Multiple sequence alignment - TraesCS2B01G362300

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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 TraesCS2B01G362300 chr2B 100.000 4606 0 0 1 4606 515911686 515916291 0.000000e+00 8506.0
1 TraesCS2B01G362300 chr2B 77.981 2575 443 69 1093 3607 699829976 699827466 0.000000e+00 1500.0
2 TraesCS2B01G362300 chr2B 88.889 405 36 6 1 403 693752185 693752582 1.490000e-134 490.0
3 TraesCS2B01G362300 chr2B 79.442 788 69 30 3868 4606 2119801 2120544 5.390000e-129 472.0
4 TraesCS2B01G362300 chr2B 76.521 937 169 30 984 1881 702727620 702726696 9.030000e-127 464.0
5 TraesCS2B01G362300 chr2B 79.827 694 86 24 42 721 765387832 765387179 1.510000e-124 457.0
6 TraesCS2B01G362300 chr2B 84.651 430 30 10 3868 4277 59764627 59764214 3.340000e-106 396.0
7 TraesCS2B01G362300 chr2B 96.875 32 1 0 984 1015 699830458 699830427 2.000000e-03 54.7
8 TraesCS2B01G362300 chr2D 95.076 4102 89 37 1 4090 438246628 438250628 0.000000e+00 6351.0
9 TraesCS2B01G362300 chr2D 78.072 2604 443 70 1071 3607 581523617 581526159 0.000000e+00 1528.0
10 TraesCS2B01G362300 chr2D 97.914 671 13 1 3348 4017 438251288 438250618 0.000000e+00 1160.0
11 TraesCS2B01G362300 chr2D 95.630 389 9 1 4226 4606 438251672 438252060 6.550000e-173 617.0
12 TraesCS2B01G362300 chr2D 96.753 308 8 2 3922 4227 438251318 438251625 3.180000e-141 512.0
13 TraesCS2B01G362300 chr2D 89.630 405 33 6 1 403 375018296 375018693 1.480000e-139 507.0
14 TraesCS2B01G362300 chr2D 77.966 767 143 18 1105 1852 583233881 583233122 1.510000e-124 457.0
15 TraesCS2B01G362300 chr2D 82.222 90 10 4 984 1070 545498532 545498618 6.390000e-09 73.1
16 TraesCS2B01G362300 chr2D 80.851 94 9 6 984 1071 583234023 583233933 1.070000e-06 65.8
17 TraesCS2B01G362300 chr2D 78.889 90 13 4 984 1070 581523479 581523565 6.440000e-04 56.5
18 TraesCS2B01G362300 chr1A 86.015 2567 237 62 1099 3608 566587857 566585356 0.000000e+00 2639.0
19 TraesCS2B01G362300 chr1A 89.286 196 21 0 4078 4273 264384710 264384905 3.560000e-61 246.0
20 TraesCS2B01G362300 chr1B 85.991 2120 213 36 1099 3176 657283909 657281832 0.000000e+00 2193.0
21 TraesCS2B01G362300 chr1B 92.727 55 4 0 4225 4279 302007166 302007112 3.820000e-11 80.5
22 TraesCS2B01G362300 chr1B 81.579 76 10 4 3090 3163 407935755 407935682 4.980000e-05 60.2
23 TraesCS2B01G362300 chr3B 88.451 736 72 7 1 723 26688215 26687480 0.000000e+00 876.0
24 TraesCS2B01G362300 chr3B 79.532 684 73 37 41 721 811013482 811012863 4.260000e-115 425.0
25 TraesCS2B01G362300 chr3A 88.350 721 65 6 14 719 391883320 391882604 0.000000e+00 848.0
26 TraesCS2B01G362300 chr2A 75.587 1745 286 91 1698 3355 718379349 718377658 0.000000e+00 734.0
27 TraesCS2B01G362300 chr2A 82.022 89 10 3 984 1069 687506795 687506710 2.300000e-08 71.3
28 TraesCS2B01G362300 chr4B 87.648 591 61 5 1 587 605798026 605798608 0.000000e+00 676.0
29 TraesCS2B01G362300 chr5D 87.842 584 51 6 14 584 520582848 520582272 0.000000e+00 667.0
30 TraesCS2B01G362300 chr5D 79.484 775 69 24 3868 4599 127932204 127932931 6.980000e-128 468.0
31 TraesCS2B01G362300 chr5D 78.927 783 74 29 3867 4606 227590877 227590143 9.090000e-122 448.0
32 TraesCS2B01G362300 chr5D 85.641 195 15 4 3868 4049 544283239 544283433 4.700000e-45 193.0
33 TraesCS2B01G362300 chr7D 81.078 761 75 25 3868 4606 88375387 88376100 1.130000e-150 544.0
34 TraesCS2B01G362300 chr7D 78.900 782 75 28 3868 4606 340188888 340188154 9.090000e-122 448.0
35 TraesCS2B01G362300 chr7A 82.416 654 85 18 80 711 731343580 731344225 1.130000e-150 544.0
36 TraesCS2B01G362300 chr7A 77.281 581 74 21 4023 4579 406994152 406994698 5.830000e-74 289.0
37 TraesCS2B01G362300 chr7A 86.667 180 18 3 3900 4074 406993976 406994154 1.310000e-45 195.0
38 TraesCS2B01G362300 chr6D 89.409 406 33 7 1 403 108178978 108179376 1.910000e-138 503.0
39 TraesCS2B01G362300 chr4D 88.642 405 37 9 1 403 472188 472585 6.930000e-133 484.0
40 TraesCS2B01G362300 chr5B 79.490 785 68 30 3868 4603 510707161 510706421 5.390000e-129 472.0
41 TraesCS2B01G362300 chr7B 84.884 430 29 15 3868 4277 727382490 727382903 7.180000e-108 401.0
42 TraesCS2B01G362300 chr7B 77.333 300 54 12 433 721 563731989 563732285 1.030000e-36 165.0
43 TraesCS2B01G362300 chr5A 84.028 432 31 12 3868 4277 525076874 525076459 9.350000e-102 381.0
44 TraesCS2B01G362300 chr1D 86.441 354 31 9 3941 4279 206113637 206113286 5.630000e-99 372.0
45 TraesCS2B01G362300 chrUn 76.271 295 62 4 429 721 28408450 28408162 2.870000e-32 150.0
46 TraesCS2B01G362300 chr3D 88.525 61 6 1 663 722 615243939 615243879 6.390000e-09 73.1


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 TraesCS2B01G362300 chr2B 515911686 515916291 4605 False 8506.000000 8506 100.000000 1 4606 1 chr2B.!!$F2 4605
1 TraesCS2B01G362300 chr2B 699827466 699830458 2992 True 777.350000 1500 87.428000 984 3607 2 chr2B.!!$R4 2623
2 TraesCS2B01G362300 chr2B 2119801 2120544 743 False 472.000000 472 79.442000 3868 4606 1 chr2B.!!$F1 738
3 TraesCS2B01G362300 chr2B 702726696 702727620 924 True 464.000000 464 76.521000 984 1881 1 chr2B.!!$R2 897
4 TraesCS2B01G362300 chr2B 765387179 765387832 653 True 457.000000 457 79.827000 42 721 1 chr2B.!!$R3 679
5 TraesCS2B01G362300 chr2D 438246628 438252060 5432 False 2493.333333 6351 95.819667 1 4606 3 chr2D.!!$F3 4605
6 TraesCS2B01G362300 chr2D 438250618 438251288 670 True 1160.000000 1160 97.914000 3348 4017 1 chr2D.!!$R1 669
7 TraesCS2B01G362300 chr2D 581523479 581526159 2680 False 792.250000 1528 78.480500 984 3607 2 chr2D.!!$F4 2623
8 TraesCS2B01G362300 chr2D 583233122 583234023 901 True 261.400000 457 79.408500 984 1852 2 chr2D.!!$R2 868
9 TraesCS2B01G362300 chr1A 566585356 566587857 2501 True 2639.000000 2639 86.015000 1099 3608 1 chr1A.!!$R1 2509
10 TraesCS2B01G362300 chr1B 657281832 657283909 2077 True 2193.000000 2193 85.991000 1099 3176 1 chr1B.!!$R3 2077
11 TraesCS2B01G362300 chr3B 26687480 26688215 735 True 876.000000 876 88.451000 1 723 1 chr3B.!!$R1 722
12 TraesCS2B01G362300 chr3B 811012863 811013482 619 True 425.000000 425 79.532000 41 721 1 chr3B.!!$R2 680
13 TraesCS2B01G362300 chr3A 391882604 391883320 716 True 848.000000 848 88.350000 14 719 1 chr3A.!!$R1 705
14 TraesCS2B01G362300 chr2A 718377658 718379349 1691 True 734.000000 734 75.587000 1698 3355 1 chr2A.!!$R2 1657
15 TraesCS2B01G362300 chr4B 605798026 605798608 582 False 676.000000 676 87.648000 1 587 1 chr4B.!!$F1 586
16 TraesCS2B01G362300 chr5D 520582272 520582848 576 True 667.000000 667 87.842000 14 584 1 chr5D.!!$R2 570
17 TraesCS2B01G362300 chr5D 127932204 127932931 727 False 468.000000 468 79.484000 3868 4599 1 chr5D.!!$F1 731
18 TraesCS2B01G362300 chr5D 227590143 227590877 734 True 448.000000 448 78.927000 3867 4606 1 chr5D.!!$R1 739
19 TraesCS2B01G362300 chr7D 88375387 88376100 713 False 544.000000 544 81.078000 3868 4606 1 chr7D.!!$F1 738
20 TraesCS2B01G362300 chr7D 340188154 340188888 734 True 448.000000 448 78.900000 3868 4606 1 chr7D.!!$R1 738
21 TraesCS2B01G362300 chr7A 731343580 731344225 645 False 544.000000 544 82.416000 80 711 1 chr7A.!!$F1 631
22 TraesCS2B01G362300 chr7A 406993976 406994698 722 False 242.000000 289 81.974000 3900 4579 2 chr7A.!!$F2 679
23 TraesCS2B01G362300 chr5B 510706421 510707161 740 True 472.000000 472 79.490000 3868 4603 1 chr5B.!!$R1 735

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
512 548 0.171007 ATTTTCGATGCGGGCTGTTG 59.829 50.0 0.00 0.0 0.00 3.33 F
829 868 0.249699 TCGTGGCATAGGCGTATTGG 60.250 55.0 0.00 0.0 42.47 3.16 F
1363 1787 0.250338 GGTGGAGAACGAGCAAACCT 60.250 55.0 0.00 0.0 0.00 3.50 F
2838 3419 2.561419 CCGAGACTCTCCAAGTTTACCA 59.439 50.0 0.03 0.0 38.74 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2656 3222 4.651778 TGGCACATAGTTTTGAGCTACTT 58.348 39.130 0.0 0.0 34.20 2.24 R
2925 3506 1.889170 CTGCTACATATCCCGAGAGCA 59.111 52.381 0.0 0.0 37.58 4.26 R
3325 3909 1.771255 AGAGAGAGAGAGAGAGGGAGC 59.229 57.143 0.0 0.0 0.00 4.70 R
3770 4402 2.560542 ACAAGTTCACAAACAAGGTGCA 59.439 40.909 0.0 0.0 37.88 4.57 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
33 34 6.487689 TTTTTCACGCTTCCAAATTTGTTT 57.512 29.167 16.73 0.00 0.00 2.83
53 54 9.631452 TTTGTTTGGGATTTTTCAAAATTGTTC 57.369 25.926 0.00 0.00 38.64 3.18
54 55 8.572855 TGTTTGGGATTTTTCAAAATTGTTCT 57.427 26.923 0.00 0.00 38.64 3.01
55 56 8.672815 TGTTTGGGATTTTTCAAAATTGTTCTC 58.327 29.630 0.00 0.00 38.64 2.87
59 60 9.927668 TGGGATTTTTCAAAATTGTTCTCTATC 57.072 29.630 0.00 0.00 38.64 2.08
131 153 1.601914 GCGCTTCCAAATTTGTTCGGT 60.602 47.619 16.73 0.00 0.00 4.69
365 400 7.912056 TGTCACAAATTCCAAAAATGTTTGA 57.088 28.000 10.09 0.00 45.99 2.69
411 447 7.993821 TTCAGAAAATTTGTTTGCGTAATCA 57.006 28.000 0.00 0.00 0.00 2.57
473 509 1.534163 CGACACAGTAGTCAAGTCCGA 59.466 52.381 0.00 0.00 38.43 4.55
512 548 0.171007 ATTTTCGATGCGGGCTGTTG 59.829 50.000 0.00 0.00 0.00 3.33
725 764 3.838317 CGTCCAATATGATCTCCCCCTAA 59.162 47.826 0.00 0.00 0.00 2.69
726 765 4.081420 CGTCCAATATGATCTCCCCCTAAG 60.081 50.000 0.00 0.00 0.00 2.18
727 766 3.846588 TCCAATATGATCTCCCCCTAAGC 59.153 47.826 0.00 0.00 0.00 3.09
728 767 3.588842 CCAATATGATCTCCCCCTAAGCA 59.411 47.826 0.00 0.00 0.00 3.91
730 769 1.439543 ATGATCTCCCCCTAAGCACC 58.560 55.000 0.00 0.00 0.00 5.01
732 771 1.759459 GATCTCCCCCTAAGCACCGG 61.759 65.000 0.00 0.00 0.00 5.28
780 819 0.629058 ATGGATAAAGTTGGGCCGGT 59.371 50.000 1.90 0.00 0.00 5.28
829 868 0.249699 TCGTGGCATAGGCGTATTGG 60.250 55.000 0.00 0.00 42.47 3.16
1246 1667 2.432628 GTCGGAGCAACGAGGTGG 60.433 66.667 2.87 0.00 44.42 4.61
1320 1744 4.021925 GCCTTGGCTCCAGACGGT 62.022 66.667 4.11 0.00 0.00 4.83
1363 1787 0.250338 GGTGGAGAACGAGCAAACCT 60.250 55.000 0.00 0.00 0.00 3.50
1739 2181 5.736207 GCCTTTTCTTCACCTTCGATTGTTT 60.736 40.000 0.00 0.00 0.00 2.83
2725 3294 4.431416 TGTGTTTAATCTGGACACCACT 57.569 40.909 5.21 0.00 42.18 4.00
2838 3419 2.561419 CCGAGACTCTCCAAGTTTACCA 59.439 50.000 0.03 0.00 38.74 3.25
2925 3506 4.647564 ATGTTCTTGACAGGAAGGTCAT 57.352 40.909 0.00 0.00 46.37 3.06
3325 3909 2.266554 GTGCAAGGTGAATCTCTCTCG 58.733 52.381 0.00 0.00 0.00 4.04
3326 3910 1.285578 GCAAGGTGAATCTCTCTCGC 58.714 55.000 0.00 0.00 0.00 5.03
3327 3911 1.134848 GCAAGGTGAATCTCTCTCGCT 60.135 52.381 0.00 0.00 0.00 4.93
3328 3912 2.808244 CAAGGTGAATCTCTCTCGCTC 58.192 52.381 0.00 0.00 0.00 5.03
3329 3913 1.398692 AGGTGAATCTCTCTCGCTCC 58.601 55.000 0.00 0.00 0.00 4.70
3330 3914 0.387565 GGTGAATCTCTCTCGCTCCC 59.612 60.000 0.00 0.00 0.00 4.30
3331 3915 1.398692 GTGAATCTCTCTCGCTCCCT 58.601 55.000 0.00 0.00 0.00 4.20
3332 3916 1.336755 GTGAATCTCTCTCGCTCCCTC 59.663 57.143 0.00 0.00 0.00 4.30
3333 3917 1.214175 TGAATCTCTCTCGCTCCCTCT 59.786 52.381 0.00 0.00 0.00 3.69
3334 3918 1.880027 GAATCTCTCTCGCTCCCTCTC 59.120 57.143 0.00 0.00 0.00 3.20
3335 3919 1.140312 ATCTCTCTCGCTCCCTCTCT 58.860 55.000 0.00 0.00 0.00 3.10
3336 3920 0.468226 TCTCTCTCGCTCCCTCTCTC 59.532 60.000 0.00 0.00 0.00 3.20
3337 3921 0.469917 CTCTCTCGCTCCCTCTCTCT 59.530 60.000 0.00 0.00 0.00 3.10
3338 3922 0.468226 TCTCTCGCTCCCTCTCTCTC 59.532 60.000 0.00 0.00 0.00 3.20
3339 3923 0.469917 CTCTCGCTCCCTCTCTCTCT 59.530 60.000 0.00 0.00 0.00 3.10
3340 3924 0.468226 TCTCGCTCCCTCTCTCTCTC 59.532 60.000 0.00 0.00 0.00 3.20
3341 3925 0.469917 CTCGCTCCCTCTCTCTCTCT 59.530 60.000 0.00 0.00 0.00 3.10
3342 3926 0.468226 TCGCTCCCTCTCTCTCTCTC 59.532 60.000 0.00 0.00 0.00 3.20
3481 4090 1.149148 GTTGAGACTGAGGAAACGCC 58.851 55.000 0.00 0.00 0.00 5.68
3491 4100 1.275573 GAGGAAACGCCCTGTAAGAGT 59.724 52.381 0.00 0.00 36.49 3.24
3639 4248 4.584325 TGATGGGGAGCAAGCATTTATTAC 59.416 41.667 0.00 0.00 0.00 1.89
3695 4304 2.423538 ACCAGTGACAAAGTGAACTTGC 59.576 45.455 0.00 0.00 36.12 4.01
3766 4398 6.827586 TTGACCAAGTGACAAAGTTAACTT 57.172 33.333 15.22 15.22 37.91 2.66
3767 4399 6.189677 TGACCAAGTGACAAAGTTAACTTG 57.810 37.500 21.22 16.40 45.81 3.16
3768 4400 5.708230 TGACCAAGTGACAAAGTTAACTTGT 59.292 36.000 21.22 19.12 45.13 3.16
3769 4401 6.879993 TGACCAAGTGACAAAGTTAACTTGTA 59.120 34.615 21.22 5.91 45.13 2.41
3770 4402 7.554835 TGACCAAGTGACAAAGTTAACTTGTAT 59.445 33.333 21.22 9.92 45.13 2.29
3771 4403 7.703328 ACCAAGTGACAAAGTTAACTTGTATG 58.297 34.615 21.22 17.27 45.13 2.39
3772 4404 6.636850 CCAAGTGACAAAGTTAACTTGTATGC 59.363 38.462 21.22 11.77 45.13 3.14
3773 4405 6.935741 AGTGACAAAGTTAACTTGTATGCA 57.064 33.333 21.22 14.00 36.12 3.96
3774 4406 6.725246 AGTGACAAAGTTAACTTGTATGCAC 58.275 36.000 21.22 21.89 36.12 4.57
3775 4407 5.912955 GTGACAAAGTTAACTTGTATGCACC 59.087 40.000 21.22 9.48 36.12 5.01
3776 4408 5.825679 TGACAAAGTTAACTTGTATGCACCT 59.174 36.000 21.22 0.00 36.12 4.00
3777 4409 6.320164 TGACAAAGTTAACTTGTATGCACCTT 59.680 34.615 21.22 0.00 36.12 3.50
3778 4410 6.503524 ACAAAGTTAACTTGTATGCACCTTG 58.496 36.000 21.22 13.32 36.12 3.61
3779 4411 6.096282 ACAAAGTTAACTTGTATGCACCTTGT 59.904 34.615 21.22 13.91 36.12 3.16
3780 4412 6.709018 AAGTTAACTTGTATGCACCTTGTT 57.291 33.333 19.94 0.00 34.38 2.83
3781 4413 6.709018 AGTTAACTTGTATGCACCTTGTTT 57.291 33.333 1.12 0.00 0.00 2.83
3782 4414 6.503524 AGTTAACTTGTATGCACCTTGTTTG 58.496 36.000 1.12 0.00 0.00 2.93
3783 4415 6.096282 AGTTAACTTGTATGCACCTTGTTTGT 59.904 34.615 1.12 0.00 0.00 2.83
3784 4416 4.305989 ACTTGTATGCACCTTGTTTGTG 57.694 40.909 0.00 0.00 36.79 3.33
3785 4417 3.951037 ACTTGTATGCACCTTGTTTGTGA 59.049 39.130 0.00 0.00 35.74 3.58
3786 4418 4.400884 ACTTGTATGCACCTTGTTTGTGAA 59.599 37.500 0.00 0.00 35.74 3.18
3787 4419 4.300189 TGTATGCACCTTGTTTGTGAAC 57.700 40.909 0.00 0.00 35.74 3.18
3788 4420 3.951037 TGTATGCACCTTGTTTGTGAACT 59.049 39.130 0.00 0.00 36.70 3.01
3842 4474 3.888323 TGAACTTTATGCACCTTGCTTGA 59.112 39.130 0.00 0.00 45.31 3.02
4019 4713 3.385384 CAGTCCTCCGGCTGCTCA 61.385 66.667 0.00 0.00 0.00 4.26
4067 4770 1.822581 GTGTGAAACTGAAACGCACC 58.177 50.000 0.00 0.00 38.55 5.01
4187 5766 4.749245 AAATTGTGAGTTCTTGTAGCCG 57.251 40.909 0.00 0.00 0.00 5.52
4533 6189 4.855340 TGAAGTAAGGGGATTCATTGGAC 58.145 43.478 0.00 0.00 0.00 4.02
4565 6221 4.894114 ACGGTTGATATTAGAGGCTACAGT 59.106 41.667 0.00 0.00 0.00 3.55
4567 6223 6.720288 ACGGTTGATATTAGAGGCTACAGTAT 59.280 38.462 0.00 0.00 0.00 2.12
4586 6242 7.548097 ACAGTATCCATACAGTAACAACTGAG 58.452 38.462 12.23 2.40 39.99 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 9.927668 GATAGAGAACAATTTTGAAAAATCCCA 57.072 29.630 0.00 0.00 37.62 4.37
192 227 1.059942 GAACAAATTTGGAAGCGCGG 58.940 50.000 21.74 0.00 0.00 6.46
317 352 9.244799 ACATTTCTTTAAAGGACGAACATTTTC 57.755 29.630 15.13 0.00 34.35 2.29
411 447 9.498307 CTGTAGTGAAAAACTTTTTGAACGTAT 57.502 29.630 4.17 0.00 40.56 3.06
473 509 8.234546 CGAAAATAACTTAGCACAAGGTACAAT 58.765 33.333 0.00 0.00 0.00 2.71
512 548 6.481954 ACTAACTAGCATTGTTTGTAGTGC 57.518 37.500 0.00 0.00 33.22 4.40
715 754 2.365105 CCGGTGCTTAGGGGGAGA 60.365 66.667 0.00 0.00 0.00 3.71
726 765 4.993905 ACAAATATTAGAAAAGCCGGTGC 58.006 39.130 1.90 0.00 37.95 5.01
727 766 8.973835 TTAAACAAATATTAGAAAAGCCGGTG 57.026 30.769 1.90 0.00 0.00 4.94
728 767 9.016438 TCTTAAACAAATATTAGAAAAGCCGGT 57.984 29.630 1.90 0.00 0.00 5.28
759 798 1.681264 CCGGCCCAACTTTATCCATTC 59.319 52.381 0.00 0.00 0.00 2.67
946 988 1.306642 TTCCACTCCGAGTCGCTCTC 61.307 60.000 7.12 2.20 39.62 3.20
1246 1667 2.231478 TGAGGTCGTGAAAGATCTCCAC 59.769 50.000 14.75 14.75 45.36 4.02
2656 3222 4.651778 TGGCACATAGTTTTGAGCTACTT 58.348 39.130 0.00 0.00 34.20 2.24
2725 3294 7.521585 CGTGCAAGTATATCCATAGTGTGACTA 60.522 40.741 0.00 0.00 34.82 2.59
2925 3506 1.889170 CTGCTACATATCCCGAGAGCA 59.111 52.381 0.00 0.00 37.58 4.26
3325 3909 1.771255 AGAGAGAGAGAGAGAGGGAGC 59.229 57.143 0.00 0.00 0.00 4.70
3326 3910 3.312890 AGAGAGAGAGAGAGAGAGGGAG 58.687 54.545 0.00 0.00 0.00 4.30
3327 3911 3.051803 AGAGAGAGAGAGAGAGAGAGGGA 60.052 52.174 0.00 0.00 0.00 4.20
3328 3912 3.312890 AGAGAGAGAGAGAGAGAGAGGG 58.687 54.545 0.00 0.00 0.00 4.30
3329 3913 4.222336 AGAGAGAGAGAGAGAGAGAGAGG 58.778 52.174 0.00 0.00 0.00 3.69
3330 3914 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
3331 3915 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
3332 3916 4.892345 TGAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
3333 3917 4.871822 TGAGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
3334 3918 5.604758 TTGAGAGAGAGAGAGAGAGAGAG 57.395 47.826 0.00 0.00 0.00 3.20
3335 3919 6.566079 AATTGAGAGAGAGAGAGAGAGAGA 57.434 41.667 0.00 0.00 0.00 3.10
3336 3920 7.094890 GCATAATTGAGAGAGAGAGAGAGAGAG 60.095 44.444 0.00 0.00 0.00 3.20
3337 3921 6.712095 GCATAATTGAGAGAGAGAGAGAGAGA 59.288 42.308 0.00 0.00 0.00 3.10
3338 3922 6.487668 TGCATAATTGAGAGAGAGAGAGAGAG 59.512 42.308 0.00 0.00 0.00 3.20
3339 3923 6.363882 TGCATAATTGAGAGAGAGAGAGAGA 58.636 40.000 0.00 0.00 0.00 3.10
3340 3924 6.638096 TGCATAATTGAGAGAGAGAGAGAG 57.362 41.667 0.00 0.00 0.00 3.20
3341 3925 6.015265 CCATGCATAATTGAGAGAGAGAGAGA 60.015 42.308 0.00 0.00 0.00 3.10
3342 3926 6.160684 CCATGCATAATTGAGAGAGAGAGAG 58.839 44.000 0.00 0.00 0.00 3.20
3481 4090 3.066900 CACCGGTCTCATACTCTTACAGG 59.933 52.174 2.59 0.00 0.00 4.00
3491 4100 5.806818 TGTTTAATTTCCACCGGTCTCATA 58.193 37.500 2.59 0.00 0.00 2.15
3729 4338 8.734386 GTCACTTGGTCAAATGAGAGAATAAAT 58.266 33.333 0.00 0.00 0.00 1.40
3766 4398 3.951037 AGTTCACAAACAAGGTGCATACA 59.049 39.130 0.00 0.00 37.88 2.29
3767 4399 4.568152 AGTTCACAAACAAGGTGCATAC 57.432 40.909 0.00 0.00 37.88 2.39
3768 4400 4.400884 ACAAGTTCACAAACAAGGTGCATA 59.599 37.500 0.00 0.00 37.88 3.14
3769 4401 3.195396 ACAAGTTCACAAACAAGGTGCAT 59.805 39.130 0.00 0.00 37.88 3.96
3770 4402 2.560542 ACAAGTTCACAAACAAGGTGCA 59.439 40.909 0.00 0.00 37.88 4.57
3771 4403 3.230743 ACAAGTTCACAAACAAGGTGC 57.769 42.857 0.00 0.00 37.88 5.01
3772 4404 5.163561 ACCATACAAGTTCACAAACAAGGTG 60.164 40.000 0.00 0.00 37.88 4.00
3773 4405 4.953579 ACCATACAAGTTCACAAACAAGGT 59.046 37.500 0.00 0.00 37.88 3.50
3774 4406 5.067153 TCACCATACAAGTTCACAAACAAGG 59.933 40.000 0.00 0.00 37.88 3.61
3775 4407 6.130298 TCACCATACAAGTTCACAAACAAG 57.870 37.500 0.00 0.00 37.88 3.16
3776 4408 6.151985 AGTTCACCATACAAGTTCACAAACAA 59.848 34.615 0.00 0.00 37.88 2.83
3777 4409 5.650266 AGTTCACCATACAAGTTCACAAACA 59.350 36.000 0.00 0.00 37.88 2.83
3778 4410 6.131544 AGTTCACCATACAAGTTCACAAAC 57.868 37.500 0.00 0.00 35.50 2.93
3779 4411 7.521423 GCATAGTTCACCATACAAGTTCACAAA 60.521 37.037 0.00 0.00 0.00 2.83
3780 4412 6.072728 GCATAGTTCACCATACAAGTTCACAA 60.073 38.462 0.00 0.00 0.00 3.33
3781 4413 5.411361 GCATAGTTCACCATACAAGTTCACA 59.589 40.000 0.00 0.00 0.00 3.58
3782 4414 5.411361 TGCATAGTTCACCATACAAGTTCAC 59.589 40.000 0.00 0.00 0.00 3.18
3783 4415 5.411361 GTGCATAGTTCACCATACAAGTTCA 59.589 40.000 0.00 0.00 0.00 3.18
3784 4416 5.869350 GTGCATAGTTCACCATACAAGTTC 58.131 41.667 0.00 0.00 0.00 3.01
3785 4417 5.880054 GTGCATAGTTCACCATACAAGTT 57.120 39.130 0.00 0.00 0.00 2.66
3842 4474 4.030216 ACCTCAATGTCCACCAAAAGTTT 58.970 39.130 0.00 0.00 0.00 2.66
4187 5766 2.683968 TGCTCCAGACAACAATCGTAC 58.316 47.619 0.00 0.00 0.00 3.67
4533 6189 2.795175 ATATCAACCGTCCACGCTAG 57.205 50.000 0.00 0.00 38.18 3.42
4586 6242 2.817396 GTTCGGCTCCTCTGCAGC 60.817 66.667 9.47 0.00 36.02 5.25


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

AutoCloner maintained by Alex Coulton.