Multiple sequence alignment - TraesCS7D01G132500

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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 TraesCS7D01G132500 chr7D 100.000 3631 0 0 1 3631 83758766 83762396 0.000000e+00 6706
1 TraesCS7D01G132500 chr7D 98.495 731 10 1 2795 3525 366437204 366436475 0.000000e+00 1288
2 TraesCS7D01G132500 chr2D 99.155 2603 21 1 927 3529 238091673 238089072 0.000000e+00 4684
3 TraesCS7D01G132500 chr2B 97.746 1420 31 1 1 1419 419938356 419939775 0.000000e+00 2444
4 TraesCS7D01G132500 chr2B 94.456 1425 71 5 1 1419 528809704 528808282 0.000000e+00 2187
5 TraesCS7D01G132500 chr2B 97.143 1015 27 2 2520 3533 419940954 419941967 0.000000e+00 1712
6 TraesCS7D01G132500 chr2B 95.967 719 26 2 1421 2139 419939882 419940597 0.000000e+00 1164
7 TraesCS7D01G132500 chr2B 94.854 719 34 2 1421 2139 528808175 528807460 0.000000e+00 1120
8 TraesCS7D01G132500 chr2B 91.429 385 18 4 2520 2903 528797531 528797161 6.950000e-142 514
9 TraesCS7D01G132500 chr2B 97.143 70 2 0 2145 2214 528807394 528807325 6.370000e-23 119
10 TraesCS7D01G132500 chr2B 97.101 69 2 0 2143 2211 419940659 419940727 2.290000e-22 117
11 TraesCS7D01G132500 chr7B 97.745 1419 30 1 1 1419 73167770 73169186 0.000000e+00 2442
12 TraesCS7D01G132500 chr7B 95.088 1018 37 6 2521 3528 73170368 73171382 0.000000e+00 1591
13 TraesCS7D01G132500 chr7B 97.497 719 18 0 1421 2139 73169293 73170011 0.000000e+00 1229
14 TraesCS7D01G132500 chr7B 96.707 668 21 1 1421 2088 517903834 517904500 0.000000e+00 1110
15 TraesCS7D01G132500 chr7B 97.222 72 2 0 2143 2214 73170070 73170141 4.920000e-24 122
16 TraesCS7D01G132500 chr3B 97.393 1419 34 2 1 1419 766341737 766343152 0.000000e+00 2412
17 TraesCS7D01G132500 chr3B 95.000 1020 38 8 2521 3532 766344300 766345314 0.000000e+00 1589
18 TraesCS7D01G132500 chr3B 96.106 719 28 0 1421 2139 766343259 766343977 0.000000e+00 1173
19 TraesCS7D01G132500 chr3B 97.222 72 2 0 2143 2214 766344040 766344111 4.920000e-24 122
20 TraesCS7D01G132500 chr6B 96.443 1209 41 2 1 1208 676683458 676684665 0.000000e+00 1993
21 TraesCS7D01G132500 chr6B 96.794 1123 35 1 297 1419 617031452 617032573 0.000000e+00 1873
22 TraesCS7D01G132500 chr6B 95.772 1017 42 1 2514 3529 617033750 617034766 0.000000e+00 1639
23 TraesCS7D01G132500 chr6B 94.175 927 53 1 2599 3525 676708372 676709297 0.000000e+00 1411
24 TraesCS7D01G132500 chr6B 96.255 721 23 2 1421 2139 617032680 617033398 0.000000e+00 1179
25 TraesCS7D01G132500 chr6B 96.245 719 27 0 1421 2139 676703560 676704278 0.000000e+00 1179
26 TraesCS7D01G132500 chr6B 92.162 370 11 8 2514 2882 138658730 138659082 1.160000e-139 507
27 TraesCS7D01G132500 chr6B 93.852 244 8 3 2240 2476 27712618 27712375 9.580000e-96 361
28 TraesCS7D01G132500 chr6B 95.714 70 3 0 2145 2214 138658441 138658510 2.960000e-21 113
29 TraesCS7D01G132500 chr4B 95.496 1199 53 1 3 1201 43573990 43572793 0.000000e+00 1914
30 TraesCS7D01G132500 chr4B 95.413 1199 54 1 3 1201 43587856 43586659 0.000000e+00 1908
31 TraesCS7D01G132500 chr4B 95.410 719 32 1 1421 2139 43564050 43563333 0.000000e+00 1144
32 TraesCS7D01G132500 chr4B 94.231 572 28 5 2963 3532 43562598 43562030 0.000000e+00 869
33 TraesCS7D01G132500 chr4B 92.582 337 22 2 2568 2903 43562945 43562611 7.050000e-132 481
34 TraesCS7D01G132500 chr4B 98.571 70 1 0 2145 2214 43563267 43563198 1.370000e-24 124
35 TraesCS7D01G132500 chr1B 95.672 1109 47 1 311 1419 344040425 344041532 0.000000e+00 1781
36 TraesCS7D01G132500 chr1B 96.355 439 14 2 2964 3401 344043099 344043536 0.000000e+00 721
37 TraesCS7D01G132500 chr1B 93.893 393 21 3 2514 2903 344042694 344043086 1.120000e-164 590
38 TraesCS7D01G132500 chr1B 98.571 70 1 0 2145 2214 344042409 344042478 1.370000e-24 124
39 TraesCS7D01G132500 chrUn 92.643 367 9 8 2517 2882 194984557 194984208 2.500000e-141 512
40 TraesCS7D01G132500 chrUn 92.638 163 10 2 3343 3504 194970642 194970481 2.180000e-57 233
41 TraesCS7D01G132500 chrUn 97.143 70 2 0 2145 2214 194984849 194984780 6.370000e-23 119
42 TraesCS7D01G132500 chr6D 92.040 201 10 3 2296 2493 15699366 15699169 9.930000e-71 278
43 TraesCS7D01G132500 chr6D 95.556 90 3 1 2215 2304 15699606 15699518 3.780000e-30 143
44 TraesCS7D01G132500 chr7A 88.462 104 7 2 3526 3624 85414743 85414846 1.770000e-23 121


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 TraesCS7D01G132500 chr7D 83758766 83762396 3630 False 6706.000000 6706 100.000000 1 3631 1 chr7D.!!$F1 3630
1 TraesCS7D01G132500 chr7D 366436475 366437204 729 True 1288.000000 1288 98.495000 2795 3525 1 chr7D.!!$R1 730
2 TraesCS7D01G132500 chr2D 238089072 238091673 2601 True 4684.000000 4684 99.155000 927 3529 1 chr2D.!!$R1 2602
3 TraesCS7D01G132500 chr2B 419938356 419941967 3611 False 1359.250000 2444 96.989250 1 3533 4 chr2B.!!$F1 3532
4 TraesCS7D01G132500 chr2B 528807325 528809704 2379 True 1142.000000 2187 95.484333 1 2214 3 chr2B.!!$R2 2213
5 TraesCS7D01G132500 chr7B 73167770 73171382 3612 False 1346.000000 2442 96.888000 1 3528 4 chr7B.!!$F2 3527
6 TraesCS7D01G132500 chr7B 517903834 517904500 666 False 1110.000000 1110 96.707000 1421 2088 1 chr7B.!!$F1 667
7 TraesCS7D01G132500 chr3B 766341737 766345314 3577 False 1324.000000 2412 96.430250 1 3532 4 chr3B.!!$F1 3531
8 TraesCS7D01G132500 chr6B 676683458 676684665 1207 False 1993.000000 1993 96.443000 1 1208 1 chr6B.!!$F1 1207
9 TraesCS7D01G132500 chr6B 617031452 617034766 3314 False 1563.666667 1873 96.273667 297 3529 3 chr6B.!!$F5 3232
10 TraesCS7D01G132500 chr6B 676708372 676709297 925 False 1411.000000 1411 94.175000 2599 3525 1 chr6B.!!$F3 926
11 TraesCS7D01G132500 chr6B 676703560 676704278 718 False 1179.000000 1179 96.245000 1421 2139 1 chr6B.!!$F2 718
12 TraesCS7D01G132500 chr6B 138658441 138659082 641 False 310.000000 507 93.938000 2145 2882 2 chr6B.!!$F4 737
13 TraesCS7D01G132500 chr4B 43572793 43573990 1197 True 1914.000000 1914 95.496000 3 1201 1 chr4B.!!$R1 1198
14 TraesCS7D01G132500 chr4B 43586659 43587856 1197 True 1908.000000 1908 95.413000 3 1201 1 chr4B.!!$R2 1198
15 TraesCS7D01G132500 chr4B 43562030 43564050 2020 True 654.500000 1144 95.198500 1421 3532 4 chr4B.!!$R3 2111
16 TraesCS7D01G132500 chr1B 344040425 344043536 3111 False 804.000000 1781 96.122750 311 3401 4 chr1B.!!$F1 3090
17 TraesCS7D01G132500 chrUn 194984208 194984849 641 True 315.500000 512 94.893000 2145 2882 2 chrUn.!!$R2 737

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
182 184 1.652124 GGCACACACATAGTCGTAACG 59.348 52.381 0.00 0.0 0.0 3.18 F
847 855 3.389983 AGGGCGCATTGAGGTATAAGTTA 59.610 43.478 10.83 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1492 1612 3.521126 AGCCTCCTTGTGAATCTACATGT 59.479 43.478 2.69 2.69 0.0 3.21 R
2744 3055 7.062957 ACTAAAATATGGTGGAAAGGATGAGG 58.937 38.462 0.00 0.00 0.0 3.86 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
182 184 1.652124 GGCACACACATAGTCGTAACG 59.348 52.381 0.00 0.00 0.00 3.18
698 706 9.155975 GATATCAACGAGCCAATAATACAAGAT 57.844 33.333 0.00 0.00 0.00 2.40
760 768 9.956640 AGAATTCATCACTTCTATCTCAACTTT 57.043 29.630 8.44 0.00 30.08 2.66
775 783 6.064060 TCTCAACTTTGAATGAGTGGACAAT 58.936 36.000 3.03 0.00 42.86 2.71
847 855 3.389983 AGGGCGCATTGAGGTATAAGTTA 59.610 43.478 10.83 0.00 0.00 2.24
956 966 5.686841 TCGTTTGCATTTGTTCTCTTTCATG 59.313 36.000 0.00 0.00 0.00 3.07
1449 1566 5.970592 AGTACCGTTTCTATCCCTTGTTAC 58.029 41.667 0.00 0.00 0.00 2.50
1451 1568 6.891908 AGTACCGTTTCTATCCCTTGTTACTA 59.108 38.462 0.00 0.00 0.00 1.82
1473 1590 3.745799 TCCTTGCTATCGAAAACCAACA 58.254 40.909 0.00 0.00 0.00 3.33
2744 3055 4.757149 AGTGTTGAAAAGCATGGAGTAGAC 59.243 41.667 0.00 0.00 0.00 2.59
3339 3663 3.991773 GTGCTTGTTTGATGCATGTGAAT 59.008 39.130 2.46 0.00 37.11 2.57
3369 3693 4.746535 TGTGTTCTGTACTGTGAAAGGA 57.253 40.909 0.00 0.00 0.00 3.36
3537 3862 2.536066 ACACCTCCATAGTGTACAGCA 58.464 47.619 0.00 0.00 46.37 4.41
3538 3863 2.497675 ACACCTCCATAGTGTACAGCAG 59.502 50.000 0.00 0.00 46.37 4.24
3539 3864 2.497675 CACCTCCATAGTGTACAGCAGT 59.502 50.000 0.00 0.00 34.61 4.40
3540 3865 2.497675 ACCTCCATAGTGTACAGCAGTG 59.502 50.000 0.00 0.00 32.14 3.66
3541 3866 2.760650 CCTCCATAGTGTACAGCAGTGA 59.239 50.000 0.00 0.00 32.14 3.41
3542 3867 3.386078 CCTCCATAGTGTACAGCAGTGAT 59.614 47.826 0.00 0.00 32.14 3.06
3543 3868 4.584743 CCTCCATAGTGTACAGCAGTGATA 59.415 45.833 0.00 0.00 32.14 2.15
3544 3869 5.244851 CCTCCATAGTGTACAGCAGTGATAT 59.755 44.000 0.00 0.00 32.14 1.63
3545 3870 6.239430 CCTCCATAGTGTACAGCAGTGATATT 60.239 42.308 0.00 0.00 32.14 1.28
3546 3871 7.039714 CCTCCATAGTGTACAGCAGTGATATTA 60.040 40.741 0.00 0.00 32.14 0.98
3547 3872 7.658261 TCCATAGTGTACAGCAGTGATATTAC 58.342 38.462 0.00 0.00 32.14 1.89
3548 3873 7.286775 TCCATAGTGTACAGCAGTGATATTACA 59.713 37.037 0.00 0.00 32.14 2.41
3549 3874 7.382488 CCATAGTGTACAGCAGTGATATTACAC 59.618 40.741 18.31 18.31 39.62 2.90
3550 3875 6.280855 AGTGTACAGCAGTGATATTACACA 57.719 37.500 23.88 5.74 41.06 3.72
3551 3876 6.100004 AGTGTACAGCAGTGATATTACACAC 58.900 40.000 23.88 14.42 41.06 3.82
3552 3877 5.867174 GTGTACAGCAGTGATATTACACACA 59.133 40.000 19.95 0.00 42.45 3.72
3553 3878 6.035005 GTGTACAGCAGTGATATTACACACAG 59.965 42.308 19.95 0.00 42.45 3.66
3554 3879 5.405935 ACAGCAGTGATATTACACACAGA 57.594 39.130 0.00 0.00 42.45 3.41
3555 3880 5.414360 ACAGCAGTGATATTACACACAGAG 58.586 41.667 0.00 0.00 42.45 3.35
3556 3881 5.185828 ACAGCAGTGATATTACACACAGAGA 59.814 40.000 0.00 0.00 42.45 3.10
3557 3882 6.101997 CAGCAGTGATATTACACACAGAGAA 58.898 40.000 0.00 0.00 42.45 2.87
3558 3883 6.035435 CAGCAGTGATATTACACACAGAGAAC 59.965 42.308 0.00 0.00 42.45 3.01
3559 3884 5.004821 GCAGTGATATTACACACAGAGAACG 59.995 44.000 0.00 0.00 42.45 3.95
3560 3885 6.093404 CAGTGATATTACACACAGAGAACGT 58.907 40.000 0.00 0.00 42.45 3.99
3561 3886 7.248437 CAGTGATATTACACACAGAGAACGTA 58.752 38.462 0.00 0.00 42.45 3.57
3562 3887 7.218393 CAGTGATATTACACACAGAGAACGTAC 59.782 40.741 0.00 0.00 42.45 3.67
3563 3888 6.194142 GTGATATTACACACAGAGAACGTACG 59.806 42.308 15.01 15.01 40.11 3.67
3564 3889 4.754372 ATTACACACAGAGAACGTACGA 57.246 40.909 24.41 0.00 0.00 3.43
3565 3890 4.550577 TTACACACAGAGAACGTACGAA 57.449 40.909 24.41 0.00 0.00 3.85
3566 3891 2.996155 ACACACAGAGAACGTACGAAG 58.004 47.619 24.41 7.01 0.00 3.79
3567 3892 2.615447 ACACACAGAGAACGTACGAAGA 59.385 45.455 24.41 0.00 0.00 2.87
3568 3893 3.252701 ACACACAGAGAACGTACGAAGAT 59.747 43.478 24.41 4.74 0.00 2.40
3569 3894 4.453478 ACACACAGAGAACGTACGAAGATA 59.547 41.667 24.41 0.00 0.00 1.98
3570 3895 5.049198 ACACACAGAGAACGTACGAAGATAA 60.049 40.000 24.41 0.00 0.00 1.75
3571 3896 5.283247 CACACAGAGAACGTACGAAGATAAC 59.717 44.000 24.41 6.37 0.00 1.89
3572 3897 5.049198 ACACAGAGAACGTACGAAGATAACA 60.049 40.000 24.41 0.00 0.00 2.41
3573 3898 5.508573 CACAGAGAACGTACGAAGATAACAG 59.491 44.000 24.41 5.60 0.00 3.16
3574 3899 5.180868 ACAGAGAACGTACGAAGATAACAGT 59.819 40.000 24.41 6.22 0.00 3.55
3575 3900 6.084925 CAGAGAACGTACGAAGATAACAGTT 58.915 40.000 24.41 0.59 0.00 3.16
3576 3901 6.581542 CAGAGAACGTACGAAGATAACAGTTT 59.418 38.462 24.41 0.00 0.00 2.66
3577 3902 6.800892 AGAGAACGTACGAAGATAACAGTTTC 59.199 38.462 24.41 10.27 0.00 2.78
3578 3903 6.441274 AGAACGTACGAAGATAACAGTTTCA 58.559 36.000 24.41 0.00 0.00 2.69
3579 3904 6.361748 AGAACGTACGAAGATAACAGTTTCAC 59.638 38.462 24.41 0.00 0.00 3.18
3580 3905 5.522456 ACGTACGAAGATAACAGTTTCACA 58.478 37.500 24.41 0.00 0.00 3.58
3581 3906 5.628193 ACGTACGAAGATAACAGTTTCACAG 59.372 40.000 24.41 0.00 0.00 3.66
3582 3907 4.992381 ACGAAGATAACAGTTTCACAGC 57.008 40.909 0.00 0.00 0.00 4.40
3583 3908 4.377021 ACGAAGATAACAGTTTCACAGCA 58.623 39.130 0.00 0.00 0.00 4.41
3584 3909 4.814234 ACGAAGATAACAGTTTCACAGCAA 59.186 37.500 0.00 0.00 0.00 3.91
3585 3910 5.295787 ACGAAGATAACAGTTTCACAGCAAA 59.704 36.000 0.00 0.00 0.00 3.68
3586 3911 6.017109 ACGAAGATAACAGTTTCACAGCAAAT 60.017 34.615 0.00 0.00 0.00 2.32
3587 3912 6.857964 CGAAGATAACAGTTTCACAGCAAATT 59.142 34.615 0.00 0.00 0.00 1.82
3588 3913 7.059945 CGAAGATAACAGTTTCACAGCAAATTC 59.940 37.037 0.00 0.00 0.00 2.17
3589 3914 7.275888 AGATAACAGTTTCACAGCAAATTCA 57.724 32.000 0.00 0.00 0.00 2.57
3590 3915 7.365741 AGATAACAGTTTCACAGCAAATTCAG 58.634 34.615 0.00 0.00 0.00 3.02
3591 3916 5.581126 AACAGTTTCACAGCAAATTCAGA 57.419 34.783 0.00 0.00 0.00 3.27
3592 3917 5.581126 ACAGTTTCACAGCAAATTCAGAA 57.419 34.783 0.00 0.00 0.00 3.02
3593 3918 5.585390 ACAGTTTCACAGCAAATTCAGAAG 58.415 37.500 0.00 0.00 0.00 2.85
3594 3919 4.443394 CAGTTTCACAGCAAATTCAGAAGC 59.557 41.667 0.00 0.00 0.00 3.86
3595 3920 4.098349 AGTTTCACAGCAAATTCAGAAGCA 59.902 37.500 0.00 0.00 0.00 3.91
3596 3921 3.909776 TCACAGCAAATTCAGAAGCAG 57.090 42.857 0.00 0.00 0.00 4.24
3597 3922 2.555325 TCACAGCAAATTCAGAAGCAGG 59.445 45.455 0.00 0.00 0.00 4.85
3598 3923 2.295349 CACAGCAAATTCAGAAGCAGGT 59.705 45.455 0.00 0.00 0.00 4.00
3599 3924 2.555757 ACAGCAAATTCAGAAGCAGGTC 59.444 45.455 0.00 0.00 0.00 3.85
3600 3925 2.555325 CAGCAAATTCAGAAGCAGGTCA 59.445 45.455 0.00 0.00 0.00 4.02
3601 3926 3.192844 CAGCAAATTCAGAAGCAGGTCAT 59.807 43.478 0.00 0.00 0.00 3.06
3602 3927 4.397103 CAGCAAATTCAGAAGCAGGTCATA 59.603 41.667 0.00 0.00 0.00 2.15
3603 3928 5.012239 AGCAAATTCAGAAGCAGGTCATAA 58.988 37.500 0.00 0.00 0.00 1.90
3604 3929 5.477984 AGCAAATTCAGAAGCAGGTCATAAA 59.522 36.000 0.00 0.00 0.00 1.40
3605 3930 6.015180 AGCAAATTCAGAAGCAGGTCATAAAA 60.015 34.615 0.00 0.00 0.00 1.52
3606 3931 6.089954 GCAAATTCAGAAGCAGGTCATAAAAC 59.910 38.462 0.00 0.00 0.00 2.43
3607 3932 5.904362 ATTCAGAAGCAGGTCATAAAACC 57.096 39.130 0.00 0.00 39.80 3.27
3608 3933 3.686016 TCAGAAGCAGGTCATAAAACCC 58.314 45.455 0.00 0.00 40.42 4.11
3609 3934 2.755103 CAGAAGCAGGTCATAAAACCCC 59.245 50.000 0.00 0.00 40.42 4.95
3610 3935 1.743394 GAAGCAGGTCATAAAACCCCG 59.257 52.381 0.00 0.00 40.42 5.73
3611 3936 0.034477 AGCAGGTCATAAAACCCCGG 60.034 55.000 0.00 0.00 40.42 5.73
3612 3937 0.323087 GCAGGTCATAAAACCCCGGT 60.323 55.000 0.00 0.00 40.42 5.28
3613 3938 1.065272 GCAGGTCATAAAACCCCGGTA 60.065 52.381 0.00 0.00 40.42 4.02
3614 3939 2.635714 CAGGTCATAAAACCCCGGTAC 58.364 52.381 0.00 0.00 40.42 3.34
3615 3940 1.207811 AGGTCATAAAACCCCGGTACG 59.792 52.381 0.00 0.00 44.57 3.67
3616 3941 3.416886 AGGTCATAAAACCCCGGTACGT 61.417 50.000 0.00 0.00 43.86 3.57
3617 3942 4.133275 AGGTCATAAAACCCCGGTACGTA 61.133 47.826 0.00 0.00 43.86 3.57
3618 3943 5.601002 AGGTCATAAAACCCCGGTACGTAA 61.601 45.833 0.00 0.00 43.86 3.18
3619 3944 7.585143 AGGTCATAAAACCCCGGTACGTAAC 62.585 48.000 0.00 0.00 43.86 2.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
175 177 1.477553 ATTAGCTGGGACCGTTACGA 58.522 50.000 6.24 0.00 0.00 3.43
182 184 3.697166 TCCTTTCAAATTAGCTGGGACC 58.303 45.455 0.00 0.00 0.00 4.46
298 300 1.671979 CCGACCATCATGTGCAGAAT 58.328 50.000 0.00 0.00 0.00 2.40
698 706 7.733773 TTCTTCCTCCATGTCTTCTAATGTA 57.266 36.000 0.00 0.00 0.00 2.29
760 768 4.824537 TCCGAAAAATTGTCCACTCATTCA 59.175 37.500 0.00 0.00 0.00 2.57
775 783 4.261572 CCTGAGCAAGTTCATTCCGAAAAA 60.262 41.667 0.00 0.00 34.69 1.94
956 966 7.230510 TGGGTACAAATGAGATGGCAAATATAC 59.769 37.037 0.00 0.00 0.00 1.47
1449 1566 5.584649 TGTTGGTTTTCGATAGCAAGGATAG 59.415 40.000 11.50 0.00 34.07 2.08
1451 1568 4.331968 TGTTGGTTTTCGATAGCAAGGAT 58.668 39.130 11.50 0.00 34.07 3.24
1492 1612 3.521126 AGCCTCCTTGTGAATCTACATGT 59.479 43.478 2.69 2.69 0.00 3.21
2744 3055 7.062957 ACTAAAATATGGTGGAAAGGATGAGG 58.937 38.462 0.00 0.00 0.00 3.86
3339 3663 2.158682 AGTACAGAACACAACATGGGCA 60.159 45.455 0.00 0.00 0.00 5.36
3369 3693 2.092646 TGGTTTGACACAGTAACAGGCT 60.093 45.455 0.00 0.00 0.00 4.58
3533 3858 5.654497 TCTCTGTGTGTAATATCACTGCTG 58.346 41.667 0.00 0.00 38.90 4.41
3534 3859 5.921962 TCTCTGTGTGTAATATCACTGCT 57.078 39.130 0.00 0.00 38.90 4.24
3535 3860 5.004821 CGTTCTCTGTGTGTAATATCACTGC 59.995 44.000 0.00 0.00 38.90 4.40
3536 3861 6.093404 ACGTTCTCTGTGTGTAATATCACTG 58.907 40.000 0.00 0.00 38.90 3.66
3537 3862 6.268825 ACGTTCTCTGTGTGTAATATCACT 57.731 37.500 0.00 0.00 38.90 3.41
3538 3863 6.194142 CGTACGTTCTCTGTGTGTAATATCAC 59.806 42.308 7.22 0.00 38.63 3.06
3539 3864 6.092533 TCGTACGTTCTCTGTGTGTAATATCA 59.907 38.462 16.05 0.00 0.00 2.15
3540 3865 6.481134 TCGTACGTTCTCTGTGTGTAATATC 58.519 40.000 16.05 0.00 0.00 1.63
3541 3866 6.426980 TCGTACGTTCTCTGTGTGTAATAT 57.573 37.500 16.05 0.00 0.00 1.28
3542 3867 5.861222 TCGTACGTTCTCTGTGTGTAATA 57.139 39.130 16.05 0.00 0.00 0.98
3543 3868 4.754372 TCGTACGTTCTCTGTGTGTAAT 57.246 40.909 16.05 0.00 0.00 1.89
3544 3869 4.273235 TCTTCGTACGTTCTCTGTGTGTAA 59.727 41.667 16.05 0.00 0.00 2.41
3545 3870 3.809279 TCTTCGTACGTTCTCTGTGTGTA 59.191 43.478 16.05 0.00 0.00 2.90
3546 3871 2.615447 TCTTCGTACGTTCTCTGTGTGT 59.385 45.455 16.05 0.00 0.00 3.72
3547 3872 3.263602 TCTTCGTACGTTCTCTGTGTG 57.736 47.619 16.05 0.00 0.00 3.82
3548 3873 5.049198 TGTTATCTTCGTACGTTCTCTGTGT 60.049 40.000 16.05 0.00 0.00 3.72
3549 3874 5.388111 TGTTATCTTCGTACGTTCTCTGTG 58.612 41.667 16.05 0.00 0.00 3.66
3550 3875 5.180868 ACTGTTATCTTCGTACGTTCTCTGT 59.819 40.000 16.05 7.86 0.00 3.41
3551 3876 5.629097 ACTGTTATCTTCGTACGTTCTCTG 58.371 41.667 16.05 7.32 0.00 3.35
3552 3877 5.876612 ACTGTTATCTTCGTACGTTCTCT 57.123 39.130 16.05 0.55 0.00 3.10
3553 3878 6.580041 TGAAACTGTTATCTTCGTACGTTCTC 59.420 38.462 16.05 1.95 0.00 2.87
3554 3879 6.361748 GTGAAACTGTTATCTTCGTACGTTCT 59.638 38.462 16.05 1.62 0.00 3.01
3555 3880 6.142798 TGTGAAACTGTTATCTTCGTACGTTC 59.857 38.462 16.05 7.45 38.04 3.95
3556 3881 5.978919 TGTGAAACTGTTATCTTCGTACGTT 59.021 36.000 16.05 0.00 38.04 3.99
3557 3882 5.522456 TGTGAAACTGTTATCTTCGTACGT 58.478 37.500 16.05 0.00 38.04 3.57
3558 3883 5.442909 GCTGTGAAACTGTTATCTTCGTACG 60.443 44.000 9.53 9.53 38.15 3.67
3559 3884 5.404366 TGCTGTGAAACTGTTATCTTCGTAC 59.596 40.000 0.00 0.00 38.15 3.67
3560 3885 5.534407 TGCTGTGAAACTGTTATCTTCGTA 58.466 37.500 0.00 0.00 38.15 3.43
3561 3886 4.377021 TGCTGTGAAACTGTTATCTTCGT 58.623 39.130 0.00 0.00 38.15 3.85
3562 3887 4.990543 TGCTGTGAAACTGTTATCTTCG 57.009 40.909 0.00 0.00 38.15 3.79
3563 3888 7.862372 TGAATTTGCTGTGAAACTGTTATCTTC 59.138 33.333 0.00 0.00 38.15 2.87
3564 3889 7.715657 TGAATTTGCTGTGAAACTGTTATCTT 58.284 30.769 0.00 0.00 38.15 2.40
3565 3890 7.229306 TCTGAATTTGCTGTGAAACTGTTATCT 59.771 33.333 0.00 0.00 38.15 1.98
3566 3891 7.362662 TCTGAATTTGCTGTGAAACTGTTATC 58.637 34.615 0.00 0.00 38.15 1.75
3567 3892 7.275888 TCTGAATTTGCTGTGAAACTGTTAT 57.724 32.000 0.00 0.00 38.15 1.89
3568 3893 6.691754 TCTGAATTTGCTGTGAAACTGTTA 57.308 33.333 0.00 0.00 38.15 2.41
3569 3894 5.581126 TCTGAATTTGCTGTGAAACTGTT 57.419 34.783 0.00 0.00 38.15 3.16
3570 3895 5.581126 TTCTGAATTTGCTGTGAAACTGT 57.419 34.783 0.00 0.00 38.15 3.55
3571 3896 4.443394 GCTTCTGAATTTGCTGTGAAACTG 59.557 41.667 0.00 0.00 38.04 3.16
3572 3897 4.098349 TGCTTCTGAATTTGCTGTGAAACT 59.902 37.500 0.00 0.00 38.04 2.66
3573 3898 4.362279 TGCTTCTGAATTTGCTGTGAAAC 58.638 39.130 0.00 0.00 37.35 2.78
3574 3899 4.500205 CCTGCTTCTGAATTTGCTGTGAAA 60.500 41.667 0.00 0.00 0.00 2.69
3575 3900 3.005050 CCTGCTTCTGAATTTGCTGTGAA 59.995 43.478 0.00 0.00 0.00 3.18
3576 3901 2.555325 CCTGCTTCTGAATTTGCTGTGA 59.445 45.455 0.00 0.00 0.00 3.58
3577 3902 2.295349 ACCTGCTTCTGAATTTGCTGTG 59.705 45.455 0.00 0.00 0.00 3.66
3578 3903 2.555757 GACCTGCTTCTGAATTTGCTGT 59.444 45.455 0.00 0.00 0.00 4.40
3579 3904 2.555325 TGACCTGCTTCTGAATTTGCTG 59.445 45.455 0.00 0.00 0.00 4.41
3580 3905 2.867624 TGACCTGCTTCTGAATTTGCT 58.132 42.857 0.00 0.00 0.00 3.91
3581 3906 3.863142 ATGACCTGCTTCTGAATTTGC 57.137 42.857 0.00 0.00 0.00 3.68
3582 3907 6.587608 GGTTTTATGACCTGCTTCTGAATTTG 59.412 38.462 0.00 0.00 36.73 2.32
3583 3908 6.295292 GGGTTTTATGACCTGCTTCTGAATTT 60.295 38.462 0.00 0.00 39.71 1.82
3584 3909 5.185828 GGGTTTTATGACCTGCTTCTGAATT 59.814 40.000 0.00 0.00 39.71 2.17
3585 3910 4.706962 GGGTTTTATGACCTGCTTCTGAAT 59.293 41.667 0.00 0.00 39.71 2.57
3586 3911 4.079253 GGGTTTTATGACCTGCTTCTGAA 58.921 43.478 0.00 0.00 39.71 3.02
3587 3912 3.561313 GGGGTTTTATGACCTGCTTCTGA 60.561 47.826 0.00 0.00 39.71 3.27
3588 3913 2.755103 GGGGTTTTATGACCTGCTTCTG 59.245 50.000 0.00 0.00 39.71 3.02
3589 3914 2.618045 CGGGGTTTTATGACCTGCTTCT 60.618 50.000 0.00 0.00 39.71 2.85
3590 3915 1.743394 CGGGGTTTTATGACCTGCTTC 59.257 52.381 0.00 0.00 39.71 3.86
3591 3916 1.615919 CCGGGGTTTTATGACCTGCTT 60.616 52.381 0.00 0.00 39.71 3.91
3592 3917 0.034477 CCGGGGTTTTATGACCTGCT 60.034 55.000 0.00 0.00 39.71 4.24
3593 3918 0.323087 ACCGGGGTTTTATGACCTGC 60.323 55.000 6.32 0.00 39.71 4.85
3594 3919 2.635714 GTACCGGGGTTTTATGACCTG 58.364 52.381 6.32 0.00 39.71 4.00
3595 3920 1.207811 CGTACCGGGGTTTTATGACCT 59.792 52.381 6.32 0.00 39.71 3.85
3596 3921 1.066215 ACGTACCGGGGTTTTATGACC 60.066 52.381 6.32 0.00 39.04 4.02
3597 3922 2.385013 ACGTACCGGGGTTTTATGAC 57.615 50.000 6.32 0.00 0.00 3.06
3598 3923 3.368948 GGTTACGTACCGGGGTTTTATGA 60.369 47.826 6.32 0.00 37.12 2.15
3599 3924 2.935849 GGTTACGTACCGGGGTTTTATG 59.064 50.000 6.32 0.00 37.12 1.90
3600 3925 3.260475 GGTTACGTACCGGGGTTTTAT 57.740 47.619 6.32 0.00 37.12 1.40
3601 3926 2.753055 GGTTACGTACCGGGGTTTTA 57.247 50.000 6.32 0.00 37.12 1.52
3602 3927 3.623848 GGTTACGTACCGGGGTTTT 57.376 52.632 6.32 0.00 37.12 2.43


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

AutoCloner maintained by Alex Coulton.