Multiple sequence alignment - TraesCS2B01G352500

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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 TraesCS2B01G352500 chr2B 100.000 3815 0 0 1 3815 503640617 503644431 0.000000e+00 7046.0
1 TraesCS2B01G352500 chr2B 89.192 3340 222 57 552 3815 676187996 676184720 0.000000e+00 4039.0
2 TraesCS2B01G352500 chr2B 92.299 1792 94 12 2055 3815 621622749 621620971 0.000000e+00 2505.0
3 TraesCS2B01G352500 chr2B 92.531 1138 53 9 2708 3815 665892130 665890995 0.000000e+00 1602.0
4 TraesCS2B01G352500 chr6B 93.746 3310 157 20 552 3815 439014072 439010767 0.000000e+00 4920.0
5 TraesCS2B01G352500 chr6B 96.087 1610 57 4 552 2160 571757598 571755994 0.000000e+00 2619.0
6 TraesCS2B01G352500 chr6B 92.885 1813 91 13 2036 3815 571756073 571754266 0.000000e+00 2599.0
7 TraesCS2B01G352500 chr6B 95.628 549 24 0 1 549 186688952 186689500 0.000000e+00 881.0
8 TraesCS2B01G352500 chr5B 91.245 3324 194 57 552 3815 400995585 400992299 0.000000e+00 4436.0
9 TraesCS2B01G352500 chr5B 90.503 3338 201 47 552 3815 194205320 194202025 0.000000e+00 4301.0
10 TraesCS2B01G352500 chr5B 90.368 3343 198 47 552 3815 638653529 638656826 0.000000e+00 4276.0
11 TraesCS2B01G352500 chr5B 90.340 1998 136 27 552 2530 658943374 658941415 0.000000e+00 2567.0
12 TraesCS2B01G352500 chr5B 91.740 1598 101 16 552 2131 567614135 567612551 0.000000e+00 2191.0
13 TraesCS2B01G352500 chr5B 90.696 1623 117 19 552 2156 541103430 541105036 0.000000e+00 2130.0
14 TraesCS2B01G352500 chr3A 90.278 3312 244 39 552 3815 692601538 692598257 0.000000e+00 4261.0
15 TraesCS2B01G352500 chr3A 87.774 548 64 2 3 549 476091662 476092207 4.160000e-179 638.0
16 TraesCS2B01G352500 chr3B 90.344 3314 206 58 552 3815 675588000 675591249 0.000000e+00 4242.0
17 TraesCS2B01G352500 chr3B 88.002 3334 272 61 552 3799 46765133 46768424 0.000000e+00 3823.0
18 TraesCS2B01G352500 chr3B 89.434 2120 180 21 552 2654 71159539 71161631 0.000000e+00 2634.0
19 TraesCS2B01G352500 chr3B 92.782 1136 51 7 2708 3815 698404426 698403294 0.000000e+00 1615.0
20 TraesCS2B01G352500 chr1B 89.976 3362 199 57 552 3815 306213978 306217299 0.000000e+00 4215.0
21 TraesCS2B01G352500 chr1B 92.715 1812 98 10 2036 3815 631056695 631054886 0.000000e+00 2584.0
22 TraesCS2B01G352500 chr1B 90.000 1820 117 24 2051 3815 333476379 333478188 0.000000e+00 2292.0
23 TraesCS2B01G352500 chr4B 90.038 2128 161 26 552 2654 568733661 568731560 0.000000e+00 2708.0
24 TraesCS2B01G352500 chr4B 88.462 2132 181 34 552 2654 330772697 330770602 0.000000e+00 2514.0
25 TraesCS2B01G352500 chr4B 87.296 2141 200 41 552 2654 335936176 335934070 0.000000e+00 2381.0
26 TraesCS2B01G352500 chr7B 89.636 2113 152 29 552 2654 549392619 549390564 0.000000e+00 2627.0
27 TraesCS2B01G352500 chr7B 87.570 2132 200 36 552 2654 630453352 630451257 0.000000e+00 2409.0
28 TraesCS2B01G352500 chr7B 92.687 547 39 1 3 549 94276043 94275498 0.000000e+00 787.0
29 TraesCS2B01G352500 chr2D 81.577 1091 156 31 554 1639 308899988 308898938 0.000000e+00 859.0
30 TraesCS2B01G352500 chr2D 90.676 547 51 0 3 549 572342587 572342041 0.000000e+00 728.0
31 TraesCS2B01G352500 chr4D 90.494 547 52 0 3 549 13569930 13569384 0.000000e+00 723.0
32 TraesCS2B01G352500 chr6A 87.226 548 69 1 3 549 111397557 111398104 1.160000e-174 623.0
33 TraesCS2B01G352500 chr4A 86.679 548 70 3 3 549 599762635 599763180 4.220000e-169 604.0
34 TraesCS2B01G352500 chr3D 87.500 56 7 0 176 231 532118879 532118824 8.850000e-07 65.8


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 TraesCS2B01G352500 chr2B 503640617 503644431 3814 False 7046 7046 100.000 1 3815 1 chr2B.!!$F1 3814
1 TraesCS2B01G352500 chr2B 676184720 676187996 3276 True 4039 4039 89.192 552 3815 1 chr2B.!!$R3 3263
2 TraesCS2B01G352500 chr2B 621620971 621622749 1778 True 2505 2505 92.299 2055 3815 1 chr2B.!!$R1 1760
3 TraesCS2B01G352500 chr2B 665890995 665892130 1135 True 1602 1602 92.531 2708 3815 1 chr2B.!!$R2 1107
4 TraesCS2B01G352500 chr6B 439010767 439014072 3305 True 4920 4920 93.746 552 3815 1 chr6B.!!$R1 3263
5 TraesCS2B01G352500 chr6B 571754266 571757598 3332 True 2609 2619 94.486 552 3815 2 chr6B.!!$R2 3263
6 TraesCS2B01G352500 chr6B 186688952 186689500 548 False 881 881 95.628 1 549 1 chr6B.!!$F1 548
7 TraesCS2B01G352500 chr5B 400992299 400995585 3286 True 4436 4436 91.245 552 3815 1 chr5B.!!$R2 3263
8 TraesCS2B01G352500 chr5B 194202025 194205320 3295 True 4301 4301 90.503 552 3815 1 chr5B.!!$R1 3263
9 TraesCS2B01G352500 chr5B 638653529 638656826 3297 False 4276 4276 90.368 552 3815 1 chr5B.!!$F2 3263
10 TraesCS2B01G352500 chr5B 658941415 658943374 1959 True 2567 2567 90.340 552 2530 1 chr5B.!!$R4 1978
11 TraesCS2B01G352500 chr5B 567612551 567614135 1584 True 2191 2191 91.740 552 2131 1 chr5B.!!$R3 1579
12 TraesCS2B01G352500 chr5B 541103430 541105036 1606 False 2130 2130 90.696 552 2156 1 chr5B.!!$F1 1604
13 TraesCS2B01G352500 chr3A 692598257 692601538 3281 True 4261 4261 90.278 552 3815 1 chr3A.!!$R1 3263
14 TraesCS2B01G352500 chr3A 476091662 476092207 545 False 638 638 87.774 3 549 1 chr3A.!!$F1 546
15 TraesCS2B01G352500 chr3B 675588000 675591249 3249 False 4242 4242 90.344 552 3815 1 chr3B.!!$F3 3263
16 TraesCS2B01G352500 chr3B 46765133 46768424 3291 False 3823 3823 88.002 552 3799 1 chr3B.!!$F1 3247
17 TraesCS2B01G352500 chr3B 71159539 71161631 2092 False 2634 2634 89.434 552 2654 1 chr3B.!!$F2 2102
18 TraesCS2B01G352500 chr3B 698403294 698404426 1132 True 1615 1615 92.782 2708 3815 1 chr3B.!!$R1 1107
19 TraesCS2B01G352500 chr1B 306213978 306217299 3321 False 4215 4215 89.976 552 3815 1 chr1B.!!$F1 3263
20 TraesCS2B01G352500 chr1B 631054886 631056695 1809 True 2584 2584 92.715 2036 3815 1 chr1B.!!$R1 1779
21 TraesCS2B01G352500 chr1B 333476379 333478188 1809 False 2292 2292 90.000 2051 3815 1 chr1B.!!$F2 1764
22 TraesCS2B01G352500 chr4B 568731560 568733661 2101 True 2708 2708 90.038 552 2654 1 chr4B.!!$R3 2102
23 TraesCS2B01G352500 chr4B 330770602 330772697 2095 True 2514 2514 88.462 552 2654 1 chr4B.!!$R1 2102
24 TraesCS2B01G352500 chr4B 335934070 335936176 2106 True 2381 2381 87.296 552 2654 1 chr4B.!!$R2 2102
25 TraesCS2B01G352500 chr7B 549390564 549392619 2055 True 2627 2627 89.636 552 2654 1 chr7B.!!$R2 2102
26 TraesCS2B01G352500 chr7B 630451257 630453352 2095 True 2409 2409 87.570 552 2654 1 chr7B.!!$R3 2102
27 TraesCS2B01G352500 chr7B 94275498 94276043 545 True 787 787 92.687 3 549 1 chr7B.!!$R1 546
28 TraesCS2B01G352500 chr2D 308898938 308899988 1050 True 859 859 81.577 554 1639 1 chr2D.!!$R1 1085
29 TraesCS2B01G352500 chr2D 572342041 572342587 546 True 728 728 90.676 3 549 1 chr2D.!!$R2 546
30 TraesCS2B01G352500 chr4D 13569384 13569930 546 True 723 723 90.494 3 549 1 chr4D.!!$R1 546
31 TraesCS2B01G352500 chr6A 111397557 111398104 547 False 623 623 87.226 3 549 1 chr6A.!!$F1 546
32 TraesCS2B01G352500 chr4A 599762635 599763180 545 False 604 604 86.679 3 549 1 chr4A.!!$F1 546

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
520 523 0.165944 GACGCACCAACGAATCTTGG 59.834 55.0 9.04 9.04 45.62 3.61 F
550 553 0.319297 CCAAAGAGCAGCTTGCCAAC 60.319 55.0 0.00 0.00 46.52 3.77 F
1470 1527 0.107410 TCCGTGTTCTGCACTTTGGT 60.107 50.0 0.00 0.00 45.57 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1470 1527 1.071542 TGATCTTTCCACGAGGCACAA 59.928 47.619 0.00 0.0 33.74 3.33 R
2428 2786 1.338973 CAGCAAGCACAACCTTGACAT 59.661 47.619 6.12 0.0 43.79 3.06 R
3064 3514 0.175760 CGATGTGTCCGTTCTGGGAT 59.824 55.000 0.00 0.0 38.61 3.85 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
81 83 4.813697 GGAGTATCTTTCTTAGGCAGCAAG 59.186 45.833 0.00 0.00 33.73 4.01
87 89 2.408271 TCTTAGGCAGCAAGGTGATG 57.592 50.000 3.05 0.00 36.74 3.07
183 185 3.265737 TGATCAGGTGCTTAAAGGCCTTA 59.734 43.478 20.84 2.45 0.00 2.69
258 261 3.708403 TTGATGGCAGACACAATCTCT 57.292 42.857 0.00 0.00 34.41 3.10
320 323 2.120232 CGCGTATAAGGAGCTGAGTTG 58.880 52.381 0.00 0.00 0.00 3.16
366 369 0.600057 GACCCAGCAGGCTTTTGAAG 59.400 55.000 0.00 0.00 40.58 3.02
372 375 3.338249 CAGCAGGCTTTTGAAGTAGCTA 58.662 45.455 0.00 0.00 37.54 3.32
437 440 4.822350 GCCATCTTGAATAAGGACCCTAAC 59.178 45.833 0.00 0.00 34.59 2.34
447 450 9.681062 TGAATAAGGACCCTAACTTTATTTCTG 57.319 33.333 0.00 0.00 32.50 3.02
459 462 2.491770 TATTTCTGCGGGCCTGGCAA 62.492 55.000 22.05 4.28 40.39 4.52
496 499 3.930634 AAAACTGGCAGCTTTCATCTC 57.069 42.857 15.89 0.00 0.00 2.75
497 500 1.831580 AACTGGCAGCTTTCATCTCC 58.168 50.000 15.89 0.00 0.00 3.71
498 501 0.694771 ACTGGCAGCTTTCATCTCCA 59.305 50.000 15.89 0.00 0.00 3.86
499 502 1.339824 ACTGGCAGCTTTCATCTCCAG 60.340 52.381 15.89 4.69 44.80 3.86
500 503 0.986527 TGGCAGCTTTCATCTCCAGA 59.013 50.000 0.00 0.00 0.00 3.86
501 504 1.065636 TGGCAGCTTTCATCTCCAGAG 60.066 52.381 0.00 0.00 0.00 3.35
502 505 1.209019 GGCAGCTTTCATCTCCAGAGA 59.791 52.381 0.00 0.00 42.37 3.10
503 506 2.278854 GCAGCTTTCATCTCCAGAGAC 58.721 52.381 0.00 0.00 40.75 3.36
504 507 2.538437 CAGCTTTCATCTCCAGAGACG 58.462 52.381 0.00 0.00 40.75 4.18
505 508 1.134848 AGCTTTCATCTCCAGAGACGC 60.135 52.381 0.00 0.00 40.75 5.19
506 509 1.404717 GCTTTCATCTCCAGAGACGCA 60.405 52.381 0.00 0.00 40.75 5.24
507 510 2.266554 CTTTCATCTCCAGAGACGCAC 58.733 52.381 0.00 0.00 40.75 5.34
508 511 0.532573 TTCATCTCCAGAGACGCACC 59.467 55.000 0.00 0.00 40.75 5.01
509 512 0.611896 TCATCTCCAGAGACGCACCA 60.612 55.000 0.00 0.00 40.75 4.17
510 513 0.247460 CATCTCCAGAGACGCACCAA 59.753 55.000 0.00 0.00 40.75 3.67
511 514 0.247736 ATCTCCAGAGACGCACCAAC 59.752 55.000 0.00 0.00 40.75 3.77
512 515 1.734477 CTCCAGAGACGCACCAACG 60.734 63.158 0.00 0.00 39.50 4.10
513 516 2.142357 CTCCAGAGACGCACCAACGA 62.142 60.000 0.00 0.00 36.70 3.85
514 517 1.300620 CCAGAGACGCACCAACGAA 60.301 57.895 0.00 0.00 36.70 3.85
515 518 0.670546 CCAGAGACGCACCAACGAAT 60.671 55.000 0.00 0.00 36.70 3.34
516 519 0.716108 CAGAGACGCACCAACGAATC 59.284 55.000 0.00 0.00 36.70 2.52
517 520 0.603569 AGAGACGCACCAACGAATCT 59.396 50.000 0.00 0.00 36.70 2.40
518 521 1.000955 AGAGACGCACCAACGAATCTT 59.999 47.619 0.00 0.00 36.70 2.40
519 522 1.126846 GAGACGCACCAACGAATCTTG 59.873 52.381 0.00 0.00 36.70 3.02
520 523 0.165944 GACGCACCAACGAATCTTGG 59.834 55.000 9.04 9.04 45.62 3.61
521 524 1.154225 CGCACCAACGAATCTTGGC 60.154 57.895 10.11 0.00 44.19 4.52
522 525 1.154225 GCACCAACGAATCTTGGCG 60.154 57.895 10.11 4.13 44.19 5.69
523 526 1.154225 CACCAACGAATCTTGGCGC 60.154 57.895 0.00 0.00 44.19 6.53
524 527 2.098298 CCAACGAATCTTGGCGCG 59.902 61.111 0.00 0.00 34.50 6.86
525 528 2.098298 CAACGAATCTTGGCGCGG 59.902 61.111 8.83 0.00 0.00 6.46
526 529 3.799755 AACGAATCTTGGCGCGGC 61.800 61.111 27.61 27.61 0.00 6.53
529 532 4.223964 GAATCTTGGCGCGGCGAC 62.224 66.667 28.54 26.15 34.27 5.19
542 545 4.451652 GCGACGCCAAAGAGCAGC 62.452 66.667 9.14 0.00 0.00 5.25
543 546 2.740055 CGACGCCAAAGAGCAGCT 60.740 61.111 0.00 0.00 0.00 4.24
544 547 2.320587 CGACGCCAAAGAGCAGCTT 61.321 57.895 0.00 0.00 38.88 3.74
545 548 1.208614 GACGCCAAAGAGCAGCTTG 59.791 57.895 0.00 0.00 36.80 4.01
546 549 2.126580 CGCCAAAGAGCAGCTTGC 60.127 61.111 0.00 0.47 45.46 4.01
547 550 2.260743 GCCAAAGAGCAGCTTGCC 59.739 61.111 0.00 0.00 46.52 4.52
548 551 2.567497 GCCAAAGAGCAGCTTGCCA 61.567 57.895 0.00 0.00 46.52 4.92
549 552 2.043625 CCAAAGAGCAGCTTGCCAA 58.956 52.632 0.00 0.00 46.52 4.52
550 553 0.319297 CCAAAGAGCAGCTTGCCAAC 60.319 55.000 0.00 0.00 46.52 3.77
725 734 6.540914 AGGATTTTGTGACTTTCTTTCGTACA 59.459 34.615 0.00 0.00 0.00 2.90
726 735 7.228706 AGGATTTTGTGACTTTCTTTCGTACAT 59.771 33.333 0.00 0.00 0.00 2.29
1147 1201 1.621301 CCTCGAGCTTTGCAGTCGTG 61.621 60.000 6.99 7.13 35.22 4.35
1371 1428 1.346395 TCTTGTCAACCCTGTATGCGT 59.654 47.619 0.00 0.00 0.00 5.24
1470 1527 0.107410 TCCGTGTTCTGCACTTTGGT 60.107 50.000 0.00 0.00 45.57 3.67
1484 1541 0.394488 TTTGGTTGTGCCTCGTGGAA 60.394 50.000 7.92 0.00 38.35 3.53
1725 1785 3.331591 CCCATCCTGGTGAATGATCCATA 59.668 47.826 0.00 0.00 35.17 2.74
1838 1907 1.298157 TTTCTGATGCGGCAACTCGG 61.298 55.000 6.82 6.41 0.00 4.63
2034 2111 3.665745 AACACCCTTTCATTCATGCAC 57.334 42.857 0.00 0.00 0.00 4.57
2200 2438 4.220693 AGCACATACAGATGGCAACTTA 57.779 40.909 0.00 0.00 37.39 2.24
2203 2441 5.653769 AGCACATACAGATGGCAACTTATTT 59.346 36.000 0.00 0.00 37.39 1.40
2204 2442 6.828273 AGCACATACAGATGGCAACTTATTTA 59.172 34.615 0.00 0.00 37.39 1.40
2419 2777 1.098869 TTTGCTGTTTCTGCGTGGAA 58.901 45.000 0.00 0.00 0.00 3.53
2428 2786 2.951457 TCTGCGTGGAATATCAACGA 57.049 45.000 11.25 0.00 0.00 3.85
2449 2807 0.740737 GTCAAGGTTGTGCTTGCTGT 59.259 50.000 0.00 0.00 0.00 4.40
2631 3019 1.143684 ACTCCACATGGCAACTCTGTT 59.856 47.619 0.00 0.00 31.99 3.16
2729 3128 8.443979 TCATCATTCTCTCTCTTACATCCTAGA 58.556 37.037 0.00 0.00 0.00 2.43
2981 3405 4.199310 GGCACCTGTTGAGCATCTAATTA 58.801 43.478 0.00 0.00 34.92 1.40
3050 3474 0.601558 GTGGACGTCTCTTAGTGGCA 59.398 55.000 16.46 0.00 0.00 4.92
3051 3475 1.000506 GTGGACGTCTCTTAGTGGCAA 59.999 52.381 16.46 0.00 0.00 4.52
3064 3514 7.882791 TCTCTTAGTGGCAATTCACTTCATTTA 59.117 33.333 5.23 0.00 44.74 1.40
3513 3972 6.259167 ACTTGATTTTACTAAGCGTGACAACA 59.741 34.615 0.00 0.00 0.00 3.33
3691 4156 0.413434 TCCACCAGGTCATCTCCTCA 59.587 55.000 0.00 0.00 35.37 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 83 6.958767 AGGTATTAATATGGCCTACATCACC 58.041 40.000 3.32 2.03 41.03 4.02
87 89 5.811100 GCTCGAAGGTATTAATATGGCCTAC 59.189 44.000 3.32 0.00 0.00 3.18
183 185 3.055094 ACGGCTTCACCAATGAGTTCTAT 60.055 43.478 0.00 0.00 39.03 1.98
216 218 0.629058 GGGCCCCAAATAACAGGAGA 59.371 55.000 12.23 0.00 0.00 3.71
258 261 2.294791 CGTGGATGTTTTTACTTGGGCA 59.705 45.455 0.00 0.00 0.00 5.36
303 306 5.725362 ACAGTTCAACTCAGCTCCTTATAC 58.275 41.667 0.00 0.00 0.00 1.47
320 323 1.798813 CGGTGTCTTTGCCTACAGTTC 59.201 52.381 0.00 0.00 0.00 3.01
351 354 2.157738 AGCTACTTCAAAAGCCTGCTG 58.842 47.619 0.00 0.00 39.64 4.41
366 369 3.385111 AGTTGTCCATGGCTACTAGCTAC 59.615 47.826 16.94 4.87 41.99 3.58
372 375 2.026822 CCTCAAGTTGTCCATGGCTACT 60.027 50.000 6.96 11.69 0.00 2.57
399 402 2.363680 AGATGGCGTTGAGATCTACCAG 59.636 50.000 0.00 0.00 0.00 4.00
402 405 4.046938 TCAAGATGGCGTTGAGATCTAC 57.953 45.455 0.00 0.00 30.36 2.59
437 440 0.740737 CCAGGCCCGCAGAAATAAAG 59.259 55.000 0.00 0.00 0.00 1.85
447 450 3.904479 GCTAATTGCCAGGCCCGC 61.904 66.667 9.64 1.18 35.15 6.13
477 480 2.165998 GGAGATGAAAGCTGCCAGTTT 58.834 47.619 0.00 0.00 33.15 2.66
478 481 1.074405 TGGAGATGAAAGCTGCCAGTT 59.926 47.619 0.00 0.00 41.33 3.16
479 482 0.694771 TGGAGATGAAAGCTGCCAGT 59.305 50.000 0.00 0.00 41.33 4.00
480 483 1.065636 TCTGGAGATGAAAGCTGCCAG 60.066 52.381 0.00 0.00 41.33 4.85
481 484 0.986527 TCTGGAGATGAAAGCTGCCA 59.013 50.000 0.00 0.00 41.33 4.92
482 485 1.209019 TCTCTGGAGATGAAAGCTGCC 59.791 52.381 0.00 0.00 41.33 4.85
483 486 2.278854 GTCTCTGGAGATGAAAGCTGC 58.721 52.381 3.52 0.00 42.86 5.25
484 487 2.538437 CGTCTCTGGAGATGAAAGCTG 58.462 52.381 12.92 0.00 45.06 4.24
485 488 1.134848 GCGTCTCTGGAGATGAAAGCT 60.135 52.381 20.14 0.00 45.06 3.74
486 489 1.285578 GCGTCTCTGGAGATGAAAGC 58.714 55.000 20.14 10.15 45.06 3.51
487 490 2.266554 GTGCGTCTCTGGAGATGAAAG 58.733 52.381 20.14 5.30 45.06 2.62
488 491 1.066858 GGTGCGTCTCTGGAGATGAAA 60.067 52.381 20.14 7.50 45.06 2.69
489 492 0.532573 GGTGCGTCTCTGGAGATGAA 59.467 55.000 20.14 9.72 45.06 2.57
490 493 0.611896 TGGTGCGTCTCTGGAGATGA 60.612 55.000 20.14 6.10 45.06 2.92
491 494 0.247460 TTGGTGCGTCTCTGGAGATG 59.753 55.000 13.67 13.67 45.04 2.90
492 495 0.247736 GTTGGTGCGTCTCTGGAGAT 59.752 55.000 3.52 0.00 39.97 2.75
493 496 1.666011 GTTGGTGCGTCTCTGGAGA 59.334 57.895 0.00 0.00 34.56 3.71
494 497 1.734477 CGTTGGTGCGTCTCTGGAG 60.734 63.158 0.00 0.00 0.00 3.86
495 498 1.740332 TTCGTTGGTGCGTCTCTGGA 61.740 55.000 0.00 0.00 0.00 3.86
496 499 0.670546 ATTCGTTGGTGCGTCTCTGG 60.671 55.000 0.00 0.00 0.00 3.86
497 500 0.716108 GATTCGTTGGTGCGTCTCTG 59.284 55.000 0.00 0.00 0.00 3.35
498 501 0.603569 AGATTCGTTGGTGCGTCTCT 59.396 50.000 0.00 0.00 0.00 3.10
499 502 1.126846 CAAGATTCGTTGGTGCGTCTC 59.873 52.381 0.00 0.00 0.00 3.36
500 503 1.148310 CAAGATTCGTTGGTGCGTCT 58.852 50.000 0.00 0.00 0.00 4.18
501 504 0.165944 CCAAGATTCGTTGGTGCGTC 59.834 55.000 6.69 0.00 41.96 5.19
502 505 2.244000 CCAAGATTCGTTGGTGCGT 58.756 52.632 6.69 0.00 41.96 5.24
508 511 2.098298 CCGCGCCAAGATTCGTTG 59.902 61.111 0.00 0.00 0.00 4.10
509 512 3.799755 GCCGCGCCAAGATTCGTT 61.800 61.111 0.00 0.00 0.00 3.85
512 515 4.223964 GTCGCCGCGCCAAGATTC 62.224 66.667 8.21 0.00 0.00 2.52
525 528 4.451652 GCTGCTCTTTGGCGTCGC 62.452 66.667 9.22 9.22 34.52 5.19
526 529 2.320587 AAGCTGCTCTTTGGCGTCG 61.321 57.895 1.00 0.00 34.52 5.12
527 530 1.208614 CAAGCTGCTCTTTGGCGTC 59.791 57.895 1.00 0.00 31.27 5.19
528 531 2.912624 GCAAGCTGCTCTTTGGCGT 61.913 57.895 1.00 0.00 40.96 5.68
529 532 2.126580 GCAAGCTGCTCTTTGGCG 60.127 61.111 1.00 0.00 40.96 5.69
530 533 2.091102 TTGGCAAGCTGCTCTTTGGC 62.091 55.000 16.69 16.69 44.28 4.52
531 534 0.319297 GTTGGCAAGCTGCTCTTTGG 60.319 55.000 1.00 0.00 44.28 3.28
532 535 0.672342 AGTTGGCAAGCTGCTCTTTG 59.328 50.000 1.00 0.00 44.28 2.77
533 536 2.157738 CTAGTTGGCAAGCTGCTCTTT 58.842 47.619 1.00 0.00 44.28 2.52
534 537 1.349026 TCTAGTTGGCAAGCTGCTCTT 59.651 47.619 1.00 0.00 44.28 2.85
535 538 0.979665 TCTAGTTGGCAAGCTGCTCT 59.020 50.000 1.00 0.00 44.28 4.09
536 539 1.669779 CATCTAGTTGGCAAGCTGCTC 59.330 52.381 1.00 0.00 44.28 4.26
537 540 1.004044 ACATCTAGTTGGCAAGCTGCT 59.996 47.619 0.00 0.00 44.28 4.24
538 541 1.457346 ACATCTAGTTGGCAAGCTGC 58.543 50.000 0.00 0.00 44.08 5.25
539 542 4.510038 AAAACATCTAGTTGGCAAGCTG 57.490 40.909 0.00 0.00 41.19 4.24
540 543 4.584325 TGAAAAACATCTAGTTGGCAAGCT 59.416 37.500 0.00 3.83 41.19 3.74
541 544 4.870363 TGAAAAACATCTAGTTGGCAAGC 58.130 39.130 0.00 0.00 41.19 4.01
576 579 6.368243 TGCCATGTTAAAATGCAACACATAAG 59.632 34.615 0.00 0.00 38.34 1.73
725 734 3.828451 AGTTGCCATGTTAGCACAAGAAT 59.172 39.130 0.00 0.00 40.69 2.40
726 735 3.221771 AGTTGCCATGTTAGCACAAGAA 58.778 40.909 0.00 0.00 40.69 2.52
1041 1073 0.179062 GATTCTGCTGCGGTGGATCT 60.179 55.000 8.55 0.00 0.00 2.75
1371 1428 2.565391 TCGTAAATCTCACCAAGCCAGA 59.435 45.455 0.00 0.00 0.00 3.86
1470 1527 1.071542 TGATCTTTCCACGAGGCACAA 59.928 47.619 0.00 0.00 33.74 3.33
1484 1541 2.165845 CCTCGTACGGGACTTTGATCTT 59.834 50.000 18.83 0.00 0.00 2.40
1838 1907 2.350772 CCGCACAAGATTTTCAGGACAC 60.351 50.000 0.00 0.00 0.00 3.67
2034 2111 3.270027 TCTTGTTATGATCAGGTTGCCG 58.730 45.455 0.09 0.00 0.00 5.69
2204 2442 9.768662 AGTTGAAGTGCATGAAAAATAGAAAAT 57.231 25.926 0.00 0.00 0.00 1.82
2279 2535 6.369059 AGAAAGAAATATCAGTTGCCATCG 57.631 37.500 0.00 0.00 0.00 3.84
2324 2596 2.424557 AGACAGTCGACGTACATGAGT 58.575 47.619 10.46 0.00 0.00 3.41
2419 2777 4.094887 GCACAACCTTGACATCGTTGATAT 59.905 41.667 17.49 0.00 39.36 1.63
2428 2786 1.338973 CAGCAAGCACAACCTTGACAT 59.661 47.619 6.12 0.00 43.79 3.06
2486 2845 8.890718 GTGTAGAGAAAGAAACCAAAACTAACT 58.109 33.333 0.00 0.00 0.00 2.24
2666 3054 5.294060 AGTTCATGTGTTGCAAAAATGGAAC 59.706 36.000 18.99 18.99 39.97 3.62
2814 3227 1.681166 GGAGCTGAGTGCATGTCCATT 60.681 52.381 0.00 0.00 45.94 3.16
2981 3405 0.323725 ATTCCGGATGCAAACTGCCT 60.324 50.000 4.15 0.00 44.23 4.75
3050 3474 6.095440 CCGTTCTGGGATAAATGAAGTGAATT 59.905 38.462 0.00 0.00 0.00 2.17
3051 3475 5.590259 CCGTTCTGGGATAAATGAAGTGAAT 59.410 40.000 0.00 0.00 0.00 2.57
3064 3514 0.175760 CGATGTGTCCGTTCTGGGAT 59.824 55.000 0.00 0.00 38.61 3.85
3287 3738 4.994852 CCGTATGTTCTTTGACTTTCTCCA 59.005 41.667 0.00 0.00 0.00 3.86
3513 3972 3.491447 GGCAATTGTCAGACAGCAAACTT 60.491 43.478 4.85 0.00 0.00 2.66
3595 4060 1.021202 CGTTGGTGCCTGTTTCTTCA 58.979 50.000 0.00 0.00 0.00 3.02
3691 4156 2.483013 CCGGTGTTGGACATCATCGTAT 60.483 50.000 13.12 0.00 36.59 3.06


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

AutoCloner maintained by Alex Coulton.