGATGCGAACCAACCTGTGAT 60.271 47.619 0.00 0.00 0.00 3.06
802 813 1.812571 GATGCGAACCAACCTGTGATT 59.187 47.619 0.00 0.00 0.00 2.57
803 814 1.686355 TGCGAACCAACCTGTGATTT 58.314 45.000 0.00 0.00 0.00 2.17
804 815 1.336440 TGCGAACCAACCTGTGATTTG 59.664 47.619 0.00 0.00 0.00 2.32
830 841 3.300388 TGAATAGCCAGGAGGACAGTAG 58.700 50.000 0.00 0.00 36.89 2.57
835 846 3.725634 AGCCAGGAGGACAGTAGTATTT 58.274 45.455 0.00 0.00 36.89 1.40
837 848 3.707102 GCCAGGAGGACAGTAGTATTTCT 59.293 47.826 0.00 0.00 36.89 2.52
866 877 5.160699 TCAAGTCGCATATTTGAGATTGC 57.839 39.130 0.00 0.00 34.06 3.56
955 1184 6.357367 GGGACATATGAGTGGTCATTTTACT 58.643 40.000 10.38 0.00 40.84 2.24
956 1185 6.828785 GGGACATATGAGTGGTCATTTTACTT 59.171 38.462 10.38 0.00 40.84 2.24
957 1186 7.339466 GGGACATATGAGTGGTCATTTTACTTT 59.661 37.037 10.38 0.00 40.84 2.66
958 1187 8.739972 GGACATATGAGTGGTCATTTTACTTTT 58.260 33.333 10.38 0.00 40.84 2.27
1052 1281 3.323775 TGGGAGGAACCTTAAGTTGAGT 58.676 45.455 0.97 0.00 39.40 3.41
1060 1289 5.049612 GGAACCTTAAGTTGAGTTCTTTCCG 60.050 44.000 16.77 0.00 39.40 4.30
1382 1612 1.846712 TTGGATGGTGGTGGCGATGA 61.847 55.000 0.00 0.00 0.00 2.92
1383 1613 1.524621 GGATGGTGGTGGCGATGAG 60.525 63.158 0.00 0.00 0.00 2.90
1405 1635 1.070445 GAGGATGCGATGGACAGGG 59.930 63.158 0.00 0.00 0.00 4.45
1406 1636 2.111878 GGATGCGATGGACAGGGG 59.888 66.667 0.00 0.00 0.00 4.79
1492 1722 0.547954 GGTTCCAGTCCCTCCTCCTT 60.548 60.000 0.00 0.00 0.00 3.36
1709 1939 5.817296 TGGAATATGTATCAGTTGTGAGTGC 59.183 40.000 0.00 0.00 35.66 4.40
1728 1958 3.557595 GTGCTATTTTGGATGACCTCGAG 59.442 47.826 5.13 5.13 37.04 4.04
1787 2017 0.677731 TTCGAAGCCATGGAAGCCTG 60.678 55.000 18.40 0.00 0.00 4.85
1994 2224 1.639635 GGTGCCCATGAGGATGAGGT 61.640 60.000 0.00 0.00 38.24 3.85
2064 2294 1.341080 TAGACGACGGGGAAAAGGTT 58.659 50.000 0.00 0.00 0.00 3.50
2070 2300 1.977009 CGGGGAAAAGGTTGAGGCC 60.977 63.158 0.00 0.00 0.00 5.19
2188 2418 2.564062 CAGTTGATTGGTCCATTGCCTT 59.436 45.455 0.00 0.00 0.00 4.35
2205 2435 2.873245 GCCTTGTGAGACTGAGATGCAA 60.873 50.000 0.00 0.00 0.00 4.08
2294 2548 1.475213 GGGTCATAAGAAGGGGAAGCG 60.475 57.143 0.00 0.00 0.00 4.68
2300 2554 3.771160 GAAGGGGAAGCGCGGAGA 61.771 66.667 8.83 0.00 0.00 3.71
2317 2571 2.044650 ATTGTGCTGCGGCTCCAT 60.045 55.556 20.27 9.79 39.59 3.41
2338 2592 2.946346 GCAAGGCCCCAACACCATG 61.946 63.158 0.00 0.00 0.00 3.66
2388 2642 3.841643 CTCCAATGAATCCAAACTGTGC 58.158 45.455 0.00 0.00 0.00 4.57
2803 3100 1.340893 TGGCCATTGTCTGTGTATGGG 60.341 52.381 0.00 0.00 39.36 4.00
3168 3814 4.058817 ACTTTGAAACCGAGCTAAGAGTG 58.941 43.478 0.00 0.00 0.00 3.51
3233 3879 1.220749 GCCATTACAGCGGAGGACA 59.779 57.895 0.00 0.00 0.00 4.02
3780 4426 4.489771 GCGGTCAGTGGGATGGGG 62.490 72.222 0.00 0.00 0.00 4.96
4182 4866 1.290639 GCGAGTAGCCATAGCCTCC 59.709 63.158 0.00 0.00 41.25 4.30
4183 4867 1.464376 GCGAGTAGCCATAGCCTCCA 61.464 60.000 0.00 0.00 41.25 3.86
4184 4868 1.261480 CGAGTAGCCATAGCCTCCAT 58.739 55.000 0.00 0.00 41.25 3.41
4185 4869 1.620819 CGAGTAGCCATAGCCTCCATT 59.379 52.381 0.00 0.00 41.25 3.16
4186 4870 2.353208 CGAGTAGCCATAGCCTCCATTC 60.353 54.545 0.00 0.00 41.25 2.67
4283 4967 0.178068 AGGACGCATACAAATCGCCT 59.822 50.000 0.00 0.00 0.00 5.52
4285 4969 1.400494 GGACGCATACAAATCGCCTTT 59.600 47.619 0.00 0.00 0.00 3.11
4375 5060 3.754586 TTGGCCCACTTTGCAGCCT 62.755 57.895 12.97 0.00 45.94 4.58
4759 5444 6.530120 TGTAGTATGGTTCAGTGTCAAACAT 58.470 36.000 1.22 1.22 0.00 2.71
4831 5516 6.487668 CAGCAAGTCATCATATCCCACATTTA 59.512 38.462 0.00 0.00 0.00 1.40
4925 5610 0.255318 CATCCTTCCTGCAAGCCTCT 59.745 55.000 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 3.934068 AGAGTTTACATAACACCCCACG 58.066 45.455 0.00 0.00 0.00 4.94
209 211 7.856145 AAGATATCAAGTCATGAACAACTCC 57.144 36.000 5.32 0.00 42.54 3.85
311 313 9.547753 TGCAAGTAAACAATTATTGCCTTTTAA 57.452 25.926 4.68 0.00 44.30 1.52
312 314 9.717942 ATGCAAGTAAACAATTATTGCCTTTTA 57.282 25.926 4.68 0.65 44.30 1.52
315 317 7.385267 TCATGCAAGTAAACAATTATTGCCTT 58.615 30.769 4.68 1.89 44.30 4.35
316 318 6.934056 TCATGCAAGTAAACAATTATTGCCT 58.066 32.000 4.68 0.00 44.30 4.75
317 319 7.775397 ATCATGCAAGTAAACAATTATTGCC 57.225 32.000 4.68 0.00 44.30 4.52
318 320 8.658609 ACAATCATGCAAGTAAACAATTATTGC 58.341 29.630 4.68 1.44 44.97 3.56
492 495 4.772886 TCCCCAAGCTTAATTCCTACTC 57.227 45.455 0.00 0.00 0.00 2.59
798 809 5.508567 TCCTGGCTATTCAATCACAAATCA 58.491 37.500 0.00 0.00 0.00 2.57
799 810 5.009410 CCTCCTGGCTATTCAATCACAAATC 59.991 44.000 0.00 0.00 0.00 2.17
800 811 4.891756 CCTCCTGGCTATTCAATCACAAAT 59.108 41.667 0.00 0.00 0.00 2.32
801 812 4.018506 TCCTCCTGGCTATTCAATCACAAA 60.019 41.667 0.00 0.00 0.00 2.83
802 813 3.523157 TCCTCCTGGCTATTCAATCACAA 59.477 43.478 0.00 0.00 0.00 3.33
803 814 3.114606 TCCTCCTGGCTATTCAATCACA 58.885 45.455 0.00 0.00 0.00 3.58
804 815 3.118261 TGTCCTCCTGGCTATTCAATCAC 60.118 47.826 0.00 0.00 0.00 3.06
837 848 4.215185 TCAAATATGCGACTTGAACTGCAA 59.785 37.500 0.00 0.00 41.22 4.08
866 877 1.069227 GTTTAAGTCCGGTGCAAGCAG 60.069 52.381 0.00 0.00 0.00 4.24
930 1159 3.864789 AATGACCACTCATATGTCCCC 57.135 47.619 1.90 0.00 35.96 4.81
968 1197 5.169295 ACGAGTAAAATGACCACTAGCTTC 58.831 41.667 0.00 0.00 0.00 3.86
1042 1271 5.054477 CCAGTCGGAAAGAACTCAACTTAA 58.946 41.667 0.00 0.00 0.00 1.85
1126 1356 2.592993 CCCTCGCCTCACTTTCCCA 61.593 63.158 0.00 0.00 0.00 4.37
1263 1493 2.911143 CCACGAGGATGGGGAAGG 59.089 66.667 0.00 0.00 35.95 3.46
1264 1494 1.987807 ATGCCACGAGGATGGGGAAG 61.988 60.000 1.86 0.00 40.43 3.46
1265 1495 2.000701 ATGCCACGAGGATGGGGAA 61.001 57.895 1.86 0.00 40.43 3.97
1382 1612 3.933722 CCATCGCATCCTCCGCCT 61.934 66.667 0.00 0.00 0.00 5.52
1383 1613 3.928779 TCCATCGCATCCTCCGCC 61.929 66.667 0.00 0.00 0.00 6.13
1386 1616 1.070445 CCTGTCCATCGCATCCTCC 59.930 63.158 0.00 0.00 0.00 4.30
1402 1632 2.242043 CAAGACAACAGATTTGCCCCT 58.758 47.619 0.00 0.00 0.00 4.79
1405 1635 2.229784 CCTCCAAGACAACAGATTTGCC 59.770 50.000 0.00 0.00 0.00 4.52
1406 1636 3.149196 TCCTCCAAGACAACAGATTTGC 58.851 45.455 0.00 0.00 0.00 3.68
1492 1722 0.250234 CCCTTCTTCATGCCGTGAGA 59.750 55.000 0.00 0.00 38.29 3.27
1514 1744 0.391263 GATGACCGGACCCTTGTGAC 60.391 60.000 9.46 0.00 0.00 3.67
1709 1939 2.797156 CGCTCGAGGTCATCCAAAATAG 59.203 50.000 15.58 0.00 35.89 1.73
1728 1958 3.185391 CCTTCTGTTTCTCTCTGTTTCGC 59.815 47.826 0.00 0.00 0.00 4.70
2009 2239 6.822676 AGACAAGTCCAAATTTTTGAAATGCA 59.177 30.769 7.21 0.00 40.55 3.96
2070 2300 1.005748 TTCAGACTGCTGCGTCCTG 60.006 57.895 16.83 12.63 42.01 3.86
2083 2313 6.657966 TCAGGTCGACTAGAAATAACTTCAGA 59.342 38.462 16.46 0.00 36.40 3.27
2205 2435 0.673644 CGCGGGGAAGTTGTTGAGAT 60.674 55.000 0.00 0.00 0.00 2.75
2236 2466 0.390866 CTGCCACGAGACTGCATCTT 60.391 55.000 0.00 0.00 38.00 2.40
2294 2548 3.869272 CCGCAGCACAATCTCCGC 61.869 66.667 0.00 0.00 0.00 5.54
2300 2554 2.044650 ATGGAGCCGCAGCACAAT 60.045 55.556 0.00 0.00 43.56 2.71
2317 2571 2.203480 GTGTTGGGGCCTTGCAGA 60.203 61.111 0.84 0.00 0.00 4.26
2338 2592 0.750546 TGCTTCAGATCCATGGCTGC 60.751 55.000 6.96 0.00 32.27 5.25
2803 3100 4.373116 TCTCGAGCGGCAACCACC 62.373 66.667 7.81 0.00 0.00 4.61
2942 3277 6.914654 TGGCACCACATATGCATTAAATAT 57.085 33.333 3.54 0.00 45.27 1.28
3168 3814 5.591099 TCTTGAGACAATGTTTTGCCTTTC 58.409 37.500 0.00 0.00 36.22 2.62
3233 3879 3.445096 GCAGTTGCTGAAGGAAATGGTAT 59.555 43.478 12.78 0.00 40.82 2.73
3445 4091 2.624316 CGTGAAGCAAGCATCACAAT 57.376 45.000 24.36 0.00 42.61 2.71
3780 4426 5.865552 CCATCATCTTCACAACATTCAAACC 59.134 40.000 0.00 0.00 0.00 3.27
3907 4576 1.668419 ATAGCCGAATTGCTGGACAC 58.332 50.000 0.68 0.00 42.77 3.67
4185 4869 0.682855 GGGCATTGTTCCCGAATGGA 60.683 55.000 0.00 0.00 43.18 3.41
4186 4870 1.815866 GGGCATTGTTCCCGAATGG 59.184 57.895 0.00 0.00 33.43 3.16
4260 4944 1.472552 CGATTTGTATGCGTCCTGGGA 60.473 52.381 0.00 0.00 0.00 4.37
4375 5060 2.031930 GGCCGTTTATTCGCCGAAATTA 59.968 45.455 2.60 0.00 0.00 1.40
4633 5318 1.771565 CCCACAGGTGCATCATCAAT 58.228 50.000 0.00 0.00 0.00 2.57
4759 5444 0.320771 GAGCGAGCAAGAAGACCCAA 60.321 55.000 0.00 0.00 0.00 4.12
4817 5502 7.228507 TGGTCGAAAGATTAAATGTGGGATATG 59.771 37.037 0.00 0.00 45.19 1.78
4831 5516 2.354203 GCTCAGACCTGGTCGAAAGATT 60.354 50.000 20.49 0.00 45.19 2.40
4925 5610 1.028905 CCTGGTTTGCGAAGGTTCAA 58.971 50.000 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.