Multiple sequence alignment - TraesCS2B01G406300

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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 TraesCS2B01G406300 chr2B 100.000 3449 0 0 1 3449 575350161 575353609 0.000000e+00 6333
1 TraesCS2B01G406300 chr2B 93.217 2742 149 18 742 3449 405161439 405164177 0.000000e+00 3999
2 TraesCS2B01G406300 chr2B 91.965 1929 138 13 1535 3449 279188892 279186967 0.000000e+00 2687
3 TraesCS2B01G406300 chr2B 90.625 1504 127 11 726 2218 762705903 762707403 0.000000e+00 1984
4 TraesCS2B01G406300 chr2B 98.907 732 8 0 90 821 575354736 575355467 0.000000e+00 1308
5 TraesCS2B01G406300 chr2B 100.000 79 0 0 1 79 575350333 575350411 2.770000e-31 147
6 TraesCS2B01G406300 chr2B 100.000 79 0 0 1 79 575354819 575354897 2.770000e-31 147
7 TraesCS2B01G406300 chr1B 93.155 2761 148 20 726 3449 475662809 475665565 0.000000e+00 4013
8 TraesCS2B01G406300 chr1B 89.070 2635 252 24 844 3449 534467428 534470055 0.000000e+00 3238
9 TraesCS2B01G406300 chr1B 83.358 2734 367 54 745 3446 298525444 298528121 0.000000e+00 2447
10 TraesCS2B01G406300 chr1B 87.519 1298 130 18 2181 3449 465586863 465585569 0.000000e+00 1471
11 TraesCS2B01G406300 chr1B 94.937 79 4 0 1 79 163653822 163653744 1.300000e-24 124
12 TraesCS2B01G406300 chr4B 90.407 2752 226 30 726 3449 486848421 486845680 0.000000e+00 3585
13 TraesCS2B01G406300 chr4B 89.355 2743 245 30 726 3449 207928176 207925462 0.000000e+00 3404
14 TraesCS2B01G406300 chr3B 90.040 2741 224 33 726 3449 289834887 289837595 0.000000e+00 3504
15 TraesCS2B01G406300 chr7B 89.800 2745 226 38 726 3449 182946965 182944254 0.000000e+00 3469
16 TraesCS2B01G406300 chr7B 89.088 1283 102 22 2181 3449 456123284 456124542 0.000000e+00 1559
17 TraesCS2B01G406300 chr7B 95.492 599 24 3 105 702 122445579 122446175 0.000000e+00 953
18 TraesCS2B01G406300 chr7B 95.833 528 19 3 105 631 122450284 122450809 0.000000e+00 850
19 TraesCS2B01G406300 chr7B 93.750 96 5 1 3355 3449 383865227 383865322 3.590000e-30 143
20 TraesCS2B01G406300 chr7B 98.734 79 1 0 1 79 122445646 122445724 1.290000e-29 141
21 TraesCS2B01G406300 chr7B 98.734 79 1 0 1 79 122450351 122450429 1.290000e-29 141
22 TraesCS2B01G406300 chr6B 92.057 1536 113 6 740 2268 561743770 561742237 0.000000e+00 2152
23 TraesCS2B01G406300 chr6B 94.574 516 20 6 193 702 48905279 48905792 0.000000e+00 791
24 TraesCS2B01G406300 chr2A 81.892 1469 214 41 2017 3449 300406346 300407798 0.000000e+00 1192
25 TraesCS2B01G406300 chr2A 86.992 123 9 4 607 727 266908754 266908637 7.770000e-27 132
26 TraesCS2B01G406300 chr6D 92.371 603 30 7 105 706 307417560 307416973 0.000000e+00 845
27 TraesCS2B01G406300 chr6D 92.027 602 32 7 105 706 307407929 307407344 0.000000e+00 832
28 TraesCS2B01G406300 chr6D 93.671 79 5 0 1 79 307407863 307407785 6.050000e-23 119
29 TraesCS2B01G406300 chr6A 91.874 603 36 6 105 706 605835367 605835957 0.000000e+00 830
30 TraesCS2B01G406300 chr6A 94.937 79 4 0 1 79 605835434 605835512 1.300000e-24 124
31 TraesCS2B01G406300 chr4D 91.542 603 33 10 105 704 226175346 226175933 0.000000e+00 815
32 TraesCS2B01G406300 chr4D 91.405 605 34 10 105 706 226170569 226171158 0.000000e+00 813
33 TraesCS2B01G406300 chr4D 94.937 79 4 0 1 79 226170635 226170713 1.300000e-24 124
34 TraesCS2B01G406300 chr4D 94.937 79 4 0 1 79 226175412 226175490 1.300000e-24 124
35 TraesCS2B01G406300 chr3A 84.672 137 11 7 596 727 353894920 353895051 1.000000e-25 128
36 TraesCS2B01G406300 chr1A 94.937 79 4 0 1 79 311528609 311528687 1.300000e-24 124


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 TraesCS2B01G406300 chr2B 575350161 575353609 3448 False 3240.0 6333 100.0000 1 3449 2 chr2B.!!$F3 3448
1 TraesCS2B01G406300 chr2B 405161439 405164177 2738 False 3999.0 3999 93.2170 742 3449 1 chr2B.!!$F1 2707
2 TraesCS2B01G406300 chr2B 279186967 279188892 1925 True 2687.0 2687 91.9650 1535 3449 1 chr2B.!!$R1 1914
3 TraesCS2B01G406300 chr2B 762705903 762707403 1500 False 1984.0 1984 90.6250 726 2218 1 chr2B.!!$F2 1492
4 TraesCS2B01G406300 chr2B 575354736 575355467 731 False 727.5 1308 99.4535 1 821 2 chr2B.!!$F4 820
5 TraesCS2B01G406300 chr1B 475662809 475665565 2756 False 4013.0 4013 93.1550 726 3449 1 chr1B.!!$F2 2723
6 TraesCS2B01G406300 chr1B 534467428 534470055 2627 False 3238.0 3238 89.0700 844 3449 1 chr1B.!!$F3 2605
7 TraesCS2B01G406300 chr1B 298525444 298528121 2677 False 2447.0 2447 83.3580 745 3446 1 chr1B.!!$F1 2701
8 TraesCS2B01G406300 chr1B 465585569 465586863 1294 True 1471.0 1471 87.5190 2181 3449 1 chr1B.!!$R2 1268
9 TraesCS2B01G406300 chr4B 486845680 486848421 2741 True 3585.0 3585 90.4070 726 3449 1 chr4B.!!$R2 2723
10 TraesCS2B01G406300 chr4B 207925462 207928176 2714 True 3404.0 3404 89.3550 726 3449 1 chr4B.!!$R1 2723
11 TraesCS2B01G406300 chr3B 289834887 289837595 2708 False 3504.0 3504 90.0400 726 3449 1 chr3B.!!$F1 2723
12 TraesCS2B01G406300 chr7B 182944254 182946965 2711 True 3469.0 3469 89.8000 726 3449 1 chr7B.!!$R1 2723
13 TraesCS2B01G406300 chr7B 456123284 456124542 1258 False 1559.0 1559 89.0880 2181 3449 1 chr7B.!!$F2 1268
14 TraesCS2B01G406300 chr7B 122445579 122446175 596 False 547.0 953 97.1130 1 702 2 chr7B.!!$F3 701
15 TraesCS2B01G406300 chr7B 122450284 122450809 525 False 495.5 850 97.2835 1 631 2 chr7B.!!$F4 630
16 TraesCS2B01G406300 chr6B 561742237 561743770 1533 True 2152.0 2152 92.0570 740 2268 1 chr6B.!!$R1 1528
17 TraesCS2B01G406300 chr6B 48905279 48905792 513 False 791.0 791 94.5740 193 702 1 chr6B.!!$F1 509
18 TraesCS2B01G406300 chr2A 300406346 300407798 1452 False 1192.0 1192 81.8920 2017 3449 1 chr2A.!!$F1 1432
19 TraesCS2B01G406300 chr6D 307416973 307417560 587 True 845.0 845 92.3710 105 706 1 chr6D.!!$R1 601
20 TraesCS2B01G406300 chr6D 307407344 307407929 585 True 475.5 832 92.8490 1 706 2 chr6D.!!$R2 705
21 TraesCS2B01G406300 chr6A 605835367 605835957 590 False 477.0 830 93.4055 1 706 2 chr6A.!!$F1 705
22 TraesCS2B01G406300 chr4D 226175346 226175933 587 False 469.5 815 93.2395 1 704 2 chr4D.!!$F2 703
23 TraesCS2B01G406300 chr4D 226170569 226171158 589 False 468.5 813 93.1710 1 706 2 chr4D.!!$F1 705

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
41 42 3.023119 TGCAACCTGACAATTGTTCAGT 58.977 40.909 24.08 15.45 0.00 3.41 F
1482 1502 2.391926 TACCTCAACACCAGGAGACA 57.608 50.000 0.00 0.00 34.75 3.41 F
1617 1658 0.460987 CTTGGAGTGCCGAGGATGAC 60.461 60.000 0.00 0.00 41.37 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1522 1542 1.064758 AGGCACTTGTGTTGAAGGTGA 60.065 47.619 2.61 0.00 27.25 4.02 R
2403 2450 1.284785 GGATCCCAAGGAATGTCACCA 59.715 52.381 0.00 0.00 34.34 4.17 R
3300 3388 2.264005 ACATTGCGGTTGAACCACTA 57.736 45.000 15.58 1.66 38.47 2.74 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
25 26 7.532682 TTCAGATTTGGTAAAAACTTGCAAC 57.467 32.000 0.00 0.00 0.00 4.17
26 27 6.045955 TCAGATTTGGTAAAAACTTGCAACC 58.954 36.000 0.00 0.00 0.00 3.77
27 28 6.048509 CAGATTTGGTAAAAACTTGCAACCT 58.951 36.000 0.00 0.00 0.00 3.50
28 29 6.018832 CAGATTTGGTAAAAACTTGCAACCTG 60.019 38.462 0.00 0.00 0.00 4.00
29 30 5.407407 TTTGGTAAAAACTTGCAACCTGA 57.593 34.783 0.00 0.00 0.00 3.86
30 31 4.379339 TGGTAAAAACTTGCAACCTGAC 57.621 40.909 0.00 0.00 0.00 3.51
31 32 3.764434 TGGTAAAAACTTGCAACCTGACA 59.236 39.130 0.00 0.00 0.00 3.58
32 33 4.220821 TGGTAAAAACTTGCAACCTGACAA 59.779 37.500 0.00 0.00 0.00 3.18
33 34 5.105146 TGGTAAAAACTTGCAACCTGACAAT 60.105 36.000 0.00 0.00 0.00 2.71
34 35 5.815222 GGTAAAAACTTGCAACCTGACAATT 59.185 36.000 0.00 0.00 0.00 2.32
35 36 5.799681 AAAAACTTGCAACCTGACAATTG 57.200 34.783 3.24 3.24 0.00 2.32
36 37 4.470334 AAACTTGCAACCTGACAATTGT 57.530 36.364 11.78 11.78 0.00 2.71
37 38 4.470334 AACTTGCAACCTGACAATTGTT 57.530 36.364 13.36 0.00 0.00 2.83
38 39 4.045636 ACTTGCAACCTGACAATTGTTC 57.954 40.909 13.36 6.80 0.00 3.18
39 40 3.446873 ACTTGCAACCTGACAATTGTTCA 59.553 39.130 13.36 10.93 0.00 3.18
40 41 3.713858 TGCAACCTGACAATTGTTCAG 57.286 42.857 21.47 21.47 0.00 3.02
41 42 3.023119 TGCAACCTGACAATTGTTCAGT 58.977 40.909 24.08 15.45 0.00 3.41
42 43 3.446873 TGCAACCTGACAATTGTTCAGTT 59.553 39.130 24.08 18.89 0.00 3.16
43 44 4.081752 TGCAACCTGACAATTGTTCAGTTT 60.082 37.500 24.08 18.38 0.00 2.66
44 45 4.504097 GCAACCTGACAATTGTTCAGTTTC 59.496 41.667 24.08 14.86 0.00 2.78
45 46 4.552166 ACCTGACAATTGTTCAGTTTCG 57.448 40.909 24.08 16.39 0.00 3.46
46 47 3.945285 ACCTGACAATTGTTCAGTTTCGT 59.055 39.130 24.08 16.80 0.00 3.85
47 48 5.120399 ACCTGACAATTGTTCAGTTTCGTA 58.880 37.500 24.08 2.65 0.00 3.43
48 49 5.007332 ACCTGACAATTGTTCAGTTTCGTAC 59.993 40.000 24.08 7.55 0.00 3.67
49 50 5.236478 CCTGACAATTGTTCAGTTTCGTACT 59.764 40.000 24.08 0.00 37.68 2.73
50 51 6.238374 CCTGACAATTGTTCAGTTTCGTACTT 60.238 38.462 24.08 0.00 33.85 2.24
51 52 6.482835 TGACAATTGTTCAGTTTCGTACTTG 58.517 36.000 13.36 0.00 33.85 3.16
52 53 6.092944 TGACAATTGTTCAGTTTCGTACTTGT 59.907 34.615 13.36 0.00 33.85 3.16
53 54 7.278203 TGACAATTGTTCAGTTTCGTACTTGTA 59.722 33.333 13.36 0.00 33.85 2.41
54 55 7.976826 ACAATTGTTCAGTTTCGTACTTGTAA 58.023 30.769 4.92 0.00 33.85 2.41
55 56 8.452534 ACAATTGTTCAGTTTCGTACTTGTAAA 58.547 29.630 4.92 0.00 33.85 2.01
56 57 9.279904 CAATTGTTCAGTTTCGTACTTGTAAAA 57.720 29.630 0.00 0.00 33.85 1.52
64 65 9.685005 CAGTTTCGTACTTGTAAAATATAGTGC 57.315 33.333 0.00 0.00 33.85 4.40
65 66 9.426837 AGTTTCGTACTTGTAAAATATAGTGCA 57.573 29.630 0.00 0.00 31.29 4.57
66 67 9.469239 GTTTCGTACTTGTAAAATATAGTGCAC 57.531 33.333 9.40 9.40 0.00 4.57
67 68 8.991243 TTCGTACTTGTAAAATATAGTGCACT 57.009 30.769 25.12 25.12 0.00 4.40
68 69 8.991243 TCGTACTTGTAAAATATAGTGCACTT 57.009 30.769 27.06 15.06 0.00 3.16
69 70 9.426837 TCGTACTTGTAAAATATAGTGCACTTT 57.573 29.630 27.06 20.10 0.00 2.66
1157 1177 4.238669 AGGCCTAGCTCTTATGATCCTTT 58.761 43.478 1.29 0.00 0.00 3.11
1188 1208 3.744660 CCATCCTTATGTTGCTCCTACC 58.255 50.000 0.00 0.00 0.00 3.18
1216 1236 3.464720 TTTGTGGATTTCAGGGCCATA 57.535 42.857 6.18 0.00 33.66 2.74
1246 1266 3.244078 TGAATGTCAGCGTGGTTACTCTT 60.244 43.478 0.00 0.00 0.00 2.85
1360 1380 5.428253 TGTCATATAGGAGCAACAACCTTC 58.572 41.667 0.00 0.00 37.68 3.46
1424 1444 2.419297 GGTACAATGAGGAGAGCCACAG 60.419 54.545 0.00 0.00 38.19 3.66
1481 1501 4.649674 TCATATACCTCAACACCAGGAGAC 59.350 45.833 0.00 0.00 34.75 3.36
1482 1502 2.391926 TACCTCAACACCAGGAGACA 57.608 50.000 0.00 0.00 34.75 3.41
1522 1542 2.557452 GGTCCTCCATTTGGTCAACCAT 60.557 50.000 2.03 0.00 46.97 3.55
1617 1658 0.460987 CTTGGAGTGCCGAGGATGAC 60.461 60.000 0.00 0.00 41.37 3.06
1946 1990 6.778559 ACTACTCCTGAAGAAGTACAAGAAGT 59.221 38.462 0.00 0.00 0.00 3.01
1983 2027 6.719301 AGATGAAGAACCTGAGATTCATTGT 58.281 36.000 0.00 0.00 41.27 2.71
2029 2073 3.139397 TGTGTCAGGTTTACCCAATCCTT 59.861 43.478 0.00 0.00 32.48 3.36
2403 2450 0.973632 TACATGCTGACCAGGTTCGT 59.026 50.000 0.00 0.00 39.51 3.85
2464 2511 1.213926 GATGAGGAGAAGCAATGGGGT 59.786 52.381 0.00 0.00 0.00 4.95
2637 2698 2.356665 TGCTAGTTGGGTTGCTTGAA 57.643 45.000 0.00 0.00 0.00 2.69
2638 2699 2.660572 TGCTAGTTGGGTTGCTTGAAA 58.339 42.857 0.00 0.00 0.00 2.69
3062 3133 4.392921 ACCTACAGTAGCATGTCATGTC 57.607 45.455 14.26 6.87 34.56 3.06
3064 3135 3.386078 CCTACAGTAGCATGTCATGTCCT 59.614 47.826 14.26 6.46 34.56 3.85
3110 3181 4.470602 GGGTTAGCTTGGGCAGTAATTAT 58.529 43.478 0.00 0.00 41.70 1.28
3189 3265 3.611025 TGTTCCTTTGGGGAGACAAAT 57.389 42.857 0.00 0.00 46.01 2.32
3313 3401 6.442952 TCAAATTCAATTAGTGGTTCAACCG 58.557 36.000 1.02 0.00 42.58 4.44
3321 3409 3.955291 TGGTTCAACCGCAATGTTG 57.045 47.368 1.02 4.78 42.58 3.33
3341 3442 5.761234 TGTTGTGTTCCTGGTAATAAGTGAC 59.239 40.000 0.00 0.00 0.00 3.67
3342 3443 4.901868 TGTGTTCCTGGTAATAAGTGACC 58.098 43.478 0.00 0.00 36.17 4.02
3344 3445 4.935808 GTGTTCCTGGTAATAAGTGACCTG 59.064 45.833 0.00 0.00 36.62 4.00
3347 3448 5.871396 TCCTGGTAATAAGTGACCTGATC 57.129 43.478 0.00 0.00 36.94 2.92
3348 3449 5.277250 TCCTGGTAATAAGTGACCTGATCA 58.723 41.667 0.00 0.00 36.94 2.92
3397 3502 4.479158 TCTTTAGGAACCTTTTGGCACAT 58.521 39.130 0.00 0.00 45.59 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 6.048509 CAGGTTGCAAGTTTTTACCAAATCT 58.951 36.000 0.00 0.00 0.00 2.40
5 6 6.019075 GTCAGGTTGCAAGTTTTTACCAAATC 60.019 38.462 0.00 0.00 0.00 2.17
6 7 5.815222 GTCAGGTTGCAAGTTTTTACCAAAT 59.185 36.000 0.00 0.00 0.00 2.32
7 8 5.172205 GTCAGGTTGCAAGTTTTTACCAAA 58.828 37.500 0.00 0.00 0.00 3.28
8 9 4.220821 TGTCAGGTTGCAAGTTTTTACCAA 59.779 37.500 0.00 0.00 0.00 3.67
9 10 3.764434 TGTCAGGTTGCAAGTTTTTACCA 59.236 39.130 0.00 0.00 0.00 3.25
10 11 4.379339 TGTCAGGTTGCAAGTTTTTACC 57.621 40.909 0.00 0.00 0.00 2.85
11 12 6.312672 ACAATTGTCAGGTTGCAAGTTTTTAC 59.687 34.615 4.92 0.00 0.00 2.01
12 13 6.402222 ACAATTGTCAGGTTGCAAGTTTTTA 58.598 32.000 4.92 0.00 0.00 1.52
13 14 5.244755 ACAATTGTCAGGTTGCAAGTTTTT 58.755 33.333 4.92 0.00 0.00 1.94
14 15 4.831107 ACAATTGTCAGGTTGCAAGTTTT 58.169 34.783 4.92 0.00 0.00 2.43
15 16 4.470334 ACAATTGTCAGGTTGCAAGTTT 57.530 36.364 4.92 0.00 0.00 2.66
16 17 4.081752 TGAACAATTGTCAGGTTGCAAGTT 60.082 37.500 12.39 0.00 0.00 2.66
17 18 3.446873 TGAACAATTGTCAGGTTGCAAGT 59.553 39.130 12.39 0.00 0.00 3.16
18 19 4.044336 TGAACAATTGTCAGGTTGCAAG 57.956 40.909 12.39 0.00 0.00 4.01
19 20 3.446873 ACTGAACAATTGTCAGGTTGCAA 59.553 39.130 27.07 0.00 35.93 4.08
20 21 3.023119 ACTGAACAATTGTCAGGTTGCA 58.977 40.909 27.07 12.82 35.93 4.08
21 22 3.715628 ACTGAACAATTGTCAGGTTGC 57.284 42.857 27.07 10.02 35.93 4.17
22 23 4.734854 CGAAACTGAACAATTGTCAGGTTG 59.265 41.667 29.60 21.72 40.95 3.77
23 24 4.398044 ACGAAACTGAACAATTGTCAGGTT 59.602 37.500 27.03 27.03 43.22 3.50
24 25 3.945285 ACGAAACTGAACAATTGTCAGGT 59.055 39.130 27.07 22.74 35.93 4.00
25 26 4.552166 ACGAAACTGAACAATTGTCAGG 57.448 40.909 27.07 17.14 35.93 3.86
26 27 6.287107 AGTACGAAACTGAACAATTGTCAG 57.713 37.500 24.36 24.36 36.93 3.51
27 28 6.092944 ACAAGTACGAAACTGAACAATTGTCA 59.907 34.615 12.39 10.54 38.88 3.58
28 29 6.483687 ACAAGTACGAAACTGAACAATTGTC 58.516 36.000 12.39 6.33 38.88 3.18
29 30 6.431198 ACAAGTACGAAACTGAACAATTGT 57.569 33.333 4.92 4.92 38.88 2.71
30 31 8.829514 TTTACAAGTACGAAACTGAACAATTG 57.170 30.769 3.24 3.24 38.88 2.32
38 39 9.685005 GCACTATATTTTACAAGTACGAAACTG 57.315 33.333 0.00 0.00 38.88 3.16
39 40 9.426837 TGCACTATATTTTACAAGTACGAAACT 57.573 29.630 0.00 0.00 41.49 2.66
40 41 9.469239 GTGCACTATATTTTACAAGTACGAAAC 57.531 33.333 10.32 0.00 0.00 2.78
41 42 9.426837 AGTGCACTATATTTTACAAGTACGAAA 57.573 29.630 20.16 0.00 0.00 3.46
42 43 8.991243 AGTGCACTATATTTTACAAGTACGAA 57.009 30.769 20.16 0.00 0.00 3.85
43 44 8.991243 AAGTGCACTATATTTTACAAGTACGA 57.009 30.769 22.01 0.00 0.00 3.43
89 90 7.321908 TGTCAGAAATTTGAGATCAGAGAGAG 58.678 38.462 0.00 0.00 0.00 3.20
90 91 7.237209 TGTCAGAAATTTGAGATCAGAGAGA 57.763 36.000 0.00 0.00 0.00 3.10
91 92 7.603404 ACTTGTCAGAAATTTGAGATCAGAGAG 59.397 37.037 0.00 0.00 0.00 3.20
92 93 7.448420 ACTTGTCAGAAATTTGAGATCAGAGA 58.552 34.615 0.00 0.00 0.00 3.10
93 94 7.670009 ACTTGTCAGAAATTTGAGATCAGAG 57.330 36.000 0.00 0.00 0.00 3.35
678 690 5.811399 TGGTATTTTCGTAATGCTTGAGG 57.189 39.130 0.00 0.00 0.00 3.86
883 899 4.305989 TGGCACAAGATGAAAACAAGAC 57.694 40.909 0.00 0.00 31.92 3.01
1129 1149 6.780031 GGATCATAAGAGCTAGGCCTATCATA 59.220 42.308 14.30 6.86 0.00 2.15
1131 1151 4.959210 GGATCATAAGAGCTAGGCCTATCA 59.041 45.833 14.30 0.00 0.00 2.15
1157 1177 5.684704 CAACATAAGGATGGCCTCTAGAAA 58.315 41.667 3.32 0.00 46.28 2.52
1188 1208 4.202182 CCCTGAAATCCACAAATATGGCAG 60.202 45.833 0.00 0.00 39.85 4.85
1216 1236 2.434884 CTGACATTCAGCGGGCGT 60.435 61.111 0.00 0.00 37.72 5.68
1246 1266 2.109128 TGCCAAAACAATCTGGAGGGTA 59.891 45.455 0.00 0.00 34.35 3.69
1360 1380 8.777865 TTACTAGAAACAAATGGTGAGATCTG 57.222 34.615 0.00 0.00 0.00 2.90
1424 1444 1.203052 AGCATTGTTGTGGTGCATAGC 59.797 47.619 0.00 0.00 41.19 2.97
1481 1501 5.163519 GGACCATTTAACTCCATTGGACATG 60.164 44.000 0.00 0.00 0.00 3.21
1482 1502 4.956075 GGACCATTTAACTCCATTGGACAT 59.044 41.667 0.00 0.00 0.00 3.06
1522 1542 1.064758 AGGCACTTGTGTTGAAGGTGA 60.065 47.619 2.61 0.00 27.25 4.02
1617 1658 8.621971 TCCTCTAGTATAACCTTCCTAATAGGG 58.378 40.741 6.46 0.00 37.09 3.53
1827 1868 7.344093 AGTTCATCTTCAATCTGAGGTATCTCA 59.656 37.037 5.38 5.38 46.81 3.27
1946 1990 7.388776 CAGGTTCTTCATCTTCATCTACAACAA 59.611 37.037 0.00 0.00 0.00 2.83
2002 2046 5.506730 TTGGGTAAACCTGACACATCATA 57.493 39.130 0.00 0.00 41.11 2.15
2029 2073 8.812513 AAATCATAAGGACTCATGTCATCAAA 57.187 30.769 0.00 0.00 44.61 2.69
2121 2165 9.371136 CCACCAACAGTATATGTATCATCATAC 57.629 37.037 0.00 0.00 43.00 2.39
2136 2180 1.073763 AGAGCAATGCCACCAACAGTA 59.926 47.619 0.00 0.00 0.00 2.74
2403 2450 1.284785 GGATCCCAAGGAATGTCACCA 59.715 52.381 0.00 0.00 34.34 4.17
2464 2511 5.395657 CCAGCTTCACTCTTCCATATGTGTA 60.396 44.000 1.24 0.00 0.00 2.90
3031 3097 5.688814 TGCTACTGTAGGTAGTCAGACTA 57.311 43.478 16.09 6.15 46.99 2.59
3062 3133 3.550431 ATGCCACCGATCCCGAGG 61.550 66.667 0.00 0.00 38.22 4.63
3064 3135 3.080765 ACATGCCACCGATCCCGA 61.081 61.111 0.00 0.00 38.22 5.14
3120 3192 3.751175 ACACCTGGTTCGACAATTACATG 59.249 43.478 0.00 0.00 0.00 3.21
3300 3388 2.264005 ACATTGCGGTTGAACCACTA 57.736 45.000 15.58 1.66 38.47 2.74
3313 3401 4.519540 ATTACCAGGAACACAACATTGC 57.480 40.909 0.00 0.00 0.00 3.56
3321 3409 4.935808 CAGGTCACTTATTACCAGGAACAC 59.064 45.833 0.00 0.00 38.30 3.32
3341 3442 3.817084 TGAGAACAAAGCTTGTGATCAGG 59.183 43.478 0.00 0.00 44.59 3.86
3342 3443 4.083431 CCTGAGAACAAAGCTTGTGATCAG 60.083 45.833 21.33 21.33 46.29 2.90
3344 3445 4.067896 TCCTGAGAACAAAGCTTGTGATC 58.932 43.478 0.00 5.36 44.59 2.92
3347 3448 3.817084 TGATCCTGAGAACAAAGCTTGTG 59.183 43.478 0.00 3.34 44.59 3.33
3351 3452 3.015327 GCATGATCCTGAGAACAAAGCT 58.985 45.455 0.00 0.00 31.50 3.74
3352 3453 3.015327 AGCATGATCCTGAGAACAAAGC 58.985 45.455 0.00 0.00 33.15 3.51
3353 3454 4.515361 AGAGCATGATCCTGAGAACAAAG 58.485 43.478 7.49 0.00 0.00 2.77
3397 3502 9.300681 AGAGGATCAACAAGTTTAAATGATGAA 57.699 29.630 6.07 0.00 37.82 2.57


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

AutoCloner maintained by Alex Coulton.