Multiple sequence alignment - TraesCS1A01G041200

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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 TraesCS1A01G041200 chr1A 100.000 2609 0 0 1 2609 22630912 22633520 0.000000e+00 4819.0
1 TraesCS1A01G041200 chr1A 94.729 664 34 1 1 663 12679483 12680146 0.000000e+00 1031.0
2 TraesCS1A01G041200 chr1A 93.593 359 22 1 2252 2609 12697781 12698139 3.820000e-148 534.0
3 TraesCS1A01G041200 chr1A 82.881 590 56 21 767 1344 12680145 12680701 3.020000e-134 488.0
4 TraesCS1A01G041200 chr1A 92.121 330 24 2 1840 2168 12688629 12688957 5.090000e-127 464.0
5 TraesCS1A01G041200 chr1A 85.329 334 37 6 1015 1344 13281674 13281349 4.160000e-88 335.0
6 TraesCS1A01G041200 chr1A 93.103 145 2 3 1706 1850 12686574 12686710 3.400000e-49 206.0
7 TraesCS1A01G041200 chr1D 95.910 1858 49 7 767 2609 11126174 11124329 0.000000e+00 2985.0
8 TraesCS1A01G041200 chr1D 92.264 1422 54 11 769 2177 11042892 11041514 0.000000e+00 1965.0
9 TraesCS1A01G041200 chr1D 92.059 1423 56 12 769 2177 11091607 11090228 0.000000e+00 1949.0
10 TraesCS1A01G041200 chr1D 94.236 399 21 1 210 606 11045023 11044625 2.220000e-170 608.0
11 TraesCS1A01G041200 chr1D 97.015 335 7 2 332 663 11126507 11126173 6.310000e-156 560.0
12 TraesCS1A01G041200 chr1D 89.976 419 40 2 1 419 11128394 11127978 8.210000e-150 540.0
13 TraesCS1A01G041200 chr1D 88.372 344 28 7 327 663 11202525 11202187 1.120000e-108 403.0
14 TraesCS1A01G041200 chr1D 91.473 129 9 2 647 774 420125 419998 2.670000e-40 176.0
15 TraesCS1A01G041200 chr1B 91.314 1865 93 27 767 2609 16480782 16478965 0.000000e+00 2483.0
16 TraesCS1A01G041200 chr1B 89.137 1252 84 21 1388 2609 16647049 16645820 0.000000e+00 1511.0
17 TraesCS1A01G041200 chr1B 94.967 457 20 3 210 663 16481237 16480781 0.000000e+00 713.0
18 TraesCS1A01G041200 chr1B 94.493 454 24 1 210 663 16653213 16652761 0.000000e+00 699.0
19 TraesCS1A01G041200 chr1B 96.042 379 15 0 2231 2609 16694061 16693683 3.690000e-173 617.0
20 TraesCS1A01G041200 chr1B 95.699 372 13 1 1004 1372 16652557 16652186 1.730000e-166 595.0
21 TraesCS1A01G041200 chr1B 89.737 419 42 1 1 419 16653525 16653108 3.820000e-148 534.0
22 TraesCS1A01G041200 chr1B 88.182 330 27 9 343 663 16800624 16800298 1.460000e-102 383.0
23 TraesCS1A01G041200 chr1B 88.235 221 7 6 767 977 16652762 16652551 2.010000e-61 246.0
24 TraesCS1A01G041200 chr7B 94.729 664 34 1 1 663 192779004 192779667 0.000000e+00 1031.0
25 TraesCS1A01G041200 chr7B 82.881 590 56 21 767 1344 192779666 192780222 3.020000e-134 488.0
26 TraesCS1A01G041200 chr7B 93.103 145 2 3 1706 1850 192786095 192786231 3.400000e-49 206.0
27 TraesCS1A01G041200 chr2B 94.729 664 34 1 1 663 47191280 47190617 0.000000e+00 1031.0
28 TraesCS1A01G041200 chr2B 82.881 590 56 19 767 1344 47190618 47190062 3.020000e-134 488.0
29 TraesCS1A01G041200 chr2B 93.103 145 2 3 1706 1850 47184189 47184053 3.400000e-49 206.0
30 TraesCS1A01G041200 chrUn 95.165 455 21 1 210 663 351922519 351922065 0.000000e+00 717.0
31 TraesCS1A01G041200 chrUn 85.329 334 37 6 1015 1344 261624300 261624625 4.160000e-88 335.0
32 TraesCS1A01G041200 chrUn 95.238 147 7 0 767 913 351922066 351921920 1.560000e-57 233.0
33 TraesCS1A01G041200 chrUn 95.455 44 1 1 1446 1489 326549467 326549425 4.660000e-08 69.4
34 TraesCS1A01G041200 chr5A 96.552 116 4 0 655 770 7007322 7007437 2.650000e-45 193.0
35 TraesCS1A01G041200 chr5A 92.683 123 8 1 647 768 16499939 16500061 2.670000e-40 176.0
36 TraesCS1A01G041200 chr3D 97.345 113 3 0 659 771 308275016 308274904 2.650000e-45 193.0
37 TraesCS1A01G041200 chr3D 94.215 121 5 2 650 770 433566111 433565993 1.590000e-42 183.0
38 TraesCS1A01G041200 chr7D 97.321 112 3 0 657 768 264391388 264391499 9.530000e-45 191.0
39 TraesCS1A01G041200 chr7D 93.548 124 4 4 647 768 42694732 42694853 5.740000e-42 182.0
40 TraesCS1A01G041200 chr7D 85.714 70 5 4 1446 1511 26785788 26785856 4.660000e-08 69.4
41 TraesCS1A01G041200 chr2A 95.726 117 5 0 654 770 78333823 78333707 3.430000e-44 189.0
42 TraesCS1A01G041200 chr2A 95.614 114 4 1 655 768 507071275 507071163 5.740000e-42 182.0
43 TraesCS1A01G041200 chr6B 95.690 116 5 0 655 770 9219334 9219219 1.230000e-43 187.0
44 TraesCS1A01G041200 chr6A 94.309 123 6 1 646 768 108925912 108925791 1.230000e-43 187.0
45 TraesCS1A01G041200 chr6A 93.496 123 6 2 647 768 477910757 477910878 5.740000e-42 182.0
46 TraesCS1A01G041200 chr6A 93.443 122 6 2 649 768 14133950 14134071 2.060000e-41 180.0
47 TraesCS1A01G041200 chr4D 94.167 120 5 2 650 768 260457736 260457618 5.740000e-42 182.0
48 TraesCS1A01G041200 chr5D 79.167 216 39 5 1 214 409719282 409719071 7.530000e-31 145.0
49 TraesCS1A01G041200 chr5D 79.882 169 33 1 8 175 530632310 530632478 3.530000e-24 122.0
50 TraesCS1A01G041200 chr5D 89.706 68 4 3 1446 1511 391806016 391806082 1.660000e-12 84.2
51 TraesCS1A01G041200 chr7A 86.765 68 6 3 1446 1511 164195451 164195385 3.600000e-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 TraesCS1A01G041200 chr1A 22630912 22633520 2608 False 4819.000000 4819 100.000000 1 2609 1 chr1A.!!$F2 2608
1 TraesCS1A01G041200 chr1A 12679483 12680701 1218 False 759.500000 1031 88.805000 1 1344 2 chr1A.!!$F3 1343
2 TraesCS1A01G041200 chr1A 12686574 12688957 2383 False 335.000000 464 92.612000 1706 2168 2 chr1A.!!$F4 462
3 TraesCS1A01G041200 chr1D 11090228 11091607 1379 True 1949.000000 1949 92.059000 769 2177 1 chr1D.!!$R2 1408
4 TraesCS1A01G041200 chr1D 11124329 11128394 4065 True 1361.666667 2985 94.300333 1 2609 3 chr1D.!!$R5 2608
5 TraesCS1A01G041200 chr1D 11041514 11045023 3509 True 1286.500000 1965 93.250000 210 2177 2 chr1D.!!$R4 1967
6 TraesCS1A01G041200 chr1B 16478965 16481237 2272 True 1598.000000 2483 93.140500 210 2609 2 chr1B.!!$R4 2399
7 TraesCS1A01G041200 chr1B 16645820 16647049 1229 True 1511.000000 1511 89.137000 1388 2609 1 chr1B.!!$R1 1221
8 TraesCS1A01G041200 chr1B 16652186 16653525 1339 True 518.500000 699 92.041000 1 1372 4 chr1B.!!$R5 1371
9 TraesCS1A01G041200 chr7B 192779004 192780222 1218 False 759.500000 1031 88.805000 1 1344 2 chr7B.!!$F2 1343
10 TraesCS1A01G041200 chr2B 47190062 47191280 1218 True 759.500000 1031 88.805000 1 1344 2 chr2B.!!$R2 1343
11 TraesCS1A01G041200 chrUn 351921920 351922519 599 True 475.000000 717 95.201500 210 913 2 chrUn.!!$R2 703

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
680 3921 0.032813 TACTCCCTCCGTCCCGAATT 60.033 55.0 0.0 0.0 0.0 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1867 7116 2.989824 ACCAGGTGAGGACGTCGG 60.99 66.667 9.92 5.65 0.0 4.79 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
51 52 2.029290 GGTAAGAGTGAGCGAGAAACCA 60.029 50.000 0.00 0.00 0.00 3.67
140 141 6.183360 GCAAGATCCAATTACTTCACGAATCA 60.183 38.462 0.00 0.00 0.00 2.57
162 163 3.064324 GCAATCAAGCGGCAGGGT 61.064 61.111 1.45 0.00 0.00 4.34
163 164 2.879907 CAATCAAGCGGCAGGGTG 59.120 61.111 1.45 0.00 0.00 4.61
181 182 2.124736 GGGCTTGGCAGATGCGTA 60.125 61.111 0.00 0.00 43.26 4.42
376 1933 8.035394 TCCATGATTTTCTGAAGACTACACTAC 58.965 37.037 0.00 0.00 0.00 2.73
667 3908 9.754382 CTCGTAATCTCTCTACTATATACTCCC 57.246 40.741 0.00 0.00 0.00 4.30
668 3909 9.491406 TCGTAATCTCTCTACTATATACTCCCT 57.509 37.037 0.00 0.00 0.00 4.20
669 3910 9.754382 CGTAATCTCTCTACTATATACTCCCTC 57.246 40.741 0.00 0.00 0.00 4.30
671 3912 6.795144 TCTCTCTACTATATACTCCCTCCG 57.205 45.833 0.00 0.00 0.00 4.63
672 3913 6.262980 TCTCTCTACTATATACTCCCTCCGT 58.737 44.000 0.00 0.00 0.00 4.69
673 3914 6.380846 TCTCTCTACTATATACTCCCTCCGTC 59.619 46.154 0.00 0.00 0.00 4.79
674 3915 5.424895 TCTCTACTATATACTCCCTCCGTCC 59.575 48.000 0.00 0.00 0.00 4.79
675 3916 3.735720 ACTATATACTCCCTCCGTCCC 57.264 52.381 0.00 0.00 0.00 4.46
676 3917 2.026449 ACTATATACTCCCTCCGTCCCG 60.026 54.545 0.00 0.00 0.00 5.14
677 3918 1.070604 ATATACTCCCTCCGTCCCGA 58.929 55.000 0.00 0.00 0.00 5.14
678 3919 0.846015 TATACTCCCTCCGTCCCGAA 59.154 55.000 0.00 0.00 0.00 4.30
679 3920 0.187851 ATACTCCCTCCGTCCCGAAT 59.812 55.000 0.00 0.00 0.00 3.34
680 3921 0.032813 TACTCCCTCCGTCCCGAATT 60.033 55.000 0.00 0.00 0.00 2.17
681 3922 0.032813 ACTCCCTCCGTCCCGAATTA 60.033 55.000 0.00 0.00 0.00 1.40
682 3923 0.388294 CTCCCTCCGTCCCGAATTAC 59.612 60.000 0.00 0.00 0.00 1.89
683 3924 0.032813 TCCCTCCGTCCCGAATTACT 60.033 55.000 0.00 0.00 0.00 2.24
684 3925 0.828677 CCCTCCGTCCCGAATTACTT 59.171 55.000 0.00 0.00 0.00 2.24
685 3926 1.472728 CCCTCCGTCCCGAATTACTTG 60.473 57.143 0.00 0.00 0.00 3.16
686 3927 1.206371 CCTCCGTCCCGAATTACTTGT 59.794 52.381 0.00 0.00 0.00 3.16
687 3928 2.537401 CTCCGTCCCGAATTACTTGTC 58.463 52.381 0.00 0.00 0.00 3.18
688 3929 1.135315 TCCGTCCCGAATTACTTGTCG 60.135 52.381 0.00 0.00 37.01 4.35
689 3930 0.643820 CGTCCCGAATTACTTGTCGC 59.356 55.000 0.00 0.00 35.93 5.19
690 3931 1.717194 GTCCCGAATTACTTGTCGCA 58.283 50.000 0.00 0.00 35.93 5.10
691 3932 1.659098 GTCCCGAATTACTTGTCGCAG 59.341 52.381 0.00 0.00 35.93 5.18
692 3933 1.006832 CCCGAATTACTTGTCGCAGG 58.993 55.000 0.00 0.00 35.93 4.85
693 3934 1.674817 CCCGAATTACTTGTCGCAGGT 60.675 52.381 0.00 0.91 35.93 4.00
694 3935 2.417651 CCCGAATTACTTGTCGCAGGTA 60.418 50.000 0.00 0.00 35.93 3.08
695 3936 3.454375 CCGAATTACTTGTCGCAGGTAT 58.546 45.455 3.46 0.00 35.93 2.73
696 3937 3.245284 CCGAATTACTTGTCGCAGGTATG 59.755 47.826 3.46 0.00 35.93 2.39
697 3938 3.245284 CGAATTACTTGTCGCAGGTATGG 59.755 47.826 3.46 0.00 0.00 2.74
698 3939 4.439057 GAATTACTTGTCGCAGGTATGGA 58.561 43.478 3.46 0.00 0.00 3.41
699 3940 4.689612 ATTACTTGTCGCAGGTATGGAT 57.310 40.909 3.46 0.00 0.00 3.41
700 3941 2.315925 ACTTGTCGCAGGTATGGATG 57.684 50.000 0.00 0.00 0.00 3.51
701 3942 1.555075 ACTTGTCGCAGGTATGGATGT 59.445 47.619 0.00 0.00 0.00 3.06
702 3943 2.764010 ACTTGTCGCAGGTATGGATGTA 59.236 45.455 0.00 0.00 0.00 2.29
703 3944 3.388024 ACTTGTCGCAGGTATGGATGTAT 59.612 43.478 0.00 0.00 0.00 2.29
704 3945 3.660501 TGTCGCAGGTATGGATGTATC 57.339 47.619 0.00 0.00 0.00 2.24
705 3946 3.230976 TGTCGCAGGTATGGATGTATCT 58.769 45.455 0.00 0.00 0.00 1.98
706 3947 4.403734 TGTCGCAGGTATGGATGTATCTA 58.596 43.478 0.00 0.00 0.00 1.98
707 3948 4.459337 TGTCGCAGGTATGGATGTATCTAG 59.541 45.833 0.00 0.00 0.00 2.43
708 3949 4.700692 GTCGCAGGTATGGATGTATCTAGA 59.299 45.833 0.00 0.00 0.00 2.43
709 3950 5.358442 GTCGCAGGTATGGATGTATCTAGAT 59.642 44.000 10.73 10.73 0.00 1.98
710 3951 5.358160 TCGCAGGTATGGATGTATCTAGATG 59.642 44.000 15.79 0.00 0.00 2.90
711 3952 5.126222 CGCAGGTATGGATGTATCTAGATGT 59.874 44.000 15.79 1.25 0.00 3.06
712 3953 6.318900 CGCAGGTATGGATGTATCTAGATGTA 59.681 42.308 15.79 4.44 0.00 2.29
713 3954 7.013750 CGCAGGTATGGATGTATCTAGATGTAT 59.986 40.741 15.79 9.11 0.00 2.29
714 3955 8.700051 GCAGGTATGGATGTATCTAGATGTATT 58.300 37.037 15.79 0.00 0.00 1.89
742 3983 8.354711 AGTTCTAGATATATCCATTTCTGCGA 57.645 34.615 9.18 0.00 0.00 5.10
743 3984 8.247562 AGTTCTAGATATATCCATTTCTGCGAC 58.752 37.037 9.18 0.00 0.00 5.19
744 3985 6.786207 TCTAGATATATCCATTTCTGCGACG 58.214 40.000 9.18 0.00 0.00 5.12
745 3986 5.644977 AGATATATCCATTTCTGCGACGA 57.355 39.130 9.18 0.00 0.00 4.20
746 3987 5.645624 AGATATATCCATTTCTGCGACGAG 58.354 41.667 9.18 0.00 0.00 4.18
747 3988 3.735237 ATATCCATTTCTGCGACGAGT 57.265 42.857 0.00 0.00 0.00 4.18
748 3989 4.848562 ATATCCATTTCTGCGACGAGTA 57.151 40.909 0.00 0.00 0.00 2.59
749 3990 3.520290 ATCCATTTCTGCGACGAGTAA 57.480 42.857 0.00 0.00 0.00 2.24
750 3991 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
751 3992 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
752 3993 4.250464 TCCATTTCTGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
753 3994 4.092821 TCCATTTCTGCGACGAGTAATTTG 59.907 41.667 0.00 0.00 0.00 2.32
754 3995 4.334443 CATTTCTGCGACGAGTAATTTGG 58.666 43.478 0.00 0.00 0.00 3.28
755 3996 2.004583 TCTGCGACGAGTAATTTGGG 57.995 50.000 0.00 0.00 0.00 4.12
756 3997 1.546923 TCTGCGACGAGTAATTTGGGA 59.453 47.619 0.00 0.00 0.00 4.37
757 3998 1.659098 CTGCGACGAGTAATTTGGGAC 59.341 52.381 0.00 0.00 0.00 4.46
758 3999 0.643820 GCGACGAGTAATTTGGGACG 59.356 55.000 0.00 0.00 0.00 4.79
759 4000 1.274596 CGACGAGTAATTTGGGACGG 58.725 55.000 0.00 0.00 0.00 4.79
760 4001 1.135315 CGACGAGTAATTTGGGACGGA 60.135 52.381 0.00 0.00 0.00 4.69
761 4002 2.537401 GACGAGTAATTTGGGACGGAG 58.463 52.381 0.00 0.00 0.00 4.63
762 4003 1.206371 ACGAGTAATTTGGGACGGAGG 59.794 52.381 0.00 0.00 0.00 4.30
763 4004 1.472728 CGAGTAATTTGGGACGGAGGG 60.473 57.143 0.00 0.00 0.00 4.30
764 4005 1.835531 GAGTAATTTGGGACGGAGGGA 59.164 52.381 0.00 0.00 0.00 4.20
765 4006 1.838077 AGTAATTTGGGACGGAGGGAG 59.162 52.381 0.00 0.00 0.00 4.30
907 4168 3.130516 TCAATCGGTGAGTAGCAACTAGG 59.869 47.826 0.00 0.00 35.56 3.02
916 4182 1.275291 GTAGCAACTAGGTGTGCCTCA 59.725 52.381 10.06 0.00 45.64 3.86
917 4183 0.035458 AGCAACTAGGTGTGCCTCAC 59.965 55.000 10.06 1.22 45.64 3.51
919 4185 1.813862 GCAACTAGGTGTGCCTCACAA 60.814 52.381 10.06 0.00 46.28 3.33
920 4186 2.146342 CAACTAGGTGTGCCTCACAAG 58.854 52.381 0.00 9.22 46.28 3.16
921 4187 1.424638 ACTAGGTGTGCCTCACAAGT 58.575 50.000 10.47 9.71 46.28 3.16
922 4188 1.344763 ACTAGGTGTGCCTCACAAGTC 59.655 52.381 10.47 0.00 46.28 3.01
923 4189 1.344438 CTAGGTGTGCCTCACAAGTCA 59.656 52.381 10.47 0.00 46.28 3.41
924 4190 0.179045 AGGTGTGCCTCACAAGTCAC 60.179 55.000 10.47 0.00 46.28 3.67
965 4231 4.278419 AGTTTGTTGCTGAAATACCTCACC 59.722 41.667 0.00 0.00 0.00 4.02
978 4246 0.463833 CCTCACCCCGCCTCAATTAC 60.464 60.000 0.00 0.00 0.00 1.89
982 4250 1.451387 CCCCGCCTCAATTACGCTT 60.451 57.895 0.00 0.00 0.00 4.68
1019 4287 5.174035 CGATCGATCTCAAGTTATCAACCAC 59.826 44.000 22.43 0.00 0.00 4.16
1146 4417 3.454573 AAGCCCGACGCCGACATA 61.455 61.111 0.00 0.00 38.78 2.29
1257 4528 1.903183 GTGGGATAGGTGGATAGCTCC 59.097 57.143 0.00 0.00 42.45 4.70
1423 4707 1.724623 TGCGAACTTGCATCGAACTAC 59.275 47.619 12.18 0.00 42.76 2.73
1428 4712 4.965762 CGAACTTGCATCGAACTACGTATA 59.034 41.667 1.97 0.00 42.76 1.47
1488 4773 2.196997 TTTGATGCAGAGACCGGGGG 62.197 60.000 6.32 0.00 0.00 5.40
1867 7116 2.506438 GACGTCCAGTGCTACCGC 60.506 66.667 3.51 0.00 0.00 5.68
2080 7338 6.126449 GGAAGGTGGGGAAAGATAGTCTTAAT 60.126 42.308 0.00 0.00 35.27 1.40
2129 7389 0.471591 AATGGGAAGTTTGGGCTGCA 60.472 50.000 0.50 0.00 0.00 4.41
2141 7401 1.352687 TGGGCTGCAGTTTATGTGGTA 59.647 47.619 16.64 0.00 0.00 3.25
2149 7409 7.312899 GCTGCAGTTTATGTGGTAGTTATTTT 58.687 34.615 16.64 0.00 0.00 1.82
2211 7471 9.725019 ACACTTATGTCATACATTTCTCAAAGA 57.275 29.630 0.00 0.00 39.88 2.52
2383 7648 5.651139 CCATTTAAGATATCTCATGGGGCTG 59.349 44.000 21.08 7.76 30.28 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
140 141 3.127533 GCCGCTTGATTGCCTCGT 61.128 61.111 0.00 0.00 0.00 4.18
163 164 3.697439 TACGCATCTGCCAAGCCCC 62.697 63.158 0.00 0.00 37.91 5.80
376 1933 9.658799 TCTCTCCAGAAAACTATGAACTTATTG 57.341 33.333 0.00 0.00 0.00 1.90
671 3912 1.659098 CTGCGACAAGTAATTCGGGAC 59.341 52.381 0.00 0.00 35.73 4.46
672 3913 1.404986 CCTGCGACAAGTAATTCGGGA 60.405 52.381 0.00 0.00 35.73 5.14
673 3914 1.006832 CCTGCGACAAGTAATTCGGG 58.993 55.000 0.00 0.00 35.73 5.14
674 3915 1.722011 ACCTGCGACAAGTAATTCGG 58.278 50.000 0.00 0.00 35.73 4.30
675 3916 3.245284 CCATACCTGCGACAAGTAATTCG 59.755 47.826 0.00 0.00 38.31 3.34
676 3917 4.439057 TCCATACCTGCGACAAGTAATTC 58.561 43.478 0.00 0.00 0.00 2.17
677 3918 4.481368 TCCATACCTGCGACAAGTAATT 57.519 40.909 0.00 0.00 0.00 1.40
678 3919 4.141711 ACATCCATACCTGCGACAAGTAAT 60.142 41.667 0.00 0.00 0.00 1.89
679 3920 3.196901 ACATCCATACCTGCGACAAGTAA 59.803 43.478 0.00 0.00 0.00 2.24
680 3921 2.764010 ACATCCATACCTGCGACAAGTA 59.236 45.455 0.00 0.00 0.00 2.24
681 3922 1.555075 ACATCCATACCTGCGACAAGT 59.445 47.619 0.00 0.00 0.00 3.16
682 3923 2.315925 ACATCCATACCTGCGACAAG 57.684 50.000 0.00 0.00 0.00 3.16
683 3924 3.641436 AGATACATCCATACCTGCGACAA 59.359 43.478 0.00 0.00 0.00 3.18
684 3925 3.230976 AGATACATCCATACCTGCGACA 58.769 45.455 0.00 0.00 0.00 4.35
685 3926 3.944055 AGATACATCCATACCTGCGAC 57.056 47.619 0.00 0.00 0.00 5.19
686 3927 4.918588 TCTAGATACATCCATACCTGCGA 58.081 43.478 0.00 0.00 0.00 5.10
687 3928 5.126222 ACATCTAGATACATCCATACCTGCG 59.874 44.000 4.54 0.00 0.00 5.18
688 3929 6.537453 ACATCTAGATACATCCATACCTGC 57.463 41.667 4.54 0.00 0.00 4.85
716 3957 9.462606 TCGCAGAAATGGATATATCTAGAACTA 57.537 33.333 12.42 0.00 0.00 2.24
717 3958 8.247562 GTCGCAGAAATGGATATATCTAGAACT 58.752 37.037 12.42 4.71 39.69 3.01
718 3959 7.219154 CGTCGCAGAAATGGATATATCTAGAAC 59.781 40.741 12.42 2.68 39.69 3.01
719 3960 7.120726 TCGTCGCAGAAATGGATATATCTAGAA 59.879 37.037 12.42 0.00 39.69 2.10
720 3961 6.598064 TCGTCGCAGAAATGGATATATCTAGA 59.402 38.462 12.42 0.00 39.69 2.43
721 3962 6.786207 TCGTCGCAGAAATGGATATATCTAG 58.214 40.000 12.42 0.00 39.69 2.43
722 3963 6.374613 ACTCGTCGCAGAAATGGATATATCTA 59.625 38.462 12.42 6.97 39.69 1.98
723 3964 5.184096 ACTCGTCGCAGAAATGGATATATCT 59.816 40.000 12.42 0.00 39.69 1.98
724 3965 5.403246 ACTCGTCGCAGAAATGGATATATC 58.597 41.667 3.96 3.96 39.69 1.63
725 3966 5.392767 ACTCGTCGCAGAAATGGATATAT 57.607 39.130 0.00 0.00 39.69 0.86
726 3967 4.848562 ACTCGTCGCAGAAATGGATATA 57.151 40.909 0.00 0.00 39.69 0.86
727 3968 3.735237 ACTCGTCGCAGAAATGGATAT 57.265 42.857 0.00 0.00 39.69 1.63
728 3969 4.642445 TTACTCGTCGCAGAAATGGATA 57.358 40.909 0.00 0.00 39.69 2.59
729 3970 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
730 3971 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
731 3972 4.334443 CAAATTACTCGTCGCAGAAATGG 58.666 43.478 0.00 0.00 39.69 3.16
732 3973 4.334443 CCAAATTACTCGTCGCAGAAATG 58.666 43.478 0.00 0.00 39.69 2.32
733 3974 3.374058 CCCAAATTACTCGTCGCAGAAAT 59.626 43.478 0.00 0.00 39.69 2.17
734 3975 2.739913 CCCAAATTACTCGTCGCAGAAA 59.260 45.455 0.00 0.00 39.69 2.52
735 3976 2.028839 TCCCAAATTACTCGTCGCAGAA 60.029 45.455 0.00 0.00 39.69 3.02
736 3977 1.546923 TCCCAAATTACTCGTCGCAGA 59.453 47.619 0.00 0.00 0.00 4.26
737 3978 1.659098 GTCCCAAATTACTCGTCGCAG 59.341 52.381 0.00 0.00 0.00 5.18
738 3979 1.717194 GTCCCAAATTACTCGTCGCA 58.283 50.000 0.00 0.00 0.00 5.10
739 3980 0.643820 CGTCCCAAATTACTCGTCGC 59.356 55.000 0.00 0.00 0.00 5.19
740 3981 1.135315 TCCGTCCCAAATTACTCGTCG 60.135 52.381 0.00 0.00 0.00 5.12
741 3982 2.537401 CTCCGTCCCAAATTACTCGTC 58.463 52.381 0.00 0.00 0.00 4.20
742 3983 1.206371 CCTCCGTCCCAAATTACTCGT 59.794 52.381 0.00 0.00 0.00 4.18
743 3984 1.472728 CCCTCCGTCCCAAATTACTCG 60.473 57.143 0.00 0.00 0.00 4.18
744 3985 1.835531 TCCCTCCGTCCCAAATTACTC 59.164 52.381 0.00 0.00 0.00 2.59
745 3986 1.838077 CTCCCTCCGTCCCAAATTACT 59.162 52.381 0.00 0.00 0.00 2.24
746 3987 1.558294 ACTCCCTCCGTCCCAAATTAC 59.442 52.381 0.00 0.00 0.00 1.89
747 3988 1.961133 ACTCCCTCCGTCCCAAATTA 58.039 50.000 0.00 0.00 0.00 1.40
748 3989 1.961133 TACTCCCTCCGTCCCAAATT 58.039 50.000 0.00 0.00 0.00 1.82
749 3990 2.191981 ATACTCCCTCCGTCCCAAAT 57.808 50.000 0.00 0.00 0.00 2.32
750 3991 2.292389 TGTATACTCCCTCCGTCCCAAA 60.292 50.000 4.17 0.00 0.00 3.28
751 3992 1.288633 TGTATACTCCCTCCGTCCCAA 59.711 52.381 4.17 0.00 0.00 4.12
752 3993 0.928505 TGTATACTCCCTCCGTCCCA 59.071 55.000 4.17 0.00 0.00 4.37
753 3994 2.169330 GATGTATACTCCCTCCGTCCC 58.831 57.143 4.17 0.00 0.00 4.46
754 3995 2.557490 GTGATGTATACTCCCTCCGTCC 59.443 54.545 4.17 0.00 0.00 4.79
755 3996 3.488363 AGTGATGTATACTCCCTCCGTC 58.512 50.000 4.17 0.00 0.00 4.79
756 3997 3.488363 GAGTGATGTATACTCCCTCCGT 58.512 50.000 4.17 0.00 38.85 4.69
757 3998 2.484651 CGAGTGATGTATACTCCCTCCG 59.515 54.545 4.17 0.00 41.10 4.63
758 3999 3.502979 GTCGAGTGATGTATACTCCCTCC 59.497 52.174 4.17 0.00 41.10 4.30
759 4000 3.502979 GGTCGAGTGATGTATACTCCCTC 59.497 52.174 4.17 4.95 41.10 4.30
760 4001 3.117625 TGGTCGAGTGATGTATACTCCCT 60.118 47.826 4.17 0.00 41.10 4.20
761 4002 3.220110 TGGTCGAGTGATGTATACTCCC 58.780 50.000 4.17 0.00 41.10 4.30
762 4003 4.913335 TTGGTCGAGTGATGTATACTCC 57.087 45.455 4.17 0.00 41.10 3.85
763 4004 5.687730 CACATTGGTCGAGTGATGTATACTC 59.312 44.000 4.17 0.00 40.83 2.59
764 4005 5.127194 ACACATTGGTCGAGTGATGTATACT 59.873 40.000 8.56 0.00 37.05 2.12
765 4006 5.348986 ACACATTGGTCGAGTGATGTATAC 58.651 41.667 8.56 0.00 37.05 1.47
916 4182 5.431765 ACAAGAAGATCAGTTGTGACTTGT 58.568 37.500 0.00 0.00 39.60 3.16
917 4183 5.998454 ACAAGAAGATCAGTTGTGACTTG 57.002 39.130 0.00 0.00 38.30 3.16
918 4184 7.770897 ACTAAACAAGAAGATCAGTTGTGACTT 59.229 33.333 7.80 0.00 34.75 3.01
919 4185 7.275920 ACTAAACAAGAAGATCAGTTGTGACT 58.724 34.615 7.80 1.19 34.75 3.41
920 4186 7.484035 ACTAAACAAGAAGATCAGTTGTGAC 57.516 36.000 7.80 0.00 34.75 3.67
921 4187 8.397906 CAAACTAAACAAGAAGATCAGTTGTGA 58.602 33.333 7.80 1.03 34.64 3.58
922 4188 8.184192 ACAAACTAAACAAGAAGATCAGTTGTG 58.816 33.333 7.80 4.05 34.64 3.33
923 4189 8.281212 ACAAACTAAACAAGAAGATCAGTTGT 57.719 30.769 0.00 0.00 35.93 3.32
924 4190 9.013490 CAACAAACTAAACAAGAAGATCAGTTG 57.987 33.333 0.00 0.00 0.00 3.16
965 4231 1.721487 CAAGCGTAATTGAGGCGGG 59.279 57.895 0.00 0.00 43.92 6.13
978 4246 1.564207 TCGATCAATCAGAGCAAGCG 58.436 50.000 0.00 0.00 31.47 4.68
982 4250 3.930634 ATCGATCGATCAATCAGAGCA 57.069 42.857 24.60 0.00 31.47 4.26
1019 4287 3.791973 AGGAACTCATCTTCGTAGCAG 57.208 47.619 0.00 0.00 0.00 4.24
1095 4366 2.568546 TCTCCTTGGCCTCCTTGATA 57.431 50.000 3.32 0.00 0.00 2.15
1171 4442 1.617947 GGCCTCAAGTCCTCGGTCAT 61.618 60.000 0.00 0.00 0.00 3.06
1257 4528 4.052229 GCCACAGCAAGCCAGCAG 62.052 66.667 0.55 0.00 39.53 4.24
1413 4697 5.641709 AGCCATCATATACGTAGTTCGATG 58.358 41.667 15.06 15.06 37.78 3.84
1867 7116 2.989824 ACCAGGTGAGGACGTCGG 60.990 66.667 9.92 5.65 0.00 4.79
2080 7338 4.452114 TCGCAACACTAAGTAACTACTCGA 59.548 41.667 0.00 0.00 34.99 4.04
2226 7486 8.255394 TGCCGACATATAAGAAACATGATATG 57.745 34.615 0.00 4.04 37.97 1.78
2383 7648 8.315482 ACCTTAATCAACTTAGAGAAGAACTCC 58.685 37.037 0.00 0.00 45.96 3.85


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

AutoCloner maintained by Alex Coulton.