Multiple sequence alignment - TraesCS2D01G405400

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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 TraesCS2D01G405400 chr2D 100.000 4020 0 0 1 4020 520528424 520524405 0.000000e+00 7424.0
1 TraesCS2D01G405400 chr2B 91.826 4123 168 61 1 4020 612691130 612687074 0.000000e+00 5590.0
2 TraesCS2D01G405400 chr2A 91.625 4000 147 73 113 4020 665712698 665708795 0.000000e+00 5358.0
3 TraesCS2D01G405400 chr2A 76.947 321 47 15 1633 1933 4115529 4115842 1.500000e-34 158.0
4 TraesCS2D01G405400 chr2A 89.147 129 5 5 1 120 665713067 665712939 6.960000e-33 152.0
5 TraesCS2D01G405400 chr3B 76.832 423 61 22 1532 1930 573475675 573476084 1.890000e-48 204.0
6 TraesCS2D01G405400 chr1A 77.616 344 50 21 1407 1740 478567436 478567762 2.470000e-42 183.0
7 TraesCS2D01G405400 chr1A 76.519 362 49 19 2449 2777 370109460 370109102 8.940000e-37 165.0
8 TraesCS2D01G405400 chr1A 94.175 103 6 0 1430 1532 370110215 370110113 1.500000e-34 158.0
9 TraesCS2D01G405400 chr5D 75.758 462 57 25 1532 1946 292676434 292675981 8.880000e-42 182.0
10 TraesCS2D01G405400 chr6B 89.437 142 13 2 1399 1538 708668041 708667900 1.150000e-40 178.0
11 TraesCS2D01G405400 chr1D 76.923 351 55 21 1407 1740 377973950 377974291 4.130000e-40 176.0
12 TraesCS2D01G405400 chr1D 85.950 121 14 3 2658 2777 297537610 297537492 4.220000e-25 126.0
13 TraesCS2D01G405400 chr6D 91.525 118 10 0 1422 1539 464737252 464737135 3.210000e-36 163.0
14 TraesCS2D01G405400 chr1B 89.922 129 10 3 1407 1534 505626339 505626465 3.210000e-36 163.0
15 TraesCS2D01G405400 chr1B 81.250 208 22 11 1777 1967 599323326 599323533 6.960000e-33 152.0
16 TraesCS2D01G405400 chr1B 84.298 121 16 3 2658 2777 400312915 400312797 9.130000e-22 115.0
17 TraesCS2D01G405400 chr6A 91.228 114 10 0 1422 1535 611314563 611314450 5.380000e-34 156.0
18 TraesCS2D01G405400 chr5B 84.444 135 10 8 1843 1967 586626476 586626343 5.460000e-24 122.0
19 TraesCS2D01G405400 chr7D 90.476 63 2 3 1888 1946 213041799 213041737 3.330000e-11 80.5


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 TraesCS2D01G405400 chr2D 520524405 520528424 4019 True 7424 7424 100.000 1 4020 1 chr2D.!!$R1 4019
1 TraesCS2D01G405400 chr2B 612687074 612691130 4056 True 5590 5590 91.826 1 4020 1 chr2B.!!$R1 4019
2 TraesCS2D01G405400 chr2A 665708795 665713067 4272 True 2755 5358 90.386 1 4020 2 chr2A.!!$R1 4019

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
61 70 1.050204 TTACTTACCACGGCACCAGT 58.950 50.0 0.0 0.0 0.00 4.00 F
1569 1930 0.821711 CGGCCTGTCCTTTTGTGGAA 60.822 55.0 0.0 0.0 37.93 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1608 1984 0.167689 GCAAGCAGAGTAAGCAGCAC 59.832 55.0 0.00 0.00 35.99 4.40 R
3217 3618 0.184451 CTGAGGGACCATGGGAATGG 59.816 60.0 18.09 3.16 46.92 3.16 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
61 70 1.050204 TTACTTACCACGGCACCAGT 58.950 50.000 0.00 0.00 0.00 4.00
195 467 3.557054 CGACTGTTTCCTTCCATGGAGAA 60.557 47.826 15.53 13.18 37.43 2.87
345 637 1.895798 CTTTTTCCTCTCCCCTTTGGC 59.104 52.381 0.00 0.00 0.00 4.52
516 821 2.147958 TGGTTGATTGGTCGTTAGTGC 58.852 47.619 0.00 0.00 0.00 4.40
958 1303 4.341783 GCCCAGAGCTGTGCCTGT 62.342 66.667 5.08 0.00 38.99 4.00
1057 1415 2.046507 AGTCCGACTACGCCGACT 60.047 61.111 0.00 0.00 36.66 4.18
1094 1452 4.899239 CCTCGACCATCAGCGGGC 62.899 72.222 0.00 0.00 0.00 6.13
1346 1707 2.099431 CGCACTTCTCTGCTGCTCC 61.099 63.158 0.00 0.00 34.77 4.70
1348 1709 1.447489 CACTTCTCTGCTGCTCCCG 60.447 63.158 0.00 0.00 0.00 5.14
1380 1741 3.388024 TCCTGTCCATTGTAGGTATGCTC 59.612 47.826 0.00 0.00 33.30 4.26
1551 1912 1.326548 GGTAAGTAATCAAGCACGCCG 59.673 52.381 0.00 0.00 0.00 6.46
1553 1914 1.644786 AAGTAATCAAGCACGCCGGC 61.645 55.000 19.07 19.07 0.00 6.13
1555 1916 3.323758 TAATCAAGCACGCCGGCCT 62.324 57.895 23.46 9.77 0.00 5.19
1564 1925 3.737172 CGCCGGCCTGTCCTTTTG 61.737 66.667 23.46 0.00 0.00 2.44
1569 1930 0.821711 CGGCCTGTCCTTTTGTGGAA 60.822 55.000 0.00 0.00 37.93 3.53
1577 1938 4.457466 TGTCCTTTTGTGGAAGAGGTTAC 58.543 43.478 0.00 0.00 37.93 2.50
1578 1939 4.165372 TGTCCTTTTGTGGAAGAGGTTACT 59.835 41.667 0.00 0.00 37.93 2.24
1582 1943 6.940298 TCCTTTTGTGGAAGAGGTTACTATTG 59.060 38.462 0.00 0.00 32.39 1.90
1587 1948 5.193679 GTGGAAGAGGTTACTATTGCCAAT 58.806 41.667 0.00 0.00 35.67 3.16
1600 1961 3.350219 TTGCCAATAGAACAGAGGACC 57.650 47.619 0.00 0.00 0.00 4.46
1601 1962 1.559682 TGCCAATAGAACAGAGGACCC 59.440 52.381 0.00 0.00 0.00 4.46
1602 1963 1.840635 GCCAATAGAACAGAGGACCCT 59.159 52.381 0.00 0.00 0.00 4.34
1603 1964 2.420687 GCCAATAGAACAGAGGACCCTG 60.421 54.545 8.07 8.07 39.93 4.45
1608 1984 1.905215 AGAACAGAGGACCCTGACATG 59.095 52.381 14.71 0.00 37.59 3.21
1609 1985 1.625818 GAACAGAGGACCCTGACATGT 59.374 52.381 14.71 0.00 37.59 3.21
1617 1993 0.692476 ACCCTGACATGTGCTGCTTA 59.308 50.000 1.15 0.00 0.00 3.09
1625 2001 2.082231 CATGTGCTGCTTACTCTGCTT 58.918 47.619 0.00 0.00 32.95 3.91
1640 2016 1.299089 GCTTGCAGCGACCGTTTTT 60.299 52.632 0.00 0.00 0.00 1.94
1685 2061 1.079057 GCCGGTGGAGAAGAAGTCC 60.079 63.158 1.90 0.00 34.31 3.85
1772 2148 3.771160 GACATCCTGCCCGACGGT 61.771 66.667 13.94 0.00 0.00 4.83
1829 2205 3.427503 CCATGGCTTCGAAACATACAACC 60.428 47.826 12.91 0.58 0.00 3.77
1857 2240 3.057033 GTCACTGGCAAAGCATCTGAAAT 60.057 43.478 0.00 0.00 0.00 2.17
2306 2692 1.372251 CGCCGAGATCAAGATCCCG 60.372 63.158 6.96 6.96 38.53 5.14
2372 2764 0.898326 AAACCTCCCGCCATGAAACC 60.898 55.000 0.00 0.00 0.00 3.27
2425 2817 0.595095 CTCTGACAAAGGTTGCTGGC 59.405 55.000 0.00 0.00 0.00 4.85
2435 2827 1.668793 GTTGCTGGCACCCAAATGC 60.669 57.895 0.00 0.00 45.34 3.56
2532 2924 1.145819 GCTGGACTGCCTGGAGATC 59.854 63.158 0.00 0.00 33.99 2.75
2779 3171 0.884704 ACAGCACAACAAGGTAGGCG 60.885 55.000 0.00 0.00 0.00 5.52
2815 3207 2.912025 CCACACCAAAGCCGCCTT 60.912 61.111 0.00 0.00 0.00 4.35
2824 3216 2.075426 AAAGCCGCCTTCAACTGCAC 62.075 55.000 0.00 0.00 0.00 4.57
2829 3221 1.529244 GCCTTCAACTGCACCCACT 60.529 57.895 0.00 0.00 0.00 4.00
2830 3222 1.799258 GCCTTCAACTGCACCCACTG 61.799 60.000 0.00 0.00 0.00 3.66
2834 3226 0.836606 TCAACTGCACCCACTGAAGA 59.163 50.000 0.00 0.00 0.00 2.87
2845 3237 4.331168 CACCCACTGAAGATTTTCGATCTC 59.669 45.833 0.00 0.00 36.04 2.75
2887 3282 7.175293 TGTGAATTTGTGATGTGATGAATCTGA 59.825 33.333 0.00 0.00 0.00 3.27
2889 3284 8.745590 TGAATTTGTGATGTGATGAATCTGATT 58.254 29.630 1.81 1.81 0.00 2.57
2890 3285 8.926715 AATTTGTGATGTGATGAATCTGATTG 57.073 30.769 7.78 0.00 0.00 2.67
2908 3303 2.546494 GCTTGTGCTGCAGGACGTT 61.546 57.895 29.82 0.00 39.39 3.99
3017 3412 1.440938 CGAGTCGGCGAGGAAGATCT 61.441 60.000 11.20 0.65 0.00 2.75
3018 3413 0.030101 GAGTCGGCGAGGAAGATCTG 59.970 60.000 11.20 0.00 0.00 2.90
3019 3414 0.394488 AGTCGGCGAGGAAGATCTGA 60.394 55.000 11.20 0.00 0.00 3.27
3059 3460 2.608988 CTGCCTGGACCTGGACCT 60.609 66.667 21.06 0.00 0.00 3.85
3060 3461 2.930019 TGCCTGGACCTGGACCTG 60.930 66.667 21.06 14.74 0.00 4.00
3061 3462 3.721706 GCCTGGACCTGGACCTGG 61.722 72.222 28.13 28.13 45.33 4.45
3062 3463 2.122729 CCTGGACCTGGACCTGGA 59.877 66.667 28.41 4.64 45.37 3.86
3063 3464 2.294078 CCTGGACCTGGACCTGGAC 61.294 68.421 28.41 16.79 45.37 4.02
3064 3465 2.203938 TGGACCTGGACCTGGACC 60.204 66.667 25.42 25.42 37.66 4.46
3080 3481 2.103941 TGGACCAGAAAACCAAAATGCC 59.896 45.455 0.00 0.00 0.00 4.40
3137 3538 6.156748 TGCCATAACATGTAGTGGTAGTAG 57.843 41.667 23.08 5.11 32.45 2.57
3138 3539 5.659525 TGCCATAACATGTAGTGGTAGTAGT 59.340 40.000 23.08 0.00 32.45 2.73
3139 3540 6.834969 TGCCATAACATGTAGTGGTAGTAGTA 59.165 38.462 23.08 0.68 32.45 1.82
3154 3555 8.693625 GTGGTAGTAGTACACTAATGGAAGATT 58.306 37.037 9.89 0.00 41.45 2.40
3181 3582 0.382515 GAGCACAGTAGGCTACTCCG 59.617 60.000 23.95 17.82 42.78 4.63
3182 3583 1.038130 AGCACAGTAGGCTACTCCGG 61.038 60.000 23.95 15.45 40.47 5.14
3183 3584 1.437986 CACAGTAGGCTACTCCGGC 59.562 63.158 23.95 0.00 40.77 6.13
3213 3614 1.035139 CCATGCTTGGGGCTACATTC 58.965 55.000 10.81 0.00 39.56 2.67
3214 3615 1.685803 CCATGCTTGGGGCTACATTCA 60.686 52.381 10.81 0.00 39.56 2.57
3215 3616 2.313317 CATGCTTGGGGCTACATTCAT 58.687 47.619 0.00 0.00 42.39 2.57
3216 3617 2.530460 TGCTTGGGGCTACATTCATT 57.470 45.000 0.00 0.00 42.39 2.57
3217 3618 2.378038 TGCTTGGGGCTACATTCATTC 58.622 47.619 0.00 0.00 42.39 2.67
3247 3653 1.180029 GTCCCTCAGTTGCATTGCAT 58.820 50.000 12.95 0.00 38.76 3.96
3248 3654 1.547372 GTCCCTCAGTTGCATTGCATT 59.453 47.619 12.95 1.06 38.76 3.56
3257 3663 5.296035 TCAGTTGCATTGCATTCTCTCTATG 59.704 40.000 12.95 3.16 38.76 2.23
3269 3675 6.147492 GCATTCTCTCTATGATGACAATGGAC 59.853 42.308 0.00 0.00 0.00 4.02
3308 3714 5.895636 TCACTTGTCACTTGTGAATGTTT 57.104 34.783 4.93 0.00 37.71 2.83
3331 3743 0.932955 TTGTATGGATGGGCATGGGT 59.067 50.000 0.00 0.00 0.00 4.51
3439 3854 7.106239 TGAGGGAAATTATTCTTCAGACAGTC 58.894 38.462 0.00 0.00 35.79 3.51
3471 3886 7.857456 ACAATCTATACACACCCAAACTCATA 58.143 34.615 0.00 0.00 0.00 2.15
3502 3917 3.942748 TCTCACACCTTTACAACCAACAC 59.057 43.478 0.00 0.00 0.00 3.32
3506 3921 3.383185 ACACCTTTACAACCAACACCATG 59.617 43.478 0.00 0.00 0.00 3.66
3517 3932 3.117888 ACCAACACCATGAAGTGAGAAGT 60.118 43.478 8.84 0.00 40.34 3.01
3583 3998 7.715265 ATTCAGGATTATACAACTAACAGCG 57.285 36.000 0.00 0.00 0.00 5.18
3610 4027 6.866248 CGGGCTGTGAAATAAAACTGTTATTT 59.134 34.615 4.22 4.22 37.31 1.40
3622 4039 1.949525 CTGTTATTTGCTCCATCCGGG 59.050 52.381 0.00 0.00 38.37 5.73
3929 4352 2.926200 CTCCAGTAAGTCGTCAAGCATG 59.074 50.000 0.00 0.00 0.00 4.06
3953 4376 1.073603 TCCCACACATCAATGACAGCA 59.926 47.619 0.00 0.00 0.00 4.41
3997 4420 0.324943 ATCCACGGTCCACTTTCCAG 59.675 55.000 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 70 7.972832 CGCTCTAATCTAATCTAATCATCTGCA 59.027 37.037 0.00 0.00 0.00 4.41
195 467 2.579410 ATTTTACCTTGCACCCTCGT 57.421 45.000 0.00 0.00 0.00 4.18
330 622 3.009115 CGGCCAAAGGGGAGAGGA 61.009 66.667 2.24 0.00 40.01 3.71
475 769 2.638325 TCATGGTCTGTCCCCCTTAAA 58.362 47.619 0.00 0.00 34.77 1.52
478 782 0.921896 CATCATGGTCTGTCCCCCTT 59.078 55.000 0.00 0.00 34.77 3.95
516 821 0.039527 GCCCCACAACTTGCTTAACG 60.040 55.000 0.00 0.00 0.00 3.18
958 1303 1.731613 CGACCGCTTAGTTCACGCA 60.732 57.895 0.00 0.00 0.00 5.24
1072 1430 2.187946 CTGATGGTCGAGGGGCAC 59.812 66.667 0.00 0.00 0.00 5.01
1107 1465 4.814294 CGGCGGAGGTTTAGCGCT 62.814 66.667 17.26 17.26 0.00 5.92
1346 1707 1.376037 GACAGGAGCCAAGAACCGG 60.376 63.158 0.00 0.00 0.00 5.28
1348 1709 0.329596 ATGGACAGGAGCCAAGAACC 59.670 55.000 0.00 0.00 39.21 3.62
1380 1741 1.522676 CCACGAGTACATTAGCGCATG 59.477 52.381 11.47 8.36 0.00 4.06
1551 1912 0.961753 CTTCCACAAAAGGACAGGCC 59.038 55.000 0.00 0.00 37.42 5.19
1553 1914 2.158608 ACCTCTTCCACAAAAGGACAGG 60.159 50.000 0.00 0.00 41.15 4.00
1555 1916 3.662759 AACCTCTTCCACAAAAGGACA 57.337 42.857 0.00 0.00 37.42 4.02
1556 1917 4.715713 AGTAACCTCTTCCACAAAAGGAC 58.284 43.478 0.00 0.00 37.42 3.85
1558 1919 6.349363 GCAATAGTAACCTCTTCCACAAAAGG 60.349 42.308 0.00 0.00 34.94 3.11
1562 1923 4.042311 TGGCAATAGTAACCTCTTCCACAA 59.958 41.667 0.00 0.00 0.00 3.33
1564 1925 4.216411 TGGCAATAGTAACCTCTTCCAC 57.784 45.455 0.00 0.00 0.00 4.02
1569 1930 7.125811 TCTGTTCTATTGGCAATAGTAACCTCT 59.874 37.037 34.42 7.40 41.29 3.69
1577 1938 5.059833 GGTCCTCTGTTCTATTGGCAATAG 58.940 45.833 32.09 32.09 41.77 1.73
1578 1939 4.141482 GGGTCCTCTGTTCTATTGGCAATA 60.141 45.833 18.33 18.33 0.00 1.90
1582 1943 1.840635 AGGGTCCTCTGTTCTATTGGC 59.159 52.381 0.00 0.00 0.00 4.52
1587 1948 2.992847 TGTCAGGGTCCTCTGTTCTA 57.007 50.000 7.11 0.00 36.25 2.10
1600 1961 2.005451 GAGTAAGCAGCACATGTCAGG 58.995 52.381 0.00 0.00 0.00 3.86
1601 1962 2.671888 CAGAGTAAGCAGCACATGTCAG 59.328 50.000 0.00 0.00 0.00 3.51
1602 1963 2.691927 CAGAGTAAGCAGCACATGTCA 58.308 47.619 0.00 0.00 0.00 3.58
1603 1964 1.396301 GCAGAGTAAGCAGCACATGTC 59.604 52.381 0.00 0.00 0.00 3.06
1608 1984 0.167689 GCAAGCAGAGTAAGCAGCAC 59.832 55.000 0.00 0.00 35.99 4.40
1609 1985 0.250424 TGCAAGCAGAGTAAGCAGCA 60.250 50.000 0.00 0.00 40.98 4.41
1625 2001 2.718731 CCAAAAACGGTCGCTGCA 59.281 55.556 0.00 0.00 0.00 4.41
1664 2040 1.078848 CTTCTTCTCCACCGGCAGG 60.079 63.158 0.00 3.71 45.13 4.85
1685 2061 4.552365 ATCTCCCGCCGCCACATG 62.552 66.667 0.00 0.00 0.00 3.21
1791 2167 2.355756 CCATGGTGGTGATGTTTCGATC 59.644 50.000 2.57 0.00 31.35 3.69
1829 2205 0.524862 GCTTTGCCAGTGACATGGAG 59.475 55.000 0.00 0.00 43.57 3.86
1857 2240 5.125356 CCTGACACAACCAGAATGCATATA 58.875 41.667 0.00 0.00 33.65 0.86
2306 2692 1.511464 CGTCTGCGTGTACGACTCC 60.511 63.158 8.82 0.00 41.55 3.85
2342 2728 1.301293 GGAGGTTTGAGGAGGCTGG 59.699 63.158 0.00 0.00 0.00 4.85
2425 2817 2.431260 GCACTGCGCATTTGGGTG 60.431 61.111 19.16 19.16 41.79 4.61
2466 2858 2.109181 GACATGCCCCGGTAGAGC 59.891 66.667 0.00 0.00 0.00 4.09
2467 2859 1.956629 AACGACATGCCCCGGTAGAG 61.957 60.000 0.00 0.00 0.00 2.43
2815 3207 0.836606 TCTTCAGTGGGTGCAGTTGA 59.163 50.000 0.00 0.00 0.00 3.18
2824 3216 4.507710 TGAGATCGAAAATCTTCAGTGGG 58.492 43.478 0.00 0.00 0.00 4.61
2829 3221 5.814188 CCTGTGATGAGATCGAAAATCTTCA 59.186 40.000 0.00 0.00 0.00 3.02
2830 3222 5.277250 GCCTGTGATGAGATCGAAAATCTTC 60.277 44.000 0.00 0.00 0.00 2.87
2834 3226 4.148128 AGCCTGTGATGAGATCGAAAAT 57.852 40.909 0.00 0.00 0.00 1.82
2845 3237 4.508461 TTCACAATTCAAGCCTGTGATG 57.492 40.909 5.07 0.00 46.45 3.07
2867 3259 6.152154 AGCAATCAGATTCATCACATCACAAA 59.848 34.615 0.00 0.00 0.00 2.83
2887 3282 1.859427 CGTCCTGCAGCACAAGCAAT 61.859 55.000 8.83 0.00 45.49 3.56
2889 3284 2.974148 CGTCCTGCAGCACAAGCA 60.974 61.111 8.83 0.00 45.49 3.91
2890 3285 2.546494 AACGTCCTGCAGCACAAGC 61.546 57.895 8.83 0.00 42.56 4.01
3059 3460 2.103941 GGCATTTTGGTTTTCTGGTCCA 59.896 45.455 0.00 0.00 0.00 4.02
3060 3461 2.766313 GGCATTTTGGTTTTCTGGTCC 58.234 47.619 0.00 0.00 0.00 4.46
3061 3462 2.403259 CGGCATTTTGGTTTTCTGGTC 58.597 47.619 0.00 0.00 0.00 4.02
3062 3463 1.069978 CCGGCATTTTGGTTTTCTGGT 59.930 47.619 0.00 0.00 0.00 4.00
3063 3464 1.069978 ACCGGCATTTTGGTTTTCTGG 59.930 47.619 0.00 0.00 33.81 3.86
3064 3465 2.403259 GACCGGCATTTTGGTTTTCTG 58.597 47.619 0.00 0.00 38.99 3.02
3137 3538 4.635765 TGCTGCAATCTTCCATTAGTGTAC 59.364 41.667 0.00 0.00 0.00 2.90
3138 3539 4.842574 TGCTGCAATCTTCCATTAGTGTA 58.157 39.130 0.00 0.00 0.00 2.90
3139 3540 3.689347 TGCTGCAATCTTCCATTAGTGT 58.311 40.909 0.00 0.00 0.00 3.55
3154 3555 0.392060 CCTACTGTGCTCATGCTGCA 60.392 55.000 4.13 4.13 40.48 4.41
3181 3582 4.730487 CATGGCTATGCTAGGGCC 57.270 61.111 0.00 0.00 45.45 5.80
3213 3614 1.218704 AGGGACCATGGGAATGGAATG 59.781 52.381 18.09 0.00 44.39 2.67
3214 3615 1.500736 GAGGGACCATGGGAATGGAAT 59.499 52.381 18.09 0.00 44.39 3.01
3215 3616 0.926293 GAGGGACCATGGGAATGGAA 59.074 55.000 18.09 0.00 44.39 3.53
3216 3617 0.253583 TGAGGGACCATGGGAATGGA 60.254 55.000 18.09 0.00 44.39 3.41
3217 3618 0.184451 CTGAGGGACCATGGGAATGG 59.816 60.000 18.09 3.16 46.92 3.16
3247 3653 5.737349 GCGTCCATTGTCATCATAGAGAGAA 60.737 44.000 0.00 0.00 0.00 2.87
3248 3654 4.261783 GCGTCCATTGTCATCATAGAGAGA 60.262 45.833 0.00 0.00 0.00 3.10
3257 3663 2.083774 TCTTTGGCGTCCATTGTCATC 58.916 47.619 0.00 0.00 31.53 2.92
3269 3675 4.111375 AGTGATACTGTACTCTTTGGCG 57.889 45.455 0.00 0.00 0.00 5.69
3308 3714 2.107031 CCATGCCCATCCATACAAGAGA 59.893 50.000 0.00 0.00 0.00 3.10
3331 3743 2.170397 TGTCAGTTGCCAACTTGAGAGA 59.830 45.455 7.51 0.00 40.46 3.10
3439 3854 4.881850 GGGTGTGTATAGATTGTTCCCTTG 59.118 45.833 0.00 0.00 0.00 3.61
3471 3886 7.393515 GGTTGTAAAGGTGTGAGAATAGGAAAT 59.606 37.037 0.00 0.00 0.00 2.17
3495 3910 3.117888 ACTTCTCACTTCATGGTGTTGGT 60.118 43.478 0.00 0.00 38.28 3.67
3502 3917 7.414540 GGTTATGCTTTACTTCTCACTTCATGG 60.415 40.741 0.00 0.00 0.00 3.66
3506 3921 7.435068 TTGGTTATGCTTTACTTCTCACTTC 57.565 36.000 0.00 0.00 0.00 3.01
3517 3932 8.519526 CACTAGGAATTGTTTGGTTATGCTTTA 58.480 33.333 0.00 0.00 0.00 1.85
3583 3998 1.544246 AGTTTTATTTCACAGCCCGGC 59.456 47.619 0.00 0.00 0.00 6.13
3597 4014 5.124776 CCGGATGGAGCAAATAACAGTTTTA 59.875 40.000 0.00 0.00 37.49 1.52
3610 4027 1.227102 CCATTTCCCGGATGGAGCA 59.773 57.895 14.17 0.00 46.24 4.26
3810 4231 0.953003 CTTTTGGCCGTACGGGAAAA 59.047 50.000 33.98 16.26 38.47 2.29
3811 4232 0.890090 CCTTTTGGCCGTACGGGAAA 60.890 55.000 33.98 10.61 38.47 3.13
3929 4352 1.406539 GTCATTGATGTGTGGGATGGC 59.593 52.381 0.00 0.00 0.00 4.40
3953 4376 2.133553 CTTCGATGCGATGCTGAAGAT 58.866 47.619 11.06 0.00 36.17 2.40
3997 4420 0.108585 TGAGGTGGTGCTGAAAGACC 59.891 55.000 0.00 0.00 34.07 3.85


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

AutoCloner maintained by Alex Coulton.