Multiple sequence alignment - TraesCS4D01G162800

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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 TraesCS4D01G162800 chr4D 100.000 2358 0 0 1501 3858 251525111 251522754 0.000000e+00 4355.0
1 TraesCS4D01G162800 chr4D 100.000 1239 0 0 1 1239 251526611 251525373 0.000000e+00 2289.0
2 TraesCS4D01G162800 chr4D 90.164 122 8 4 3533 3651 323929554 323929674 5.160000e-34 156.0
3 TraesCS4D01G162800 chr4D 93.269 104 7 0 3550 3653 289339907 289339804 1.860000e-33 154.0
4 TraesCS4D01G162800 chr4B 97.864 2060 38 3 1501 3554 286073545 286075604 0.000000e+00 3555.0
5 TraesCS4D01G162800 chr4B 93.021 874 24 11 391 1239 286072624 286073485 0.000000e+00 1242.0
6 TraesCS4D01G162800 chr4B 94.444 288 16 0 107 394 286072155 286072442 9.840000e-121 444.0
7 TraesCS4D01G162800 chr4B 89.252 214 8 4 3645 3858 286075599 286075797 1.780000e-63 254.0
8 TraesCS4D01G162800 chr4A 96.942 2060 55 5 1501 3554 222558969 222556912 0.000000e+00 3448.0
9 TraesCS4D01G162800 chr4A 94.527 804 23 9 445 1239 222559814 222559023 0.000000e+00 1221.0
10 TraesCS4D01G162800 chr4A 94.885 391 20 0 4 394 222560445 222560055 2.550000e-171 612.0
11 TraesCS4D01G162800 chr4A 95.392 217 7 1 3645 3858 222556917 222556701 3.690000e-90 342.0
12 TraesCS4D01G162800 chr4A 98.305 59 1 0 391 449 222559963 222559905 1.900000e-18 104.0
13 TraesCS4D01G162800 chr7A 93.950 281 17 0 1 281 482739602 482739882 3.560000e-115 425.0
14 TraesCS4D01G162800 chr7A 94.175 103 5 1 3546 3647 692780331 692780433 5.160000e-34 156.0
15 TraesCS4D01G162800 chr5A 93.929 280 17 0 2 281 657216118 657215839 1.280000e-114 424.0
16 TraesCS4D01G162800 chr5A 96.970 33 1 0 285 317 210836077 210836045 5.380000e-04 56.5
17 TraesCS4D01G162800 chr3A 93.929 280 17 0 2 281 20091686 20091965 1.280000e-114 424.0
18 TraesCS4D01G162800 chr3A 93.333 285 18 1 1 285 77937154 77936871 1.660000e-113 420.0
19 TraesCS4D01G162800 chr2D 93.929 280 17 0 2 281 527390116 527390395 1.280000e-114 424.0
20 TraesCS4D01G162800 chr1A 93.929 280 17 0 2 281 341231966 341231687 1.280000e-114 424.0
21 TraesCS4D01G162800 chr1A 93.929 280 17 0 2 281 341293323 341293044 1.280000e-114 424.0
22 TraesCS4D01G162800 chr6B 93.636 110 6 1 3538 3646 424084079 424084188 3.080000e-36 163.0
23 TraesCS4D01G162800 chr6B 93.636 110 6 1 3538 3646 424306777 424306886 3.080000e-36 163.0
24 TraesCS4D01G162800 chr2A 93.458 107 7 0 3541 3647 596771378 596771272 3.990000e-35 159.0
25 TraesCS4D01G162800 chr2A 92.523 107 8 0 3541 3647 590209385 590209491 1.860000e-33 154.0
26 TraesCS4D01G162800 chr5B 90.991 111 10 0 3536 3646 81177007 81177117 2.400000e-32 150.0
27 TraesCS4D01G162800 chr5B 96.774 31 1 0 287 317 626440652 626440622 7.000000e-03 52.8
28 TraesCS4D01G162800 chr5D 88.618 123 12 2 3526 3646 416422392 416422270 8.640000e-32 148.0
29 TraesCS4D01G162800 chrUn 96.774 31 1 0 287 317 385386775 385386745 7.000000e-03 52.8
30 TraesCS4D01G162800 chr6A 96.774 31 1 0 287 317 53067507 53067477 7.000000e-03 52.8
31 TraesCS4D01G162800 chr6A 96.774 31 1 0 287 317 53071680 53071650 7.000000e-03 52.8
32 TraesCS4D01G162800 chr3D 100.000 28 0 0 287 314 63465141 63465168 7.000000e-03 52.8
33 TraesCS4D01G162800 chr1B 96.774 31 1 0 287 317 345413658 345413628 7.000000e-03 52.8


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 TraesCS4D01G162800 chr4D 251522754 251526611 3857 True 3322.00 4355 100.00000 1 3858 2 chr4D.!!$R2 3857
1 TraesCS4D01G162800 chr4B 286072155 286075797 3642 False 1373.75 3555 93.64525 107 3858 4 chr4B.!!$F1 3751
2 TraesCS4D01G162800 chr4A 222556701 222560445 3744 True 1145.40 3448 96.01020 4 3858 5 chr4A.!!$R1 3854

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
966 1274 0.179000 GCATCACATTCTCCTCCCGT 59.821 55.000 0.00 0.0 0.0 5.28 F
1595 1903 2.365635 TGCTAGCCTCCCACCTCC 60.366 66.667 13.29 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2046 2354 0.882927 TAAACCGGTGAGCACTGTGC 60.883 55.0 24.59 24.59 45.46 4.57 R
3330 3643 0.552615 AAGGGGTCATTACAGGGCCT 60.553 55.0 0.00 0.00 0.00 5.19 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
85 86 6.525578 ACGACAACTTATGGAGAGATACAA 57.474 37.500 0.00 0.00 0.00 2.41
94 95 5.643421 ATGGAGAGATACAAGGAGCAAAT 57.357 39.130 0.00 0.00 0.00 2.32
95 96 4.774124 TGGAGAGATACAAGGAGCAAATG 58.226 43.478 0.00 0.00 0.00 2.32
111 112 5.638133 AGCAAATGAAGGACCTGCATATAT 58.362 37.500 15.92 2.60 35.44 0.86
207 208 3.329520 AGTCCCAGCAAAGTACATTACCA 59.670 43.478 0.00 0.00 0.00 3.25
210 211 3.312421 CCCAGCAAAGTACATTACCATCG 59.688 47.826 0.00 0.00 0.00 3.84
244 245 5.645929 TGTACTATAATGTTGTGCCAAGTGG 59.354 40.000 0.00 0.00 38.53 4.00
257 258 1.597663 CCAAGTGGTCGAACAAGTGAC 59.402 52.381 3.77 0.00 0.00 3.67
296 297 8.497910 ACTTCCTGATATGATGTACATTACCT 57.502 34.615 10.30 0.00 40.07 3.08
351 352 5.848286 ACACATCATCCCATATGTACCAT 57.152 39.130 1.24 0.00 34.61 3.55
428 614 6.007936 TGAATAGAATCAACAACCAAACCG 57.992 37.500 0.00 0.00 0.00 4.44
474 755 6.981559 TGCACGCAGTAACTATGTAATGATAA 59.018 34.615 0.00 0.00 41.61 1.75
503 784 6.433847 TTCAAAGACATACTTCTTCTCCCA 57.566 37.500 0.00 0.00 37.93 4.37
519 800 1.550130 CCCAAGAGTTACGGCTGGGA 61.550 60.000 11.56 0.00 37.29 4.37
682 980 2.496817 GGAGGACTGCGGCTGTAG 59.503 66.667 12.66 9.34 0.00 2.74
703 1001 2.721167 CCTGCGTGGGCTGTAGCTA 61.721 63.158 3.63 0.00 41.70 3.32
741 1039 3.520862 GTACCCGGCCATCGACGA 61.521 66.667 2.24 0.00 42.43 4.20
812 1116 1.204146 AGGCGAGAGAGAGAGAGAGT 58.796 55.000 0.00 0.00 0.00 3.24
923 1228 0.611896 CACCAAATCTGACCACCCCC 60.612 60.000 0.00 0.00 0.00 5.40
966 1274 0.179000 GCATCACATTCTCCTCCCGT 59.821 55.000 0.00 0.00 0.00 5.28
1595 1903 2.365635 TGCTAGCCTCCCACCTCC 60.366 66.667 13.29 0.00 0.00 4.30
2046 2354 6.149129 TGCCATAGATGTAGTCACTTACAG 57.851 41.667 0.00 0.00 37.01 2.74
2052 2360 4.524714 AGATGTAGTCACTTACAGCACAGT 59.475 41.667 4.53 0.00 41.22 3.55
2230 2538 2.892852 TGAAGAAATGCTTGACAAGGGG 59.107 45.455 16.80 0.00 36.83 4.79
2315 2623 0.817634 CGAAGCAGTTGGGGTGTTCA 60.818 55.000 0.00 0.00 0.00 3.18
2353 2661 8.274322 ACTAAAGGGATTGAACATGATGTGATA 58.726 33.333 0.00 0.00 0.00 2.15
2829 3137 5.008415 CAGGCAATGTATCTCATCCTCAAAC 59.992 44.000 0.00 0.00 35.48 2.93
2836 3144 3.981071 TCTCATCCTCAAACGTTGGAT 57.019 42.857 5.68 9.27 40.85 3.41
2880 3188 2.476126 CATTTGGATGCCCTGCAAAA 57.524 45.000 7.05 0.00 46.48 2.44
3318 3631 1.105759 GCATCTCCATTCCCAGGTGC 61.106 60.000 0.00 0.00 39.51 5.01
3330 3643 1.026182 CCAGGTGCGCATTCTGCTTA 61.026 55.000 27.52 0.00 42.25 3.09
3342 3655 3.281727 TTCTGCTTAGGCCCTGTAATG 57.718 47.619 0.00 0.00 37.74 1.90
3427 3740 3.119602 CGTCTCGTCCTTCCTGTATTTCA 60.120 47.826 0.00 0.00 0.00 2.69
3503 3816 6.127168 ACGTCCATATGTAGGAATGTGAAGAA 60.127 38.462 1.24 0.00 36.80 2.52
3559 3872 6.896021 TCTACTTGATTAATACTCCCTCCG 57.104 41.667 0.00 0.00 0.00 4.63
3560 3873 6.371278 TCTACTTGATTAATACTCCCTCCGT 58.629 40.000 0.00 0.00 0.00 4.69
3561 3874 5.532664 ACTTGATTAATACTCCCTCCGTC 57.467 43.478 0.00 0.00 0.00 4.79
3562 3875 4.344390 ACTTGATTAATACTCCCTCCGTCC 59.656 45.833 0.00 0.00 0.00 4.79
3563 3876 3.236896 TGATTAATACTCCCTCCGTCCC 58.763 50.000 0.00 0.00 0.00 4.46
3564 3877 2.852714 TTAATACTCCCTCCGTCCCA 57.147 50.000 0.00 0.00 0.00 4.37
3565 3878 2.852714 TAATACTCCCTCCGTCCCAA 57.147 50.000 0.00 0.00 0.00 4.12
3566 3879 1.961133 AATACTCCCTCCGTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
3567 3880 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
3568 3881 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
3569 3882 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3570 3883 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
3571 3884 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
3572 3885 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
3573 3886 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
3574 3887 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
3575 3888 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
3576 3889 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
3577 3890 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
3578 3891 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
3579 3892 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
3580 3893 4.154195 CCGTCCCAAAATAAGTGTCTCAAG 59.846 45.833 0.00 0.00 0.00 3.02
3581 3894 4.378459 CGTCCCAAAATAAGTGTCTCAAGC 60.378 45.833 0.00 0.00 0.00 4.01
3582 3895 4.762251 GTCCCAAAATAAGTGTCTCAAGCT 59.238 41.667 0.00 0.00 0.00 3.74
3583 3896 5.241728 GTCCCAAAATAAGTGTCTCAAGCTT 59.758 40.000 0.00 0.00 0.00 3.74
3584 3897 6.430000 GTCCCAAAATAAGTGTCTCAAGCTTA 59.570 38.462 0.00 0.00 0.00 3.09
3585 3898 6.655003 TCCCAAAATAAGTGTCTCAAGCTTAG 59.345 38.462 0.00 0.00 0.00 2.18
3586 3899 6.431234 CCCAAAATAAGTGTCTCAAGCTTAGT 59.569 38.462 0.00 0.00 0.00 2.24
3587 3900 7.606456 CCCAAAATAAGTGTCTCAAGCTTAGTA 59.394 37.037 0.00 0.00 0.00 1.82
3588 3901 9.167311 CCAAAATAAGTGTCTCAAGCTTAGTAT 57.833 33.333 0.00 0.00 0.00 2.12
3591 3904 9.535878 AAATAAGTGTCTCAAGCTTAGTATAGC 57.464 33.333 0.00 0.00 41.53 2.97
3623 3936 9.257651 ACTAACATTAGTACAAAGTTGAGACAC 57.742 33.333 2.38 0.00 41.92 3.67
3624 3937 9.477484 CTAACATTAGTACAAAGTTGAGACACT 57.523 33.333 0.00 0.00 0.00 3.55
3625 3938 8.732746 AACATTAGTACAAAGTTGAGACACTT 57.267 30.769 0.00 0.00 38.74 3.16
3626 3939 9.826574 AACATTAGTACAAAGTTGAGACACTTA 57.173 29.630 0.00 0.00 35.87 2.24
3627 3940 9.998106 ACATTAGTACAAAGTTGAGACACTTAT 57.002 29.630 0.00 0.00 35.87 1.73
3632 3945 8.621286 AGTACAAAGTTGAGACACTTATTTTGG 58.379 33.333 0.00 0.00 35.87 3.28
3633 3946 6.805713 ACAAAGTTGAGACACTTATTTTGGG 58.194 36.000 0.00 0.00 35.87 4.12
3634 3947 6.183360 ACAAAGTTGAGACACTTATTTTGGGG 60.183 38.462 0.00 0.00 35.87 4.96
3635 3948 3.826729 AGTTGAGACACTTATTTTGGGGC 59.173 43.478 0.00 0.00 0.00 5.80
3636 3949 2.432444 TGAGACACTTATTTTGGGGCG 58.568 47.619 0.00 0.00 0.00 6.13
3637 3950 1.743394 GAGACACTTATTTTGGGGCGG 59.257 52.381 0.00 0.00 0.00 6.13
3638 3951 1.353022 AGACACTTATTTTGGGGCGGA 59.647 47.619 0.00 0.00 0.00 5.54
3639 3952 1.743394 GACACTTATTTTGGGGCGGAG 59.257 52.381 0.00 0.00 0.00 4.63
3640 3953 1.102978 CACTTATTTTGGGGCGGAGG 58.897 55.000 0.00 0.00 0.00 4.30
3641 3954 0.033503 ACTTATTTTGGGGCGGAGGG 60.034 55.000 0.00 0.00 0.00 4.30
3642 3955 0.257616 CTTATTTTGGGGCGGAGGGA 59.742 55.000 0.00 0.00 0.00 4.20
3643 3956 0.257616 TTATTTTGGGGCGGAGGGAG 59.742 55.000 0.00 0.00 0.00 4.30
3644 3957 0.917333 TATTTTGGGGCGGAGGGAGT 60.917 55.000 0.00 0.00 0.00 3.85
3645 3958 0.917333 ATTTTGGGGCGGAGGGAGTA 60.917 55.000 0.00 0.00 0.00 2.59
3654 3967 2.096248 GCGGAGGGAGTATCTCATAGG 58.904 57.143 0.00 0.00 38.91 2.57
3780 4093 6.478129 ACCGTCCTAATTTAAAGGATCAACA 58.522 36.000 0.00 0.00 44.79 3.33
3797 4113 8.877195 AGGATCAACAACCTAACTAACTTAAGA 58.123 33.333 10.09 0.00 34.47 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 4.218200 CACAGGCATGAAACCAAACTGATA 59.782 41.667 4.84 0.00 0.00 2.15
19 20 0.798776 CGACCTCACAGGCATGAAAC 59.201 55.000 4.84 0.00 39.63 2.78
85 86 1.615384 GCAGGTCCTTCATTTGCTCCT 60.615 52.381 0.00 0.00 0.00 3.69
94 95 6.000246 TGAACAATATATGCAGGTCCTTCA 58.000 37.500 0.00 0.00 0.00 3.02
95 96 7.229306 TCAATGAACAATATATGCAGGTCCTTC 59.771 37.037 0.00 0.00 0.00 3.46
111 112 3.569701 GCCTTCTCCAAGTCAATGAACAA 59.430 43.478 0.00 0.00 0.00 2.83
207 208 7.952671 ACATTATAGTACATGTCCTTGACGAT 58.047 34.615 0.00 0.00 34.95 3.73
210 211 8.604035 CACAACATTATAGTACATGTCCTTGAC 58.396 37.037 0.00 0.00 32.21 3.18
244 245 1.659335 TCGCCGTCACTTGTTCGAC 60.659 57.895 0.00 0.00 0.00 4.20
257 258 0.652592 GGAAGTCATCAATGTCGCCG 59.347 55.000 0.00 0.00 0.00 6.46
317 318 4.021544 GGGATGATGTGTTGCTTGGTTTAA 60.022 41.667 0.00 0.00 0.00 1.52
351 352 5.487153 TGCTTGTTTTCAAAGCGTAACTA 57.513 34.783 3.93 0.00 39.47 2.24
474 755 9.213799 GAGAAGAAGTATGTCTTTGAATCTGTT 57.786 33.333 0.00 0.00 37.98 3.16
503 784 0.613777 CCTTCCCAGCCGTAACTCTT 59.386 55.000 0.00 0.00 0.00 2.85
741 1039 0.669625 GAAACCCTAACTCACGCGCT 60.670 55.000 5.73 0.00 0.00 5.92
743 1041 1.068474 CAGAAACCCTAACTCACGCG 58.932 55.000 3.53 3.53 0.00 6.01
744 1042 1.798813 CACAGAAACCCTAACTCACGC 59.201 52.381 0.00 0.00 0.00 5.34
745 1043 3.318017 CTCACAGAAACCCTAACTCACG 58.682 50.000 0.00 0.00 0.00 4.35
746 1044 3.665190 CCTCACAGAAACCCTAACTCAC 58.335 50.000 0.00 0.00 0.00 3.51
747 1045 2.038557 GCCTCACAGAAACCCTAACTCA 59.961 50.000 0.00 0.00 0.00 3.41
748 1046 2.303311 AGCCTCACAGAAACCCTAACTC 59.697 50.000 0.00 0.00 0.00 3.01
790 1094 2.614057 CTCTCTCTCTCTCTCGCCTTTC 59.386 54.545 0.00 0.00 0.00 2.62
812 1116 6.658816 TGCTTCAAGTTAAAAGCCATGATCTA 59.341 34.615 15.74 0.00 45.77 1.98
868 1172 2.627699 GAGGTTTTGACTTGGATTGGCA 59.372 45.455 0.00 0.00 0.00 4.92
2046 2354 0.882927 TAAACCGGTGAGCACTGTGC 60.883 55.000 24.59 24.59 45.46 4.57
2052 2360 4.156922 CCATTTTACATAAACCGGTGAGCA 59.843 41.667 8.52 0.00 0.00 4.26
2230 2538 2.739379 GCTAACTGTGCTCTCCTTGAAC 59.261 50.000 0.00 0.00 0.00 3.18
2315 2623 6.011096 TCAATCCCTTTAGTAACCATTCCCTT 60.011 38.462 0.00 0.00 0.00 3.95
2353 2661 5.123344 GCCCTGAATCAACGTGTTATAAGTT 59.877 40.000 0.00 0.00 0.00 2.66
2829 3137 4.096231 TGCTCACCAAAATATCATCCAACG 59.904 41.667 0.00 0.00 0.00 4.10
2836 3144 4.877823 CACTAGCTGCTCACCAAAATATCA 59.122 41.667 4.91 0.00 0.00 2.15
3330 3643 0.552615 AAGGGGTCATTACAGGGCCT 60.553 55.000 0.00 0.00 0.00 5.19
3342 3655 8.678199 CAAAATAGACAGAAAATAGAAGGGGTC 58.322 37.037 0.00 0.00 0.00 4.46
3503 3816 7.605691 CCAAAGAAGACATCTAACAGTCATTCT 59.394 37.037 0.00 0.00 37.42 2.40
3551 3864 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
3552 3865 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
3553 3866 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
3554 3867 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
3555 3868 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
3556 3869 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
3557 3870 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
3558 3871 4.378459 GCTTGAGACACTTATTTTGGGACG 60.378 45.833 0.00 0.00 0.00 4.79
3559 3872 4.762251 AGCTTGAGACACTTATTTTGGGAC 59.238 41.667 0.00 0.00 0.00 4.46
3560 3873 4.985538 AGCTTGAGACACTTATTTTGGGA 58.014 39.130 0.00 0.00 0.00 4.37
3561 3874 5.712152 AAGCTTGAGACACTTATTTTGGG 57.288 39.130 0.00 0.00 0.00 4.12
3562 3875 7.440523 ACTAAGCTTGAGACACTTATTTTGG 57.559 36.000 9.86 0.00 0.00 3.28
3565 3878 9.535878 GCTATACTAAGCTTGAGACACTTATTT 57.464 33.333 9.86 0.00 39.50 1.40
3597 3910 9.257651 GTGTCTCAACTTTGTACTAATGTTAGT 57.742 33.333 10.05 10.05 45.39 2.24
3598 3911 9.477484 AGTGTCTCAACTTTGTACTAATGTTAG 57.523 33.333 0.00 0.00 36.82 2.34
3599 3912 9.826574 AAGTGTCTCAACTTTGTACTAATGTTA 57.173 29.630 0.00 0.00 37.05 2.41
3600 3913 8.732746 AAGTGTCTCAACTTTGTACTAATGTT 57.267 30.769 0.00 0.00 37.05 2.71
3601 3914 9.998106 ATAAGTGTCTCAACTTTGTACTAATGT 57.002 29.630 0.00 0.00 40.77 2.71
3606 3919 8.621286 CCAAAATAAGTGTCTCAACTTTGTACT 58.379 33.333 0.00 0.00 40.77 2.73
3607 3920 7.860872 CCCAAAATAAGTGTCTCAACTTTGTAC 59.139 37.037 0.00 0.00 40.77 2.90
3608 3921 7.013846 CCCCAAAATAAGTGTCTCAACTTTGTA 59.986 37.037 0.00 0.00 40.77 2.41
3609 3922 6.183360 CCCCAAAATAAGTGTCTCAACTTTGT 60.183 38.462 0.00 0.00 40.77 2.83
3610 3923 6.215845 CCCCAAAATAAGTGTCTCAACTTTG 58.784 40.000 0.00 0.00 40.77 2.77
3611 3924 5.221441 GCCCCAAAATAAGTGTCTCAACTTT 60.221 40.000 0.00 0.00 40.77 2.66
3612 3925 4.280929 GCCCCAAAATAAGTGTCTCAACTT 59.719 41.667 0.00 0.00 42.89 2.66
3613 3926 3.826729 GCCCCAAAATAAGTGTCTCAACT 59.173 43.478 0.00 0.00 0.00 3.16
3614 3927 3.365969 CGCCCCAAAATAAGTGTCTCAAC 60.366 47.826 0.00 0.00 0.00 3.18
3615 3928 2.817258 CGCCCCAAAATAAGTGTCTCAA 59.183 45.455 0.00 0.00 0.00 3.02
3616 3929 2.432444 CGCCCCAAAATAAGTGTCTCA 58.568 47.619 0.00 0.00 0.00 3.27
3617 3930 1.743394 CCGCCCCAAAATAAGTGTCTC 59.257 52.381 0.00 0.00 0.00 3.36
3618 3931 1.353022 TCCGCCCCAAAATAAGTGTCT 59.647 47.619 0.00 0.00 0.00 3.41
3619 3932 1.743394 CTCCGCCCCAAAATAAGTGTC 59.257 52.381 0.00 0.00 0.00 3.67
3620 3933 1.615919 CCTCCGCCCCAAAATAAGTGT 60.616 52.381 0.00 0.00 0.00 3.55
3621 3934 1.102978 CCTCCGCCCCAAAATAAGTG 58.897 55.000 0.00 0.00 0.00 3.16
3622 3935 0.033503 CCCTCCGCCCCAAAATAAGT 60.034 55.000 0.00 0.00 0.00 2.24
3623 3936 0.257616 TCCCTCCGCCCCAAAATAAG 59.742 55.000 0.00 0.00 0.00 1.73
3624 3937 0.257616 CTCCCTCCGCCCCAAAATAA 59.742 55.000 0.00 0.00 0.00 1.40
3625 3938 0.917333 ACTCCCTCCGCCCCAAAATA 60.917 55.000 0.00 0.00 0.00 1.40
3626 3939 0.917333 TACTCCCTCCGCCCCAAAAT 60.917 55.000 0.00 0.00 0.00 1.82
3627 3940 0.917333 ATACTCCCTCCGCCCCAAAA 60.917 55.000 0.00 0.00 0.00 2.44
3628 3941 1.307517 ATACTCCCTCCGCCCCAAA 60.308 57.895 0.00 0.00 0.00 3.28
3629 3942 1.764854 GATACTCCCTCCGCCCCAA 60.765 63.158 0.00 0.00 0.00 4.12
3630 3943 2.122989 GATACTCCCTCCGCCCCA 60.123 66.667 0.00 0.00 0.00 4.96
3631 3944 1.909287 GAGATACTCCCTCCGCCCC 60.909 68.421 0.00 0.00 0.00 5.80
3632 3945 0.543174 ATGAGATACTCCCTCCGCCC 60.543 60.000 0.00 0.00 0.00 6.13
3633 3946 2.096248 CTATGAGATACTCCCTCCGCC 58.904 57.143 0.00 0.00 0.00 6.13
3634 3947 2.096248 CCTATGAGATACTCCCTCCGC 58.904 57.143 0.00 0.00 0.00 5.54
3635 3948 2.621929 CCCCTATGAGATACTCCCTCCG 60.622 59.091 0.00 0.00 0.00 4.63
3636 3949 2.292587 CCCCCTATGAGATACTCCCTCC 60.293 59.091 0.00 0.00 0.00 4.30
3637 3950 2.384029 ACCCCCTATGAGATACTCCCTC 59.616 54.545 0.00 0.00 0.00 4.30
3638 3951 2.384029 GACCCCCTATGAGATACTCCCT 59.616 54.545 0.00 0.00 0.00 4.20
3639 3952 2.560158 GGACCCCCTATGAGATACTCCC 60.560 59.091 0.00 0.00 0.00 4.30
3640 3953 2.384029 AGGACCCCCTATGAGATACTCC 59.616 54.545 0.00 0.00 42.15 3.85
3641 3954 3.335484 AGAGGACCCCCTATGAGATACTC 59.665 52.174 0.00 0.00 44.53 2.59
3642 3955 3.350747 AGAGGACCCCCTATGAGATACT 58.649 50.000 0.00 0.00 44.53 2.12
3643 3956 3.837399 AGAGGACCCCCTATGAGATAC 57.163 52.381 0.00 0.00 44.53 2.24
3644 3957 4.172041 TCAAAGAGGACCCCCTATGAGATA 59.828 45.833 0.00 0.00 44.53 1.98
3645 3958 3.051032 TCAAAGAGGACCCCCTATGAGAT 60.051 47.826 0.00 0.00 44.53 2.75
3654 3967 8.881262 TCTATATAAAGAATCAAAGAGGACCCC 58.119 37.037 0.00 0.00 0.00 4.95
3797 4113 6.084738 ATGGGTGAGTACACAGATACCATAT 58.915 40.000 13.33 1.34 44.87 1.78


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

AutoCloner maintained by Alex Coulton.